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Apartheid's Legacy to Black Children.

ERIC Educational Resources Information Center

Murphy, Jerome T.

1992-01-01

Segregated and unequal education, the main instrument for sorting children into their color-coded societal niches, is deeply embedded in South Africa. Despite obstacles such as inadequate funding, a tough, Eurocentric curriculum, and a bewildering school management bureaucracy nearing collapse, South Africa's general prosperity and political…

Complex life cycles in a pond food web: effects of life stage structure and parasites on network properties, trophic positions and the fit of a probabilistic niche model.

PubMed

Preston, Daniel L; Jacobs, Abigail Z; Orlofske, Sarah A; Johnson, Pieter T J

2014-03-01

Most food webs use taxonomic or trophic species as building blocks, thereby collapsing variability in feeding linkages that occurs during the growth and development of individuals. This issue is particularly relevant to integrating parasites into food webs because parasites often undergo extreme ontogenetic niche shifts. Here, we used three versions of a freshwater pond food web with varying levels of node resolution (from taxonomic species to life stages) to examine how complex life cycles and parasites alter web properties, the perceived trophic position of organisms, and the fit of a probabilistic niche model. Consistent with prior studies, parasites increased most measures of web complexity in the taxonomic species web; however, when nodes were disaggregated into life stages, the effects of parasites on several network properties (e.g., connectance and nestedness) were reversed, due in part to the lower trophic generality of parasite life stages relative to free-living life stages. Disaggregation also reduced the trophic level of organisms with either complex or direct life cycles and was particularly useful when including predation on parasites, which can inflate trophic positions when life stages are collapsed. Contrary to predictions, disaggregation decreased network intervality and did not enhance the fit of a probabilistic niche model to the food webs with parasites. Although the most useful level of biological organization in food webs will vary with the questions of interest, our results suggest that disaggregating species-level nodes may refine our perception of how parasites and other complex life cycle organisms influence ecological networks.

[Allelopathic effects of Artemisia sacrorum population in typical steppe based on niche theory].

PubMed

Wang, Hui; Xie, Yong-Sheng; Cheng, Ji-Min; She, Xiao-Yan

2012-03-01

By using modified Levins niche width index and Pianka niche overlap index, this paper analyzed the ecological competition between constructive and dominant species in a typical steppe. The stem- and leaf extracts from the constructive species (Artemisia sacrorum) were utilized to study their allelopathic potential on the seed germination and plant growth of the dominant species (Stipa bungeana, Thymus mongolicus, S. grandis, and Leymus secalinus), and the ecological position of A. sacrorum in the steppe succession. In the steppe, S. bungeana had the widest niche width (0.99), followed by T. mongolicus (0.94), A. sacrorum (0.82), S. grandis (0.76), and L. secalinus (0.73). The niche overlap value between A. sacrorum and S. bungeana, S. bungeana and T. mongolicus, T. mongolicus and S. grandis, and A. sacrorum and T. mongolicus was 0.90, 0.95, 0.94, and 0.86, respectively. The allelopathic effects of A. sacrorum extracts varied with their concentration. For the seed germination, root growth, and shoot growth of the dominant species, A. sacrorum extracts showed a trend of promoting at low concentrations and inhibiting at high concentrations. The extracts of A. sacrorum had a stronger promotion effect on the root growth of S. bungeana than on that of T. mongolicus, but a stronger inhibition effect on the shoot growth of T. mongolicus than on that of S. bungeana. Methanol extracts had stronger allelopathic effects than aqueous extracts. The high niche overlap between A. sacrorum and S. bungeana, and T. mongolicus and S. grandis indicated that the steppe community would continue succession to S. bungeana, while A. sacrorum population was only an important transitional stage during the succession. The allelopathic effect of A. sacrorum played a driving role in the succession process.

Intraspecific competition reduces niche width in experimental populations

PubMed Central

Parent, Christine E; Agashe, Deepa; Bolnick, Daniel I

2014-01-01

Intraspecific competition is believed to drive niche expansion, because otherwise suboptimal resources can provide a refuge from competition for preferred resources. Competitive niche expansion is well supported by empirical observations, experiments, and theory, and is often invoked to explain phenotypic diversification within populations, some forms of speciation, and adaptive radiation. However, some foraging models predict the opposite outcome, and it therefore remains unclear whether competition will promote or inhibit niche expansion. We conducted experiments to test whether competition changes the fitness landscape to favor niche expansion, and if competition indeed drives niche expansion as expected. Using Tribolium castaneum flour beetles fed either wheat (their ancestral resource), corn (a novel resource) or mixtures of both resources, we show that fitness is maximized on a mixed diet. Next, we show that at higher population density, the optimal diet shifts toward greater use of corn, favoring niche expansion. In stark contrast, when beetles were given a choice of resources, we found that competition caused niche contraction onto the ancestral resource. This presents a puzzling mismatch between how competition alters the fitness landscape, versus competition's effects on resource use. We discuss several explanations for this mismatch, highlighting potential reasons why optimality models might be misleading. PMID:25505525

Evolutionary dynamics of ecological niche in three Rhinogobio fishes from the upper Yangtze River inferred from morphological traits

PubMed Central

Wang, Meirong; Liu, Fei; Lin, Pengcheng; Yang, Shaorong; Liu, Huanzhang

2015-01-01

In the past decades, it has been debated whether ecological niche should be conserved among closely related species (phylogenetic niche conservatism, PNC) or largely divergent (traditional ecological niche theory and ecological speciation) and whether niche specialist and generalist might remain in equilibrium or niche generalist could not appear. In this study, we employed morphological traits to describe ecological niche and test whether different niche dimensions exhibit disparate evolutionary patterns. We conducted our analysis on three Rhinogobio fish species (R. typus,R. cylindricus, and R. ventralis) from the upper Yangtze River, China. Among the 32 measured morphological traits except body length, PCA extracted the first four principal components with their loading scores >1.000. To find the PNC among species, Mantel tests were conducted with the Euclidean distances calculated from the four principal components (representing different niche dimensions) against the pairwise distances calculated from mitochondrial cytochrome b sequence variations. The results showed that the second and the third niche dimension, both related to swimming ability and behavior, exhibited phylogenetic conservatism. Further comparison on niche breadth among these three species revealed that the fourth dimension of R. typus showed the greatest width, indicating that this dimension exhibited niche generalism. In conclusion, our results suggested that different niche dimensions could show different evolutionary dynamic patterns: they may exhibit PNC or not, and some dimensions may evolve generalism. PMID:25691981

Intraspecific competition favours niche width expansion in Drosophila melanogaster.

PubMed

Bolnick, D I

2001-03-22

Ecologists have proposed that when interspecific competition is reduced, competition within a species becomes a potent evolutionary force leading to rapid diversification. This view reflects the observation that populations invading species-poor communities frequently evolve broader niches. Niche expansion can be associated with an increase in phenotypic variance (known as character release), with the evolution of polymorphisms, or with divergence into many species using distinct resources (adaptive radiation). The relationship between intraspecific competition and diversification is known from theory, and has been used as the foundation for some models of speciation. However, there has been little empirical proof that niches evolve in response to intraspecific competition. To test this hypothesis, I introduced cadmium-intolerant Drosophila melanogaster populations to environments containing both cadmium-free and cadmium-laced resources. Here I show that populations experiencing high competition adapted to cadmium more rapidly than low competition populations. This provides experimental confirmation that competition in a population can drive niche expansion onto new resources for which competition is less severe.

The marine side of a terrestrial carnivore: intra-population variation in use of allochthonous resources by arctic foxes.

PubMed

Tarroux, Arnaud; Bêty, Joël; Gauthier, Gilles; Berteaux, Dominique

2012-01-01

Inter-individual variation in diet within generalist animal populations is thought to be a widespread phenomenon but its potential causes are poorly known. Inter-individual variation can be amplified by the availability and use of allochthonous resources, i.e., resources coming from spatially distinct ecosystems. Using a wild population of arctic fox as a study model, we tested hypotheses that could explain variation in both population and individual isotopic niches, used here as proxy for the trophic niche. The arctic fox is an opportunistic forager, dwelling in terrestrial and marine environments characterized by strong spatial (arctic-nesting birds) and temporal (cyclic lemmings) fluctuations in resource abundance. First, we tested the hypothesis that generalist foraging habits, in association with temporal variation in prey accessibility, should induce temporal changes in isotopic niche width and diet. Second, we investigated whether within-population variation in the isotopic niche could be explained by individual characteristics (sex and breeding status) and environmental factors (spatiotemporal variation in prey availability). We addressed these questions using isotopic analysis and bayesian mixing models in conjunction with linear mixed-effects models. We found that: i) arctic fox populations can simultaneously undergo short-term (i.e., within a few months) reduction in both isotopic niche width and inter-individual variability in isotopic ratios, ii) individual isotopic ratios were higher and more representative of a marine-based diet for non-breeding than breeding foxes early in spring, and iii) lemming population cycles did not appear to directly influence the diet of individual foxes after taking their breeding status into account. However, lemming abundance was correlated to proportion of breeding foxes, and could thus indirectly affect the diet at the population scale.

The Marine Side of a Terrestrial Carnivore: Intra-Population Variation in Use of Allochthonous Resources by Arctic Foxes

PubMed Central

Tarroux, Arnaud; Bêty, Joël; Gauthier, Gilles; Berteaux, Dominique

2012-01-01

Inter-individual variation in diet within generalist animal populations is thought to be a widespread phenomenon but its potential causes are poorly known. Inter-individual variation can be amplified by the availability and use of allochthonous resources, i.e., resources coming from spatially distinct ecosystems. Using a wild population of arctic fox as a study model, we tested hypotheses that could explain variation in both population and individual isotopic niches, used here as proxy for the trophic niche. The arctic fox is an opportunistic forager, dwelling in terrestrial and marine environments characterized by strong spatial (arctic-nesting birds) and temporal (cyclic lemmings) fluctuations in resource abundance. First, we tested the hypothesis that generalist foraging habits, in association with temporal variation in prey accessibility, should induce temporal changes in isotopic niche width and diet. Second, we investigated whether within-population variation in the isotopic niche could be explained by individual characteristics (sex and breeding status) and environmental factors (spatiotemporal variation in prey availability). We addressed these questions using isotopic analysis and Bayesian mixing models in conjunction with linear mixed-effects models. We found that: i) arctic fox populations can simultaneously undergo short-term (i.e., within a few months) reduction in both isotopic niche width and inter-individual variability in isotopic ratios, ii) individual isotopic ratios were higher and more representative of a marine-based diet for non-breeding than breeding foxes early in spring, and iii) lemming population cycles did not appear to directly influence the diet of individual foxes after taking their breeding status into account. However, lemming abundance was correlated to proportion of breeding foxes, and could thus indirectly affect the diet at the population scale. PMID:22900021

NICHE: Non-Imaging Cherenkov Light Observation at the TA Site

NASA Astrophysics Data System (ADS)

Tsunesada, Yoshiki; Omura, Yugo; Shin, BokKyun; Bergman, Douglas R.; Krizmanic, John F.; Nonaka, Toshiyuki

The Non-Imaging CHErenkov Array (NICHE) is a low energy extension to the Telescope Array and TALE using an array of closely spaced (70-100 m) light collectors covering an area of up to a square km. The target is cosmic rays with energies above the knee, including the "transition region" above which Galactic cosmic rays are no more confined by the galactic magnetic field. It will be deployed in the field of view of TALE and will overlap it in energy range. TALE can observe events in the energy range 3-30 PeV by non-imaging air-Cherenkov, so NICHE and TALE will observe imaging/non-imaging Cherenkov hybrid events. NICHE itself will use both the Cherenkov lateral distribution and the Cherenkov time-width lateral distribution in measuring air showers. These two methods will allow shower energy and Xmax to be determined to infer primary types of cosmic nuclei. A prototype of the array with 15 counters, called j-NICHE, is currently being built. We describe the design of the experiment and the status of the detector development.

The thermal niche of Neotropical nectar-feeding bats: Its evolution and application to predict responses to global warming.

PubMed

Ortega-García, Stephanie; Guevara, Lázaro; Arroyo-Cabrales, Joaquín; Lindig-Cisneros, Roberto; Martínez-Meyer, Enrique; Vega, Ernesto; Schondube, Jorge E

2017-09-01

The thermal niche of a species is one of the main determinants of its ecology and biogeography. In this study, we determined the thermal niche of 23 species of Neotropical nectar-feeding bats of the subfamily Glossophaginae (Chiroptera, Phyllostomidae). We calculated their thermal niches using temperature data obtained from collection records, by generating a distribution curve of the maximum and minimum temperatures per locality, and using the inflection points of the temperature distributions to estimate the species optimal (STZ) and suboptimal (SRZ) zones of the thermal niche. Additionally, by mapping the values of the STZ and SRZ on a phylogeny of the group, we generated a hypothesis of the evolution of the thermal niches of this clade of nectar-feeding bats. Finally, we used the characteristics of their thermal niches to predict the responses of these organisms to climate change. We found a large variation in the width and limits of the thermal niches of nectar-feeding bats. Additionally, while the upper limits of the thermal niches varied little among species, their lower limits differ wildly. The ancestral reconstruction of the thermal niche indicated that this group of Neotropical bats evolved under cooler temperatures. The two clades inside the Glossophaginae differ in the evolution of their thermal niches, with most members of the clade Choeronycterines evolving "colder" thermal niches, while the majority of the species in the clade Glossophagines evolving "warmer" thermal niches. By comparing thermal niches with climate change models, we found that all species could be affected by an increase of 1°C in temperature at the end of this century. This suggests that even nocturnal species could suffer important physiological costs from global warming. Our study highlights the value of scientific collections to obtain ecologically significant physiological data for a large number of species.

Critical width of tidal flats triggers marsh collapse in the absence of sea-level rise

PubMed Central

Mariotti, Giulio; Fagherazzi, Sergio

2013-01-01

High rates of wave-induced erosion along salt marsh boundaries challenge the idea that marsh survival is dictated by the competition between vertical sediment accretion and relative sea-level rise. Because waves pounding marshes are often locally generated in enclosed basins, the depth and width of surrounding tidal flats have a pivoting control on marsh erosion. Here, we show the existence of a threshold width for tidal flats bordering salt marshes. Once this threshold is exceeded, irreversible marsh erosion takes place even in the absence of sea-level rise. This catastrophic collapse occurs because of the positive feedbacks among tidal flat widening by wave-induced marsh erosion, tidal flat deepening driven by wave bed shear stress, and local wind wave generation. The threshold width is determined by analyzing the 50-y evolution of 54 marsh basins along the US Atlantic Coast. The presence of a critical basin width is predicted by a dynamic model that accounts for both horizontal marsh migration and vertical adjustment of marshes and tidal flats. Variability in sediment supply, rather than in relative sea-level rise or wind regime, explains the different critical width, and hence erosion vulnerability, found at different sites. We conclude that sediment starvation of coastlines produced by river dredging and damming is a major anthropogenic driver of marsh loss at the study sites and generates effects at least comparable to the accelerating sea-level rise due to global warming. PMID:23513219

Critical width of tidal flats triggers marsh collapse in the absence of sea-level rise.

PubMed

Mariotti, Giulio; Fagherazzi, Sergio

2013-04-02

High rates of wave-induced erosion along salt marsh boundaries challenge the idea that marsh survival is dictated by the competition between vertical sediment accretion and relative sea-level rise. Because waves pounding marshes are often locally generated in enclosed basins, the depth and width of surrounding tidal flats have a pivoting control on marsh erosion. Here, we show the existence of a threshold width for tidal flats bordering salt marshes. Once this threshold is exceeded, irreversible marsh erosion takes place even in the absence of sea-level rise. This catastrophic collapse occurs because of the positive feedbacks among tidal flat widening by wave-induced marsh erosion, tidal flat deepening driven by wave bed shear stress, and local wind wave generation. The threshold width is determined by analyzing the 50-y evolution of 54 marsh basins along the US Atlantic Coast. The presence of a critical basin width is predicted by a dynamic model that accounts for both horizontal marsh migration and vertical adjustment of marshes and tidal flats. Variability in sediment supply, rather than in relative sea-level rise or wind regime, explains the different critical width, and hence erosion vulnerability, found at different sites. We conclude that sediment starvation of coastlines produced by river dredging and damming is a major anthropogenic driver of marsh loss at the study sites and generates effects at least comparable to the accelerating sea-level rise due to global warming.

Assessing niche width of endothermic fish from genes to ecosystem

PubMed Central

Madigan, Daniel J.; Carlisle, Aaron B.; Gardner, Luke D.; Jayasundara, Nishad; Micheli, Fiorenza; Schaefer, Kurt M.; Fuller, Daniel W.; Block, Barbara A.

2015-01-01

Endothermy in vertebrates has been postulated to confer physiological and ecological advantages. In endothermic fish, niche expansion into cooler waters is correlated with specific physiological traits and is hypothesized to lead to greater foraging success and increased fitness. Using the seasonal co-occurrence of three tuna species in the eastern Pacific Ocean as a model system, we used cardiac gene expression data (as a proxy for thermal tolerance to low temperatures), archival tag data, and diet analyses to examine the vertical niche expansion hypothesis for endothermy in situ. Yellowfin, albacore, and Pacific bluefin tuna (PBFT) in the California Current system used more surface, mesopelagic, and deep waters, respectively. Expression of cardiac genes for calcium cycling increased in PBFT and coincided with broader vertical and thermal niche utilization. However, the PBFT diet was less diverse and focused on energy-rich forage fishes but did not show the greatest energy gains. Ecosystem-based management strategies for tunas should thus consider species-specific differences in physiology and foraging specialization. PMID:26100889

Niche construction on Bali: the gods of the countryside

PubMed Central

Lansing, J. Stephen; Fox, Karyn M.

2011-01-01

Human niche construction encompasses both purely biological phenomena, such as the evolution of lactose tolerance, and dual inheritance theory, which investigates the transmission of cultural information. But does niche construction help to explain phenomena in which conscious intention also plays a role? The creation of the engineered landscape of Balinese rice terraces offers a test case. Population genetic analysis and archaeological evidence are used to investigate whether this phenomenon emerged historically from trial and error by generations of farmers, or alternatively was designed by Bali's rulers. In light of strong support for the former hypothesis, two models are developed to explore the emergence of functional structure at both local and global scales. As time goes forward and selected patterns of irrigation schedules are implemented, local variation in rice harvests influences future decisions by the farmers, creating a coupled human–natural system governed by feedback from the environment. This mathematical analysis received a measure of empirical support when government agricultural policies severed the local feedback channels, resulting in the almost instantaneous collapse of rice harvests. The historical process of niche construction may also have included an evolution of religious consciousness, reflected in the beliefs and practices of the water temple cult. PMID:21320905

Measurement characteristics of the levels of institutionalization scales: examining reliability and validity.

PubMed

Barab, S A; Redman, B K; Froman, R D

1998-01-01

The Level of Institutionalization (LoIn) scales were developed to assess the extent to which a health promotion program has become integrated into a health care organization. The instrument was designed specifically to measure the amount of routinization and niche saturation of four subsystems (production, maintenance, supportive, and managerial) believed to make up an organization. In this study, the LoIn scales were completed for diabetes programs in 102 general hospitals and 30 home health agencies in Maryland and Pennsylvania. Reliability estimates across the four subsystems for routines (alpha = .61) and for niche saturation (alpha = .44) were substandard. Average correlation among the four subsystems for routines was .67, and among the four subsystems for niche saturation was .38, indicating moderate to large amounts of shared variance among subsystems and challenging claims of discriminant validity. Given these large correlations and a poor fit when testing the eight-factor model, higher-order confirmatory factor analyses were carried out. Results supported the existence of two second-order factors. When collapsed into two factors, the reliabilities were adequate (routines alpha = .90; niche saturation alpha = .80). Criterion-related validity also was found between length of program existence and the routine factor.

Process-based coastal erosion modeling for Drew Point (North Slope, Alaska)

USGS Publications Warehouse

Ravens, Thomas M.; Jones, Benjamin M.; Zhang, Jinlin; Arp, Christopher D.; Schmutz, Joel A.

2012-01-01

A predictive, coastal erosion/shoreline change model has been developed for a small coastal segment near Drew Point, Beaufort Sea, Alaska. This coastal setting has experienced a dramatic increase in erosion since the early 2000’s. The bluffs at this site are 3-4 m tall and consist of ice-wedge bounded blocks of fine-grained sediments cemented by ice-rich permafrost and capped with a thin organic layer. The bluffs are typically fronted by a narrow (∼ 5  m wide) beach or none at all. During a storm surge, the sea contacts the base of the bluff and a niche is formed through thermal and mechanical erosion. The niche grows both vertically and laterally and eventually undermines the bluff, leading to block failure or collapse. The fallen block is then eroded both thermally and mechanically by waves and currents, which must occur before a new niche forming episode may begin. The erosion model explicitly accounts for and integrates a number of these processes including: (1) storm surge generation resulting from wind and atmospheric forcing, (2) erosional niche growth resulting from wave-induced turbulent heat transfer and sediment transport (using the Kobayashi niche erosion model), and (3) thermal and mechanical erosion of the fallen block. The model was calibrated with historic shoreline change data for one time period (1979-2002), and validated with a later time period (2002-2007).

Characteristic microwave background distortions from collapsing domain wall bubbles

NASA Technical Reports Server (NTRS)

Goetz, Guenter; Noetzold, Dirk

1990-01-01

The magnitude and angular pattern of distortions of the microwave background are analyzed by collapsing spherical domain walls. A characteristic pattern of redshift distortions of red or blue spikes surrounded by blue discs was found. The width and height of a spike is related to the diameter and magnitude of the disc. A measurement of the relations between these quantities thus can serve as an unambiguous indicator for a collapsing spherical domain wall. From the redshift distortion in the blue discs an upper bound was found on the surface energy density of the walls sigma is less than or approximately 8 MeV cubed.

[Niche and interspecific association of the dominant fish in the south coastal waters of Wenzhou, China].

PubMed

Dong, Jing Rui; Shui, Bo Nian; Hu, Cheng Ye; Shui, Yu Yue; DU, Xiao; Tian, Kuo

2017-05-18

The studies about the niche and interspecific association in China were mainly focused on the plants, birds and marine animals, and seldom on fish. Based on the fishery resources survey in spring (May) and autumn (September) in 2015, the associations among major fish species in south coastal waters of Wenzhou were investigated. The methods including niche breadth, niche overlap, variance ratio (VR), Χ 2 -test, association coefficient (AC), percentage of co-occurrence (PC) and point correlation coefficients (Ф) were used. The results showed that 47 fish species were identified, including 9 orders, 27 families and 41 genera. Four species were dominant species and 9 were important species, which together accounted for 17%. The niche breadth cluster analysis demonstrated two clearly identifiable ecological niches. The first one referred to wide niche that included Harpodon nehereus, Collichthys lucidus, Engraulis japonicas, Pampus echinogaster, Argyrosomus argentatus, Polynemus sextarius, Decapterus maruadsi and Trichiurus haumela, and the second one was narrow niche that included Muraenesox cinereus, Amblychaeturichthys hexanema, Cunoglossus robustus, Pseudosciaena polyactis and Ilisha elongate. The niche overlap value of the main fish was 0-0.90, indicating that there was difference in the resource utilization among the species. The ecological niche widths of C. robustus and M. cinereus were narrow, and the overlap values were high. This indicated that there was competition between these two species. The VR analysis revealed significant positive correlation among the main fish species. In view of the advantages of Ф value, which could reduce the impact of the analysis results of Χ 2 -test, AC and PC to the interspecific association, the Ф value method was selected in this study, and the association of 63 couples were positive. Both the interspecific association and ecological niche had different degrees of correlation with the stability of community structure and community succession.

Resonance-induced multimodal body-size distributions in ecosystems

PubMed Central

Lampert, Adam; Tlusty, Tsvi

2013-01-01

The size of an organism reflects its metabolic rate, growth rate, mortality, and other important characteristics; therefore, the distribution of body size is a major determinant of ecosystem structure and function. Body-size distributions often are multimodal, with several peaks of abundant sizes, and previous studies suggest that this is the outcome of niche separation: species from distinct peaks avoid competition by consuming different resources, which results in selection of different sizes in each niche. However, this cannot explain many ecosystems with several peaks competing over the same niche. Here, we suggest an alternative, generic mechanism underlying multimodal size distributions, by showing that the size-dependent tradeoff between reproduction and resource utilization entails an inherent resonance that may induce multiple peaks, all competing over the same niche. Our theory is well fitted to empirical data in various ecosystems, in which both model and measurements show a multimodal, periodically peaked distribution at larger sizes, followed by a smooth tail at smaller sizes. Moreover, we show a universal pattern of size distributions, manifested in the collapse of data from ecosystems of different scales: phytoplankton in a lake, metazoans in a stream, and arthropods in forests. The demonstrated resonance mechanism is generic, suggesting that multimodal distributions of numerous ecological characters emerge from the interplay between local competition and global migration. PMID:23248320

Collapse Pits

NASA Technical Reports Server (NTRS)

2005-01-01

24 April 2005 This Mars Global Surveyor (MGS) Mars Orbiter Camera (MOC) image shows a large and several small pits formed by collapse along the trend of a fault system in the Uranius Fossae region of Mars. Running diagonal from middle-right toward lower left is a trough that intersects the pit. The trough is a typical graben formed by faulting as the upper crust of Mars split and pulled apart at this location. The opening of the graben also led to formation of the collapse pits.

Location near: 26.2oN, 88.7oW Image width: 3 km (1.9 mi) Illumination from: lower left Season: Northern Summer

Tracking niche variation over millennial timescales in sympatric killer whale lineages

PubMed Central

Foote, Andrew D.; Newton, Jason; Ávila-Arcos, María C.; Kampmann, Marie-Louise; Samaniego, Jose A.; Post, Klaas; Rosing-Asvid, Aqqalu; Sinding, Mikkel-Holger S.; Gilbert, M. Thomas P.

2013-01-01

Niche variation owing to individual differences in ecology has been hypothesized to be an early stage of sympatric speciation. Yet to date, no study has tracked niche width over more than a few generations. In this study, we show the presence of isotopic niche variation over millennial timescales and investigate the evolutionary outcomes. Isotopic ratios were measured from tissue samples of sympatric killer whale Orcinus orca lineages from the North Sea, spanning over 10 000 years. Isotopic ratios spanned a range similar to the difference in isotopic values of two known prey items, herring Clupea harengus and harbour seal Phoca vitulina. Two proxies of the stage of speciation, lineage sorting of mitogenomes and genotypic clustering, were both weak to intermediate indicating that speciation has made little progress. Thus, our study confirms that even with the necessary ecological conditions, i.e. among-individual variation in ecology, it is difficult for sympatric speciation to progress in the face of gene flow. In contrast to some theoretical models, our empirical results suggest that sympatric speciation driven by among-individual differences in ecological niche is a slow process and may not reach completion. We argue that sympatric speciation is constrained in this system owing to the plastic nature of the behavioural traits under selection when hunting either mammals or fish. PMID:23945688

Tracking niche variation over millennial timescales in sympatric killer whale lineages.

PubMed

Foote, Andrew D; Newton, Jason; Ávila-Arcos, María C; Kampmann, Marie-Louise; Samaniego, Jose A; Post, Klaas; Rosing-Asvid, Aqqalu; Sinding, Mikkel-Holger S; Gilbert, M Thomas P

2013-10-07

Niche variation owing to individual differences in ecology has been hypothesized to be an early stage of sympatric speciation. Yet to date, no study has tracked niche width over more than a few generations. In this study, we show the presence of isotopic niche variation over millennial timescales and investigate the evolutionary outcomes. Isotopic ratios were measured from tissue samples of sympatric killer whale Orcinus orca lineages from the North Sea, spanning over 10 000 years. Isotopic ratios spanned a range similar to the difference in isotopic values of two known prey items, herring Clupea harengus and harbour seal Phoca vitulina. Two proxies of the stage of speciation, lineage sorting of mitogenomes and genotypic clustering, were both weak to intermediate indicating that speciation has made little progress. Thus, our study confirms that even with the necessary ecological conditions, i.e. among-individual variation in ecology, it is difficult for sympatric speciation to progress in the face of gene flow. In contrast to some theoretical models, our empirical results suggest that sympatric speciation driven by among-individual differences in ecological niche is a slow process and may not reach completion. We argue that sympatric speciation is constrained in this system owing to the plastic nature of the behavioural traits under selection when hunting either mammals or fish.

A Unimodal Species Response Model Relating Traits to Environment with Application to Phytoplankton Communities

PubMed Central

Jamil, Tahira; Kruk, Carla; ter Braak, Cajo J. F.

2014-01-01

In this paper we attempt to explain observed niche differences among species (i.e. differences in their distribution along environmental gradients) by differences in trait values (e.g. volume) in phytoplankton communities. For this, we propose the trait-modulated Gaussian logistic model in which the niche parameters (optimum, tolerance and maximum) are made linearly dependent on species traits. The model is fitted to data in the Bayesian framework using OpenBUGS (Bayesian inference Using Gibbs Sampling) to identify according to which environmental variables there is niche differentiation among species and traits. We illustrate the method with phytoplankton community data of 203 lakes located within four climate zones and associated measurements on 11 environmental variables and six morphological species traits of 60 species. Temperature and chlorophyll-a (with opposite signs) described well the niche structure of all species. Results showed that about 25% of the variance in the niche centres with respect to chlorophyll-a were accounted for by traits, whereas niche width and maximum could not be predicted by traits. Volume, mucilage, flagella and siliceous exoskeleton are found to be the most important traits to explain the niche centres. Species were clustered in two groups with different niches structures, group 1 high temperature-low chlorophyll-a species and group 2 low temperature-high chlorophyll-a species. Compared to group 2, species in group 1 had larger volume but lower surface area, had more often flagella but neither mucilage nor siliceous exoskeleton. These results might help in understanding the effect of environmental changes on phytoplankton community. The proposed method, therefore, can also apply to other aquatic or terrestrial communities for which individual traits and environmental conditioning factors are available. PMID:24835582

Auxiliary drying to prevent pattern collapse in high aspect ratio nanostructures

NASA Astrophysics Data System (ADS)

Liu, Gang; Zhou, Jie; Xiong, Ying; Zhang, Xiaobo; Tian, Yangchao

2011-07-01

Many defects are generated in densely packed high aspect ratio structures during nanofabrication. Pattern collapse is one of the serious problems that may arise, mainly due to the capillary force during drying after the rinsing process. In this paper, a method of auxiliary drying is presented to prevent pattern collapse in high aspect ratio nanostructures by adding an auxiliary substrate as a reinforcing rib to restrict deformation and to balance the capillary force. The principle of the method is presented based on the analysis of pattern collapse. A finite element method is then applied to analyze the deformation of the resist beams caused by the surface tension using the ANSYS software, and the effect of the nanostructure's length to width ratio simulated and analyzed. Finally, the possible range of applications based on the proposed method is discussed. Our results show that the aspect ratio may be increased 2.6 times without pattern collapse; furthermore, this method can be widely used in the removal of solvents in micro- and nanofabrication.

Auxiliary drying to prevent pattern collapse in high aspect ratio nanostructures.

PubMed

Liu, Gang; Zhou, Jie; Xiong, Ying; Zhang, Xiaobo; Tian, Yangchao

2011-07-29

Many defects are generated in densely packed high aspect ratio structures during nanofabrication. Pattern collapse is one of the serious problems that may arise, mainly due to the capillary force during drying after the rinsing process. In this paper, a method of auxiliary drying is presented to prevent pattern collapse in high aspect ratio nanostructures by adding an auxiliary substrate as a reinforcing rib to restrict deformation and to balance the capillary force. The principle of the method is presented based on the analysis of pattern collapse. A finite element method is then applied to analyze the deformation of the resist beams caused by the surface tension using the ANSYS software, and the effect of the nanostructure's length to width ratio simulated and analyzed. Finally, the possible range of applications based on the proposed method is discussed. Our results show that the aspect ratio may be increased 2.6 times without pattern collapse; furthermore, this method can be widely used in the removal of solvents in micro- and nanofabrication.

Collapse of caves at shallow depth in Gaziantep city center, Turkey: a case study

NASA Astrophysics Data System (ADS)

Canakci, Hanifi

2007-12-01

This paper focuses on an investigation of the possible causes for the collapse of limestone caves in Gaziantep, Turkey. The city contains a lot of man-made caves, at a shallow depth, of various width and length. These caves were mainly excavated to provide work or storage space. As the city has been growing fast with increased population, many structures were constructed over these caves. Recently, two caves collapsed and five houses were damaged. These caves are all made of limestone and it was observed after the collapse that the limestone was saturated with water due to sewer pipe leakage and surface water. Tests were carried out on the limestone and it was determined that the compressive strength of limestone decreases by about 50% and the tensile strength decreased by about 80% when saturated with water. It was concluded that the reduced strength of the limestone combined with additional loads due to the factors mentioned above seem to be the main reason for these collapses.

Archived DNA reveals fisheries and climate induced collapse of a major fishery.

PubMed

Bonanomi, Sara; Pellissier, Loïc; Therkildsen, Nina Overgaard; Hedeholm, Rasmus Berg; Retzel, Anja; Meldrup, Dorte; Olsen, Steffen Malskær; Nielsen, Anders; Pampoulie, Christophe; Hemmer-Hansen, Jakob; Wisz, Mary Susanne; Grønkjær, Peter; Nielsen, Einar Eg

2015-10-22

Fishing and climate change impact the demography of marine fishes, but it is generally ignored that many species are made up of genetically distinct locally adapted populations that may show idiosyncratic responses to environmental and anthropogenic pressures. Here, we track 80 years of Atlantic cod (Gadus morhua) population dynamics in West Greenland using DNA from archived otoliths in combination with fish population and niche based modeling. We document how the interacting effects of climate change and high fishing pressure lead to dramatic spatiotemporal changes in the proportions and abundance of different genetic populations, and eventually drove the cod fishery to a collapse in the early 1970s. Our results highlight the relevance of fisheries management at the level of genetic populations under future scenarios of climate change.

Archived DNA reveals fisheries and climate induced collapse of a major fishery

PubMed Central

Bonanomi, Sara; Pellissier, Loïc; Therkildsen, Nina Overgaard; Hedeholm, Rasmus Berg; Retzel, Anja; Meldrup, Dorte; Olsen, Steffen Malskær; Nielsen, Anders; Pampoulie, Christophe; Hemmer-Hansen, Jakob; Wisz, Mary Susanne; Grønkjær, Peter; Nielsen, Einar Eg

2015-01-01

Fishing and climate change impact the demography of marine fishes, but it is generally ignored that many species are made up of genetically distinct locally adapted populations that may show idiosyncratic responses to environmental and anthropogenic pressures. Here, we track 80 years of Atlantic cod (Gadus morhua) population dynamics in West Greenland using DNA from archived otoliths in combination with fish population and niche based modeling. We document how the interacting effects of climate change and high fishing pressure lead to dramatic spatiotemporal changes in the proportions and abundance of different genetic populations, and eventually drove the cod fishery to a collapse in the early 1970s. Our results highlight the relevance of fisheries management at the level of genetic populations under future scenarios of climate change. PMID:26489934

Archived DNA reveals fisheries and climate induced collapse of a major fishery

NASA Astrophysics Data System (ADS)

Bonanomi, Sara; Pellissier, Loïc; Therkildsen, Nina Overgaard; Hedeholm, Rasmus Berg; Retzel, Anja; Meldrup, Dorte; Olsen, Steffen Malskær; Nielsen, Anders; Pampoulie, Christophe; Hemmer-Hansen, Jakob; Wisz, Mary Susanne; Grønkjær, Peter; Nielsen, Einar Eg

2015-10-01

Fishing and climate change impact the demography of marine fishes, but it is generally ignored that many species are made up of genetically distinct locally adapted populations that may show idiosyncratic responses to environmental and anthropogenic pressures. Here, we track 80 years of Atlantic cod (Gadus morhua) population dynamics in West Greenland using DNA from archived otoliths in combination with fish population and niche based modeling. We document how the interacting effects of climate change and high fishing pressure lead to dramatic spatiotemporal changes in the proportions and abundance of different genetic populations, and eventually drove the cod fishery to a collapse in the early 1970s. Our results highlight the relevance of fisheries management at the level of genetic populations under future scenarios of climate change.

Collapse and revival of entanglement between qubits coupled to a spin coherent state

NASA Astrophysics Data System (ADS)

Bahari, Iskandar; Spiller, Timothy P.; Dooley, Shane; Hayes, Anthony; McCrossan, Francis

We extend the study of the Jayne-Cummings (JC) model involving a pair of identical two-level atoms (or qubits) interacting with a single mode quantized field. We investigate the effects of replacing the radiation field mode with a composite spin, comprising N qubits, or spin-1/2 particles. This model is relevant for physical implementations in superconducting circuit QED, ion trap and molecular systems. For the case of the composite spin prepared in a spin coherent state, we demonstrate the similarities of this set-up to the qubits-field model in terms of the time evolution, attractor states and in particular the collapse and revival of the entanglement between the two qubits. We extend our analysis by taking into account an effect due to qubit imperfections. We consider a difference (or “mismatch”) in the dipole interaction strengths of the two qubits, for both the field mode and composite spin cases. To address decoherence due to this mismatch, we then average over this coupling strength difference with distributions of varying width. We demonstrate in both the field mode and the composite spin scenarios that increasing the width of the “error” distribution increases suppression of the coherent dynamics of the coupled system, including the collapse and revival of the entanglement between the qubits.

Diet and feeding ecology of the wintering shorebird assemblage in the Bijagós archipelago, Guinea-Bissau

NASA Astrophysics Data System (ADS)

Lourenço, Pedro M.; Catry, Teresa; Granadeiro, José P.

2017-10-01

Detailed data on shorebird feeding ecology is mostly lacking for tropical wintering sites, limiting our understanding of trophic interactions among shorebird species and their prey. Using dropping analysis and video recordings we compared the diet of eight shorebird species wintering in the Bijagós archipelago, Guinea-Bissau, one of the most important but also least known coastal sites for shorebirds in Africa. We also calculated niche width and foraging niche overlap among these eight species. Whimbrel, grey plover and redshank fed mainly on fiddler crabs, confirming previous observations made in the Bijagós. A large proportion of the diet of bar-tailed godwit, curlew sandpiper, sanderling and ringed plover was composed of polychaetes, particularly Nereis and Glycera, and also Marphysa in the case of larger shorebirds. Red knots fed mainly on the bivalve Dosinia isocardia. All species showed narrow trophic niches, but particularly so whimbrel, red knot, grey plover and redshank. Niche overlap among shorebird species was mostly insignificant, with the exception of species that fed mainly on fiddler crab. Low levels of niche overlap suggest that shorebirds are able to partition the available food resources in the Bijagós despite the reported low macrobenthic densities in the area. In fact, observational data for bar-tailed godwit suggests resource partitioning even occurs within species, with dietary differences among sexes.

Different hunting strategies of generalist predators result in functional differences.

PubMed

Michalko, Radek; Pekár, Stano

2016-08-01

The morphological, physiological, and behavioural traits of organisms are often used as surrogates for actual ecological functions. However, differences in these traits do not necessarily lead to functional differences and/or can be context-dependent. Therefore, it is necessary to explicitly test whether the surrogates have general ecological relevance. To investigate the relationship between the hunting strategies of predators (i.e., how, where, and when they hunt) and their function, we used euryphagous spiders as a model group. We used published data on the diet composition of 76 spider species based on natural prey and laboratory prey acceptance experiments. We computed differences in the position and width of trophic niches among pairs of sympatrically occurring species. Pairs were made at different classification levels, ranked according to the dissimilarity in their hunting strategies: congeners, confamiliars (as phylogenetic proxies for similarity in hunting strategy), species from the same main class of hunting strategy, from the same supra-class, and from different supra-classes. As for niche position computed from the natural prey analyses, species from the same class differed less than species from different classes. A similar pattern was obtained from the laboratory studies, but the congeners differed less than the species from the same classes. Niche widths were most similar among congeners and dissimilar among species from different supra-classes. Functional differences among euryphagous spiders increased continuously with increasing difference in their hunting strategy. The relative frequency of hunting strategies within spider assemblages can, therefore, influence the food webs through hunting strategy-specific predator-prey interactions.

Shock-induced collapse of a gas bubble in shockwave lithotripsy.

PubMed

Johnsen, Eric; Colonius, Tim

2008-10-01

The shock-induced collapse of a pre-existing nucleus near a solid surface in the focal region of a lithotripter is investigated. The entire flow field of the collapse of a single gas bubble subjected to a lithotripter pulse is simulated using a high-order accurate shock- and interface-capturing scheme, and the wall pressure is considered as an indication of potential damage. Results from the computations show the same qualitative behavior as that observed in experiments: a re-entrant jet forms in the direction of propagation of the pulse and penetrates the bubble during collapse, ultimately hitting the distal side and generating a water-hammer shock. As a result of the propagation of this wave, wall pressures on the order of 1 GPa may be achieved for bubbles collapsing close to the wall. The wall pressure decreases with initial stand-off distance and pulse width and increases with pulse amplitude. For the stand-off distances considered in the present work, the wall pressure due to bubble collapse is larger than that due to the incoming shockwave; the region over which this holds may extend to ten initial radii. The present results indicate that shock-induced collapse is a mechanism with high potential for damage in shockwave lithotripsy.

Shock-induced collapse of a gas bubble in shockwave lithotripsy

PubMed Central

Johnsen, Eric; Colonius, Tim

2008-01-01

The shock-induced collapse of a pre-existing nucleus near a solid surface in the focal region of a lithotripter is investigated. The entire flow field of the collapse of a single gas bubble subjected to a lithotripter pulse is simulated using a high-order accurate shock- and interface-capturing scheme, and the wall pressure is considered as an indication of potential damage. Results from the computations show the same qualitative behavior as that observed in experiments: a re-entrant jet forms in the direction of propagation of the pulse and penetrates the bubble during collapse, ultimately hitting the distal side and generating a water-hammer shock. As a result of the propagation of this wave, wall pressures on the order of 1 GPa may be achieved for bubbles collapsing close to the wall. The wall pressure decreases with initial stand-off distance and pulse width and increases with pulse amplitude. For the stand-off distances considered in the present work, the wall pressure due to bubble collapse is larger than that due to the incoming shockwave; the region over which this holds may extend to ten initial radii. The present results indicate that shock-induced collapse is a mechanism with high potential for damage in shockwave lithotripsy. PMID:19062841

Crack surface roughness in three-dimensional random fuse networks

NASA Astrophysics Data System (ADS)

Nukala, Phani Kumar V. V.; Zapperi, Stefano; Šimunović, Srđan

2006-08-01

Using large system sizes with extensive statistical sampling, we analyze the scaling properties of crack roughness and damage profiles in the three-dimensional random fuse model. The analysis of damage profiles indicates that damage accumulates in a diffusive manner up to the peak load, and localization sets in abruptly at the peak load, starting from a uniform damage landscape. The global crack width scales as Wtilde L0.5 and is consistent with the scaling of localization length ξ˜L0.5 used in the data collapse of damage profiles in the postpeak regime. This consistency between the global crack roughness exponent and the postpeak damage profile localization length supports the idea that the postpeak damage profile is predominantly due to the localization produced by the catastrophic failure, which at the same time results in the formation of the final crack. Finally, the crack width distributions can be collapsed for different system sizes and follow a log-normal distribution.

Closed-edged bilayer phosphorene nanoribbons producing from collapsing armchair phosphorene nanotubes.

PubMed

Liao, Xiangbiao; Xiao, Hang; Lu, Xiaobo; Chen, Youlong; Shi, Xiaoyang; Chen, Xi

2018-02-23

A new phosphorous allotrope, closed-edged bilayer phosphorene nanoribbon, is proposed via radially deforming armchair phosphorene nanotubes. Using molecular dynamics simulations, the transformation pathway from round PNTs falls into two types of collapsed structures: arc-like and sigmoidal bilayer nanoribbons, dependent on the number of phosphorene unit cells. The fabricated nanoribbions are energetically more stable than their parent nanotubes. It is also found via ab initio calculations that the band structure along tube axis substantially changes with the structural transformation. The direct-to-indirect transition of band gap is highlighted when collapsing into the arc-like nanoribbons but not the sigmoidal ones. Furthermore, the band gaps of these two types of nanoribbons show significant size-dependence of the nanoribbon width, indicative of wider tunability of their electrical properties.

Experimental observation of the luminescence flash at the collapse phase of a bubble produced by pulsed discharge in water

DOE Office of Scientific and Technical Information (OSTI.GOV)

Huang, Yifan; Zhang, Liancheng; Zhu, Xinlei

2015-11-02

This letter presents an experimental observation of luminescence flash at the collapse phase of an oscillating bubble produced by a pulsed discharge in water. According to the high speed records, the flash lasts around tens of microseconds, which is much longer than the lifetime of laser and ultrasound induced luminescence flashes in nanoseconds and picoseconds, respectively. The pulse width of temperature waveform and minimum radius calculated at the collapse phase also show that the thermodynamic and dynamic signatures of the bubbles in this work are much larger than those of ultrasound and laser induced bubbles both in time and spacemore » scales. However, the peak temperature at the point of collapse is close to the results of ultrasound and laser induced bubbles. This result provides another possibility for accurate emission spectrum measurement other than amplification of the emitted light, such as increasing laser energy or sound energy or substituting water with sulphuric acid.« less

Ecological opportunity and the evolution of habitat preferences in an arid-zone bird: implications for speciation in a climate-modified landscape

PubMed Central

Norman, Janette A.; Christidis, Les

2016-01-01

Bioclimatic models are widely used to investigate the impacts of climate change on species distributions. Range shifts are expected to occur as species track their current climate niche yet the potential for exploitation of new ecological opportunities that may arise as ecosystems and communities remodel is rarely considered. Here we show that grasswrens of the Amytornis textilis-modestus complex responded to new ecological opportunities in Australia’s arid biome through shifts in habitat preference following the development of chenopod shrublands during the late Plio-Pleistocene. We find evidence of spatially explicit responses to climatically driven landscape changes including changes in niche width and patterns of population growth. Conservation of structural and functional aspects of the ancestral niche appear to have facilitated recent habitat shifts, while demographic responses to late Pleistocene climate change provide evidence for the greater resilience of populations inhabiting the recently evolved chenopod shrubland communities. Similar responses could occur under future climate change in species exposed to novel ecological conditions, or those already occupying spatially heterogeneous landscapes. Mechanistic models that consider structural and functional aspects of the niche along with regional hydro-dynamics may be better predictors of future climate responses in Australia’s arid biome than bioclimatic models alone. PMID:26787111

Terrace width variations in complex Mercurian craters and the transient strength of cratered Mercurian and lunar crust

NASA Technical Reports Server (NTRS)

Leith, Andrew C.; Mckinnon, William B.

1991-01-01

The effective cohesion of the cratered region during crater collapse is determined via the widths of slump terraces of complex craters. Terrace widths are measured for complex craters on Mercury; these generally increase outward toward the rim for a given crater, and the width of the outermost major terrace is generally an increasing function of crater diameter. The terrace widths on Mercury and a gravity-driven slump model are used to estimate the strength of the cratered region immediately after impact (about 1-2 MPa). A comparison with the previous study of lunar complex craters by Pearce and Melosh (1986) indicates that the transient strength of cratered Mercurian crust is no greater than that of the moon. The strength estimates vary only slightly with the geometric model used to restore the outermost major terrace to its precollapse configuration and are consistent with independent strength estimates from the simple-to-complex crater depth/diameter transition.

Study of current collapse by quiescent-bias-stresses in rf-plasma assisted MBE grown AlGaN/GaN high-electron-mobility transistors

NASA Astrophysics Data System (ADS)

Arulkumaran, S.; Ng, G. I.; Lee, C. H.; Liu, Z. H.; Radhakrishnan, K.; Dharmarasu, N.; Sun, Z.

2010-11-01

Studies on the influence of quiescent-gate ( Vgs0) and quiescent-drain ( Vds0) bias stresses in rf-plasma MBE grown AlGaN/GaN high-electron-mobility transistors (HEMTs) were performed. The increase of drain current ( ID) collapse by quiescent-bias-stress in AlGaN/GaN HEMTs were observed using pulsed (pulse width = 200 ns; pulse period = 1 ms) IDS- VDS characteristics. The Si 3N 4 passivation suppressed about 80% ID collapse in quiescent-bias-point stressed HEMTs. The remaining 20% ID collapse were not suppressed which may be coming from buffer-related traps. However, more than 10% of ID collapse suppression was observed on un-stressed or fresh-HEMTs. Similarly, improved cut-off frequency ( fT), maximum oscillation frequency ( fmax) and device output power ( Pout) values were also observed on the un-stressed HEMTs. The Si 3N 4 passivation completely suppressed the ID collapse in un-stressed or fresh-HEMTs which leads to 70% improvement in fT and 60% improvement in the device Pout. The Si 3N 4 passivation did not completely suppress ID collapse in the quiescent-bias stressed-HEMTs. This may be due to the generation of additional surface-related traps in the HEMTs by quiescent-bias-stresses.

Measured pulse width of sonoluminescence flashes in the form of resonance radiation

NASA Astrophysics Data System (ADS)

Giri, Asis; Arakeri, Vijay H.

1998-09-01

Recent studies have shown that the measured flash widths from single and multibubble sonoluminescence are in subnanosecond or even picosecond regime. Here, we provide conclusive evidence for the existence of nanosecond multibubble sonoluminescence. This has become possible by our ability to find a medium from which exclusive sodium D line resonance radiation as a form of sonoluminescence is possible. The measured flash width of this emission is found to be in the range of tens of nanoseconds and is sensitively dependent on experimental parameters. Our finding is important since all the earlier pulse width measurements have been limited to emission with the physical source or species responsible for observed optical radiation not being clearly identified. We propose that the presently observed resonance radiation is from ``soft'' bubble collapse as analyzed by V. Kamath et al. [J. Acoust. Soc. Am. 94, 248 (1993)].

Patterns of trophic niche divergence between invasive and native fishes in wild communities are predictable from mesocosm studies.

PubMed

Tran, Thi Nhat Quyen; Jackson, Michelle C; Sheath, Danny; Verreycken, Hugo; Britton, J Robert

2015-07-01

Ecological theory attempts to predict how impacts for native species arise from biological invasions. A fundamental question centres on the feeding interactions of invasive and native species: whether invasion will result in increased interspecific competition, which would result in negative consequences for the competing species, or trophic niche divergence, which would facilitate the invader's integration into the community and their coexistence with native species. Here, the feeding interactions of a highly invasive fish, topmouth gudgeon Pseudorasbora parva, with three native and functionally similar fishes were studied to determine whether patterns of either niche overlap or divergence detected in mesocosm experiments were apparent between the species at larger spatial scales. Using stable isotope analysis, their feeding relationships were assessed initially in the mesocosms (1000 L) and then in small ponds (<400 m(2) ) and large ponds (>600 m(2) ). In the mesocosms, a consistent pattern of trophic niche divergence was evident between the sympatric fishes, with niches shifting further apart in isotopic space than suggested in allopatry, revealing that sharing of food resources was limited. Sympatric P. parva also had a smaller niche than their allopatric populations. In eight small ponds where P. parva had coexisted for several years with at least one of the fish species used in the mesocosms, strong patterns of niche differentiation were also apparent, with P. parva always at a lower trophic position than the other fishes, as also occurred in the mesocosms. Where these fishes were sympatric within more complex fish communities in the large ponds, similar patterns were also apparent, with strong evidence of trophic niche differentiation. Aspects of the ecological impacts of P. parva invasion for native communities in larger ponds were consistent with those in the mesocosm experiments. Their invasion resulted in divergence in trophic niches, partly due to their reduced niche widths when in sympatry with other species, facilitating their coexistence in invaded ecosystems. Our study highlights the utility of controlled mesocosm studies for predicting the trophic relationships that can develop from introductions of non-native species into more complex ecosystems and at larger spatial scales. © 2015 The Authors. Journal of Animal Ecology published by John Wiley & Sons Ltd on behalf of British Ecological Society.

Pits on Ascraeus

NASA Technical Reports Server (NTRS)

2005-01-01

24 September 2005 This Mars Global Surveyor (MGS) Mars Orbiter Camera (MOC) image shows collapse pits and troughs on the lower northeast flank of the giant martian volcano, Ascraeus Mons. Layers of volcanic rock are evident in some of the pit and valley walls, and boulders the size of houses and trucks that were liberated from these walls by gravity can be seen on the floors of the depressions.

Location near: 13.6oN, 102.6oW Image width: width: 3 km (1.9 mi) Illumination from: lower left Season: Northern Autumn

Results of upper airway radiography and ultrasonography predict dynamic laryngeal collapse in affected horses.

PubMed

Fjordbakk, C T; Chalmers, H J; Holcombe, S J; Strand, E

2013-11-01

The pathogenesis of dynamic bilateral laryngeal collapse (DLC) associated with poll flexion is unknown. Diagnosis is dependent upon exercise endoscopy while replicating the flexed head position harness racehorses experience during racing. To describe the effects of poll flexion on rostrocaudal laryngeal positioning and laryngeal lumen width in resting horses diagnosed with DLC compared to controls, and to establish diagnostic criteria for DLC by use of diagnostic imaging. Case-control study. Fifty harness racehorses were prospectively included in the study: 25 cases diagnosed with DLC by treadmill endoscopy and 25 controls in which treadmill endoscopy revealed no abnormal findings. Laryngeal radiography and ultrasonography were obtained in neutral and flexed head positions. Laryngeal positioning and laryngohyoid conformation were compared between the groups and head positions. Poll flexion induced a greater rostral advancement of the larynx in relation to the hyoid apparatus in resting harness racehorses affected with DLC compared to controls (P = 0.007). At the level of the vocal folds, poll flexion resulted in a smaller laryngeal lumen width in horses affected with DLC compared to controls (P = 0.04). Horses were significantly more likely to be affected with DLC when the thyrohyoid bone to thyroid cartilage distance was ≥12 mm in poll flexion (odds ratio 21.3, 95% confidence interval 3.65-124.8, P = 0.004) and when laryngeal lumen width at the level of the vocal folds was less in poll flexion than in the neutral head position (odds ratio 8.4; 95% confidence interval 1.6-44.1, P = 0.012). In DLC horses, poll flexion advanced the larynx more rostrally and resulted in a decreased airway lumen width compared to control horses. Laryngeal ultrasound and radiography may facilitate the diagnosis of DLC at rest. © 2013 EVJ Ltd.

Trophic dynamics of deep-sea megabenthos are mediated by surface productivity.

PubMed

Tecchio, Samuele; van Oevelen, Dick; Soetaert, Karline; Navarro, Joan; Ramírez-Llodra, Eva

2013-01-01

Most deep-sea benthic ecosystems are food limited and, in the majority of cases, are driven by the organic matter falling from the surface or advected downslope. Species may adapt to this scarceness by applying a wide variety of responses, such as feeding specialisation, niche width variation, and reduction in metabolic rates. The Mediterranean Sea hosts a gradient of food availability at the deep seafloor over its wide longitudinal transect. In the Mediterranean, broad regional studies on trophic habits are almost absent, and the response of deep-sea benthos to different trophic conditions is still speculative. Here, we show that both primary and secondary production processes taking place at surface layers are key drivers of deep-sea food web structuring. By employing an innovative statistical tool, we interpreted bulk-tissue δ(13)C and δ(15)N isotope ratios in benthic megafauna, and associated surface and mesopelagic components from the 3 basins of the Mediterranean Sea at 3 different depths (1200, 2000, and 3000 m). The trophic niche width and the amplitude of primary carbon sources were positively correlated with both primary and secondary surface production indicators. Moreover, mesopelagic organic matter utilization processes showed an intermediate position between surface and deep benthic components. These results shed light on the understanding of deep-sea ecosystems functioning and, at the same time, they demand further investigation.

Trophic Dynamics of Deep-Sea Megabenthos Are Mediated by Surface Productivity

PubMed Central

Tecchio, Samuele; van Oevelen, Dick; Soetaert, Karline; Navarro, Joan; Ramírez-Llodra, Eva

2013-01-01

Most deep-sea benthic ecosystems are food limited and, in the majority of cases, are driven by the organic matter falling from the surface or advected downslope. Species may adapt to this scarceness by applying a wide variety of responses, such as feeding specialisation, niche width variation, and reduction in metabolic rates. The Mediterranean Sea hosts a gradient of food availability at the deep seafloor over its wide longitudinal transect. In the Mediterranean, broad regional studies on trophic habits are almost absent, and the response of deep-sea benthos to different trophic conditions is still speculative. Here, we show that both primary and secondary production processes taking place at surface layers are key drivers of deep-sea food web structuring. By employing an innovative statistical tool, we interpreted bulk-tissue δ13C and δ15N isotope ratios in benthic megafauna, and associated surface and mesopelagic components from the 3 basins of the Mediterranean Sea at 3 different depths (1200, 2000, and 3000 m). The trophic niche width and the amplitude of primary carbon sources were positively correlated with both primary and secondary surface production indicators. Moreover, mesopelagic organic matter utilization processes showed an intermediate position between surface and deep benthic components. These results shed light on the understanding of deep-sea ecosystems functioning and, at the same time, they demand further investigation. PMID:23691098

Linking hydrologic, physical and chemical habitat environments for the potential assessment of fish community rehabilitation in a developing city

NASA Astrophysics Data System (ADS)

Zhao, C. S.; Yang, S. T.; Liu, C. M.; Dou, T. W.; Yang, Z. L.; Yang, Z. Y.; Liu, X. L.; Xiang, H.; Nie, S. Y.; Zhang, J. L.; Mitrovic, S. M.; Yu, Q.; Lim, R. P.

2015-04-01

Aquatic ecological rehabilitation is increasingly attracting considerable public and research attention. An effective method that requires less data and expertise would help in the assessment of rehabilitation potential and in the monitoring of rehabilitation activities as complicated theories and excessive data requirements on assemblage information make many current assessment models expensive and limit their wide use. This paper presents an assessment model for restoration potential which successfully links hydrologic, physical and chemical habitat factors to fish assemblage attributes drawn from monitoring datasets on hydrology, water quality and fish assemblages at a total of 144 sites, where 5084 fish were sampled and tested. In this model three newly developed sub-models, integrated habitat index (IHSI), integrated ecological niche breadth (INB) and integrated ecological niche overlap (INO), are established to study spatial heterogeneity of the restoration potential of fish assemblages based on gradient methods of habitat suitability index and ecological niche models. To reduce uncertainties in the model, as many fish species as possible, including important native fish, were selected as dominant species with monitoring occurring over several seasons to comprehensively select key habitat factors. Furthermore, a detrended correspondence analysis (DCA) was employed prior to a canonical correspondence analysis (CCA) of the data to avoid the "arc effect" in the selection of key habitat factors. Application of the model to data collected at Jinan City, China proved effective reveals that three lower potential regions that should be targeted in future aquatic ecosystem rehabilitation programs. They were well validated by the distribution of two habitat parameters: river width and transparency. River width positively influenced and transparency negatively influenced fish assemblages. The model can be applied for monitoring the effects of fish assemblage restoration. This has large ramifications for the restoration of aquatic ecosystems and spatial heterogeneity of fish assemblages all over the world.

Predators, Prey and Habitat Structure: Can Key Conservation Areas and Early Signs of Population Collapse Be Detected in Neotropical Forests?

PubMed

de Thoisy, Benoit; Fayad, Ibrahim; Clément, Luc; Barrioz, Sébastien; Poirier, Eddy; Gond, Valéry

2016-01-01

Tropical forests with a low human population and absence of large-scale deforestation provide unique opportunities to study successful conservation strategies, which should be based on adequate monitoring tools. This study explored the conservation status of a large predator, the jaguar, considered an indicator of the maintenance of how well ecological processes are maintained. We implemented an original integrative approach, exploring successive ecosystem status proxies, from habitats and responses to threats of predators and their prey, to canopy structure and forest biomass. Niche modeling allowed identification of more suitable habitats, significantly related to canopy height and forest biomass. Capture/recapture methods showed that jaguar density was higher in habitats identified as more suitable by the niche model. Surveys of ungulates, large rodents and birds also showed higher density where jaguars were more abundant. Although jaguar density does not allow early detection of overall vertebrate community collapse, a decrease in the abundance of large terrestrial birds was noted as good first evidence of disturbance. The most promising tool comes from easily acquired LiDAR data and radar images: a decrease in canopy roughness was closely associated with the disturbance of forests and associated decreasing vertebrate biomass. This mixed approach, focusing on an apex predator, ecological modeling and remote-sensing information, not only helps detect early population declines in large mammals, but is also useful to discuss the relevance of large predators as indicators and the efficiency of conservation measures. It can also be easily extrapolated and adapted in a timely manner, since important open-source data are increasingly available and relevant for large-scale and real-time monitoring of biodiversity.

Predators, Prey and Habitat Structure: Can Key Conservation Areas and Early Signs of Population Collapse Be Detected in Neotropical Forests?

PubMed Central

de Thoisy, Benoit; Fayad, Ibrahim; Clément, Luc; Barrioz, Sébastien; Poirier, Eddy; Gond, Valéry

2016-01-01

Tropical forests with a low human population and absence of large-scale deforestation provide unique opportunities to study successful conservation strategies, which should be based on adequate monitoring tools. This study explored the conservation status of a large predator, the jaguar, considered an indicator of the maintenance of how well ecological processes are maintained. We implemented an original integrative approach, exploring successive ecosystem status proxies, from habitats and responses to threats of predators and their prey, to canopy structure and forest biomass. Niche modeling allowed identification of more suitable habitats, significantly related to canopy height and forest biomass. Capture/recapture methods showed that jaguar density was higher in habitats identified as more suitable by the niche model. Surveys of ungulates, large rodents and birds also showed higher density where jaguars were more abundant. Although jaguar density does not allow early detection of overall vertebrate community collapse, a decrease in the abundance of large terrestrial birds was noted as good first evidence of disturbance. The most promising tool comes from easily acquired LiDAR data and radar images: a decrease in canopy roughness was closely associated with the disturbance of forests and associated decreasing vertebrate biomass. This mixed approach, focusing on an apex predator, ecological modeling and remote-sensing information, not only helps detect early population declines in large mammals, but is also useful to discuss the relevance of large predators as indicators and the efficiency of conservation measures. It can also be easily extrapolated and adapted in a timely manner, since important open-source data are increasingly available and relevant for large-scale and real-time monitoring of biodiversity. PMID:27828993

Dry etch challenges for CD shrinkage in memory process

NASA Astrophysics Data System (ADS)

Matsushita, Takaya; Matsumoto, Takanori; Mukai, Hidefumi; Kyoh, Suigen; Hashimoto, Kohji

2015-03-01

Line pattern collapse attracts attention as a new problem of the L&S formation in sub-20nm H.P feature. Line pattern collapse that occurs in a slight non-uniformity of adjacent CD (Critical dimension) space using double patterning process has been studied with focus on micro-loading effect in Si etching. Bias RF pulsing plasma etching process using low duty cycle helped increase of selectivity Si to SiO2. In addition to the effect of Bias RF pulsing process, the thin mask obtained from improvement of selectivity has greatly suppressed micro-loading in Si etching. However it was found that micro-loading effect worsen again in sub-20nm space width. It has been confirmed that by using cycle etch process to remove deposition with CFx based etching micro-loading effect could be suppressed. Finally, Si etching process condition using combination of results above could provide finer line and space without "line pattern collapse" in sub-20nm.

Biodiversity maintenance in food webs with regulatory environmental feedbacks.

PubMed

Bagdassarian, Carey K; Dunham, Amy E; Brown, Christopher G; Rauscher, Daniel

2007-04-21

Although the food web is one of the most fundamental and oldest concepts in ecology, elucidating the strategies and structures by which natural communities of species persist remains a challenge to empirical and theoretical ecologists. We show that simple regulatory feedbacks between autotrophs and their environment when embedded within complex and realistic food-web models enhance biodiversity. The food webs are generated through the niche-model algorithm and coupled with predator-prey dynamics, with and without environmental feedbacks at the autotroph level. With high probability and especially at lower, more realistic connectance levels, regulatory environmental feedbacks result in fewer species extinctions, that is, in increased species persistence. These same feedback couplings, however, also sensitize food webs to environmental stresses leading to abrupt collapses in biodiversity with increased forcing. Feedback interactions between species and their material environments anchor food-web persistence, adding another dimension to biodiversity conservation. We suggest that the regulatory features of two natural systems, deep-sea tubeworms with their microbial consortia and a soil ecosystem manifesting adaptive homeostatic changes, can be embedded within niche-model food-web dynamics.

Pro-social behaviour of ants depends on their ecological niche-Rescue actions in species from tropical and temperate regions.

PubMed

Miler, Krzysztof; Yahya, Bakhtiar Effendi; Czarnoleski, Marcin

2017-11-01

Some ants display rescue behaviour, which is performed by nearby nestmates and directed at individuals in danger. Here, using several ant species, we demonstrate that rescue behaviour expression matches predicted occurrences based on certain aspects of species' ecological niches. Rescue occurred in sand-dwelling ants exposed both to co-occurring antlion larvae, representing the threat of being captured by a predator, and to nest cave-ins, representing the threat of being trapped in a collapsed nest chamber. Rescue also occurred in forest groundcover ants exposed to certain entrapment situations. However, rescue never occurred in species associated with open plains, which nest in hardened soils and forage largely on herbaceous plants, or in ants living in close mutualistic relationships with their host plants. In addition, because we tested each species in two types of tests, antlion larva capture tests and artificial entrapment tests, we highlight the importance of accounting for test context in studying rescue behaviour expression. Copyright © 2017 Elsevier B.V. All rights reserved.

Evaluating susceptibility of karst dolines (sinkholes) for collapse in Sango, Tennessee, USA.

PubMed

Siska, Peter P; Goovaerts, Pierre; Hung, I-K

2016-08-01

Dolines or sinkholes are earth depressions that develop in soluble rocks complexes such as limestone, dolomite, gypsum, anhydrite, and halite; dolines appear in a variety of shapes from nearly circular to complex structures with highly curved perimeters. The occurrence of dolines in the studied karst area is not random; they are the results of geomorphic, hydrologic, and chemical processes that have caused partial subsidence, even the total collapse of the land surface when voids and caves are present in the bedrock and the regolith arch overbridging these voids is unstable. In the study area, the majority of collapses occur in the regolith (bedrock cover) that bridges voids in the bedrock. Because these collapsing dolines may result in property damage and even cause the loss of lives, there is a need to develop methods for evaluating karst hazards. These methods can then be used by planners and practitioners for urban and economic development, especially in regions with a growing population. The purpose of this project is threefold: 1) to develop a karst feature database, 2) to investigate critical indicators associated with doline collapse, and 3) to develop a doline susceptibility model for potential doline collapse based on external morphometric data. The study has revealed the presence of short range spatial dependence in the distribution of the dolines' morphometric parameters such as circularity, the geographic orientation of the main doline axes, and the length-to-width doline ratios; therefore, geostatistics can be used to spatially evaluate the susceptibility of the karst area for doline collapse. The partial susceptibility estimates were combined into a final probability map enabling the identification of areas where, until now, undetected dolines may cause significant hazards.

Evaluating susceptibility of karst dolines (sinkholes) for collapse in Sango, Tennessee, USA

PubMed Central

Siska, Peter P.; Goovaerts, Pierre; Hung, I-K

2016-01-01

Dolines or sinkholes are earth depressions that develop in soluble rocks complexes such as limestone, dolomite, gypsum, anhydrite, and halite; dolines appear in a variety of shapes from nearly circular to complex structures with highly curved perimeters. The occurrence of dolines in the studied karst area is not random; they are the results of geomorphic, hydrologic, and chemical processes that have caused partial subsidence, even the total collapse of the land surface when voids and caves are present in the bedrock and the regolith arch overbridging these voids is unstable. In the study area, the majority of collapses occur in the regolith (bedrock cover) that bridges voids in the bedrock. Because these collapsing dolines may result in property damage and even cause the loss of lives, there is a need to develop methods for evaluating karst hazards. These methods can then be used by planners and practitioners for urban and economic development, especially in regions with a growing population. The purpose of this project is threefold: 1) to develop a karst feature database, 2) to investigate critical indicators associated with doline collapse, and 3) to develop a doline susceptibility model for potential doline collapse based on external morphometric data. The study has revealed the presence of short range spatial dependence in the distribution of the dolines’ morphometric parameters such as circularity, the geographic orientation of the main doline axes, and the length-to-width doline ratios; therefore, geostatistics can be used to spatially evaluate the susceptibility of the karst area for doline collapse. The partial susceptibility estimates were combined into a final probability map enabling the identification of areas where, until now, undetected dolines may cause significant hazards. PMID:27616807

Trophic niche of squids: Insights from isotopic data in marine systems worldwide

NASA Astrophysics Data System (ADS)

Navarro, Joan; Coll, Marta; Somes, Christoper J.; Olson, Robert J.

2013-10-01

Cephalopods are an important prey resource for fishes, seabirds, and marine mammals, and are also voracious predators on crustaceans, fishes, squid and zooplankton. Because of their high feeding rates and abundance, squids have the potential to exert control on the recruitment of commercially important fishes. In this review, we synthesize the available information for two intrinsic markers (δ15N and δ13C isotopic values) in squids for all oceans and several types of ecosystems to obtain a global view of the trophic niches of squids in marine ecosystems. In particular, we aimed to examine whether the trophic positions and trophic widths of squid species vary among oceans and ecosystem types. To correctly compare across systems, we adjusted squid δ15N values for the isotopic variability of phytoplankton at the base of the food web provided by an ocean circulation-biogeochemistry-isotope model. Studies that focused on the trophic ecology of squids using isotopic techniques were few, and most of the information on squids was from studies on their predators. Our results showed that squids occupy a large range of trophic positions and exploit a large range of trophic resources, reflecting the versatility of their feeding behavior and confirming conclusions from food-web models. Clear differences in both trophic position and trophic width were found among oceans and ecosystem types. The study also reinforces the importance of considering the natural variation in isotopic values when comparing the isotopic values of consumers inhabiting different ecosystems.

Contraction Signatures toward Dense Cores in the Perseus Molecular Cloud

NASA Astrophysics Data System (ADS)

Campbell, J. L.; Friesen, R. K.; Martin, P. G.; Caselli, P.; Kauffmann, J.; Pineda, J. E.

2016-03-01

We report the results of an HCO+ (3-2) and N2D+ (3-2) molecular line survey performed toward 91 dense cores in the Perseus molecular cloud using the James Clerk Maxwell Telescope, to identify the fraction of starless and protostellar cores with systematic radial motions. We quantify the HCO+ asymmetry using a dimensionless asymmetry parameter δv, and identify 20 cores with significant blue or red line asymmetries in optically thick emission indicative of collapsing or expanding motions, respectively. We separately fit the HCO+ profiles with an analytic collapse model and determine contraction (expansion) speeds toward 22 cores. Comparing the δv and collapse model results, we find that δv is a good tracer of core contraction if the optically thin emission is aligned with the model-derived systemic velocity. The contraction speeds range from subsonic (0.03 km s-1) to supersonic (0.4 km s-1), where the supersonic contraction speeds may trace global rather than local core contraction. Most cores have contraction speeds significantly less than their free-fall speeds. Only 7 of 28 starless cores have spectra well-fit by the collapse model, which more than doubles (15 of 28) for protostellar cores. Starless cores with masses greater than the Jeans mass (M/MJ > 1) are somewhat more likely to show contraction motions. We find no trend of optically thin non-thermal line width with M/MJ, suggesting that any undetected contraction motions are small and subsonic. Most starless cores in Perseus are either not in a state of collapse or expansion, or are in a very early stage of collapse.

Timescales of isotropic and anisotropic cluster collapse

NASA Astrophysics Data System (ADS)

Bartelmann, M.; Ehlers, J.; Schneider, P.

1993-12-01

From a simple estimate for the formation time of galaxy clusters, Richstone et al. have recently concluded that the evidence for non-virialized structures in a large fraction of observed clusters points towards a high value for the cosmological density parameter Omega0. This conclusion was based on a study of the spherical collapse of density perturbations, assumed to follow a Gaussian probability distribution. In this paper, we extend their treatment in several respects: first, we argue that the collapse does not start from a comoving motion of the perturbation, but that the continuity equation requires an initial velocity perturbation directly related to the density perturbation. This requirement modifies the initial condition for the evolution equation and has the effect that the collapse proceeds faster than in the case where the initial velocity perturbation is set to zero; the timescale is reduced by a factor of up to approximately equal 0.5. Our results thus strengthens the conclusion of Richstone et al. for a high Omega0. In addition, we study the collapse of density fluctuations in the frame of the Zel'dovich approximation, using as starting condition the analytically known probability distribution of the eigenvalues of the deformation tensor, which depends only on the (Gaussian) width of the perturbation spectrum. Finally, we consider the anisotropic collapse of density perturbations dynamically, again with initial conditions drawn from the probability distribution of the deformation tensor. We find that in both cases of anisotropic collapse, in the Zel'dovich approximation and in the dynamical calculations, the resulting distribution of collapse times agrees remarkably well with the results from spherical collapse. We discuss this agreement and conclude that it is mainly due to the properties of the probability distribution for the eigenvalues of the Zel'dovich deformation tensor. Hence, the conclusions of Richstone et al. on the value of Omega0 can be verified and strengthened, even if a more general approach to the collapse of density perturbations is employed. A simple analytic formula for the cluster redshift distribution in an Einstein-deSitter universe is derived.

Wetland succession in a permafrost collapse: Interactions between fire and thermokarst

USGS Publications Warehouse

Myers-Smith, I. H.; Harden, J.W.; Wilmking, M.; Fuller, C.C.; McGuire, A.D.; Chapin, F. S.

2008-01-01

To determine the influence of fire and thermokarst in a boreal landscape, we investigated peat cores within and adjacent to a permafrost collapse feature on the Tanana River Floodplain of Interior Alaska. Radioisotope dating, diatom assemblages, plant macrofossils, charcoal fragments, and carbon and nitrogen content of the peat profile indicate ???600 years of vegetation succession with a transition from a terrestrial forest to a sedge-dominated wetland over 100 years ago, and to a Sphagnum-dominated peatland in approximately 1970. The shift from sedge to Sphagnum, and a decrease in the detrended tree-ring width index of black spruce trees adjacent to the collapse coincided with an increase in the growing season temperature record from Fairbanks. This concurrent wetland succession and reduced growth of black spruce trees indicates a step-wise ecosystem-level response to a change in regional climate. In 2001, fire was observed coincident with permafrost collapse and resulted in lateral expansion of the peatland. These observations and the peat profile suggest that future warming and/or increased fire disturbance could promote permafrost degradation, peatland expansion, and increase carbon storage across this landscape; however, the development of drought conditions could reduce the success of both black spruce and Sphagnum, and potentially decrease the long-term ecosystem carbon storage.

Mind the gap - tip leakage vortex in axial turbines

NASA Astrophysics Data System (ADS)

Dreyer, M.; Decaix, J.; Münch-Alligné, C.; Farhat, M.

2014-03-01

The tendency of designing large Kaplan turbines with a continuous increase of output power is bringing to the front the cavitation erosion issue. Due to the flow in the gap between the runner and the discharge ring, axial turbine blades may develop the so called tip leakage vortex (TLV) cavitation with negative consequences. Such vortices may interact strongly with the wake of guide vanes leading to their multiple collapses and rebounds. If the vortex trajectory remains close to the blade tip, these collapses may lead to severe erosion. One is still unable today to predict its occurrence and development in axial turbines with acceptable accuracy. Numerical flow simulations as well as the actual scale-up rules from small to large scales are unreliable. The present work addresses this problematic in a simplified case study representing TLV cavitation to better understand its sensitivity to the gap width. A Naca0009 hydrofoil is used as a generic blade in the test section of EPFL cavitation tunnel. A sliding mounting support allowing an adjustable gap between the blade tip and wall was manufactured. The vortex trajectory is visualized with a high speed camera and appropriate lighting. The three dimensional velocity field induced by the TLV is investigated using stereo particle image velocimetry. We have taken into account the vortex wandering in the image processing to obtain accurate measurements of the vortex properties. The measurements were performed in three planes located downstream of the hydrofoil for different values of the flow velocity, the incidence angle and the gap width. The results clearly reveal a strong influence of the gap width on both trajectory and intensity of the tip leakage vortex.

Gas vesicles.

PubMed Central

Walsby, A E

1994-01-01

The gas vesicle is a hollow structure made of protein. It usually has the form of a cylindrical tube closed by conical end caps. Gas vesicles occur in five phyla of the Bacteria and two groups of the Archaea, but they are mostly restricted to planktonic microorganisms, in which they provide buoyancy. By regulating their relative gas vesicle content aquatic microbes are able to perform vertical migrations. In slowly growing organisms such movements are made more efficiently than by swimming with flagella. The gas vesicle is impermeable to liquid water, but it is highly permeable to gases and is normally filled with air. It is a rigid structure of low compressibility, but it collapses flat under a certain critical pressure and buoyancy is then lost. Gas vesicles in different organisms vary in width, from 45 to > 200 nm; in accordance with engineering principles the narrower ones are stronger (have higher critical pressures) than wide ones, but they contain less gas space per wall volume and are therefore less efficient at providing buoyancy. A survey of gas-vacuolate cyanobacteria reveals that there has been natural selection for gas vesicles of the maximum width permitted by the pressure encountered in the natural environment, which is mainly determined by cell turgor pressure and water depth. Gas vesicle width is genetically determined, perhaps through the amino acid sequence of one of the constituent proteins. Up to 14 genes have been implicated in gas vesicle production, but so far the products of only two have been shown to be present in the gas vesicle: GvpA makes the ribs that form the structure, and GvpC binds to the outside of the ribs and stiffens the structure against collapse. The evolution of the gas vesicle is discussed in relation to the homologies of these proteins. Images PMID:8177173

Suppression of the Nonlinear Zeeman Effect and Heading Error in Earth-Field-Range Alkali-Vapor Magnetometers.

PubMed

Bao, Guzhi; Wickenbrock, Arne; Rochester, Simon; Zhang, Weiping; Budker, Dmitry

2018-01-19

The nonlinear Zeeman effect can induce splitting and asymmetries of magnetic-resonance lines in the geophysical magnetic-field range. This is a major source of "heading error" for scalar atomic magnetometers. We demonstrate a method to suppress the nonlinear Zeeman effect and heading error based on spin locking. In an all-optical synchronously pumped magnetometer with separate pump and probe beams, we apply a radio-frequency field which is in phase with the precessing magnetization. This results in the collapse of the multicomponent asymmetric magnetic-resonance line with ∼100  Hz width in the Earth-field range into a single peak with a width of 22 Hz, whose position is largely independent of the orientation of the sensor within a range of orientation angles. The technique is expected to be broadly applicable in practical magnetometry, potentially boosting the sensitivity and accuracy of Earth-surveying magnetometers by increasing the magnetic-resonance amplitude, decreasing its width, and removing the important and limiting heading-error systematic.

CONTRACTION SIGNATURES TOWARD DENSE CORES IN THE PERSEUS MOLECULAR CLOUD

DOE Office of Scientific and Technical Information (OSTI.GOV)

Campbell, J. L.; Friesen, R. K.; Martin, P. G.

We report the results of an HCO{sup +} (3–2) and N{sub 2}D{sup +} (3–2) molecular line survey performed toward 91 dense cores in the Perseus molecular cloud using the James Clerk Maxwell Telescope, to identify the fraction of starless and protostellar cores with systematic radial motions. We quantify the HCO{sup +} asymmetry using a dimensionless asymmetry parameter δ{sub v}, and identify 20 cores with significant blue or red line asymmetries in optically thick emission indicative of collapsing or expanding motions, respectively. We separately fit the HCO{sup +} profiles with an analytic collapse model and determine contraction (expansion) speeds toward 22more » cores. Comparing the δ{sub v} and collapse model results, we find that δ{sub v} is a good tracer of core contraction if the optically thin emission is aligned with the model-derived systemic velocity. The contraction speeds range from subsonic (0.03 km s{sup −1}) to supersonic (0.4 km s{sup −1}), where the supersonic contraction speeds may trace global rather than local core contraction. Most cores have contraction speeds significantly less than their free-fall speeds. Only 7 of 28 starless cores have spectra well-fit by the collapse model, which more than doubles (15 of 28) for protostellar cores. Starless cores with masses greater than the Jeans mass (M/M{sub J} > 1) are somewhat more likely to show contraction motions. We find no trend of optically thin non-thermal line width with M/M{sub J}, suggesting that any undetected contraction motions are small and subsonic. Most starless cores in Perseus are either not in a state of collapse or expansion, or are in a very early stage of collapse.« less

Adaptive significance of the Indian caste system: an ecological perspective.

PubMed

Gadgil, M; Malhotra, K C

1983-01-01

Indian society is an agglomeration of several thousand endogamous groups or castes each with a restricted geographical range and a hereditarily determined mode of subsistence. These reproductively isolated castes may be compared to biological species, and the society thought of as a biological community with each caste having its specific ecological niche. In this paper we examine the ecological-niche relationships of castes which are directly dependent on natural resources. Evidence is presented to show that castes living together in the same region had so organized their pattern of resource use as to avoid excessive intercaste competition for limiting resources. Furthermore, territorial division of the total range of the caste regulated intra-caste competition. Hence, a particular plant or animal resource in a given locality was used almost exclusively by a given lineage within a caste generation after generation. This favoured the cultural evolution of traditions ensuring sustainable use of natural resources. This must have contributed significantly to the stability of Indian caste society over several thousand years. The collapse of the base of natural resources and increasing monetarization of the economy has, however, destroyed the earlier complementarity between the different castes and led to increasing conflicts between them in recent years.

An assessment of the trophic structure of the Bay of Biscay continental shelf food web: Comparing estimates derived from an ecosystem model and isotopic data

NASA Astrophysics Data System (ADS)

Lassalle, G.; Chouvelon, T.; Bustamante, P.; Niquil, N.

2014-01-01

Comparing outputs of ecosystem models with estimates derived from experimental and observational approaches is important in creating valuable feedback for model construction, analyses and validation. Stable isotopes and mass-balanced trophic models are well-known and widely used as approximations to describe the structure of food webs, but their consistency has not been properly established as attempts to compare these methods remain scarce. Model construction is a data-consuming step, meaning independent sets for validation are rare. Trophic linkages in the French continental shelf of the Bay of Biscay food webs were recently investigated using both methodologies. Trophic levels for mono-specific compartments representing small pelagic fish and marine mammals and multi-species functional groups corresponding to demersal fish and cephalopods, derived from modelling, were compared with trophic levels calculated from independent carbon and nitrogen isotope ratios. Estimates of the trophic niche width of those species, or groups of species, were compared between these two approaches as well. A significant and close-to-one positive (rSpearman2 = 0.72 , n = 16, p < 0.0001) correlation was found between trophic levels estimated by Ecopath modelling and those derived from isotopic signatures. Differences between estimates were particularly low for mono-specific compartments. No clear relationship existed between indices of trophic niche width derived from both methods. Given the wide recognition of trophic levels as a useful concept in ecosystem-based fisheries management, propositions were made to further combine these two approaches.

Endolithic microniches support habitability

NASA Astrophysics Data System (ADS)

Gómez, F.; Rodríguez, N.; Rodríguez-Manfredi, J. A.; Fernández-Sampedro, M.; Amils, R.

2013-09-01

Particular micro-niches on extreme environments give us some clues about the habitability potential under protected environments with important connotations from an astrobiological point of view [1]. The salts precipitation patters in extreme environments can contribute to biomineralization processes which could be of special interest for organics but also life preservation on environmental harsh conditions. These "oasys" for organics and/or life forms are of special as trobiological interest and should attract our attention in other planets and we should be looking for it during rover exploration missions. Endolithic micro niches in Rio Tinto salts precipitates determine controlled scenarios where phototrops develop under controlled conditions. Rio Tinto, 100 km river located at South West of Spain, is being taken as a well reported Mars analog due to the similarities in the mineralogy of the system which that reported by MER Opportunity Rover missions which landed in Meridiani Planum where sedimentary deposits have been identified in different craters [2]. Interesting multi layered salty deposits were identified in Rio Tinto source area where endolithic micro niches were settled [3]. Green layers appear included in brown stratified salt precipitates. The crust deposit was between 5 mm and 1 cm width. The layered structure is deposited over rocks or over man made structures as dam or mining tunnels walls but always in places with specific environmental characteristics. It appears in not direct Sun light exposed places (shadow side of walls) with thermal and pH stability.

Diet reconstruction and resource partitioning of a Caribbean marine mesopredator using stable isotope bayesian modelling.

PubMed

Tilley, Alexander; López-Angarita, Juliana; Turner, John R

2013-01-01

The trophic ecology of epibenthic mesopredators is not well understood in terms of prey partitioning with sympatric elasmobranchs or their effects on prey communities, yet the importance of omnivores in community trophic dynamics is being increasingly realised. This study used stable isotope analysis of (15)N and (13)C to model diet composition of wild southern stingrays Dasyatis americana and compare trophic niche space to nurse sharks Ginglymostoma cirratum and Caribbean reef sharks Carcharhinus perezi on Glovers Reef Atoll, Belize. Bayesian stable isotope mixing models were used to investigate prey choice as well as viable Diet-Tissue Discrimination Factors for use with stingrays. Stingray δ(15)N values showed the greatest variation and a positive relationship with size, with an isotopic niche width approximately twice that of sympatric species. Shark species exhibited comparatively restricted δ(15)N values and greater δ(13)C variation, with very little overlap of stingray niche space. Mixing models suggest bivalves and annelids are proportionally more important prey in the stingray diet than crustaceans and teleosts at Glovers Reef, in contrast to all but one published diet study using stomach contents from other locations. Incorporating gut contents information from the literature, we suggest diet-tissue discrimination factors values of Δ(15)N ≈ 2.7‰ and Δ(13)C ≈ 0.9‰ for stingrays in the absence of validation experiments. The wide trophic niche and lower trophic level exhibited by stingrays compared to sympatric sharks supports their putative role as important base stabilisers in benthic systems, with the potential to absorb trophic perturbations through numerous opportunistic prey interactions.

Zooplankton trophic niches respond to different water types of the western Tasman Sea: A stable isotope analysis

NASA Astrophysics Data System (ADS)

Henschke, Natasha; Everett, Jason D.; Suthers, Iain M.; Smith, James A.; Hunt, Brian P. V.; Doblin, Martina A.; Taylor, Matthew D.

2015-10-01

The trophic relationships of 21 species from an oceanic zooplankton community were studied using stable isotopes of carbon and nitrogen. Zooplankton and suspended particulate organic matter (POM) were sampled in three different water types in the western Tasman Sea: inner shelf (IS), a cold core eddy (CCE) and a warm core eddy (WCE). δ15N values ranged from 3.9‰ for the parasitic copepod Sapphirina augusta to 10.2‰ for the euphausiid, Euphausia spinifera. δ13C varied from -22.6 to -19.4‰ as a result of the copepod Euchirella curticauda and E. spinifera. The isotopic composition of POM varied significantly among water types; as did the trophic enrichment of zooplankton over POM, with the lowest enrichment in the recently upwelled IS water type (0.5‰) compared to the warm core eddy (1.6‰) and cold core eddy (2.7‰). The WCE was an oligotrophic environment and was associated with an increased trophic level for omnivorous zooplankton (copepods and euphausiids) to a similar level as carnivorous zooplankton (chaetognaths). Therefore carnivory in zooplankton can increase in response to lower abundance and reduced diversity in their phytoplankton and protozoan prey. Trophic niche width comparisons across three zooplankton species: the salp Thalia democratica, the copepod Eucalanus elongatus and the euphausiid Thysanoessa gregaria, indicated that both niche partitioning and competition can occur within the zooplankton community. We have shown that trophic relationships among the zooplankton are dynamic and respond to different water types. The changes to the zooplankton isotopic niche, however, were still highly variable as result of oceanographic variation within water types.

Characterization of sub-0.18-μm critical dimension pattern collapse for yield improvement

NASA Astrophysics Data System (ADS)

Zhong, Tom X.; Gurer, Emir; Lee, Ed C.; Bai, Hong; Gendron, Bill; Krishna, Murthy S.; Reynolds, Reese M.

1999-09-01

In this study, we demonstrate that surface-resist interface interactions are becoming more crucial in DUV lithography as we enter deep into the sub-wavelength era of smaller critical dimension (CD) size and high aspect ratio. This interaction reveals itself as an adhesion reduction of the resist film due to the smaller contact area between the feature and the substrate. Considerable yield improvements in a manufacturing environment can be realized if pattern collapsing of smaller features is prevented by means of proper priming. In addition, next generation photoresist processing equipments must be able to deliver excellent on-wafer results with minimum chemical consumption as environmental health and safety (EHS) requirements are better appreciated in the marketplace. HMDS is not only highly toxic but it is also a prime threat to CD control of most deep ultra violet (DUV) photoresists used for sub-0.18 micrometer design rules. The by-product NH3 created during priming process with HMDS can neutralize the photo-acid created during the exposure step. There are many technical opportunities in this usually neglected priming process step. In this study, we characterized sub-0.18 micrometer isolated line pattern collapse for UV5 resist on bare Si wafers by using a scanning electron microscope (SEM). The smallest line width printability on wafers primed with different contact angles was analyzed by using both top down and cross section SEM images. Our results show that there is a strong effect of substrate surface and film interface interaction on device yields. More specifically, there is a strong correlation between pattern integrity of features down to 115 nm and vapor prime process conditions. In general, wafers with higher contact angle can support smaller line widths. These results suggest that higher contact angle than the current specification will be required for sub-0.1 micrometer design rule for improved yield. An alternative material to HMDS will probably be needed due to more stringent future requirements and weak bonding characteristics of HMDS. Based on the result of this study, we propose an HMDS consumption reduction scheme for line-widths above 0.2 micrometer. There are many priming-related modular and system level technical enhancements that can be designed in the next generation photoresist processing tools in order to extend 248 nm lithography towards smaller feature sizes.

Discrete Element Simulations of Density-Driven Volcanic Deformation: Applications to Martian Caldera Complexes

NASA Astrophysics Data System (ADS)

Zivney, L. L.; Morgan, J. K.; McGovern, P. J.

2009-12-01

We have carried out 2-D numerical simulations using the discrete element method (DEM) to investigate density-driven deformation in Martian volcanic edifices. Our initial simulations demonstrated that gravitationally-driven settling of a dense, ductile cumulate body within a volcano causes enhanced lateral spreading of the edifice flanks, influencing the overall volcano morphology and generating pronounced summit subsidence. Here, we explore the effects of cumulate bodies and their geometries on the generation of summit calderas, to gain insight into the origin of Martian caldera complexes, in particular the Olympus Mons and Arsia Mons calderas. The Olympus Mons caldera, roughly 80 km in diameter, is composed of several small over-lapping craters with steep walls, thought to be produced by episodic collapse events of multiple shallow magma chambers. The Arsia Mons caldera spans ~130 km across and displays one prominent crater with gently sloping margins, possibly reflecting the collapse of a single magma chamber. Although the depth of the magma chamber is debated, its lateral width is thought to approximate the diameter of the caldera. Our models indicate that cumulate bodies located at shallow depths of <10 km below the edifice surface produce caldera complexes on the order of 80-100 km in width, with increasing cumulate widths producing widening calderas. Narrow cumulate bodies with densities near 4000 kg/m3 produce the deepest calderas (up to ~8 km deep). We conclude that the generation of large Arsia-type calderas may be adequately modeled by the presence of a wide cumulate body found at shallow depths beneath the summit. Although we do not model the multiple magma chamber systems thought to exist beneath the Olympus Mons summit, the closely spaced craters and the small size of the caldera relative to the size of the volcano (~13% of the edifice) suggests that the cumulate body would be narrow; our simulations of a single narrow cumulate body are capable of generating summit subsidence that is similar in dimension to the Olympus Mons caldera. Our findings suggest that cumulate spreading may play a primary role in the long-term development of caldera geometry, although the collapse of magma reservoirs (not modeled here) may cause important short-term changes in caldera structure.

Comparison of Fluoroscopy and Computed Tomography for Tracheal Lumen Diameter Measurement and Determination of Intraluminal Stent Size in Healthy Dogs

PubMed Central

Williams, Jackie M.; Krebs, Ingar A.; Riedesel, Elizabeth A.; Zhao, Qianqian

2015-01-01

Tracheal collapse is a progressive airway disease that can ultimately result in complete airway obstruction. Intraluminal tracheal stents are a minimally invasive and viable treatment for tracheal collapse once the disease becomes refractory to medical management. Intraluminal stent size is chosen based on the maximum measured tracheal diameter during maximum inflation. The purpose of this prospective, cross-sectional study was to compare tracheal lumen diameter measurements and subsequent selected stent size using both fluoroscopy and CT and to evaluate inter- and intraobserver variability of the measurements. Seventeen healthy Beagles were anesthetized and imaged with fluoroscopy and CT with positive pressure ventilation to 20 cm H2O. Fluoroscopic and CT maximum tracheal diameters were measured by 3 readers. Three individual measurements were made at 8 pre-determined tracheal sites for dorsoventral (height) and laterolateral (width) dimensions. Tracheal diameters and stent sizes (based on the maximum tracheal diameter + 10%) were analyzed using a linear mixed model. CT tracheal lumen diameters were larger compared to fluoroscopy at all locations. When comparing modalities, fluoroscopic and CT stent sizes were statistically different. Greater overall variation in tracheal diameter measurement (height or width) existed for fluoroscopy compared to CT, both within and among observers. The greater tracheal diameter and lower measurement variability supported the use of CT for appropriate stent selection to minimize complications in veterinary patients. PMID:26784924

Luminescence from cavitation bubbles deformed in uniform pressure gradients

NASA Astrophysics Data System (ADS)

Supponen, Outi; Obreschkow, Danail; Kobel, Philippe; Farhat, Mohamed

2017-09-01

Presented here are observations that demonstrate how the deformation of millimetric cavitation bubbles by a uniform pressure gradient quenches single-collapse luminescence. Our innovative measurement system captures a broad luminescence spectrum (wavelength range, 300-900 nm) from the individual collapses of laser-induced bubbles in water. By varying the bubble size, driving pressure, and perceived gravity level aboard parabolic flights, we probed the limit from aspherical to highly spherical bubble collapses. Luminescence was detected for bubbles of maximum radii within the previously uncovered range, R0=1.5 -6 mm, for laser-induced bubbles. The relative luminescence energy was found to rapidly decrease as a function of the bubble asymmetry quantified by the anisotropy parameter ζ , which is the dimensionless equivalent of the Kelvin impulse. As established previously, ζ also dictates the characteristic parameters of bubble-driven microjets. The threshold of ζ beyond which no luminescence is observed in our experiment closely coincides with the threshold where the microjets visibly pierce the bubble and drive a vapor jet during the rebound. The individual fitted blackbody temperatures range between Tlum=7000 and Tlum=11 500 K but do not show any clear trend as a function of ζ . Time-resolved measurements using a high-speed photodetector disclose multiple luminescence events at each bubble collapse. The averaged full width at half-maximum of the pulse is found to scale with R0 and to range between 10 and 20 ns.

Intermittent inflations recorded by broadband seismometers prior to caldera formation at Miyake-jima volcano in 2000

NASA Astrophysics Data System (ADS)

Kobayashi, Tomokazu; Ohminato, Takao; Ida, Yoshiaki; Fujita, Eisuke

2012-12-01

Very-long-period (VLP) pulses with widths of 20 s on velocity seismograms were observed during volcanic activity at Miyake-jima Volcano, Japan in 2000. The VLP events occurred repeatedly during a few days prior to caldera formation and essentially vanished following the onset of caldera collapse. Waveform inversions of the pulse-like signals point to a source offset 3.5 km beneath and 1 km south of the summit. A candidate for the source mechanism is the inflation of an elliptical cylinder with axis tilted 20-30° from vertical and major axis of the elliptical cross section oriented northeast-southwest. The inferred mechanism appears consistent with a step-like pressurization of a magma reservoir impacted by a falling rock mass in response to gravitational instability. The repeated occurrences of the rock collapses lead to the caldera formation at Miyake-jima.

Bending and buckling of viscoplastic threads

NASA Astrophysics Data System (ADS)

Hewitt, Ian; Balmforth, Neil

2012-11-01

We use a slender body theory to describe the dynamics of a thin viscoplastic thread undergoing extrusion, such as occurs when squeezing toothpaste from a tube. The theory adopts the Bingham model for a yield stress fluid, together with an asymptotic approximation for the stress and strain-rate profiles across the narrow width of the thread, which imply that the thread must either be rigid or fully yielded across its entire width. A compact description of the resultant longitudinal stress and moment acting on the thread allows these yielded and unyielded regions to be identified for given external forces. The theory is applied to extrusion flows; the yield stress prevents any deformation until a critical length of extrusion is reached, after which the dynamically evolving yielded regions mediate a distinctive drooping of a horizontal beam, or a catastrophic collapse of an upright beam.

In situ curing of sliding SU-8 droplet over a microcontact printed pattern for tunable fabrication of a polydimethylsiloxane nanoslit.

PubMed

Kim, Chang-Beom; Chun, Honggu; Chung, JaeHun; Lee, Kwang Ho; Lee, Jeong Hoon; Song, Ki-Bong; Lee, Sang-Hoon

2011-09-15

A tunable process for polydimethylsiloxane (PDMS) nanoslit fabrication is developed for nanofluidic applications. A microcontact printing (μCP) of a laterally spreading self-assembled hexadecanethiol (HDT) layer, combined with in situ curing of a sliding SU-8 droplet, enables precise and independent tuning of a nanoslit-mold width and height using a single μCP master mold. The SU-8 nanoslit-mold is replicated using a hard-soft composite PDMS to prevent channel collapse at low (<0.2) aspect ratio (height over width). The fluidic characteristics as well as dimensions of nanoslits fabricated with various conditions are analyzed using a fluorescein sample and AFM images. Finally, concentration polarization-based sample preconcentration is successfully demonstrated at the nanoslit boundary where an electric double-layer is overlapped.

Ascraeus Depression

NASA Technical Reports Server (NTRS)

2005-01-01

29 December 2005 This Mars Global Surveyor (MGS) Mars Orbiter Camera (MOC) image shows house-sized boulders and layered volcanic rock exposed in a pit on the north flank of the giant Tharsis volcano, Ascraeus Mons. The pit most likely formed by collapse. Dust mantles much of the surrounding terrain and the pit floor.

Location near: 12.9oN, 101.6oW Image width: 3 km (1.9 mi) Illumination from: lower left Season: Southern Winter

Fast carnivores and slow herbivores: differential foraging strategies among grizzly bears in the Canadian Arctic.

PubMed

Edwards, Mark A; Derocher, Andrew E; Hobson, Keith A; Branigan, Marsha; Nagy, John A

2011-04-01

Categorizing animal populations by diet can mask important intrapopulation variation, which is crucial to understanding a species' trophic niche width. To test hypotheses related to intrapopulation variation in foraging or the presence of diet specialization, we conducted stable isotope analysis (δ(13)C, δ(15)N) on hair and claw samples from 51 grizzly bears (Ursus arctos) collected from 2003 to 2006 in the Mackenzie Delta region of the Canadian Arctic. We examined within-population differences in the foraging patterns of males and females and the relationship between trophic position (derived from δ(15)N measurements) and individual movement. The range of δ(15)N values in hair and claw (2.0-11.0‰) suggested a wide niche width and cluster analyses indicated the presence of three foraging groups within the population, ranging from near-complete herbivory to near-complete carnivory. We found no linear relationship between home range size and trophic position when the data were continuous or when grouped by foraging behavior. However, the movement rate of females increased linearly with trophic position. We used multisource dual-isotope mixing models to determine the relative contributions of seven prey sources within each foraging group for both males and females. The mean bear dietary endpoint across all foraging groups for each sex fell toward the center of the mixing polygon, which suggested relatively well-mixed diets. The primary dietary difference across foraging groups was the proportional contribution of herbaceous foods, which decreased for both males and females from 42-76 to 0-27% and 62-81 to 0-44%, respectively. Grizzlies of the Mackenzie Delta live in extremely harsh conditions and identifying within-population diet specialization has improved our understanding of varying habitat requirements within the population.

Long-term hydrocephalus alters the cytoarchitecture of the adult subventricular zone

PubMed Central

Campos-Ordoñez, Tania; Herranz-Pérez, Vicente; Chaichana, Kaisorn L.; Rincon-Torroella, Jordina; Rigamonti, Daniele; García-Verdugo, Jose M.; Quiñones-Hinojosa, Alfredo; Gonzalez-Perez, Oscar

2014-01-01

Hydrocephalus can develop secondarily to a disturbance in production, flow and/or absorption of cerebrospinal fluid. Experimental models of hydrocephalus, especially subacute and chronic hydrocephalus, are few and limited, and the effects of hydrocephalus on the subventricular zone are unclear. The aim of this study was to analyze the effects of long-term obstructive hydrocephalus on the subventricular zone, which is the neurogenic niche lining the lateral ventricles. We developed a new method to induce hydrocephalus by obstructing the aqueduct of Sylvius in the mouse brain, thus simulating aqueductal stenosis in humans. In 120-day-old rodents (n = 18 per group), the degree of ventricular dilatation and cellular composition of the subventricular zone were studied by immunofluorescence and transmission electron microscopy. In adult patients (age > 18 years), the sizes of the subventricular zone, corpus callosum, and internal capsule were analyzed by magnetic resonance images obtained from patients with and without aqueductal stenosis (n=25 per group). Mice with 60-day hydrocephalus had a reduced number of Ki67+ and doublecortin+ cells on immunofluorescence, as well as decreased number of neural progenitors and neuroblasts in the subventricular zone on electron microscopy analysis as compared to non-hydrocephalic mice. Remarkably, a number of extracellular matrix structures (fractones) contacting the ventricular lumen and blood vessels were also observed around the subventricular zone in mice with hydrocephalus. In humans, the widths of the subventricular zone, corpus callosum, and internal capsule in patients with aqueductal stenosis were significantly smaller than age and gender-matched patients without aqueductal stenosis. In summary, supratentorial hydrocephalus reduces the proliferation rate of neural progenitors and modifies the cytoarchitecture and extracellular matrix compounds of the subventricular zone. In humans, this similar process reduces the subventricular niche as well as the width of corpus callosum and internal capsule. PMID:24858805

Trophic ecology and gill raker morphology of seven catostomid species in Iowa rivers

USGS Publications Warehouse

Spiegel, J.R.; Quist, M.C.; Morris, J.E.

2011-01-01

Understanding the trophic ecology of closely-related species is important for providing insight on inter-specific competition and resource partitioning. Although catostomids often dominate fish assemblages in lotic systems, little research has been conducted on their ecology. This study was developed to provide information on the trophic ecology of catostomids in several Iowa rivers. Food habits, diet overlap, and gill raker morphology were examined for highfin carpsucker Carpiodes velifer, quillback C.??cyprinus, river carpsucker C.??carpio, golden redhorse Moxostoma erythrurum, shorthead redhorse M.??macrolepidotum, silver redhorse M.??anisurum, and northern hogsucker Hypentelium nigricans sampled from four Iowa rivers (2009). Diet overlap among all species was calculated with Morista's index (C). Food habit niche width was quantified with Levin's index (B) and similarity in gill raker morphology was compared with analysis of covariance. Values from Morista's index suggested significant overlap in the diets of highfin carpsucker and river carpsucker (C=0.81), quillback and river carpsucker (C=0.66), and shorthead redhorse and silver redhorse (C=0.67). Levin's index indicated that golden redhorse (B=0.32), quillback (B=0.53), and river carpsucker (B=0.41) had the most generalized feeding strategies as their food niche widths were substantially wider than the other species. Gill raker length and spacing were positively correlated with the standard length of the fish for all species (gill raker length: r2=0.67-0.88, P???0.01; gill raker spacing: r2=0.63-0.73, P???0.01). Slopes of regression of gill raker length and spacing to standard lengths were significantly (P???0.05) different among species, indicating that rates of change in gill raker morphology with body length varied among species. Differences in gill raker morphology likely allow catostomids to partition resources and reduce competitive interactions. ?? 2011.

Anomalous critical behavior in the polymer collapse transition of three-dimensional lattice trails.

PubMed

Bedini, Andrea; Owczarek, Aleksander L; Prellberg, Thomas

2012-07-01

Trails (bond-avoiding walks) provide an alternative lattice model of polymers to self-avoiding walks, and adding self-interaction at multiply visited sites gives a model of polymer collapse. Recently a two-dimensional model (triangular lattice) where doubly and triply visited sites are given different weights was shown to display a rich phase diagram with first- and second-order collapse separated by a multicritical point. A kinetic growth process of trails (KGTs) was conjectured to map precisely to this multicritical point. Two types of low-temperature phases, a globule phase and a maximally dense phase, were encountered. Here we investigate the collapse properties of a similar extended model of interacting lattice trails on the simple cubic lattice with separate weights for doubly and triply visited sites. Again we find first- and second-order collapse transitions dependent on the relative sizes of the doubly and triply visited energies. However, we find no evidence of a low-temperature maximally dense phase with only the globular phase in existence. Intriguingly, when the ratio of the energies is precisely that which separates the first-order from the second-order regions anomalous finite-size scaling appears. At the finite-size location of the rounded transition clear evidence exists for a first-order transition that persists in the thermodynamic limit. This location moves as the length increases, with its limit apparently at the point that maps to a KGT. However, if one fixes the temperature to sit at exactly this KGT point, then only a critical point can be deduced from the data. The resolution of this apparent contradiction lies in the breaking of crossover scaling and the difference in the shift and transition width (crossover) exponents.

Chesapeake Bay impact structure: Morphology, crater fill, and relevance for impact structures on Mars

USGS Publications Warehouse

Horton, J. Wright; Ormo, J.; Powars, D.S.; Gohn, G.S.

2006-01-01

The late Eocene Chesapeake Bay impact structure (CBIS) on the Atlantic margin of Virginia is one of the largest and best-preserved "wet-target" craters on Earth. It provides an accessible analog for studying impact processes in layered and wet targets on volatile-rich planets. The CBIS formed in a layered target of water, weak clastic sediments, and hard crystalline rock. The buried structure consists of a deep, filled central crater, 38 km in width, surrounded by a shallower brim known as the annular trough. The annular trough formed partly by collapse of weak sediments, which expanded the structure to ???85 km in diameter. Such extensive collapse, in addition to excavation processes, can explain the "inverted sombrero" morphology observed at some craters in layered targets. The distribution of crater-fill materials i n the CBIS is related to the morphology. Suevitic breccia, including pre-resurge fallback deposits, is found in the central crater. Impact-modified sediments, formed by fluidization and collapse of water-saturated sand and silt-clay, occur in the annular trough. Allogenic sediment-clast breccia, interpreted as ocean-resurge deposits, overlies the other impactites and covers the entire crater beneath a blanket of postimpact sediments. The formation of chaotic terrains on Mars is attributed to collapse due to the release of volatiles from thick layered deposits. Some flat-floored rimless depressions with chaotic infill in these terrains are impact craters that expanded by collapse farther than expected for similar-sized complex craters in solid targets. Studies of crater materials in the CBIS provide insights into processes of crater expansion on Mars and their links to volatiles. ?? The Meteoritical Society, 2006.

Experimental and numerical study of the effects of a wall on the coalescence and collapse of bubble pairs

NASA Astrophysics Data System (ADS)

Han, Rui; Zhang, A.-Man; Li, Shuai; Zong, Zhi

2018-04-01

Two-bubble interaction is the most fundamental problem in multi-bubbles dynamics, which is crucial in many practical applications involving air-gun arrays and underwater explosions. In this paper, we experimentally and numerically investigate coalescence, collapse, and rebound of non-buoyant bubble pairs below a rigid wall. Two oscillating vapor bubbles with similar size are generated simultaneously near a rigid wall in axisymmetric configuration using the underwater electric discharge method, and the physical process is captured by a high-speed camera. Numerical simulations are conducted based on potential flow theory coupled with the boundary integral method. Our numerical results show excellent agreement with the experimental data until the splashing of the jet impact sets in. With different ranges of γbw (the dimensionless distance between the rigid wall and the nearest bubble center), the interaction between the coalesced bubble and the rigid wall is divided into three types, i.e., "weak," "intermediate," and "strong." As γbw decreases, the contact point of the two axial jets migrates toward the wall. In "strong interaction" cases, only an upward jet towards the upper rigid wall forms and a secondary jet with a larger width appears at the base of the first jet. The collapsing coalesced bubble in a toroidal form splits into many smaller bubbles due to the instabilities and presents as bubble clouds during the rebounding phase, which may lead to a weakened pressure wave because the focusing energy associated with the collapsing bubble is disintegrated.

Numerical 3D flow simulation of ultrasonic horns with attached cavitation structures and assessment of flow aggressiveness and cavitation erosion sensitive wall zones.

PubMed

Mottyll, Stephan; Skoda, Romuald

2016-07-01

As a contribution to a better understanding of cavitation erosion mechanisms, a compressible inviscid finite volume flow solver with barotropic homogeneous liquid-vapor mixture cavitation model is applied to ultrasonic horn set-ups with and without stationary specimen, that exhibit attached cavitation at the horn tip. Void collapses and shock waves, which are closely related to cavitation erosion, are resolved. The computational results are compared to hydrophone, shadowgraphy and erosion test data. At the horn tip, vapor volume and topology, subharmonic oscillation frequency as well as the amplitude of propagating pressure waves are in good agreement with experimental data. For the evaluation of flow aggressiveness and the assessment of erosion sensitive wall zones, statistical analyses of wall loads and of the multiplicity of distinct collapses in wall-adjacent flow regions are applied to the horn tip and the stationary specimen. An a posteriori projection of load collectives, i.e. cumulative collapse rate vs. collapse pressure, onto a reference grid eliminates the grid dependency effectively for attached cavitation at the horn tip, whereas a significant grid dependency remains at the stationary specimen. The load collectives show an exponential decrease towards higher collapse pressures. Erosion sensitive wall zones are well predicted for both, horn tip and stationary specimen, and load profiles are in good qualitative agreement with measured topography profiles of eroded duplex stainless steel samples after long-term runs. For the considered amplitude and gap width according to ASTM G32-10 standard, the analysis of load collectives reveals that the distinctive erosive ring shape at the horn tip can be attributed to frequent breakdown and re-development of a small portion of the tip-attached cavity. This partial breakdown of the attached cavity repeats at each driving cycle and is associated with relatively moderate collapse peak pressures, whereas the stationary specimen is rather unfrequently stressed at the end of each subharmonic oscillation cycle by the violent collapse of the complete cavity. Copyright © 2016 Elsevier B.V. All rights reserved.

Graphene Statistical Mechanics

NASA Astrophysics Data System (ADS)

Bowick, Mark; Kosmrlj, Andrej; Nelson, David; Sknepnek, Rastko

2015-03-01

Graphene provides an ideal system to test the statistical mechanics of thermally fluctuating elastic membranes. The high Young's modulus of graphene means that thermal fluctuations over even small length scales significantly stiffen the renormalized bending rigidity. We study the effect of thermal fluctuations on graphene ribbons of width W and length L, pinned at one end, via coarse-grained Molecular Dynamics simulations and compare with analytic predictions of the scaling of width-averaged root-mean-squared height fluctuations as a function of distance along the ribbon. Scaling collapse as a function of W and L also allows us to extract the scaling exponent eta governing the long-wavelength stiffening of the bending rigidity. A full understanding of the geometry-dependent mechanical properties of graphene, including arrays of cuts, may allow the design of a variety of modular elements with desired mechanical properties starting from pure graphene alone. Supported by NSF grant DMR-1435794

Sub-surface structures and collapse mechanisms of summit pit craters

NASA Astrophysics Data System (ADS)

Roche, O.; van Wyk de Vries, B.; Druitt, T. H.

2001-01-01

Summit pit craters are found in many types of volcanoes and are generally thought to be the product of collapse into an underpressured reservoir caused by magma withdrawal. We investigate the mechanisms and structures associated with summit pit crater formation by scaled analogue experiments and make comparisons with natural examples. Models use a sand plaster mixture as analogue rock over a cylinder of silicone simulating an underpressured magma reservoir. Experiments are carried out using different roof aspect ratios (roof thickness/roof width) of 0.2-2. They reveal two basic collapse mechanisms, dependant on the roof aspect ratio. One occurs at low aspect ratios (≤1), as illustrated by aspect ratios of 0.2 and 1. Outward dipping reverse faults initiated at the silicone margins propagates through the entire roof thickness and cause subsidence of a coherent block. Collapse along the reverse faults is accommodated by marginal flexure of the block and tension fractures at the surface (aspect ratio of 0.2) or by the creation of inward dipping normal faults delimiting a terrace (aspect ratio of 1). At an aspect ratio of 1, overhanging pit walls are the surface expressions of the reverse faults. Experiments at high aspect ratio (>1.2) reveal a second mechanism. In this case, collapse occurs by stopping, which propagates upwards by a complex pattern of both reverse faults and tension fractures. The initial underground collapse is restricted to a zone above the reservoir and creates a cavity with a stable roof above it. An intermediate mechanism occurs at aspect ratios of 1.1-1.2. In this case, stopping leads to the formation of a cavity with a thin and unstable roof, which collapses suddenly. The newly formed depression then exhibits overhanging walls. Surface morphology and structure of natural examples, such as the summit pit craters at Masaya Volcano, Nicaragua, have many of the features created in the models, indicating that the internal structural geometry of experiments can be applied to real examples. In particular, the surface area and depth of the underpressured reservoir can be roughly estimated. We present a morphological analysis of summit pit craters at volcanoes such as Kilimanjaro (Tanzania), San Cristobal, Telica and Masaya (Nicaragua), and Ubinas (Peru), and indicate a likely type of subsidence and possible position of the former magma reservoir responsible for collapse in each case.

On the abrupt growth dynamics of nonlinear resistive tearing mode and the viscosity effects

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ali, A.; Li, Jiquan, E-mail: lijq@energy.kyoto-u.ac.jp; Kishimoto, Y.

2014-05-15

The nonlinear evolution of the resistive tearing mode exhibits an abrupt growth after an X-point collapse once the magnetic island exceeds a certain critical width Δ′w{sub c} for large instability parameter Δ′, leading to a current sheet formation [N. F. Loureiro et al., Phys. Rev. Lett. 95, 235003 (2005)]. In this work, we investigate the underlying mechanism of the X-point collapse as well as the current sheet formation including the viscosity effects, based on a secondary instability analysis. The secondary instability is excited due to the quasilinear current modification by the zonal current. In particular, it is identified that themore » current peaking effect is plausibly responsible for the onset of the X-point collapse and the current sheet formation, leading to the explosive growth of reconnected flux. In the presence of finite viscosity, the Δ′w{sub c} scaling with the resistivity gets modified. A transition behavior is revealed at P{sub r}≈1 for the viscosity dependence of Δ′w{sub c} and the linear tearing instability. However, the explosive growth seems to be independent of the viscosity in the magnetic Prandtl number P{sub r}<1 regime, while large viscosity plays a strong dissipation role.« less

Coherent wave packet dynamics in a double-well potential in cavity

NASA Astrophysics Data System (ADS)

Zheng, Li; Li, Gang; Ding, Ming-Song; Wang, Yong-Liang; Zhang, Yun-Cui

2018-02-01

We investigate the coherent wave packet dynamics of a two-level atom trapped in a symmetric double-well potential in a near-resonance cavity. Prepared on one side of the double-well potential, the atom wave packet oscillates between the left and right wells, while recoil induced by the emitted photon from the atom entangles the atomic internal and external degrees of freedom. The collapse and revival of the tunneling occurs. Adjusting the width of the wave packets, one can modify the tunneling frequency and suppress the tunneling.

Differential use of fresh water environments by wintering waterfowl of coastal Texas

USGS Publications Warehouse

White, D.H.; James, D.

1978-01-01

A comparative study of the environmental relationships among 14 species of wintering waterfowl was conducted at the Welder Wildlife Foundation, San Patricia County, near Sinton, Texas during the fall and early winter of 1973. Measurements of 20 environmental factors (social, vegetational, physical, and chemical) were subjected to multivariate statistical methods to determine certain niche characteristics and environmental relationships of waterfowl wintering in the aquatic community.....Each waterfowl species occupied a unique realized niche by responding to distinct combinations of environmental factors identified by principal component analysis. One percent confidence ellipses circumscribing the mean scores plotted for the first and second principal components gave an indication of relative niche width for each species. The waterfowl environments were significantly different interspecifically and water depth at feeding site and % emergent vegetation were most important in the separation. This was shown by subjecting the transformed data to multivariate analysis of variance with an associated step-down procedure. The species were distributed along a community cline extending from shallow water with abundant emergent vegetation to open deep water with little emergent vegetation of any kind. Four waterfowl subgroups were significantly separated along the cline, as indicated by one-way analysis of variance with Duncan?s multiple range test. Clumping of the bird species toward the middle of the available habitat hyperspace was shown in a plot of the principal component scores for the random samples and individual species.....Naturally occurring relationships among waterfowl were clarified using principal comcomponent analysis and related multivariate procedures. These techniques may prove useful in wetland management for particular groups of waterfowl based on habitat preferences.

Fine-scale in situ measurement of riverbed nitrate production and consumption in an armored permeable riverbed.

PubMed

Lansdown, Katrina; Heppell, Catherine M; Dossena, Matteo; Ullah, Sami; Heathwaite, A Louise; Binley, Andrew; Zhang, Hao; Trimmer, Mark

2014-04-15

Alteration of the global nitrogen cycle by man has increased nitrogen loading in waterways considerably, often with harmful consequences for aquatic ecosystems. Dynamic redox conditions within riverbeds support a variety of nitrogen transformations, some of which can attenuate this burden. In reality, however, assessing the importance of processes besides perhaps denitrification is difficult, due to a sparseness of data, especially in situ, where sediment structure and hydrologic pathways are intact. Here we show in situ within a permeable riverbed, through injections of (15)N-labeled substrates, that nitrate can be either consumed through denitrification or produced through nitrification, at a previously unresolved fine (centimeter) scale. Nitrification and denitrification occupy different niches in the riverbed, with denitrification occurring across a broad chemical gradient while nitrification is restricted to more oxic sediments. The narrow niche width for nitrification is in effect a break point, with the switch from activity "on" to activity "off" regulated by interactions between subsurface chemistry and hydrology. Although maxima for denitrification and nitrification occur at opposing ends of a chemical gradient, high potentials for both nitrate production and consumption can overlap when groundwater upwelling is strong.

Renormalization group study of the melting of a two-dimensional system of collapsing hard disks

NASA Astrophysics Data System (ADS)

Ryzhov, V. N.; Tareyeva, E. E.; Fomin, Yu. D.; Tsiok, E. N.; Chumakov, E. S.

2017-06-01

We consider the melting of a two-dimensional system of collapsing hard disks (a system with a hard-disk potential to which a repulsive step is added) for different values of the repulsive-step width. We calculate the system phase diagram by the method of the density functional in crystallization theory using equations of the Berezinskii-Kosterlitz-Thouless-Halperin-Nelson-Young theory to determine the lines of stability with respect to the dissociation of dislocation pairs, which corresponds to the continuous transition from the solid to the hexatic phase. We show that the crystal phase can melt via a continuous transition at low densities (the transition to the hexatic phase) with a subsequent transition from the hexatic phase to the isotropic liquid and via a first-order transition. Using the solution of renormalization group equations with the presence of singular defects (dislocations) in the system taken into account, we consider the influence of the renormalization of the elastic moduli on the form of the phase diagram.

The conductive propagation of nuclear flames. I - Degenerate C + O and O + Ne + Mg white dwarfs

NASA Technical Reports Server (NTRS)

Timmes, F. X.; Woosley, S. E.

1992-01-01

The paper determines the physical properties - speed, width, and density structure - of conductive burning fronts in degenerate carbon-oxygen (C + O) and oxygen-neon-magnesium (O + Ne + Mg) compositions for a grid of initial densities and compositions. The dependence of the physical properties of the flame on the assumed values of nuclear reaction rates, the nuclear reaction network employed, the thermal conductivity, and the choice of coordinate system are investigated. The occurrence of accretion-induced collapse of a white dwarf is found to be critically dependent on the velocity of the nuclear conductive burning front and the growth rate of hydrodynamic instabilities. Treating the expanding area of the turbulent burning region as a fractal whose tile size is identical to the minimum unstable Rayleigh-Taylor wavelength, it is found, for all reasonable values of the fractal dimension, that for initial C + O or O + Ne + Mg densities above about 9 x 10 exp 9 g/cu cm the white dwarf should collapse to a neutron star.

The Edge

NASA Technical Reports Server (NTRS)

2006-01-01

6 April 2006 This Mars Global Surveyor (MGS) Mars Orbiter Camera (MOC) image shows the edge (running diagonally from the lower left to the upper right) of a trough, which is part of a large pit crater complex in Noachis Terra. This type of trough forms through the collapse of surface materials into the subsurface, and often begins as a series of individual pit craters. Over time, continued collapse increases the diameter of individual pits until finally, adjacent pits merge to form a trough such as the one captured in this image. The deep shadowed area is caused in part by an overhang; layered rock beneath this overhang is less resistant to erosion, and thus has retreated tens of meters backward, beneath the overhang. A person could walk up inside this 'cave' formed by the overhanging layered material.

Location near: 47.0oS, 355.7oW Image width: 3 km (1.9 mi) Illumination from: upper left Season: Southern Summer

High-volume manufacturing compatible dry development rinse process (DDRP): patterning and defectivity performance for EUVL

NASA Astrophysics Data System (ADS)

Sayan, Safak; Vanelderen, Pieter; Hetel, Iulian; Chan, BT; Raghavan, Praveen; Blanco, Victor; Foubert, Philippe; D'urzo, Lucia; De Simone, Danilo; Vandenberghe, Geert

2017-04-01

There are many knobs available that change the chemical and physical properties of the photoresists to "break" the RLS (Resolution, Sensitivity, Line edge/width roughness) trade-off, however those are not enough today to realize a material to satisfy all requirements at once for 7nm technology and beyond. DDRP improves the ultimate achievable resolution via pattern collapse mitigation, hence the priority of requirements for the EUV photoresist development may be changed with more focus on Sensitivity and LWR. This may potentially provide a new conceptual approach towards EUV PR development for DDRP applications. We have previously demonstrated pattern collapse (PC) mitigation via DDRP on different EUVL photoresists (including different resist platforms), achieving ultimate resolution and exposure latitude improvements [1,2]. In this contribution, we report patterning and material defect performance of HVM compatible (all aqueous) dry development rinse material. We will also report on process window improvement on 2-dimensional metal structures towards standard cell size reduction with elimination of mask layer(s) using single EUV exposure.

Structural changes of marine communities over the Permian-Triassic transition: Ecologically assessing the end-Permian mass extinction and its aftermath

NASA Astrophysics Data System (ADS)

Chen, Zhong-Qiang; Tong, Jinnan; Liao, Zhuo-Ting; Chen, Jing

2010-08-01

The Permian/Triassic (P/Tr) transition is ecologically assessed based on examining 23 shelly communities from five shallow platform, ramp and shelf basin facies Permian-Triassic boundary (PTB) sections in South China. The shelly communities have undergone two major collapses coinciding with the two episodes of the end-Permian mass extinction. The first P/Tr extinction event devastated shelly communities in all types of settings to some extent. The basin communities have been more severely impacted than both platform and ramp communities. The survival faunas have rebounded more rapidly in shallow niches than in relatively deep habitats. The second P/Tr crisis destroyed the survival communities in shallow setting and had little impact on the basin communities in terms of community structures. The early Griesbachian communities are overall low-diversity and high-dominance. The governorship switch from brachiopods to bivalves in marine communities has been facilitated by two pulses of the end-Permian mass extinction and the whole takeover process took about 200 ka across the P/Tr boundary. Bivalve ecologic takeover initially occurred immediately after the first P/Tr extinction in shallow water habitats and was eventually completed in all niches after the second P/Tr event. Some post-extinction communities have the irregular rarefaction curves due to the unusual community structures rather than sampling intensities.

Sloshing of a bubbly magma reservoir as a mechanism of triggered eruptions

NASA Astrophysics Data System (ADS)

Namiki, Atsuko; Rivalta, Eleonora; Woith, Heiko; Walter, Thomas R.

2016-06-01

Large earthquakes sometimes activate volcanoes both in the near field as well as in the far field. One possible explanation is that shaking may increase the mobility of the volcanic gases stored in magma reservoirs and conduits. Here experimentally and theoretically we investigate how sloshing, the oscillatory motion of fluids contained in a shaking tank, may affect the presence and stability of bubbles and foams, with important implications for magma conduits and reservoirs. We adopt this concept from engineering: severe earthquakes are known to induce sloshing and damage petroleum tanks. Sloshing occurs in a partially filled tank or a fully filled tank with density-stratified fluids. These conditions are met at open summit conduits or at sealed magma reservoirs where a bubbly magma layer overlays a newly injected denser magma layer. We conducted sloshing experiments by shaking a rectangular tank partially filled with liquids, bubbly fluids (foams) and fully filled with density-stratified fluids; i.e., a foam layer overlying a liquid layer. In experiments with foams, we find that foam collapse occurs for oscillations near the resonance frequency of the fluid layer. Low viscosity and large bubble size favor foam collapse during sloshing. In the layered case, the collapsed foam mixes with the underlying liquid layer. Based on scaling considerations, we constrain the conditions for the occurrence of foam collapse in natural magma reservoirs. We find that seismic waves with lower frequencies < 1 Hz, usually excited by large earthquakes, can resonate with magma reservoirs whose width is > 0.5 m. Strong ground motion > 0.1 m s- 1 can excite sloshing with sufficient amplitude to collapse a magma foam in an open conduit or a foam overlying basaltic magma in a closed magma reservoir. The gas released from the collapsed foam may infiltrate the rock or diffuse through pores, enhancing heat transfer, or may generate a gas slug to cause a magmatic eruption. The overturn in the magma reservoir provides new nucleation sites which may help to prepare a following/delayed eruption. Mt. Fuji erupted 49 days after the large Hoei earthquake (1707) both dacitic and basaltic magmas. The eruption might have been triggered by magma mixing through sloshing.

Dynamics of sonoluminescing bubbles within a liquid hammer device.

PubMed

Urteaga, Raúl; García-Martínez, Pablo Luis; Bonetto, Fabián J

2009-01-01

We studied the dynamics of a single sonoluminescing bubble (SBSL) in a liquid hammer device. In particular, we investigated the phosphoric acid-xenon system, in which pulses up to four orders of magnitude brighter than SBSL in water systems (about 10;{12} photons per pulse) have been previously reported [Chakravarty, Phys. Rev. E 69, 066317 (2004)]. We used stroboscopic photography and a Mie scattering technique in order to measure the radius evolution of the bubbles. Under adequate conditions we may position a bubble at the bottom of the tube (cavity) and a second bubble trapped at the middle of the tube (upper bubble). During its collapse, the cavity produces the compression of the liquid column. This compression drives impulsively the dynamics of the upper bubble. Our measurements reveal that the observed light emissions produced by the upper bubble are generated at its second collapse. We employed a simple numerical model to investigate the conditions that occur during the upper bubble collapse. We found good agreement between numerical and experimental values for the light intensity (fluence) and light pulse widths. Results from the model show that the light emission is increased mainly due to an increase in noble gas ambient radius and not because the maximum temperature increases. Even for the brightest pulses obtained ( 2x10;{13} photons, about 20W of peak power) the maximum temperatures computed for the upper bubble are always lower than 20000K .

Long-term hydrocephalus alters the cytoarchitecture of the adult subventricular zone.

PubMed

Campos-Ordoñez, Tania; Herranz-Pérez, Vicente; Chaichana, Kaisorn L; Rincon-Torroella, Jordina; Rigamonti, Daniele; García-Verdugo, Jose M; Quiñones-Hinojosa, Alfredo; Gonzalez-Perez, Oscar

2014-11-01

Hydrocephalus can develop secondarily to a disturbance in production, flow and/or absorption of cerebrospinal fluid. Experimental models of hydrocephalus, especially subacute and chronic hydrocephalus, are few and limited, and the effects of hydrocephalus on the subventricular zone are unclear. The aim of this study was to analyze the effects of long-term obstructive hydrocephalus on the subventricular zone, which is the neurogenic niche lining the lateral ventricles. We developed a new method to induce hydrocephalus by obstructing the aqueduct of Sylvius in the mouse brain, thus simulating aqueductal stenosis in humans. In 120-day-old rodents (n=18 per group), the degree of ventricular dilatation and cellular composition of the subventricular zone were studied by immunofluorescence and transmission electron microscopy. In adult patients (age>18years), the sizes of the subventricular zone, corpus callosum, and internal capsule were analyzed by magnetic resonance images obtained from patients with and without aqueductal stenosis (n=25 per group). Mice with 60-day hydrocephalus had a reduced number of Ki67+ and doublecortin+cells on immunofluorescence, as well as decreased number of neural progenitors and neuroblasts in the subventricular zone on electron microscopy analysis as compared to non-hydrocephalic mice. Remarkably, a number of extracellular matrix structures (fractones) contacting the ventricular lumen and blood vessels were also observed around the subventricular zone in mice with hydrocephalus. In humans, the widths of the subventricular zone, corpus callosum, and internal capsule in patients with aqueductal stenosis were significantly smaller than age and gender-matched patients without aqueductal stenosis. In summary, supratentorial hydrocephalus reduces the proliferation rate of neural progenitors and modifies the cytoarchitecture and extracellular matrix compounds of the subventricular zone. In humans, this similar process reduces the subventricular niche as well as the width of corpus callosum and internal capsule. Copyright © 2014 Elsevier Inc. All rights reserved.

Plant Community Richness Mediates Inhibitory Interactions and Resource Competition between Streptomyces and Fusarium Populations in the Rhizosphere.

PubMed

Essarioui, Adil; LeBlanc, Nicholas; Kistler, Harold C; Kinkel, Linda L

2017-07-01

Plant community characteristics impact rhizosphere Streptomyces nutrient competition and antagonistic capacities. However, the effects of Streptomyces on, and their responses to, coexisting microorganisms as a function of plant host or plant species richness have received little attention. In this work, we characterized antagonistic activities and nutrient use among Streptomyces and Fusarium from the rhizosphere of Andropogon gerardii (Ag) and Lespedeza capitata (Lc) plants growing in communities of 1 (monoculture) or 16 (polyculture) plant species. Streptomyces from monoculture were more antagonistic against Fusarium than those from polyculture. In contrast, Fusarium isolates from polyculture had greater inhibitory capacities against Streptomyces than isolates from monoculture. Although Fusarium isolates had on average greater niche widths, the collection of Streptomyces isolates in total used a greater diversity of nutrients for growth. Plant richness, but not plant host, influenced the potential for resource competition between the two taxa. Fusarium isolates had greater niche overlap with Streptomyces in monoculture than polyculture, suggesting greater potential for Fusarium to competitively challenge Streptomyces in monoculture plant communities. In contrast, Streptomyces had greater niche overlap with Fusarium in polyculture than monoculture, suggesting that Fusarium experiences greater resource competition with Streptomyces in polyculture than monoculture. These patterns of competitive and inhibitory phenotypes among Streptomyces and Fusarium populations are consistent with selection for Fusarium-antagonistic Streptomyces populations in the presence of strong Fusarium resource competition in plant monocultures. Similarly, these results suggest selection for Streptomyces-inhibitory Fusarium populations in the presence of strong Streptomyces resource competition in more diverse plant communities. Thus, landscape-scale variation in plant species richness may be critical to mediating the coevolutionary dynamics and selective trajectories for inhibitory and nutrient use phenotypes among Streptomyces and Fusarium populations in soil, with significant implications for microbial community functional characteristics.

Physiological differences between root suckers and saplings enlarge the regeneration niche in Eucryphia cordifolia Cav.

PubMed

Escandón, Antonio B; Rojas, Roke; Morales, Loreto V; Corcuera, Luis J; Coopman, Rafael E; Paula, Susana

2018-01-01

Many clonal plants produce vegetative recruits that remain connected to the parent plant. Such connections permit resource sharing among ramets, explaining the high survival rates of vegetative recruits during establishment under suboptimal conditions for sexual regeneration. We propose that differences in the regeneration niches of sexual and vegetative recruits reflect different physiological adjustments caused by parental supply of resources to the ramets. We conducted ecophysiological measurements in saplings and root suckers of Eucryphia cordifolia Cav., a tree species of the temperate rainforest of southern South America. We compared the following traits of saplings and suckers: gas exchange at the leaf level, crown architecture, daily crown carbon balance, biomass allocation to above-ground tissues (leaf-to-stem mass ratio, leaf mass area and leaf area ratio), xylem anatomy traits (lumen vessel fraction, vessel density and size) and stem ring width. We also correlated the growth rates of saplings and suckers with relevant environmental data (light and climate). Saplings showed morphological, architectural and physiological traits that enhance daily crown carbon balance and increase water-use efficiency, in order to supply their growth demands while minimizing water loss per unit of carbon gained. The radial growth of saplings diminished under dry conditions, which suggests a strong stomatal sensitivity to water availability. Suckers have low stomatal conductance, likely because the carbon supplied by the parent plant diminishes the necessity of high rates of photosynthesis. The low responsiveness of sucker growth to temporal changes in water availability also supports the existence of parental supply. The physiological differences between sexual and vegetative recruits satisfactorily explain the ecological niche of E. cordifolia, with saplings restricted to more closed and humid sites. © The Author 2017. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Experimental investigation of damage behavior of RC frame members including non-seismically designed columns

NASA Astrophysics Data System (ADS)

Chen, Linzhi; Lu, Xilin; Jiang, Huanjun; Zheng, Jianbo

2009-06-01

Reinforced concrete (RC) frame structures are one of the mostly common used structural systems, and their seismic performance is largely determined by the performance of columns and beams. This paper describes horizontal cyclic loading tests of ten column and three beam specimens, some of which were designed according to the current seismic design code and others were designed according to the early non-seismic Chinese design code, aiming at reporting the behavior of the damaged or collapsed RC frame strctures observed during the Wenchuan earthquake. The effects of axial load ratio, shear span ratio, and transverse and longitudinal reinforcement ratio on hysteresis behavior, ductility and damage progress were incorporated in the experimental study. Test results indicate that the non-seismically designed columns show premature shear failure, and yield larger maximum residual crack widths and more concrete spalling than the seismically designed columns. In addition, longitudinal steel reinforcement rebars were severely buckled. The axial load ratio and shear span ratio proved to be the most important factors affecting the ductility, crack opening width and closing ability, while the longitudinal reinforcement ratio had only a minor effect on column ductility, but exhibited more influence on beam ductility. Finally, the transverse reinforcement ratio did not influence the maximum residual crack width and closing ability of the seismically designed columns.

Body size and lean mass of brown bears across and within four diverse ecosystems

USGS Publications Warehouse

Hilderbrand, Grant V.; Gustine, David; Mangipane, Buck A.; Joly, Kyle; Leacock, William; Mangipane, Lindsey S.; Erlenbach, Joy; Sorum, Mathew; Cameron, Matthew; Belant, Jerrold L.; Cambier, Troy

2018-01-01

Variation in body size across populations of brown bears (Ursus arctos) is largely a function of the availability and quality of nutritional resources while plasticity within populations reflects utilized niche width with implications for population resiliency. We assessed skull size, body length, and lean mass of adult female and male brown bears in four Alaskan study areas that differed in climate, primary food resources, population density, and harvest regime. Full body-frame size, as evidenced by asymptotic skull size and body length, was achieved by 8 to 14 years of age across populations and sexes. Lean body mass of both sexes continued to increase throughout their life. Differences between populations existed for all morphological measures in both sexes, bears in ecosystems with abundant salmon were generally larger. Within all populations, broad variation was seen in body size measures of adults with females displaying roughly a 2-fold difference in lean mass and males showing a 3- to 4-fold difference. The high level of intraspecific variation seen across and within populations suggests the presence of multiple life-history strategies and niche variation relative to resource partitioning, risk tolerance or aversion, and competition. Further, this level of variation indicates broad potential to adapt to changes within a given ecosystem and across the species’ range.

Patterns of infestation by the trombiculid mite Eutrombicula alfreddugesi in four sympatric lizard species (genus Tropidurus) in northeastern Brazil.

PubMed

Rocha, C F D; Cunha-Barros, M; Menezes, V A; Fontes, A f; Vrcibradic, D; Van Sluys, M

2008-06-01

We studied the parasitism by the chigger mite Eutrombicula alfreddugesi on four sympatric lizard species of the genus Tropidurus in Morro do Chapéu, Bahia state, Brazil: T. hispidus, T. cocorobensis, T. semitaeniatus and T. erythrocephalus. For each species, we investigated the patterns of infestation and analyzed to which extent they varied among the hosts. We calculated the spatial niche breadth of the chigger mite on the body of each host species and the distribution of mites along the hosts' bodies for each Tropidurus species. All four species of Tropidurus at Morro do Chapéu were parasited by the chigger mite, with high (97-100%) prevalences. Host body size significantly explained the intensity of mite infestation for all species, except T. erythrocephalus. The body regions with highest intensity of infestation in the four lizard species were the mite pockets. The spacial niche width of the chigger varied consistently among the four lizards species studied being highest for T. erytrocephalus and lowest for T. cocorobensis. We conclude that the distribution and intensity with which lizards of the genus Tropidurus are infested by Eutrombicula alfreddugesi larvae results from the interaction between aspects of host morphology (such as body size and the occurrence and distribution of mite pockets) and ecology (especially microhabitat use).

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Science.gov Websites

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[Review on the feeding ecology and migration patterns of sharks using stable isotopes].

PubMed

Li, Yun-Kai

2014-09-01

With the rapidly increasing use of stable isotope analysis (SIA) in ecology, it becomes a powerful tool and complement to traditional methods for investigating the trophic ecology of animals. Sharks play a keystone role in marine food webs as the apex predators and are recently becoming the frontier topic of food web studies and marine conservation because of their unique characteristics of evolution. Recently, SIA has recently been applied to trophic ecology studies of shark species. Here, we reviewed the current applications of SIA in shark species, focusing on available tissues for analyzing, standardized analytical approaches, diet-tissue discrimination factors, diet shift investigation, migration patterns predictions and niche-width analyses, with the aim of getting better understanding of stable-isotope dynamics in shark biology and ecology research.

Self-Sealed Bionic Long Microchannels with Thin Walls and Designable Nanoholes Prepared by Line-Contact Capillary-Force Assembly.

PubMed

Lao, Zhao-Xin; Hu, Yan-Lei; Pan, Deng; Wang, Ren-Yan; Zhang, Chen-Chu; Ni, Jin-Cheng; Xu, Bing; Li, Jia-Wen; Wu, Dong; Chu, Jia-Ru

2017-06-01

Long microchannels with thin walls, small width, and nanoholes or irregular shaped microgaps, which are similar to capillaries or cancerous vessels, are urgently needed to simulate the physiological activities in human body. However, the fabrication of such channels remains challenging. Here, microchannels with designable holes are manufactured by combining laser printing with line-contact capillary-force assembly. Two microwalls are first printed by femtosecond laser direct-writing, and subsequently driven to collapse into a channel by the capillary force that arises in the evaporation of developer. The channel can remain stable in solvent due to the enhanced Van der Waals' force caused by the line-contact of microwalls. Microchannels with controllable nanoholes and almost arbitrary patterns can be fabricated without any bonding or multistep processes. As-prepared microchannels, with wall thicknesses less than 1 µm, widths less than 3 µm, lengths more than 1 mm, are comparable with human capillaries. In addition, the prepared channels also exhibit the ability to steer the flow of liquid without any external pump. © 2017 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Evolution of the Shape of Detached GeSi Crystals in Microgravity

NASA Technical Reports Server (NTRS)

Volz, M. P.; Mazuruk, K.

2013-01-01

A series of GeSi crystal growth experiments are planned to be conducted in the Low Gradient Furnace (LGF) onboard the International Space Station. An objective of these experiments is to understand the mechanisms of detached Bridgman growth, a process in which a gap exists between the growing semiconductor crystal and the crucible wall. Crystals grown without wall contact have superior quality to otherwise similar crystals grown in direct contact with a container, especially with respect to impurity incorporation, formation of dislocations, and residual stress in crystals. Numerical calculations are used to determine the conditions in which a gap can exist. According to crystal shape stability theory, only some of these gap widths will be dynamically stable. Beginning with a crystal diameter that differs from stable conditions, the transient crystal growth process is analyzed. In microgravity, dynamic stability depends only on capillary effects and is decoupled from heat transfer. Depending on the initial conditions and growth parameters, the crystal shape will evolve towards the crucible wall, towards a stable gap width, or towards the center of the crucible, collapsing the meniscus.

Microbialites in the shallow-water marine environments of the Holy Cross Mountains (Poland) in the aftermath of the Frasnian-Famennian biotic crisis

NASA Astrophysics Data System (ADS)

Rakociński, Michał; Racki, Grzegorz

2016-01-01

Microbial carbonates, consisting of abundant girvanellid oncoids, are described from cephalopod-crinoid and crinoid-brachiopod coquinas (rudstones) occurring in the lowermost Famennian of the Holy Cross Mountains, Poland. A Girvanella-bearing horizon (consist with numerous girvanellid oncoids) has been recognised at the Psie Górki section, and represents the northern slope succession of the drowned Dyminy Reef. This occurrence of microbialites in the aftermath of the Frasnian-Famennian event is interpreted as the result of opportunistic cyanobacteria blooms, which, as 'disaster forms', colonised empty shallow-water ecological niches during the survival phase following the Frasnian metazoan reef collapse, due to collapsed activity of epifaunal, grazing, and/or burrowing animals. The anachronistic lithofacies at Psie Górki is linked with catastrophic mass mortality of the cephalopod and crinoid-brachiopod communities during the heavy storm events. This mass occurrence of girvanellid oncoids, along with Frutexites-like microbial shrubs and, at least partly, common micritisation of some skeletal grains, records an overall increase in microbial activity in eutrophic normal marine environments. Microbial communities in the Holy Cross Mountains are not very diverse, being mainly represented by girvanellid oncoids, and stand in contrast to the very rich microbial communities known from the Guilin area (China), Canning Basin (Australia) and the Timan-northern Ural area (Russia). The association from Poland is similar to more diverse microbial communities represented by oncoids, trombolites and stromatolites, well known from the Canadian Alberta basin.

Factors affecting individual foraging specialization and temporal diet stability across the range of a large “generalist” apex predator

USGS Publications Warehouse

Rosenblatt, Adam E.; Nifong, James C.; Heithaus, Michael R.; Mazzotti, Frank J.; Cherkiss, Michael S.; Jeffery, Brian M.; Elsey, Ruth M.; Decker, Rachel A.; Silliman, Brian R.; Guillette, Louis J.; Lowers, Russell H.; Larson, Justin C.

2015-01-01

Individual niche specialization (INS) is increasingly recognized as an important component of ecological and evolutionary dynamics. However, most studies that have investigated INS have focused on the effects of niche width and inter- and intraspecific competition on INS in small-bodied species for short time periods, with less attention paid to INS in large-bodied reptilian predators and the effects of available prey types on INS. We investigated the prevalence, causes, and consequences of INS in foraging behaviors across different populations of American alligators (Alligator mississippiensis), the dominant aquatic apex predator across the southeast US, using stomach contents and stable isotopes. Gut contents revealed that, over the short term, although alligator populations occupied wide ranges of the INS spectrum, general patterns were apparent. Alligator populations inhabiting lakes exhibited lower INS than coastal populations, likely driven by variation in habitat type and available prey types. Stable isotopes revealed that over longer time spans alligators exhibited remarkably consistent use of variable mixtures of carbon pools (e.g., marine and freshwater food webs). We conclude that INS in large-bodied reptilian predator populations is likely affected by variation in available prey types and habitat heterogeneity, and that INS should be incorporated into management strategies to efficiently meet intended goals. Also, ecological models, which typically do not consider behavioral variability, should include INS to increase model realism and applicability.

Factors affecting individual foraging specialization and temporal diet stability across the range of a large "generalist" apex predator.

PubMed

Rosenblatt, Adam E; Nifong, James C; Heithaus, Michael R; Mazzotti, Frank J; Cherkiss, Michael S; Jeffery, Brian M; Elsey, Ruth M; Decker, Rachel A; Silliman, Brian R; Guillette, Louis J; Lowers, Russell H; Larson, Justin C

2015-05-01

Individual niche specialization (INS) is increasingly recognized as an important component of ecological and evolutionary dynamics. However, most studies that have investigated INS have focused on the effects of niche width and inter- and intraspecific competition on INS in small-bodied species for short time periods, with less attention paid to INS in large-bodied reptilian predators and the effects of available prey types on INS. We investigated the prevalence, causes, and consequences of INS in foraging behaviors across different populations of American alligators (Alligator mississippiensis), the dominant aquatic apex predator across the southeast US, using stomach contents and stable isotopes. Gut contents revealed that, over the short term, although alligator populations occupied wide ranges of the INS spectrum, general patterns were apparent. Alligator populations inhabiting lakes exhibited lower INS than coastal populations, likely driven by variation in habitat type and available prey types. Stable isotopes revealed that over longer time spans alligators exhibited remarkably consistent use of variable mixtures of carbon pools (e.g., marine and freshwater food webs). We conclude that INS in large-bodied reptilian predator populations is likely affected by variation in available prey types and habitat heterogeneity, and that INS should be incorporated into management strategies to efficiently meet intended goals. Also, ecological models, which typically do not consider behavioral variability, should include INS to increase model realism and applicability.

Nonlinear fluid simulation of particle and heat fluxes during burst of ELMs on DIII-D with BOUT++ code [Fluid Simulation of Particle and Heat Fluxes during Burst of ELMs on DIID with BOUT++ code

DOE PAGES

Xia, T. Y.; Xu, X. Q.

2015-09-01

In order to study the distribution and evolution of the transient particle and heat fluxes during edge-localized mode (ELM) bursts, a BOUT++ six-field two-fluid model based on the Braginskii equations with non-ideal physics effects is used to simulate pedestal collapse in divertor geometry. We used the profiles from the DIII-D H-mode discharge #144382 with fast target heat flux measurements as the initial conditions for the simulations. Moreover, a flux-limited parallel thermal conduction is used with three values of the flux-limiting coefficientmore » $${{\\alpha}_{j}}$$ , free streaming model with $${{\\alpha}_{j}}=1$$ , sheath-limit with $${{\\alpha}_{j}}=0.05$$ , and one value in between. The studies show that a 20 times increase in $${{\\alpha}_{j}}$$ leads to ~6 times increase in the heat flux amplitude to both the inner and outer targets, and the widths of the fluxes are also expanded. The sheath-limit model of flux-limiting coefficient is found to be the most appropriate one, which shows ELM sizes close to the measurements. The evolution of the density profile during the burst of ELMs of DIII-D discharge #144382 is simulated, and the collapse in width and depth of $${{n}_{\\text{e}}}$$ are reproduced at different time steps. The growing process of the profiles for the heat flux at divertor targets during the burst of ELMs measured by IRTV (infrared television) is also reproduced by this model. The widths of heat fluxes towards targets are a little narrower, and the peak amplitudes are twice the measurements possibly due to the lack of a model of divertor radiation which can effectively reduce the heat fluxes. The magnetic flutter combined with parallel thermal conduction is found to be able to increase the total heat loss by around 33% since the magnetic flutter terms provide the additional conductive heat transport in the radial direction. Finally, the heat flux profile at both the inner and outer targets is obviously broadened by magnetic flutter. The lobe structures near the X-point at LFS are both broadened and elongated due to the magnetic flutter.« less

Shake, Rupture And Flow: Hydraulic Constraints On The Formation Of Europa’s Chaos

NASA Astrophysics Data System (ADS)

Schmidt, Britney E.; Gooch, B. T.; Blankenship, D. D.; Soderlund, K. M.

2012-10-01

Europa’s chaos terrains may have formed above shallow water lenses formed by melting of the upper ice shell with ascending thermo-compositional plumes. A key factor in the creation of chaos terrain may be dramatic disruption and collapse of the ice lid above the forming melt lens along with potentially violent mixing upon its rupture; this is analogous to the collapse of terrestrial ice shelves in which massive ice bodies disintegrate in a few days. At Thera Macula, there is evidence for modification by water immediately external to the scarp that bounds the collapsed region. Since water runs either subaerially down hill or from high pressure to low when below or within ice, the swollen appearance of bands entering Thera Macula, which are uphill in terms of hydraulic and topographic gradients, raises the possibility that this steep scarp represents the place where the lens initially broke. As the ice lid ruptures, the overpressure within the lens may create sufficient pressure within the fracture to drive water through it, allowing water to escape into and modify surrounding terrain. Similar effects are seen when aquifers or subglacial water sources are tapped: water flows up the pipe until the pressure in the water body is relieved and the hydraulic “pressure head” in the pipe is lowered. We have modeled the hydraulic potential associated with a rupturing lens in order to investigate the range of parameters for overpressure, fracture width, and lid thickness that could produce such modification as is observed at Thera Macula. These place important constraints on the pressure within the lens and the energetics of a collapse event. These estimates may explain how ice masses within chaos are initially disrupted and provide a means for quantifying the vigor of surface-subsurface mixing that could be critical to Europa’s habitability.

New hydrologic instrumentation in the U.S. Geological Survey

USGS Publications Warehouse

Latkovich, V.J.; Shope, W.G.; ,

1991-01-01

New water-level sensing and recording instrumentation is being used by the U.S. Geological Survey for monitoring water levels, stream velocities, and water-quality characteristics. Several of these instruments are briefly described. The Basic Data Recorder (BDR) is an electronic data logger, that interfaces to sensor systems through a serial-digital interface standard (SDI-12), which was proposed by the data-logger industry; the Incremental Shaft Encoder is an intelligent water-level sensor, which interfaces to the BDR through the SDI-12; the Pressure Sensor is an intelligent, nonsubmersible pressure sensor, which interfaces to the BDR through the SDI-12 and monitors water levels from 0 to 50 feet; the Ultrasonic Velocity Meter is an intelligent, water-velocity sensor, which interfaces to the BDR through the SDI-12 and measures the velocity across a stream up to 500 feet in width; the Collapsible Hand Sampler can be collapsed for insertion through holes in the ice and opened under the ice to collect a water sample; the Lighweight Ice Auger, weighing only 32 pounds, can auger 6- and 8-inch holes through approximately 3.5 feet of ice; and the Ice Chisel has a specially hardened steel blade and 6-foot long, hickory D-handle.

Culturability as an indicator of succession in microbial communities

NASA Technical Reports Server (NTRS)

Garland, J. L.; Cook, K. L.; Adams, J. L.; Kerkhof, L.

2001-01-01

Successional theory predicts that opportunistic species with high investment of energy in reproduction and wide niche width will be replaced by equilibrium species with relatively higher investment of energy in maintenance and narrower niche width as communities develop. Since the ability to rapidly grow into a detectable colony on nonselective agar medium could be considered as characteristic of opportunistic types of bacteria, the percentage of culturable cells may be an indicator of successional state in microbial communities. The ratios of culturable cells (colony forming units on R2A agar) to total cells (acridine orange direct microscopic counts) and culturable cells to active cells (reduction of 5-cyano-2,3-ditolyl tetrazolium chloride) were measured over time in two types of laboratory microcosms (the rhizosphere of hydroponically grown wheat and aerobic, continuously stirred tank reactors containing plant biomass) to determine the effectiveness of culturabilty as an index of successional state. The culturable cell:total cell ratio in the rhizosphere decreased from approximately 0.25 to less than 0.05 during the first 30-50 days of plant growth, and from 0.65 to 0.14 during the first 7 days of operation of the bioreactor. The culturable cell:active cell ratio followed similar trends, but the values were consistently greater than the culturable cell:total cell ratio, and even exceeded I in early samples. Follow-up studies used a cultivation-independent method, terminal restriction fragment length polymorphisms (TRFLP) from whole community DNA, to assess community structure. The number of TRFLP peaks increased with time, while the number of culturable types did not, indicating that the general decrease in culturability is associated with a shift in community structure. The ratio of respired to assimilated C-14-labeled amino acids increased with the age of rhizosphere communities, supporting the hypothesis that a shift in resource allocation from growth to maintenance occurs with time. Results from this work indicate that the percentage of culturable cells may be a useful method for assessing the successional state of microbial communities.

Thermoplastic fusion bonding using a pressure-assisted boiling point control system.

PubMed

Park, Taehyun; Song, In-Hyouk; Park, Daniel S; You, Byoung Hee; Murphy, Michael C

2012-08-21

A novel thermoplastic fusion bonding method using a pressure-assisted boiling point (PABP) control system was developed to apply precise temperatures and pressures during bonding. Hot embossed polymethyl methacrylate (PMMA) components containing microchannels were sealed using the PABP system. Very low aspect ratio structures (AR = 1/100, 10 μm in depth and 1000 μm in width) were successfully sealed without collapse or deformation. The integrity and strength of the bonds on the sealed PMMA devices were evaluated using leakage and rupture tests; no leaks were detected and failure during the rupture tests occurred at pressures greater than 496 kPa. The PABP system was used to seal 3D shaped flexible PMMA devices successfully.

Connecting thermal physiology and latitudinal niche partitioning in marine Synechococcus

PubMed Central

Pittera, Justine; Humily, Florian; Thorel, Maxine; Grulois, Daphné; Garczarek, Laurence; Six, Christophe

2014-01-01

Marine Synechococcus cyanobacteria constitute a monophyletic group that displays a wide latitudinal distribution, ranging from the equator to the polar fronts. Whether these organisms are all physiologically adapted to stand a large temperature gradient or stenotherms with narrow growth temperature ranges has so far remained unexplored. We submitted a panel of six strains, isolated along a gradient of latitude in the North Atlantic Ocean, to long- and short-term variations of temperature. Upon a downward shift of temperature, the strains showed strikingly distinct resistance, seemingly related to their latitude of isolation, with tropical strains collapsing while northern strains were capable of growing. This behaviour was associated to differential photosynthetic performances. In the tropical strains, the rapid photosystem II inactivation and the decrease of the antioxydant β-carotene relative to chl a suggested a strong induction of oxidative stress. These different responses were related to the thermal preferenda of the strains. The northern strains could grow at 10 °C while the other strains preferred higher temperatures. In addition, we pointed out a correspondence between strain isolation temperature and phylogeny. In particular, clades I and IV laboratory strains were all collected in the coldest waters of the distribution area of marine Synechococus. We, however, show that clade I Synechococcus exhibit different levels of adaptation, which apparently reflect their location on the latitudinal temperature gradient. This study reveals the existence of lineages of marine Synechococcus physiologically specialised in different thermal niches, therefore suggesting the existence of temperature ecotypes within the marine Synechococcus radiation. PMID:24401861

Nowhere to Go but Up: Impacts of Climate Change on Demographics of a Short-Range Endemic (Crotalus willardi obscurus) in the Sky-Islands of Southwestern North America.

PubMed

Davis, Mark A; Douglas, Marlis R; Webb, Colleen T; Collyer, Michael L; Holycross, Andrew T; Painter, Charles W; Kamees, Larry K; Douglas, Michael E

2015-01-01

Biodiversity elements with narrow niches and restricted distributions (i.e., 'short range endemics,' SREs) are particularly vulnerable to climate change. The New Mexico Ridge-nosed Rattlesnake (Crotalus willardi obscurus, CWO), an SRE listed under the U.S. Endangered Species Act within three sky islands of southwestern North America, is constrained at low elevation by drought and at high elevation by wildfire. We combined long-term recapture and molecular data with demographic and niche modeling to gauge its climate-driven status, distribution, and projected longevity. The largest population (Animas) is numerically constricted (N = 151), with few breeding adults (Nb = 24) and an elevated inbreeding coefficient (ΔF = 0.77; 100 years). Mean home range (0.07 km2) is significantly smaller compared to other North American rattlesnakes, and movements are within, not among sky islands. Demographic values, when gauged against those displayed by other endangered/Red-Listed reptiles [e.g., Loggerhead Sea Turtle (Caretta caretta)], are either comparable or markedly lower. Survival rate differs significantly between genders (female

Nowhere to Go but Up: Impacts of Climate Change on Demographics of a Short-Range Endemic (Crotalus willardi obscurus) in the Sky-Islands of Southwestern North America

PubMed Central

Davis, Mark A.; Douglas, Marlis R.; Webb, Colleen T.; Collyer, Michael L.; Holycross, Andrew T.; Painter, Charles W.; Kamees, Larry K.; Douglas, Michael E.

2015-01-01

Biodiversity elements with narrow niches and restricted distributions (i.e., ‘short range endemics,’ SREs) are particularly vulnerable to climate change. The New Mexico Ridge-nosed Rattlesnake (Crotalus willardi obscurus, CWO), an SRE listed under the U.S. Endangered Species Act within three sky islands of southwestern North America, is constrained at low elevation by drought and at high elevation by wildfire. We combined long-term recapture and molecular data with demographic and niche modeling to gauge its climate-driven status, distribution, and projected longevity. The largest population (Animas) is numerically constricted (N = 151), with few breeding adults (Nb = 24) and an elevated inbreeding coefficient (ΔF = 0.77; 100 years). Mean home range (0.07km2) is significantly smaller compared to other North American rattlesnakes, and movements are within, not among sky islands. Demographic values, when gauged against those displayed by other endangered/Red-Listed reptiles [e.g., Loggerhead Sea Turtle ( Caretta caretta )], are either comparable or markedly lower. Survival rate differs significantly between genders (female

Origin of collapsed pits and branched valleys surrounding the Ius chasma on Mars

NASA Astrophysics Data System (ADS)

Vamshi, G. T.; Martha, T. R.; Vinod Kumar, K.

2014-11-01

Chasma is a deep, elongated and steep sided depression on planetary surfaces. Several hypothesis have been proposed regarding the origin of chasma. In this study, we analysed morphological features in north and south of Ius chasma. Collapsed pits and branched valleys alongwith craters are prominent morphological features surrounding Ius Chasma, which forms the western part of the well known Valles Marineris chasma system on Martian surface. Analysis of images from the High Resolution Stereo Camera (HRSC) in ESA's Mars Express (MEX) with a spatial resolution of 10 m shows linear arrangement of pits north of the Ius chasma. These pits were initially developed along existing narrow linear valleys parallel to Valles Merineris and are conical in shape unlike flat floored impact craters found adjacent to them. The width of conical pits ranges 1-10 km and depth ranges 1-2 km. With more subsidence, size of individual pits increased gradually and finally coalesced together to create a large depression forming a prominent linear valley. Arrangement of pits in this particular fashion can be attributed to collapse of the surface due to l arge hollows created in the subsurface because of the withdrawal of either magma or dry ice. Branched valleys which are prominent morphologic features south of the Ius chasma could have been formed due to groundwater sapping mechanism as proposed by previous researchers. Episodic release of groundwater in large quantity to the surface could have resulted in surface runoff creating V-shaped valleys, which were later modified into U-shaped valleys due to mass wasting and lack of continued surface runoff.

How is the rate of climatic-niche evolution related to climatic-niche breadth?

PubMed

Fisher-Reid, M Caitlin; Kozak, Kenneth H; Wiens, John J

2012-12-01

The rate of climatic-niche evolution is important to many research areas in ecology, evolution, and conservation biology, including responses of species to global climate change, spread of invasive species, speciation, biogeography, and patterns of species richness. Previous studies have implied that clades with higher rates of climatic-niche evolution among species should have species with narrower niche breadths, but there is also evidence suggesting the opposite pattern. However, the relationships between rate and breadth have not been explicitly analyzed. Here, we examine the relationships between the rate of climatic-niche evolution and climatic-niche breadth using phylogenetic and climatic data for 250 species in the salamander family Plethodontidae, a group showing considerable variation in both rates of climatic-niche evolution and climatic-niche breadths. Contrary to some expectations, we find no general relationship between climatic-niche breadth and the rate of climatic-niche evolution. Climatic-niche breadths for some ecologically important climatic variables considered separately (temperature seasonality and annual precipitation) do show significant relationships with the rate of climatic-niche evolution, but rates are faster in clades in which species have broader (not narrower) niche breadths. In summary, our results show that narrower niche breadths are not necessarily associated with faster rates of niche evolution. © 2012 The Author(s). Evolution© 2012 The Society for the Study of Evolution.

Niche conservatism of Aedes albopictus and Aedes aegypti - two mosquito species with different invasion histories.

PubMed

Cunze, Sarah; Kochmann, Judith; Koch, Lisa K; Klimpel, Sven

2018-05-16

Biological invasions have been associated with niche changes; however, their occurrence is still debated. We assess whether climatic niches between native and non-native ranges have changed during the invasion process using two globally spread mosquitoes as model species, Aedes albopictus and Aedes aegypti. Considering the different time spans since their invasions (>300 vs. 30-40 years), niche changes were expected to be more likely for Ae. aegypti than for Ae. albopictus. We used temperature and precipitation variables as descriptors for the realized climatic niches and different niche metrics to detect niche dynamics in the native and non-native ranges. High niche stability, therefore, no niche expansion but niche conservatism was revealed for both species. High niche unfilling for Ae. albopictus indicates a great potential for further expansion. Highest niche occupancies in non-native ranges occurred either under more temperate (North America, Europe) or tropical conditions (South America, Africa). Aedes aegypti has been able to fill its native climatic niche in the non-native ranges, with very low unfilling. Our results challenge the assumption of rapid evolutionary change of climatic niches as a requirement for global invasions but support the use of native range-based niche models to project future invasion risk on a large scale.

The small rock avalanche of January 9, 2016 from the calcareous NW pillar of the iconic Mont Granier (1933 m a.s.l., French Alps)

NASA Astrophysics Data System (ADS)

Ravanel, Ludovic; Amitrano, David; Deline, Philip; Gallach, Xavi; Helmstetter, Agnès; Hobléa, Fabien; Le Roy, Gaëlle; Ployon, Estelle

2016-04-01

On January 9, 2016 at 4:57, inhabitants of the municipality of Entremont-le-Vieux were awakened by the sound of a large rock collapse detached from the Mont Granier (1933 m, Savoie, France), iconic mountain of the Chartreuse massif located between Chambery and Grenoble. Its north face, a 900-m-high natural geological cross section in Urgonian limestone, Hauterivian marls, Valanginian limestone and Berriasian marls, was affected in 1248 by a huge collapse (500 million m3) that caused hundreds of fatalities. The SW pillar, shaped in the upper Urgonian limestone, climbed for the first time in 1964 and several times during the warm and dry autumn 2015, collapsed throughout its height (180 m) over a width of up to about 85 m with a volume certainly much higher than 100,000 m3. Blocks rolled down the western slope on about 700 m before stopping in the forest. It is now notched over a hundred meter wide. No infrastructure was affected. The Granier has many predispositions to large instabilities. This is the western remaining part, largely fractured, of a much eroded perched syncline whose inclination is oriented to the east. Fracturing and orientation of the strata contributes to pre-cut limestone and marl. The Granier is also a major karstic area: the Granier plateau with its multilevel karst network (90 km of galleries explored) is a good model of polyphased karst network. The region is also frequently affected by small earthquakes but seismicity does not appear to be a triggering factor. Conversely, the collapse has produced an M 2.2 earthquake. Besides rock fatigue related to what has just been mentioned and a vertical or overhanging topography, it is likely that heavy rains of days before the event and after a long period of drought have unleashed the destabilization. The collapse is not comparable to the historical event of 1248, which had reshaped the entire northern side. However, its dimensions make the January 2016 event one of the major events of recent decades in the limestone western Alps. Events of this size are very rare in the currently available rockfall data series. There is now a significant residual risk of falling boulders while a large overhang just formed suggests probable collapses in the short or medium term, with volumes exceeding 10,000 m3.

Phylogenetic patterns of climatic, habitat and trophic niches in a European avian assemblage

PubMed Central

Pearman, Peter B; Lavergne, Sébastien; Roquet, Cristina; Wüest, Rafael; Zimmermann, Niklaus E; Thuiller, Wilfried

2014-01-01

Aim The origins of ecological diversity in continental species assemblages have long intrigued biogeographers. We apply phylogenetic comparative analyses to disentangle the evolutionary patterns of ecological niches in an assemblage of European birds. We compare phylogenetic patterns in trophic, habitat and climatic niche components. Location Europe. Methods From polygon range maps and handbook data we inferred the realized climatic, habitat and trophic niches of 405 species of breeding birds in Europe. We fitted Pagel's lambda and kappa statistics, and conducted analyses of disparity through time to compare temporal patterns of ecological diversification on all niche axes together. All observed patterns were compared with expectations based on neutral (Brownian) models of niche divergence. Results In this assemblage, patterns of phylogenetic signal (lambda) suggest that related species resemble each other less in regard to their climatic and habitat niches than they do in their trophic niche. Kappa estimates show that ecological divergence does not gradually increase with divergence time, and that this punctualism is stronger in climatic niches than in habitat and trophic niches. Observed niche disparity markedly exceeds levels expected from a Brownian model of ecological diversification, thus providing no evidence for past phylogenetic niche conservatism in these multivariate niches. Levels of multivariate disparity are greatest for the climatic niche, followed by disparity of the habitat and the trophic niches. Main conclusions Phylogenetic patterns in the three niche components differ within this avian assemblage. Variation in evolutionary rates (degree of gradualism, constancy through the tree) and/or non-random macroecological sampling probably lead here to differences in the phylogenetic structure of niche components. Testing hypotheses on the origin of these patterns requires more complete phylogenetic trees of the birds, and extended ecological data on different niche components for all bird species. PMID:24790525

Large thermo-erosional tunnel for a river in northeast Greenland

NASA Astrophysics Data System (ADS)

Docherty, Catherine L.; Hannah, David M.; Riis, Tenna; Rosenhøj Leth, Simon; Milner, Alexander M.

2017-12-01

Thermo-erosional river bank undercutting is caused by the combined action of thermal and mechanical erosion of the permafrost by Arctic rivers whilst the overlying sediment withstands collapse temporarily. Here, we report the discovery of a large thermo-erosional tunnel that formed in the banks of a meltwater-fed stream in northeast Greenland in summer 2015. The tunnel was observed over eight days (14-22 July), during which period the tunnel remained open but bank-side slumping increased. Stream solute load increased immediately downstream and remained high 800 m from the tunnel. Whilst this field observation was opportunistic and information somewhat limited, our study provides a rare insight into an extreme event impacting permafrost, local geomorphology and stream habitat. With accelerated climate change in Arctic regions, increased permafrost degradation and warmer stream water temperature are predicted thereby enhancing potential for thermo-erosional niche development and associated stream bank slumping. This change could have significant implications for stream physicochemical habitat and, in turn, stream benthic communities, through changes in aquatic habitat conditions.

Geomorphic and hydraulic controls on large-scale riverbank failure on a mixed bedrock-alluvial river system, the River Murray, South Australia: a bathymetric analysis.

NASA Astrophysics Data System (ADS)

De Carli, E.; Hubble, T.

2014-12-01

During the peak of the Millennium Drought (1997-2010) pool-levels in the lower River Murray in South Australia dropped 1.5 metres below sea level, resulting in large-scale mass failure of the alluvial banks. The largest of these failures occurred without signs of prior instability at Long Island Marina whereby a 270 metre length of populated and vegetated riverbank collapsed in a series of rotational failures. Analysis of long-reach bathymetric surveys of the river channel revealed a strong relationship between geomorphic and hydraulic controls on channel width and downstream alluvial failure. As the entrenched channel planform meanders within and encroaches upon its bedrock valley confines the channel width is 'pinched' and decreases by up to half, resulting in a deepening thalweg and channel bed incision. The authors posit that flow and shear velocities increase at these geomorphically controlled 'pinch-points' resulting in complex and variable hydraulic patterns such as erosional scour eddies, which act to scour the toe of the slope over-steepening and destabilising the alluvial margins. Analysis of bathymetric datasets between 2009 and 2014 revealed signs of active incision and erosional scour of the channel bed. This is counter to conceptual models which deem the backwater zone of a river to be one of decelerating flow and thus sediment deposition. Complex and variable flow patterns have been observed in other mixed alluvial-bedrock river systems, and signs of active incision observed in the backwater zone of the Mississippi River, United States. The incision and widening of the lower Murray River suggests the channel is in an erosional phase of channel readjustment which has implications for riverbank collapse on the alluvial margins. The prevention of seawater ingress due to barrage construction at the Murray mouth and Southern Ocean confluence, allowed pool-levels to drop significantly during the Millennium Drought reducing lateral confining support to the over-steepened channel margins triggering large-scale riverbank failure.

Division within the North American boreal forest: Ecological niche divergence between the Bicknell's Thrush (Catharus bicknelli) and Gray-cheeked Thrush (C. minimus).

PubMed

FitzGerald, Alyssa M

2017-07-01

Sister species that diverged in allopatry in similar environments are expected to exhibit niche conservatism. Using ecological niche modeling and a multivariate analysis of climate and habitat data, I test the hypothesis that the Bicknell's Thrush ( Catharus bicknelli ) and Gray-cheeked Thrush ( C. mimimus ), sister species that breed in the North American boreal forest, show niche conservatism. Three tree species that are important components of breeding territories of both thrush species were combined with climatic variables to create niche models consisting of abiotic and biotic components. Abiotic-only, abiotic+biotic, and biotic-only models were evaluated using the area under the curve (AUC) criterion. Abiotic+biotic models had higher AUC scores and did not over-project thrush distributions compared to abiotic-only or biotic-only models. From the abiotic+biotic models, I tested for niche conservatism or divergence by accounting for the differences in the availability of niche components by calculating (1) niche overlap from ecological niche models and (2) mean niche differences of environmental values at occurrence points. Niche background similarity tests revealed significant niche divergence in 10 of 12 comparisons, and multivariate tests revealed niche divergence along 2 of 3 niche axes. The Bicknell's Thrush breeds in warmer and wetter regions with a high abundance of balsam fir ( Abies balsamea ), whereas Gray-cheeked Thrush often co-occurs with black spruce ( Picea mariana ). Niche divergence, rather than conservatism, was the predominant pattern for these species, suggesting that ecological divergence has played a role in the speciation of the Bicknell's Thrush and Gray-cheeked Thrush. Furthermore, because niche models were improved by the incorporation of biotic variables, this study validates the inclusion of relevant biotic factors in ecological niche modeling to increase model accuracy.

Niches of dominant fish in the waters surrounding the Taishan Islands, China

NASA Astrophysics Data System (ADS)

Yang, Lu; Chen, Jie; Yang, Shengyun; Zhong, Huiqi; Ju, Peilong; Yang, Shunliang; Sun, Qinqin; Chen, Mingru

2016-07-01

An index of relative importance (IRI) was employed to screen for dominant fish in the waters surrounding the Taishan Islands, China, using data from four seasonal trawl surveys undertaken between 2012 and 2013. Niche breadth and niche overlap were measured using the Feinsinger and Morisita-Horn indices, respectively, and the characteristics and seasonal variations in the niches of dominant fish were assessed via non-metric multidimensional scaling (NMDS) and cluster analysis. A total of 80 fish species, including 16 dominant species, were recorded. Only Amblychaeturichthys hexanema was dominant in all seasons. According to niche breadth values and NMDS, the 16 dominant species were grouped into the following three types: (1) wide niche breadth species, including Cynoglossus macrolepidotus, A. hexanema, and Trypauchen vagina, among others; (2) medium niche breadth species, including Setipinna taty and Johnius belangerii; and (3) narrow niche breadth species, including Atrobucca nibe and Coilia mystus. Most species with a wider niche breadth were demersal fish with a lower swimming capability and even distribution. The niche breadth of migrating fish was narrower than that of settled fish. At a given spatial scale, fish with stronger swimming capabilities had a narrower niche breadth. Niche overlap, which is associated with niche specialization, ranged from 0.000 to 0.886 and had an annual mean value of 0.314. In summer and autumn, niche overlap was relatively high within species of the Sciaenidae family and within species of the Gobiidae in autumn. Differences in thermophily, feeding habits, food organism abundance/distribution and predator-prey relationships affected the niche overlap of fish in this area. Cluster analysis revealed that species with the narrowest niche breadth and lowest niche overlap values usually displayed lower aggregation and greater distribution differences compared with other species.

Evidence of niche shift and invasion potential of Lithobates catesbeianus in the habitat of Mexican endemic frogs

PubMed Central

Becerra López, Jorge Luis; Romero Méndez, Ulises; Sigala Rodríguez, José Jesús; Mayer Goyenechea, Irene Goyenechea; Castillo Cerón, Jesús Martín

2017-01-01

Invasive alien species are one of most severe threats to biodiversity and natural resources. These biological invasions have been studied from the niche conservatism and niche shifts perspective. Niche differentiation may result from changes in fundamental niche or realized niche or both; in biological invasions, niche differences between native and non-native ranges can appear through niche expansion, niche unfilling and niche stability. The American bullfrog Lithobates catesbeianus is an invasive species that can have negative impacts on native amphibian populations. This research examines the climate niche shifts of this frog, its potential range of expansion in Mexico and the risk of invasion by bullfrog in the habitats of 82 frog species endemic to Mexico, that based on their climatic niche similarity were divided in four ecological groups. The results indicate that species in two ecological groups were the most vulnerable to invasion by bullfrog. However, the climate niche shifts of L. catesbeianus may allow it to adapt to new environmental conditions, so species from the two remaining groups cannot be dismissed as not vulnerable. This information is valuable for decision making in prioritizing areas for conservation of Mexican endemic frogs. PMID:28953907

Evidence of niche shift and invasion potential of Lithobates catesbeianus in the habitat of Mexican endemic frogs.

PubMed

Becerra López, Jorge Luis; Esparza Estrada, Citlalli Edith; Romero Méndez, Ulises; Sigala Rodríguez, José Jesús; Mayer Goyenechea, Irene Goyenechea; Castillo Cerón, Jesús Martín

2017-01-01

Invasive alien species are one of most severe threats to biodiversity and natural resources. These biological invasions have been studied from the niche conservatism and niche shifts perspective. Niche differentiation may result from changes in fundamental niche or realized niche or both; in biological invasions, niche differences between native and non-native ranges can appear through niche expansion, niche unfilling and niche stability. The American bullfrog Lithobates catesbeianus is an invasive species that can have negative impacts on native amphibian populations. This research examines the climate niche shifts of this frog, its potential range of expansion in Mexico and the risk of invasion by bullfrog in the habitats of 82 frog species endemic to Mexico, that based on their climatic niche similarity were divided in four ecological groups. The results indicate that species in two ecological groups were the most vulnerable to invasion by bullfrog. However, the climate niche shifts of L. catesbeianus may allow it to adapt to new environmental conditions, so species from the two remaining groups cannot be dismissed as not vulnerable. This information is valuable for decision making in prioritizing areas for conservation of Mexican endemic frogs.

Long-period events, the most characteristic seismicity accompanying the emplacement and extrusion of a lava dome in Galeras Volcano, Colombia, in 1991

USGS Publications Warehouse

Gil, Cruz F.; Chouet, B.A.

1997-01-01

Since its reactivation in 1988 the principal eruptions of Galeras Volcano occurred on May 4-9, 1989, July 16, 1992, and January 14, March 23, April 3, April 14 and June 7, 1993. The initial eruption was a phreatic event which clearly marked a new period of activity. A lava dome was extruded within the main crater in October 1991 and subsequently destroyed in an explosive eruption on July 16, 1992. The eruptions that followed were all vulcanian-type explosions. The seismicity accompanying the emplacement, extrusion, and destruction of the lava dome was dominated by a mix of long-period (LP) events and tremor displaying a variety of waveforms. Repetitive LP events with dominant periods in the range 0.2-1 s were observed in October and November 1991 and visually correlated with short energetic pulses of gas venting through a crack bisecting the dome surface. Each LP event was characterized by a weak precursory signal with dominant periods in the range 0.05-0.1 s lasting roughly 7 s. Using the fluid-driven crack model of Chouet (1988, 1992), we infer that two distinct cracks may have acted as sources for the LP and precursor signals. Spectral analyses of the data yield the following parameters for the LP source: crack length, 240-360 m; crack width, 130-150 m; crack aperture, 0.5-3.4 mm; crack stiffness, 100-500; sound speed of fluid, 880 m/s; and excess pressure, 0.01-0.19 MPa. Similar analyses yield the parameters of the precursor source: crack length, 20-30 m; crack width, 15-25 m; crack aperture, 2.3-8.7 mm; crack stiffness, 5-15; sound speed of fluid, 140 m/s; and excess pressure, 0.06-0.15 MPa. Combined with geologic and thermodynamic constraints obtained from field observations, these seismic parameters suggest a gas-release mechanism in which the episodic collapse of a foam layer trapped at the top of the magma column subjacent to the dome releases a slug of pressurized gas which escapes to the surface while dilating a preexisting system of cracks in the dome structure. Accordingly, the fracture observed on the crystallized dome body is the surface extension of the LP-source crack, where LP activity is induced by the rapid emission and expansion of gas flowing through this conduit. The width and aperture of the crack estimated in the model are in good agreement with the length and aperture of the fracture estimated from visual observations. The source parameters of the precursor signal are suggestive of a nozzle-like conduit connecting the LP-source crack to the underlying magma reservoir. Excitation of this conduit segment is attributed to the rapid emission and acceleration of the frothy fluid resulting from the collapse of the foam layer at the top of the reservoir. The calculated periodicity of foam collapse events is in agreement with the observed average rate of thirteen LP events per hour.

Functional traits, convergent evolution, and periodic tables of niches.

PubMed

Winemiller, Kirk O; Fitzgerald, Daniel B; Bower, Luke M; Pianka, Eric R

2015-08-01

Ecology is often said to lack general theories sufficiently predictive for applications. Here, we examine the concept of a periodic table of niches and feasibility of niche classification schemes from functional trait and performance data. Niche differences and their influence on ecological patterns and processes could be revealed effectively by first performing data reduction/ordination analyses separately on matrices of trait and performance data compiled according to logical associations with five basic niche 'dimensions', or aspects: habitat, life history, trophic, defence and metabolic. Resultant patterns then are integrated to produce interpretable niche gradients, ordinations and classifications. Degree of scheme periodicity would depend on degrees of niche conservatism and convergence causing species clustering across multiple niche dimensions. We analysed a sample data set containing trait and performance data to contrast two approaches for producing niche schemes: species ordination within niche gradient space, and niche categorisation according to trait-value thresholds. Creation of niche schemes useful for advancing ecological knowledge and its applications will depend on research that produces functional trait and performance datasets directly related to niche dimensions along with criteria for data standardisation and quality. As larger databases are compiled, opportunities will emerge to explore new methods for data reduction, ordination and classification. © 2015 The Authors. Ecology Letters published by CNRS and John Wiley & Sons Ltd.

Shock Loading of Granular Ni/Al Composites. Part 1. Mechanics of Loading

DOE PAGES

Cherukara, Mathew J.; Germann, Timothy C.; Kober, Edward M.; ...

2014-10-16

We present molecular dynamics simulations of the thermomechanical response under shock loading of a granular material consisting of laminated Ni/Al grains. We observe two regimes: At low piston velocities (up ≲ 1km/s), the shock wave is diffuse, and the width of the shock front decreases with increasing piston velocity. Beyond a critical shock strength, however, the width remains relatively constant at approximately the mean grain radius. This change in behavior follows from an evolution of the mechanism of compaction with increasing insult strength. Furthermore, the mechanism evolves from plastic deformation-mediated pore collapse for relatively weak shocks, to solid extrusion andmore » fluid ejecta filling pores ahead of the shock front at intermediate strengths, and finally to atomic jetting into the pore for very strong shocks (up ≳ 2 km/s). High-energy fluid ejecta into pores leads to the formation of flow vorticity and can result in a large fraction of the input energy localizing into translational kinetic energy components including the formation of hot spots. This has implications for the mechanical mixing of Ni and Al in these reactive composites.« less

Predicting round window niche visibility via the facial recess using high-resolution computed tomography.

PubMed

Kashio, Akinori; Sakamoto, Takashi; Karino, Shotaro; Kakigi, Akinobu; Iwasaki, Shinichi; Yamasoba, Tatsuya

2015-01-01

To predict round window niche (RWN) visibility using high-resolution computed tomography (HRCT). Case series with chart review. Academic tertiary care center. We retrospectively reviewed 70 cochlear implant ears that underwent presurgical axial HRCT with a surgical video recorder. The visibility of the RWN was classified into three types: 17 as invisible or nearly invisible, 22 as partially visible, and 31 as fully visible. Next, we measured the following three radiologic parameters: 1) the angle of the external auditory canal (EAC) relative to the cochlear basal turn, 2) the width of the facial recess, and 3) the relative location of the facial nerve (FN) to the cochlear basal turn. These were compared with the RWN visibility. Subsequently, to predict the RWN visibility, a line was created parallel to the EAC line and along the anterior lateral FN. The location of the line relative to the round window membrane was compared with the RWN view. In cases that had poor RWN visibility, the angle of the posterior canal wall portion of the EAC relative to the cochlear basal turn was significantly smaller and the location of the FN to the cochlear basal turn was closer. The location of the prediction line to the round window membrane highly predicted the RWN view during the surgery. The RWN visibility and the preoperative HRCT findings showed a high correlation. Drawing the prediction line is a simple and useful way for preoperatively predicting the RWN visibility in cochlear implant surgery.

SQUID picovoltometry of single crystal Bi2Sr2CaCu2O(8+delta) - Observation of the crossover from high-temperature Arrhenius to low-temperature vortex-glass behavior

NASA Astrophysics Data System (ADS)

Safar, H.; Gammel, P. L.; Bishop, D. J.; Mitzi, D. B.; Kapitulnik, A.

1992-04-01

A SQUID voltmeter has been used to measure current-voltage curves in untwinned crystals of Bi2Sr2CaCu2O(8+delta) as a function of temperature and magnetic field. The data show a clear crossover from high-temperature Arrhenius behavior to a critical region associated with the low-temperature three-dimensional vortex-glass phase transition. The critical exponents v(z - 1) = 7 +/- 1 in this system are in accord with theoretical models and previous measurements in YBa2Cu3O7. The width of the critical region collapses below 2 T, reflecting the changing role of dimensionality with field.

The Pits

NASA Technical Reports Server (NTRS)

2006-01-01

8 March 2006 This Mars Global Surveyor (MGS) Mars Orbiter Camera (MOC) image shows a portion of a pit chain on the lower, northern flank of the giant martian volcano, Arsia Mons. Pits such as these commonly form as a result of collapse of surface materials into a subsurface void, possibly along a fault or into an old lava tube. The layered material, exposed near the top of several of the pits, is shedding house-sized boulders which can be seen resting on the sloping sidewalls and floors of many of the pits.

Location near: 6.7oS, 120.1oW Image width: 3 km (1.9 mi) Illumination from: lower left Season: Southern Summer

An introduction to niche construction theory.

PubMed

Laland, Kevin; Matthews, Blake; Feldman, Marcus W

Niche construction refers to the modification of selective environments by organisms. Theoretical and empirical studies of niche construction are increasing in importance as foci in evolutionary ecology. This special edition presents theoretical and empirical research that illustrates the significance of niche construction to the field. Here we set the scene for the following papers by (1) discussing the history of niche construction research, (2) providing clear definitions that distinguish niche construction from related concepts such as ecosystem engineering and the extended phenotype, (3) providing a brief summary of the findings of niche construction research, (4) discussing the contribution of niche construction and ecological inheritance to (a) expanded notions of inheritance, and (b) the extended evolutionary synthesis, and (5) briefly touching on some of the issues that underlie the controversies over niche construction.

Realized niche shift during a global biological invasion

PubMed Central

Tingley, Reid; Vallinoto, Marcelo; Sequeira, Fernando; Kearney, Michael R.

2014-01-01

Accurate forecasts of biological invasions are crucial for managing invasion risk but are hampered by niche shifts resulting from evolved environmental tolerances (fundamental niche shifts) or the presence of novel biotic and abiotic conditions in the invaded range (realized niche shifts). Distinguishing between these kinds of niche shifts is impossible with traditional, correlative approaches to invasion forecasts, which exclusively consider the realized niche. Here we overcome this challenge by combining a physiologically mechanistic model of the fundamental niche with correlative models based on the realized niche to study the global invasion of the cane toad Rhinella marina. We find strong evidence that the success of R. marina in Australia reflects a shift in the species’ realized niche, as opposed to evolutionary shifts in range-limiting traits. Our results demonstrate that R. marina does not fill its fundamental niche in its native South American range and that areas of niche unfilling coincide with the presence of a closely related species with which R. marina hybridizes. Conversely, in Australia, where coevolved taxa are absent, R. marina largely fills its fundamental niche in areas behind the invasion front. The general approach taken here of contrasting fundamental and realized niche models provides key insights into the role of biotic interactions in shaping range limits and can inform effective management strategies not only for invasive species but also for assisted colonization under climate change. PMID:24982155

An Adaptive Niching Genetic Algorithm using a niche size equalization mechanism

NASA Astrophysics Data System (ADS)

Nagata, Yuichi

Niching GAs have been widely investigated to apply genetic algorithms (GAs) to multimodal function optimization problems. In this paper, we suggest a new niching GA that attempts to form niches, each consisting of an equal number of individuals. The proposed GA can be applied also to combinatorial optimization problems by defining a distance metric in the search space. We apply the proposed GA to the job-shop scheduling problem (JSP) and demonstrate that the proposed niching method enhances the ability to maintain niches and improve the performance of GAs.

Do deposit-feeders compete? Isotopic niche analysis of an invasion in a species-poor system

PubMed Central

Karlson, Agnes M. L.; Gorokhova, Elena; Elmgren, Ragnar

2015-01-01

Successful establishment of invasive species is often related to the existence of vacant niches. Competition occurs when invaders use the same limiting resources as members of the recipient community, which will be reflected in some overlap of their trophic niches. The concept of isotopic niche has been used to study trophic niche partitioning among species. Here, we present a two-year field study comparing isotopic niches of the deposit-feeding community in a naturally species-poor system. The isotopic niche analyses showed no overlap between a recent polychaete invader and any of the native species suggesting that it has occupied a vacant niche. Its narrow isotopic niche suggests specialized feeding, however, the high δ15N values compared to natives are most likely due to isotope fractionation effects related to nitrogen recycling and a mismatch between biological stoichiometry of the polychaete and the sediment nitrogen content. Notably, highly overlapping isotopic niches were inferred for the native species, which is surprising in a food-limited system. Therefore, our results demonstrate that invaders may broaden the community trophic diversity and enhance resource utilization, but also raise questions about the congruence between trophic and isotopic niche concepts and call for careful examination of assumptions underlying isotopic niche interpretation. PMID:25988260

Niche-tracking migrants and niche-switching residents: evolution of climatic niches in New World warblers (Parulidae)

PubMed Central

Gómez, Camila; Tenorio, Elkin A.; Montoya, Paola; Cadena, Carlos Daniel

2016-01-01

Differences in life-history traits between tropical and temperate lineages are often attributed to differences in their climatic niche dynamics. For example, the more frequent appearance of migratory behaviour in temperate-breeding species than in species originally breeding in the tropics is believed to have resulted partly from tropical climatic stability and niche conservatism constraining tropical species from shifting their ranges. However, little is known about the patterns and processes underlying climatic niche evolution in migrant and resident animals. We evaluated the evolution of overlap in climatic niches between seasons and its relationship to migratory behaviour in the Parulidae, a family of New World passerine birds. We used ordination methods to measure seasonal niche overlap and niche breadth of 54 resident and 49 migrant species and used phylogenetic comparative methods to assess patterns of climatic niche evolution. We found that despite travelling thousands of kilometres, migrants tracked climatic conditions across the year to a greater extent than tropical residents. Migrant species had wider niches than resident species, although residents as a group occupied a wider climatic space and niches of migrants and residents overlapped extensively. Neither breeding latitude nor migratory distance explained variation among species in climatic niche overlap between seasons. Our findings support the notion that tropical species have narrower niches than temperate-breeders, but does not necessarily constrain their ability to shift or expand their geographical ranges and become migratory. Overall, the tropics may have been historically less likely to experience the suite of components that generate strong selection pressures for the evolution of migratory behaviour. PMID:26865303

Niche tracking and rapid establishment of distributional equilibrium in the house sparrow show potential responsiveness of species to climate change.

PubMed

Monahan, William B; Tingley, Morgan W

2012-01-01

The ability of species to respond to novel future climates is determined in part by their physiological capacity to tolerate climate change and the degree to which they have reached and continue to maintain distributional equilibrium with the environment. While broad-scale correlative climatic measurements of a species' niche are often described as estimating the fundamental niche, it is unclear how well these occupied portions actually approximate the fundamental niche per se, versus the fundamental niche that exists in environmental space, and what fitness values bounding the niche are necessary to maintain distributional equilibrium. Here, we investigate these questions by comparing physiological and correlative estimates of the thermal niche in the introduced North American house sparrow (Passer domesticus). Our results indicate that occupied portions of the fundamental niche derived from temperature correlations closely approximate the centroid of the existing fundamental niche calculated on a fitness threshold of 50% population mortality. Using these niche measures, a 75-year time series analysis (1930-2004) further shows that: (i) existing fundamental and occupied niche centroids did not undergo directional change, (ii) interannual changes in the two niche centroids were correlated, (iii) temperatures in North America moved through niche space in a net centripetal fashion, and consequently, (iv) most areas throughout the range of the house sparrow tracked the existing fundamental niche centroid with respect to at least one temperature gradient. Following introduction to a new continent, the house sparrow rapidly tracked its thermal niche and established continent-wide distributional equilibrium with respect to major temperature gradients. These dynamics were mediated in large part by the species' broad thermal physiological tolerances, high dispersal potential, competitive advantage in human-dominated landscapes, and climatically induced changes to the realized environmental space. Such insights may be used to conceptualize mechanistic climatic niche models in birds and other taxa.

Thirty-Year-Old Paradigm about Unpalatable Perch Egg Strands Disclaimed by the Freshwater Top-Predator, the European Catfish (Silurus glanis)

PubMed Central

Kočvara, Luboš; Sajdlová, Zuzana; Hoang The, Son Chung; Šmejkal, Marek; Peterka, Jiří

2017-01-01

So far, perch egg strands have been considered unpalatable biological material. However, we repeatedly found egg strands of European perch (Perca fluviatilis) in the diet of European catfish (Silurus glanis) caught by longlines in Milada and Most Lakes, Czech Republic. The finding proves that perch egg strands compose a standard food source for this large freshwater predatory fish. It extends the present knowledge on catfish foraging plasticity, showing it as an even more opportunistic feeder. Utilization of perch egg strands broadens the catfish diet niche width and represents an advantage against other fish predators. Comparison of datasets from extensive gillnet and SCUBA diver sampling campaigns gave the evidence that at least in localities where food sources are limited, multilevel predation by catfish may have an important impact on the perch population. PMID:28060862

Adaptive-numerical-bias metadynamics.

PubMed

Khanjari, Neda; Eslami, Hossein; Müller-Plathe, Florian

2017-12-05

A metadynamics scheme is presented in which the free energy surface is filled with progressively adding adaptive biasing potentials, obtained from the accumulated probability distribution of the collective variables. Instead of adding Gaussians with assigned height and width in conventional metadynamics method, here we add a more realistic adaptive biasing potential to the Hamiltonian of the system. The shape of the adaptive biasing potential is adjusted on the fly by sampling over the visited states. As the top of the barrier is approached, the biasing potentials become wider. This decreases the problem of trapping the system in the niches, introduced by the addition of Gaussians of fixed height in metadynamics. Our results for the free energy profiles of three test systems show that this method is more accurate and converges more quickly than the conventional metadynamics, and is quite comparable (in accuracy and convergence rate) with the well-tempered metadynamics method. © 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.

Ecology of the bromeligenous frog Phyllodytes luteolus (Anura, Hylidae) from three restinga remnants across Brazil's coast.

PubMed

Motta-Tavares, Tatiana; Maia-Carneiro, Thiago; Dantas, Leonardo F; Sluys, Monique Van; Hatano, Fábio H; Vrcibradic, Davor; Rocha, Carlos F D

2016-03-01

In this study, we analyzed diet, sexual dimorphism and bromeliad use in three populations of the hylid frog Phyllodytes luteolus from restinga habitats along the Brazilian coast. We found 13 arthropods categories in 161 stomachs. Ants and termites were the dominant prey items. The similar trophic niche across populations suggests this species has a conservative diet. We found sexual dimorphism regarding body size and jaw width. We recordedP. luteolus in five bromeliad species, but predominantly inAechmeablanchetiana (35.6% of individuals recorded). We recorded solitary individuals in 44% of occupied bromeliads, and never found two males sharing the same bromeliad. The data is suggestive that populations ofP. luteolus has a conservative diet independent of area, with ants and termites the being most relevant prey items. The sexual dimorphism in jaw and the solitary males may suggest that this species have territorial behavior.

A practical guideline for examining a uterine niche using ultrasonography in non-pregnant women: a modified Delphi method amongst European experts.

PubMed

Jordans, I P M; de Leeuw, R; Stegwee, S I; Amso, N N; Barri-Soldevila, P N; van den Bosch, T; Bourne, T; Brolmann, H A M; Donnez, O; Dueholm, M; Hehenkamp, W J K; Jastrow, N; Jurkovic, D; Mashiach, R; Naji, O; Streuli, I; Timmerman, D; Vd Voet, L F; Huirne, J A F

2018-03-14

To generate a uniform, internationally recognized guideline for detailed uterine niche evaluation by ultrasonography in non-pregnant women using a modified Delphi method amongst international experts. Fifteen international gynecological experts were recruited by their membership of the European niche taskforce group. All experts were physicians with extensive experience in niche evaluation in clinical practice and/or authors of niche studies. Relevant items for niche measurement were determined based on the results of a literature search and recommendations of a focus group. Two online questionnaires were sent to the expert panel and one group meeting was organized. Consensus was predefined as a consensus rate of at least 70%. In total 15 experts participated in this study. Consensus was reached for a total of 42 items on niche evaluation, including definitions, relevance, method of measurement and tips for visualization of the niche. All experts agreed on the proposed guideline for niche evaluation in non-pregnant women as presented in this paper. Consensus between niche experts was achieved on all items regarding ultrasonographic niche measurement. This article is protected by copyright. All rights reserved.

Global Invasion of Lantana camara: Has the Climatic Niche Been Conserved across Continents?

PubMed Central

Duarte, Milén; Bustamante, Ramiro O.; Lampo, Margarita; Velásquez, Grisel; Sharma, Gyan P.; García-Rangel, Shaenandhoa

2014-01-01

Lantana camara, a native plant from tropical America, is considered one of the most harmful invasive species worldwide. Several studies have identified potentially invasible areas under scenarios of global change, on the assumption that niche is conserved during the invasion process. Recent studies, however, suggest that many invasive plants do not conserve their niches. Using Principal Components Analyses (PCA), we tested the hypothesis of niche conservatism for L. camara by comparing its native niche in South America with its expressed niche in Africa, Australia and India. Using MaxEnt, the estimated niche for the native region was projected onto each invaded region to generate potential distributions there. Our results demonstrate that while L. camara occupied subsets of its original native niche in Africa and Australia, in India its niche shifted significantly. There, 34% of the occurrences were detected in warmer habitats nonexistent in its native range. The estimated niche for India was also projected onto Africa and Australia to identify other vulnerable areas predicted from the observed niche shift detected in India. As a result, new potentially invasible areas were identified in central Africa and southern Australia. Our findings do not support the hypothesis of niche conservatism for the invasion of L. camara. The mechanisms that allow this species to expand its niche need to be investigated in order to improve our capacity to predict long-term geographic changes in the face of global climatic changes. PMID:25343481

Toward a Periodic Table of Niches, or Exploring the Lizard Niche Hypervolume.

PubMed

Pianka, Eric R; Vitt, Laurie J; Pelegrin, Nicolás; Fitzgerald, Daniel B; Winemiller, Kirk O

2017-11-01

Widespread niche convergence suggests that species can be organized according to functional trait combinations to create a framework analogous to a periodic table. We compiled ecological data for lizards to examine patterns of global and regional niche diversification, and we used multivariate statistical approaches to develop the beginnings for a periodic table of niches. Data (50+ variables) for five major niche dimensions (habitat, diet, life history, metabolism, defense) were compiled for 134 species of lizards representing 24 of the 38 extant families. Principal coordinates analyses were performed on niche dimensional data sets, and species scores for the first three axes were used as input for a principal components analysis to ordinate species in continuous niche space and for a regression tree analysis to separate species into discrete niche categories. Three-dimensional models facilitate exploration of species positions in relation to major gradients within the niche hypervolume. The first gradient loads on body size, foraging mode, and clutch size. The second was influenced by metabolism and terrestrial versus arboreal microhabitat. The third was influenced by activity time, life history, and diet. Natural dichotomies are activity time, foraging mode, parity mode, and habitat. Regression tree analysis identified 103 cases of extreme niche conservatism within clades and 100 convergences between clades. Extending this approach to other taxa should lead to a wider understanding of niche evolution.

Behavioural manipulation of insect hosts by Baculoviridae as a process of niche construction.

PubMed

Hamblin, Steven; Tanaka, Mark M

2013-08-16

Niche construction has received increasing attention in recent years as a vital force in evolution and examples of niche construction have been identified in a wide variety of taxa, but viruses are conspicuously absent. In this study we explore how niche construction can lead to viruses engineering their hosts (including behavioural manipulation) with feedback on selective pressures for viral transmission and virulence. To illustrate this concept we focus on Baculoviridae, a family of invertebrate viruses that have evolved to modify the feeding behaviour of their lepidopteran hosts and liquefy their cadavers as part of the course of infection. We present a mathematical model showing how niche construction leads to feedback from the behavioural manipulation to the liquefaction of the host, linking the evolution of both of these traits, and show how this association arises from the action of niche construction. Model results show that niche construction is plausible in this system and delineates the conditions under which niche construction will occur. Niche construction in this system is also shown to be sensitive to parameter values that reflect ecological forces. Our model demonstrates that niche construction can be a potent force in viral evolution and can lead to the acquisition and maintenance of the behavioural manipulation and liquefaction traits in Baculoviridae via the niche constructing effects on the host. These results show the potential for niche construction theory to provide new insights into viral evolution.

Simulating the evolution of optically dark HI clouds in the Virgo cluster : will no-one rid me of this turbulent sphere ?

NASA Astrophysics Data System (ADS)

Taylor, R.; Wünsch, R.; Palouš, J.

2018-05-01

Most detected neutral atomic hydrogen (HI) at low redshift is associated with optically bright galaxies. However, a handful of HI clouds are known which appear to be optically dark and have no nearby potential progenitor galaxies, making tidal debris an unlikely explanation. In particular, 6 clouds identified by the Arecibo Galaxy Environment Survey are interesting due to the combination of their small size, isolation, and especially their broad line widths atypical of other such clouds. A recent suggestion is that these clouds exist in pressure equilibrium with the intracluster medium, with the line width arising from turbulent internal motions. Here we explore that possibility by using the FLASH code to perform a series of 3D hydro simulations. Our clouds are modelled using spherical Gaussian density profiles, embedded in a hot, low-density gas representing the intracluster medium. The simulations account for heating and cooling of the gas, and we vary the structure and strength of their internal motions. We create synthetic HI spectra, and find that none of our simulations reproduce the observed cloud parameters for longer than ˜100 Myr : the clouds either collapse, disperse, or experience rapid heating which would cause ionisation and render them undetectable to HI surveys. While the turbulent motions required to explain the high line widths generate structures which appear to be inherently unstable, making this an unlikely explanation for the observed clouds, these simulations demonstrate the importance of including the intracluster medium in any model seeking to explain the existence of these objects.

Stability analysis for capillary channel flow: 1d and 3d computations

NASA Astrophysics Data System (ADS)

Grah, Aleksander; Klatte, Jörg; Dreyer, Michael E.

The subject of the presentation are numerical studies on capillary channel flow, based on results of the sounding rocket TEXUS experiments. The flow through a capillary channel is established by a gear pump at the outlet. The channel, consists of two parallel glass plates with a width of 25 mm, a gap of 10 mm and a length of 12 mm. The meniscus of a compensation tube maintains a constant system pressure. Steady and dynamic pressure effects in the system force the surfaces to bend inwards. A maximum flow rate is achieved when the free surface collapses and gas ingestion occurs at the outlet. This critical flow rate depends on the channel geometry, the flow regime and the liquid properties. The aim of the experiments is the determination of the free surface shape and to find the maximum flow rate. In order to study the unsteady liquid loop behavior, a dimensionless one-dimensional model and a corresponding three-dimensional model were developed. The one-dimensional model is based on the unsteady Bernoulli equation, the unsteady continuity equation and geometrical conditions for the surface curvature and the flow cross-section. The experimental and evaluated contour data show good agreement for a sequence of transient flow rate perturbations. In the case of steady flow at maximum flow rate, when the "choking" effect occurs, the surfaces collapse and cause gas ingestion into the channel. This effect is related to the Speed Index. At the critical flow rate the Speed Index reaches the value 1, in analogy to the Mach Number. Unsteady choking does not necessarily cause surface collapse. We show, that temporarily Speed Index values exceeding One may be achieved for a perfectly stable supercritical dynamic flow. As a supercritical criterion for the dynamic free surface stability we define a Dynamic Index considering the local capillary pressure and the convective pressure, which is a function of the local velocity. The Dynamic Index is below One for stable flow while D = 1 indicates surface collapse. This studies lead to a stability diagram, which defines the limits of flow dynamics and the maximum unsteady flow rate.

What story does geographic separation of insular bats tell? A case study on Sardinian rhinolophids.

PubMed

Russo, Danilo; Di Febbraro, Mirko; Rebelo, Hugo; Mucedda, Mauro; Cistrone, Luca; Agnelli, Paolo; De Pasquale, Pier Paolo; Martinoli, Adriano; Scaravelli, Dino; Spilinga, Cristiano; Bosso, Luciano

2014-01-01

Competition may lead to changes in a species' environmental niche in areas of sympatry and shifts in the niche of weaker competitors to occupy areas where stronger ones are rarer. Although mainland Mediterranean (Rhinolophus euryale) and Mehely's (R. mehelyi) horseshoe bats mitigate competition by habitat partitioning, this may not be true on resource-limited systems such as islands. We hypothesize that Sardinian R. euryale (SAR) have a distinct ecological niche suited to persist in the south of Sardinia where R. mehelyi is rarer. Assuming that SAR originated from other Italian populations (PES)--mostly allopatric with R. mehelyi--once on Sardinia the former may have undergone niche displacement driven by R. mehelyi. Alternatively, its niche could have been inherited from a Maghrebian source population. We: a) generated Maxent Species Distribution Models (SDM) for Sardinian populations; b) calibrated a model with PES occurrences and projected it to Sardinia to see whether PES niche would increase R. euryale's sympatry with R. mehelyi; and c) tested for niche similarity between R. mehelyi and PES, PES and SAR, and R. mehelyi and SAR. Finally we predicted R. euryale's range in Northern Africa both in the present and during the Last Glacial Maximum (LGM) by calibrating SDMs respectively with SAR and PES occurrences and projecting them to the Maghreb. R. mehelyi and PES showed niche similarity potentially leading to competition. According to PES' niche, R. euryale would show a larger sympatry with R. mehelyi on Sardinia than according to SAR niche. Such niches have null similarity. The current and LGM Maghrebian ranges of R. euryale were predicted to be wide according to SAR's niche, negligible according to PES' niche. SAR's niche allows R. euryale to persist where R. mehelyi is rarer and competition probably mild. Possible explanations may be competition-driven niche displacement or Maghrebian origin.

What Story Does Geographic Separation of Insular Bats Tell? A Case Study on Sardinian Rhinolophids

PubMed Central

Russo, Danilo; Di Febbraro, Mirko; Rebelo, Hugo; Mucedda, Mauro; Cistrone, Luca; Agnelli, Paolo; De Pasquale, Pier Paolo; Martinoli, Adriano; Scaravelli, Dino; Spilinga, Cristiano; Bosso, Luciano

2014-01-01

Competition may lead to changes in a species’ environmental niche in areas of sympatry and shifts in the niche of weaker competitors to occupy areas where stronger ones are rarer. Although mainland Mediterranean (Rhinolophus euryale) and Mehely’s (R. mehelyi) horseshoe bats mitigate competition by habitat partitioning, this may not be true on resource-limited systems such as islands. We hypothesize that Sardinian R. euryale (SAR) have a distinct ecological niche suited to persist in the south of Sardinia where R. mehelyi is rarer. Assuming that SAR originated from other Italian populations (PES) – mostly allopatric with R. mehelyi – once on Sardinia the former may have undergone niche displacement driven by R. mehelyi. Alternatively, its niche could have been inherited from a Maghrebian source population. We: a) generated Maxent Species Distribution Models (SDM) for Sardinian populations; b) calibrated a model with PES occurrences and projected it to Sardinia to see whether PES niche would increase R. euryale’s sympatry with R. mehelyi; and c) tested for niche similarity between R. mehelyi and PES, PES and SAR, and R. mehelyi and SAR. Finally we predicted R. euryale’s range in Northern Africa both in the present and during the Last Glacial Maximum (LGM) by calibrating SDMs respectively with SAR and PES occurrences and projecting them to the Maghreb. R. mehelyi and PES showed niche similarity potentially leading to competition. According to PES’ niche, R. euryale would show a larger sympatry with R. mehelyi on Sardinia than according to SAR niche. Such niches have null similarity. The current and LGM Maghrebian ranges of R. euryale were predicted to be wide according to SAR’s niche, negligible according to PES’ niche. SAR’s niche allows R. euryale to persist where R. mehelyi is rarer and competition probably mild. Possible explanations may be competition-driven niche displacement or Maghrebian origin. PMID:25340737

Beyond the continuum: a multi-dimensional phase space for neutral-niche community assembly.

PubMed

Latombe, Guillaume; Hui, Cang; McGeoch, Melodie A

2015-12-22

Neutral and niche processes are generally considered to interact in natural communities along a continuum, exhibiting community patterns bounded by pure neutral and pure niche processes. The continuum concept uses niche separation, an attribute of the community, to test the hypothesis that communities are bounded by pure niche or pure neutral conditions. It does not accommodate interactions via feedback between processes and the environment. By contrast, we introduce the Community Assembly Phase Space (CAPS), a multi-dimensional space that uses community processes (such as dispersal and niche selection) to define the limiting neutral and niche conditions and to test the continuum hypothesis. We compare the outputs of modelled communities in a heterogeneous landscape, assembled by pure neutral, pure niche and composite processes. Differences in patterns under different combinations of processes in CAPS reveal hidden complexity in neutral-niche community dynamics. The neutral-niche continuum only holds for strong dispersal limitation and niche separation. For weaker dispersal limitation and niche separation, neutral and niche processes amplify each other via feedback with the environment. This generates patterns that lie well beyond those predicted by a continuum. Inferences drawn from patterns about community assembly processes can therefore be misguided when based on the continuum perspective. CAPS also demonstrates the complementary information value of different patterns for inferring community processes and captures the complexity of community assembly. It provides a general tool for studying the processes structuring communities and can be applied to address a range of questions in community and metacommunity ecology. © 2015 The Author(s).

Beyond the continuum: a multi-dimensional phase space for neutral–niche community assembly

PubMed Central

Latombe, Guillaume; McGeoch, Melodie A.

2015-01-01

Neutral and niche processes are generally considered to interact in natural communities along a continuum, exhibiting community patterns bounded by pure neutral and pure niche processes. The continuum concept uses niche separation, an attribute of the community, to test the hypothesis that communities are bounded by pure niche or pure neutral conditions. It does not accommodate interactions via feedback between processes and the environment. By contrast, we introduce the Community Assembly Phase Space (CAPS), a multi-dimensional space that uses community processes (such as dispersal and niche selection) to define the limiting neutral and niche conditions and to test the continuum hypothesis. We compare the outputs of modelled communities in a heterogeneous landscape, assembled by pure neutral, pure niche and composite processes. Differences in patterns under different combinations of processes in CAPS reveal hidden complexity in neutral–niche community dynamics. The neutral–niche continuum only holds for strong dispersal limitation and niche separation. For weaker dispersal limitation and niche separation, neutral and niche processes amplify each other via feedback with the environment. This generates patterns that lie well beyond those predicted by a continuum. Inferences drawn from patterns about community assembly processes can therefore be misguided when based on the continuum perspective. CAPS also demonstrates the complementary information value of different patterns for inferring community processes and captures the complexity of community assembly. It provides a general tool for studying the processes structuring communities and can be applied to address a range of questions in community and metacommunity ecology. PMID:26702047

Is There Any Evidence for Rapid, Genetically-Based, Climatic Niche Expansion in the Invasive Common Ragweed?

PubMed

Gallien, Laure; Thuiller, Wilfried; Fort, Noémie; Boleda, Marti; Alberto, Florian J; Rioux, Delphine; Lainé, Juliette; Lavergne, Sébastien

2016-01-01

Climatic niche shifts have been documented in a number of invasive species by comparing the native and adventive climatic ranges in which they occur. However, these shifts likely represent changes in the realized climatic niches of invasive species, and may not necessarily be driven by genetic changes in climatic affinities. Until now the role of rapid niche evolution in the spread of invasive species remains a challenging issue with conflicting results. Here, we document a likely genetically-based climatic niche expansion of an annual plant invader, the common ragweed (Ambrosia artemisiifolia L.), a highly allergenic invasive species causing substantial public health issues. To do so, we looked for recent evolutionary change at the upward migration front of its adventive range in the French Alps. Based on species climatic niche models estimated at both global and regional scales we stratified our sampling design to adequately capture the species niche, and localized populations suspected of niche expansion. Using a combination of species niche modeling, landscape genetics models and common garden measurements, we then related the species genetic structure and its phenotypic architecture across the climatic niche. Our results strongly suggest that the common ragweed is rapidly adapting to local climatic conditions at its invasion front and that it currently expands its niche toward colder and formerly unsuitable climates in the French Alps (i.e. in sites where niche models would not predict its occurrence). Such results, showing that species climatic niches can evolve on very short time scales, have important implications for predictive models of biological invasions that do not account for evolutionary processes.

Neutral biogeography and the evolution of climatic niches.

PubMed

Boucher, Florian C; Thuiller, Wilfried; Davies, T Jonathan; Lavergne, Sébastien

2014-05-01

Recent debate on whether climatic niches are conserved through time has focused on how phylogenetic niche conservatism can be measured by deviations from a Brownian motion model of evolutionary change. However, there has been no evaluation of this methodological approach. In particular, the fact that climatic niches are usually obtained from distribution data and are thus heavily influenced by biogeographic factors has largely been overlooked. Our main objective here was to test whether patterns of climatic niche evolution that are frequently observed might arise from neutral dynamics rather than from adaptive scenarios. We developed a model inspired by neutral biodiversity theory, where individuals disperse, compete, and undergo speciation independently of climate. We then sampled the climatic niches of species according to their geographic position and showed that even when species evolve independently of climate, their niches can nonetheless exhibit evolutionary patterns strongly differing from Brownian motion. Indeed, climatic niche evolution is better captured by a model of punctuated evolution with constraints due to landscape boundaries, two features that are traditionally interpreted as evidence for selective processes acting on the niche. We therefore suggest that deviation from Brownian motion alone should not be used as evidence for phylogenetic niche conservatism but that information on phenotypic traits directly linked to physiology is required to demonstrate that climatic niches have been conserved through time.

Neutral biogeography and the evolution of climatic niches

PubMed Central

Boucher, Florian C.; Thuiller, Wilfried; Davies, T. Jonathan; Lavergne, Sébastien

2014-01-01

Recent debate on whether climatic niches are conserved through time has focused on how phylogenetic niche conservatism can be measured by deviations from a Brownian motion model of evolutionary change. However, there has been no evaluation of this methodological approach. In particular, the fact that climatic niches are usually obtained from distribution data and are thus heavily influenced by biogeographic factors has largely been overlooked. Our main objective here was to test whether patterns of climatic niche evolution that are frequently observed might arise from neutral dynamics rather than adaptive scenarios. We develop a model inspired by Neutral Biodiversity Theory, where individuals disperse, compete, and undergo speciation independently of climate. We then sample the climatic niches of species according to their geographic position and show that even when species evolved independently of climate, their niches can nonetheless exhibit evolutionary patterns strongly differing from Brownian motion. Indeed, climatic niche evolution is better captured by a model of punctuated evolution with constraints due to landscape boundaries, two features that are traditionally interpreted as evidence for selective processes acting on the niche. We therefore suggest that deviation from Brownian motion alone should not be used as evidence for phylogenetic niche conservatism, but that information on phenotypic traits directly linked to physiology is required to demonstrate that climatic niches have been conserved through time. PMID:24739191

Evolution of pollination niches in a generalist plant clade.

PubMed

Gómez, José María; Perfectti, Francisco; Abdelaziz, Mohamed; Lorite, Juan; Muñoz-Pajares, Antonio Jesús; Valverde, Javier

2015-01-01

It is widely assumed that floral diversification occurs by adaptive shifts between pollination niches. In contrast to specialized flowers, identifying pollination niches of generalist flowers is a challenge. Consequently, how generalist pollination niches evolve is largely unknown. We apply tools from network theory and comparative methods to investigate the evolution of pollination niches among generalist species belonging to the genus Erysimum. These species have similar flowers. We found that the studied species may be grouped in several multidimensional niches separated not by a shift of pollinators, but instead by quantitative variation in the relative abundance of pollinator functional groups. These pollination niches did not vary in generalization degree; we did not find any evolutionary trend toward specialization within the studied clade. Furthermore, the evolution of pollination niche fitted to a Brownian motion model without phylogenetic signal, and was characterized by frequent events of niche convergences and divergences. We presume that the evolution of Erysimum pollination niches has occurred mostly by recurrent shifts between slightly different generalized pollinator assemblages varying spatially as a mosaic and without any change in specialization degree. Most changes in pollination niches do not prompt floral divergence, a reason why adaptation to pollinators is uncommon in generalist plants. © 2014 The Authors. New Phytologist © 2014 New Phytologist Trust.

Ecological and evolutionary consequences of niche construction for its agent.

PubMed

Kylafis, Grigoris; Loreau, Michel

2008-10-01

Niche construction can generate ecological and evolutionary feedbacks that have been underinvestigated so far. We present an eco-evolutionary model that incorporates the process of niche construction to reveal its effects on the ecology and evolution of the niche-constructing agent. We consider a simple plant-soil nutrient ecosystem in which plants have the ability to increase the input of inorganic nutrient as an example of positive niche construction. On an ecological time scale, the model shows that niche construction allows the persistence of plants under infertile soil conditions that would otherwise lead to their extinction. This expansion of plants' niche, however, requires a high enough rate of niche construction and a high enough initial plant biomass to fuel the positive ecological feedback between plants and their soil environment. On an evolutionary time scale, we consider that the rates of niche construction and nutrient uptake coevolve in plants while a trade-off constrains their values. Different evolutionary outcomes are possible depending on the shape of the trade-off. We show that niche construction results in an evolutionary feedback between plants and their soil environment such that plants partially regulate soil nutrient content. The direct benefit accruing to plants, however, plays a crucial role in the evolutionary advantage of niche construction.

Niche conservatism in Gynandropaa frogs on the southeastern Qinghai-Tibetan Plateau.

PubMed

Hu, Junhua; Broennimann, Olivier; Guisan, Antoine; Wang, Bin; Huang, Yan; Jiang, Jianping

2016-09-07

The role of ecological niche in lineage diversification has been the subject of long-standing interest of ecologists and evolutionary biologists. Gynandropaa frogs diversified into three independent clades endemic to the southeastern Qinghai-Tibetan Plateau. Here, we address the question whether these clades kept the same niche after separation, and what it tells us about possible diversification processes. We applied predictions in geographical (G)-space and tests of niche conservatism in environmental (E)-space. Niche models in G-space indicate separate regions with high suitability for the different clades, with some potential areas of sympatry. While the pair of central and eastern clades displayed the largest niche overlap for most variables, and strict niche equivalency was rejected for all clade-pairs, we found no strong evidence for niche divergence, but rather the signature of niche conservatism compared to null models in E-space. These results suggest a common ancestral ecological niche, and as such give good support to divergence through allopatric speciation, but alternative explanations are also possible. Our findings illustrate how testing for niche conservatism in lineage diversification can provide insights into underlying speciation processes, and how this information may guide further research and conservation practices, as illustrated here for amphibians on the Qinghai-Tibetan Plateau.

Edge profile analysis of Joint European Torus (JET) Thomson scattering data: Quantifying the systematic error due to edge localised mode synchronisation.

PubMed

Leyland, M J; Beurskens, M N A; Flanagan, J C; Frassinetti, L; Gibson, K J; Kempenaars, M; Maslov, M; Scannell, R

2016-01-01

The Joint European Torus (JET) high resolution Thomson scattering (HRTS) system measures radial electron temperature and density profiles. One of the key capabilities of this diagnostic is measuring the steep pressure gradient, termed the pedestal, at the edge of JET plasmas. The pedestal is susceptible to limiting instabilities, such as Edge Localised Modes (ELMs), characterised by a periodic collapse of the steep gradient region. A common method to extract the pedestal width, gradient, and height, used on numerous machines, is by performing a modified hyperbolic tangent (mtanh) fit to overlaid profiles selected from the same region of the ELM cycle. This process of overlaying profiles, termed ELM synchronisation, maximises the number of data points defining the pedestal region for a given phase of the ELM cycle. When fitting to HRTS profiles, it is necessary to incorporate the diagnostic radial instrument function, particularly important when considering the pedestal width. A deconvolved fit is determined by a forward convolution method requiring knowledge of only the instrument function and profiles. The systematic error due to the deconvolution technique incorporated into the JET pedestal fitting tool has been documented by Frassinetti et al. [Rev. Sci. Instrum. 83, 013506 (2012)]. This paper seeks to understand and quantify the systematic error introduced to the pedestal width due to ELM synchronisation. Synthetic profiles, generated with error bars and point-to-point variation characteristic of real HRTS profiles, are used to evaluate the deviation from the underlying pedestal width. We find on JET that the ELM synchronisation systematic error is negligible in comparison to the statistical error when assuming ten overlaid profiles (typical for a pre-ELM fit to HRTS profiles). This confirms that fitting a mtanh to ELM synchronised profiles is a robust and practical technique for extracting the pedestal structure.

Compatible ecological niche signals between biological and archaeological datasets for late-surviving Neandertals.

PubMed

Bible, Rachael C; Peterson, A Townsend

2018-04-17

To assess ecological niche similarity for biological and archaeological samples representing late-surviving Neandertals in Europe to evaluate the validity of combining these two types of data in ecological niche modeling analyses. Tests of niche conservatism were used to assess niche similarity and niche identity of samples of morphologically diagnostic Neandertal remains and Middle Paleolithic (MP) archaeological sites dating to the time period leading up to Neandertal extinction. Paleoenvironmental reconstructions for the Pre-H4 (43.3-40.2 ky cal BP) were used as environmental space analyses. Null hypotheses of niche similarity and identity of the two types of samples could not be rejected. As primary and secondary evidence of Neandertal occurrence during the Pre-H4 show high levels of niche similarity and identity, combining the two types of occurrence data to create larger samples for niche analyses is justified without the concern that different environmental signals could complicate future research. © 2018 Wiley Periodicals, Inc.

Neoplastic Bone Marrow Niche: Hematopoietic and Mesenchymal Stem Cells

PubMed Central

Saki, Najmaldin; Abroun, Saeid; Farshdousti Hagh, Majid; Asgharei, Farahnaz

2011-01-01

The neoplastic niche comprises complex interactions between multiple cell types and molecules requiring cell-cell signaling as well as local secretion. These niches are important for both the maintenance of cancer stem cells and the induction of neoplastic cells survival and proliferation. Each niche contains a population of tumor stem cells supported by a closely associated vascular bed comprising mesenchyme-derived cells and extracellular matrix. Targeting cancer stem cells and neoplastic niche may provide new therapies to eradicate tumors. Much progress has been very recently made in the understanding of the cellular and molecular interactions in the microenvironment of neoplastic niches. This review article provides an overview of the neoplastic niches in the bone marrow. In addition to highlighting recent advances in the field, we will also discuss components of the niche and their signaling pathways. PMID:23508881

Morphological and niche divergence of pinyon pines.

PubMed

Ortiz-Medrano, Alejandra; Scantlebury, Daniel Patrick; Vázquez-Lobo, Alejandra; Mastretta-Yanes, Alicia; Piñero, Daniel

2016-05-01

The environmental variables that define a species ecological niche should be associated with the evolutionary patterns present in the adaptations that resulted from living in these conditions. Thus, when comparing across species, we can expect to find an association between phylogenetically independent phenotypic characters and ecological niche evolution. Few studies have evaluated how organismal phenotypes might mirror patterns of niche evolution if these phenotypes reflect adaptations. Doing so could contribute on the understanding of the origin and maintenance of phenotypic diversity observed in nature. Here, we show the pattern of niche evolution of the pinyon pine lineage (Pinus subsection Cembroides); then, we suggest morphological adaptations possibly related to niche divergence, and finally, we test for correlation between ecological niche and morphology. We demonstrate that niche divergence is the general pattern within the clade and that it is positively correlated with adaptation.

Lineage diversification in a widespread species: roles for niche divergence and conservatism in the common kingsnake, Lampropeltis getula.

PubMed

Alexander Pyron, R; Burbrink, Frank T

2009-08-01

Niche conservatism and niche divergence are both important ecological mechanisms associated with promoting allopatric speciation across geographical barriers. However, the potential for variable responses in widely distributed organisms has not been fully investigated. For allopatric sister lineages, three patterns for the interaction of ecological niche preference and geographical barriers are possible: (i) niche conservatism at a physical barrier; (ii) niche divergence at a physical barrier; and (iii) niche divergence in the absence of a physical barrier. We test for the presence of these patterns in a transcontinentally distributed snake species, the common kingsnake (Lampropeltis getula), to determine the relative frequency of niche conservatism or divergence in a single species complex inhabiting multiple distinct ecoregions. We infer the phylogeographic structure of the kingsnake using a range-wide data set sampled for the mitochondrial gene cytochrome b. We use coalescent simulation methods to test for the presence of structured lineage formation vs. fragmentation of a widespread ancestor. Finally, we use statistical techniques for creating and evaluating ecological niche models to test for conservatism of ecological niche preferences. Significant geographical structure is present in the kingsnake, for which coalescent tests indicate structured population division. Surprisingly, we find evidence for all three patterns of conservatism and divergence. This suggests that ecological niche preferences may be labile on recent phylogenetic timescales, and that lineage formation in widespread species can result from an interaction between inertial tendencies of niche conservatism and natural selection on populations in ecologically divergent habitats.

Behavioural manipulation of insect hosts by Baculoviridae as a process of niche construction

PubMed Central

2013-01-01

Background Niche construction has received increasing attention in recent years as a vital force in evolution and examples of niche construction have been identified in a wide variety of taxa, but viruses are conspicuously absent. In this study we explore how niche construction can lead to viruses engineering their hosts (including behavioural manipulation) with feedback on selective pressures for viral transmission and virulence. To illustrate this concept we focus on Baculoviridae, a family of invertebrate viruses that have evolved to modify the feeding behaviour of their lepidopteran hosts and liquefy their cadavers as part of the course of infection. Results We present a mathematical model showing how niche construction leads to feedback from the behavioural manipulation to the liquefaction of the host, linking the evolution of both of these traits, and show how this association arises from the action of niche construction. Model results show that niche construction is plausible in this system and delineates the conditions under which niche construction will occur. Niche construction in this system is also shown to be sensitive to parameter values that reflect ecological forces. Conclusions Our model demonstrates that niche construction can be a potent force in viral evolution and can lead to the acquisition and maintenance of the behavioural manipulation and liquefaction traits in Baculoviridae via the niche constructing effects on the host. These results show the potential for niche construction theory to provide new insights into viral evolution. PMID:23953199

Niche shifts and the potential distribution of Phenacoccus solenopsis (Hemiptera: Pseudococcidae) under climate change

PubMed Central

Zhao, Wanqing; Zhao, Qing

2017-01-01

The cotton mealybug, Phenacoccus solenopsis Tinsley (Hemiptera: Pseudococcidae), is a serious invasive species that significantly damages plants of approximately 60 families around the world. It is originally from North America and has also been introduced to other continents. Our goals were to create a current and future potential global distribution map for this pest under climate change with MaxEnt software. We tested the hypothesis of niche conservatism for P. solenopsis by comparing its native niche in North America to its invasive niches on other continents using Principal components analyses (PCA) in R. The potentially suitable habitat for P. solenopsis in its native and non-native ranges is presented in the present paper. The results suggested that the mean temperature of the wettest quarter and the mean temperature of the driest quarter are the most important environmental variables determining the potential distribution of P. solenopsis. We found strong evidence for niche shifts in the realized climatic niche of this pest in South America and Australia due to niche unfilling; however, a niche shift in the realized climatic niche of this pest in Eurasian owing to niche expansion. PMID:28700721

Foraging and farming as niche construction: stable and unstable adaptations

PubMed Central

Rowley-Conwy, Peter; Layton, Robert

2011-01-01

All forager (or hunter–gatherer) societies construct niches, many of them actively by the concentration of wild plants into useful stands, small-scale cultivation, burning of natural vegetation to encourage useful species, and various forms of hunting, collectively termed ‘low-level food production’. Many such niches are stable and can continue indefinitely, because forager populations are usually stable. Some are unstable, but these usually transform into other foraging niches, not geographically expansive farming niches. The Epipalaeolithic (final hunter–gatherer) niche in the Near East was complex but stable, with a relatively high population density, until destabilized by an abrupt climatic change. The niche was unintentionally transformed into an agricultural one, due to chance genetic and behavioural attributes of some wild plant and animal species. The agricultural niche could be exported with modifications over much of the Old World. This was driven by massive population increase and had huge impacts on local people, animals and plants wherever the farming niche was carried. Farming niches in some areas may temporarily come close to stability, but the history of the last 11 000 years does not suggest that agriculture is an effective strategy for achieving demographic and political stability in the world's farming populations. PMID:21320899

The endoderm specifies the mesodermal niche for the germline in Drosophila via Delta-Notch signaling

PubMed Central

Okegbe, Tishina C.; DiNardo, Stephen

2011-01-01

Interactions between niche cells and stem cells are vital for proper control over stem cell self-renewal and differentiation. However, there are few tissues where the initial establishment of a niche has been studied. The Drosophila testis houses two stem cell populations, which each lie adjacent to somatic niche cells. Although these niche cells sustain spermatogenesis throughout life, it is not understood how their fate is established. Here, we show that Notch signaling is necessary to specify niche cell fate in the developing gonad. Surprisingly, our results indicate that adjacent endoderm is the source of the Notch-activating ligand Delta. We also find that niche cell specification occurs earlier than anticipated, well before the expression of extant markers for niche cell fate. This work further suggests that endoderm plays a dual role in germline development. The endoderm assists both in delivering germ cells to the somatic gonadal mesoderm, and in specifying the niche where these cells will subsequently develop as stem cells. Because in mammals primordial germ cells also track through endoderm on their way to the genital ridge, our work raises the possibility that conserved mechanisms are employed to regulate germline niche formation. PMID:21350008

Germination niche breadth varies inconsistently among three Asclepias congeners along a latitudinal gradient.

PubMed

Finch, Jessamine; Walck, Jeffrey L; Hidayati, Siti N; Kramer, Andrea T; Lason, Victoria; Havens, Kayri

2018-05-20

Species responses to climate change will be primarily driven by their environmental tolerance range, or niche breadth, with the expectation that broad niches will increase resilience. Niche breadth is expected to be greater in more heterogeneous environments and moderated by life history. Niche breadth also varies across life stage. Therefore, the life stage with the narrowest niche may serve as the best predictor of climatic vulnerability. To investigate the relationship between niche breadth, climate, and life stage we identify germination niche breadth for dormant and nondormant seeds in multiple populations of three milkweed (Asclepias) species. Complementary trials evaluated germination under conditions simulating historic and predicted future climate by varying cold-moist stratification temperature, length, and incubation temperature. Germination niche breadth was derived from germination evenness across treatments (Levins B n ), with stratified seeds considered less dormant than non-stratified seeds. Germination response varies significantly among species, populations, and treatments. Cold-moist stratification ≥ 4 weeks (1-3°C) followed by incubation at 25/15°C+ achieves peak germination for most populations. Germination niche breadth significantly expands following stratification and interacts significantly with latitude of origin. Interestingly, two species display a positive relationship between niche breadth and latitude, while the third presents a concave quadratic relationship. Germination niche breadth significantly varies by species, latitude, and population, suggesting an interaction between source climate, life history, and site-specific factors. Results contribute to our understanding of inter- and intraspecific variation in germination, underscore the role of dormancy in germination niche breadth, and have implications for prioritizing and conserving species under climate change. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

Capacitance of the Double Layer Formed at the Metal/Ionic-Conductor Interface: How Large Can It Be?

NASA Astrophysics Data System (ADS)

Skinner, Brian; Loth, M. S.; Shklovskii, B. I.

2010-03-01

The capacitance of the double layer formed at a metal/ionic-conductor interface can be remarkably large, so that the apparent width of the double layer is as small as 0.3 Å. Mean-field theories fail to explain such large capacitance. We propose an alternate theory of the ionic double layer which allows for the binding of discrete ions to their image charges in the metal. We show that at small voltages the capacitance of the double layer is limited only by the weak dipole-dipole repulsion between bound ions, and is therefore very large. At large voltages the depletion of bound ions from one of the capacitor electrodes triggers a collapse of the capacitance to the mean-field value.

Environmental filtering drives the shape and breadth of the seed germination niche in coastal plant communities

PubMed Central

Pérez-Arcoiza, Adrián; Prieto, José Alberto; Díaz, Tomás E.

2017-01-01

Abstract Background and Aims A phylogenetic comparative analysis of the seed germination niche was conducted in coastal plant communities of western Europe. Two hypotheses were tested, that (1) the germination niche shape (i.e. the preference for a set of germination cues as opposed to another) would differ between beaches and cliffs to prevent seedling emergence in the less favourable season (winter and summer, respectively); and (2) the germination niche breadth (i.e. the amplitude of germination cues) would be narrower in the seawards communities, where environmental filtering is stronger. Methods Seeds of 30 specialist species of coastal plant communities were collected in natural populations of northern Spain. Their germination was measured in six laboratory treatments based on field temperatures. Germination niche shape was estimated as the best germination temperature. Germination niche breadth was calculated using Pielou’s evenness index. Differences between plant communities in their germination niche shape and breadth were tested using phylogenetic generalized least squares regression (PGLS). Key Results Germination niche shape differed between communities, being warm-cued in beaches (best germination temperature = 20 °C) and cold-cued in cliffs (14 °C). Germination niche was narrowest in seawards beaches (Pielou’s index = 0·89) and broadest in landwards beaches (0·99). Cliffs had an intermediate germination niche breadth (0·95). The relationship between niche and plant community had a positive phylogenetic signal for shape (Pagel’s λ = 0·64) and a negative one for breadth (Pagel’s λ = −1·71). Conclusion Environmental filters shape the germination niche to prevent emergence in the season of highest threat for seedling establishment. The germination niche breadth is narrower in the communities with stronger environmental filters, but only in beaches. This study provides empirical support to a community-level generalization of the hypotheses about the environmental drivers of the germination niche. It highlights the role of germination traits in community assembly. PMID:28334139

Niche conservatism and the invasive potential of the wild boar.

PubMed

Sales, Lilian Patrícia; Ribeiro, Bruno R; Hayward, Matt Warrington; Paglia, Adriano; Passamani, Marcelo; Loyola, Rafael

2017-09-01

Niche conservatism, i.e. the retention of a species' fundamental niche through evolutionary time, is cornerstone for biological invasion assessments. The fact that species tend to maintain their original climate niche allows predictive maps of invasion risk to anticipate potential invadable areas. Unravelling the mechanisms driving niche shifts can shed light on the management of invasive species. Here, we assessed niche shifts in one of the world's worst invasive species: the wild boar Sus scrofa. We also predicted potential invadable areas based on an ensemble of three ecological niche modelling methods, and evaluated the performance of models calibrated with native vs. pooled (native plus invaded) species records. By disentangling the drivers of change on the exotic wild boar population's niches, we found strong evidence for niche conservatism during biological invasion. Ecological niche models calibrated with both native and pooled range records predicted convergent areas. Also, observed niche shifts are mostly explained by niche unfilling, i.e. there are unoccupied areas in the exotic range where climate is analogous to the native range. Niche unfilling is expected as result of recent colonization and ongoing dispersal, and was potentially stronger for the Neotropics, where a recent wave of introductions for pig-farming and game-hunting has led to high wild boar population growth rates. The invasive potential of wild boar in the Neotropics is probably higher than in other regions, which has profound management implications if we are to prevent their invasion into species-rich areas, such as Amazonia, coupled with expansion of African swine fever and possibly great economic losses. Although the originally Eurasian-wide distribution suggests a pre-adaptation to a wide array of climates, the wild boar world-wide invasion does not exhibit evidence of niche evolution. The invasive potential of the wild boar therefore probably lies on the reproductive, dietary and morphological characteristics of this species, coupled with behavioural thermoregulation. © 2017 The Authors. Journal of Animal Ecology © 2017 British Ecological Society.

Dietary niche variation and its relationship to lizard population density.

PubMed

Novosolov, Maria; Rodda, Gordon H; Gainsbury, Alison M; Meiri, Shai

2018-01-01

Insular species are predicted to broaden their niches, in response to having fewer competitors. They can thus exploit a greater proportion of the resource spectrum. In turn, broader niches are hypothesized to facilitate (or be a consequence of) increased population densities. We tested whether insular lizards have broader dietary niches than mainland species, how it relates to competitor and predator richness, and the nature of the relationship between population density and dietary niche breadth. We collected population density and dietary niche breadth data for 36 insular and 59 mainland lizard species, and estimated competitor and predator richness at the localities where diet data were collected. We estimated dietary niche shift by comparing island species to their mainland relatives. We controlled for phylogenetic relatedness, body mass and the size of the plots over which densities were estimated. We found that island and mainland species had similar niche breadths. Dietary niche breadth was unrelated to competitor and predator richness, on both islands and the mainland. Population density was unrelated to dietary niche breadth across island and mainland populations. Our results indicate that dietary generalism is not an effective way of increasing population density nor is it result of lower competitive pressure. A lower variety of resources on islands may prevent insular animals from increasing their niche breadths even in the face of few competitors. © 2017 The Authors. Journal of Animal Ecology © 2017 British Ecological Society.

Vascular and perivascular niches, but not the osteoblastic niche, are numerically restored following allogeneic hematopoietic stem cell transplantation in patients with aplastic anemia.

PubMed

Wu, Liangliang; Mo, Wenjian; Zhang, Yuping; Zhou, Ming; Li, Yumiao; Zhou, Ruiqing; Xu, Shiling; Pan, Shiyi; Deng, Hui; Mao, Ping; Wang, Shunqing

2017-07-01

Bone marrow (BM) niches, including the osteoblastic, vascular, and perivascular niches, are numerically impaired in patients with aplastic anemia (AA). It remains unclear whether these niches are numerically restored in AA patients after allogenic hematopoietic stem cell transplantation (allo-HSCT). To investigate changes in BM niches, we monitored 52 patients with AA who had undergone allo-HSCT and performed immunohistochemical studies of BM niches using antibodies against CD34, CD146, and osteopontin. After allo-HSCT, patients with AA exhibited a remarkable increase in the number of cellular elements in the BM niches, including the vascular and perivascular cells. However, no significant differences in endosteal cells were detected. We explored the cause of this restoration by analyzing the origin of BM mesenchymal stem cells (BM-MSCs) and the expression of cytokines in BM plasma. STR-PCR revealed that the BM-MSCs were derived from the host, not the donor. In addition, significantly elevated levels of vascular endothelial growth factor (VEGF) were found after allo-HSCT. Our data indicates that vascular and perivascular niches are numerically restored, but the endosteal niche remains numerically impaired in patients with AA after allo-HSCT, and that levels of VEGF, but not donor-derived BM-MSCs, may correlate with the restoration of BM niches.

Identifying niche-mediated regulatory factors of stem cell phenotypic state: a systems biology approach.

PubMed

Ravichandran, Srikanth; Del Sol, Antonio

2017-02-01

Understanding how the cellular niche controls the stem cell phenotype is often hampered due to the complexity of variegated niche composition, its dynamics, and nonlinear stem cell-niche interactions. Here, we propose a systems biology view that considers stem cell-niche interactions as a many-body problem amenable to simplification by the concept of mean field approximation. This enables approximation of the niche effect on stem cells as a constant field that induces sustained activation/inhibition of specific stem cell signaling pathways in all stem cells within heterogeneous populations exhibiting the same phenotype (niche determinants). This view offers a new basis for the development of single cell-based computational approaches for identifying niche determinants, which has potential applications in regenerative medicine and tissue engineering. © 2017 The Authors. FEBS Letters published by John Wiley & Sons Ltd on behalf of Federation of European Biochemical Societies.

The Drosophila ovarian and testis stem cell niches: similar somatic stem cells and signals.

PubMed

Decotto, Eva; Spradling, Allan C

2005-10-01

The stem cell niches at the apex of Drosophila ovaries and testes have been viewed as distinct in two major respects. While both contain germline stem cells, the testis niche also contains "cyst progenitor" stem cells, which divide to produce somatic cells that encase developing germ cells. Moreover, while both niches utilize BMP signaling, the testis niche requires a key JAK/STAT signal. We now show, by lineage marking, that the ovarian niche also contains a second type of stem cell. These "escort stem cells" morphologically resemble testis cyst progenitor cells and their daughters encase developing cysts before undergoing apoptosis at the time of follicle formation. In addition, we show that JAK/STAT signaling also plays a critical role in ovarian niche function, and acts within escort cells. These observations reveal striking similarities in the stem cell niches of male and female gonads, and suggest that they are largely governed by common mechanisms.

Ecological divergence and conservatism: spatiotemporal patterns of niche evolution in a genus of livebearing fishes (Poeciliidae: Xiphophorus).

PubMed

Culumber, Zachary W; Tobler, Michael

2016-02-19

Ecological factors often have a strong impact on spatiotemporal patterns of biodiversity. The integration of spatial ecology and phylogenetics allows for rigorous tests of whether speciation is associated with niche conservatism (constraints on ecological divergence) or niche divergence. We address this question in a genus of livebearing fishes for which the role of sexual selection in speciation has long been studied, but in which the potential role of ecological divergence during speciation has not been tested. By combining reconstruction of ancestral climate tolerances and disparity indices, we show that the earliest evolutionary split in Xiphophorus was associated with significant divergence for temperature variables. Niche evolution and present day niches were most closely associated with each species' geographic distribution relative to a biogeographic barrier, the Trans-Mexican Volcanic Belt. Tests for similarity of the environmental backgrounds of closely related species suggested that the relative importance of niche conservatism and divergence during speciation varied among the primary clades of Xiphophorus. Closely related species in the two swordtail clades exhibited higher levels of niche overlap than expected given environmental background similarity indicative of niche conservatism. In contrast, almost all species of platyfish had significantly divergent niches compared to environmental backgrounds, which is indicative of niche divergence. The results suggest that the relative importance of niche conservatism and divergence differed among the clades of Xiphophorus and that traits associated with niche evolution may be more evolutionarily labile in the platyfishes. Our results ultimately suggest that the taxonomic scale of tests for conservatism and divergence could greatly influence inferences of their relative importance in the speciation process.

Average niche breadths of species in lake macrophyte communities respond to ecological gradients variably in four regions on two continents.

PubMed

Alahuhta, Janne; Virtala, Antti; Hjort, Jan; Ecke, Frauke; Johnson, Lucinda B; Sass, Laura; Heino, Jani

2017-05-01

Different species' niche breadths in relation to ecological gradients are infrequently examined within the same study and, moreover, species niche breadths have rarely been averaged to account for variation in entire ecological communities. We investigated how average environmental niche breadths (climate, water quality and climate-water quality niches) in aquatic macrophyte communities are related to ecological gradients (latitude, longitude, altitude, species richness and lake area) among four distinct regions (Finland, Sweden and US states of Minnesota and Wisconsin) on two continents. We found that correlations between the three different measures of average niche breadths and ecological gradients varied considerably among the study regions, with average climate and average water quality niche breadth models often showing opposite trends. However, consistent patterns were also found, such as widening of average climate niche breadths and narrowing of average water quality niche breadths of aquatic macrophytes along increasing latitudinal and altitudinal gradients. This result suggests that macrophyte species are generalists in relation to temperature variations at higher latitudes and altitudes, whereas species in southern, lowland lakes are more specialised. In contrast, aquatic macrophytes growing in more southern nutrient-rich lakes were generalists in relation to water quality, while specialist species are adapted to low-productivity conditions and are found in highland lakes. Our results emphasise that species niche breadths should not be studied using only coarse-scale data of species distributions and corresponding environmental conditions, but that investigations on different kinds of niche breadths (e.g., climate vs. local niches) also require finer resolution data at broad spatial extents.

Why do niches develop in Caesarean uterine scars? Hypotheses on the aetiology of niche development.

PubMed

Vervoort, A J M W; Uittenbogaard, L B; Hehenkamp, W J K; Brölmann, H A M; Mol, B W J; Huirne, J A F

2015-12-01

Caesarean section (CS) results in the occurrence of the phenomenon 'niche'. A 'niche' describes the presence of a hypoechoic area within the myometrium of the lower uterine segment, reflecting a discontinuation of the myometrium at the site of a previous CS. Using gel or saline instillation sonohysterography, a niche is identified in the scar in more than half of the women who had had a CS, most with the uterus closed in one single layer, without closure of the peritoneum. An incompletely healed scar is a long-term complication of the CS and is associated with more gynaecological symptoms than is commonly acknowledged. Approximately 30% of women with a niche report spotting at 6-12 months after their CS. Other reported symptoms in women with a niche are dysmenorrhoea, chronic pelvic pain and dyspareunia. Given the association between a niche and gynaecological symptoms, obstetric complications and potentially with subfertility, it is important to elucidate the aetiology of niche development after CS in order to develop preventive strategies. Based on current published data and our observations during sonographic, hysteroscopic and laparoscopic evaluations of niches we postulate some hypotheses on niche development. Possible factors that could play a role in niche development include a very low incision through cervical tissue, inadequate suturing technique during closure of the uterine scar, surgical interventions that increase adhesion formation or patient-related factors that impair wound healing or increase inflammation or adhesion formation. © The Author 2015. Published by Oxford University Press on behalf of the European Society of Human Reproduction and Embryology.

Niche evolution and diversification in a Neotropical radiation of birds (Aves: Furnariidae).

PubMed

Seeholzer, Glenn F; Claramunt, Santiago; Brumfield, Robb T

2017-03-01

Rapid diversification may be caused by ecological adaptive radiation via niche divergence. In this model, speciation is coupled with niche divergence and lineage diversification is predicted to be correlated with rates of niche evolution. Studies of the role of niche evolution in diversification have generally focused on ecomorphological diversification but climatic-niche evolution may also be important. We tested these alternatives using a phylogeny of 298 species of ovenbirds (Aves: Furnariidae). We found that within Furnariidae, variation in species richness and diversification rates of subclades were best predicted by rate of climatic-niche evolution than ecomorphological evolution. Although both are clearly important, univariate regression and multivariate model averaging more consistently supported the climatic-niche as the best predictor of lineage diversification. Our study adds to the growing body of evidence, suggesting that climatic-niche divergence may be an important driver of rapid diversification in addition to ecomorphological evolution. However, this pattern may depend on the phylogenetic scale at which rate heterogeneity is examined. © 2017 The Author(s). Evolution © 2017 The Society for the Study of Evolution.

Chironomidae larvae (Diptera) of Neotropical floodplain: overlap niche in different habitats.

PubMed

Butakka, C M M; Ragonha, F H; Takeda, A M

2014-05-01

The niche overlap between trophic groups of Chironomidae larvae in different habitats was observed between trophic groups and between different environments in Neotropical floodplain. For the evaluation we used the index of niche overlap (CXY) and analysis of trophic networks, both from the types and amount of food items identified in the larval alimentary canal. In all environments, the larvae fed on mainly organic matter such as plants fragments and algae, but there were many omnivore larvae. Species that have high values of food items occurred in diverse environments as generalists with great overlap niche and those with a low amount of food items with less overlap niche were classified as specialists. The largest number of trophic niche overlap was observed among collector-gatherers in connected floodplain lakes. The lower values of index niche overlap were predators. The similarity in the diet of different taxa in the same niche does not necessarily imply competition between them, but coexistence when the food resource is not scarce in the environment even in partially overlapping niches.

[Application of niche theory in evaluation of main tourism scenic areas in Zhangjiajie City].

PubMed

Xiang, Yan-ping; Xiang, Chang-guo; Chen, You-lian

2010-05-01

Five tourism scenic areas in Zhangjiajie City were selected as research objects, and fifty kinds of resource conditions affecting the development of tourism scenic area were taken as evaluation indices. Through disposing and consolidating the indices level by level, an analysis was made on the niche breadth and niche overlap of the five tourism scenic areas at three levels (I, II, and III). In the five scenic areas, index level had significant effects on the niche breadth (F = 10.278, P = 0.006), but less effects on the relative niche breadth, suggesting that in the evaluation of the development potential of tourism scenic area, relative niche breadth was more reasonable than absolute niche breadth. From level III to level I, the niche overlap of the five scenic areas was increasing, indicating that level choice would affect the evaluation of the actual niche overlap of the scenic areas. With the progressive refinement of the indices to certain level, and when the difference between observed and Monte Carlo-simulated Pianka indices achieved to significant level, this index level could be used as the minimum standard of the refinement, and the simulated niche overlap could be taken as an important reference in the competition evaluation of tourism scenic area.

Trophic specialization influences the rate of environmental niche evolution in damselfishes (Pomacentridae).

PubMed

Litsios, Glenn; Pellissier, Loïc; Forest, Félix; Lexer, Christian; Pearman, Peter B; Zimmermann, Niklaus E; Salamin, Nicolas

2012-09-22

The rate of environmental niche evolution describes the capability of species to explore the available environmental space and is known to vary among species owing to lineage-specific factors. Trophic specialization is a main force driving species evolution and is responsible for classical examples of adaptive radiations in fishes. We investigate the effect of trophic specialization on the rate of environmental niche evolution in the damselfish, Pomacentridae, which is an important family of tropical reef fishes. First, phylogenetic niche conservatism is not detected in the family using a standard test of phylogenetic signal, and we demonstrate that the environmental niches of damselfishes that differ in trophic specialization are not equivalent while they still overlap at their mean values. Second, we estimate the relative rates of niche evolution on the phylogenetic tree and show the heterogeneity among rates of environmental niche evolution of the three trophic groups. We suggest that behavioural characteristics related to trophic specialization can constrain the evolution of the environmental niche and lead to conserved niches in specialist lineages. Our results show the extent of influence of several traits on the evolution of the environmental niche and shed new light on the evolution of damselfishes, which is a key lineage in current efforts to conserve biodiversity in coral reefs.

Trophic specialization influences the rate of environmental niche evolution in damselfishes (Pomacentridae)

PubMed Central

Litsios, Glenn; Pellissier, Loïc; Forest, Félix; Lexer, Christian; Pearman, Peter B.; Zimmermann, Niklaus E.; Salamin, Nicolas

2012-01-01

The rate of environmental niche evolution describes the capability of species to explore the available environmental space and is known to vary among species owing to lineage-specific factors. Trophic specialization is a main force driving species evolution and is responsible for classical examples of adaptive radiations in fishes. We investigate the effect of trophic specialization on the rate of environmental niche evolution in the damselfish, Pomacentridae, which is an important family of tropical reef fishes. First, phylogenetic niche conservatism is not detected in the family using a standard test of phylogenetic signal, and we demonstrate that the environmental niches of damselfishes that differ in trophic specialization are not equivalent while they still overlap at their mean values. Second, we estimate the relative rates of niche evolution on the phylogenetic tree and show the heterogeneity among rates of environmental niche evolution of the three trophic groups. We suggest that behavioural characteristics related to trophic specialization can constrain the evolution of the environmental niche and lead to conserved niches in specialist lineages. Our results show the extent of influence of several traits on the evolution of the environmental niche and shed new light on the evolution of damselfishes, which is a key lineage in current efforts to conserve biodiversity in coral reefs. PMID:22719034

Why developmental niche construction is not selective niche construction: and why it matters.

PubMed

Stotz, Karola

2017-10-06

In the last decade, niche construction has been heralded as the neglected process in evolution. But niche construction is just one way in which the organism's interaction with and construction of the environment can have potential evolutionary significance. The constructed environment does not just select for , it also produces new variation. Nearly 3 decades ago, and in parallel with Odling-Smee's article 'Niche-constructing phenotypes', West and King introduced the 'ontogenetic niche' to give the phenomena of exo genetic inheritance a formal name. Since then, a range of fields in the life sciences and medicine has amassed evidence that parents influence their offspring by means other than DNA (parental effects), and proposed mechanisms for how heritable variation can be environmentally induced and developmentally regulated. The concept of 'developmental niche construction' (DNC) elucidates how a diverse range of mechanisms contributes to the transgenerational transfer of developmental resources. My most central of claims is that whereas the selective niche of niche construction theory is primarily used to explain the active role of the organism in its selective environment, DNC is meant to indicate the active role of the organism in its developmental environment. The paper highlights the differences between the construction of the selective and the developmental niche, and explores the overall significance of DNC for evolutionary theory.

Environmental niche conservatism explains the accumulation of species richness in Mediterranean-hotspot plant genera.

PubMed

Skeels, Alexander; Cardillo, Marcel

2017-03-01

The causes of exceptionally high plant diversity in Mediterranean-climate biodiversity hotspots are not fully understood. We asked whether a mechanism similar to the tropical niche conservatism hypothesis could explain the diversity of four large genera (Protea, Moraea, Banksia, and Hakea) with distributions within and adjacent to the Greater Cape Floristic Region (South Africa) or the Southwest Floristic Region (Australia). Using phylogenetic and spatial data we estimated the environmental niche of each species, and reconstructed the mode and dynamics of niche evolution, and the geographic history, of each genus. For three genera, there were strong positive relationships between the diversity of clades within a region and their inferred length of occupation of that region. Within genera, there was evidence for strong evolutionary constraint on niche axes associated with climatic seasonality and aridity, with different niche optima for hotspot and nonhotspot clades. Evolutionary transitions away from hotspots were associated with increases in niche breadth and elevated rates of niche evolution. Our results point to a process of "hotspot niche conservatism" whereby the accumulation of plant diversity in Mediterranean-type ecosystems results from longer time for speciation, with dispersal away from hotspots limited by narrow and phylogenetically conserved environmental niches. © 2017 The Author(s). Evolution © 2017 The Society for the Study of Evolution.

Climate change and water management in the biblical city of Dan

PubMed Central

Kaniewski, David; Marriner, Nick; Ilan, David; Morhange, Christophe; Thareani, Yifat; Van Campo, Elise

2017-01-01

Global climate change has sharpened focus on the social and economic challenges associated with water deficits, particularly in regions where anthropogenic demands exceed supply. This modern condition was also experienced by the people of ancient western Asia, where chronic water shortages were accentuated by recurrent droughts. However, human societies may react to climate change, particularly desiccation, in different ways depending on specific local conditions. Focusing on the biblical site of Tel Dan (present-day Israel), we show the effects of severe precipitation decline in an environment that was well watered and fertile even in times of drought. Such local niches of prosperity became attractive targets for predation when food resources became scarce in surrounding rain-fed areas. We propose that predation forced urban populations to either flee or adopt new subsistence strategies. Predation and abandonment, even if only partial, led to the poor maintenance of water networks in and around the city. Once stagnant water surrounded the area, water-borne disease proliferated. Our study shows how climate changes can disrupt social and political structures, cause water system management to collapse, and facilitate marshland expansion. PMID:29181444

Climate change and water management in the biblical city of Dan.

PubMed

Kaniewski, David; Marriner, Nick; Ilan, David; Morhange, Christophe; Thareani, Yifat; Van Campo, Elise

2017-11-01

Global climate change has sharpened focus on the social and economic challenges associated with water deficits, particularly in regions where anthropogenic demands exceed supply. This modern condition was also experienced by the people of ancient western Asia, where chronic water shortages were accentuated by recurrent droughts. However, human societies may react to climate change, particularly desiccation, in different ways depending on specific local conditions. Focusing on the biblical site of Tel Dan (present-day Israel), we show the effects of severe precipitation decline in an environment that was well watered and fertile even in times of drought. Such local niches of prosperity became attractive targets for predation when food resources became scarce in surrounding rain-fed areas. We propose that predation forced urban populations to either flee or adopt new subsistence strategies. Predation and abandonment, even if only partial, led to the poor maintenance of water networks in and around the city. Once stagnant water surrounded the area, water-borne disease proliferated. Our study shows how climate changes can disrupt social and political structures, cause water system management to collapse, and facilitate marshland expansion.

Preferred temperatures of juvenile lake whitefish

USGS Publications Warehouse

Edsall, Thomas A.

1999-01-01

Lake whitefish (Coregonus clupeaformis) supported valuable commercial fisheries in all of the Great Lakes until the 1950s to 1960s when their populations collapsed due to overfishing, pollution, and predation by the exotic sea lamprey (Petromyzon marinus). Reduction of these population stresses has permitted significant recovery of the lake whitefish in the upper three Great Lakes since the 1980s, and limited but encouraging recovery is now apparent in Lakes Erie and Ontario. In the present study the thermal preferences of age-0 and age-1 lake whitefish were measured in the laboratory to provide a basis for determining thermal habitat use by juvenile lake whitefish and thermal niche overlap with exotic fishes that might prey on them. Final thermal preferenda of young lake whitefish varied inversely with fish size ranging from 16.8°C for fish averaging 1.9 g to 15.6°C for age-1 fish averaging 3.9 g. Final thermal preferenda were in agreement with the limited published information on temperature selection of juvenile lake whitefish in the laboratory and on thermal habitat use by wild, free-ranging populations in the Great Lakes.

Why one-size-fits-all vaso-modulatory interventions fail to control glioma invasion: in silico insights.

PubMed

Alfonso, J C L; Köhn-Luque, A; Stylianopoulos, T; Feuerhake, F; Deutsch, A; Hatzikirou, H

2016-11-23

Gliomas are highly invasive brain tumours characterised by poor prognosis and limited response to therapy. There is an ongoing debate on the therapeutic potential of vaso-modulatory interventions against glioma invasion. Prominent vasculature-targeting therapies involve tumour blood vessel deterioration and normalisation. The former aims at tumour infarction and nutrient deprivation induced by blood vessel occlusion/collapse. In contrast, the therapeutic intention of normalising the abnormal tumour vasculature is to improve the efficacy of conventional treatment modalities. Although these strategies have shown therapeutic potential, it remains unclear why they both often fail to control glioma growth. To shed some light on this issue, we propose a mathematical model based on the migration/proliferation dichotomy of glioma cells in order to investigate why vaso-modulatory interventions have shown limited success in terms of tumour clearance. We found the existence of a critical cell proliferation/diffusion ratio that separates glioma responses to vaso-modulatory interventions into two distinct regimes. While for tumours, belonging to one regime, vascular modulations reduce the front speed and increase the infiltration width, for those in the other regime, the invasion speed increases and infiltration width decreases. We discuss how these in silico findings can be used to guide individualised vaso-modulatory approaches to improve treatment success rates.

Why one-size-fits-all vaso-modulatory interventions fail to control glioma invasion: in silico insights

NASA Astrophysics Data System (ADS)

Alfonso, J. C. L.; Köhn-Luque, A.; Stylianopoulos, T.; Feuerhake, F.; Deutsch, A.; Hatzikirou, H.

2016-11-01

Gliomas are highly invasive brain tumours characterised by poor prognosis and limited response to therapy. There is an ongoing debate on the therapeutic potential of vaso-modulatory interventions against glioma invasion. Prominent vasculature-targeting therapies involve tumour blood vessel deterioration and normalisation. The former aims at tumour infarction and nutrient deprivation induced by blood vessel occlusion/collapse. In contrast, the therapeutic intention of normalising the abnormal tumour vasculature is to improve the efficacy of conventional treatment modalities. Although these strategies have shown therapeutic potential, it remains unclear why they both often fail to control glioma growth. To shed some light on this issue, we propose a mathematical model based on the migration/proliferation dichotomy of glioma cells in order to investigate why vaso-modulatory interventions have shown limited success in terms of tumour clearance. We found the existence of a critical cell proliferation/diffusion ratio that separates glioma responses to vaso-modulatory interventions into two distinct regimes. While for tumours, belonging to one regime, vascular modulations reduce the front speed and increase the infiltration width, for those in the other regime, the invasion speed increases and infiltration width decreases. We discuss how these in silico findings can be used to guide individualised vaso-modulatory approaches to improve treatment success rates.

Rapid Prototyping of Nanofluidic Slits in a Silicone Bilayer

PubMed Central

Kole, Thomas P.; Liao, Kuo-Tang; Schiffels, Daniel; Ilic, B. Robert; Strychalski, Elizabeth A.; Kralj, Jason G.; Liddle, J. Alexander; Dritschilo, Anatoly; Stavis, Samuel M.

2015-01-01

This article reports a process for rapidly prototyping nanofluidic devices, particularly those comprising slits with microscale widths and nanoscale depths, in silicone. This process consists of designing a nanofluidic device, fabricating a photomask, fabricating a device mold in epoxy photoresist, molding a device in silicone, cutting and punching a molded silicone device, bonding a silicone device to a glass substrate, and filling the device with aqueous solution. By using a bilayer of hard and soft silicone, we have formed and filled nanofluidic slits with depths of less than 400 nm and aspect ratios of width to depth exceeding 250 without collapse of the slits. An important attribute of this article is that the description of this rapid prototyping process is very comprehensive, presenting context and details which are highly relevant to the rational implementation and reliable repetition of the process. Moreover, this process makes use of equipment commonly found in nanofabrication facilities and research laboratories, facilitating the broad adaptation and application of the process. Therefore, while this article specifically informs users of the Center for Nanoscale Science and Technology (CNST) at the National Institute of Standards and Technology (NIST), we anticipate that this information will be generally useful for the nanofabrication and nanofluidics research communities at large, and particularly useful for neophyte nanofabricators and nanofluidicists. PMID:26958449

Current and Future Niche of North and Central American Sand Flies (Diptera: Psychodidae) in Climate Change Scenarios

PubMed Central

Moo-Llanes, David; Ibarra-Cerdeña, Carlos N.; Rebollar-Téllez, Eduardo A.; Ibáñez-Bernal, Sergio; González, Camila; Ramsey, Janine M.

2013-01-01

Ecological niche models are useful tools to infer potential spatial and temporal distributions in vector species and to measure epidemiological risk for infectious diseases such as the Leishmaniases. The ecological niche of 28 North and Central American sand fly species, including those with epidemiological relevance, can be used to analyze the vector's ecology and its association with transmission risk, and plan integrated regional vector surveillance and control programs. In this study, we model the environmental requirements of the principal North and Central American phlebotomine species and analyze three niche characteristics over future climate change scenarios: i) potential change in niche breadth, ii) direction and magnitude of niche centroid shifts, iii) shifts in elevation range. Niche identity between confirmed or incriminated Leishmania vector sand flies in Mexico, and human cases were analyzed. Niche models were constructed using sand fly occurrence datapoints from Canada, USA, Mexico, Guatemala and Belize. Nine non-correlated bioclimatic and four topographic data layers were used as niche components using GARP in OpenModeller. Both B2 and A2 climate change scenarios were used with two general circulation models for each scenario (CSIRO and HadCM3), for 2020, 2050 and 2080. There was an increase in niche breadth to 2080 in both scenarios for all species with the exception of Lutzomyia vexator. The principal direction of niche centroid displacement was to the northwest (64%), while the elevation range decreased greatest for tropical, and least for broad-range species. Lutzomyia cruciata is the only epidemiologically important species with high niche identity with that of Leishmania spp. in Mexico. Continued landscape modification in future climate change will provide an increased opportunity for the geographic expansion of NCA sand flys' ENM and human exposure to vectors of Leishmaniases. PMID:24069478

Current and future niche of North and Central American sand flies (Diptera: psychodidae) in climate change scenarios.

PubMed

Moo-Llanes, David; Ibarra-Cerdeña, Carlos N; Rebollar-Téllez, Eduardo A; Ibáñez-Bernal, Sergio; González, Camila; Ramsey, Janine M

2013-01-01

Ecological niche models are useful tools to infer potential spatial and temporal distributions in vector species and to measure epidemiological risk for infectious diseases such as the Leishmaniases. The ecological niche of 28 North and Central American sand fly species, including those with epidemiological relevance, can be used to analyze the vector's ecology and its association with transmission risk, and plan integrated regional vector surveillance and control programs. In this study, we model the environmental requirements of the principal North and Central American phlebotomine species and analyze three niche characteristics over future climate change scenarios: i) potential change in niche breadth, ii) direction and magnitude of niche centroid shifts, iii) shifts in elevation range. Niche identity between confirmed or incriminated Leishmania vector sand flies in Mexico, and human cases were analyzed. Niche models were constructed using sand fly occurrence datapoints from Canada, USA, Mexico, Guatemala and Belize. Nine non-correlated bioclimatic and four topographic data layers were used as niche components using GARP in OpenModeller. Both B2 and A2 climate change scenarios were used with two general circulation models for each scenario (CSIRO and HadCM3), for 2020, 2050 and 2080. There was an increase in niche breadth to 2080 in both scenarios for all species with the exception of Lutzomyia vexator. The principal direction of niche centroid displacement was to the northwest (64%), while the elevation range decreased greatest for tropical, and least for broad-range species. Lutzomyia cruciata is the only epidemiologically important species with high niche identity with that of Leishmania spp. in Mexico. Continued landscape modification in future climate change will provide an increased opportunity for the geographic expansion of NCA sand flys' ENM and human exposure to vectors of Leishmaniases.

Population trends influence species ability to track climate change.

PubMed

Ralston, Joel; DeLuca, William V; Feldman, Richard E; King, David I

2017-04-01

Shifts of distributions have been attributed to species tracking their fundamental climate niches through space. However, several studies have now demonstrated that niche tracking is imperfect, that species' climate niches may vary with population trends, and that geographic distributions may lag behind rapid climate change. These reports of imperfect niche tracking imply shifts in species' realized climate niches. We argue that quantifying climate niche shifts and analyzing them for a suite of species reveal general patterns of niche shifts and the factors affecting species' ability to track climate change. We analyzed changes in realized climate niche between 1984 and 2012 for 46 species of North American birds in relation to population trends in an effort to determine whether species differ in the ability to track climate change and whether differences in niche tracking are related to population trends. We found that increasingly abundant species tended to show greater levels of niche expansion (climate space occupied in 2012 but not in 1980) compared to declining species. Declining species had significantly greater niche unfilling (climate space occupied in 1980 but not in 2012) compared to increasing species due to an inability to colonize new sites beyond their range peripheries after climate had changed at sites of occurrence. Increasing species, conversely, were better able to colonize new sites and therefore showed very little niche unfilling. Our results indicate that species with increasing trends are better able to geographically track climate change compared to declining species, which exhibited lags relative to changes in climate. These findings have important implications for understanding past changes in distribution, as well as modeling dynamic species distributions in the face of climate change. © 2016 John Wiley & Sons Ltd.

The HysNiche trial: hysteroscopic resection of uterine caesarean scar defect (niche) in patients with abnormal bleeding, a randomised controlled trial.

PubMed

Vervoort, A J M W; Van der Voet, L F; Witmer, M; Thurkow, A L; Radder, C M; van Kesteren, P J M; Quartero, H W P; Kuchenbecker, W K H; Bongers, M Y; Geomini, P M A J; de Vleeschouwer, L H M; van Hooff, M H A; van Vliet, H A A M; Veersema, S; Renes, W B; van Meurs, H S; Bosmans, J; Oude Rengerink, K; Brölmann, H A M; Mol, B W J; Huirne, J A F

2015-11-12

A caesarean section (CS) can cause a defect or disruption of the myometrium at the site of the uterine scar, called a niche. In recent years, an association between a niche and postmenstrual spotting after a CS has been demonstrated. Hysteroscopic resection of these niches is thought to reduce spotting and menstrual pain. However, there are no randomised trials assessing the effectiveness of a hysteroscopic niche resection. We planned a multicentre randomised trial comparing hysteroscopic niche resection to no intervention. We study women with postmenstrual spotting after a CS and a niche with a residual myometrium of at least 3 mm during sonohysterography. After informed consent is obtained, eligible women will be randomly allocated to hysteroscopic resection of the niche or expectant management for 6 months. The primary outcome is the number of days with postmenstrual spotting during one menstrual cycle 6 months after randomisation. Secondary outcomes are menstrual characteristics, menstruation related pain and experienced discomfort due to spotting or menstrual pain, quality of life, patient satisfaction, sexual function, urological symptoms, medical consultations, medication use, complications, lost productivity and medical costs. Measurements will be performed at baseline and at 3 and 6 months after randomisation. A cost-effectiveness analysis will be performed from a societal perspective at 6 months after randomisation. This trial will provide insight in the (cost)effectiveness of hysteroscopic resection of a niche versus expectant management in women who have postmenstrual spotting and a niche with sufficient residual myometrium to perform a hysteroscopic niche resection. Dutch Trial Register NTR3269 . Registered 1 February 2012. ZonMw Grant number 80-82305-97-12030.

Environmental niche models for riverine desert fishes and their similarity according to phylogeny and functionality

USGS Publications Warehouse

Whitney, James E.; Whittier, Joanna B.; Paukert, Craig P.

2017-01-01

Environmental filtering and competitive exclusion are hypotheses frequently invoked in explaining species' environmental niches (i.e., geographic distributions). A key assumption in both hypotheses is that the functional niche (i.e., species traits) governs the environmental niche, but few studies have rigorously evaluated this assumption. Furthermore, phylogeny could be associated with these hypotheses if it is predictive of functional niche similarity via phylogenetic signal or convergent evolution, or of environmental niche similarity through phylogenetic attraction or repulsion. The objectives of this study were to investigate relationships between environmental niches, functional niches, and phylogenies of fishes of the Upper (UCRB) and Lower (LCRB) Colorado River Basins of southwestern North America. We predicted that functionally similar species would have similar environmental niches (i.e., environmental filtering) and that closely related species would be functionally similar (i.e., phylogenetic signal) and possess similar environmental niches (i.e., phylogenetic attraction). Environmental niches were quantified using environmental niche modeling, and functional similarity was determined using functional trait data. Nonnatives in the UCRB provided the only support for environmental filtering, which resulted from several warmwater nonnatives having dam number as a common predictor of their distributions, whereas several cool- and coldwater nonnatives shared mean annual air temperature as an important distributional predictor. Phylogenetic signal was supported for both natives and nonnatives in both basins. Lastly, phylogenetic attraction was only supported for native fishes in the LCRB and for nonnative fishes in the UCRB. Our results indicated that functional similarity was heavily influenced by evolutionary history, but that phylogenetic relationships and functional traits may not always predict the environmental distribution of species. However, the similarity of environmental niches among warmwater centrarchids, ictalurids, fundulids, and poeciliids in the UCRB indicated that dam removals could influence the distribution of these nonnatives simultaneously, thus providing greater conservation benefits. However, this same management strategy would have more limited effects on nonnative salmonids, catostomids, and percids with colder temperature preferences, thus necessitating other management strategies to control these species.

Individual and species-specific traits explain niche size and functional role in spiders as generalist predators.

PubMed

Sanders, Dirk; Vogel, Esther; Knop, Eva

2015-01-01

The function of a predator within a community is greatly based on its trophic niche, that is the number and the strength of feeding links. In generalist predators, which feed on a wide range of prey, the size and position of the trophic niche is likely determined by traits such as hunting mode, the stratum they occur in, their body size and age. We used stable isotope analyses ((13)C and (15)N) to measure the trophic niche size of nine spider species within a forest hedge community and tested for species traits and individual traits that influence stable isotope enrichment, niche size and resource use. The spiders Enoplognatha, Philodromus, Floronia, and Heliophanus had large isotopic niches, which correspond to a more generalistic feeding behaviour. In contrast, Araneus, Metellina and Agelena, as top predators in the system, had rather narrow niches. We found a negative correlation between trophic position and niche size. Differences in trophic position in spiders were explained by body size, hunting modes and stratum, while niche size was influenced by hunting mode. In Philodromus, the size of the trophic niche increased significantly with age. Fitting spiders to functional groups according to their mean body size, hunting mode and their habitat domain resulted in largely separated niches, which indicates that these traits are meaningful for separating functional entities in spiders. Functional groups based on habitat domain (stratum) caught the essential functional differences between the species with species higher up in the vegetation feeding on flying insects and herb and ground species also preying on forest floor decomposers. Interestingly, we found a gradient from large species using a higher habitat domain and having a smaller niche to smaller species foraging closer to the ground and having a larger niche. This shows that even within generalist predators, such as spiders, there is a gradient of specialism that can be predicted by functional traits. © 2014 The Authors. Journal of Animal Ecology © 2014 British Ecological Society.

Bioengineering Hematopoietic Stem Cell Niche toward Regenerative Medicine.

PubMed

Sugimura, Ryohichi

2016-04-01

The scope of this chapter is to introduce the current consensus of hematopoietic stem cell (HSC) niche biology to bioengineering field so that can apply to regenerative medicine. A decade of research has been addressing "what is HSC niche", then next step is "how it advances medicine". The demand to improve HSC transplantation has advanced the methodology to expand HSC in vitro. Still precise modeling of bone marrow (BM) is demanded by bioengineering HSC niche in vitro. Better understanding of HSC niche is essential toward this progress. Now it would be the time to apply the knowledge of HSC niche field to the venue of bioengineering, so that a promising new approach to regenerative medicine might appear. This chapter describes the current consensus of niche that endothelial cell and perivascular mesenchymal stromal cell maintain HSC, expansion of cord blood HSC by small molecules, bioengineering efforts to model HSC niche by microfluidics chip, organoids, and breakthroughs to induce HSC from heterologous types of cells. Copyright © 2015 Elsevier B.V. All rights reserved.

The crosstalk between hematopoietic stem cells and their niches.

PubMed

Durand, Charles; Charbord, Pierre; Jaffredo, Thierry

2018-07-01

Hematopoietic stem cells (HSCs) reside in specific microenvironments also called niches that regulate HSC functions. Understanding the molecular and cellular mechanisms involved in the crosstalk between HSCs and niche cells is a major issue in stem cell biology and regenerative medicine. The purpose of this review is to discuss recent advances in this field with particular emphasis on the transcriptional landscape of HSC niche cells and the roles of extracellular vesicles (EVs) in the dialog between HSCs and their microenvironments. The development of high-throughput technologies combined with computational methods has considerably improved our knowledge on the molecular identity of HSC niche cells. Accumulating evidence strongly suggest that the dialog between HSCs and their niches is bidirectional and that EVs play an important role in this process. These advances bring a unique conceptual and methodological framework for understanding the molecular complexity of the HSC niche and identifying novel HSC regulators. They are also promising for exploring the reciprocal influence of HSCs on niche cells and delivering specific molecules to HSCs in regenerative medicine.

A family business: stem cell progeny join the niche to regulate homeostasis.

PubMed

Hsu, Ya-Chieh; Fuchs, Elaine

2012-01-23

Stem cell niches, the discrete microenvironments in which the stem cells reside, play a dominant part in regulating stem cell activity and behaviours. Recent studies suggest that committed stem cell progeny become indispensable components of the niche in a wide range of stem cell systems. These unexpected niche inhabitants provide versatile feedback signals to their stem cell parents. Together with other heterologous cell types that constitute the niche, they contribute to the dynamics of the microenvironment. As progeny are often located in close proximity to stem cell niches, similar feedback regulations may be the underlying principles shared by different stem cell systems.

A family business: stem cell progeny join the niche to regulate homeostasis

PubMed Central

Hsu, Ya-Chieh; Fuchs, Elaine

2012-01-01

Stem cell niches, the discrete microenvironments in which the stem cells reside, play a dominant part in regulating stem cell activity and behaviours. Recent studies suggest that committed stem cell progeny become indispensable components of the niche in a wide range of stem cell systems. These unexpected niche inhabitants provide versatile feedback signals to their stem cell parents. Together with other heterologous cell types that constitute the niche, they contribute to the dynamics of the microenvironment. As progeny are often located in close proximity to stem cell niches, similar feedback regulations may be the underlying principles shared by different stem cell systems. PMID:22266760

Are species' responses to global change predicted by past niche evolution?

PubMed Central

Lavergne, Sébastien; Evans, Margaret E. K.; Burfield, Ian J.; Jiguet, Frederic; Thuiller, Wilfried

2013-01-01

Predicting how and when adaptive evolution might rescue species from global change, and integrating this process into tools of biodiversity forecasting, has now become an urgent task. Here, we explored whether recent population trends of species can be explained by their past rate of niche evolution, which can be inferred from increasingly available phylogenetic and niche data. We examined the assemblage of 409 European bird species for which estimates of demographic trends between 1970 and 2000 are available, along with a species-level phylogeny and data on climatic, habitat and trophic niches. We found that species' proneness to demographic decline is associated with slow evolution of the habitat niche in the past, in addition to certain current-day life-history and ecological traits. A similar result was found at a higher taxonomic level, where families prone to decline have had a history of slower evolution of climatic and habitat niches. Our results support the view that niche conservatism can prevent some species from coping with environmental change. Thus, linking patterns of past niche evolution and contemporary species dynamics for large species samples may provide insights into how niche evolution may rescue certain lineages in the face of global change. PMID:23209172

Regulatory System for Stem/Progenitor Cell Niches in the Adult Rodent Pituitary

PubMed Central

Yoshida, Saishu; Kato, Takako; Kato, Yukio

2016-01-01

The anterior lobe of the pituitary gland is a master endocrine tissue composed of five types of endocrine cells. Although the turnover rate of pituitary endocrine cells is as low as about 1.6% per day, recent studies have demonstrated that Sex-determining region Y-box 2 (SOX2)+-cells exist as pituitary stem/progenitor cells in the adult anterior lobe and contribute to cell regeneration. Notably, SOX2+-pituitary stem/progenitor cells form two types of niches in this tissue: the marginal cell layer (MCL-niche) and the dense cell clusters scattering in the parenchyma (parenchymal-niche). However, little is known about the mechanisms and factors for regulating the pituitary stem/progenitor cell niches, as well as the functional differences between the two types of niches. Elucidation of the regulatory mechanisms in the niches might enable us to understand the cell regeneration system that acts in accordance with physiological demands in the adult pituitary. In this review, so as to reveal the regulatory mechanisms of the two types of niche, we summarize the regulatory factors and their roles in the adult rodent pituitary niches by focusing on three components: soluble factors, cell surface proteins and extracellular matrixes. PMID:26761002

Modeling dynamics of mutants in heterogeneous stem cell niche

NASA Astrophysics Data System (ADS)

Shahriyari, L.; Mahdipour-Shirayeh, A.

2017-02-01

Studying the stem cell (SC) niche architecture is a crucial step for investigating the process of oncogenesis and obtaining an effective stem cell therapy for various cancers. Recently, it has been observed that there are two groups of SCs in the SC niche collaborating with each other to maintain tissue homeostasis: border stem cells (BSCs), which are responsible in controlling the number of non-stem cells as well as stem cells, and central stem cells (CeSCs), which regulate the SC niche. Here, we develop a bi-compartmental stochastic model for the SC niche to study the spread of mutants within the niche. The analytic calculations and numeric simulations, which are in perfect agreement, reveal that in order to delay the spread of mutants in the SC niche, a small but non-zero number of SC proliferations must occur in the CeSC compartment. Moreover, the migration of BSCs to CeSCs delays the spread of mutants. Furthermore, the fixation probability of mutants in the SC niche is independent of types of SC division as long as all SCs do not divide fully asymmetrically. Additionally, the progeny of CeSCs have a much higher chance than the progeny of BSCs to take over the entire niche.

Competition and niche construction in a model of cancer metastasis.

PubMed

Qian, Jimmy J; Akçay, Erol

2018-01-01

Niche construction theory states that not only does the environment act on populations to generate Darwinian selection, but organisms reciprocally modify the environment and the sources of natural selection. Cancer cells participate in niche construction as they alter their microenvironments and create pre-metastatic niches; in fact, metastasis is a product of niche construction. Here, we present a mathematical model of niche construction and metastasis. Our model contains producers, which pay a cost to contribute to niche construction that benefits all tumor cells, and cheaters, which reap the benefits without paying the cost. We derive expressions for the conditions necessary for metastasis, showing that the establishment of a mutant lineage that promotes metastasis depends on niche construction specificity and strength of interclonal competition. We identify a tension between the arrival and invasion of metastasis-promoting mutants, where tumors composed only of cheaters remain small but are susceptible to invasion whereas larger tumors containing producers may be unable to facilitate metastasis depending on the level of niche construction specificity. Our results indicate that even if metastatic subclones arise through mutation, metastasis may be hindered by interclonal competition, providing a potential explanation for recent surprising findings that most metastases are derived from early mutants in primary tumors.

The evolution of climatic niches in squamate reptiles.

PubMed

Pie, Marcio R; Campos, Leonardo L F; Meyer, Andreas L S; Duran, Andressa

2017-07-12

Despite the remarkable diversity found in squamate reptiles, most of their species tend to be found in warm/dry environments, suggesting that climatic requirements played a crucial role in their diversification, yet little is known about the evolution of their climatic niches. In this study, we integrate climatic information associated with the geographical distribution of 1882 squamate species and their phylogenetic relationships to investigate the tempo and mode of climatic niche evolution in squamates, both over time and among lineages. We found that changes in climatic niche dynamics were pronounced over their recent squamate evolutionary history, and we identified extensive evidence for rate heterogeneity in squamate climatic niche evolution. Most rate shifts involved accelerations, particularly over the past 50 Myr. Most squamates occupy similar regions of the climatic niche space, with only a few lineages diversifying into colder and humid climatic conditions. The changes from arid to mesic conditions in some regions of the globe may have provided opportunities for climatic niche evolution, although most lineages tended to remain near their ancestral niche. Variation in rates of climatic niche evolution seems common, particularly in response to the availability of new climatic conditions over evolutionary time. © 2017 The Author(s).

[Ecological niches of sucking lice (Phthiraptera: Anoplura) and their coevolution relationship with small mammal hosts in Yunnan, China].

PubMed

Meng, Yan-Fen; Guo, Xian-Guo; Men, Xing-Yuan; Wu, Dian

2008-02-28

To investigate the ecological niches of sucking lice (Phthiraptera: Anoplura) on the body surface of small mammal hosts and the co-evolutionary relationship between lice and mammal hosts in Yunnan Province. Thirty species of small mammals were captured and used as 30 resource sequences. The distribution and composition of the dominant 22 species of sucking lice on the body surface of the 30 species small mammal hosts were analyzed as the utilization proportion for each resource sequence. The niche breadth and proportional similarity were measured. SPSS 13.0 statistical software was used for analyzing the niche overlap matrix of sucking lice by hierarchical clustering analysis, and a dendrogram was made. The niche breadth was narrow for most species of sucking louse. Among the detected species, Hoplopleura pacifica showed the widest niche breadth, but only 0.1536. Indices of niche proportional similarity of most sucking lice were relatively small from 0.0005 to 0.4695. The 22 species of sucking lice were classified into 16 niche overlap groups, by lambda = 5.5, through a hierarchical clustering analysis for the niche overlaps, and the clustering process of most sucking lice was late. The sucking lice have a high specificity for hosts, of which different species show an apparent niche divergence on host selection. The results reveal a high coevolution between sucking lice and the mammal hosts.

Using Ecological Niche Models and Niche Analyses to Understand Speciation Patterns: The Case of Sister Neotropical Orchid Bees

PubMed Central

Silva, Daniel P.; Vilela, Bruno; De Marco, Paulo; Nemésio, André

2014-01-01

The role of past connections between the two major South American forested biomes on current species distribution has been recognized a long time ago. Climatic oscillations that further separated these biomes have promoted parapatric speciation, in which many species had their continuous distribution split, giving rise to different but related species (i.e., different potential distributions and realized niche features). The distribution of many sister species of orchid bees follow this pattern. Here, using ecological niche models and niche analyses, we (1) tested the role of ecological niche differentiation on the divergence between sister orchid-bees (genera Eulaema and Eufriesea) from the Amazon and Atlantic forests, and (2) highlighted interesting areas for new surveys. Amazonian species occupied different realized niches than their Atlantic sister species. Conversely, species of sympatric but distantly related Eulaema bees occupied similar realized niches. Amazonian species had a wide potential distribution in South America, whereas Atlantic Forest species were more limited to the eastern coast of the continent. Additionally, we identified several areas in need of future surveys. Our results show that the realized niche of Atlantic-Amazonian sister species of orchid bees, which have been previously treated as allopatric populations of three species, had limited niche overlap and similarity. These findings agree with their current taxonomy, which treats each of those populations as distinct valid species. PMID:25422941

Stress wave emission from plasmonic nanobubbles

NASA Astrophysics Data System (ADS)

Brujan, Emil-Alexandru

2017-01-01

Stress wave emission from the collapse of cavitation nanobubbles, generated after irradiation of single-spherical gold nanoparticles with laser pulses, was investigated numerically. The significant parameters of this study are the nanoparticle radius, laser pulse duration, and laser fluence. For conditions comparable to those existing during plasmonic photothermal therapy, a purely compressive pressure wave is emitted during nanobubble collapse, not a shock. In the initial stage of its propagation, the stress wave amplitude is proportional to the inverse of the stress wave radius. The maximum amplitude and the duration of the stress wave decreases with the laser fluence, laser pulse duration, and gold nanoparticle radius. The full width at half maximum duration of the stress wave is almost constant up to a distance of 50 µm from the emission center. The stress wave amplitude is smaller than 5 MPa, while the stress wave duration is smaller than 35 ns. The stress wave propagation results in minor mechanical effects on biological tissue that are restricted to very small dimensions on a cellular or sub-cellular level. The stress wave is, however, able to produce breaching of the human cell membrane and bacterial wall even at distances as large as 50 µm from the emission centre. The experimentally observed melting of gold nanoparticles comes from the large temperature reached inside the nanoparticles during laser irradiation and not from the propagation of the stress wave into the surrounding liquid during nanobubble rebound.

Infant orthopedics has no effect on maxillary arch dimensions in the deciduous dentition of children with complete unilateral cleft lip and palate (Dutchcleft).

PubMed

Bongaarts, Catharina A M; van 't Hof, Martin A; Prahl-Andersen, Birte; Dirks, Iris V; Kuijpers-Jagtman, Anne M

2006-11-01

Evaluation of the effect of infant orthopedics on maxillary arch dimensions in the deciduous dentition in patients with unilateral cleft lip and palate. Prospective two-arm randomized controlled clinical trial with three participating cleft palate centers. Cleft palate centers of the Radboud University Nijmegen Medical Center, Academic Center of Dentistry Amsterdam, and University Medical Center Rotterdam, the Netherlands. Children with complete unilateral cleft lip and palate (n = 54) were included. Patients were randomly divided into two groups. Half of the patients (IO+) had a presurgical orthopedic plate until surgical closure of the soft palate at the age of 52 weeks; the other half (IO-) did not undergo presurgical orthopedics. Maxillary arch dimensions were assessed on dental casts at 4 and 6 years of age with measurements for arch width, arch depth, arch length, arch form, and the vertical position of the lesser segment. Contact and collapse were assessed also. There were no clinically significant differences found between IO+ and IO- for any of the variables. Infant orthopedics had no observable effect on the maxillary arch dimensions or on the contact and collapse scores in the deciduous dentition at the ages of 4 and 6 years. Considering the Dutchcleft results to date, there is no need to perform infant orthopedics for unilateral cleft lip and palate patients.

The role of atomic level steric effects and attractive forces in protein folding.

PubMed

Lammert, Heiko; Wolynes, Peter G; Onuchic, José N

2012-02-01

Protein folding into tertiary structures is controlled by an interplay of attractive contact interactions and steric effects. We investigate the balance between these contributions using structure-based models using an all-atom representation of the structure combined with a coarse-grained contact potential. Tertiary contact interactions between atoms are collected into a single broad attractive well between the C(β) atoms between each residue pair in a native contact. Through the width of these contact potentials we control their tolerance for deviations from the ideal structure and the spatial range of attractive interactions. In the compact native state dominant packing constraints limit the effects of a coarse-grained contact potential. During folding, however, the broad attractive potentials allow an early collapse that starts before the native local structure is completely adopted. As a consequence the folding transition is broadened and the free energy barrier is decreased. Eventually two-state folding behavior is lost completely for systems with very broad attractive potentials. The stabilization of native-like residue interactions in non-perfect geometries early in the folding process frequently leads to structural traps. Global mirror images are a notable example. These traps are penalized by the details of the repulsive interactions only after further collapse. Successful folding to the native state requires simultaneous guidance from both attractive and repulsive interactions. Copyright © 2011 Wiley Periodicals, Inc.

THE GERMLINE STEM CELL NICHE UNIT IN MAMMALIAN TESTES

PubMed Central

Oatley, Jon M.; Brinster, Ralph L.

2014-01-01

This review addresses current understanding of the germline stem cell niche unit in mammalian testes. Spermatogenesis is a classic model of tissue-specific stem cell function relying on self-renewal and differentiation of spermatogonial stem cells (SSCs). These fate decisions are influenced by a niche microenvironment composed of a growth factor milieu that is provided by several testis somatic support cell populations. Investigations over the last two decades have identified key determinants of the SSC niche including cytokines that regulate SSC functions and support cells providing these factors, adhesion molecules that influence SSC homing, and developmental heterogeneity of the niche during postnatal aging. Emerging evidence suggests that Sertoli cells are a key support cell population influencing the formation and function of niches by secreting soluble factors and possibly orchestrating contributions of other support cells. Investigations with mice have shown that niche influence on SSC proliferation differs during early postnatal development and adulthood. Moreover, there is mounting evidence of an age-related decline in niche function, which is likely influenced by systemic factors. Defining the attributes of stem cell niches is key to developing methods to utilize these cells for regenerative medicine. The SSC population and associated niche comprise a valuable model system for study that provides fundamental knowledge about the biology of tissue-specific stem cells and their capacity to sustain homeostasis of regenerating tissue lineages. While the stem cell is essential for maintenance of all self-renewing tissues and has received considerable attention, the role of niche cells is at least as important and may prove to be more receptive to modification in regenerative medicine. PMID:22535892

Bioclimatic niches are conserved and unrelated to pollination syndromes in Antillean Gesneriaceae

PubMed Central

Faure, Julie; Ginzbarg, Steven; Clark, John; Joly, Simon

2017-01-01

The study of the evolution of abiotic niches can be informative regarding the speciation drivers in a given group. Yet, two factors that could potentially affect niche evolution have seldom been addressed concomitantly, which are biotic interactions and geographical isolation. In this study, we used as a model group the Antillean plant genera Gesneria and Rhytidophyllum (Gesneriaceae) to evaluate the effect of pollinators and geographical isolation on the bioclimatic niche. These genera possess species characterized by interspecific geographical isolation in different islands and are pollinated by different pollinators. Some species are pollinated by hummingbirds, other by bats, while some are more generalists and are pollinated by pollinators from both functional groups. After describing the bioclimatic niches of plant species, we measured niche overlap for species pairs and we fitted Brownian motion and Ornstein–Uhlenbeck (OU) evolution models with multiple evolutionary regimes to test for an effect of pollination strategy or geographical isolation on bioclimatic niche evolution of these plants. The analysis of niche overlap between plant species, which could not be corrected for phylogenetic relationships, showed that it was significantly influenced by pollination mode and island distribution. By contrast, the best fitting evolutionary model on niche optima and tolerance was always an OU model with a unique selective regime, suggesting that neither pollination strategy nor island isolation had an important effect on bioclimatic niches at a macroevolutionary scale. Instead, we conclude that bioclimatic niches of Antillean Gesneriaceae evolved under phylogenetic conservatism and hypothesize that this macroevolutionary pattern could result from adaptation to temporally variable climates in the Antilles. PMID:29291050

Niche conservatism and phylogenetic clustering in a tribe of arid-adapted marsupial mice, the Sminthopsini.

PubMed

García-Navas, Vicente; Westerman, Michael

2018-05-28

The progressive expansion of the Australian arid zone during the last 20 Ma appears to have spurred the diversification of several families of plants, vertebrates and invertebrates, yet such taxonomic groups appear to show limited niche radiation. Here, we test whether speciation is associated with niche conservatism (constraints on ecological divergence) or niche divergence in a tribe of marsupial mice (Sminthopsini; 23 taxa) that includes the most speciose genus of living dasyurids, the sminthopsins. To that end, we integrated phylogenetic data with ecological niche modelling, to enable us to reconstruct the evolution of climatic suitability within Sminthopsini. Niche overlap among species was low-moderate (but generally higher than expected given environmental background similarity), and the degree of phylogenetic clustering increased with aridity. Climatic niche reconstruction illustrates that there has been little apparent evolution of climatic tolerance within clades. Accordingly, climatic disparity tends to be accumulated among clades, suggesting considerable niche conservatism. Our results also indicate that evolution of climatic tolerances has been heterogeneous across different dimensions of climate (temperature vs. precipitation) and across phylogenetic clusters (Sminthopsis murina group vs. other groups). Although some results point to the existence of shifts in climatic niches during the speciation of sminthopsins, our study provides evidence for substantial phylogenetic niche conservatism in the group. We conclude that niche diversification had a low impact on the speciation of this tribe of small, but highly mobile marsupials. © 2018 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2018 European Society For Evolutionary Biology.

Population trends influence species ability to track climate change

Treesearch

Joel Ralston; William V. DeLuca; Richard E. Feldman; David I. King

2016-01-01

Shifts of distributions have been attributed to species tracking their fundamental climate niches through space. However, several studies have now demonstrated that niche tracking is imperfect, that species' climate niches may vary with population trends, and that geographic distributions may lag behind rapid climate change. These reports of imperfect niche...

Beyond the Niche: Tissue-Level Coordination of Stem Cell Dynamics

PubMed Central

O’Brien, Lucy Erin; Bilder, David

2014-01-01

Adult animals rely on populations of stem cells to ensure organ function throughout their lifetime. Stem cells are governed by signals from stem cell niches, and much is known about how single niches promote stemness and direct stem cell behavior. However, most organs contain a multitude of stem cell–niche units, which are often distributed across the entire expanse of the tissue. Beyond the biology of individual stem cell–niche interactions, the next challenge is to uncover the tissue-level processes that orchestrate spatial control of stem-based renewal, repair, and remodeling throughout a whole organ. Here we examine what is known about higher order mechanisms for interniche coordination in epithelial organs, whose simple geometry offers a promising entry point for understanding the regulation of niche number, distribution, and activity. We also consider the potential existence of stem cell territories and how tissue architecture may influence niche coordination. PMID:23937350

An improved parent-centric mutation with normalized neighborhoods for inducing niching behavior in differential evolution.

PubMed

Biswas, Subhodip; Kundu, Souvik; Das, Swagatam

2014-10-01

In real life, we often need to find multiple optimally sustainable solutions of an optimization problem. Evolutionary multimodal optimization algorithms can be very helpful in such cases. They detect and maintain multiple optimal solutions during the run by incorporating specialized niching operations in their actual framework. Differential evolution (DE) is a powerful evolutionary algorithm (EA) well-known for its ability and efficiency as a single peak global optimizer for continuous spaces. This article suggests a niching scheme integrated with DE for achieving a stable and efficient niching behavior by combining the newly proposed parent-centric mutation operator with synchronous crowding replacement rule. The proposed approach is designed by considering the difficulties associated with the problem dependent niching parameters (like niche radius) and does not make use of such control parameter. The mutation operator helps to maintain the population diversity at an optimum level by using well-defined local neighborhoods. Based on a comparative study involving 13 well-known state-of-the-art niching EAs tested on an extensive collection of benchmarks, we observe a consistent statistical superiority enjoyed by our proposed niching algorithm.

Wnt signaling-mediated redox regulation maintains the germ line stem cell differentiation niche

PubMed Central

Wang, Su; Gao, Yuan; Song, Xiaoqing; Ma, Xing; Zhu, Xiujuan; Mao, Ying; Yang, Zhihao; Ni, Jianquan; Li, Hua; Malanowski, Kathryn E; Anoja, Perera; Park, Jungeun; Haug, Jeff; Xie, Ting

2015-01-01

Adult stem cells continuously undergo self-renewal and generate differentiated cells. In the Drosophila ovary, two separate niches control germ line stem cell (GSC) self-renewal and differentiation processes. Compared to the self-renewing niche, relatively little is known about the maintenance and function of the differentiation niche. In this study, we show that the cellular redox state regulated by Wnt signaling is critical for the maintenance and function of the differentiation niche to promote GSC progeny differentiation. Defective Wnt signaling causes the loss of the differentiation niche and the upregulated BMP signaling in differentiated GSC progeny, thereby disrupting germ cell differentiation. Mechanistically, Wnt signaling controls the expression of multiple glutathione-S-transferase family genes and the cellular redox state. Finally, Wnt2 and Wnt4 function redundantly to maintain active Wnt signaling in the differentiation niche. Therefore, this study has revealed a novel strategy for Wnt signaling in regulating the cellular redox state and maintaining the differentiation niche. DOI: http://dx.doi.org/10.7554/eLife.08174.001 PMID:26452202

[The emerging technology of tissue engineering : Focus on stem cell niche].

PubMed

Schlötzer-Schrehardt, U; Freudenberg, U; Kruse, F E

2017-04-01

Limbal stem cells reside in a highly specialized complex microenvironment that is known as the stem cell niche, an anatomically protected region at the bottom of the Palisades of Vogt, where the stem cells are located and where their quiescence, proliferation and differentiation are maintained in balance. Besides the epithelial stem and progenitor cell clusters, the limbal niche comprises several types of supporting niche cells and a specific extracellular matrix mediating biochemical and biophysical signals. Stem cell-based tissue engineering aims to mimic the native stem cell niche and to present appropriate microenvironmental cues in a controlled and reproducible fashion in order to maintain stem cell function within the graft. Current therapeutic approaches for ex vivo expansion of limbal stem cells only take advantage of surrogate niches. However, new insights into the molecular composition of the limbal niche and innovative biosynthetic scaffolds have stimulated novel strategies for niche-driven stem cell cultivation. Promising experimental approaches include collagen-based organotypic coculture systems of limbal epithelial stem cells with their niche cells and biomimetic hydrogel platforms prefunctionalized with appropriate biomolecular and biophysical signals. Future translation of these novel regenerative strategies into clinical application is expected to improve long-term outcomes of limbal stem cell transplantation for ocular surface reconstruction.

Challenges and Opportunities to Harnessing the (Hematopoietic) Stem Cell Niche

PubMed Central

Choi, Ji Sun; Harley, Brendan A. C.

2016-01-01

In our body, stem cells reside in a microenvironment termed the niche. While the exact composition and therefore the level of complexity of a stem cell niche can vary significantly tissue-to-tissue, the stem cell niche microenvironment is dynamic, typically containing spatial and temporal variations in both cellular, extracellular matrix, and biomolecular components. This complex flow of secreted or bound biomolecules, cytokines, extracellular matrix components, and cellular constituents all contribute to the regulation of stem cell fate specification events, making engineering approaches at the nano- and micro-scale of particular interest for creating an artificial niche environment in vitro. Recent advances in fabrication approaches have enabled biomedical researchers to capture and recreate the complexity of stem cell niche microenvironments in vitro. Such engineered platforms show promise as a means to enhance our understanding of the mechanisms underlying niche-mediated stem cell regulation as well as offer opportunities to precisely control stem cell expansion and differentiation events for clinical applications. While these principles generally apply to all adult stem cells and niches, in this review, we focus on recent developments in engineering synthetic niche microenvironments for one of the best-characterized stem cell populations, hematopoietic stem cells (HSC). Specifically, we highlight recent advances in platforms designed to facilitate the extrinsic control of HSC fate decisions. PMID:27134819

Competition and niche construction in a model of cancer metastasis

PubMed Central

Akçay, Erol

2018-01-01

Niche construction theory states that not only does the environment act on populations to generate Darwinian selection, but organisms reciprocally modify the environment and the sources of natural selection. Cancer cells participate in niche construction as they alter their microenvironments and create pre-metastatic niches; in fact, metastasis is a product of niche construction. Here, we present a mathematical model of niche construction and metastasis. Our model contains producers, which pay a cost to contribute to niche construction that benefits all tumor cells, and cheaters, which reap the benefits without paying the cost. We derive expressions for the conditions necessary for metastasis, showing that the establishment of a mutant lineage that promotes metastasis depends on niche construction specificity and strength of interclonal competition. We identify a tension between the arrival and invasion of metastasis-promoting mutants, where tumors composed only of cheaters remain small but are susceptible to invasion whereas larger tumors containing producers may be unable to facilitate metastasis depending on the level of niche construction specificity. Our results indicate that even if metastatic subclones arise through mutation, metastasis may be hindered by interclonal competition, providing a potential explanation for recent surprising findings that most metastases are derived from early mutants in primary tumors. PMID:29813117

Shifts in Climate Foster Exceptional Opportunities for Species Radiation: The Case of South African Geraniums

PubMed Central

Martínez-Cabrera, Hugo I.; Peres-Neto, Pedro R.

2013-01-01

Climate change is often assumed to be a major driver of biodiversity loss. However, it can also set the stage for novel diversification in lineages with the evolutionary ability to colonize new environments. Here we tested if the extraordinary evolutionary success of the genus Pelargonium was related to the ability of its species to capitalize on the climate niche variation produced by the historical changes in southern Africa. We evaluated the relationship between rates of climate niche evolution and diversification rates in the main Pelargonium lineages and disentangled the roles of deep and recent historical events in the modification of species niches. Pelargonium clades exhibiting higher ecological differentiation along summer precipitation (SPP) gradients also experienced higher diversification rates. Faster rates of niche differentiation in spatially structured variables, along with lower levels of niche overlap among closely related species, suggest recent modification in species niches (e.g. dispersal or range shift) and niche lability. We suggest that highly structured SPP gradients established during the aridification process within southern Africa, in concert with niche lability and low niche overlap, contributed to species divergence. These factors are likely to be responsible for the extensive diversification of other lineages in this diversity hot spot. PMID:24358250

Microhabitat and Climatic Niche Change Explain Patterns of Diversification among Frog Families.

PubMed

Moen, Daniel S; Wiens, John J

2017-07-01

A major goal of ecology and evolutionary biology is to explain patterns of species richness among clades. Differences in rates of net diversification (speciation minus extinction over time) may often explain these patterns, but the factors that drive variation in diversification rates remain uncertain. Three important candidates are climatic niche position (e.g., whether clades are primarily temperate or tropical), rates of climatic niche change among species within clades, and microhabitat (e.g., aquatic, terrestrial, arboreal). The first two factors have been tested separately in several studies, but the relative importance of all three is largely unknown. Here we explore the correlates of diversification among families of frogs, which collectively represent ∼88% of amphibian species. We assemble and analyze data on phylogeny, climate, and microhabitat for thousands of species. We find that the best-fitting phylogenetic multiple regression model includes all three types of variables: microhabitat, rates of climatic niche change, and climatic niche position. This model explains 67% of the variation in diversification rates among frog families, with arboreal microhabitat explaining ∼31%, niche rates ∼25%, and climatic niche position ∼11%. Surprisingly, we show that microhabitat can have a much stronger influence on diversification than climatic niche position or rates of climatic niche change.

Macro-Climatic Distribution Limits Show Both Niche Expansion and Niche Specialization among C4 Panicoids.

PubMed

Aagesen, Lone; Biganzoli, Fernando; Bena, Julia; Godoy-Bürki, Ana C; Reinheimer, Renata; Zuloaga, Fernando O

2016-01-01

Grasses are ancestrally tropical understory species whose current dominance in warm open habitats is linked to the evolution of C4 photosynthesis. C4 grasses maintain high rates of photosynthesis in warm and water stressed environments, and the syndrome is considered to induce niche shifts into these habitats while adaptation to cold ones may be compromised. Global biogeographic analyses of C4 grasses have, however, concentrated on diversity patterns, while paying little attention to distributional limits. Using phylogenetic contrast analyses, we compared macro-climatic distribution limits among ~1300 grasses from the subfamily Panicoideae, which includes 4/5 of the known photosynthetic transitions in grasses. We explored whether evolution of C4 photosynthesis correlates with niche expansions, niche changes, or stasis at subfamily level and within the two tribes Paniceae and Paspaleae. We compared the climatic extremes of growing season temperatures, aridity, and mean temperatures of the coldest months. We found support for all the known biogeographic distribution patterns of C4 species, these patterns were, however, formed both by niche expansion and niche changes. The only ubiquitous response to a change in the photosynthetic pathway within Panicoideae was a niche expansion of the C4 species into regions with higher growing season temperatures, but without a withdrawal from the inherited climate niche. Other patterns varied among the tribes, as macro-climatic niche evolution in the American tribe Paspaleae differed from the pattern supported in the globally distributed tribe Paniceae and at family level.

Novel therapeutic strategies to target leukemic cells that hijack compartmentalized continuous hematopoietic stem cell niches.

PubMed

Hira, Vashendriya V V; Van Noorden, Cornelis J F; Carraway, Hetty E; Maciejewski, Jaroslaw P; Molenaar, Remco J

2017-08-01

Acute myeloid leukemia and acute lymphoblastic leukemia cells hijack hematopoietic stem cell (HSC) niches in the bone marrow and become leukemic stem cells (LSCs) at the expense of normal HSCs. LSCs are quiescent and resistant to chemotherapy and can cause relapse of the disease. HSCs in niches are needed to generate blood cell precursors that are committed to unilineage differentiation and eventually production of mature blood cells, including red blood cells, megakaryocytes, myeloid cells and lymphocytes. Thus far, three types of HSC niches are recognized: endosteal, reticular and perivascular niches. However, we argue here that there is only one type of HSC niche, which consists of a periarteriolar compartment and a perisinusoidal compartment. In the periarteriolar compartment, hypoxia and low levels of reactive oxygen species preserve the HSC pool. In the perisinusoidal compartment, hypoxia in combination with higher levels of reactive oxygen species enables proliferation of progenitor cells and their mobilization into the circulation. Because HSC niches offer protection to LSCs against chemotherapy, we review novel therapeutic strategies to inhibit homing of LSCs in niches for the prevention of dedifferentiation of leukemic cells into LSCs and to stimulate migration of leukemic cells out of niches. These strategies enhance differentiation and proliferation and thus sensitize leukemic cells to chemotherapy. Finally, we list clinical trials of therapies that tackle LSCs in HSC niches to circumvent their protection against chemotherapy. Copyright © 2017 The Authors. Published by Elsevier B.V. All rights reserved.

Ecological niche transferability using invasive species as a case study.

PubMed

Fernández, Miguel; Hamilton, Healy

2015-01-01

Species distribution modeling is widely applied to predict invasive species distributions and species range shifts under climate change. Accurate predictions depend upon meeting the assumption that ecological niches are conserved, i.e., spatially or temporally transferable. Here we present a multi-taxon comparative analysis of niche conservatism using biological invasion events well documented in natural history museum collections. Our goal is to assess spatial transferability of the climatic niche of a range of noxious terrestrial invasive species using two complementary approaches. First we compare species' native versus invasive ranges in environmental space using two distinct methods, Principal Components Analysis and Mahalanobis distance. Second we compare species' native versus invaded ranges in geographic space as estimated using the species distribution modeling technique Maxent and the comparative index Hellinger's I. We find that species exhibit a range of responses, from almost complete transferability, in which the invaded niches completely overlap with the native niches, to a complete dissociation between native and invaded ranges. Intermediate responses included expansion of dimension attributable to either temperature or precipitation derived variables, as well as niche expansion in multiple dimensions. We conclude that the ecological niche in the native range is generally a poor predictor of invaded range and, by analogy, the ecological niche may be a poor predictor of range shifts under climate change. We suggest that assessing dimensions of niche transferability prior to standard species distribution modeling may improve the understanding of species' dynamics in the invaded range.

Why do niches develop in Caesarean uterine scars? Hypotheses on the aetiology of niche development

PubMed Central

Vervoort, A.J.M.W.; Uittenbogaard, L.B.; Hehenkamp, W.J.K.; Brölmann, H.A.M.; Mol, B.W.J.; Huirne, J.A.F.

2015-01-01

Caesarean section (CS) results in the occurrence of the phenomenon ‘niche’. A ‘niche’ describes the presence of a hypoechoic area within the myometrium of the lower uterine segment, reflecting a discontinuation of the myometrium at the site of a previous CS. Using gel or saline instillation sonohysterography, a niche is identified in the scar in more than half of the women who had had a CS, most with the uterus closed in one single layer, without closure of the peritoneum. An incompletely healed scar is a long-term complication of the CS and is associated with more gynaecological symptoms than is commonly acknowledged. Approximately 30% of women with a niche report spotting at 6–12 months after their CS. Other reported symptoms in women with a niche are dysmenorrhoea, chronic pelvic pain and dyspareunia. Given the association between a niche and gynaecological symptoms, obstetric complications and potentially with subfertility, it is important to elucidate the aetiology of niche development after CS in order to develop preventive strategies. Based on current published data and our observations during sonographic, hysteroscopic and laparoscopic evaluations of niches we postulate some hypotheses on niche development. Possible factors that could play a role in niche development include a very low incision through cervical tissue, inadequate suturing technique during closure of the uterine scar, surgical interventions that increase adhesion formation or patient-related factors that impair wound healing or increase inflammation or adhesion formation. PMID:26409016

Evolution of pollination niches and floral divergence in the generalist plant Erysimum mediohispanicum

PubMed Central

Gómez, J. M.; Muñoz-Pajares, A. J.; Abdelaziz, M.; Lorite, J.; Perfectti, F.

2014-01-01

Background and Aims How generalist plants diverge in response to pollinator selection without becoming specialized is still unknown. This study explores this question, focusing on the evolution of the pollination system in the pollination generalist Erysimum mediohispanicum (Brassicaceae). Methods Pollinator assemblages were surveyed from 2001 to 2010 in 48 geo-referenced populations covering the entire geographic distribution of E. mediohispanicum. Bipartite modularity, a complex network tool, was used to find the pollination niche of each population. Evolution of the pollination niches and the correlated evolution of floral traits and pollination niches were explored using within-species comparative analyses. Key Results Despite being generalists, the E. mediohispanicum populations studied can be classified into five pollination niches. The boundaries between niches were not sharp, the niches differing among them in the relative frequencies of the floral visitor functional groups. The absence of spatial autocorrelation and phylogenetic signal indicates that the niches were distributed in a phylogeographic mosaic. The ancestral E. mediohispanicum populations presumably belonged to the niche defined by a high number of beetle and ant visits. A correlated evolution was found between pollination niches and some floral traits, suggesting the existence of generalist pollination ecotypes. Conclusions It is conjectured that the geographic variation in pollination niches has contributed to the observed floral divergence in E. mediohispanicum. The process mediating this floral divergence presumably has been adaptive wandering, but the adaptation to the local pollinator faunas has been not universal. The outcome is a landscape where a few populations locally adapted to their pollination environment (generalist pollination ecotypes) coexist with many populations where this local adaptation has failed and where the plant phenotype is not primarily shaped by pollinators. PMID:23965614

Range and niche shifts in response to past climate change in the desert horned lizard (Phrynosoma platyrhinos)

PubMed Central

Jezkova, Tereza; Jaeger, Jef R.; Oláh-Hemmings, Viktória; Jones, K. Bruce; Lara-Resendiz, Rafael A.; Mulcahy, Daniel G.; Riddle, Brett R.

2015-01-01

During climate change, species are often assumed to shift their geographic distributions (geographic ranges) in order to track environmental conditions – niches – to which they are adapted. Recent work, however, suggests that the niches do not always remain conserved during climate change but shift instead, allowing populations to persist in place or expand into new areas. We assessed the extent of range and niche shifts in response to the warming climate after the Last Glacial Maximum (LGM) in the desert horned lizard (Phrynosoma platyrhinos), a species occupying the western deserts of North America. We used a phylogeographic approach with mitochondrial DNA sequences to approximate the species range during the LGM by identifying populations that exhibit a genetic signal of population stability versus those that exhibit a signal of a recent (likely post-LGM) geographic expansion. We then compared the climatic niche that the species occupies today with the niche it occupied during the LGM using two models of simulated LGM climate. The genetic analyses indicated that P. platyrhinos persisted within the southern Mojave and Sonoran deserts throughout the latest glacial period and expanded from these deserts northwards, into the western and eastern Great Basin, after the LGM. The climatic niche comparisons revealed that P. platyrhinos expanded its climatic niche after the LGM towards novel, warmer and drier climates that allowed it to persist within the southern deserts. Simultaneously, the species shifted its climatic niche towards greater temperature and precipitation fluctuations after the LGM. We concluded that climatic changes at the end of the LGM promoted both range and niche shifts in this lizard. The mechanism that allowed the species to shift its niche remains unknown, but phenotypic plasticity likely contributes to the species ability to adjust to climate change. PMID:27231410

Prevalence, potential risk factors for development and symptoms related to the presence of uterine niches following Cesarean section: systematic review.

PubMed

Bij de Vaate, A J M; van der Voet, L F; Naji, O; Witmer, M; Veersema, S; Brölmann, H A M; Bourne, T; Huirne, J A F

2014-04-01

To review systematically the medical literature reporting on the prevalence of a niche at the site of a Cesarean section (CS) scar using various diagnostic methods, on potential risk factors for the development of a niche and on niche-related gynecological symptoms in non-pregnant women. The PubMed and EMBASE databases were searched. All types of clinical study reporting on the prevalence, risk factors and/or symptoms of a niche in non-pregnant women with a history of CS were included, apart from case reports and case series. Twenty-one papers were selected for inclusion in the review. A wide range in the prevalence of a niche was found. Using contrast-enhanced sonohysterography in a random population of women with a history of CS, the prevalence was found to vary between 56% and 84%. Nine studies reported on risk factors and each study evaluated different factors, which made it difficult to compare studies. Risk factors could be classified into four categories: those related to closure technique, to development of the lower uterine segment or location of the incision or to wound healing, and miscellaneous factors. Probable risk factors are single-layer myometrium closure, multiple CSs and uterine retroflexion. Six out of eight studies that evaluated niche-related symptoms described an association between the presence of a niche and postmenstrual spotting. The reported prevalence of a niche in non-pregnant women varies depending on the method of detection, the criteria used to define a niche and the study population. Potential risk factors can be categorized into four main categories, which may be useful for future research and meta-analyses. The predominant symptom associated with a niche is postmenstrual spotting. Copyright © 2013 ISUOG. Published by John Wiley & Sons Ltd.

Niche analysis and conservation of the orchids of east Macedonia (NE Greece)

NASA Astrophysics Data System (ADS)

Tsiftsis, Spyros; Tsiripidis, Ioannis; Karagiannakidou, Vassiliki; Alifragis, Dimitrios

2008-01-01

The orchid family is one of the largest in the flowering plant kingdom and includes a lot of rare, threatened or endangered species. The determination of plant species niche is considered fundamental for their conservation. Two parameters closely related with species niche are niche marginality and breadth. The first parameter is a measure of how typical or atypical a species niche is within an area, while the second is a measure of species tolerance. This study deals with niche analysis of the orchids of east Macedonia (NE Greece). Factors that are known to determine species distribution on a regional scale, such as altitude, aspect, habitat type, bedrock type and soil properties (acidity, organic matter, and phosphorus content) were used as explanatory variables. Geographical coordinates were also employed in order to explore spatial patterns in orchid distribution. Niche analysis was carried out using the Outlying Mean Index (OMI) analysis. Out of the total data of 55 taxa that were analyzed, 41 had a significant marginal niche compared with the average niche of the study area. Altitude, soil acidity and certain habitat types were found to be the most important factors in determining orchid distribution. Five different species groups were distinguished on the basis of their ecological preferences and niche breadth. Species niche marginality and breadth, the amplitude of their geographical distribution, the size of their populations and the rareness and conservation status of their habitats were taken into account in order to set conservation priorities for the orchids in the study area. The above characteristics combined with intuitive criteria (e.g. geographical distribution, endemicity) for the species with a small number of occurrences could form a sound basis for setting conservation priorities.

Life history, cognition and the evolution of complex foraging niches.

PubMed

Schuppli, Caroline; Graber, Sereina M; Isler, Karin; van Schaik, Carel P

2016-03-01

Animal species that live in complex foraging niches have, in general, improved access to energy-rich and seasonally stable food sources. Because human food procurement is uniquely complex, we ask here which conditions may have allowed species to evolve into such complex foraging niches, and also how niche complexity is related to relative brain size. To do so, we divided niche complexity into a knowledge-learning and a motor-learning dimension. Using a sample of 78 primate and 65 carnivoran species, we found that two life-history features are consistently correlated with complex niches: slow, conservative development or provisioning of offspring over extended periods of time. Both act to buffer low energy yields during periods of learning, and may thus act as limiting factors for the evolution of complex niches. Our results further showed that the knowledge and motor dimensions of niche complexity were correlated with pace of development in primates only, and with the length of provisioning in only carnivorans. Accordingly, in primates, but not carnivorans, living in a complex foraging niche requires enhanced cognitive abilities, i.e., a large brain. The patterns in these two groups of mammals show that selection favors evolution into complex niches (in either the knowledge or motor dimension) in species that either develop more slowly or provision their young for an extended period of time. These findings help to explain how humans constructed by far the most complex niche: our ancestors managed to combine slow development (as in other primates) with systematic provisioning of immatures and even adults (as in carnivorans). This study also provides strong support for the importance of ecological factors in brain size evolution. Copyright © 2015 Elsevier Ltd. All rights reserved.

Range and niche shifts in response to past climate change in the desert horned lizard (Phrynosoma platyrhinos).

PubMed

Jezkova, Tereza; Jaeger, Jef R; Oláh-Hemmings, Viktória; Jones, K Bruce; Lara-Resendiz, Rafael A; Mulcahy, Daniel G; Riddle, Brett R

2016-05-01

During climate change, species are often assumed to shift their geographic distributions (geographic ranges) in order to track environmental conditions - niches - to which they are adapted. Recent work, however, suggests that the niches do not always remain conserved during climate change but shift instead, allowing populations to persist in place or expand into new areas. We assessed the extent of range and niche shifts in response to the warming climate after the Last Glacial Maximum (LGM) in the desert horned lizard ( Phrynosoma platyrhinos ), a species occupying the western deserts of North America. We used a phylogeographic approach with mitochondrial DNA sequences to approximate the species range during the LGM by identifying populations that exhibit a genetic signal of population stability versus those that exhibit a signal of a recent (likely post-LGM) geographic expansion. We then compared the climatic niche that the species occupies today with the niche it occupied during the LGM using two models of simulated LGM climate. The genetic analyses indicated that P. platyrhinos persisted within the southern Mojave and Sonoran deserts throughout the latest glacial period and expanded from these deserts northwards, into the western and eastern Great Basin, after the LGM. The climatic niche comparisons revealed that P. platyrhinos expanded its climatic niche after the LGM towards novel, warmer and drier climates that allowed it to persist within the southern deserts. Simultaneously, the species shifted its climatic niche towards greater temperature and precipitation fluctuations after the LGM. We concluded that climatic changes at the end of the LGM promoted both range and niche shifts in this lizard. The mechanism that allowed the species to shift its niche remains unknown, but phenotypic plasticity likely contributes to the species ability to adjust to climate change.

A reflective hydrogen sensor based on fiber ring laser with PCF modal interferometer

NASA Astrophysics Data System (ADS)

Zhang, Ya-Nan; Zhang, Aozhuo; Han, Bo; E, Siyu

2018-06-01

A new hydrogen sensor based on a fiber ring laser with a photonic crystal fiber (PCF) modal interferometer is proposed. The reflective PCF modal interferometer, which is fabricated by forming two collapse regions on the two ends of PCF with a fusion discharge technique, is utilized as the sensing head and filter. Particularly, the Pd/WO3 hydrogen-sensitive thin film is coated on the PCF for hydrogen sensing. The combination of the fiber ring laser and PCF modal interferometer gives the sensor a high signal-to-noise ratio and an improved detection limit. Experimental results show that the sensing system can achieve a hydrogen sensitivity of 1.28 nm/%, a high signal-to-noise ratio (∼30 dB), a narrow full width at half maximum (∼0.05 nm), and low detection limit of 0.0133%.

Niche similarities among introduced and native mountain ungulates.

PubMed

Lowrey, B; Garrott, R A; McWhirter, D E; White, P J; DeCesare, N J; Stewart, S T

2018-03-24

The niche concept provides a strong foundation for theoretical and applied research among a broad range of disciplines. When two ecologically similar species are sympatric, theory predicts they will occupy distinct ecological niches to reduce competition. Capitalizing on the increasing availability of spatial data, we built from single species habitat suitability models to a multispecies evaluation of the niche partitioning hypothesis with sympatric mountain ungulates: native bighorn sheep (BHS; Ovis canadensis) and introduced mountain goats (MTG; Oreamnos americanus) in the northeast Greater Yellowstone Area. We characterized seasonal niches using two-stage resource selection functions with a used-available design and descriptive summaries of the niche attributes associated with used GPS locations. We evaluated seasonal similarity in niche space according to confidence interval overlap of model coefficients and similarity in geographic space by comparing model predicted values with Schoener's D metric. Our sample contained 37,962 summer locations from 53 individuals (BHS = 31, MTG = 22), and 79,984 winter locations from 57 individuals (BHS = 35, MTG = 22). Slope was the most influential niche component for both species and seasons, and showed the strongest evidence of niche partitioning. Bighorn sheep occurred on steeper slopes than mountain goats in summer and mountain goats occurred on steeper slopes in winter. The pattern of differential selection among species was less prevalent for the remaining covariates, indicating similarity in niche space. Model predictions in geographic space showed broad seasonal similarity (summer D = 0.88, winter D = 0.87), as did niche characterizations from used GPS locations. The striking similarities in seasonal niches suggest that introduced mountain goats will continue to increase their spatial overlap with native bighorn. Our results suggest that reducing densities of mountain goats in hunted areas where they are sympatric with bighorn sheep and impeding their expansion may reduce the possibility of competition and disease transfer. Additional studies that specifically investigate partitioning at finer scales and along dietary or temporal niche axes will help to inform an adaptive management approach. © 2018 by the Ecological Society of America.

Long-term rocky coast erosion: the influence of structural pattern and lithological context, as evidenced in the chalk (NW Normandy) and granitic (SW Brittany) rocks, NW France

NASA Astrophysics Data System (ADS)

Duperret, Anne; Raimbault, Céline; Duguet, Timothée; Le Gall, Bernard; Costa, Stéphane; Vandycke, Sara

2017-04-01

During the EC2CO/DRIL/CROCODYL project, high-resolution land-sea DEM have been produced in NW Normandy and SW Brittany rocky coastal zone, using high-resolution bathymetry from shallow-water cruises CROCOLIT-1,-2,-3 (Duperret, 2013), SPLASHALIOT-3 (Maillet, 2014), THAPENFROM-1 (Duperret, 2015) and aerial topographic LiDAR data from the Litto3D project. Two study sites were selected to map detailed geomorphology of shore platforms in order to better understand rock coast evolution processes through time and long-term rates of rocky coastal erosion versus geological context. The eastern English Channel is made of coastal chalk cliffs that currently eroding with fast mean rates of the order of a few dm/year. In Normandy coast (NW France), this results to the generation of roughly linear coastal segments of about 20-30km long each. On coastal segments only made of Upper Cretaceous Chalk, erosion occurs by present-day sudden and repeated vertical failures and cliff collapses. Cliff collapse process is shaping vertical chalk cliffs in association with resulting roughly flat shore platforms. Even if shore platforms width are short and homogeneous (a few hundred meters in width), the detailed morphology observed on high-resolution bathymetry evidenced two main submarine geomorphological types. One is linear and regular and associated with linear coastal sections. This corresponds to homogeneous Chalk Formation and the lack of large-scale tectonic features. Coastal sections with chalk lithology variations, local folding, large-scale fractures transverse-oriented to the coastline and onshore valleys incision evidence chaotic shore platforms morphologies. They conduct to variations in coastline orientation and to meter-scale shoreline indentations The southwestern part of Brittany is made of low-lying granitic headland and indented bay cut into meta/granitic rocks. Erosion rates are poorly known, due to slow coastal evolutions through contemporary times. Land-Sea DEM evidence similar onshore and offshore morphologies, with flat and wide superposed plains, limited each one by 10m high scarps. In this case, shore platform extension reaches a few km in width and appears as superposed paleo-shore platforms generated since Pleistocene (Raimbault et al, in press). The erosive process is thus link to a long-term alteration of granitic rocks since Cenozoic, mainly clear and etched during recent past high sea levels. Coastal areas with large bays appear locally to be guided by large-scale Cenozoic fractures. In some places, km-scale fractures favor a spatial concentration of erosion. They are shaping coastline orientation and shore platform ending at km-scale.

Evolution of the climatic tolerance and postglacial range changes of the most primitive orchids (Apostasioideae) within Sundaland, Wallacea and Sahul.

PubMed

Kolanowska, Marta; Mystkowska, Katarzyna; Kras, Marta; Dudek, Magdalena; Konowalik, Kamil

2016-01-01

The location of possible glacial refugia of six Apostasioideae representatives is estimated based on ecological niche modeling analysis. The distribution of their suitable niches during the last glacial maximum (LGM) is compared with their current potential and documented geographical ranges. The climatic factors limiting the studied species occurrences are evaluated and the niche overlap between the studied orchids is assessed and discussed. The predicted niche occupancy profiles and reconstruction of ancestral climatic tolerances suggest high level of phylogenetic niche conservatism within Apostasioideae.

Diffusion-controlled formation and collapse of a d-dimensional A-particle island in the B-particle sea.

PubMed

Shipilevsky, Boris M

2017-06-01

We consider diffusion-controlled evolution of a d-dimensional A-particle island in the B-particle sea at propagation of the sharp reaction front A+B→0 at equal species diffusivities. The A-particle island is formed by a localized (point) A-source with a strength λ that acts for a finite time T. We reveal the conditions under which the island collapse time t_{c} becomes much longer than the injection period T (long-living island) and demonstrate that regardless of d the evolution of the long-living island radius r_{f}(t) is described by the universal law ζ_{f}=r_{f}/r_{f}^{M}=sqrt[eτ|lnτ|], where τ=t/t_{c} and r_{f}^{M} is the maximal island expansion radius at the front turning point t_{M}=t_{c}/e. We find that in the long-living island regime the ratio t_{c}/T changes with the increase of the injection period T by the law ∝(λ^{2}T^{2-d})^{1/d}, i.e., increases with the increase of T in the one-dimensional (1D) case, does not change with the increase of T in the 2D case and decreases with the increase of T in the 3D case. We derive the scaling laws for particles death in the long-living island and determine the limits of their applicability. We demonstrate also that these laws describe asymptotically the evolution of the d-dimensional spherical island with a uniform initial particle distribution generalizing the results obtained earlier for the quasi-one-dimensional geometry. As striking results, we present a systematic analysis of the front relative width evolution for fluctuation, logarithmically modified, and mean-field regimes, and we demonstrate that in a wide range of parameters the front remains sharp up to a narrow vicinity of the collapse point.

A dynamically collapsing core and a precursor of a core in a filament supported by turbulent and magnetic pressures

DOE Office of Scientific and Technical Information (OSTI.GOV)

Furuya, Ray S.; Kitamura, Yoshimi; Shinnaga, Hiroko, E-mail: rsf@tokushima-u.ac.jp, E-mail: kitamura@isas.jaxa.jp, E-mail: hiroko.shinnaga@nao.ac.jp

2014-10-01

To study physical properties of the natal filament gas around the cloud core harboring an exceptionally young low-mass protostar GF 9-2, we carried out J = 1-0 line observations of {sup 12}CO, {sup 13}CO, and C{sup 18}O molecules using the Nobeyama 45 m telescope. The mapping area covers ∼ one-fifth of the whole filament. Our {sup 13}CO and C{sup 18}O maps clearly demonstrate that the core formed at the local density maxima of the filament, and the internal motions of the filament gas are totally governed by turbulence with Mach number of ∼2. We estimated the scale height of themore » filament to be H = 0.3-0.7 pc, yielding the central density of n {sub c} = 800-4200 cm{sup –3}. Our analysis adopting an isothermal cylinder model shows that the filament is supported by the turbulent and magnetic pressures against the radial and axial collapse due to self-gravity. Since both the dissipation timescales of the turbulence and the transverse magnetic fields can be comparable to the free-fall time of the filament gas of 10{sup 6} yr, we conclude that the local decay of the supersonic turbulence and magnetic fields made the filament gas locally unstable, hence making the core collapse. Furthermore, we newly detected a gas condensation with velocity width enhancement to ∼0.3 pc southwest of the GF 9-2 core. The condensation has a radius of ∼0.15 pc and an LTE mass of ∼5 M {sub ☉}. Its internal motion is turbulent with Mach number of ∼3, suggesting a gravitationally unbound state. Considering the uncertainties in our estimates, however, we propose that the condensation is a precursor of a cloud core, which would have been produced by the collision of the two gas components identified in the filament.« less

Identification of a new-to-science cyanobacterium, Toxifilum mysidocida gen. nov. & sp. nov. (Cyanobacteria, Cyanophyceae).

PubMed

Zimba, Paul V; Huang, I-Shuo; Foley, Jennifer E; Linton, Eric W

2017-02-01

Cyanobacteria occupy many niches within terrestrial, planktonic, and benthic habitats. The diversity of habitats colonized, similarity of morphology, and phenotypic plasticity all contribute to the difficulty of cyanobacterial identification. An unknown marine filamentous cyanobacterium was isolated from an aquatic animal rearing facility having mysid mortality events. The cyanobacterium originated from Corpus Christi Bay, TX. Filaments are rarely solitary, benthic mat forming, unbranched, and narrowing at the ends. Cells are 2.1 × 3.1 μm (width × length). Thylakoids are peripherally arranged on the outer third of the cell; cyanophycin granules and polyphosphate bodies are present. Molecular phylogenetic analysis in addition to morphology (transmission electron microscopy and scanning electron microscopy) and chemical composition all confirm it as a new genus and species we name Toxifilum mysidocida. At least one identified Leptolyngbya appears (based on genetic evidence and TEM) to belong to this new genus. © 2016 Phycological Society of America.

Induction of functional tissue-engineered skeletal muscle constructs by defined electrical stimulation.

PubMed

Ito, Akira; Yamamoto, Yasunori; Sato, Masanori; Ikeda, Kazushi; Yamamoto, Masahiro; Fujita, Hideaki; Nagamori, Eiji; Kawabe, Yoshinori; Kamihira, Masamichi

2014-04-24

Electrical impulses are necessary for proper in vivo skeletal muscle development. To fabricate functional skeletal muscle tissues in vitro, recapitulation of the in vivo niche, including physical stimuli, is crucial. Here, we report a technique to engineer skeletal muscle tissues in vitro by electrical pulse stimulation (EPS). Electrically excitable tissue-engineered skeletal muscle constructs were stimulated with continuous electrical pulses of 0.3 V/mm amplitude, 4 ms width, and 1 Hz frequency, resulting in a 4.5-fold increase in force at day 14. In myogenic differentiation culture, the percentage of peak twitch force (%Pt) was determined as the load on the tissue constructs during the artificial exercise induced by continuous EPS. We optimized the stimulation protocol, wherein the tissues were first subjected to 24.5%Pt, which was increased to 50-60%Pt as the tissues developed. This technique may be a useful approach to fabricate tissue-engineered functional skeletal muscle constructs.

Palaeobiology of Hyaenodon exiguus (Hyaenodonta, Mammalia) based on morphometric analysis of the bony labyrinth.

PubMed

Pfaff, Cathrin; Nagel, Doris; Gunnell, Gregg; Weber, Gerhard W; Kriwet, Jürgen; Morlo, Michael; Bastl, Katharina

2017-02-01

Species of the extinct genus Hyaenodon were among the largest carnivorous mammals from the Late Eocene through Early Miocene in North America, Europe and Asia. The origin, phylogeny and palaeobiology of Hyaenodonta are still ambiguous. Most previous studies focused on teeth and dental function in these highly adapted species, which might be influenced by convergent morphologies. The anatomy of the bony labyrinth in vertebrates is generally quite conservative and, additionally, was used in functional-morphological studies. This study provides the first anatomical description of the bony labyrinth of the extinct European species Hyaenodon exiguus in comparison to selected extant carnivoran taxa discussed from a functional-morphological perspective. Hyaenodon exiguus may have occupied a hyaena-like dietary niche with a semi-arboreal lifestyle, based on the relative height, width and length of the semicircular canals of the inner ear. However, this contradicts previous functional-morphological studies focusing on the diameter of the canals, which presumably represent the signal of locomotion mode. © 2016 Anatomical Society.

Coordinated Regulation of Niche and Stem Cell Precursors by Hormonal Signaling

PubMed Central

Gancz, Dana; Lengil, Tamar; Gilboa, Lilach

2011-01-01

Stem cells and their niches constitute units that act cooperatively to achieve adult body homeostasis. How such units form and whether stem cell and niche precursors might be coordinated already during organogenesis are unknown. In fruit flies, primordial germ cells (PGCs), the precursors of germ line stem cells (GSCs), and somatic niche precursors develop within the larval ovary. Together they form the 16–20 GSC units of the adult ovary. We show that ecdysone receptors are required to coordinate the development of niche and GSC precursors. At early third instar, ecdysone receptors repress precocious differentiation of both niches and PGCs. Early repression is required for correct morphogenesis of the ovary and for protecting future GSCs from differentiation. At mid-third instar, ecdysone signaling is required for niche formation. Finally, and concurrent with the initiation of wandering behavior, ecdysone signaling initiates PGC differentiation by allowing the expression of the differentiation gene bag of marbles in PGCs that are not protected by the newly formed niches. All the ovarian functions of ecdysone receptors are mediated through early repression, and late activation, of the ecdysone target gene broad. These results show that, similar to mammals, a brain-gland-gonad axis controls the initiation of oogenesis in insects. They further exemplify how a physiological cue coordinates the formation of a stem cell unit within an organ: it is required for niche establishment and to ensure that precursor cells to adult stem cells remain undifferentiated until the niches can accommodate them. Similar principles might govern the formation of additional stem cell units during organogenesis. PMID:22131903

Range bagging: a new method for ecological niche modelling from presence-only data

PubMed Central

Drake, John M.

2015-01-01

The ecological niche is the set of environments in which a population of a species can persist without introduction of individuals from other locations. A good mathematical or computational representation of the niche is a prerequisite to addressing many questions in ecology, biogeography, evolutionary biology and conservation. A particularly challenging question for ecological niche modelling is the problem of presence-only modelling. That is, can an ecological niche be identified from records drawn only from the set of niche environments without records from non-niche environments for comparison? Here, I introduce a new method for ecological niche modelling from presence-only data called range bagging. Range bagging draws on the concept of a species' environmental range, but was inspired by the empirical performance of ensemble learning algorithms in other areas of ecological research. This paper extends the concept of environmental range to multiple dimensions and shows that range bagging is computationally feasible even when the number of environmental dimensions is large. The target of the range bagging base learner is an environmental tolerance of the species in a projection of its niche and is therefore an ecologically interpretable property of a species' biological requirements. The computational complexity of range bagging is linear in the number of examples, which compares favourably with the main alternative, Qhull. In conclusion, range bagging appears to be a reasonable choice for niche modelling in applications in which a presence-only method is desired and may provide a solution to problems in other disciplines where one-class classification is required, such as outlier detection and concept learning. PMID:25948612

Divergence is not enough: the use of ecological niche models for the validation of taxon boundaries.

PubMed

Dagnino, D; Minuto, L; Casazza, G

2017-11-01

Delimiting taxon boundaries is crucial for any evolutionary research and conservation regulation. In order to avoid mistaken description of species, the approach of integrative taxonomy recommends considering multidisciplinary lines of evidence, including ecology. Unfortunately, ecological data are often difficult to quantify objectively. Here we test and discuss the potential use of ecological niche models for validating taxon boundaries, using three pairs of closely related plant taxa endemic to the south-western Alps as a case study. We also discuss the application of ecological niche models for species delimitation and the implementation of different approaches. Niche overlap, niche equivalency and niche similarity were assessed both in multidimensional environmental space and in geographic space to look for differences in the niche of three pairs of closely related plant taxa. We detected a high degree of niche differentiation between taxa although this result seems not due to differences in habitat selection. The different statistical tests gave contrasting outcomes between environmental and geographic spaces. According to our results, niche divergence does not seem to support taxon boundaries at species level, but may have had important consequences for local adaptation and in generating phenotypic diversity at intraspecific level. Environmental space analysis should be preferred to geographic space as it provides more clear results. Even if the different analyses widely disagree in their conclusions about taxon boundaries, our study suggests that ecological niche models may help taxonomists to reach a decision. © 2017 German Botanical Society and The Royal Botanical Society of the Netherlands.

Range bagging: a new method for ecological niche modelling from presence-only data.

PubMed

Drake, John M

2015-06-06

The ecological niche is the set of environments in which a population of a species can persist without introduction of individuals from other locations. A good mathematical or computational representation of the niche is a prerequisite to addressing many questions in ecology, biogeography, evolutionary biology and conservation. A particularly challenging question for ecological niche modelling is the problem of presence-only modelling. That is, can an ecological niche be identified from records drawn only from the set of niche environments without records from non-niche environments for comparison? Here, I introduce a new method for ecological niche modelling from presence-only data called range bagging. Range bagging draws on the concept of a species' environmental range, but was inspired by the empirical performance of ensemble learning algorithms in other areas of ecological research. This paper extends the concept of environmental range to multiple dimensions and shows that range bagging is computationally feasible even when the number of environmental dimensions is large. The target of the range bagging base learner is an environmental tolerance of the species in a projection of its niche and is therefore an ecologically interpretable property of a species' biological requirements. The computational complexity of range bagging is linear in the number of examples, which compares favourably with the main alternative, Qhull. In conclusion, range bagging appears to be a reasonable choice for niche modelling in applications in which a presence-only method is desired and may provide a solution to problems in other disciplines where one-class classification is required, such as outlier detection and concept learning.

Testing the role of climate in speciation: new methods and applications to squamate reptiles (lizards and snakes).

PubMed

Jezkova, Tereza; Wiens, John J

2018-05-19

Climate may play important roles in speciation, such as causing the range fragmentation that underlies allopatric speciation (through niche conservatism) or driving divergence of parapatric populations along climatic gradients (through niche divergence). Here, we developed new methods to test the frequency of climate niche conservatism and divergence in speciation, and applied it to species pairs of squamate reptiles (lizards and snakes). We used a large-scale phylogeny to identify 242 sister-species pairs for analysis. From these, we selected all terrestrial allopatric pairs with sufficient occurrence records (n=49 pairs) and inferred whether each originated via climatic niche conservatism or climatic niche divergence. Among the 242 pairs, allopatric pairs were most common (41.3%), rather than parapatric (19.4%), partially sympatric (17.7%), or fully sympatric species pairs (21.5%). Among the 49 selected allopatric pairs, most appeared to have originated via climatic niche divergence (61-76%, depending on the details of the methods). Surprisingly, we found greater climatic niche divergence between allopatric sister species than between parapatric pairs, even after correcting for geographic distance. We also found that niche divergence did not increase with time, further implicating niche divergence in driving lineage splitting. Overall, our results suggest that climatic niche divergence may often play an important role in allopatric speciation, and the methodology developed here can be used to address the generality of these findings in other organisms. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

Nurses Improving the Care of Healthsystem Elders: creating a sustainable business model to improve care of hospitalized older adults.

PubMed

Capezuti, Elizabeth A; Bricoli, Barbara; Briccoli, Barbara; Boltz, Marie P

2013-08-01

The Nurses Improving the Care of Healthsystem Elders (NICHE) program helps its more than 450 member sites to build the leadership capabilities to enact system-level change that targets the unique needs of older adults and embeds evidence-based geriatrics knowledge into practice. NICHE received expansion funding to establish a sustainable business model for operations while positioning the program to continue as a leader in innovative senior care programs. The expansion program focused on developing an internal business infrastructure, expanding NICHE-specific resources, creating a Web platform, increasing the number of participating NICHE hospitals, enhancing and expanding the NICHE benchmarking service, supporting research that generates evidence-based practices, fostering interorganizational collaboration, developing sufficient diversified revenue sources, and increasing the penetration and level of activity of current NICHE sites. These activities (improved services, Web-based tools, better benchmarking) added value and made it feasible to charge hospitals an annual fee for access and participation. NICHE does not stipulate how institutions should modify geriatric care; rather, NICHE principles and tools are meant to be adapted to each site's unique institutional culture. This article describes the historical context, the rationale, and the business plan that has resulted in successful organizational outcomes, including financial sustainability of the business operations of NICHE. © 2013, Copyright the Authors Journal compilation © 2013, The American Geriatrics Society.

Glioblastoma niches: from the concept to the phenotypical reality.

PubMed

Schiffer, Davide; Mellai, Marta; Bovio, Enrica; Bisogno, Ilaria; Casalone, Cristina; Annovazzi, Laura

2018-05-08

Recently, the concept of niches as sites of tumor progression, invasion, and angiogenesis in glioblastoma (GB) has been extensively debated. Niches, considered the sites in which glioblastoma stem cells (GSCs) reside, have been classified as perivascular, perinecrotic, and invasive. However, from a neuropathological point of view, it is not easy to establish when a tumor structure can be considered a niche. The relevant literature has been reviewed in the light of our recent experience on the subject. As for perinecrotic niches, the occurrence of GSCs around necrosis is interpreted as triggered by hypoxia through HIF-1α. Our alternative hypothesis is that, together with progenitors, they are the cell constituents of hyper-proliferative areas of GB, where perinecrotic niches have developed, and they would, therefore, represent the remnants of GSCs/progenitors spared by the developing necrosis. Perivascular structures originate from both transport vessels and exchange vessels, i.e., venules, arterioles, or the undefinable neo-formed small vessels, but only those in which a direct contact between GSCs/progenitors and endothelial cells occurs can be called niches. Both pericytes and microglia/macrophages play a role in niche function: Macrophages of blood origin invade GB only after the appearance of "mother vessels" with consequent blood-brain barrier disruption. Not all vessel/tumor cell structures can be considered niches, that is, crucial sites of tumor progression, invasion, and angiogenesis.

Why developmental niche construction is not selective niche construction: and why it matters

PubMed Central

2017-01-01

In the last decade, niche construction has been heralded as the neglected process in evolution. But niche construction is just one way in which the organism's interaction with and construction of the environment can have potential evolutionary significance. The constructed environment does not just select for, it also produces new variation. Nearly 3 decades ago, and in parallel with Odling-Smee's article ‘Niche-constructing phenotypes', West and King introduced the ‘ontogenetic niche’ to give the phenomena of exogenetic inheritance a formal name. Since then, a range of fields in the life sciences and medicine has amassed evidence that parents influence their offspring by means other than DNA (parental effects), and proposed mechanisms for how heritable variation can be environmentally induced and developmentally regulated. The concept of ‘developmental niche construction’ (DNC) elucidates how a diverse range of mechanisms contributes to the transgenerational transfer of developmental resources. My most central of claims is that whereas the selective niche of niche construction theory is primarily used to explain the active role of the organism in its selective environment, DNC is meant to indicate the active role of the organism in its developmental environment. The paper highlights the differences between the construction of the selective and the developmental niche, and explores the overall significance of DNC for evolutionary theory. PMID:28839923

Phylogeny and niche conservatism in North and Central American triatomine bugs (Hemiptera: Reduviidae: Triatominae), vectors of Chagas' disease.

PubMed

Ibarra-Cerdeña, Carlos N; Zaldívar-Riverón, Alejandro; Peterson, A Townsend; Sánchez-Cordero, Víctor; Ramsey, Janine M

2014-10-01

The niche conservatism hypothesis states that related species diverge in niche characteristics at lower rates than expected, given their lineage divergence. Here we analyze whether niche conservatism is a common pattern among vector species (Hemiptera: Reduviidae: Triatominae) of Trypanosoma cruzi that inhabit North and Central America, a highly heterogeneous landmass in terms of environmental gradients. Mitochondrial and nuclear loci were used in a multi-locus phylogenetic framework to reconstruct phylogenetic relationships among species and estimate time of divergence of selected clades to draw biogeographic inferences. Then, we estimated similarity between the ecological niche of sister species and tested the niche conservatism hypothesis using our best estimate of phylogeny. Triatoma is not monophyletic. A primary clade with all North and Central American (NCA) triatomine species from the genera Triatoma, Dipetalogaster, and Panstrongylus, was consistently recovered. Nearctic species within the NCA clade (T. p. protracta, T. r. rubida) diverged during the Pliocene, whereas the Neotropical species (T. phyllosoma, T. longipennis, T. dimidiata complex) are estimated to have diverged more recently, during the Pleistocene. The hypothesis of niche conservatism could not be rejected for any of six sister species pairs. Niche similarity between sister species best fits a retention model. While this framework is used here to infer niche evolution, it has a direct impact on spatial vector dynamics driven by human population movements, expansion of transportation networks and climate change scenarios.

Niche construction game cancer cells play

NASA Astrophysics Data System (ADS)

Bergman, Aviv; Gligorijevic, Bojana

2015-10-01

Niche construction concept was originally defined in evolutionary biology as the continuous interplay between natural selection via environmental conditions and the modification of these conditions by the organism itself. Processes unraveling during cancer metastasis include construction of niches, which cancer cells use towards more efficient survival, transport into new environments and preparation of the remote sites for their arrival. Many elegant experiments were done lately illustrating, for example, the premetastatic niche construction, but there is practically no mathematical modeling done which would apply the niche construction framework. To create models useful for understanding niche construction role in cancer progression, we argue that a) genetic, b) phenotypic and c) ecological levels are to be included. While the model proposed here is phenomenological in its current form, it can be converted into a predictive outcome model via experimental measurement of the model parameters. Here we give an overview of an experimentally formulated problem in cancer metastasis and propose how niche construction framework can be utilized and broadened to model it. Other life science disciplines, such as host-parasite coevolution, may also benefit from niche construction framework adaptation, to satisfy growing need for theoretical considerations of data collected by experimental biology.

Modelling the climatic niche of turtles: a deep-time perspective

PubMed Central

Schmidt, Daniela N.; Valdes, Paul J.; Holroyd, Patricia A.; Farnsworth, Alexander

2016-01-01

Ectotherms have close physiological ties with the thermal environment; consequently, the impact of future climate change on their biogeographic distributions is of major interest. Here, we use the modern and deep-time fossil record of testudines (turtles, tortoises, and terrapins) to provide the first test of climate on the niche limits of both extant and extinct (Late Cretaceous, Maastrichtian) taxa. Ecological niche models are used to assess niche overlap in model projections for key testudine ecotypes and families. An ordination framework is applied to quantify metrics of niche change (stability, expansion, and unfilling) between the Maastrichtian and present day. Results indicate that niche stability over evolutionary timescales varies between testudine clades. Groups that originated in the Early Cretaceous show climatic niche stability, whereas those diversifying towards the end of the Cretaceous display larger niche expansion towards the modern. Temperature is the dominant driver of modern and past distributions, whereas precipitation is important for freshwater turtle ranges. Our findings demonstrate that testudines were able to occupy warmer climates than present day in the geological record. However, the projected rate and magnitude of future environmental change, in concert with other conservation threats, presents challenges for acclimation or adaptation. PMID:27655766

Tempo and mode of climatic niche evolution in Primates.

PubMed

Duran, Andressa; Pie, Marcio R

2015-09-01

Climatic niches have increasingly become a nexus in our understanding of a variety of ecological and evolutionary phenomena, from species distributions to latitudinal diversity gradients. Despite the increasing availability of comprehensive datasets on species ranges, phylogenetic histories, and georeferenced environmental conditions, studies on the evolution of climate niches have only begun to understand how niches evolve over evolutionary timescales. Here, using primates as a model system, we integrate recently developed phylogenetic comparative methods, species distribution patterns, and climatic data to explore primate climatic niche evolution, both among clades and over time. In general, we found that simple, constant-rate models provide a poor representation of how climatic niches evolve. For instance, there have been shifts in the rate of climatic niche evolution in several independent clades, particularly in response to the increasingly cooler climates of the past 10 My. Interestingly, rate accelerations greatly outnumbered rate decelerations. These results highlight the importance of considering more realistic evolutionary models that allow for the detection of heterogeneity in the tempo and mode of climatic niche evolution, as well as to infer possible constraining factors for species distributions in geographical space. © 2015 The Author(s). Evolution © 2015 The Society for the Study of Evolution.

Niche construction game cancer cells play.

PubMed

Bergman, Aviv; Gligorijevic, Bojana

2015-10-01

Niche construction concept was originally defined in evolutionary biology as the continuous interplay between natural selection via environmental conditions and the modification of these conditions by the organism itself. Processes unraveling during cancer metastasis include construction of niches, which cancer cells use towards more efficient survival, transport into new environments and preparation of the remote sites for their arrival. Many elegant experiments were done lately illustrating, for example, the premetastatic niche construction, but there is practically no mathematical modeling done which would apply the niche construction framework. To create models useful for understanding niche construction role in cancer progression, we argue that a) genetic, b) phenotypic and c) ecological levels are to be included. While the model proposed here is phenomenological in its current form, it can be converted into a predictive outcome model via experimental measurement of the model parameters. Here we give an overview of an experimentally formulated problem in cancer metastasis and propose how niche construction framework can be utilized and broadened to model it. Other life science disciplines, such as host-parasite coevolution, may also benefit from niche construction framework adaptation, to satisfy growing need for theoretical considerations of data collected by experimental biology.

THE NICHE CONSTRUCTION PERSPECTIVE: A CRITICAL APPRAISAL*

PubMed Central

Scott-Phillips, Thomas C; Laland, Kevin N; Shuker, David M; Dickins, Thomas E; West, Stuart A

2014-01-01

Niche construction refers to the activities of organisms that bring about changes in their environments, many of which are evolutionarily and ecologically consequential. Advocates of niche construction theory (NCT) believe that standard evolutionary theory fails to recognize the full importance of niche construction, and consequently propose a novel view of evolution, in which niche construction and its legacy over time (ecological inheritance) are described as evolutionary processes, equivalent in importance to natural selection. Here, we subject NCT to critical evaluation, in the form of a collaboration between one prominent advocate of NCT, and a team of skeptics. We discuss whether niche construction is an evolutionary process, whether NCT obscures or clarifies how natural selection leads to organismal adaptation, and whether niche construction and natural selection are of equivalent explanatory importance. We also consider whether the literature that promotes NCT overstates the significance of niche construction, whether it is internally coherent, and whether it accurately portrays standard evolutionary theory. Our disagreements reflect a wider dispute within evolutionary theory over whether the neo-Darwinian synthesis is in need of reformulation, as well as different usages of some key terms (e.g., evolutionary process). PMID:24325256

Correlated evolution of thermal niches and functional physiology in tropical freshwater fishes.

PubMed

Culumber, Zachary W; Tobler, Michael

2018-05-01

The role of ecology in phenotypic and species diversification is widely documented. Nonetheless, numerous nonadaptive processes can shape realized niches and phenotypic variation in natural populations, complicating inferences about adaptive evolution at macroevolutionary scales. We tested for evolved differences in thermal tolerances and their association with the realized thermal niche (including metrics describing diurnal and seasonal patterns of temperature extremes and variability) across a genus of tropical freshwater fishes reared in a standardized environment. There was limited evolution along the thermal niche axis associated with variation in maximum temperature and in upper thermal limits. In contrast, there was considerable diversification along the first major axis of the thermal niche associated with minimum temperatures and in lower thermal limits. Across our adaptive landscape analyses, 70% of species exhibited evidence of divergence in thermal niches. Most importantly, the first two major axes of thermal niche variation were significantly correlated with variation in lower thermal limits. Our results indicate adaptation to divergent thermal niches and adaptive evolution of related functional traits, and highlight the importance of divergence in lower thermal limits for the evolution of tropical biodiversity. © 2018 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2018 European Society For Evolutionary Biology.

Geoengineering Marine Ice Sheets

NASA Astrophysics Data System (ADS)

Wolovick, M.

2017-12-01

Mass loss from Greenland and Antarctica is highly sensitive to the presence of warm ocean water that drives melting at the grounding line. Rapid melting near the grounding line causes ice shelf thinning, loss of buttressing, flow acceleration, grounding line retreat, and ultimately mass loss and sea-level rise. If the grounding line enters a section of overdeepened bed the ice sheet may even enter a runaway collapse via the marine ice sheet instability. The warm water that triggers this process resides offshore at depth and accesses the grounding line through deep troughs in the continental shelf. In Greenland, warm water transport is further constricted through narrow fjords. Here, I propose blocking warm water transport through these choke points with an artificial sill. Using a simple width- and depth-averaged model of ice stream flow coupled to a buoyant-plume model of ocean melting, I find that grounding line retreat and sea level rise can be delayed or reversed for hundreds of years if warm water is prevented from accessing the grounding line at depth. Blocking of warm water from the sub-ice cavity causes ice shelf thickening, increased buttressing, and grounding line readvance. The increase in buttressing is greatly magnified if the thickened ice shelf regrounds on a bathymetric high or on the artificial sill itself. In some experiments for Thwaites Glacier the grounding line is able to recover from a severely retreated state over 100 km behind its present-day position. Such a dramatic recovery demonstrates that it is possible, at least in principle, to stop and reverse an ongoing marine ice sheet collapse. If the ice shelf regrounds on the artificial sill itself, erosion of the sill beneath the grounded ice could reduce the effectiveness of the intervention. However, experiments including sill erosion suggest that even a very weak sill (1 kPa) could delay a collapse for centuries. The scale of the artificial sills in Greenlandic fjords is comparable to existing large public works, while in Antarctica they are one to two orders of magnitude larger. However, this is still small in comparison to the global disruption that would be caused by a collapse of West Antarctica. Marine-terminating ice streams are high-leverage points in the climate system, where global impacts can be achieved through local intervention.

Development of Tsunami Numerical Model Considering the Disaster Debris such as Cars, Ships and Collapsed Buildings

NASA Astrophysics Data System (ADS)

Kozono, Y.; Takahashi, T.; Sakuraba, M.; Nojima, K.

2016-12-01

A lot of debris by tsunami, such as cars, ships and collapsed buildings were generated in the 2011 Tohoku tsunami. It is useful for rescue and recovery after tsunami disaster to predict the amount and final position of disaster debris. The transport form of disaster debris varies as drifting, rolling and sliding. These transport forms need to be considered comprehensively in tsunami simulation. In this study, we focused on the following three points. Firstly, the numerical model considering various transport forms of disaster debris was developed. The proposed numerical model was compared with the hydraulic experiment by Okubo et al. (2004) in order to verify transport on the bottom surface such as rolling and sliding. Secondly, a numerical experiment considering transporting on the bottom surface and drifting was studied. Finally, the numerical model was applied for Kesennuma city where serious damage occurred by the 2011 Tohoku tsunami. In this model, the influence of disaster debris was considered as tsunami flow energy loss. The hydraulic experiments conducted in a water tank which was 10 m long by 30 cm wide. The gate confined water in a storage tank, and acted as a wave generator. A slope was set at downstream section. The initial position of a block (width: 3.2 cm, density: 1.55 g/cm3) assuming the disaster debris was placed in front of the slope. The proposed numerical model simulated well the maximum transport distance and the final stop position of the block. In the second numerical experiment, the conditions were the same as the hydraulic experiment, except for the density of the block. The density was set to various values (from 0.30 to 4.20 g/cm3). This model was able to estimate various transport forms including drifting and sliding. In the numerical simulation of the 2011 Tohoku tsunami, the condition of buildings was modeled as follows: (i)the resistance on the bottom using Manning roughness coefficient (conventional method), and (ii)structure of buildings with collapsing and washing-away due to tsunami wave pressure. In this calculation, disaster debris of collapsed buildings, cars and ships was considered. As a result, the proposed model showed that it is necessary to take the disaster debris into account in order to predict tsunami inundation accurately.

Modulating the stem cell niche for tissue regeneration

PubMed Central

Lane, Steven W; Williams, David A; Watt, Fiona M

2015-01-01

The field of regenerative medicine holds considerable promise for treating diseases that are currently intractable. Although many researchers are adopting the strategy of cell transplantation for tissue repair, an alternative approach to therapy is to manipulate the stem cell microenvironment, or niche, to facilitate repair by endogenous stem cells. The niche is highly dynamic, with multiple opportunities for intervention. These include administration of small molecules, biologics or biomaterials that target specific aspects of the niche, such as cell-cell and cell–extracellular matrix interactions, to stimulate expansion or differentiation of stem cells, or to cause reversion of differentiated cells to stem cells. Nevertheless, there are several challenges in targeting the niche therapeutically, not least that of achieving specificity of delivery and responses. We envisage that successful treatments in regenerative medicine will involve different combinations of factors to target stem cells and niche cells, applied at different times to effect recovery according to the dynamics of stem cell–niche interactions. PMID:25093887

Regulation of immunity and inflammation by hypoxia in immunological niches.

PubMed

Taylor, Cormac T; Colgan, Sean P

2017-12-01

Immunological niches are focal sites of immune activity that can have varying microenvironmental features. Hypoxia is a feature of physiological and pathological immunological niches. The impact of hypoxia on immunity and inflammation can vary depending on the microenvironment and immune processes occurring in a given niche. In physiological immunological niches, such as the bone marrow, lymphoid tissue, placenta and intestinal mucosa, physiological hypoxia controls innate and adaptive immunity by modulating immune cell proliferation, development and effector function, largely via transcriptional changes driven by hypoxia-inducible factor (HIF). By contrast, in pathological immunological niches, such as tumours and chronically inflamed, infected or ischaemic tissues, pathological hypoxia can drive tissue dysfunction and disease development through immune cell dysregulation. Here, we differentiate between the effects of physiological and pathological hypoxia on immune cells and the consequences for immunity and inflammation in different immunological niches. Furthermore, we discuss the possibility of targeting hypoxia-sensitive pathways in immune cells for the treatment of inflammatory disease.

Modulation of occluding junctions alters the hematopoietic niche to trigger immune activation

PubMed Central

Khadilkar, Rohan J; Vogl, Wayne; Goodwin, Katharine

2017-01-01

Stem cells are regulated by signals from their microenvironment, or niche. During Drosophila hematopoiesis, a niche regulates prohemocytes to control hemocyte production. Immune challenges activate cell-signalling to initiate the cellular and innate immune response. Specifically, certain immune challenges stimulate the niche to produce signals that induce prohemocyte differentiation. However, the mechanisms that promote prohemocyte differentiation subsequent to immune challenges are poorly understood. Here we show that bacterial infection induces the cellular immune response by modulating occluding-junctions at the hematopoietic niche. Occluding-junctions form a permeability barrier that regulates the accessibility of prohemocytes to niche derived signals. The immune response triggered by infection causes barrier breakdown, altering the prohemocyte microenvironment to induce immune cell production. Moreover, genetically induced barrier ablation provides protection against infection by activating the immune response. Our results reveal a novel role for occluding-junctions in regulating niche-hematopoietic progenitor signalling and link this mechanism to immune cell production following infection. PMID:28841136

Why Gupta et al.'s critique of niche construction theory is off target.

PubMed

Feldman, Marcus W; Odling-Smee, John; Laland, Kevin N

2017-07-01

Gupta et al., in their article in this issue ('Niche construction in evolutionary theory: the construction of an academic niche?'. doi:10.1007/s12041-017-0787-6), lament 'serious problems with the way science is being done' and suggest that 'niche construction theory exemplifies this state of affairs.' However, their aggressively confrontational but superficial critique of niche construction theory (NCT) only contributes to these problems by attacking claims that NCT does not make. This is unfortunate, as their poor scholarship has done a disservice to the evolutionary biology community through propagating misinformation.We correct Gupta et al.'s misunderstandings, stressing that NCT does not suggest that the fact that organisms engage in niche construction is neglected, nor does it make strong claims on the basis of its formal theory. Moreover, the treatment of niche construction as an evolutionary process has been highly productive, and is both theoretically and empirically well-validated.We end by reflecting on the potentially deleterious implications of their publication for evolutionary science.

A variational approach to niche construction.

PubMed

Constant, Axel; Ramstead, Maxwell J D; Veissière, Samuel P L; Campbell, John O; Friston, Karl J

2018-04-01

In evolutionary biology, niche construction is sometimes described as a genuine evolutionary process whereby organisms, through their activities and regulatory mechanisms, modify their environment such as to steer their own evolutionary trajectory, and that of other species. There is ongoing debate, however, on the extent to which niche construction ought to be considered a bona fide evolutionary force, on a par with natural selection. Recent formulations of the variational free-energy principle as applied to the life sciences describe the properties of living systems, and their selection in evolution, in terms of variational inference. We argue that niche construction can be described using a variational approach. We propose new arguments to support the niche construction perspective, and to extend the variational approach to niche construction to current perspectives in various scientific fields. © 2018 The Authors.

A variational approach to niche construction

PubMed Central

Ramstead, Maxwell J. D.; Veissière, Samuel P. L.; Campbell, John O.; Friston, Karl J.

2018-01-01

In evolutionary biology, niche construction is sometimes described as a genuine evolutionary process whereby organisms, through their activities and regulatory mechanisms, modify their environment such as to steer their own evolutionary trajectory, and that of other species. There is ongoing debate, however, on the extent to which niche construction ought to be considered a bona fide evolutionary force, on a par with natural selection. Recent formulations of the variational free-energy principle as applied to the life sciences describe the properties of living systems, and their selection in evolution, in terms of variational inference. We argue that niche construction can be described using a variational approach. We propose new arguments to support the niche construction perspective, and to extend the variational approach to niche construction to current perspectives in various scientific fields. PMID:29643221

Stem cell autotomy and niche interaction in different systems

PubMed Central

Dorn, David C; Dorn, August

2015-01-01

The best known cases of cell autotomy are the formation of erythrocytes and thrombocytes (platelets) from progenitor cells that reside in special niches. Recently, autotomy of stem cells and its enigmatic interaction with the niche has been reported from male germline stem cells (GSCs) in several insect species. First described in lepidopterans, the silkmoth, followed by the gipsy moth and consecutively in hemipterans, foremost the milkweed bug. In both, moths and the milkweed bug, GSCs form finger-like projections toward the niche, the apical cells (homologs of the hub cells in Drosophila). Whereas in the milkweed bug the projection terminals remain at the surface of the niche cells, in the gipsy moth they protrude deeply into the singular niche cell. In both cases, the projections undergo serial retrograde fragmentation with progressing signs of autophagy. In the gipsy moth, the autotomized vesicles are phagocytized and digested by the niche cell. In the milkweed bug the autotomized vesicles accumulate at the niche surface and disintegrate. Autotomy and sprouting of new projections appears to occur continuously. The significance of the GSC-niche interactions, however, remains enigmatic. Our concept on the signaling relationship between stem cell-niche in general and GSC and niche (hub cells and cyst stem cells) in particular has been greatly shaped by Drosophila melanogaster. In comparing the interactions of GSCs with their niche in Drosophila with those in species exhibiting GSC autotomy it is obvious that additional or alternative modes of stem cell-niche communication exist. Thus, essential signaling pathways, including niche-stem cell adhesion (E-cadherin) and the direction of asymmetrical GSC division - as they were found in Drosophila - can hardly be translated into the systems where GSC autotomy was reported. It is shown here that the serial autotomy of GSC projections shows remarkable similarities with Wallerian axonal destruction, developmental axon pruning and dying-back degeneration in neurodegenerative diseases. Especially the hypothesis of an existing evolutionary conserved “autodestruction program” in axons that might also be active in GSC projections appears attractive. Investigations on the underlying signaling pathways have to be carried out. There are two other well known cases of programmed cell autotomy: the enucleation of erythroblasts in the process of erythrocyte maturation and the segregation of thousands of thrombocytes (platelets) from one megakaryocyte. Both progenitor cell types - erythroblasts and megakaryocytes - are associated with a niche in the bone marrow, erythroblasts with a macrophage, which they surround, and the megakaryocytes with the endothelial cells of sinusoids and their extracellular matrix. Although the regulatory mechanisms may be specific in each case, there is one aspect that connects all described processes of programmed cell autotomy and neuronal autodestruction: apoptotic pathways play always a prominent role. Studies on the role of male GSC autotomy in stem cell-niche interaction have just started but are expected to reveal hitherto unknown ways of signal exchange. Spermatogenesis in mammals advance our understanding of insect spermatogenesis. Mammal and insect spermatogenesis share some broad principles, but a comparison of the signaling pathways is difficult. We have intimate knowledge from Drosophila, but of almost no other insect, and we have only limited knowledge from mammals. The discovery of stem cell autotomy as part of the interaction with the niche promises new general insights into the complicated stem cell-niche interdependence. PMID:26240680

Market niche analysis in the casino gaming industry.

PubMed

Dandurand, L

1990-03-01

This article discusses the nature of market niche analysis in the casino gaming industry. It presents four approaches for conducting market niche analysis. An an example of one approach, the Las Vegas Visitor Profile Study is used to identify a premium niche in the Las Vegas Slot Target Market. A detailed examination of the premium niche profile provides a description of the typical premium slot player. The description of the typical premium player leads to hypotheses regarding needs (the unique preference set) of the premium player. An analysis of the unique preference set suggests an appropriate enhanced marketing program.

Evolution of the climatic tolerance and postglacial range changes of the most primitive orchids (Apostasioideae) within Sundaland, Wallacea and Sahul

PubMed Central

Mystkowska, Katarzyna; Kras, Marta; Dudek, Magdalena

2016-01-01

The location of possible glacial refugia of six Apostasioideae representatives is estimated based on ecological niche modeling analysis. The distribution of their suitable niches during the last glacial maximum (LGM) is compared with their current potential and documented geographical ranges. The climatic factors limiting the studied species occurrences are evaluated and the niche overlap between the studied orchids is assessed and discussed. The predicted niche occupancy profiles and reconstruction of ancestral climatic tolerances suggest high level of phylogenetic niche conservatism within Apostasioideae. PMID:27635348

Resource utilization and trophic niche width in sandy beach macrobenthos from an oligotrophic coast

NASA Astrophysics Data System (ADS)

Ortega-Cisneros, Kelly; de Lecea, Ander M.; Smit, Albertus J.; Schoeman, David S.

2017-01-01

One of the paradigms underlying sandy beach ecology is the overriding control by physical processes; thus, biological interactions (i.e. food availability, competition and predation) are believed to play a role structuring macrofaunal communities only in benign habitats such as dissipative beaches. Moreover, sandy beaches are characterized by low in-situ productivity, so their food webs rely heavily on marine inputs. Studies have shown that estuarine organic matter plays a key role in influencing the dynamics of marine ecosystems. However, very few studies have tested the role of estuarine input on sandy beaches. Here, we aim to determine the impact of estuarine input on the food web of a sandy beach macrobenthic community. To this end, particulate organic matter (POM) samples from the marine environment and the estuary, as well as macrobenthic samples from the beach, were analysed for their stable isotope (SI) signature. Our results indicated that the POM SI signatures were not different along the beach, but differences were recorded between marine and estuarine sources. Bayesian mixing models indicated that the organisms did not make use of the estuarine POM at the beginning of the wet season, but relied more heavily on this resource towards the end of the wet season. This leads to the conclusion that changes in estuarine flow throughout the wet season can impact the trophic structure of macrobenthos communities, confirming a link between lotic and marine communities. Moreover, SI signatures suggest that the species collected here exhibit overlapping trophic niches, indicating high level of inter-specific competition. This highlights that species in low-productivity areas, such as the one studied here, can experience high levels of competition even in physically controlled environments such as sandy beaches.

Effect of temperature and nutrients on the growth and development of seedlings of an invasive plant.

PubMed

Skálová, Hana; Moravcová, Lenka; Dixon, Anthony F G; Kindlmann, P; Pyšek, Petr

2015-04-28

Plant species distributions are determined by the response of populations to regional climates; however, little is known about how alien plants that arrive in central Europe from climatically warmer regions cope with the temperature conditions at the early stage of population development. Ambrosia artemisiifolia (common ragweed) is an invasive annual plant causing considerable health and economic problems in Europe. Although climate-based models predict that the whole of the Czech Republic is climatically suitable for this species, it is confined to the warmest regions. To determine the factors possibly responsible for its restricted occurrence, we investigated the effects of temperature and nutrient availability on its seedlings. The plants were cultivated at one of seven temperature regimes ranging from 10 to 34 °C, combined with three nutrient levels. The data on the rate of leaf development were used to calculate the lower developmental threshold (LDT, the temperature, in °C, below which development ceases), the sum of effective temperatures (SET, the amount of heat needed to complete a developmental stage measured in degree days above LDT) and width of the thermal window. The rate of development decreased with decrease in temperature and nutrient supply. Besides this, the decrease in the availability of nutrients resulted in decreased LDT, increased SET and wider thermal window. The dependence of LDT and SET on the availability of nutrients contradicts the concept that thermal constants do not vary. Our results highlight temperature as the main determinant of common ragweed's distribution and identify nutrient availability as a factor that results in the realized niche being smaller than the fundamental niche; both of these need to be taken into account when predicting the future spread of A. artemisiifolia. Published by Oxford University Press on behalf of the Annals of Botany Company.

Extant ape dental topography and its implications for reconstructing the emergence of early Homo.

PubMed

Berthaume, Michael A; Schroer, Kes

2017-11-01

Dental topography reflects diet accurately in several extant and extinct mammalian clades. However, dental topographic dietary reconstructions have high success rates only when closely related taxa are compared. Given the dietary breadth that exists among extant apes and likely existed among fossil hominins, dental topographic values from many species and subspecies of great apes are necessary for making dietary inferences about the hominin fossil record. Here, we present the results of one metric of dental topography, Dirichlet normal energy (DNE), for seven groups of great apes (Pongo pygmaeus pygmaeus, Pan paniscus, Pan troglodytes troglodytes and schweinfurthii, Gorilla gorilla gorilla, Gorilla beringei graueri and beringei). Dirichlet normal energy was inadequate at differentiating folivores from frugivores, but was adequate at predicting which groups had more fibrous diets among sympatric African apes. Character displacement analyses confirmed there is substantial dental topographic and relative molar size (M 1 :M 2 ratio; length, width, and area) divergence in sympatric apes when compared to their allopatric counterparts, but character displacement is only present in relative molar size when DNE is also considered. Presence of character displacement is likely due to indirect competition over similar food resources. Assuming similar ecological conditions in the Plio-Pleistocene, the derived masticatory apparatuses of the robust australopiths and early Homo may be due to indirect competition over dietary resources between the taxa, causing dietary niche partitioning. Our results imply that dental topography cannot be used to predict dietary categories in fossil hominins without consideration of ecological factors, such as dietary and geographic overlap. In addition, our results may open new avenues for understanding the community compositions of early hominins and the formation of specific ecological niches among hominin taxa. Copyright © 2017 Elsevier Ltd. All rights reserved.

Integrating Ecosystem Engineering and Food Web Ecology: Testing the Effect of Biogenic Reefs on the Food Web of a Soft-Bottom Intertidal Area

PubMed Central

De Smet, Bart; Fournier, Jérôme; De Troch, Marleen; Vincx, Magda; Vanaverbeke, Jan

2015-01-01

The potential of ecosystem engineers to modify the structure and dynamics of food webs has recently been hypothesised from a conceptual point of view. Empirical data on the integration of ecosystem engineers and food webs is however largely lacking. This paper investigates the hypothesised link based on a field sampling approach of intertidal biogenic aggregations created by the ecosystem engineer Lanice conchilega (Polychaeta, Terebellidae). The aggregations are known to have a considerable impact on the physical and biogeochemical characteristics of their environment and subsequently on the abundance and biomass of primary food sources and the macrofaunal (i.e. the macro-, hyper- and epibenthos) community. Therefore, we hypothesise that L. conchilega aggregations affect the structure, stability and isotopic niche of the consumer assemblage of a soft-bottom intertidal food web. Primary food sources and the bentho-pelagic consumer assemblage of a L. conchilega aggregation and a control area were sampled on two soft-bottom intertidal areas along the French coast and analysed for their stable isotopes. Despite the structural impacts of the ecosystem engineer on the associated macrofaunal community, the presence of L. conchilega aggregations only has a minor effect on the food web structure of soft-bottom intertidal areas. The isotopic niche width of the consumer communities of the L. conchilega aggregations and control areas are highly similar, implying that consumer taxa do not shift their diet when feeding in a L. conchilega aggregation. Besides, species packing and hence trophic redundancy were not affected, pointing to an unaltered stability of the food web in the presence of L. conchilega. PMID:26496349

The United States pork niche market phenomenon.

PubMed

Honeyman, M S; Pirog, R S; Huber, G H; Lammers, P J; Hermann, J R

2006-08-01

After the broad industrialization of the US pork industry, there has been a development of niche markets for export and domestic pork; that is, there is a pork niche market phenomenon. The US pork niche market phenomenon is characterized, and 2 of the major markets are explained in detail. With the Midwest's tradition of a diversified family-based agriculture and record low hog prices of the late 1990s, the conditions were conducive for this phenomenon to develop. Pork niche markets utilize various sales methods including Internet sales, local abattoir sales, direct marketing, farmer networks, and targeting to organized groups. In 2003, there were approximately 35 to 40 active pork niche marketing efforts in Iowa. The Berkshire breed is an example of a swine breed that has had a recent resurgence because of niche markets. Berkshire pork is known for tenderness and excellent quality. Berkshire registrations have increased 4-fold in the last 10 yr. One of the larger niche marketers of "natural pork" is Niman Ranch Pork, which has more than 400 farmer-producers and processes about 2,500 pigs weekly. Many US consumers of pork are interested in issues concerning the environment, food safety, pig welfare, and pig farm ownership and structure. These consumers may be willing to pay more for pork from farmers who are also concerned about these issues. Small- and medium-sized swine farmers are active in pork niche markets. Niche markets claim product differentiation by superior or unique product quality and social attributes. Quality attributes include certain swine breeds, and meat quality, freshness, taste or flavor, and tenderness. Social or credence attributes often are claimed and include freedom from antibiotics and growth promotants; local family farm production; natural, organic, outdoor, or bedded rearing; humane rearing; known origin; environmentally friendly production; and the absence of animal by-products in the feed. Niche pork markets and alternative swine production practices offer an unusual contrast to commodity pork markets and industrial confinement swine production. Because they strive to have these attributes in their product, the niche pork market producers are a distinct clientele group. If niche pork markets continue to flourish, the markets and the producers that supply them will be a viable sector in a diverse US pork industry.

Evolution is a cooperative process: the biodiversity-related niches differentiation theory (BNDT) can explain why.

PubMed

Gatti, Roberto Cazzolla

2011-01-01

A. McFayden and G.E. Hutchinson defined a niche as a multidimensional space or hypervolume within the environment that allows an individual or a species to survive, we consider niches as a fundamental ecological variable that regulate species' composition and relation in ecosystems. Successively the niche concept has been associated to the genetic term "phenotype" by MacArthurstressing the importance on what a species or a genome can show outside, either in the environmental functions or in body characteristics. Several indexes have been developed to evaluate the grade of overlapping and similarities of species' niches, even utilizing the theory of information. However, which are the factors that determine the number of species that can coexist in a determinate environment and why a generalist species do not compete until the exclusion of the remaining species to maximize its fitness, is still quite unknown. Moreover, there are few studies and theories that clearly explain why the number of niches is so variable through ecosystems and how can several species live in the same basal niche, intended in a comprehensive sense as the range of basic conditions (temperature, humidity, food-guild, etc.). Here I show that the number of niches in an ecosystem depends on the number of species present in a particular moment and that the species themselves allow the enhancement of niches in terms of space and number. I found that using a three-dimensional model as hypervolume and testing the theory on a Mediterranean, temperate and tropical forest ecosystem it is possible to demonstrate that each species plays a fundamental role in facilitating the colonization by other species by simply modifying the environment and exponentially increasing the available niches' space and number. I resumed these hypothesis, after some preliminary empiric tests, in the Biodiversity-related Niches Differentiation Theory (BNDT), stressing with these definition that the process of niches differentiation is strictly addressed by species. This approach has various consequences, first in consideration of relations among species and second in terms of a better understanding of cooperation/competition dynamics.

Classification and comparison of niche services for developing strategy of medical tourism in Asian countries.

PubMed

Chen, Hung-chi; Kuo, Hsin-chih; Chung, Kuo-Piao; Chang, Sophia; Su, Syi; Yang, Ming-chin

2010-01-01

Medical tourism is a new trend in medical service. It is booming not only in Asian countries but also in European and South American countries. Worldwide competition of medical service is expected in the future, and niche service will be a "trademark" for the promotion of global medicine. Niche service also functions for market segmentation. Niche services are usually surgical procedures. A study was carried out to compare different strategies for developing medical tourism in Asian countries. The role of a niche service is evaluated in the initiation and further development of medical tourism for individual countries. From this study, a general classification was proposed in terms of treatment procedures. It can be used as a useful guideline for additional studies in medical tourism. Niche service plays the following roles in the development of medical tourism: (1) It attracts attention in the mass media and helps in subsequent promotion of business, (2) it exerts pressure on the hospital, which must improve the quality of health care provided in treating foreign patients, especially the niche services, and (3) it is a tool for setting up the business model. E-Da Hospital is an example for developing medical tourism in Taiwan. A side effect is that niche service brings additional foreign patients, which will contribute to the benefit of the hospital, but this leaves less room for treating domestic patients. A niche service is a means of introduction for entry into the market of medical tourism. How to create a successful story is important for the development of a niche service. When a good reputation has been established, the information provided on the Internet can last for a long time and can spread internationally to form a distinguished mark for further development. Niche services can be classified into 3 categories: (1) Low-risk procedures with large price differences and long stay after retirement; (2) high-risk procedures with less of a price difference, and (3) banned procedures that are not allowed legally in home countries of foreign patients, such as stem cell therapy. In establishing a niche service, a high-quality, nonmedical segment should be integrated as well.

Biogeochemical and Ecomorphological Niche Segregation of Mediterranean Woody Species along a Local Gradient.

PubMed

de la Riva, Enrique G; Marañón, Teodoro; Violle, Cyrille; Villar, Rafael; Pérez-Ramos, Ignacio M

2017-01-01

According with niche theory the species are specialized in different ecological niches, being able to coexist as result of a differential use of resources. In this context, the biogeochemical niche hypothesis proposes that species have an optimal elemental composition which results from the link between the chemical and morphological traits for the optimum plant functioning. Thus, and attending to the limiting similarity concept, different elemental composition and plant structure among co-occurring species may reduce competition, promoting different functional niches. Different functional habits associated with leaf life-span or growth forms are associated with different strategies for resource uptake, which could promote niche partitioning. In the present study, based on the biogeochemical niche concept and the use of resources in different proportions, we have focused on leaf traits (morphological and chemical) associated with resource uptake, and explored the niche partitioning among functional habits: leaf life-span (deciduous, evergreen, and semideciduous) and growth (tree, shrub, and arborescent-shrub). To this end, we have quantified the hypervolume of the leaf functional trait space (both structure and chemical composition) in a sample of 45 Mediterranean woody species from Sierra Morena Mountains (Spain) growing along a local soil resource gradient. Our results show consistent variation in functional space for woody communities distributed along the environmental gradient. Thus, communities dominated by deciduous trees with faster growth and a predominant acquisitive strategy were characteristic of bottom forests and showed highest leaf biogeochemical space. While semideciduous shrubs and evergreen (arborescent, trees) species, characterized by a conservative strategy, dominated ridge forests and showed smaller functional space. In addition, within each topographical zone or environment type, the foliar biogeochemical niche partitioning would underlie the species ability to coexist by diverging on leaf nutrient composition and resource uptake. Lower niche overlap among functional habits were found, which support that different growth forms and leaf life-habits may facilitate the coexistence of the woody species and niche partitioning along and within the gradient.

Climatic niche conservatism and biogeographical non-equilibrium in Eschscholzia californica (Papaveraceae), an invasive plant in the Chilean Mediterranean region.

PubMed

Peña-Gómez, Francisco T; Guerrero, Pablo C; Bizama, Gustavo; Duarte, Milén; Bustamante, Ramiro O

2014-01-01

Species climate requirements are useful for predicting their geographic distribution. It is often assumed that the niche requirements for invasive plants are conserved during invasion, especially when the invaded regions share similar climate conditions. California and central Chile have a remarkable degree of convergence in their vegetation structure, and a similar Mediterranean climate. Such similarities make these geographic areas an interesting natural experiment for testing climatic niche dynamics and the equilibrium of invasive species in a new environment. We tested to see if the climatic niche of Eschscholzia californica is conserved in the invaded range (central Chile), and we assessed whether the invasion process has reached a biogeographical equilibrium, i.e., occupy all the suitable geographic locations that have suitable conditions under native niche requirements. We compared the climatic niche in the native and invaded ranges as well as the projected potential geographic distribution in the invaded range. In order to compare climatic niches, we conducted a Principal Component Analysis (PCA) and Species Distribution Models (SDMs), to estimate E. californica's potential geographic distribution. We also used SDMs to predict altitudinal distribution limits in central Chile. Our results indicated that the climatic niche occupied by E. californica in the invaded range is firmly conserved, occupying a subset of the native climatic niche but leaving a substantial fraction of it unfilled. Comparisons of projected SDMs for central Chile indicate a similarity, yet the projection from native range predicted a larger geographic distribution in central Chile compared to the prediction of the model constructed for central Chile. The projected niche occupancy profile from California predicted a higher mean elevation than that projected from central Chile. We concluded that the invasion process of E. californica in central Chile is consistent with climatic niche conservatism but there is potential for further expansion in Chile.

Hysteroscopic resection of a uterine caesarean scar defect (niche) in women with postmenstrual spotting: a randomised controlled trial.

PubMed

Vervoort, Ajmw; van der Voet, L F; Hehenkamp, Wjk; Thurkow, A L; van Kesteren, Pjm; Quartero, H; Kuchenbecker, W; Bongers, M; Geomini, P; de Vleeschouwer, Lhm; van Hooff, Mha; van Vliet, H; Veersema, S; Renes, W B; Oude Rengerink, K; Zwolsman, S E; Brölmann, Ham; Mol, Bwj; Huirne, Jaf

2018-02-01

To compare the effectiveness of a hysteroscopic niche resection versus no treatment in women with postmenstrual spotting and a uterine caesarean scar defect. Multicentre randomised controlled trial. Eleven hospitals collaborating in a consortium for women's health research in the Netherlands. Women reporting postmenstrual spotting after a caesarean section who had a niche with a residual myometrium of ≥3 mm, measured during sonohysterography. Women were randomly allocated to hysteroscopic niche resection or expectant management for 6 months. The primary outcome was the number of days of postmenstrual spotting 6 months after randomisation. Secondary outcomes were spotting at the end of menstruation, intermenstrual spotting, dysuria, sonographic niche measurements, surgical parameters, quality of life, women's satisfaction, sexual function, and additional therapy. Outcomes were measured at 3 months and, except for niche measurements, also at 6 months after randomisation. We randomised 52 women to hysteroscopic niche resection and 51 women to expectant management. The median number of days of postmenstrual spotting at baseline was 8 days in both groups. At 6 months after randomisation, the median number of days of postmenstrual spotting was 4 days (interquartile range, IQR 2-7 days) in the intervention group and 7 days (IQR 3-10 days) in the control group (P = 0.04); on a scale of 0-10, discomfort as a result of spotting had a median score of 2 (IQR 0-7) in the intervention group, compared with 7 (IQR 0-8) in the control group (P = 0.02). In women with a niche with a residual myometrium of ≥3 mm, hysteroscopic niche resection reduced postmenstrual spotting and spotting-related discomfort. A hysteroscopic niche resection is an effective treatment to reduce niche-related spotting. © 2017 The Authors. BJOG An International Journal of Obstetrics and Gynaecology published by John Wiley & Sons Ltd on behalf of Royal College of Obstetricians and Gynaecologists.

The Use of Climatic Niches in Screening Procedures for Introduced Species to Evaluate Risk of Spread: A Case with the American Eastern Grey Squirrel

PubMed Central

Di Febbraro, Mirko; Lurz, Peter W. W.; Genovesi, Piero; Maiorano, Luigi; Girardello, Marco; Bertolino, Sandro

2013-01-01

Species introduction represents one of the most serious threats for biodiversity. The realized climatic niche of an invasive species can be used to predict its potential distribution in new areas, providing a basis for screening procedures in the compilation of black and white lists to prevent new introductions. We tested this assertion by modeling the realized climatic niche of the Eastern grey squirrel Sciurus carolinensis. Maxent was used to develop three models: one considering only records from the native range (NRM), a second including records from native and invasive range (NIRM), a third calibrated with invasive occurrences and projected in the native range (RCM). Niche conservatism was tested considering both a niche equivalency and a niche similarity test. NRM failed to predict suitable parts of the currently invaded range in Europe, while RCM underestimated the suitability in the native range. NIRM accurately predicted both the native and invasive range. The niche equivalency hypothesis was rejected due to a significant difference between the grey squirrel’s niche in native and invasive ranges. The niche similarity test yielded no significant results. Our analyses support the hypothesis of a shift in the species’ climatic niche in the area of introductions. Species Distribution Models (SDMs) appear to be a useful tool in the compilation of black lists, allowing identifying areas vulnerable to invasions. We advise caution in the use of SDMs based only on the native range of a species for the compilation of white lists for other geographic areas, due to the significant risk of underestimating its potential invasive range. PMID:23843957

Widespread correlations between climatic niche evolution and species diversification in birds.

PubMed

Cooney, Christopher R; Seddon, Nathalie; Tobias, Joseph A

2016-07-01

The adaptability of species' climatic niches can influence the dynamics of colonization and gene flow across climatic gradients, potentially increasing the likelihood of speciation or reducing extinction in the face of environmental change. However, previous comparative studies have tested these ideas using geographically, taxonomically and ecologically restricted samples, yielding mixed results, and thus the processes linking climatic niche evolution with diversification remain poorly understood. Focusing on birds, the largest and most widespread class of terrestrial vertebrates, we test whether variation in species diversification among clades is correlated with rates of climatic niche evolution and the extent to which these patterns are modified by underlying gradients in biogeography and species' ecology. We quantified climatic niches, latitudinal distribution and ecological traits for 7657 (˜75%) bird species based on geographical range polygons and then used Bayesian phylogenetic analyses to test whether niche evolution was related to species richness and rates of diversification across genus- and family-level clades. We found that the rate of climatic niche evolution has a positive linear relationship with both species richness and diversification rate at two different taxonomic levels (genus and family). Furthermore, this positive association between labile climatic niches and diversification was detected regardless of variation in clade latitude or key ecological traits. Our findings suggest either that rapid adaptation to unoccupied areas of climatic niche space promotes avian diversification, or that diversification promotes adaptation. Either way, we propose that climatic niche evolution is a fundamental process regulating the link between climate and biodiversity at global scales, irrespective of the geographical and ecological context of speciation and extinction. © 2016 The Authors. Journal of Animal Ecology © 2016 British Ecological Society.

Improved Predictions of the Geographic Distribution of Invasive Plants Using Climatic Niche Models.

PubMed

Ramírez-Albores, Jorge E; Bustamante, Ramiro O; Badano, Ernesto I

2016-01-01

Climatic niche models for invasive plants are usually constructed with occurrence records taken from literature and collections. Because these data neither discriminate among life-cycle stages of plants (adult or juvenile) nor the origin of individuals (naturally established or man-planted), the resulting models may mispredict the distribution ranges of these species. We propose that more accurate predictions could be obtained by modelling climatic niches with data of naturally established individuals, particularly with occurrence records of juvenile plants because this would restrict the predictions of models to those sites where climatic conditions allow the recruitment of the species. To test this proposal, we focused on the Peruvian peppertree (Schinus molle), a South American species that has largely invaded Mexico. Three climatic niche models were constructed for this species using high-resolution dataset gathered in the field. The first model included all occurrence records, irrespective of the life-cycle stage or origin of peppertrees (generalized niche model). The second model only included occurrence records of naturally established mature individuals (adult niche model), while the third model was constructed with occurrence records of naturally established juvenile plants (regeneration niche model). When models were compared, the generalized climatic niche model predicted the presence of peppertrees in sites located farther beyond the climatic thresholds that naturally established individuals can tolerate, suggesting that human activities influence the distribution of this invasive species. The adult and regeneration climatic niche models concurred in their predictions about the distribution of peppertrees, suggesting that naturally established adult trees only occur in sites where climatic conditions allow the recruitment of juvenile stages. These results support the proposal that climatic niches of invasive plants should be modelled with data of naturally established individuals because this improves the accuracy of predictions about their distribution ranges.

Improved Predictions of the Geographic Distribution of Invasive Plants Using Climatic Niche Models

PubMed Central

Ramírez-Albores, Jorge E.; Bustamante, Ramiro O.

2016-01-01

Climatic niche models for invasive plants are usually constructed with occurrence records taken from literature and collections. Because these data neither discriminate among life-cycle stages of plants (adult or juvenile) nor the origin of individuals (naturally established or man-planted), the resulting models may mispredict the distribution ranges of these species. We propose that more accurate predictions could be obtained by modelling climatic niches with data of naturally established individuals, particularly with occurrence records of juvenile plants because this would restrict the predictions of models to those sites where climatic conditions allow the recruitment of the species. To test this proposal, we focused on the Peruvian peppertree (Schinus molle), a South American species that has largely invaded Mexico. Three climatic niche models were constructed for this species using high-resolution dataset gathered in the field. The first model included all occurrence records, irrespective of the life-cycle stage or origin of peppertrees (generalized niche model). The second model only included occurrence records of naturally established mature individuals (adult niche model), while the third model was constructed with occurrence records of naturally established juvenile plants (regeneration niche model). When models were compared, the generalized climatic niche model predicted the presence of peppertrees in sites located farther beyond the climatic thresholds that naturally established individuals can tolerate, suggesting that human activities influence the distribution of this invasive species. The adult and regeneration climatic niche models concurred in their predictions about the distribution of peppertrees, suggesting that naturally established adult trees only occur in sites where climatic conditions allow the recruitment of juvenile stages. These results support the proposal that climatic niches of invasive plants should be modelled with data of naturally established individuals because this improves the accuracy of predictions about their distribution ranges. PMID:27195983

Synergistic selection between ecological niche and mate preference primes diversification.

PubMed

Boughman, Janette W; Svanbäck, Richard

2017-01-01

The ecological niche and mate preferences have independently been shown to be important for the process of speciation. Here, we articulate a novel mechanism by which ecological niche use and mate preference can be linked to promote speciation. The degree to which individual niches are narrow and clustered affects the strength of divergent natural selection and population splitting. Similarly, the degree to which individual mate preferences are narrow and clustered affects the strength of divergent sexual selection and assortative mating between diverging forms. This novel perspective is inspired by the literature on ecological niches; it also explores mate preferences and how they may contribute to speciation. Unlike much comparative work, we do not search for evolutionary patterns using proxies for adaptation and sexual selection, but rather we elucidate how ideas from niche theory relate to mate preference, and how this relationship can foster speciation. Recognizing that individual and population niches are conceptually and ecologically linked to individual and population mate preference functions will significantly increase our understanding of rapid evolutionary diversification in nature. It has potential to help solve the difficult challenge of testing the role of sexual selection in the speciation process. We also identify ecological factors that are likely to affect individual niche and individual mate preference in synergistic ways and as a consequence to promote speciation. The ecological niche an individual occupies can directly affect its mate preference. Clusters of individuals with narrow, differentiated niches are likely to have narrow, differentiated mate preference functions. Our approach integrates ecological and sexual selection research to further our understanding of diversification processes. Such integration may be necessary for progress because these processes seem inextricably linked in the natural world. © 2016 The Author(s). Evolution © 2016 The Society for the Study of Evolution.

Cryptic elevational zonation in trapdoor spiders (Araneae, Antrodiaetidae, Aliatypus janus complex) from the California southern Sierra Nevada.

PubMed

Starrett, James; Hayashi, Cheryl Y; Derkarabetian, Shahan; Hedin, Marshal

2018-01-01

The relative roles of ecological niche conservatism versus niche divergence in promoting montane speciation remains an important topic in biogeography. Here, our aim was to test whether lineage diversification in a species complex of trapdoor spiders corresponds with riverine barriers or with an ecological gradient associated with elevational tiering. Aliatypus janus was sampled from throughout its range, with emphasis on populations in the southern Sierra Nevada Mountains of California. We collected multi-locus genetic data to generate a species tree for A. janus and its close relatives. Coalescent based hypothesis tests were conducted to determine if genetic breaks within A. janus conform to riverine barriers. Ecological niche models (ENM) under current and Last Glacial Maximum (LGM) conditions were generated and hypothesis tests of niche conservatism and divergence were performed. Coalescent analyses reveal deeply divergent genetic lineages within A. janus, likely corresponding to cryptic species. Two primary lineages meet along an elevational gradient on the western slopes of the southern Sierra Nevada Mountains. ENMs under both current and LGM conditions indicate that these groups occupy largely non-overlapping niches. ENM hypothesis testing rejected niche identity between the two groups, and supported a sharp ecological gradient occurring where the groups meet. However, the niche similarity test indicated that the two groups may not inhabit different background niches. The Sierra Nevada Mountains provide a natural laboratory for simultaneously testing ecological niche divergence and conservatism and their role in speciation across a diverse range of taxa. Aliatypus janus represents a species complex with cryptic lineages that may have diverged due to parapatric speciation along an ecological gradient, or been maintained by the evolution of ecological niche differences following allopatric speciation. Copyright © 2017 Elsevier Inc. All rights reserved.

Commodifying snow, taming the waters. Socio-ecological niche construction in an Alpine village.

PubMed

Gross, Robert; Winiwarter, Verena

White belts of snow clad mountains all over the world each winter. Even if there is no snow, the tourism industry is able to produce the white finery at the push of the button, thereby consuming large amounts of water. Studying Damüls, a well-known ski resort in Austria's westernmost province Vorarlberg, we can show that the development of a service sector within agro-pastoral landscapes was connected with novel water uses and massive interventions into Alpine landscapes. Human niche construction theory offers a unique avenue for studying the development of Alpine communities, but also highlights side effects accompanying the change from agrarian to tourism livelihoods. One aim of this paper is to broaden the scope of human niche construction theory. Inceptive, counteractive and relocational niche construction activities were coupled to the differentiation of actor groups. To incorporate social dynamics, indispensable for studies in environmental history, we propose the concept of socio-ecological niche construction. The paper investigates how villagers balanced resource limitations typical for an agrarian society with the differentiation of sub-niches, mediating selective forces on the population. When the valleys were industrialized, Damüls was almost given up as a permanent settlement. Then, tourists entered the stage, by and by turning the wheel of local development into a different direction. A tourism niche based on natural snow evolved from the 1930s onwards. While the socio-ecological niches of agriculture and tourism coexisted in the interwar years, this changed when ski lifts were built, embedded into a debt-based economy that made the tourism niche vulnerable to snow availability. Snow-dependency became a powerful selective force. It was mediated by the ski lift companies through a range of niche construction activities that turned water into an important resource of snowmaking systems.

Controls on the early Holocene collapse of the Bothnian Sea Ice Stream

NASA Astrophysics Data System (ADS)

Clason, Caroline C.; Greenwood, Sarah L.; Selmes, Nick; Lea, James M.; Jamieson, Stewart S. R.; Nick, Faezeh M.; Holmlund, Per

2016-12-01

New high-resolution multibeam data in the Gulf of Bothnia reveal for the first time the subglacial environment of a Bothnian Sea Ice Stream. The geomorphological record suggests that increased meltwater production may have been important in driving rapid retreat of Bothnian Sea Ice during deglaciation. Here we apply a well-established, one-dimensional flow line model to simulate ice flow through the Gulf of Bothnia and investigate controls on retreat of the ice stream during the post-Younger Dryas deglaciation of the Fennoscandian Ice Sheet. The relative influence of atmospheric and marine forcings are investigated, with the modeled ice stream exhibiting much greater sensitivity to surface melting, implemented through surface mass balance and hydrofracture-induced calving, than to submarine melting or relative sea level change. Such sensitivity is supported by the presence of extensive meltwater features in the geomorphological record. The modeled ice stream does not demonstrate significant sensitivity to changes in prescribed ice stream width or overall bed slope, but local variations in basal topography and ice stream width result in nonlinear retreat of the grounding line, notably demonstrating points of short-lived retreat slowdown on reverse bed slopes. Retreat of the ice stream was most likely governed by increased ice surface meltwater production, with the modeled retreat rate less sensitive to marine forcings despite the marine setting.

Squeezing of Ion Populations and Peaks in Traveling Wave Ion Mobility Separations and Structures for Lossless Ion Manipulations using Compression Ratio Ion Mobility Programming

DOE Office of Scientific and Technical Information (OSTI.GOV)

Garimella, Venkata BS; Hamid, Ahmed M.; Deng, Liulin

In this work, we report an approach for spatial and temporal gas phase ion population manipulation, and demonstrate its application for the collapse of the ion distributions in ion mobility (IM) separations into tighter packets providing higher sensitivity measurements in conjunction with mass spectrometry (MS). We do this for ions moving from a conventionally traveling wave (TW)-driven region to a region where the TW is intermittently halted or ‘stuttered’. This approach causes the ion packets spanning a number of TW-created traveling traps (TT) to be redistributed into fewer TT, resulting in spatial compression. The degree of spatial compression is controllablemore » and determined by the ratio of stationary time of the TW in the second region to its moving time. This compression ratio ion mobility programming (CRIMP) approach has been implemented using Structures for Lossless Ion Manipulations (SLIM) in conjunction with MS. CRIMP with the SLIM-MS platform is shown to provide increased peak intensities, reduced peak widths, and improved S/N ratios with MS detection. CRIMP also provides a foundation for extremely long path length and multi-pass IM separations in SLIM providing greatly enhanced IM resolution by reducing the detrimental effects of diffusional peak broadening due to increasing peak widths.« less

Computed narrow-band azimuthal time-reversing array retrofocusing in shallow water.

PubMed

Dungan, M R; Dowling, D R

2001-10-01

The process of acoustic time reversal sends sound waves back to their point of origin in reciprocal acoustic environments even when the acoustic environment is unknown. The properties of the time-reversed field commonly depend on the frequency of the original signal, the characteristics of the acoustic environment, and the configuration of the time-reversing transducer array (TRA). In particular, vertical TRAs are predicted to produce horizontally confined foci in environments containing random volume refraction. This article validates and extends this prediction to shallow water environments via monochromatic Monte Carlo propagation simulations (based on parabolic equation computations using RAM). The computational results determine the azimuthal extent of a TRA's retrofocus in shallow-water sound channels either having random bottom roughness or containing random internal-wave-induced sound speed fluctuations. In both cases, randomness in the environment may reduce the predicted azimuthal angular width of the vertical TRA retrofocus to as little as several degrees (compared to 360 degrees for uniform environments) for source-array ranges from 5 to 20 km at frequencies from 500 Hz to 2 kHz. For both types of randomness, power law scalings are found to collapse the calculated azimuthal retrofocus widths for shallow sources over a variety of acoustic frequencies, source-array ranges, water column depths, and random fluctuation amplitudes and correlation scales. Comparisons are made between retrofocusing on shallow and deep sources, and in strongly and mildly absorbing environments.

The niche party concept and its measurement.

PubMed

Meyer, Thomas M; Miller, Bernhard

2015-03-01

The concept of the niche party has become increasingly popular in analyses of party competition. Yet, existing approaches vary in their definitions and their measurement approaches. We propose using a minimal definition that allows us to compare political parties in terms of their 'nicheness'. We argue that the conceptual core of the niche party concept is based on issue emphasis and that a niche party emphasizes policy areas neglected by its rivals. Based on this definition, we propose a continuous measure that allows for more fine-grained measurement of a party's 'nicheness' than the dominant, dichotomous approaches and thereby limits the risk of measurement error. Drawing on data collected by the Comparative Manifesto Project, we show that (1) our measure has high face validity and (2) exposes differences among parties that are not captured by alternative, static or dichotomous measures.

Phylogeny and Niche Conservatism in North and Central American Triatomine Bugs (Hemiptera: Reduviidae: Triatominae), Vectors of Chagas' Disease

PubMed Central

Ibarra-Cerdeña, Carlos N.; Zaldívar-Riverón, Alejandro; Peterson, A. Townsend; Sánchez-Cordero, Víctor; Ramsey, Janine M.

2014-01-01

The niche conservatism hypothesis states that related species diverge in niche characteristics at lower rates than expected, given their lineage divergence. Here we analyze whether niche conservatism is a common pattern among vector species (Hemiptera: Reduviidae: Triatominae) of Trypanosoma cruzi that inhabit North and Central America, a highly heterogeneous landmass in terms of environmental gradients. Mitochondrial and nuclear loci were used in a multi-locus phylogenetic framework to reconstruct phylogenetic relationships among species and estimate time of divergence of selected clades to draw biogeographic inferences. Then, we estimated similarity between the ecological niche of sister species and tested the niche conservatism hypothesis using our best estimate of phylogeny. Triatoma is not monophyletic. A primary clade with all North and Central American (NCA) triatomine species from the genera Triatoma, Dipetalogaster, and Panstrongylus, was consistently recovered. Nearctic species within the NCA clade (T. p. protracta, T. r. rubida) diverged during the Pliocene, whereas the Neotropical species (T. phyllosoma, T. longipennis, T. dimidiata complex) are estimated to have diverged more recently, during the Pleistocene. The hypothesis of niche conservatism could not be rejected for any of six sister species pairs. Niche similarity between sister species best fits a retention model. While this framework is used here to infer niche evolution, it has a direct impact on spatial vector dynamics driven by human population movements, expansion of transportation networks and climate change scenarios. PMID:25356550

Anatomic measurements of the posterior tympanum related to the round window vibroplasty in congenital aural atresia and stenosis patients.

PubMed

Chen, Keguang; Yin, Dongming; Lyu, Huiying; Yang, Lin; Zhang, Tianyu; Dai, Peidong

2016-01-01

With the aggravation of the external auditory canal malformation, the size of extra-niche fossa became smaller, providing concrete data and valuable information for the better design, selecting and safer implantation of the transducer in the area of round window niche. Three-dimensional measurements and assessments before surgery might be helpful for a safer surgical approach and implantation of a vibrant soundbridge. The aim of this study was to investigate whether differences exist in the morphology of the posterior tympanum related to the round window vibroplasty among congenital aural atresia (CAA), congenital aural stenosis (CAS), and a normal control group, and to analyze its effect on the round window implantation of vibrant soundbridge. CT images of 10 normal subjects (20 ears), 27 CAS patients (30 ears), and 25 CAA patients (30 ears) were analyzed. The depth and the size of outside fossa of round window niche related to the round window vibroplasty (extra-niche fossa)and the distances between the center of round window niche and extra-niche fossa were calculated based on three-dimensional reconstruction using mimics software. Finally, the data were analyzed statistically. The size of extra-niche fossa in the atresia group was smaller than in the stenosis group (p < 0.05); furthermore, the size of extra-niche fossa in the stenosis group was smaller than that of the control group (p < 0.05). There was no statistically significant difference of the depth of extra-niche fossa among different groups.

Niche conservatism above the species level.

PubMed

Hadly, Elizabeth A; Spaeth, Paula A; Li, Cheng

2009-11-17

Traits that enable species to persist in ecological environments are often maintained over time, a phenomenon known as niche conservatism. Here we argue that ecological niches function at levels above species, notably at the level of genus for mammals, and that niche conservatism is also evident above the species level. Using the proxy of geographic range size, we explore changes in the realized niche of North American mammalian genera and families across the major climatic transition represented by the last glacial-interglacial transition. We calculate the mean and variance of range size for extant mammalian genera and families, rank them by range size, and estimate the change in range size and rank during the late Pleistocene and late Holocene. We demonstrate that range size at the genus and family levels was surprisingly constant over this period despite range shifts and extinctions of species within the clades. We suggest that underlying controls on niche conservatism may be different at these higher taxonomic levels than at the species level. Niche conservatism at higher levels seems primarily controlled by intrinsic life history traits, whereas niche conservatism at the species level may reflect underlying environmental controls. These results highlight the critical importance of conserving the biodiversity of mammals at the genus level and of maintaining an adequate species pool within genera.

Niche divergence builds the case for ecological speciation in skinks of the Plestiodon skiltonianus species complex

USGS Publications Warehouse

Wogan, Guinevere O.U.; Richmond, Jonathan Q.

2015-01-01

Adaptation to different thermal environments has the potential to cause evolutionary changes that are sufficient to drive ecological speciation. Here, we examine whether climate-based niche divergence in lizards of the Plestiodon skiltonianus species complex is consistent with the outcomes of such a process. Previous work on this group shows that a mechanical sexual barrier has evolved between species that differ mainly in body size and that the barrier may be a by-product of selection for increased body size in lineages that have invaded xeric environments; however, baseline information on niche divergence among members of the group is lacking. We quantified the climatic niche using mechanistic physiological and correlative niche models and then estimated niche differences among species using ordination techniques and tests of niche overlap and equivalency. Our results show that the thermal niches of size-divergent, reproductively isolated morphospecies are significantly differentiated and that precipitation may have been as important as temperature in causing increased shifts in body size in xeric habitats. While these findings alone do not demonstrate thermal adaptation or identify the cause of speciation, their integration with earlier genetic and behavioral studies provides a useful test of phenotype–environment associations that further support the case for ecological speciation in these lizards.

Traffic jam functions in a branched pathway from Notch activation to niche cell fate.

PubMed

Wingert, Lindsey; DiNardo, Stephen

2015-07-01

The niche directs key behaviors of its resident stem cells, and is thus crucial for tissue maintenance, repair and longevity. However, little is known about the genetic pathways that guide niche specification and development. The male germline stem cell niche in Drosophila houses two stem cell populations and is specified within the embryonic gonad, thus making it an excellent model for studying niche development. The hub cells that form the niche are specified early by Notch activation. Over the next few hours, these individual cells then cluster together and take up a defined position before expressing markers of hub cell differentiation. This timing suggests that there are other factors for niche development yet to be defined. Here, we have identified a role for the large Maf transcription factor Traffic jam (Tj) in hub cell specification downstream of Notch. Tj downregulation is the first detectable effect of Notch activation in hub cells. Furthermore, Tj depletion is sufficient to generate ectopic hub cells that can recruit stem cells. Surprisingly, ectopic niche cells in tj mutants remain dispersed in the absence of Notch activation. This led us to uncover a branched pathway downstream of Notch in which Bowl functions to direct hub cell assembly in parallel to Tj downregulation. © 2015. Published by The Company of Biologists Ltd.

Links between plant species’ spatial and temporal responses to a warming climate

PubMed Central

Amano, Tatsuya; Freckleton, Robert P.; Queenborough, Simon A.; Doxford, Simon W.; Smithers, Richard J.; Sparks, Tim H.; Sutherland, William J.

2014-01-01

To generate realistic projections of species’ responses to climate change, we need to understand the factors that limit their ability to respond. Although climatic niche conservatism, the maintenance of a species’s climatic niche over time, is a critical assumption in niche-based species distribution models, little is known about how universal it is and how it operates. In particular, few studies have tested the role of climatic niche conservatism via phenological changes in explaining the reported wide variance in the extent of range shifts among species. Using historical records of the phenology and spatial distribution of British plants under a warming climate, we revealed that: (i) perennial species, as well as those with weaker or lagged phenological responses to temperature, experienced a greater increase in temperature during flowering (i.e. failed to maintain climatic niche via phenological changes); (ii) species that failed to maintain climatic niche via phenological changes showed greater northward range shifts; and (iii) there was a complementary relationship between the levels of climatic niche conservatism via phenological changes and range shifts. These results indicate that even species with high climatic niche conservatism might not show range shifts as instead they track warming temperatures during flowering by advancing their phenology. PMID:24478304

Simulation of proliferation and differentiation of cells in a stem-cell niche

NASA Astrophysics Data System (ADS)

Zhdanov, Vladimir P.

2008-10-01

Stem-cell niches represent microscopic compartments formed of environmental cells that nurture stem cells and enable them to maintain tissue homeostasis. The spatio-temporal kinetics of proliferation and differentiation of cells in such niches depend on the specifics of the niche structure and on adhesion and communication between cells and may also be influenced by spatial constraints on cell division. We propose a generic lattice model, taking all these factors into account, and systematically illustrate their role. The model is motivated by the experimental data available for the niches located in the subventricular zone of adult mammalian brain. The general conclusions drawn from our Monte Carlo simulations are applicable to other niches as well. One of our main findings is that the kinetics under consideration are highly stochastic due to a relatively small number of cells proliferating and differentiating in a niche and the autocatalytic character of the symmetric cell division. In particular, the kinetics exhibit huge stochastic bursts especially if the adhesion between cells is taken into account. In addition, the results obtained show that despite the small number of cells present in stem-cell niches, their arrangement can be predetermined to appreciable extent provided that the adhesion of different cells is different so that they tend to segregate.

The niche construction perspective: a critical appraisal.

PubMed

Scott-Phillips, Thomas C; Laland, Kevin N; Shuker, David M; Dickins, Thomas E; West, Stuart A

2014-05-01

Niche construction refers to the activities of organisms that bring about changes in their environments, many of which are evolutionarily and ecologically consequential. Advocates of niche construction theory (NCT) believe that standard evolutionary theory fails to recognize the full importance of niche construction, and consequently propose a novel view of evolution, in which niche construction and its legacy over time (ecological inheritance) are described as evolutionary processes, equivalent in importance to natural selection. Here, we subject NCT to critical evaluation, in the form of a collaboration between one prominent advocate of NCT, and a team of skeptics. We discuss whether niche construction is an evolutionary process, whether NCT obscures or clarifies how natural selection leads to organismal adaptation, and whether niche construction and natural selection are of equivalent explanatory importance. We also consider whether the literature that promotes NCT overstates the significance of niche construction, whether it is internally coherent, and whether it accurately portrays standard evolutionary theory. Our disagreements reflect a wider dispute within evolutionary theory over whether the neo-Darwinian synthesis is in need of reformulation, as well as different usages of some key terms (e.g., evolutionary process). © 2013 The Author(s). Evolution published by Wiley Periodicals, Inc. on behalf of The Society for the Study of Evolution.

[Application of land economic ecological niche in landscape pattern analysis at county level: A case study of Jinghe County in Xinjiang, China].

PubMed

Yu, Hai-yang; Zhang, Fei; Wang, Juan; Zhou, Mei

2015-12-01

The theory of land economic ecological niche was used to analyze the regional landscape pattern in this article, with an aim to provide a new method for the characterization and representation of landscape pattern. The Jinghe County region, which is ecologically fragile, was selected as an example for the study, and the Landsat images of 1990, 1998, 2011 and 2013 were selected as remote sensing data. The land economic ecological niche of land use types calculated by ecostate-ecorole theory, combined with landscape ecology theory, was discussed in application of land economic ecological niche in county landscape pattern analysis. The results showed that, during the study period, the correlations between land economic ecological niche of farmland, construction land, and grassland with the parameters, including landscape patch number (NP), aggregated index (AI), fragmented index (FN) and fractal dimension (FD), were significant. Regional landscape was driven by the changes of land economic ecological niche, and the trend of economic development could be represented by land economic ecological niche change in Jinghe County. Land economic ecological niche was closely related with the land use types which could yield direct economic benefits, which could well explain the landscape pattern characteristics in Jinghe County when combined with the landscape indices.

Framework for analyzing ecological trait-based models in multidimensional niche spaces

NASA Astrophysics Data System (ADS)

Biancalani, Tommaso; DeVille, Lee; Goldenfeld, Nigel

2015-05-01

We develop a theoretical framework for analyzing ecological models with a multidimensional niche space. Our approach relies on the fact that ecological niches are described by sequences of symbols, which allows us to include multiple phenotypic traits. Ecological drivers, such as competitive exclusion, are modeled by introducing the Hamming distance between two sequences. We show that a suitable transform diagonalizes the community interaction matrix of these models, making it possible to predict the conditions for niche differentiation and, close to the instability onset, the asymptotically long time population distributions of niches. We exemplify our method using the Lotka-Volterra equations with an exponential competition kernel.

External modes in quantum dot light emitting diode with filtered optical feedback

NASA Astrophysics Data System (ADS)

Al Husseini, Hussein B.; Al Naimee, Kais A.; Al-Khursan, Amin H.; Khedir, Ali. H.

2016-06-01

This research reports a theoretical investigation on the role of filtered optical feedback (FOF) in the quantum dot light emitting diode (QD-LED). The underlying dynamics is affected by a sidle node, which returns to an elliptical shape when the wetting layer (WL) is neglected. Both filter width and time delay change the appearance of different dynamics (chaotic and mixed mode oscillations, MMOs). The results agree with the experimental observations. Here, the fixed point analysis for QDs was done for the first time. For QD-LED with FOF, the system transits from the coherence collapse case in conventional optical feedback to a coherent case with a filtered mode in FOF. It was found that the WL washes out the modes which is an unexpected result. This may attributed to the longer capture time of WL compared with that between QD states. Thus, WL reduces the chaotic behavior.

Shape Evolution of Detached Bridgman Crystals Grown in Microgravity

NASA Technical Reports Server (NTRS)

Volz, M. P.; Mazuruk, K.

2015-01-01

Detached (or dewetted) Bridgman crystal growth defines that process in which a gap exists between a growing crystal and the crucible wall. In microgravity, the parameters that influence the existence of a stable gap are the growth angle of the solidifying crystal, the contact angle between the melt and the crucible wall, and the pressure difference across the meniscus. During actual crystal growth, the initial crystal radius will not have the precise value required for stable detached growth. Beginning with a crystal diameter that differs from stable conditions, numerical calculations are used to analyze the transient crystal growth process. Depending on the initial conditions and growth parameters, the crystal shape will either evolve towards attachment at the crucible wall, towards a stable gap width, or inwards towards eventual collapse of the meniscus. Dynamic growth stability is observed only when the sum of the growth and contact angles exceeds 180 degrees.

Effects of pulsed mid-IR lasers on bovine knee joint tissues

NASA Astrophysics Data System (ADS)

Vari, Sandor G.; Shi, Wei-Qiang; Pergadia, Vani R.; Duffy, J. T.; Miller, J. M.; van der Veen, Maurits J.; Weiss, Andrew B.; Fishbein, Michael C.; Grundfest, Warren S.

1993-07-01

We investigated the effect of varying Tm:YAG (2.014 micrometers ) and Ho:YAG (2.130 micrometers ) laser parameters on ablation rate and consequent thermal damage. Mid-infrared wavelengths are strongly absorbed by most biological tissues due to the tissue's high water content. The ablation rate of fresh bovine knee joint tissues (fibrous cartilage, hyaline cartilage, and bone) in saline was assessed as a function of radiant exposure (160 - 950 J/cm2), at pulse widths of 200 microsecond(s) ec for Tm:YAG and 250 microsecond(s) ec for Ho:YAG and a repetition rate of 2 Hz. All tissues used in this study could be efficiently ablated using two micron lasers. The mechanism of action is likely related to the formation and collapse of cavitation bubbles, associated with mid-infrared lasers. We concluded that the Tm:YAG and Ho:YAG lasers are capable of effective knee joint tissue ablation.

High-resolution studies of the HF ionospheric modification interaction region

NASA Technical Reports Server (NTRS)

Duncan, L. M.; Sheerin, J. P.

1985-01-01

The use of the pulse edge analysis technique to explain ionospheric modifications caused by high-power HF radio waves is discussed. The technique, implemented at the Arecibo Observatory, uses long radar pulses and very rapid data sampling. A comparison of the pulse leading and trailing edge characteristics is obtained and the comparison is used to estimate the relative changes in the interaction region height and layer width; an example utilizing this technique is provided. Main plasma line overshoot and miniovershoot were studied from the pulse edge observations; the observations at various HF pulsings and radar resolutions are graphically presented. From the pulse edge data the development and the occurrence of main plasma line overshoot and miniovershoot are explained. The theories of soliton formation and collapse, wave ducting, profile modification, and parametric instabilities are examined as a means of explaining main plasma line overshoots and miniovershoots.

Dawn HAMO Image 63

NASA Image and Video Library

2015-11-19

This image of Ceres from NASA's Dawn spacecraft shows hummocky terrain -- a surface covered in low, rounded hills -- with numerous impact craters of varying sizes. The two biggest craters display central peaks and many places where masses of material have collapsed and slid downward along their walls and floors -- a phenomenon geologists call "mass wasting". The sharp crater at upper right is surrounded by smooth ejecta with a streaky texture to the south. A graben -- what geologists call a linear feature where terrain has dropped -- measuring 2 to 5 miles (3 to 8 kilometers) in width, and two prominent scarps, or linear, cliff-like slopes, are located in the southeastern (lower right) part of the image. Dawn took this image on Oct. 5, 2015, from an altitude of 915 miles (1,470 kilometers). It has a resolution of 450 feet (140 meters) per pixel. http://photojournal.jpl.nasa.gov/catalog/PIA20125

External modes in quantum dot light emitting diode with filtered optical feedback

DOE Office of Scientific and Technical Information (OSTI.GOV)

Al Husseini, Hussein B.; Department of Physics, College of Science, University of Baghdad, Al Jadiriyah, Baghdad; Al Naimee, Kais A.

2016-06-14

This research reports a theoretical investigation on the role of filtered optical feedback (FOF) in the quantum dot light emitting diode (QD-LED). The underlying dynamics is affected by a sidle node, which returns to an elliptical shape when the wetting layer (WL) is neglected. Both filter width and time delay change the appearance of different dynamics (chaotic and mixed mode oscillations, MMOs). The results agree with the experimental observations. Here, the fixed point analysis for QDs was done for the first time. For QD-LED with FOF, the system transits from the coherence collapse case in conventional optical feedback to amore » coherent case with a filtered mode in FOF. It was found that the WL washes out the modes which is an unexpected result. This may attributed to the longer capture time of WL compared with that between QD states. Thus, WL reduces the chaotic behavior.« less

A Web-GIS Procedure Based on Satellite Multi-Spectral and Airborne LIDAR Data to Map the Road blockage Due to seismic Damages of Built-Up Urban Areas

NASA Astrophysics Data System (ADS)

Costanzo, Antonio; Montuori, Antonio; Silva, Juan Pablo; Silvestri, Malvina; Musacchio, Massimo; Buongiorno, Maria Fabrizia; Stramondo, Salvatore

2016-08-01

In this work, a web-GIS procedure to map the risk of road blockage in urban environments through the combined use of space-borne and airborne remote sensing sensors is presented. The methodology concerns (1) the provision of a geo-database through the integration of space-borne multispectral images and airborne LiDAR data products; (2) the modeling of building vulnerability, based on the corresponding 3D geometry and construction time information; (3) the GIS-based mapping of road closure due to seismic- related building collapses based on the building characteristic height and the width of the road. Experimental results, gathered for the Cosenza urban area, allow demonstrating the benefits of both the proposed approach and the GIS-based integration of multi-platforms remote sensing sensors and techniques for seismic road assessment purposes.

Statistical methods for thermonuclear reaction rates and nucleosynthesis simulations

NASA Astrophysics Data System (ADS)

Iliadis, Christian; Longland, Richard; Coc, Alain; Timmes, F. X.; Champagne, Art E.

2015-03-01

Rigorous statistical methods for estimating thermonuclear reaction rates and nucleosynthesis are becoming increasingly established in nuclear astrophysics. The main challenge being faced is that experimental reaction rates are highly complex quantities derived from a multitude of different measured nuclear parameters (e.g., astrophysical S-factors, resonance energies and strengths, particle and γ-ray partial widths). We discuss the application of the Monte Carlo method to two distinct, but related, questions. First, given a set of measured nuclear parameters, how can one best estimate the resulting thermonuclear reaction rates and associated uncertainties? Second, given a set of appropriate reaction rates, how can one best estimate the abundances from nucleosynthesis (i.e., reaction network) calculations? The techniques described here provide probability density functions that can be used to derive statistically meaningful reaction rates and final abundances for any desired coverage probability. Examples are given for applications to s-process neutron sources, core-collapse supernovae, classical novae, and Big Bang nucleosynthesis.

Observation of an abrupt electron heating mode transition in capacitive single radio frequency discharges

NASA Astrophysics Data System (ADS)

Wilczek, Sebastian; Trieschmann, Jan; Schulze, Julian; Brinkmann, Ralf Peter; Mussenbrock, Thomas; Derzsi, Aranka; Korolov, Ihor; Donkó, Zoltan

2013-09-01

The electron heating in capacitive discharges at very low pressures (~1 Pa) is dominated by stochastic heating. In this regime electrons are accelerated by the oscillating sheaths, traverse through the plasma bulk and interact with the opposite sheath. By varying the driving frequency or the gap size of the discharge, energetic electrons reach the sheath edge at different temporal phases, i.e., the collapsing or expanding phase, or the moment of minimum sheath width. This work reports numerical experiments based on Particle-In-Cell simulations which show that at certain frequencies the discharge switches abruptly from a low density mode in a high density mode. The inverse transition is also abrupt, but shows a significant hysteresis. This behavior is explained by the complex interaction of the bulk and the sheath. This work is supported by the German Research Foundation in the frame of TRR 87.

Slip pulse and resonance of Kathmandu basin during the 2015 Mw 7.8 Gorkha earthquake, Nepal imaged with space geodesy

USGS Publications Warehouse

Galetzka, John; Melgar, D.; Genrich, J.F.; Geng, J.; Owen, S.; Lindsey, E. O.; Xu, X.; Bock, Y.; Avouac, J.-P.; Adhikari, L. B.; Upreti, B. N.; Pratt-Sitaula, B.; Bhattarai, T. N.; Sitaula, B. P.; Moore, A.; Hudnut, Kenneth W.; Szeliga, W.; Normandeau, J.; Fend, M.; Flouzat, M; Bollinger, L.; Shrestha, P.; Koirala, B.; Gautam, U.; Bhatterai, M.; Gupta, R.; Kandel, T.; Timsina, C.; Sapkota, S.N.; Rajaure, S.; Maharjan, N.

2015-01-01

Detailed geodetic imaging of earthquake rupture enhances our understanding of earthquake physics and induced ground shaking. The April 25, 2015 Mw 7.8 Gorkha, Nepal earthquake is the first example of a large continental megathrust rupture beneath a high-rate (5 Hz) GPS network. We use GPS and InSAR data to model the earthquake rupture as a slip pulse of ~20 km width, ~6 s duration, and with peak sliding velocity of 1.1 m/s that propagated toward Kathmandu basin at ~3.3 km/s over ~140 km. The smooth slip onset, indicating a large ~5 m slip-weakening distance, caused moderate ground shaking at high >1Hz frequencies (~16% g) and limited damage to regular dwellings. Whole basin resonance at 4-5 s period caused collapse of tall structures, including cultural artifacts.

Niche construction initiates the evolution of mutualistic interactions.

PubMed

Buser, Claudia C; Newcomb, Richard D; Gaskett, Anne C; Goddard, Matthew R

2014-10-01

Niche construction theory explains how organisms' niche modifications may feed back to affect their evolutionary trajectories. In theory, the evolution of other species accessing the same modified niche may also be affected. We propose that this niche construction may be a general mechanism driving the evolution of mutualisms. Drosophilid flies benefit from accessing yeast-infested fruits, but the consequences of this interaction for yeasts are unknown. We reveal high levels of variation among strains of Saccharomyces cerevisiae in their ability to modify fruits and attract Drosophila simulans. More attractive yeasts are dispersed more frequently, both in the lab and in the field, and flies associated with more attractive yeasts have higher fecundity. Although there may be multiple natural yeast and fly species interactions, our controlled assays in the lab and field provide evidence of a mutualistic interaction, facilitated by the yeast's niche modification. © 2014 John Wiley & Sons Ltd/CNRS.

Rethinking niche evolution: experiments with natural communities of Protozoa in pitcher plants.

PubMed

Miller, Thomas E; Moran, Emma R; terHorst, Casey P

2014-08-01

Classic niche theory predicts that competing species will evolve to use different resources and interact less, whereas recent niche-converge ideas predict that species evolve to use similar resources and interact more. Most data supporting niche evolution are based on observations of contemporary niche use, whereas experimental support is quite sparse. We followed the evolution of four species of Protozoa during succession in the water-filled leaves of the pitcher plant, Sarracenia purpurea, and found that evolution in multispecies systems follows a surprising pattern. Over several hundred generations, weak competitors evolved to be stronger, while strong competitors evolved to become weaker, which does not conform to expectations of either niche divergence or convergence. Evolution in this system appears to occur in response to characteristics of a suite of several competitors in the community, rather than pairwise interactions. Ecologists may need to rethink the roles of competition and evolution in structuring communities.

Differential niche dynamics among major marine invertebrate clades

PubMed Central

Hopkins, Melanie J; Simpson, Carl; Kiessling, Wolfgang

2014-01-01

The degree to which organisms retain their environmental preferences is of utmost importance in predicting their fate in a world of rapid climate change. Notably, marine invertebrates frequently show strong affinities for either carbonate or terrigenous clastic environments. This affinity is due to characteristics of the sediments as well as correlated environmental factors. We assessed the conservatism of substrate affinities of marine invertebrates over geological timescales, and found that niche conservatism is prevalent in the oceans, and largely determined by the strength of initial habitat preference. There is substantial variation in niche conservatism among major clades with corals and sponges being among the most conservative. Time-series analysis suggests that niche conservatism is enhanced during times of elevated nutrient flux, whereas niche evolution tends to occur after mass extinctions. Niche evolution is not necessarily elevated in genera exhibiting higher turnover in species composition. PMID:24313951

Partitioning ecosystems for sustainability.

PubMed

Murray, Martyn G

2016-03-01

Decline in the abundance of renewable natural resources (RNRs) coupled with increasing demands of an expanding human population will greatly intensify competition for Earth's natural resources during this century, yet curiously, analytical approaches to the management of productive ecosystems (ecological theory of wildlife harvesting, tragedy of the commons, green economics, and bioeconomics) give only peripheral attention to the driving influence of competition on resource exploitation. Here, I apply resource competition theory (RCT) to the exploitation of RNRs and derive four general policies in support of their sustainable and equitable use: (1) regulate resource extraction technology to avoid damage to the resource base; (2) increase efficiency of resource use and reduce waste at every step in the resource supply chain and distribution network; (3) partition ecosystems with the harvesting niche as the basic organizing principle for sustainable management of natural resources by multiple users; and (4) increase negative feedback between consumer and resource to bring about long-term sustainable use. A simple policy framework demonstrates how RCT integrates with other elements of sustainability science to better manage productive ecosystems. Several problem areas of RNR management are discussed in the light of RCT, including tragedy of the commons, overharvesting, resource collapse, bycatch, single species quotas, and simplification of ecosystems.

Niche engineering reveals complementary resource use

USDA-ARS?s Scientific Manuscript database

Greater resource use by diverse communities might result from species occupying different, complementary niches. Niche partitioning is difficult to directly demonstrate, however, because differences among species in the resources they use are often difficult to separate from other species-specific t...

A sandpile model of grain blocking and consequences for sediment dynamics in step-pool streams

NASA Astrophysics Data System (ADS)

Molnar, P.

2012-04-01

Coarse grains (cobbles to boulders) are set in motion in steep mountain streams by floods with sufficient energy to erode the particles locally and transport them downstream. During transport, grains are often blocked and form width-spannings structures called steps, separated by pools. The step-pool system is a transient, self-organizing and self-sustaining structure. The temporary storage of sediment in steps and the release of that sediment in avalanche-like pulses when steps collapse, leads to a complex nonlinear threshold-driven dynamics in sediment transport which has been observed in laboratory experiments (e.g., Zimmermann et al., 2010) and in the field (e.g., Turowski et al., 2011). The basic question in this paper is if the emergent statistical properties of sediment transport in step-pool systems may be linked to the transient state of the bed, i.e. sediment storage and morphology, and to the dynamics in sediment input. The hypothesis is that this state, in which sediment transporting events due to the collapse and rebuilding of steps of all sizes occur, is analogous to a critical state in self-organized open dissipative dynamical systems (Bak et al., 1988). To exlore the process of self-organization, a cellular automaton sandpile model is used to simulate the processes of grain blocking and hydraulically-driven step collapse in a 1-d channel. Particles are injected at the top of the channel and are allowed to travel downstream based on various local threshold rules, with the travel distance drawn from a chosen probability distribution. In sandpile modelling this is a simple 1-d limited non-local model, however it has been shown to have nontrivial dynamical behaviour (Kadanoff et al., 1989), and it captures the essence of stochastic sediment transport in step-pool systems. The numerical simulations are used to illustrate the differences between input and output sediment transport rates, mainly focussing on the magnification of intermittency and variability in the system response by the processes of grain blocking and step collapse. The temporal correlation in input and output rates and the number of grains stored in the system at any given time are quantified by spectral analysis and statistics of long-range dependence. Although the model is only conceptually conceived to represent the real processes of step formation and collapse, connections will be made between the modelling results and some field and laboratory data on step-pool systems. The main focus in the discussion will be to demonstrate how even in such a simple model the processes of grain blocking and step collapse may impact the sediment transport rates to the point that certain changes in input are not visible anymore, along the lines of "shredding the signals" proposed by Jerolmack and Paola (2010). The consequences are that the notions of stability and equilibrium, the attribution of cause and effect, and the timescales of process and form in step-pool systems, and perhaps in many other fluvial systems, may have very limited applicability.

Coordinate Regulation of Stem Cell Competition by Slit-Robo and JAK-STAT Signaling in the Drosophila Testis

PubMed Central

Stine, Rachel R.; Greenspan, Leah J.; Ramachandran, Kapil V.; Matunis, Erika L.

2014-01-01

Stem cells in tissues reside in and receive signals from local microenvironments called niches. Understanding how multiple signals within niches integrate to control stem cell function is challenging. The Drosophila testis stem cell niche consists of somatic hub cells that maintain both germline stem cells and somatic cyst stem cells (CySCs). Here, we show a role for the axon guidance pathway Slit-Roundabout (Robo) in the testis niche. The ligand Slit is expressed specifically in hub cells while its receptor, Roundabout 2 (Robo2), is required in CySCs in order for them to compete for occupancy in the niche. CySCs also require the Slit-Robo effector Abelson tyrosine kinase (Abl) to prevent over-adhesion of CySCs to the niche, and CySCs mutant for Abl outcompete wild type CySCs for niche occupancy. Both Robo2 and Abl phenotypes can be rescued through modulation of adherens junction components, suggesting that the two work together to balance CySC adhesion levels. Interestingly, expression of Robo2 requires JAK-STAT signaling, an important maintenance pathway for both germline and cyst stem cells in the testis. Our work indicates that Slit-Robo signaling affects stem cell function downstream of the JAK-STAT pathway by controlling the ability of stem cells to compete for occupancy in their niche. PMID:25375180

The impact of failure: unsuccessful bacterial invasions steer the soil microbial community away from the invader's niche.

PubMed

Mallon, C A; Le Roux, X; van Doorn, G S; Dini-Andreote, F; Poly, F; Salles, J F

2018-03-01

Although many environments like soils are constantly subjected to invasion by alien microbes, invaders usually fail to succeed, succumbing to the robust diversity often found in nature. So far, only successful invasions have been explored, and it remains unknown to what extent an unsuccessful invasion can impact resident communities. Here we hypothesized that unsuccessful invasions can cause impacts to soil functioning by decreasing the diversity and niche breadth of resident bacterial communities, which could cause shifts to community composition and niche structure-an effect that is likely exacerbated when diversity is compromised. To examine this question, diversity gradients of soil microbial communities were subjected to invasion by the frequent, yet oft-unsuccessful soil invader, Escherichia coli, and evaluated for changes to diversity, bacterial community composition, niche breadth, and niche structure. Contrary to expectations, diversity and niche breadth increased across treatments upon invasion. Community composition and niche structure were also altered, with shifts of niche structure revealing an escape by the resident community away from the invader's resources. Importantly, the extent of the escape varied in response to the community's diversity, where less diverse communities experienced larger shifts. Thus, although transient and unsuccessful, the invader competed for resources with resident species and caused tangible impacts that modified both the diversity and functioning of resident communities, which can likely generate a legacy effect that influences future invasion attempts.

Testing the niche variation hypothesis with a measure of body condition

EPA Science Inventory

Individual variation and fitness are cornerstones of evolution by natural selection. The niche variation hypothesis (NVH) posits that when interspecific competition is relaxed, intraspecific competition should drive niche expansion by selection favoring use of novel resources. Po...

Overcoming Barriers for "Niche" Learners Through Distance Education.

ERIC Educational Resources Information Center

Miller, Lawrence G.; Hyatt, Sue Y.; Brennan, Joyce; Bertani, Raymond; Trevor, Thomas

1999-01-01

Focuses on students who fit into "niches," and discusses how the Chattanooga State Technical Community College's distance-learning program accommodates these learners. Describes five "niche" learner categories: students with disabilities, power-line maintenance technicians, emergency-service personnel, truckers, and industrial…

Habitat niche breadth predicts invasiveness in solitary ascidians.

PubMed

Granot, Itai; Shenkar, Noa; Belmaker, Jonathan

2017-10-01

A major focus of invasion biology is understanding the traits associated with introduction success. Most studies assess these traits in the invaded region, while only few compare nonindigenous species to the pool of potential invaders in their native region. We focused on the niche breadth hypothesis , commonly evoked but seldom tested, which states that generalist species are more likely to become introduced as they are capable of thriving under a wide set of conditions. Based on the massive introduction of tropical species into the Mediterranean via the Suez Canal (Lessepsian migration), we defined ascidians in the Red Sea as the pool of potential invaders. We constructed unique settlement plates, each representing six different niches, to assess ascidian niche breadth, and deployed them in similar habitats in the native and invaded regions. For each species found on plates, we evaluated its abundance, relative abundance across successional stages, and niche breadth, and then compared (1) species in the Red Sea known to have been introduced into the Mediterranean (Lessepsian species) and those not known from the Mediterranean (non-Lessepsian); and (2) nonindigenous and indigenous species in the Mediterranean. Lessepsian species identified on plates in the Red Sea demonstrated wider niche breadth than non-Lessepsian species, supporting the niche breadth hypothesis within the native region. No differences were found between Lessepsian and non-Lessepsian species in species abundance and successional stages. In the Mediterranean, nonindigenous species numerically dominated the settlement plates. This precluded robust comparisons of niche breadth between nonindigenous and indigenous species in the invaded region. In conclusion, using Red Sea ascidians as the pool of potential invaders, we found clear evidence supporting the niche breadth hypothesis in the native region. We suggest that such patterns may often be obscured when conducting trait-based studies in the invaded regions alone. Our findings indicate that quantifying the niche breadth of species in their native regions will improve estimates of invasiveness potential.

Niche evolution and adaptive radiation: Testing the order of trait divergence

USGS Publications Warehouse

Ackerly, D.D.; Schwilk, D.W.; Webb, C.O.

2006-01-01

In the course of an adaptive radiation, the evolution of niche parameters is of particular interest for understanding modes of speciation and the consequences for coexistence of related species within communities. We pose a general question: In the course of an evolutionary radiation, do traits related to within-community niche differences (?? niche) evolve before or after differentiation of macrohabitat affinity or climatic tolerances (?? niche)? Here we introduce a new test to address this question, based on a modification of the method of independent contrasts. The divergence order test (DOT) is based on the average age of the nodes on a tree, weighted by the absolute magnitude of the contrast at each node for a particular trait. The comparison of these weighted averages reveals whether large divergences for one trait have occurred earlier or later in the course of diversification, relative to a second trait; significance is determined by bootstrapping from maximum-likelihood ancestral state reconstructions. The method is applied to the evolution of Ceanothus, a woody plant group in California, in which co-occurring species exhibit significant differences in a key leaf trait (specific leaf area) associated with contrasting physiological and life history strategies. Co-occurring species differ more for this trait than expected under a null model of community assembly. This ?? niche difference evolved early in the divergence of two major subclades within Ceanothus, whereas climatic distributions (?? niche traits) diversified later within each of the subclades. However, rapid evolution of climate parameters makes inferences of early divergence events highly uncertain, and differentiation of the ?? niche might have taken place throughout the evolution of the group, without leaving a clear phylogenetic signal. Similar patterns observed in several plant and animal groups suggest that early divergence of ?? niche traits might be a common feature of niche evolution in many adaptive radiations. ?? 2006 by the Ecological Society of America.

Runaway cultural niche construction

PubMed Central

Rendell, Luke; Fogarty, Laurel; Laland, Kevin N.

2011-01-01

Cultural niche construction is a uniquely potent source of selection on human populations, and a major cause of recent human evolution. Previous theoretical analyses have not, however, explored the local effects of cultural niche construction. Here, we use spatially explicit coevolutionary models to investigate how cultural processes could drive selection on human genes by modifying local resources. We show that cultural learning, expressed in local niche construction, can trigger a process with dynamics that resemble runaway sexual selection. Under a broad range of conditions, cultural niche-constructing practices generate selection for gene-based traits and hitchhike to fixation through the build up of statistical associations between practice and trait. This process can occur even when the cultural practice is costly, or is subject to counteracting transmission biases, or the genetic trait is selected against. Under some conditions a secondary hitchhiking occurs, through which genetic variants that enhance the capability for cultural learning are also favoured by similar dynamics. We suggest that runaway cultural niche construction could have played an important role in human evolution, helping to explain why humans are simultaneously the species with the largest relative brain size, the most potent capacity for niche construction and the greatest reliance on culture. PMID:21320897

Social niche specialization under constraints: personality, social interactions and environmental heterogeneity

PubMed Central

Montiglio, Pierre-Olivier; Ferrari, Caterina; Réale, Denis

2013-01-01

Several personality traits are mainly expressed in a social context, and others, which are not restricted to a social context, can be affected by the social interactions with conspecifics. In this paper, we focus on the recently proposed hypothesis that social niche specialization (i.e. individuals in a population occupy different social roles) can explain the maintenance of individual differences in personality. We first present ecological and social niche specialization hypotheses. In particular, we show how niche specialization can be quantified and highlight the link between personality differences and social niche specialization. We then review some ecological factors (e.g. competition and environmental heterogeneity) and the social mechanisms (e.g. frequency-dependent, state-dependent and social awareness) that may be associated with the evolution of social niche specialization and personality differences. Finally, we present a conceptual model and methods to quantify the contribution of ecological factors and social mechanisms to the dynamics between personality and social roles. In doing so, we suggest a series of research objectives to help empirical advances in this research area. Throughout this paper, we highlight empirical studies of social niche specialization in mammals, where available. PMID:23569291

Feeding ecology and niche overlap of Lake Ontario offshore forage fish assessed with stable isotopes

USGS Publications Warehouse

Mumby, James; Johson, Timothy; Stewart, Thomas; Halfyard, Edward; Walsh, Maureen; Weidel, Brian C.; Lantry, Jana; Fisk, Aarron

2017-01-01

The forage fish communities of the Laurentian Great Lakes continue to experience changes that have altered ecosystem structure, yet little is known about how they partition resources. Seasonal, spatial and body size variation in δ13C and δ15N was used to assess isotopic niche overlap and resource and habitat partitioning among the five common offshore Lake Ontario forage fish species (n = 2037) [Alewife (Alosa pseudoharengus), Rainbow Smelt (Osmerus mordax), Round Goby (Neogobius melanostomus), and Deepwater (Myoxocephalus thompsonii) and Slimy (Cottus cognatus) Sculpin]. Round Goby had the largest isotopic niche (6.1‰2, standard ellipse area (SEAC)), followed by Alewife (3.4‰2) while Rainbow Smelt, Slimy Sculpin and Deepwater Sculpin had the smallest and similar niche size (1.7-1.8‰2), with only the Sculpin species showing significant isotopic niche overlap (>63%). Stable isotopes in Alewife, Round Goby and Rainbow Smelt varied with location, season and size, but did not in the Sculpin spp. Lake Ontario forage fish species have partitioned food and habitat resources, and non-native Alewife and Round Goby have the largest isotopic niche, suggestive of a boarder ecological niche, and may contribute to their current high abundance.

3D modeling of cancer stem cell niche

PubMed Central

He, Jun; Xiong, Li; Li, Qinglong; Lin, Liangwu; Miao, Xiongying; Yan, Shichao; Hong, Zhangyong; Yang, Leping; Wen, Yu; Deng, Xiyun

2018-01-01

Cancer stem cells reside in a distinct microenvironment called niche. The reciprocal interactions between cancer stem cells and niche contribute to the maintenance and enrichment of cancer stem cells. In order to simulate the interactions between cancer stem cells and niche, three-dimensional models have been developed. These in vitro culture systems recapitulate the spatial dimension, cellular heterogeneity, and the molecular networks of the tumor microenvironment and show great promise in elucidating the pathophysiology of cancer stem cells and designing more clinically relavant treatment modalites. PMID:29416698

Insights from ecological niche modeling on the taxonomic distinction and niche differentiation between the black-spotted and red-spotted tokay geckoes (Gekko gecko).

PubMed

Zhang, Yueyun; Chen, Chongtao; Li, Li; Zhao, Chengjian; Chen, Weicai; Huang, Yong

2014-09-01

The black-spotted tokay and the red-spotted tokay are morphologically distinct and have largely allopatric distributions. The black-spotted tokay is characterized by a small body size and dark skin with sundry spots, while the red-spotted tokay has a relatively large body size and red spots. Based on morphological, karyotypic, genetic, and distribution differences, recent studies suggested their species status; however, their classifications remain controversial, and additional data such as ecological niches are necessary to establish firm hypotheses regarding their taxonomic status. We reconstructed their ecological niches models using climatic and geographic data. We then performed niche similarity tests (niche identity and background tests) and point-based analyses to explore whether ecological differentiation has occurred, and whether such differences are sufficient to explain the maintenance of their separate segments of environmental ranges. We found that both niche models of the black- and the red-spotted tokay had a good fit and a robust performance, as indicated by the high area under the curve (AUC) values ("black" = 0.982, SD = ± 0.002, "red" = 0.966 ± 0.02). Significant ecological differentiation across the entire geographic range was found, indicating that the involvement of ecological differentiation is important for species differentiation. Divergence along the environmental axes is highly associated with climatic conditions, with isothermality being important for the "black" form, while temperature seasonality, precipitation of warmest quarter, and annual temperature range together being important for the "red" form. These factors are likely important factors in niche differentiation between the two forms, which result in morphological replacement. Overall, beside morphological and genetic differentiation information, our results contribute to additional insights into taxonomic distinction and niche differentiation between the black- and the red-spotted tokay.

β3-Adrenergic Regulation of EPC Features Through Manipulation of the Bone Marrow MSC Niche.

PubMed

Vafaei, Rana; Nassiri, Seyed Mahdi; Siavashi, Vahid

2017-12-01

Mesenchymal stem cells (MSCs) reside in a specific niche in the bone marrow, however, biological features of this niche are still not fully understood. Given the interactions of MSCs with endothelial cells in different tissues, bone marrow MSC niche may influence the biological features of endothelial progenitor cells (EPCs). To understand the role of the sympathetic nervous system in regulation of the MSC niche, we examined whether the manipulation of the MSC niche via β3-adrenergic signals will affect EPC features. A selective β3 agonist (BRL37344) or a β3 antagonist (SR59230A) was administered in mice for 2 weeks to determine the potential effects of these regimens on the population of CD133 + stem cells in the bone marrow. Then, bone marrow-derived MSCs and EPCs were harvested and expanded from the mice to examine the effect of changes in the MSC niche on EPC features. Improved MSC colony forming potency with increased bone marrow stromal cell-derived factor 1 (SDF-1) (also known as C-X-C motif chemokine 12 [CXCL12]) expression was shown as a result of intensification of the bone marrow adrenergic signals through BRL37344 injection. On the other hand, the blockage of these signals limited the expression level of SDF-1 and resulted in bone marrow enrichment of CD133 + cells. Manipulation of the MSC niche and decreased SDF-1 expression via SR59230A injection also prompted EPCs to form more colonies with augmented proliferation and differentiation capacity. Overall, our results indicate that the β3-adrenergic signals regulate the MSC niche, thereby resulting in modulation of EPC biological features. J. Cell. Biochem. 118: 4753-4761, 2017. © 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.

Tumor-Like Stem Cells Derived from Human Keloid Are Governed by the Inflammatory Niche Driven by IL-17/IL-6 Axis

PubMed Central

Zhang, Qunzhou; Yamaza, Takayoshi; Kelly, A. Paul; Shi, Shihong; Wang, Songlin; Brown, Jimmy; Wang, Lina; French, Samuel W.; Shi, Songtao; Le, Anh D.

2009-01-01

Background Alterations in the stem cell niche are likely to contribute to tumorigenesis; however, the concept of niche promoted benign tumor growth remains to be explored. Here we use keloid, an exuberant fibroproliferative dermal growth unique to human skin, as a model to characterize benign tumor-like stem cells and delineate the role of their “pathological” niche in the development of the benign tumor. Methods and Findings Subclonal assay, flow cytometric and multipotent differentiation analyses demonstrate that keloid contains a new population of stem cells, named keloid derived precursor cells (KPCs), which exhibit clonogenicity, self-renewal, distinct embryonic and mesenchymal stem cell surface markers, and multipotent differentiation. KPCs display elevated telomerase activity and an inherently upregulated proliferation capability as compared to their peripheral normal skin counterparts. A robust elevation of IL-6 and IL-17 expression in keloid is confirmed by cytokine array, western blot and ELISA analyses. The altered biological functions are tightly regulated by the inflammatory niche mediated by an autocrine/paracrine cytokine IL-17/IL-6 axis. Utilizing KPCs transplanted subcutaneously in immunocompromised mice we generate for the first time a human keloid-like tumor model that is driven by the in vivo inflammatory niche and allows testing of the anti-tumor therapeutic effect of antibodies targeting distinct niche components, specifically IL-6 and IL-17. Conclusions/Significance These findings support our hypothesis that the altered niche in keloids, predominantly inflammatory, contributes to the acquirement of a benign tumor-like stem cell phenotype of KPCs characterized by the uncontrolled self-renewal and increased proliferation, supporting the rationale for in vivo modification of the “pathological” stem cell niche as a novel therapy for keloid and other mesenchymal benign tumors. PMID:19907660

When does it pay to invest in a patch? The evolution of intentional niche construction.

PubMed

Mohlenhoff, Kathryn A; Codding, Brian F

2017-09-01

Humans modify their environments in ways that significantly transform the earth's ecosystems. Recent research suggests that such niche-constructing behaviors are not passive human responses to environmental variation, but instead should be seen as active and intentional management of the environment. Although such research is useful in highlighting the interactive dynamics between humans and their natural world, the niche-construction framework, as currently applied, fails to explain why people would decide to modify their environments in the first place. To help resolve this problem, we use a model of technological intensification to analyze the cost-benefit trade-offs associated with niche construction as a form of patch investment. We use this model to assess the costs and benefits of three paradigmatic cases of intentional niche construction in Western North America: the application of fire in acorn groves, the manufacture of fishing weirs, and the adoption of maize agriculture. Intensification models predict that investing in patch modification (niche construction) only provides a net benefit when the amount of resources needed crosses a critical threshold that makes the initial investment worthwhile. From this, it follows that low-cost investments, such as burning in oak groves, should be quite common, while more costly investments, such as maize agriculture, should be less common and depend on the alternatives available in the local environment. We examine how patterns of mobility, risk management, territoriality, and private property also co-evolve with the costs and benefits of niche construction. This approach illustrates that explaining niche-constructing behavior requires understanding the economic trade-offs involved in patch investment. Integrating concepts from niche construction and technological intensification models within a behavioral ecological framework provides insights into the coevolution and active feedback between adaptive behaviors and environmental change across human history. © 2017 Wiley Periodicals, Inc.

Comparison of Hematopoietic and Spermatogonial Stem Cell Niches from the Regenerative Medicine Aspect.

PubMed

Köse, Sevil; Yersal, Nilgün; Önen, Selin; Korkusuz, Petek

2018-06-08

Recent advances require a dual evaluation of germ and somatic stem cell niches with a regenerative medicine perspective. For a better point of view of the niche concept, it is needed to compare the microenvironments of those niches in respect to several components. The cellular environment of spermatogonial stem cells' niche consists of Sertoli cells, Leydig cells, vascular endothelial cells, epididymal fat cells, peritubular myoid cells while hematopoietic stem cells have mesenchymal stem cells, osteoblasts, osteoclasts, megacaryocytes, macrophages, vascular endothelial cells, pericytes and adipocytes in their microenvironment. Not only those cells', but also the effect of the other factors such as hormones, growth factors, chemokines, cytokines, extracellular matrix components, biomechanical forces (like shear stress, tension or compression) and physical environmental elements such as temperature, oxygen level and pH will be clarified during the chapter. Because it is known that the microenvironment has an important role in the stem cell homeostasis and disease conditions, it is crucial to understand the details of the microenvironment and to be able to compare the niche concepts of the different types of stem cells from each other, for the regenerative interventions. Indeed, the purpose of this chapter is to point out the usage of niche engineering within the further studies in the regenerative medicine field. Decellularized, synthetic or non-synthetic scaffolds may help to mimic the stem cell niche. However, the shared or different characteristics of germ and somatic stem cell microenvironments are necessary to constitute a proper niche model. When considered from this aspect, it is possible to produce some strategies on the personalized medicine by using those artificial models of stem cell microenvironment.

Pollination niche overlap between a parasitic plant and its host.

PubMed

Ollerton, Jeff; Stott, Adrian; Allnutt, Emma; Shove, Sam; Taylor, Chloe; Lamborn, Ellen

2007-03-01

Niche theory predicts that species which share resources should evolve strategies to minimise competition for those resources, or the less competitive species would be extirpated. Some plant species are constrained to co-occur, for example parasitic plants and their hosts, and may overlap in their pollination niche if they flower at the same time and attract the same pollinators. Using field observations and experiments between 1996 and 2006, we tested a series of hypotheses regarding pollination niche overlap between a specialist parasitic plant Orobanche elatior (Orobanchaceae) and its host Centaurea scabiosa (Asteraceae). These species flower more or less at the same time, with some year-to-year variation. The host is pollinated by a diverse range of insects, which vary in their effectiveness, whilst the parasite is pollinated by a single species of bumblebee, Bombus pascuorum, which is also an effective pollinator of the host plant. The two species therefore have partially overlapping pollination niches. These niches are not finely subdivided by differential pollen placement, or by diurnal segregation of the niches. We therefore found no evidence of character displacement within the pollination niches of these species, possibly because pollinators are not a limiting resource for these plants. Direct observation of pollinator movements, coupled with experimental manipulations of host plant inflorescence density, showed that Bombus pascuorum only rarely moves between inflorescences of the host and the parasite and therefore the presence of one plant is unlikely to be facilitating pollination in the other. This is the first detailed examination of pollination niche overlap in a plant parasite system and we suggest avenues for future research in relation to pollination and other shared interactions between parasitic plants and their hosts.

Osteoclasts control reactivation of dormant myeloma cells by remodelling the endosteal niche

PubMed Central

Lawson, Michelle A.; McDonald, Michelle M.; Kovacic, Natasa; Hua Khoo, Weng; Terry, Rachael L.; Down, Jenny; Kaplan, Warren; Paton-Hough, Julia; Fellows, Clair; Pettitt, Jessica A.; Neil Dear, T.; Van Valckenborgh, Els; Baldock, Paul A.; Rogers, Michael J.; Eaton, Colby L.; Vanderkerken, Karin; Pettit, Allison R.; Quinn, Julian M. W.; Zannettino, Andrew C. W.; Phan, Tri Giang; Croucher, Peter I.

2015-01-01

Multiple myeloma is largely incurable, despite development of therapies that target myeloma cell-intrinsic pathways. Disease relapse is thought to originate from dormant myeloma cells, localized in specialized niches, which resist therapy and repopulate the tumour. However, little is known about the niche, and how it exerts cell-extrinsic control over myeloma cell dormancy and reactivation. In this study, we track individual myeloma cells by intravital imaging as they colonize the endosteal niche, enter a dormant state and subsequently become activated to form colonies. We demonstrate that dormancy is a reversible state that is switched ‘on' by engagement with bone-lining cells or osteoblasts, and switched ‘off' by osteoclasts remodelling the endosteal niche. Dormant myeloma cells are resistant to chemotherapy that targets dividing cells. The demonstration that the endosteal niche is pivotal in controlling myeloma cell dormancy highlights the potential for targeting cell-extrinsic mechanisms to overcome cell-intrinsic drug resistance and prevent disease relapse. PMID:26632274

Nanotubes mediate niche-stem cell signaling in the Drosophila testis

PubMed Central

Inaba, Mayu; Buszczak, Michael; Yamashita, Yukiko M.

2015-01-01

Stem cell niches provide resident stem cells with signals that specify their identity. Niche signals act over a short-range such that only stem cells but not their differentiating progeny receive the self-renewing signals1. However, the cellular mechanisms that limit niche signaling to stem cells remain poorly understood. Here we show that the Drosophila male germline stem cells (GSCs) form previously unrecognized structures, microtubule-based (MT)-nanotubes, which extend into the hub, a major niche component. MT-nanotubes are observed specifically within GSC populations, and require IFT (intraflagellar transport) proteins for their formation. The BMP receptor Tkv localizes to MT-nanotubes. Perturbation of MT-nanotubes compromises activation of Dpp signaling within GSCs, leading to GSC loss. Moreover, Dpp ligand and Tkv receptor interaction is necessary and sufficient for MT-nanotube formation. We propose that MT-nanotubes provide a novel mechanism for selective receptor-ligand interaction, contributing to the short-range nature of niche-stem cell signaling. PMID:26131929

Niche construction, sources of selection and trait coevolution.

PubMed

Laland, Kevin; Odling-Smee, John; Endler, John

2017-10-06

Organisms modify and choose components of their local environments. This 'niche construction' can alter ecological processes, modify natural selection and contribute to inheritance through ecological legacies. Here, we propose that niche construction initiates and modifies the selection directly affecting the constructor, and on other species, in an orderly, directed and sustained manner. By dependably generating specific environmental states, niche construction co-directs adaptive evolution by imposing a consistent statistical bias on selection. We illustrate how niche construction can generate this evolutionary bias by comparing it with artificial selection. We suggest that it occupies the middle ground between artificial and natural selection. We show how the perspective leads to testable predictions related to: (i) reduced variance in measures of responses to natural selection in the wild; (ii) multiple trait coevolution, including the evolution of sequences of traits and patterns of parallel evolution; and (iii) a positive association between niche construction and biodiversity. More generally, we submit that evolutionary biology would benefit from greater attention to the diverse properties of all sources of selection.

Phylogenetic climatic niche conservatism and evolution of climatic suitability in Neotropical Angraecinae (Vandeae, Orchidaceae) and their closest African relatives

PubMed Central

Konowalik, Kamil

2017-01-01

In the present study we investigate the concept of phylogenetic niche conservatism (PNC) within the American species of angraecoid orchids (Campylocentrum and Dendrophylax) and their closest relatives in the Old World (Angraecum) using ecological niche modelling (ENM). The predicted niche occupancy profiles were matched with the outcomes of previous phylogenetic studies to reconstruct the evolution of climatic suitability within the orchid group studied and evaluate the role of niche differentiation in the speciation of Angraecinae. No correlation between preferred niches and taxonomic relationships within the orchid group studied was revealed. The climatic suitability of the majority of the species overlapped each other, either fully or partially. This pattern is also present in the species of other orchid genera. Our research confirms a significant level of PNC in Orchidaceae, even within taxa exhibiting a transatlantic disjunction. The analysis of the evolution of climatic suitability indicated that the adaptation to various climatic conditions is not a factor that has driven speciation within orchids studied. PMID:28533976

Phylogenetic climatic niche conservatism and evolution of climatic suitability in Neotropical Angraecinae (Vandeae, Orchidaceae) and their closest African relatives.

PubMed

Kolanowska, Marta; Grochocka, Elżbieta; Konowalik, Kamil

2017-01-01

In the present study we investigate the concept of phylogenetic niche conservatism (PNC) within the American species of angraecoid orchids ( Campylocentrum and Dendrophylax ) and their closest relatives in the Old World ( Angraecum ) using ecological niche modelling (ENM). The predicted niche occupancy profiles were matched with the outcomes of previous phylogenetic studies to reconstruct the evolution of climatic suitability within the orchid group studied and evaluate the role of niche differentiation in the speciation of Angraecinae. No correlation between preferred niches and taxonomic relationships within the orchid group studied was revealed. The climatic suitability of the majority of the species overlapped each other, either fully or partially. This pattern is also present in the species of other orchid genera. Our research confirms a significant level of PNC in Orchidaceae, even within taxa exhibiting a transatlantic disjunction. The analysis of the evolution of climatic suitability indicated that the adaptation to various climatic conditions is not a factor that has driven speciation within orchids studied.

Rates of change in climatic niches in plant and animal populations are much slower than projected climate change

PubMed Central

Jezkova, Tereza

2016-01-01

Climate change may soon threaten much of global biodiversity. A critical question is: can species undergo niche shifts of sufficient speed and magnitude to persist within their current geographic ranges? Here, we analyse niche shifts among populations within 56 plant and animal species using time-calibrated trees from phylogeographic studies. Across 266 phylogeographic groups analysed, rates of niche change were much slower than rates of projected climate change (mean difference > 200 000-fold for temperature variables). Furthermore, the absolute niche divergence among populations was typically lower than the magnitude of projected climate change over the next approximately 55 years for relevant variables, suggesting the amount of change needed to persist may often be too great, even if these niche shifts were instantaneous. Rates were broadly similar between plants and animals, but especially rapid in some arthropods, birds and mammals. Rates for temperature variables were lower at lower latitudes, further suggesting that tropical species may be especially vulnerable to climate change. PMID:27881748

Rates of change in climatic niches in plant and animal populations are much slower than projected climate change.

PubMed

Jezkova, Tereza; Wiens, John J

2016-11-30

Climate change may soon threaten much of global biodiversity. A critical question is: can species undergo niche shifts of sufficient speed and magnitude to persist within their current geographic ranges? Here, we analyse niche shifts among populations within 56 plant and animal species using time-calibrated trees from phylogeographic studies. Across 266 phylogeographic groups analysed, rates of niche change were much slower than rates of projected climate change (mean difference > 200 000-fold for temperature variables). Furthermore, the absolute niche divergence among populations was typically lower than the magnitude of projected climate change over the next approximately 55 years for relevant variables, suggesting the amount of change needed to persist may often be too great, even if these niche shifts were instantaneous. Rates were broadly similar between plants and animals, but especially rapid in some arthropods, birds and mammals. Rates for temperature variables were lower at lower latitudes, further suggesting that tropical species may be especially vulnerable to climate change. © 2016 The Author(s).

Limiting similarity and niche theory for structured populations.

PubMed

Szilágyi, András; Meszéna, Géza

2009-05-07

We develop the theory of limiting similarity and niche for structured populations with finite number of individual states (i-state). In line with a previously published theory for unstructured populations, the niche of a species is specified by the impact and sensitivity niche vectors. They describe the population's impact on and sensitivity towards the variables involved in the population regulation. Robust coexistence requires sufficient segregation of the impact, as well as of the sensitivity niche vectors. Connection between the population-level impact and sensitivity and the impact/sensitivity of the specific i-states is developed. Each i-state contributes to the impact of the population proportional to its frequency in the population. Sensitivity of the population is composed of the sensitivity of the rates of demographic transitions, weighted by the frequency and by the reproductive value of the initial and final i-states of the transition, respectively. Coexistence in a multi-patch environment is studied. This analysis is interpreted as spatial niche segregation.

Conclusions about Niche Expansion in Introduced Impatiens walleriana Populations Depend on Method of Analysis

PubMed Central

Mandle, Lisa; Warren, Dan L.; Hoffmann, Matthias H.; Peterson, A. Townsend; Schmitt, Johanna; von Wettberg, Eric J.

2010-01-01

Determining the degree to which climate niches are conserved across plant species' native and introduced ranges is valuable to developing successful strategies to limit the introduction and spread of invasive plants, and also has important ecological and evolutionary implications. Here, we test whether climate niches differ between native and introduced populations of Impatiens walleriana, globally one of the most popular horticultural species. We use approaches based on both raw climate data associated with occurrence points and ecological niche models (ENMs) developed with Maxent. We include comparisons of climate niche breadth in both geographic and environmental spaces, taking into account differences in available habitats between the distributional areas. We find significant differences in climate envelopes between native and introduced populations when comparing raw climate variables, with introduced populations appearing to expand into wetter and cooler climates. However, analyses controlling for differences in available habitat in each region do not indicate expansion of climate niches. We therefore cannot reject the hypothesis that observed differences in climate envelopes reflect only the limited environments available within the species' native range in East Africa. Our results suggest that models built from only native range occurrence data will not provide an accurate prediction of the potential for invasiveness if applied to areas containing a greater range of environmental combinations, and that tests of niche expansion may overestimate shifts in climate niches if they do not control carefully for environmental differences between distributional areas. PMID:21206912

Cryptococcus neoformans mates on pigeon guano: implications for the realized ecological niche and globalization.

PubMed

Nielsen, Kirsten; De Obaldia, Anna L; Heitman, Joseph

2007-06-01

The ecological niche that a species can occupy is determined by its resource requirements and the physical conditions necessary for survival. The niche to which an organism is most highly adapted is the realized niche, whereas the complete range of habitats that an organism can occupy represents the fundamental niche. The growth and development of Cryptococcus neoformans and Cryptococcus gattii on pigeon guano were examined to determine whether these two species occupy the same or different ecological niches. C. neoformans is a cosmopolitan pathogenic yeast that infects predominantly immunocompromised individuals, exists in two varieties (grubii [serotype A] and neoformans [serotype D]), and is commonly isolated from pigeon guano worldwide. By contrast, C. gattii often infects immunocompetent individuals and is associated with geographically restricted environments, most notably, eucalyptus trees. Pigeon guano supported the growth of both species, and a brown pigment related to melanin, a key virulence factor, was produced. C. neoformans exhibited prolific mating on pigeon guano, whereas C. gattii did not. The observations that C. neoformans completes the life cycle on pigeon guano but that C. gattii does not indicates that pigeon guano could represent the realized ecological niche for C. neoformans. Because C. gattii grows on pigeon guano but cannot sexually reproduce, pigeon guano represents a fundamental but not a realized niche for C. gattii. Based on these studies, we hypothesize that an ancestral Cryptococcus strain gained the ability to sexually reproduce in pigeon guano and then swept the globe.

Cryptococcus neoformans Mates on Pigeon Guano: Implications for the Realized Ecological Niche and Globalization▿

PubMed Central

Nielsen, Kirsten; De Obaldia, Anna L.; Heitman, Joseph

2007-01-01

The ecological niche that a species can occupy is determined by its resource requirements and the physical conditions necessary for survival. The niche to which an organism is most highly adapted is the realized niche, whereas the complete range of habitats that an organism can occupy represents the fundamental niche. The growth and development of Cryptococcus neoformans and Cryptococcus gattii on pigeon guano were examined to determine whether these two species occupy the same or different ecological niches. C. neoformans is a cosmopolitan pathogenic yeast that infects predominantly immunocompromised individuals, exists in two varieties (grubii [serotype A] and neoformans [serotype D]), and is commonly isolated from pigeon guano worldwide. By contrast, C. gattii often infects immunocompetent individuals and is associated with geographically restricted environments, most notably, eucalyptus trees. Pigeon guano supported the growth of both species, and a brown pigment related to melanin, a key virulence factor, was produced. C. neoformans exhibited prolific mating on pigeon guano, whereas C. gattii did not. The observations that C. neoformans completes the life cycle on pigeon guano but that C. gattii does not indicates that pigeon guano could represent the realized ecological niche for C. neoformans. Because C. gattii grows on pigeon guano but cannot sexually reproduce, pigeon guano represents a fundamental but not a realized niche for C. gattii. Based on these studies, we hypothesize that an ancestral Cryptococcus strain gained the ability to sexually reproduce in pigeon guano and then swept the globe. PMID:17449657

Niche displacement of human leukemic stem cells uniquely allows their competitive replacement with healthy HSPCs

PubMed Central

Boyd, Allison L.; Campbell, Clinton J.V.; Hopkins, Claudia I.; Fiebig-Comyn, Aline; Russell, Jennifer; Ulemek, Jelena; Foley, Ronan; Leber, Brian; Xenocostas, Anargyros; Collins, Tony J.

2014-01-01

Allogeneic hematopoietic stem cell (HSC) transplantation (HSCT) is currently the leading strategy to manage acute myeloid leukemia (AML). However, treatment-related morbidity limits the patient generalizability of HSCT use, and the survival of leukemic stem cells (LSCs) within protective areas of the bone marrow (BM) continues to lead to high relapse rates. Despite growing appreciation for the significance of the LSC microenvironment, it has remained unresolved whether LSCs preferentially situate within normal HSC niches or whether their niche requirements are more promiscuous. Here, we provide functional evidence that the spatial localization of phenotypically primitive human AML cells is restricted to niche elements shared with their normal counterparts, and that their intrinsic ability to initiate and retain occupancy of these niches can be rivaled by healthy hematopoietic stem and progenitor cells (HSPCs). When challenged in competitive BM repopulation assays, primary human leukemia-initiating cells (L-ICs) can be consistently outperformed by HSPCs for BM niche occupancy in a cell dose-dependent manner that ultimately compromises long-term L-IC renewal and subsequent leukemia-initiating capacity. The effectiveness of this approach could be demonstrated using cytokine-induced mobilization of established leukemia from the BM that facilitated the replacement of BM niches with transplanted HSPCs. These findings identify a functional vulnerability of primitive leukemia cells, and suggest that clinical development of these novel transplantation techniques should focus on the dissociation of L-IC–niche interactions to improve competitive replacement with healthy HSPCs during HSCT toward increased survival of patients. PMID:25180064

High intraspecific variability in the functional niche of a predator is associated with ontogenetic shift and individual specialization

PubMed Central

Zhao, Tian; Villéger, Sébastien; Lek, Sovan; Cucherousset, Julien

2014-01-01

Investigations on the functional niche of organisms have primarily focused on differences among species and tended to neglect the potential effects of intraspecific variability despite the fact that its potential ecological and evolutionary importance is now widely recognized. In this study, we measured the distribution of functional traits in an entire population of largemouth bass (Micropterus salmoides) to quantify the magnitude of intraspecific variability in functional traits and niche (size, position, and overlap) between age classes. Stable isotope analyses (δ13C and δ15N) were also used to determine the association between individual trophic ecology and intraspecific functional trait variability. We observed that functional traits were highly variable within the population (mean coefficient variation: 15.62% ± 1.78% SE) and predominantly different between age classes. In addition, functional and trophic niche overlap between age classes was extremely low. Differences in functional niche between age classes were associated with strong changes in trophic niche occurring during ontogeny while, within age classes, differences among individuals were likely driven by trophic specialization. Each age class filled only a small portion of the total functional niche of the population and age classes occupied distinct portions in the functional space, indicating the existence of ontogenetic specialists with different functional roles within the population. The high amplitude of intraspecific variability in functional traits and differences in functional niche position among individuals reported here supports the recent claims for an individual-based approach in functional ecology. PMID:25558359

28. VIEW OF THE SOLDERING NICHE FORMED WITH BRICKS. THE ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

28. VIEW OF THE SOLDERING NICHE FORMED WITH BRICKS. THE BACK OF THE NICHE IS CEMENT FINISHED. THE BOTTOM HAS A 1 INCH THICK ASBESTOS SHELF. THIS PHOTO WAS TAKEN AT THE 3RD FLOOR. - Pacific Telephone & Telegraph Company Building, 1519 Franklin Street, Oakland, Alameda County, CA

Target Article with Commentaries: Developmental Niche Construction

ERIC Educational Resources Information Center

Flynn, Emma G.; Laland, Kevin N.; Kendal, Rachel L.; Kendal, Jeremy R.

2013-01-01

Niche construction is the modification of components of the environment through an organism's activities. Humans modify their environments mainly through ontogenetic and cultural processes, and it is this reliance on learning, plasticity and culture that lends human niche construction a special potency. In this paper we aim to facilitate…

Aggression and Niche-Separation in Ants: A Suggestion for a Student Project

ERIC Educational Resources Information Center

Bates, Martin R.

1973-01-01

Based upon British studies, suggests how the coexistence of different ant species can occur, and discusses competition and niche-separation in relation to a study made in Norfolk. Recommends the elucidation of the mechanisms of niche-separation in ants as an ideal student project. (JR)

Herbivores and edaphic factors constrain the realized niche of a native plant

Treesearch

J.A. Lau; A McCall; K Davies; J McKay; J Wright

2008-01-01

Biotic interactions, such as competition and herbivory, can limit plant species ranges to a subset of edaphically suitable habitats, termed the realized niche. Here we explored the role that herbivores play in restricting the niche of serpentine ecotypes of the native California annual Collinsia sparsiflora...

Probabilistic and spatially variable niches inferred from demography

Treesearch

Jeffrey M. Diez; Itamar Giladi; Robert Warren; H. Ronald Pulliam

2014-01-01

Summary 1. Mismatches between species distributions and habitat suitability are predicted by niche theory and have important implications for forecasting how species may respond to environmental changes. Quantifying these mismatches is challenging, however, due to the high dimensionality of species niches and the large spatial and temporal variability in population...

Mapping the ecological dimensions and potential distributions of endangered relic shrubs in western Ordos biodiversity center

PubMed Central

Zhu, Geng-Ping; Li, Hui-Qi; Zhao, Li; Man, Liang; Liu, Qiang

2016-01-01

Potential distributions of endemic relic shrubs in western Ordos were poorly mapped, which hindered our implementation of proper conservation. Here we investigated the applicability of ecological niche modeling for endangered relic shrubs to detect areas of priority for biodiversity conservation and analyze differences in ecological niche spaces used by relic shrubs. We applied ordination and niche modeling techniques to assess main environmental drivers of five endemic relic shrubs in western Ordos, namely, Ammopiptanthus mongolicus, Amygdalus mongolica, Helianthemum songaricum, Potaninia mongolica, and Tetraena mongolica. We calculated niche overlap metrics in gridded environmental spaces and compared geographical projections of ecological niches to determine similarities and differences of niches occupied by relic shrubs. All studied taxa presented different responses to environmental factors, which resulted in a unique combination of niche conditions. Precipitation availability and soil quality characteristics play important roles in the distributions of most shrubs. Each relic shrub is constrained by a unique set of environmental conditions, the distribution of one species cannot be implied by the distribution of another, highlighting the inadequacy of one-fits-all type of conservation measure. Our stacked habitat suitability maps revealed regions around Yellow River, which are highly suitable for most species, thereby providing high conservation value. PMID:27199260

Mapping the ecological dimensions and potential distributions of endangered relic shrubs in western Ordos biodiversity center.

PubMed

Zhu, Geng-Ping; Li, Hui-Qi; Zhao, Li; Man, Liang; Liu, Qiang

2016-05-20

Potential distributions of endemic relic shrubs in western Ordos were poorly mapped, which hindered our implementation of proper conservation. Here we investigated the applicability of ecological niche modeling for endangered relic shrubs to detect areas of priority for biodiversity conservation and analyze differences in ecological niche spaces used by relic shrubs. We applied ordination and niche modeling techniques to assess main environmental drivers of five endemic relic shrubs in western Ordos, namely, Ammopiptanthus mongolicus, Amygdalus mongolica, Helianthemum songaricum, Potaninia mongolica, and Tetraena mongolica. We calculated niche overlap metrics in gridded environmental spaces and compared geographical projections of ecological niches to determine similarities and differences of niches occupied by relic shrubs. All studied taxa presented different responses to environmental factors, which resulted in a unique combination of niche conditions. Precipitation availability and soil quality characteristics play important roles in the distributions of most shrubs. Each relic shrub is constrained by a unique set of environmental conditions, the distribution of one species cannot be implied by the distribution of another, highlighting the inadequacy of one-fits-all type of conservation measure. Our stacked habitat suitability maps revealed regions around Yellow River, which are highly suitable for most species, thereby providing high conservation value.

Stereotypical architecture of the stem cell niche is spatiotemporally established by miR-125-dependent coordination of Notch and steroid signaling.

PubMed

Yatsenko, Andriy S; Shcherbata, Halyna R

2018-02-08

Stem cell niches act as signaling platforms that regulate stem cell self-renewal and sustain stem cells throughout life; however, the specific developmental events controlling their assembly are not well understood. Here, we show that during Drosophila ovarian germline stem cell niche formation, the status of Notch signaling in the cell can be reprogrammed. This is controlled via steroid-induced miR-125 , which targets a negative regulator of Notch signaling, Tom. Thus, miR-125 acts as a spatiotemporal coordinator between paracrine Notch and endocrine steroid signaling. Moreover, a dual security mechanism for Notch signaling activation exists to ensure the robustness of niche assembly. Particularly, stem cell niche cells can be specified either via lateral inhibition, in which a niche cell precursor acquires Notch signal-sending status randomly, or via peripheral induction, whereby Delta is produced by a specific cell. When one mechanism is perturbed due to mutations, developmental defects or environmental stress, the remaining mechanism ensures that the niche is formed, perhaps abnormally, but still functional. This guarantees that the germline stem cells will have their residence, thereby securing progressive oogenesis and, thus, organism reproduction. © 2018. Published by The Company of Biologists Ltd.

Competition drives trait evolution and character displacement between Mimulus species along an environmental gradient.

PubMed

Kooyers, Nicholas J; James, Brooke; Blackman, Benjamin K

2017-05-01

Closely related species may evolve to coexist stably in sympatry through niche differentiation driven by in situ competition, a process termed character displacement. Alternatively, past evolution in allopatry may have already sufficiently reduced niche overlap to permit establishment in sympatry, a process called ecological sorting. The relative importance of each process to niche differentiation is contentious even though they are not mutually exclusive and are both mediated via multivariate trait evolution. We explore how competition has impacted niche differentiation in two monkeyflowers, Mimulus alsinoides and M. guttatus, which often co-occur. Through field observations, common gardens, and competition experiments, we demonstrate that M. alsinoides is restricted to marginal habitats in sympatry and that the impacts of character displacement on niche differentiation are complex. Competition with M. guttatus alters selection gradients and has favored taller M. alsinoides with earlier seasonal flowering at low elevation and floral shape divergence at high elevation. However, no trait exhibits the pattern typically associated with character displacement, higher divergence between species in sympatry than allopatry. Thus, although character displacement was unlikely the process driving initial divergence along niche axes necessary for coexistence, we conclude that competition in sympatry has likely driven trait evolution along additional niche axes. © 2017 The Author(s). Evolution © 2017 The Society for the Study of Evolution.

Early-life sexual segregation: ontogeny of isotopic niche differentiation in the Antarctic fur seal

NASA Astrophysics Data System (ADS)

Kernaléguen, L.; Arnould, J. P. Y.; Guinet, C.; Cazelles, B.; Richard, P.; Cherel, Y.

2016-09-01

Investigating the ontogeny of niche differentiation enables to determine at which life-stages sexual segregation arises, providing insights into the main factors driving resource partitioning. We investigated the ontogeny of foraging ecology in Antarctic fur seals (Arctocephalus gazella), a highly dimorphic species with contrasting breeding strategies between sexes. Sequential δ13C and δ15N values of whiskers provided a longitudinal proxy of the foraging niche throughout the whole life of seals, from weaning, when size dimorphism is minimal to the age of 5. Females exhibited an early-life ontogenetic shift, from a total segregation during their first year at-sea, to a similar isotopic niche as breeding females as early as age 2. In contrast, males showed a progressive change in isotopic niche throughout their development such that 5-year-old males did not share the same niche as territorial bulls. Interestingly, males and females segregated straight after weaning with males appearing to feed in more southerly habitats than females. This spatial segregation was of similar amplitude as observed in breeding adults and was maintained throughout development. Such early-life niche differentiation is an unusual pattern and indicates size dimorphism and breeding constraints do not directly drive sexual segregation contrary to what has been assumed in otariid seals.

Color-Coded Imaging of Breast Cancer Metastatic Niche Formation in Nude Mice.

PubMed

Suetsugu, Atsushi; Momiyama, Masashi; Hiroshima, Yukihiko; Shimizu, Masahito; Saji, Shigetoyo; Moriwaki, Hisataka; Bouvet, Michael; Hoffman, Robert M

2015-12-01

We report here a color-coded imaging model in which metastatic niches in the lung and liver of breast cancer can be identified. The transgenic green fluorescent protein (GFP)-expressing nude mouse was used as the host. The GFP nude mouse expresses GFP in all organs. However, GFP expression is dim in the liver parenchymal cells. Mouse mammary tumor cells (MMT 060562) (MMT), expressing red fluorescent protein (RFP), were injected in the tail vein of GFP nude mice to produce experimental lung metastasis and in the spleen of GFP nude mice to establish a liver metastasis model. Niche formation in the lung and liver metastasis was observed using very high resolution imaging systems. In the lung, GFP host-mouse cells accumulated around as few as a single MMT-RFP cell. In addition, GFP host cells were observed to form circle-shaped niches in the lung even without RFP cancer cells, which was possibly a niche in which future metastasis could be formed. In the liver, as with the lung, GFP host cells could form circle-shaped niches. Liver and lung metastases were removed surgically and cultured in vitro. MMT-RFP cells and GFP host cells resembling cancer-associated fibroblasts (CAFs) were observed interacting, suggesting that CAFs could serve as a metastatic niche. © 2015 Wiley Periodicals, Inc.

Prediction of the niche effect for single flat panels with or without attached sound absorbing materials.

PubMed

Sgard, Franck; Atalla, Noureddine; Nélisse, Hugues

2015-01-01

The sound transmission loss (STL) of a test sample measured in sound transmission facilities is affected by the opening in which it is located. This is called the niche effect. This paper uses a modal approach to study the STL of a rectangular plate with or without an attached porous material located inside a box-shaped niche. The porous material is modeled as a limp equivalent fluid. The proposed model is validated by comparison with finite element/boundary element computations. Using a condensation of the pressure fields in the niche, the niche effect is interpreted in terms of a modification of the modal blocked pressure fields acting on the panel induced by the front cavity and by a modification of the radiation efficiency of the panel modes due to the presence of the back cavity. The modal approach is then used to investigate the impact of (1) the presence of a porous material attached to the panel on the niche effect and (2) the niche effect on the assessment of the porous material insertion loss. A simplified model for the porous material based on a transfer matrix approach is also proposed to predict the STL of the system and its validity is discussed.

Collision sensitive niche profile of the worst affected bird-groups at wind turbine structures in the Federal State of Brandenburg, Germany.

PubMed

Bose, Anushika; Dürr, Tobias; Klenke, Reinhard A; Henle, Klaus

2018-02-28

Biodiversity-related impacts at wind energy facilities have increasingly become a cause of conservation concern, central issue being the collision of birds. Utilizing spatial information of their carcass detections at wind turbines (WTs), we quantified the detections in relation to the metric distances of the respective turbines to different land-use types. We used ecological niche factor analysis (ENFA) to identify combinations of land-use distances with respect to the spatial allocation of WTs that led to higher proportions of collisions among the worst affected bird-groups: Buntings, Crows, Larks, Pigeons and Raptors. We also assessed their respective similarities to the collision phenomenon by checking for overlaps amongst their distance combinations. Crows and Larks showed the narrowest "collision sensitive niche"; a part of ecological niche under higher risk of collisions with turbines, followed by that of Buntings and Pigeons. Raptors had the broadest niche showing significant overlaps with the collision sensitive niches of the other groups. This can probably be attributed to their larger home range combined with their hunting affinities to open landscapes. Identification of collision sensitive niches could be a powerful tool for landscape planning; helping avoid regions with higher risks of collisions for turbine allocations and thus protecting sensitive bird populations.

Prediction of the wetting-induced collapse behaviour using the soil-water characteristic curve

NASA Astrophysics Data System (ADS)

Xie, Wan-Li; Li, Ping; Vanapalli, Sai K.; Wang, Jia-Ding

2018-01-01

Collapsible soils go through three distinct phases in response to matric suction decrease during wetting: pre-collapse phase, collapse phase and post-collapse phase. It is reasonable and conservative to consider a strain path that includes a pre-collapse phase in which constant volume is maintained and a collapse phase that extends to the final matric suction to be experienced by collapsible soils during wetting. Upon this assumption, a method is proposed for predicting the collapse behaviour due to wetting. To use the proposed method, two parameters, critical suction and collapse rate, are required. The former is the suction value below which significant collapse deformations take place in response to matric suction decease, and the later is the rate at which void ratio reduces with matric suction in the collapse phase. The value of critical suction can be estimated from the water-entry value taking account of both the microstructure characteristics and collapse mechanism of fine-grained collapsible soils; the wetting soil-water characteristic curve thus can be used as a tool. Five sets of data of wetting tests on both compacted and natural collapsible soils reported in the literature were used to validate the proposed method. The critical suction values were estimated from the water-entry value with parameter a that is suggested to vary between 0.10 and 0.25 for compacted soils and to be lower for natural collapsible soils. The results of a field permeation test in collapsible loess soils were also used to validate the proposed method. The relatively good agreement between the measured and estimated collapse deformations suggests that the proposed method can provide reasonable prediction of the collapse behaviour due to wetting.

The Effect of Subepithelial Connective Tissue Graft Placement on Esthetic Outcomes After Immediate Implant Placement: Systematic Review.

PubMed

Lee, Chun-Teh; Tao, Chih-Yun; Stoupel, Janet

2016-02-01

Immediate implantation, despite many advantages, carries a risk of gingival recession, papilla loss, collapse of ridge contour, and other esthetic complications. Soft tissue graft placement combined with immediate implantation may be used to reduce these concerns. This review aims to systematically analyze clinical esthetic outcomes of the immediate implant combined with soft tissue graft (IMITG). The PRISMA (Preferred Reporting Items for Systematic Reviews and Meta-Analyses) guidelines for systematic reviews were used. The electronic search was conducted using MEDLINE (PubMed), EMBASE, and Cochrane Central Register of Controlled Trials (CENTRAL) from January 1980 to October 2014. Quality assessments of selected articles were performed. Mid-buccal gingival level, interproximal gingival level, facial gingival thickness, gingival ridge dimension, and width of keratinized gingiva were the esthetic outcomes reviewed. Weighted mean difference of mid-buccal gingival level (WDBGL), papilla index score (WDPIS), and width of keratinized gingiva (WDKG) between initial and last measurements were calculated. Other esthetic outcomes were assessed by the descriptive analysis. Ten studies with a minimum of 6-month follow-up were included, and reported esthetic outcomes were analyzed. Mid-buccal gingival level (WDBGL, 0.07 mm; 95% confidence interval [CI] = -0.44 to 0.59; P = 0.12) and interproximal gingival level did not significantly change after IMITG (WDPIS in the mesial site, 0.31; 95% CI = -0.01 to 0.64; P = 0.06; and WDPIS in the distal site, 0.29; 95% CI = -0.06 to 0.65; P = 0.11). Width of keratinized gingiva significantly increased after IMITG (WDKG, 1.27 mm; 95% CI = -0.08 to 2.46; P = 0.04). Facial gingival thickness and gingival ridge dimension could be increased after IMITG. Because of the heterogeneity and limited number of selected studies, no conclusive statement could be made regarding the benefit of IMITG on esthetic outcomes. More randomized controlled trials are needed to provide definite clinical evidence.

On the Horn Effect of a Tyre/road Interface, Part i: Experiment and Computation

NASA Astrophysics Data System (ADS)

Graf, R. A. G.; Kuo, C.-Y.; Dowling, A. P.; Graham, W. R.

2002-09-01

Near the tyre/road contact area, the road surface and the tyre belt form a horn-like geometry, which provides a significant amplification mechanism for sound sources. Measurements have been carried out on a stationary tyre placed on a plane surface in an otherwise anechoic chamber. Following the reciprocal theorem a microphone was placed in the road surface near the contact patch and a white noise source was used in the far field. The amplification by the horn effect can then be determined as a function of frequency for an array of microphone positions relative to the contact patch and the centre of the tyre. These experimental measurements show that the horn effect is responsible for about 10-20dB increase in noise level. The amplification function shows a distinct interference pattern for higher frequencies and is independent of the longitudinal source position for low frequencies and source positions close to the contact patch. Numerical calculations using the indirect boundary element method have been carried out. These show excellent agreement with the measurements in the frequency regime of the BEM, i.e., up to 2500 Hz. The dependence of the horn effect on primary geometrical parameters such as the effect of the radius of curvature of the shoulders, the load and the width of the tyre has been investigated experimentally and numerically. The broad features of the horn effect are given by the cylindrical geometry of the tyre. The rounded edges of the tyre tend to increase the levels of the minima and shift them to higher frequencies, while slightly decreasing the levels of the maxima. Shape variations due to load can be accounted for by correcting the source distance to the edge of the formed contact patch. The amplification at low frequencies increases with width, the results collapsing onto a single curve as a function of the dimensionless width ω / λ.

The nutritional nexus: linking niche, habitat variability and prey composition in a generalist marine predator.

PubMed

Machovsky-Capuska, Gabriel E; Miller, Mark G R; Silva, Fabiola R O; Amiot, Christophe; Stockin, Karen A; Senior, Alistair M; Schuckard, Rob; Melville, David; Raubenheimer, David

2018-06-05

1.Our understanding of the niche concept will remain limited while the quantity and range of different food types eaten remains a dominant proxy for niche breadth, as this does not account for the broad ecological context that governs diet. Linking nutrition, physiology and behaviour are critical to predict the extent to which a species adjusts its nutritional niche breadth at the levels of prey ("prey composition niche", defined as the range of prey compositions eaten), and diet ("realized nutritional niche" is the range of diets composed through feeding on the prey). 2.Here we studied adult-chick rearing Australasian gannets (Morus serrator) to propose an integrative approach using sea surface temperature anomalies (SSTa), geographic location and bathymetry over different years, to explore their relationship with the nutritional composition of prey and diets (i.e., prey composition and nutritional niche breadth), habitat use and foraging behavior. 3.We found that gannets feed on prey that varied widely in their nutritional composition (have a broad prey composition niche), and composed diets from these prey that likewise varied in composition (have a broad realized nutritional niche), suggesting generalism at two levels of macronutrient selection. 4.Across seasons, we established "nutritional landscapes" (hereafter nutriscapes), linking the nutritional content of prey (wet mass protein to-lipid ratio -P:L-) to the most likely geographic area of capture and bathymetry. Nutriscapes varied in their P:L from 6.06 to 15.28, over time, space and bathymetry (0 to 150 m). 5.During warm water events (strong positive SSTa), gannets expanded their foraging habitat, increased their foraging trip duration and consumed prey and diets with low macronutrient content (wet mass proportions of P and L). They were also constrained to the smallest prey composition and realized nutritional niche breadths. 6.Our findings are consistent with previous suggestions that dietary generalism evolves in heterogeneous environments, and provide a framework for understanding the nutritional goals in wild marine predators and how these goals drive ecological interactions and are, in turn, ultimately shaped by environmental fluctuations. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

Analogue modelling of the influence of ice shelf collapse on the flow of ice sheets grounded below sea-level

NASA Astrophysics Data System (ADS)

Corti, Giacomo; Zeoli, Antonio

2016-04-01

The sudden breakup of ice shelves is expected to result in significant acceleration of inland glaciers, a process related to the removal of the buttressing effect exerted by the ice shelf on the tributary glaciers. This effect has been tested in previous analogue models, which however applied to ice sheets grounded above sea level (e.g., East Antarctic Ice Sheet; Antarctic Peninsula and the Larsen Ice Shelf). In this work we expand these previous results by performing small-scale laboratory models that analyse the influence of ice shelf collapse on the flow of ice streams draining an ice sheet grounded below sea level (e.g., the West Antarctic Ice Sheet). The analogue models, with dimensions (width, length, thickness) of 120x70x1.5cm were performed at the Tectonic Modelling Laboratory of CNR-IGG of Florence, Italy, by using Polydimethilsyloxane (PDMS) as analogue for the flowing ice. This transparent, Newtonian silicone has been shown to well approximate the rheology of natural ice. The silicone was allowed to flow into a water reservoir simulating natural conditions in which ice streams flow into the sea, terminating in extensive ice shelves which act as a buttress for their glaciers and slow their flow. The geometric scaling ratio was 10(-5), such that 1cm in the models simulated 1km in nature; velocity of PDMS (a few mm per hour) simulated natural velocities of 100-1000 m/year. Instability of glacier flow was induced by manually removing a basal silicone platform (floating on water) exerting backstresses to the flowing analogue glacier: the simple set-up adopted in the experiments isolates the effect of the removal of the buttressing effect that the floating platform exerts on the flowing glaciers, thus offering insights into the influence of this parameter on the flow perturbations resulting from a collapse event. The experimental results showed a significant increase in glacier velocity close to its outlet following ice shelf breakup, a process similar to what observed in previous models. This transient effect did not significantly propagate upstream towards the inner parts of ice sheet, and rapidly decayed with time. The process was also accompanied by significant ice thinning. Models results suggest that the ice sheet is almost unaffected by flow perturbations induced by ice shelf collapse, unless other processes (e.g., grounding line instability induced by warm water penetration) are involved.

Critical capillary channel flow

NASA Astrophysics Data System (ADS)

Grah, Aleksander; Klatte, Jörg; Dreyer, Michael E.

The main subject are numerical studies on capillary channel flow, based on results of the sounding rocket experiments TEXUS 41/42. The flow through a capillary channel is established by a gear pump at the outlet. The channel, consists of two parallel glass plates with a width of 25 mm, a gap of 10 mm and a length of 12 mm. The meniscus of a compensation tube maintains a constant system pressure. Steady and dynamic pressure effects in the system force the surfaces to bend inwards. A maximum flow rate is achieved when the free surface collapses and gas ingestion occurs at the outlet. This critical flow rate depends on the channel geometry, the flow regime and the liquid properties. The aim of the experiments is the determination of the free surface shape and to find the maximum flow rate. In order to study the unsteady liquid loop behaviour, a dimensionless transient model was developed. It is based on the unsteady Bernoulli equation, the unsteady continuity equation and geometrical conditions for the surface curvature and the flow cross-section. The pressure is related to the curvature of the free liquid surface by the dimensionless Gauss-Laplace equation with two principal radii. The experimental and evaluated contour data shows good agreement for a sequence of transient flow rate perturbations. The surface oscillation frequencies and amplitudes can be predicted with quite high accuracy. The dynamic of the pump is defined by the increase of the flow rate in a time period. To study the unsteady system behavior in the "worst case", we use a perturbations related to the natural frequency of the oscillating liquid. In the case of steady flow at maximum flow rate, when the "choking" effect occurs, the surfaces collapse and cause gas ingestion into the channel. This effect is related to the Speed Index. At the critical flow rate the Speed Index reaches the value Sca = 1, in analogy to the Mach Number. Unsteady choking does not necessarily cause surface collapse. We show, that temporarily Speed Index values exceeding One may be achieved for a perfectly stable supercritical dynamic flow. As a supercritical criterion for the dynamic free surface stability we define a Dynamic Index D considering the local capillary pressure and the convective pressure, which is a function of the local velocity. The Dynamic Index is below One for stable flow while D = 1 indicates surface collapse. This studies result in a stability diagram, which defines the limits of flow dynamics and the maximum unsteady flow rate. It may serve as a road map for open capillary channel flow control.

Map and description of the active part of the Slumgullion Landslide, Hinsdale County, Colorado

USGS Publications Warehouse

Fleming, R.W.; Baum, Rex L.; Giardino, Marco

1999-01-01

This text accompanies a map of many of the features on the active part of the Slumgullion landslide, Hinsdale County, Colo. Long-term movement creates and destroys a variety of structural features on the surface of the landslide including faults, fractures, and folds, as well as basins and ridges. The Slumgullion landslide consists of a large volume of inactive landslide deposits and a much smaller volume that is actively moving within the deposits of the older landslide. Previously, collapse of the south side of the scarp on Mesa Seco produced materials that blocked the Lake Fork of the Gunnison River and created Lake San Cristobal. The current landslide activity was triggered by a collapse, which apparently extended the preexisting headscarp toward the north. The loading induced by the deposition of the collapsed materials reactivated some of the older landslide deposits. Displacement rates in the active part of the landslide range from about 0.2 m/yr at the uppermost fractures to a maximum of 7.4 m/yr in the narrowest part of the landslide. From this maximum rate, displacement rate declines to 2 or less m/yr at the toe. The interplay between different displacement rates, varying width, and curving boundaries gives rise to the structures within the landslide. For purposes of description, the landslide has been divided into seven zones: head, zone of stretching, the hopper and neck, zone of pull-apart basins, pond deposits and emergent toe, zone of shortening and spreading, and active toe. Each zone has its characteristic kinematic expression that provides information on the internal deformation of the landslide. In general, the upper part of the landslide is characterized by features such as normal faults and tension cracks associated with stretching. The lowermost part of the landslide is characterized by thrust faults and other features associated with shortening. In between, features are a result of widening, bending, or narrowing of the landslide. Also, in places where the slope of the landslide is locally steeper than average, small landslides form on the surface of the larger landslide. On the basis of qualitative observations of changes in the morphology and displacement, we speculate that the landslide is unlikely to accelerate and is more likely to stop movement over a time scale of decades. This speculation is based on the observation that driving forces are gradually diminishing and resisting forces are increasing. Rejuvenation or reactivation probably requires collapse of a new block in the head of the landslide.

The hidden Niemann-Pick type C patient: clinical niches for a rare inherited metabolic disease.

PubMed

Hendriksz, Christian J; Anheim, Mathieu; Bauer, Peter; Bonnot, Olivier; Chakrapani, Anupam; Corvol, Jean-Christophe; de Koning, Tom J; Degtyareva, Anna; Dionisi-Vici, Carlo; Doss, Sarah; Duning, Thomas; Giunti, Paola; Iodice, Rosa; Johnston, Tracy; Kelly, Dierdre; Klünemann, Hans-Hermann; Lorenzl, Stefan; Padovani, Alessandro; Pocovi, Miguel; Synofzik, Matthis; Terblanche, Alta; Then Bergh, Florian; Topçu, Meral; Tranchant, Christine; Walterfang, Mark; Velten, Christian; Kolb, Stefan A

2017-05-01

Niemann-Pick disease type C (NP-C) is a rare, inherited neurodegenerative disease of impaired intracellular lipid trafficking. Clinical symptoms are highly heterogeneous, including neurological, visceral, or psychiatric manifestations. The incidence of NP-C is under-estimated due to under-recognition or misdiagnosis across a wide range of medical fields. New screening and diagnostic methods provide an opportunity to improve detection of unrecognized cases in clinical sub-populations associated with a higher risk of NP-C. Patients in these at-risk groups ("clinical niches") have symptoms that are potentially related to NP-C, but go unrecognized due to other, more prevalent clinical features, and lack of awareness regarding underlying metabolic causes. Twelve potential clinical niches identified by clinical experts were evaluated based on a comprehensive, non-systematic review of literature published to date. Relevant publications were identified by targeted literature searches of EMBASE and PubMed using key search terms specific to each niche. Articles published in English or other European languages up to 2016 were included. Several niches were found to be relevant based on available data: movement disorders (early-onset ataxia and dystonia), organic psychosis, early-onset cholestasis/(hepato)splenomegaly, cases with relevant antenatal findings or fetal abnormalities, and patients affected by family history, consanguinity, and endogamy. Potentially relevant niches requiring further supportive data included: early-onset cognitive decline, frontotemporal dementia, parkinsonism, and chronic inflammatory CNS disease. There was relatively weak evidence to suggest amyotrophic lateral sclerosis or progressive supranuclear gaze palsy as potential niches. Several clinical niches have been identified that harbor patients at increased risk of NP-C.

Protection from UV light is an evolutionarily conserved feature of the haematopoietic niche

USGS Publications Warehouse

Kapp, Friedrich G.; Perlin, Julie R.; Hagedorn, Elliott J.; Gansner, John M.; Schwarz, Daniel E.; O'Connell, Lauren A.; Johnson, Nicholas; Amemiya, Chris; Fisher, David E.; Wolfle, Ute; Trompouki, Eirini; Niemeyer, Charlotte M.; Driever, Wolfgang; Zon, Leonard I.

2018-01-01

Haematopoietic stem and progenitor cells (HSPCs) require a specific microenvironment, the haematopoietic niche, which regulates HSPC behaviour. The location of this niche varies across species, but the evolutionary pressures that drive HSPCs to different microenvironments remain unknown. The niche is located in the bone marrow in adult mammals, whereas it is found in other locations in non-mammalian vertebrates, for example, in the kidney marrow in teleost fish. Here we show that a melanocyte umbrella above the kidney marrow protects HSPCs against ultraviolet light in zebrafish. Because mutants that lack melanocytes have normal steady-state haematopoiesis under standard laboratory conditions, we hypothesized that melanocytes above the stem cell niche protect HSPCs against ultraviolet-light-induced DNA damage. Indeed, after ultraviolet-light irradiation, unpigmented larvae show higher levels of DNA damage in HSPCs, as indicated by staining of cyclobutane pyrimidine dimers and have reduced numbers of HSPCs, as shown by cmyb (also known as myb) expression. The umbrella of melanocytes associated with the haematopoietic niche is highly evolutionarily conserved in aquatic animals, including the sea lamprey, a basal vertebrate. During the transition from an aquatic to a terrestrial environment, HSPCs relocated into the bone marrow, which is protected from ultraviolet light by the cortical bone around the marrow. Our studies reveal that melanocytes above the haematopoietic niche protect HSPCs from ultraviolet-light-induced DNA damage in aquatic vertebrates and suggest that during the transition to terrestrial life, ultraviolet light was an evolutionary pressure affecting the location of the haematopoietic niche.

Multiple filters affect tree species assembly in mid-latitude forest communities.

PubMed

Kubota, Y; Kusumoto, B; Shiono, T; Ulrich, W

2018-05-01

Species assembly patterns of local communities are shaped by the balance between multiple abiotic/biotic filters and dispersal that both select individuals from species pools at the regional scale. Knowledge regarding functional assembly can provide insight into the relative importance of the deterministic and stochastic processes that shape species assembly. We evaluated the hierarchical roles of the α niche and β niches by analyzing the influence of environmental filtering relative to functional traits on geographical patterns of tree species assembly in mid-latitude forests. Using forest plot datasets, we examined the α niche traits (leaf and wood traits) and β niche properties (cold/drought tolerance) of tree species, and tested non-randomness (clustering/over-dispersion) of trait assembly based on null models that assumed two types of species pools related to biogeographical regions. For most plots, species assembly patterns fell within the range of random expectation. However, particularly for cold/drought tolerance-related β niche properties, deviation from randomness was frequently found; non-random clustering was predominant in higher latitudes with harsh climates. Our findings demonstrate that both randomness and non-randomness in trait assembly emerged as a result of the α and β niches, although we suggest the potential role of dispersal processes and/or species equalization through trait similarities in generating the prevalence of randomness. Clustering of β niche traits along latitudinal climatic gradients provides clear evidence of species sorting by filtering particular traits. Our results reveal that multiple filters through functional niches and stochastic processes jointly shape geographical patterns of species assembly across mid-latitude forests.

Protection from UV light is an evolutionarily conserved feature of the haematopoietic niche.

PubMed

Kapp, Friedrich G; Perlin, Julie R; Hagedorn, Elliott J; Gansner, John M; Schwarz, Daniel E; O'Connell, Lauren A; Johnson, Nicholas S; Amemiya, Chris; Fisher, David E; Wölfle, Ute; Trompouki, Eirini; Niemeyer, Charlotte M; Driever, Wolfgang; Zon, Leonard I

2018-06-01

Haematopoietic stem and progenitor cells (HSPCs) require a specific microenvironment, the haematopoietic niche, which regulates HSPC behaviour 1,2 . The location of this niche varies across species, but the evolutionary pressures that drive HSPCs to different microenvironments remain unknown. The niche is located in the bone marrow in adult mammals, whereas it is found in other locations in non-mammalian vertebrates, for example, in the kidney marrow in teleost fish. Here we show that a melanocyte umbrella above the kidney marrow protects HSPCs against ultraviolet light in zebrafish. Because mutants that lack melanocytes have normal steady-state haematopoiesis under standard laboratory conditions, we hypothesized that melanocytes above the stem cell niche protect HSPCs against ultraviolet-light-induced DNA damage. Indeed, after ultraviolet-light irradiation, unpigmented larvae show higher levels of DNA damage in HSPCs, as indicated by staining of cyclobutane pyrimidine dimers and have reduced numbers of HSPCs, as shown by cmyb (also known as myb) expression. The umbrella of melanocytes associated with the haematopoietic niche is highly evolutionarily conserved in aquatic animals, including the sea lamprey, a basal vertebrate. During the transition from an aquatic to a terrestrial environment, HSPCs relocated into the bone marrow, which is protected from ultraviolet light by the cortical bone around the marrow. Our studies reveal that melanocytes above the haematopoietic niche protect HSPCs from ultraviolet-light-induced DNA damage in aquatic vertebrates and suggest that during the transition to terrestrial life, ultraviolet light was an evolutionary pressure affecting the location of the haematopoietic niche.

Subsonic islands within a high-mass star-forming infrared dark cloud

NASA Astrophysics Data System (ADS)

Sokolov, Vlas; Wang, Ke; Pineda, Jaime E.; Caselli, Paola; Henshaw, Jonathan D.; Barnes, Ashley T.; Tan, Jonathan C.; Fontani, Francesco; Jiménez-Serra, Izaskun; Zhang, Qizhou

2018-03-01

High-mass star forming regions are typically thought to be dominated by supersonic motions. We present combined Very Large Array and Green Bank Telescope (VLA+GBT) observations of NH3 (1,1) and (2,2) in the infrared dark cloud (IRDC) G035.39-00.33, tracing cold and dense gas down to scales of 0.07 pc. We find that, in contrast to previous, similar studies of IRDCs, more than a third of the fitted ammonia spectra show subsonic non-thermal motions (mean line width of 0.71 km s-1), and sonic Mach number distribution peaks around ℳ = 1. As possible observational and instrumental biases would only broaden the line profiles, our results provide strong upper limits to the actual value of ℳ, further strengthening our findings of narrow line widths. This finding calls for a re-evaluation of the role of turbulent dissipation and subsonic regions in massive-star and cluster formation. Based on our findings in G035.39, we further speculate that the coarser spectral resolution used in the previous VLA NH3 studies may have inhibited the detection of subsonic turbulence in IRDCs. The reduced turbulent support suggests that dynamically important magnetic fields of the 1 mG order would be required to support against possible gravitational collapse. Our results offer valuable input into the theories and simulations that aim to recreate the initial conditions of high-mass star and cluster formation.

Biosecurity Management of Submarine Niche Areas: the Effect of Water Pressure on Biofouling Survival

DTIC Science & Technology

2014-01-01

UNCLASSIFIED UNCLASSIFIED Biosecurity Management of Submarine Niche Areas: the Effect of Water Pressure on Biofouling Survival Clare...operational impacts and biosecurity risks. Approved for public release RELEASE LIMITATION UNCLASSIFIED...UNCLASSIFIED UNCLASSIFIED Biosecurity Management of Submarine Niche Areas: the Effect of Water Pressure on Biofouling Survival Executive Summary

Activity-specific ecological niche models for planning reintroductions of California condors (Gymnogyps californianus)

Treesearch

Jesse D’Elia; Susan M. Haig; Matthew Johnson; Richard Young; Bruce G. Marcot

2015-01-01

Ecological niche models can be a useful tool to identify candidate reintroduction sites for endangered species but have been infrequently used for this purpose. In this paper, we (1) develop activity-specific ecological niche models (nesting, roosting, and feeding) for the critically endangered California condor (Gymnogyps californianus) to aid in...

Why the Shift? Taking a Closer Look at the Growing Interest in Niche Markets and Personalized Medicine.

PubMed

Gibson, Shannon; Raziee, Hamid R; Lemmens, Trudo

2015-03-01

Pharmaceutical research and development is increasingly focused on niche markets, most notably treatments for rare diseases and "personalized" medicine. Drawing on the results of a qualitative study of 34 key Canadian stakeholders (including drug regulators, funders, scientists, policy experts, pharmaceutical industry representatives, and patient advocates), we explore the major trends that are reportedly contributing to the growing interest of the pharmaceutical industry in niche markets. Informed by both these key informant interviews and a review of the relevant literature, our paper provides a critical analysis of the many different-and sometimes conflicting-views on the reasons for and extent of the shift toward niche markets. We consider some of the potential advantages to industry, as well the important implications and risks that arise from the increasing pursuit of niche markets and pharmacogenomics. While there are many potential benefits associated with targeted therapies and drug development for historically neglected rare diseases, niche market therapies also present evidentiary challenges (e.g., smaller clinical trials and enrichment strategies) that can make approval decisions difficult, and uncertainties remain around the true benefits of many therapies.

Corresponding Mitochondrial DNA and Niche Divergence for Crested Newt Candidate Species

PubMed Central

Wielstra, Ben; Beukema, Wouter; Arntzen, Jan W.; Skidmore, Andrew K.; Toxopeus, Albertus G.; Raes, Niels

2012-01-01

Genetic divergence of mitochondrial DNA does not necessarily correspond to reproductive isolation. However, if mitochondrial DNA lineages occupy separate segments of environmental space, this supports the notion of their evolutionary independence. We explore niche differentiation among three candidate species of crested newt (characterized by distinct mitochondrial DNA lineages) and interpret the results in the light of differences observed for recognized crested newt species. We quantify niche differences among all crested newt (candidate) species and test hypotheses regarding niche evolution, employing two ordination techniques (PCA-env and ENFA). Niche equivalency is rejected: all (candidate) species are found to occupy significantly different segments of environmental space. Furthermore, niche overlap values for the three candidate species are not significantly higher than those for the recognized species. As the three candidate crested newt species are, not only in terms of mitochondrial DNA genetic divergence, but also ecologically speaking, as diverged as the recognized crested newt species, our findings are in line with the hypothesis that they represent cryptic species. We address potential pitfalls of our methodology. PMID:23029564

Are neural crest stem cells the missing link between hematopoietic and neurogenic niches?

PubMed

Coste, Cécile; Neirinckx, Virginie; Gothot, André; Wislet, Sabine; Rogister, Bernard

2015-01-01

Hematopoietic niches are defined as cellular and molecular microenvironments that regulate hematopoietic stem cell (HSC) function together with stem cell autonomous mechanisms. Many different cell types have been characterized as contributors to the formation of HSC niches, such as osteoblasts, endothelial cells, Schwann cells, and mesenchymal progenitors. These mesenchymal progenitors have themselves been classified as CXC chemokine ligand (CXCL) 12-abundant reticular (CAR) cells, stem cell factor expressing cells, or nestin-positive mesenchymal stem cells (MSCs), which have been recently identified as neural crest-derived cells (NCSCs). Together, these cells are spatially associated with HSCs and believed to provide appropriate microenvironments for HSC self-renewal, differentiation, mobilization and hibernation both by cell-cell contact and soluble factors. Interestingly, it appears that regulatory pathways governing the hematopoietic niche homeostasis are operating in the neurogenic niche as well. Therefore, this review paper aims to compare both the regulation of hematopoietic and neurogenic niches, in order to highlight the role of NCSCs and nervous system components in the development and the regulation of the hematopoietic system.

The neural crest is a source of mesenchymal stem cells with specialized hematopoietic stem cell niche function

PubMed Central

Isern, Joan; García-García, Andrés; Martín, Ana M; Arranz, Lorena; Martín-Pérez, Daniel; Torroja, Carlos; Sánchez-Cabo, Fátima; Méndez-Ferrer, Simón

2014-01-01

Mesenchymal stem cells (MSCs) and osteolineage cells contribute to the hematopoietic stem cell (HSC) niche in the bone marrow of long bones. However, their developmental relationships remain unclear. In this study, we demonstrate that different MSC populations in the developing marrow of long bones have distinct functions. Proliferative mesoderm-derived nestin− MSCs participate in fetal skeletogenesis and lose MSC activity soon after birth. In contrast, quiescent neural crest-derived nestin+ cells preserve MSC activity, but do not generate fetal chondrocytes. Instead, they differentiate into HSC niche-forming MSCs, helping to establish the HSC niche by secreting Cxcl12. Perineural migration of these cells to the bone marrow requires the ErbB3 receptor. The neonatal Nestin-GFP+ Pdgfrα− cell population also contains Schwann cell precursors, but does not comprise mature Schwann cells. Thus, in the developing bone marrow HSC niche-forming MSCs share a common origin with sympathetic peripheral neurons and glial cells, and ontogenically distinct MSCs have non-overlapping functions in endochondrogenesis and HSC niche formation. DOI: http://dx.doi.org/10.7554/eLife.03696.001 PMID:25255216

Ecological, morphological and genetic divergence of sympatric North Atlantic killer whale populations.

PubMed

Foote, Andrew D; Newton, Jason; Piertney, Stuart B; Willerslev, Eske; Gilbert, M Thomas P

2009-12-01

Ecological divergence has a central role in speciation and is therefore an important source of biodiversity. Studying the micro-evolutionary processes of ecological diversification at its early stages provides an opportunity for investigating the causative mechanisms and ecological conditions promoting divergence. Here we use morphological traits, nitrogen stable isotope ratios and tooth wear to characterize two disparate types of North Atlantic killer whale. We find a highly specialist type, which reaches up to 8.5 m in length and a generalist type which reaches up to 6.6 m in length. There is a single fixed genetic difference in the mtDNA control region between these types, indicating integrity of groupings and a shallow divergence. Phylogenetic analysis indicates this divergence is independent of similar ecological divergences in the Pacific and Antarctic. Niche-width in the generalist type is more strongly influenced by between-individual variation rather than within-individual variation in the composition of the diet. This first step to divergent specialization on different ecological resources provides a rare example of the ecological conditions at the early stages of adaptive radiation.

Evolutionary responses to climate change in parasitic systems.

PubMed

Chaianunporn, Thotsapol; Hovestadt, Thomas

2015-08-01

Species may respond to climate change in many ecological and evolutionary ways. In this simulation study, we focus on the concurrent evolution of three traits in response to climate change, namely dispersal probability, temperature tolerance (or niche width), and temperature preference (optimal habitat). More specifically, we consider evolutionary responses in host species involved in different types of interaction, that is parasitism or commensalism, and for low or high costs of a temperature tolerance-fertility trade-off (cost of generalization). We find that host species potentially evolve all three traits simultaneously in response to increasing temperature but that the evolutionary response interacts and may be compensatory depending on the conditions. The evolutionary adjustment of temperature preference is slower in the parasitism than in commensalism scenario. Parasitism, in turn, selects for higher temperature tolerance and increased dispersal. High costs for temperature tolerance (i.e. generalization) restrict evolution of tolerance and thus lead to a faster response in temperature preference than that observed under low costs. These results emphasize the possible role of biotic interactions and the importance of 'multidimensional' evolutionary responses to climate change. © 2015 John Wiley & Sons Ltd.

Human niche construction in interdisciplinary focus

PubMed Central

Kendal, Jeremy; Tehrani, Jamshid J.; Odling-Smee, John

2011-01-01

Niche construction is an endogenous causal process in evolution, reciprocal to the causal process of natural selection. It works by adding ecological inheritance, comprising the inheritance of natural selection pressures previously modified by niche construction, to genetic inheritance in evolution. Human niche construction modifies selection pressures in environments in ways that affect both human evolution, and the evolution of other species. Human ecological inheritance is exceptionally potent because it includes the social transmission and inheritance of cultural knowledge, and material culture. Human genetic inheritance in combination with human cultural inheritance thus provides a basis for gene–culture coevolution, and multivariate dynamics in cultural evolution. Niche construction theory potentially integrates the biological and social aspects of the human sciences. We elaborate on these processes, and provide brief introductions to each of the papers published in this theme issue. PMID:21320894

HRCT Correlation with Round Window Identification during Cochlear Implantation in Children.

PubMed

Pendem, Sai Kiran; Rangasami, Rajeswaran; Arunachalam, Ravi Kumar; Mohanarangam, Venkata Sai Pulivadulu; Natarajan, Paarthipan

2014-01-01

To determine the accuracy of High Resolution Computer Tomography (HRCT) temporal bone measurements in predicting the actual visualization of round window niche as viewed through posterior tympanotomy (i.e. facial recess). This is a prospective study of 37 cochlear implant candidates, aged between 1and 6 years, who were referred for HRCT temporal bone during the period December 2013 to July 2014. Cochlear implantation was done in 37 children (25 in the right ear and 12 in the left ear). The distance between the short process of incus and the round window niche and the distance between the oval window and the round window niche were measured preoperatively on sub-millimeter (0.7 mm) HRCT images. We classified the visibility of round window niche based on the surgical view (i.e. through posterior tympanotomy) during surgery into three types: 1) Type 1- fully visible, 2) Type 2- partially visible, and 3) Type 3- difficult to visualize. The preoperative HRCT measurements were used to predict the type of visualization of round window niche before surgery and correlated with the findings during surgery. The mean and standard deviation for the distance between the short process of incus and the round window niche and for the distance between the oval window and the round window niche for Types 1, 2, and 3 were 8.5 ± 0.2 mm and 3.2 ± 0.2 mm, 8.0 ± 0.4 mm and 3.8 ± 0.2 mm, 7.5 ± 0.2 mm and 4.4 ± 0.2 mm respectively, and showed statistically significant difference (P < 0.01) between them. The preoperative HRCT measurements had a sensitivity and specificity of 92.3% and 96.2%, respectively, in determining the actual visualization of round window niche. This study shows preoperative HRCT temporal bone measurements are useful in predicting the actual visualization of round window niche as viewed through posterior tympanotomy.

A matter of scale: apparent niche differentiation of diploid and tetraploid plants may depend on extent and grain of analysis.

PubMed

Kirchheimer, Bernhard; Schinkel, Christoph C F; Dellinger, Agnes S; Klatt, Simone; Moser, Dietmar; Winkler, Manuela; Lenoir, Jonathan; Caccianiga, Marco; Guisan, Antoine; Nieto-Lugilde, Diego; Svenning, Jens-Christian; Thuiller, Wilfried; Vittoz, Pascal; Willner, Wolfgang; Zimmermann, Niklaus E; Hörandl, Elvira; Dullinger, Stefan

2016-03-22

Emerging polyploids may depend on environmental niche shifts for successful establishment. Using the alpine plant Ranunculus kuepferi as a model system, we explore the niche shift hypothesis at different spatial resolutions and in contrasting parts of the species range. European Alps. We sampled 12 individuals from each of 102 populations of R. kuepferi across the Alps, determined their ploidy levels, derived coarse-grain (100 × 100 m) environmental descriptors for all sampling sites by downscaling WorldClim maps, and calculated fine-scale environmental descriptors (2 × 2 m) from indicator values of the vegetation accompanying the sampled individuals. Both coarse and fine-scale variables were further computed for 8239 vegetation plots from across the Alps. Subsequently, we compared niche optima and breadths of diploid and tetraploid cytotypes by combining principal components analysis and kernel smoothing procedures. Comparisons were done separately for coarse and fine-grain data sets and for sympatric, allopatric and the total set of populations. All comparisons indicate that the niches of the two cytotypes differ in optima and/or breadths, but results vary in important details. The whole-range analysis suggests differentiation along the temperature gradient to be most important. However, sympatric comparisons indicate that this climatic shift was not a direct response to competition with diploid ancestors. Moreover, fine-grained analyses demonstrate niche contraction of tetraploids, especially in the sympatric range, that goes undetected with coarse-grained data. Although the niche optima of the two cytotypes differ, separation along ecological gradients was probably less decisive for polyploid establishment than a shift towards facultative apomixis, a particularly effective strategy to avoid minority cytotype exclusion. In addition, our results suggest that coarse-grained analyses overestimate niche breadths of widely distributed taxa. Niche comparison analyses should hence be conducted at environmental data resolutions appropriate for the organism and question under study.

Testing collapse models by a thermometer

NASA Astrophysics Data System (ADS)

Bahrami, M.

2018-05-01

Collapse models postulate that space is filled with a collapse noise field, inducing quantum Brownian motions, which are dominant during the measurement, thus causing collapse of the wave function. An important manifestation of the collapse noise field, if any, is thermal energy generation, thus disturbing the temperature profile of a system. The experimental investigation of a collapse-driven heating effect has provided, so far, the most promising test of collapse models against standard quantum theory. In this paper, we calculate the collapse-driven heat generation for a three-dimensional multi-atomic Bravais lattice by solving stochastic Heisenberg equations. We perform our calculation for the mass-proportional continuous spontaneous localization collapse model with nonwhite noise. We obtain the temperature distribution of a sphere under stationary-state and insulated surface conditions. However, the exact quantification of the collapse-driven heat-generation effect highly depends on the actual value of cutoff in the collapse noise spectrum.

Acceleration of electrons and ions by strong lower-hybrid turbulence in solar flares

NASA Technical Reports Server (NTRS)

Spicer, D. S.; Bingham, R.; Su, J. J.; Shapiro, V. D.; Shevchenko, V.; Ma, S.; Dawson, J. M.; Mcclements, K. G.

1994-01-01

One of the outstanding problems in solar flare theory is how to explain the 10-20 keV and greater hard x-ray emissions by a thick target bremsstrahlung model. The model requires the acceleration mechanism to accelerate approximately 10(exp 35) electrons sec(exp -l) with comparable energies, without producing a large return current which persists for long time scales after the beam ceases to exist due to Lenz's law, thereby, producing a self-magnetic field of order a few mega-Gauss. In this paper, we investigate particle acceleration resulting from the relaxation of unstable ion ring distributions, producing strong wave activity at the lower hybrid frequency. It is shown that strong lower hybrid wave turbulence collapses in configuration space producing density cavities containing intense electrostatic lower hybrid wave activity. The collapse of these intense nonlinear wave packets saturate by particle acceleration producing energetic electron and ion tails. There are several mechanisms whereby unstable ion distributions could be formed in the solar atmosphere, including reflection at perpendicular shocks, tearing modes, and loss cone depletion. Numerical simulations of ion ring relaxation processes, obtained using a 2 1/2-D fully electromagnetic, relativistic particle in cell code are discussed. We apply the results to the problem of explaining energetic particle production in solar flares. The results show the simultaneous acceleration of both electrons and ions to very high energies: electrons are accelerated to energies in the range 10-500 keV, while ions are accelerated to energies of the order of MeVs, giving rise to x-ray emission and gamma-ray emission respectively. Our simulations also show wave generation at the electron cyclotron frequency. We suggest that these waves are the solar millisecond radio spikes. The strong turbulence collapse process leads to a highly filamented plasma producing many localized regions for particle acceleration and resulting in approximately 10(exp 17) electron 'beamlets' of width approximately equal to 10 lambda sub De which eliminates the production of large magnetic fields. In this paper, we demonstrate that the model produces an energetic electron spectrum with the right flux to account for the hard x-ray observations.

Long-term effect of presurgical nasoalveolar molding on growth of maxillary arch in unilateral cleft lip and palate: randomized controlled trial.

PubMed

Shetty, V; Agrawal, R K; Sailer, H F

2017-08-01

The objective of this study was to investigate the long-term effect of presurgical nasoalveolar molding (PNAM) on growth of the maxillary arch through early childhood until 6 years of age in complete unilateral cleft lip and palate (UCLP) patients presenting for PNAM at different ages. Complete UCLP patients who were treated at our centre were divided into two groups. The study group underwent PNAM and was further subdivided into three subgroups (PNAM initiated within 1 month, between 1 and 6 months, and between 6 and 12 months of age in subgroup I, II, and III, respectively). The control group did not undergo PNAM and was further subdivided into three subgroups. Patients were evaluated at T1 (first visit), T2 (before cheiloplasty), and T3 (at 6 years). Between T1and T2, the intersegment distance (ISD) reduced significantly in the study group but increased in the control group, whereas the intercanine width (ICW) in both the study and control groups did not show significant change. Between T2 and T3, ISD and ICW were reduced significantly in the control group due to arch collapse, whereas in the study group, ISD reduced slightly with ICW remaining almost similar to noncleft norms. We conclude that reduced ISD following PNAM improves arch symmetry and stability, and thus may prevent arch collapse in the long term. Copyright © 2017 International Association of Oral and Maxillofacial Surgeons. Published by Elsevier Ltd. All rights reserved.

Neural Stem Cell Niches in Health and Diseases

PubMed Central

Decimo, Ilaria; Bifari, Francesco; Krampera, Mauro; Fumagalli, Guido

2012-01-01

Presence of neural stem cells in adult mammalian brains, including human, has been clearly demonstrated by several studies. The functional significance of adult neurogenesis is slowly emerging as new data indicate the sensitivity of this event to several “every day” external stimuli such as physical activity, learning, enriched environment, aging, stress and drugs. In addition, neurogenesis appears to be instrumental for task performance involving complex cognitive functions. Despite the growing body of evidence on the functional significance of NSC and despite the bulk of data concerning the molecular and cellular properties of NSCs and their niches, several critical questions are still open. In this work we review the literature describing i) old and new sites where NSC niche have been found in the CNS; ii) the intrinsic factors regulating the NSC potential; iii) the extrinsic factors that form the niche microenvironment. Moreover, we analyse NSC niche activation in iv) physiological and v) pathological conditions. Given the not static nature of NSCs that continuously change phenotype in response to environmental clues, a unique “identity card” for NSC identification is still lacking. Moreover, the multiple location of NSC niches that increase in diseases, leaves open the question of whether and how these structures communicate throughout long distance. We propose a model where all the NSC niches in the CNS may be connected in a functional network using the threads of the meningeal net as tracks. PMID:22394166

Isotope niche dimension and trophic overlap between bigheaded carps and native filter-feeding fish in the lower Missouri River, USA

USGS Publications Warehouse

Wang, Jianzhu; Chapman, Duane C.; Xu, Jun; Wang, Yang; Gu, Binhe

2018-01-01

Stable carbon and nitrogen isotope values (δ13C and δ15N) were used to evaluate trophic niche overlap between two filter-feeding fishes (known together as bigheaded carp) native to China, silver carp (Hypophthalmichthys molitrix) and bighead carp (Hypophthalmichthys nobilis), and three native filter-feeding fish including bigmouth buffalo (Ictiobus cyprinellus), gizzard shad (Dorosoma cepedianum) and paddlefish (Polyodon spathula) in the lower Missouri River, USA, using the Bayesian Stable Isotope in R statistics. Results indicate that except for bigmouth buffalo, all species displayed similar trophic niche size and trophic diversity. Bigmouth buffalo occupied a small trophic niche and had the greatest trophic overlap with silver carp (93.6%) and bighead carp (94.1%) followed by gizzard shad (91.0%). Paddlefish had a trophic niche which relied on some resources different from those used by other species, and therefore had the lowest trophic overlap with bigheaded carp and other two native fish. The trophic overlap by bigheaded carp onto native fish was typically stronger than the reverse effects from native fish. Average niche overlap between silver carp and native species was as high as 71%, greater than niche overlap between bighead carp and native fish (64%). Our findings indicate that bigheaded carps are a potential threat to a diverse and stable native fish community.

Within outlying mean indexes: refining the OMI analysis for the realized niche decomposition.

PubMed

Karasiewicz, Stéphane; Dolédec, Sylvain; Lefebvre, Sébastien

2017-01-01

The ecological niche concept has regained interest under environmental change (e.g., climate change, eutrophication, and habitat destruction), especially to study the impacts on niche shift and conservatism. Here, we propose the within outlying mean indexes (WitOMI), which refine the outlying mean index (OMI) analysis by using its properties in combination with the K -select analysis species marginality decomposition. The purpose is to decompose the ecological niche into subniches associated with the experimental design, i.e., taking into account temporal and/or spatial subsets. WitOMI emphasize the habitat conditions that contribute (1) to the definition of species' niches using all available conditions and, at the same time, (2) to the delineation of species' subniches according to given subsets of dates or sites. The latter aspect allows addressing niche dynamics by highlighting the influence of atypical habitat conditions on species at a given time and/or space. Then, (3) the biological constraint exerted on the species subniche becomes observable within Euclidean space as the difference between the existing fundamental subniche and the realized subniche. We illustrate the decomposition of published OMI analyses, using spatial and temporal examples. The species assemblage's subniches are comparable to the same environmental gradient, producing a more accurate and precise description of the assemblage niche distribution under environmental change. The WitOMI calculations are available in the open-access R package "subniche."

Control of germline stem cell self-renewal and differentiation in the Drosophila ovary: concerted actions of niche signals and intrinsic factors.

PubMed

Xie, Ting

2013-01-01

In the Drosophila ovary, germline stem cells (GSCs) physically interact with their niche composed of terminal filament cells, cap cells, and possibly GSC-contacting escort cells (ECs). A GSC divides to generate a self-renewing stem cell that remains in the niche and a differentiating daughter that moves away from the niche. The GSC niche provides a bone morphogenetic protein (BMP) signal that maintains GSC self-renewal by preventing stem cell differentiation via repression of the differentiation-promoting gene bag of marbles (bam). In addition, it expresses E-cadherin, which mediates cell adhesion for anchoring GSCs in the niche, enabling continuous self-renewal. GSCs themselves also express different classes of intrinsic factors, including signal transducers, transcription factors, chromatin remodeling factors, translation regulators, and miRNAs, which control self-renewal by strengthening interactions with the niche and repressing various differentiation pathways. Differentiated GSC daughters, known as cystoblasts (CBs), also express distinct classes of intrinsic factors to inhibit self-renewal and promote germ cell differentiation. Surprisingly, GSC progeny are also dependent on their surrounding ECs for proper differentiation at least partly by preventing BMP from diffusing to the differentiated germ cell zone and by repressing ectopic BMP expression. Therefore, both GSC self-renewal and CB differentiation are controlled by collaborative actions of extrinsic signals and intrinsic factors. Copyright © 2012 Wiley Periodicals, Inc.

Combgap Promotes Ovarian Niche Development and Chromatin Association of EcR-Binding Regions in BR-C.

PubMed

Hitrik, Anna; Popliker, Malka; Gancz, Dana; Mukamel, Zohar; Lifshitz, Aviezer; Schwartzman, Omer; Tanay, Amos; Gilboa, Lilach

2016-11-01

The development of niches for tissue-specific stem cells is an important aspect of stem cell biology. Determination of niche size and niche numbers during organogenesis involves precise control of gene expression. How this is achieved in the context of a complex chromatin landscape is largely unknown. Here we show that the nuclear protein Combgap (Cg) supports correct ovarian niche formation in Drosophila by controlling ecdysone-Receptor (EcR)- mediated transcription and long-range chromatin contacts in the broad locus (BR-C). Both cg and BR-C promote ovarian growth and the development of niches for germ line stem cells. BR-C levels were lower when Combgap was either reduced or over-expressed, indicating an intricate regulation of the BR-C locus by Combgap. Polytene chromosome stains showed that Cg co-localizes with EcR, the major regulator of BR-C, at the BR-C locus and that EcR binding to chromatin was sensitive to changes in Cg levels. Proximity ligation assay indicated that the two proteins could reside in the same complex. Finally, chromatin conformation analysis revealed that EcR-bound regions within BR-C, which span ~30 KBs, contacted each other. Significantly, these contacts were stabilized in an ecdysone- and Combgap-dependent manner. Together, these results highlight Combgap as a novel regulator of chromatin structure that promotes transcription of ecdysone target genes and ovarian niche formation.

Combgap Promotes Ovarian Niche Development and Chromatin Association of EcR-Binding Regions in BR-C

PubMed Central

Gancz, Dana; Lifshitz, Aviezer; Tanay, Amos

2016-01-01

The development of niches for tissue-specific stem cells is an important aspect of stem cell biology. Determination of niche size and niche numbers during organogenesis involves precise control of gene expression. How this is achieved in the context of a complex chromatin landscape is largely unknown. Here we show that the nuclear protein Combgap (Cg) supports correct ovarian niche formation in Drosophila by controlling ecdysone-Receptor (EcR)- mediated transcription and long-range chromatin contacts in the broad locus (BR-C). Both cg and BR-C promote ovarian growth and the development of niches for germ line stem cells. BR-C levels were lower when Combgap was either reduced or over-expressed, indicating an intricate regulation of the BR-C locus by Combgap. Polytene chromosome stains showed that Cg co-localizes with EcR, the major regulator of BR-C, at the BR-C locus and that EcR binding to chromatin was sensitive to changes in Cg levels. Proximity ligation assay indicated that the two proteins could reside in the same complex. Finally, chromatin conformation analysis revealed that EcR-bound regions within BR-C, which span ~30 KBs, contacted each other. Significantly, these contacts were stabilized in an ecdysone- and Combgap-dependent manner. Together, these results highlight Combgap as a novel regulator of chromatin structure that promotes transcription of ecdysone target genes and ovarian niche formation. PMID:27846223

Human bone perivascular niche-on-a-chip for studying metastatic colonization.

PubMed

Marturano-Kruik, Alessandro; Nava, Michele Maria; Yeager, Keith; Chramiec, Alan; Hao, Luke; Robinson, Samuel; Guo, Edward; Raimondi, Manuela Teresa; Vunjak-Novakovic, Gordana

2018-02-06

Eight out of 10 breast cancer patients die within 5 years after the primary tumor has spread to the bones. Tumor cells disseminated from the breast roam the vasculature, colonizing perivascular niches around blood capillaries. Slow flows support the niche maintenance by driving the oxygen, nutrients, and signaling factors from the blood into the interstitial tissue, while extracellular matrix, endothelial cells, and mesenchymal stem cells regulate metastatic homing. Here, we show the feasibility of developing a perfused bone perivascular niche-on-a-chip to investigate the progression and drug resistance of breast cancer cells colonizing the bone. The model is a functional human triculture with stable vascular networks within a 3D native bone matrix cultured on a microfluidic chip. Providing the niche-on-a-chip with controlled flow velocities, shear stresses, and oxygen gradients, we established a long-lasting, self-assembled vascular network without supplementation of angiogenic factors. We further show that human bone marrow-derived mesenchymal stem cells, which have undergone phenotypical transition toward perivascular cell lineages, support the formation of capillary-like structures lining the vascular lumen. Finally, breast cancer cells exposed to interstitial flow within the bone perivascular niche-on-a-chip persist in a slow-proliferative state associated with increased drug resistance. We propose that the bone perivascular niche-on-a-chip with interstitial flow promotes the formation of stable vasculature and mediates cancer cell colonization.

Replacement of harmful animal use in life science education: the approach and activities of InterNICHE.

PubMed

Jukes, Nick

2004-06-01

Harmful animal use in undergraduate education is increasingly being replaced by alternatives, such as computer software, manikins and simulators, ethically sourced animal cadavers, apprentice work with animal patients, and student self-experimentation. Combinations of such alternatives can better meet teaching objectives, reduce costs and avoid the negative pedagogical and social impact of animal experimentation. Since 1988, the International Network for Humane Education (InterNICHE, formerly EuroNICHE) has been working with teachers to replace harmful animal use and has been supporting students' right to conscientious objection. This paper presents the approach, history and current activities of InterNICHE. With a vision of 100% replacement, the network aims for empowerment by networking information and providing support. It works with the belief that most teachers want investment in the best quality and most humane education possible. The forthcoming second edition of the InterNICHE book, from Guinea Pig to Computer Mouse,1 includes practical details of progressive teaching aids and approaches, as well as case studies from teachers who employ such alternatives. In 1999, InterNICHE produced the film Alternatives in Education, now available in 20 languages. Such resources are complemented by outreach trips and conferences and an Alternatives Loan System, which offers products for familiarisation and assessment. The InterNICHE website (www.interniche.org) was launched in 2001.

The niche construction of cultural complexity: interactions between innovations, population size and the environment.

PubMed

Fogarty, Laurel; Creanza, Nicole

2017-12-05

Niche construction is a process through which organisms alter their environments and, in doing so, influence or change the selective pressures to which they are subject. 'Cultural niche construction' refers specifically to the effect of cultural traits on the selective environments of other biological or cultural traits and may be especially important in human evolution. In addition, the relationship between population size and cultural accumulation has been the subject of extensive debate, in part because anthropological studies have demonstrated a significant association between population size and toolkit complexity in only a subset of studied cultures. Here, we review the role of cultural innovation in constructing human evolutionary niches and introduce a new model to describe the accumulation of human cultural traits that incorporates the effects of cultural niche construction. We consider the results of this model in light of available data on human toolkit sizes across populations to help elucidate the important differences between food-gathering societies and food-producing societies, in which niche construction may be a more potent force. These results support the idea that a population's relationship with its environment, represented here by cultural niche construction, should be considered alongside population size in studies of cultural complexity.This article is part of the themed issue 'Process and pattern in innovations from cells to societies'. © 2017 The Author(s).

Niche and Neutral Processes Together Determine Diversity Loss in Response to Fertilization in an Alpine Meadow Community

PubMed Central

Li, Wei; Cheng, Ji-Min; Yu, Kai-Liang; Epstein, Howard E.; Du, Guo-Zhen

2015-01-01

Fertilization via nutrient deposition and agricultural inputs is one of the most important factors driving decreases in plant diversity. However, we still do not fully understand which processes (niche process or neutral process) are more important in leading to decreases in plant diversity caused by fertilization. A hypothesis-based approach was used to test the relative importance of niche versus neutral processes along a fertilization gradient in an alpine meadow community on the eastern Tibetan plateau, China. Niche overlap values were calculated for species biomass, and the null model was used to generate the values of niche overlap expected at random. A linear regression modeling was used to evaluate the relationship between functional traits (specific leaf area, leaf dry matter content, and leaf total nitrogen concentration) and species relative abundance. Our results demonstrated that observed niche overlap for species biomass was significantly higher than expected at lower fertilization gradients. Moreover, we also found a significantly negative correlation between species relative abundance and specific leaf area and leaf dry matter content, but a significantly positive correlation between relative abundance and leaf nitrogen concentration at lower fertilization gradients. However, these relationships were not significant at higher fertilization gradients. We concluded that community assembly is dynamic progression along the environmental gradients, and niche and neutral processes may together determine species diversity loss in response to fertilization. PMID:26280919

Resource Utilization and Environmental and Spatio-Temporal Overlap of a Hilltopping Lycaenid Butterfly Community in the Colombian Andes

PubMed Central

Prieto, Carlos; Dahners, Hans W.

2009-01-01

Coexistence by a great number of species could reflect niche segregation at several resource axes. Differences in the use of a hilltop as mating site for a Eumaeini (Lycaenidae) community were measured to test whether niche segregation exists within this group. Specimens were collected throughout 21 samplings between July-October of 2004 and July-October of 2005. Two environmental variables and three temporal-spacial variables were analyzed utilizing null models with three randomization algorithms. Significant differences were found among the species with respect to utilization of vertical space, horizontal space, temporary distribution and environmental temperature. The species did not show significant differences with respect to light intensity. For all samplings, the niche overlap observed in the two environmental variables were higher or significantly higher than expected by chance, suggesting that niche segregation does not exist due to competition within these variables. Similar results were observed for temporal distribution. Some evidence of niche segregation was found in vertical space and horizontal space variables where some samples presented lower overlap than expected by chance. The results pointed out that community's assemblage could be mainly shaped in two ways. The first is that species with determined habitat requirements fit into unoccupied niche spaces. The second is by niche segregation in the vertical space distribution variable. PMID:19613456

The Niche of Graduate Teaching Assistants (GTAs): Perceptions and Reflections

ERIC Educational Resources Information Center

Muzaka, Valbona

2009-01-01

The aim of this paper is to contribute to a better understanding of the Graduate Teaching Assistants (GTAs') niche in the current UK higher education system by means of reflecting on the results of a survey undertaken at a department of the University of Sheffield. The survey highlights that GTAs occupy an ambiguous niche; they are simultaneously…

Niche partitioning of feeding microhabitats produces a unique function for herbivorous rabbitfishes (Perciformes, Siganidae) on coral reefs

NASA Astrophysics Data System (ADS)

Fox, R. J.; Bellwood, D. R.

2013-03-01

Niche theory predicts that coexisting species minimise competition by evolving morphological or behavioural specialisations that allow them to spread out along resource axes such as space, diet and temporal activity. These specialisations define how a species interacts with its environment and, by extension, determine its functional role. Here, we examine the feeding niche of three species of coral reef-dwelling rabbitfishes (Siganidae, Siganus). By comparing aspects of their feeding behaviour (bite location, bite rate, foraging distance) with that of representative species from two other abundant herbivorous fish families, the parrotfishes (Labridae, Scarus) and surgeonfishes (Acanthuridae, Acanthurus), we examine whether rabbitfishes have a feeding niche distinct from other members of the herbivore guild. Measurements of the penetration of the fishes' snouts and bodies into reef concavities when feeding revealed that rabbitfish fed to a greater degree from reef crevices and interstices than other herbivores. There was just a 40 % overlap in the penetration-depth niche between rabbitfish and surgeonfish and a 45 % overlap between rabbitfish and parrotfish, compared with the almost complete niche overlap (95 %) recorded for parrotfish and surgeonfish along this spatial niche axis. Aspects of the morphology of rabbitfish which may contribute to this niche segregation include a comparatively longer, narrower snout and narrower head. Our results suggest that sympatric coexistence of rabbitfish and other reef herbivores is facilitated by segregation along a spatial (and potentially dietary) axis. This segregation results in a unique functional role for rabbitfishes among roving herbivores that of "crevice-browser": a group that specifically feeds on crevice-dwelling algal or benthic organisms. This functional trait may have implications for reef ecosystem processes in terms of controlling the successional development of crevice-based algal communities, reducing their potential to trigger macroalgal outbreaks.

Climatic niche evolution is faster in sympatric than allopatric lineages of the butterfly genus Pyrgus

PubMed Central

Pitteloud, Camille; Arrigo, Nils; Suchan, Tomasz; Mastretta-Yanes, Alicia; Dincă, Vlad; Hernández-Roldán, Juan; Brockmann, Ernst; Chittaro, Yannick; Kleckova, Irena; Fumagalli, Luca; Buerki, Sven; Pellissier, Loïc

2017-01-01

Understanding how speciation relates to ecological divergence has long fascinated biologists. It is assumed that ecological divergence is essential to sympatric speciation, as a mechanism to avoid competition and eventually lead to reproductive isolation, while divergence in allopatry is not necessarily associated with niche differentiation. The impact of the spatial context of divergence on the evolutionary rates of abiotic dimensions of the ecological niche has rarely been explored for an entire clade. Here, we compare the magnitude of climatic niche shifts between sympatric versus allopatric divergence of lineages in butterflies. By combining next-generation sequencing, parametric biogeography and ecological niche analyses applied to a genus-wide phylogeny of Palaearctic Pyrgus butterflies, we compare evolutionary rates along eight climatic dimensions across sister lineages that diverged in large-scale sympatry versus allopatry. In order to examine the possible effects of the spatial scale at which sympatry is defined, we considered three sets of biogeographic assignments, ranging from narrow to broad definition. Our findings suggest higher rates of niche evolution along all climatic dimensions for sister lineages that diverge in sympatry, when using a narrow delineation of biogeographic areas. This result contrasts with significantly lower rates of climatic niche evolution found in cases of allopatric speciation, despite the biogeographic regions defined here being characterized by significantly different climates. Higher rates in allopatry are retrieved when biogeographic areas are too widely defined—in such a case allopatric events may be recorded as sympatric. Our results reveal the macro-evolutionary significance of abiotic niche differentiation involved in speciation processes within biogeographic regions, and illustrate the importance of the spatial scale chosen to define areas when applying parametric biogeographic analyses. PMID:28404781

[Current and future ecological niche of Leishmaniasis (Kinetoplastida: Trypanosomatidae) in the Neotropical region].

PubMed

Moo-Llanes, David A

2016-09-01

The leishmaniasis is a complex disease system, caused by the protozoan parasite Leishmania and transmitted to humans by the vector Lutzomyia spp. Since it is listed as a neglected disease according to the World Health Organization, the aim of this study was to determine the current and future niche of cutaneous and visceral leishmaniasis in the Neotropical region. We built the ecological niche model (ENM) of cutaneous (N= 2 910 occurrences) and visceral (N= 851 occurrences) leishmaniasis using MaxEnt algorithm. Nine bioclimatic variables (BIO1, BIO4, BIO5, BIO6, BIO7, BIO12, BIO13, BIO14, BIO15 (downloaded from the Worldclim) and disease occurrences data were used for the construction of ENM for three periods (current, 2050 and 2070) and four climate change scenarios (RCP 2.6, 4.5, 6.0 y 8.5). We analyzed the number of pixels occupied, identity niche, modified niche (stable, loss, and gain) and seasonality. Our analyses indicated the expansion for cutaneous leishmaniasis (CL), a comparison for visceral leishmaniasis (VL). We rejected the null hypothesis of niche identity between CL and VL with Hellinger’s index = 0.91 (0.92-0.98) and Schoener’s Index = 0.67 (0.85-1.00) but with an overlap niche of 56.3 %. The differences between the two leishmaniasis types were detected in relation to RCP scenarios and niche shifts (area gained / loss). Seasonality was more important for CL. We provided a current picture of CL and VL distributions and the predicted distributional changes associated to different climate change scenarios for the Neotropical region. We can anticipate that increasing range is likely although it will depend locally on the future trends in weather seasonality.

bantam miRNA is important for Drosophila blood cell homeostasis and a regulator of proliferation in the hematopoietic progenitor niche

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lam, Victoria; Tokusumi, Tsuyoshi; Tokusumi, Yumiko

Highlights: • bantam miRNA is endogenously expressed in the hematopoietic progenitor niche. • bantam is necessary and sufficient to induce cellular proliferation in the PSC. • bantam is upstream of the Insulin Receptor signaling pathway. • A model for positive regulation of hematopoietic niche growth is proposed. - Abstract: The Drosophila hematopoietic system is utilized in this study to gain novel insights into the process of growth control of the hematopoietic progenitor niche in blood development. The niche microenvironment is an essential component controlling the balance between progenitor populations and differentiated, mature blood cells and has been shown to leadmore » to hematopoietic malignancies in humans when misregulated. MicroRNAs are one class of regulators associated with blood malignancies; however, there remains a relative paucity of information about the role of miRNAs in the niche. Here we demonstrate that bantam miRNA is endogenously active in the Drosophila hematopoietic progenitor niche, the posterior signaling center (PSC), and functions in the primary hematopoietic organ, the lymph gland, as a positive regulator of growth. Loss of bantam leads to a significant reduction in the PSC and overall lymph gland size, as well as a loss of the progenitor population and correlative premature differentiation of mature hemocytes. Interestingly, in addition to being essential for proper lymph gland development, we have determined bantam to be a novel upstream component of the insulin signaling cascade in the PSC and have unveiled dMyc as one factor central to bantam activity. These important findings identify bantam as a new hematopoietic regulator, place it in an evolutionarily conserved signaling pathway, present one way in which it is regulated, and provide a mechanism through which it facilitates cellular proliferation in the hematopoietic niche.« less

Spatial Distribution of Niche and Stem Cells in Ex Vivo Human Limbal Cultures

PubMed Central

Kacham, Santhosh; Purushotham, Jyothi; Maddileti, Savitri; Siamwala, Jamila; Sangwan, Virender Singh

2014-01-01

Stem cells at the limbus mediate corneal epithelial regeneration and regulate normal tissue homeostasis. Ex vivo cultured limbal epithelial transplantations are being widely practiced in the treatment of limbal stem cell deficiency. In this report, we examined whether the limbal niche cells that nurture and regulate epithelial stem cells coexist in ex vivo limbal cultures. We also compared the inherent differences between explant and suspension culture systems in terms of spatial distribution of niche cells and their effect on epithelial stem cell proliferation, migration, and differentiation in vitro. We report that the stem cell content of both culture systems was similar, explaining the comparable clinical outcomes reported using these two methods. We also showed that the niche cells get expanded in culture and the nestin-positive cells migrate at the leading edges to direct epithelial cell migration in suspension cultures, whereas they are limited to the intact niche in explant cultures. We provide evidence that C/EBPδ-positive, p15-positive, and quiescent, label-retaining, early activated stem cells migrate at the leading edges to regulate epithelial cell proliferation in explant cultures, and this position effect is lost in early suspension cultures. However, in confluent suspension cultures, the stem cells and niche cells interact with each another, migrate in spiraling patterns, and self-organize to form three-dimensional niche-like compartments resembling the limbal crypts and thereby reestablish the position effect. These 3D-sphere clusters are enriched with nestin-, vimentin-, S100-, and p27-positive niche cells and p15-, p21-, p63α-, C/EBPδ-, ABCG2-, and Pax6-positive quiescent epithelial stem cells. PMID:25232182

Spontaneous Cognition and Epistemic Agency in the Cognitive Niche.

PubMed

Fabry, Regina E

2018-01-01

According to Thomas Metzinger, many human cognitive processes in the waking state are spontaneous and are deprived of the experience of epistemic agency. He considers mind wandering as a paradigm example of our recurring loss of epistemic agency. I will enrich this view by extending the scope of the concept of epistemic agency to include cases of depressive rumination and creative cognition, which are additional types of spontaneous cognition. Like mind wandering, they are characterized by unique phenomenal and functional properties that give rise to varying degrees of epistemic agency. The main claim of this paper will be that the experience of being an epistemic agent within a certain time frame is a relational phenomenon that emerges from the organism's capacity to interact with its cognitive niche. To explore this relation, I develop a new framework that integrates phenomenological considerations on epistemic agency with a functional account of the reciprocal coupling of the embodied organism with its cognitive niche. This account rests upon dynamical accounts of strong embodied and embedded cognition and recent work on cognitive niche construction. Importantly, epistemic agency and organism-niche coupling are gradual phenomena ranging from weak to strong realizations. The emerging framework will be employed to analyze mind wandering, depressive rumination, and creative cognition as well as their commonalities and differences. Mind wandering and depressive rumination are cases of weak epistemic agency and organism-niche coupling. However, there are also important phenomenological, functional, and neuronal differences. In contrast, creative cognition is a case of strong epistemic agency and organism-niche coupling. By providing a phenomenological and functional analysis of these distinct types of spontaneous cognition, we can gain a better understanding of the importance of organism-niche interaction for the realization of epistemic agency.

Phylogenetic niche conservatism and the evolutionary basis of ecological speciation.

PubMed

Pyron, R Alexander; Costa, Gabriel C; Patten, Michael A; Burbrink, Frank T

2015-11-01

Phylogenetic niche conservatism (PNC) typically refers to the tendency of closely related species to be more similar to each other in terms of niche than they are to more distant relatives. This has been implicated as a potential driving force in speciation and other species-richness patterns, such as latitudinal gradients. However, PNC has not been very well defined in most previous studies. Is it a pattern or a process? What are the underlying endogenous (e.g. genetic) and exogenous (e.g. ecological) factors that cause niches to be conserved? What degree of similarity is necessary to qualify as PNC? Is it possible for the evolutionary processes causing niches to be conserved to also result in niche divergence in different habitats? Here, we revisit these questions, codifying a theoretical and operational definition of PNC as a mechanistic evolutionary process resulting from several factors. We frame this both from a macroevolutionary and population-genetic perspective. We discuss how different axes of physical (e.g. geographic) and environmental (e.g. climatic) heterogeneity interact with the fundamental process of PNC to produce different outcomes of ecological speciation. We also review tests for PNC, and suggest ways that these could be improved or better utilized in future studies. Ultimately, PNC as a process has a well-defined mechanistic basis in organisms, and future studies investigating ecological speciation would be well served to consider this, and frame hypothesis testing in terms of the processes and expected patterns described herein. The process of PNC may lead to patterns where niches are conserved (more similar than expected), constrained (divergent within a limited subset of available niches), or divergent (less similar than expected), based on degree of phylogenetic relatedness between species. © 2014 Cambridge Philosophical Society.

Gene expression profiling of rat spermatogonia and Sertoli cells reveals signaling pathways from stem cells to niche and testicular cancer cells to surrounding stroma

PubMed Central

2011-01-01

Background Stem cells and their niches are studied in many systems, but mammalian germ stem cells (GSC) and their niches are still poorly understood. In rat testis, spermatogonia and undifferentiated Sertoli cells proliferate before puberty, but at puberty most spermatogonia enter spermatogenesis, and Sertoli cells differentiate to support this program. Thus, pre-pubertal spermatogonia might possess GSC potential and pre-pubertal Sertoli cells niche functions. We hypothesized that the different stem cell pools at pre-puberty and maturity provide a model for the identification of stem cell and niche-specific genes. We compared the transcript profiles of spermatogonia and Sertoli cells from pre-pubertal and pubertal rats and examined how these related to genes expressed in testicular cancers, which might originate from inappropriate communication between GSCs and Sertoli cells. Results The pre-pubertal spermatogonia-specific gene set comprised known stem cell and spermatogonial stem cell (SSC) markers. Similarly, the pre-pubertal Sertoli cell-specific gene set comprised known niche gene transcripts. A large fraction of these specifically enriched transcripts encoded trans-membrane, extra-cellular, and secreted proteins highlighting stem cell to niche communication. Comparing selective gene sets established in this study with published gene expression data of testicular cancers and their stroma, we identified sets expressed genes shared between testicular tumors and pre-pubertal spermatogonia, and tumor stroma and pre-pubertal Sertoli cells with statistic significance. Conclusions Our data suggest that SSC and their niche specifically express complementary factors for cell communication and that the same factors might be implicated in the communication between tumor cells and their micro-enviroment in testicular cancer. PMID:21232125

Spontaneous Cognition and Epistemic Agency in the Cognitive Niche

PubMed Central

Fabry, Regina E.

2018-01-01

According to Thomas Metzinger, many human cognitive processes in the waking state are spontaneous and are deprived of the experience of epistemic agency. He considers mind wandering as a paradigm example of our recurring loss of epistemic agency. I will enrich this view by extending the scope of the concept of epistemic agency to include cases of depressive rumination and creative cognition, which are additional types of spontaneous cognition. Like mind wandering, they are characterized by unique phenomenal and functional properties that give rise to varying degrees of epistemic agency. The main claim of this paper will be that the experience of being an epistemic agent within a certain time frame is a relational phenomenon that emerges from the organism’s capacity to interact with its cognitive niche. To explore this relation, I develop a new framework that integrates phenomenological considerations on epistemic agency with a functional account of the reciprocal coupling of the embodied organism with its cognitive niche. This account rests upon dynamical accounts of strong embodied and embedded cognition and recent work on cognitive niche construction. Importantly, epistemic agency and organism-niche coupling are gradual phenomena ranging from weak to strong realizations. The emerging framework will be employed to analyze mind wandering, depressive rumination, and creative cognition as well as their commonalities and differences. Mind wandering and depressive rumination are cases of weak epistemic agency and organism-niche coupling. However, there are also important phenomenological, functional, and neuronal differences. In contrast, creative cognition is a case of strong epistemic agency and organism-niche coupling. By providing a phenomenological and functional analysis of these distinct types of spontaneous cognition, we can gain a better understanding of the importance of organism-niche interaction for the realization of epistemic agency. PMID:29937749

Towards a quantitative understanding of stem cell-niche interaction: experiments, models, and technologies.

PubMed

Roeder, Ingo; Loeffler, Markus; Glauche, Ingmar

2011-04-15

Here we report about an interdisciplinary workshop focusing on the effects of the local growth-environment on the regulation of stem cell development. Under the title "Towards a quantitative understanding of stem cell/ niche interaction: Experiments, models, and technologies", 33 experts from eight countries discussed current knowledge, new experimental and theoretical results as well as innovative measurement technologies. Specifically, the workshop addressed the following questions: What defines a stem cell niche? What are functional/regulatory characteristics of stem cell- microenvironment interactions? What experimental systems and technologies for quantifying niche function are available? As a consensus result it was recorded that there is no unique niche architecture across tissues but that there are generic principles of niche organization guaranteeing a proper function of stem cells. This functional aspect, as the major defining criterion, leads to the conclusion that stem cells and their niches need to be considered as an inseparable pair with implications for their experimental assessment: To be able to study any of those two components, the other component has to be accounted for. In this context, a number of classical in vitro assays using co-cultures of stem and stroma cells, but also new, specifically bioengineered culture systems have been discussed with respect to their advantages and disadvantages. Finally, there was a general agreement that the comprehensive understanding of niche-mediated stem cell regulation will, due to the complexity of involved mechanisms, require an interdisciplinary, systems biological approach. In addition to cell and molecular biology, biochemistry, biophysics and bioengineering also bioinformatics and mathematical modeling will play a major role in the future of this field. Copyright © 2011 Elsevier Inc. All rights reserved.

Environmental limits to growth: physiological niche boundaries of corals along turbidity-light gradients.

PubMed

Anthony, Kenneth R N; Connolly, Sean R

2004-11-01

The physiological responses of organisms to resources and environmental conditions are important determinants of niche boundaries. In previous work, functional relationships between organism energetics and environment have been limited to energy intakes. However, energetic costs of maintenance may also depend on the supply of resources. In many mixotrophic organisms, two such resource types are light and particle concentration (turbidity). Using two coral species with contrasting abundances along light and turbidity gradients (Acropora valida and Turbinaria mesenterina), we incorporate the dual resource-stressor roles of these variables by calibrating functional responses of energy costs (respiration and loss of organic carbon) as well as energy intake (photosynthesis and particle feeding). This allows us to characterize physiological niche boundaries along light and turbidity gradients, identify species-specific differences in these boundaries, and assess the sensitivity of these differences to interspecific differences in particular functional response parameters. The turbidity-light niche of T. mesenterina was substantially larger than that of A. valida, consistent with its broader ecological distribution. As expected, the responses of photosynthesis, heterotrophic capacity, respiration, and organic carbon loss to light and turbidity varied between species. Niche boundaries were highly sensitive to the functional responses of energy costs to light and turbidity. Moreover, the study species' niche differences were almost entirely attributable to species-specific differences in one functional response: that of respiration to turbidity. These results demonstrate that functional responses of energy-loss processes are important determinants of species-specific physiological limits to growth, and thereby of niche differences in reef corals. Given that many resources can stress organisms when supply rates are high, we propose that the functional responses of energy losses will prove to be important determinants of niche differences in other systems as well.

Population genetics and ecological niche of invasive Aedes albopictus in Mexico.

PubMed

Pech-May, Angélica; Moo-Llanes, David A; Puerto-Avila, María Belem; Casas, Mauricio; Danis-Lozano, Rogelio; Ponce, Gustavo; Tun-Ku, Ezequiel; Pinto-Castillo, José Francisco; Villegas, Alejandro; Ibáñez-Piñon, Clemente R; González, Cassandra; Ramsey, Janine M

2016-05-01

The Asian tiger mosquito Aedes albopictus (Skuse), is one of the most invasive mosquito species worldwide. In Mexico it is now recorded in 12 states and represents a serious public health problem, given the recent introduction of Chikungunya on the southern border. The aim of this study was to analyze the population genetics of A. albopictus from all major recorded foci, and model its ecological niche. Niche similarity with that from its autochthonous distribution in Asia and other invaded countries were analyzed and its potential future expansion and potential human exposure in climate change scenarios measured. We analyzed 125 sequences of a 317 bp fragment of the cyt b gene from seven A. albopictus populations across Mexico. The samples belong to 25 haplotypes with moderate population structuring (Fst=0.081, p<0.02) and population expansion. The most prevalent haplotype, found in all principal sites, was shared with the USA, Brazil, France, Madagascar, and Reunion Island. The ecological niche model using Mexican occurrence records covers 79.7% of the country, and has an 83% overlap with the Asian niche projected to Mexico. Both Neotropical and Nearctic regions are included in the Mexican niche model. Currently in Mexico, 38.6 million inhabitants are exposed to A. albopictus, which is expected to increase to 45.6 million by 2070. Genetic evidence supports collection information that A. albopictus was introduced to Mexico principally by land from the USA and Central and South America. Prevalent haplotypes from Mexico are shared with most invasive regions across the world, just as there was high niche similarity with both natural and invaded regions. The important overlap with the Asian niche model suggests a high potential for the species to disperse to sylvatic regions in Mexico. Copyright © 2016 Elsevier B.V. All rights reserved.

Stem cell dynamics in the hair follicle niche

PubMed Central

Rompolas, Panteleimon; Greco, Valentina

2014-01-01

Hair follicles are skin appendages of the mammalian skin that have the ability to periodically and stereotypically regenerate in order to continuously produce new hair over our lifetime. The ability of the hair follicle to regenerate is due to the presence of stem cells that along with other cell populations and non-cellular components, including molecular signals and extracellular material, make up a niche microenvironment. Mounting evidence suggests that the niche is critical for regulating stem cell behavior and thus the process of regeneration. Here we review the literature concerning past and current studies that have utilized mouse genetic models, combined with other approaches to dissect the molecular and cellular composition of the hair follicle niche. We also discuss our current understanding of how stem cells operate within the niche during the process of tissue regeneration and the factors that regulate their behavior. PMID:24361866

Rates of climatic niche evolution are correlated with species richness in a large and ecologically diverse radiation of songbirds.

PubMed

Title, Pascal O; Burns, Kevin J

2015-05-01

By employing a recently inferred phylogeny and museum occurrence records, we examine the relationship of ecological niche evolution to diversification in the largest family of songbirds, the tanagers (Thraupidae). We test whether differences in species numbers in the major clades of tanagers can be explained by differences in rate of climatic niche evolution. We develop a methodological pipeline to process and filter occurrence records. We find that, of the ecological variables examined, clade richness is higher in clades with higher climatic niche rate, and that this rate is also greater for clades that occupy a greater extent of climatic space. Additionally, we find that more speciose clades contain species with narrower niche breadths, suggesting that clades in which species are more successful at diversifying across climatic gradients have greater potential for speciation or are more buffered from the risk of extinction. © 2015 John Wiley & Sons Ltd/CNRS.

RECONSTRUCTING THE ORIGINS OF HIGH-ALPINE NICHES AND CUSHION LIFE FORM IN THE GENUS ANDROSACE S.L. (PRIMULACEAE)

PubMed Central

Boucher, Florian C.; Thuiller, Wilfried; Roquet, Cristina; Douzet, Rolland; Aubert, Serge; Alvarez, Nadir; Lavergne, Sébastien

2014-01-01

Relatively, few species have been able to colonize extremely cold alpine environments. We investigate the role played by the cushion life form in the evolution of climatic niches in the plant genus Androsace s.l., which spreads across the mountain ranges of the Northern Hemisphere. Using robust methods that account for phylogenetic uncertainty, intraspecific variability of climatic requirements and different life-history evolution scenarios, we show that climatic niches of Androsace s.l. exhibit low phylogenetic signal and that they evolved relatively recently and punctually. Models of niche evolution fitted onto phylogenies show that the cushion life form has been a key innovation providing the opportunity to occupy extremely cold environments, thus contributing to rapid climatic niche diversification in the genus Androsace s.l. We then propose a plausible scenario for the adaptation of plants to alpine habitats. PMID:22486702

Architecture for Adaptive Intelligent Systems

NASA Technical Reports Server (NTRS)

Hayes-Roth, Barbara

1993-01-01

We identify a class of niches to be occupied by 'adaptive intelligent systems (AISs)'. In contrast with niches occupied by typical AI agents, AIS niches present situations that vary dynamically along several key dimensions: different combinations of required tasks, different configurations of available resources, contextual conditions ranging from benign to stressful, and different performance criteria. We present a small class hierarchy of AIS niches that exhibit these dimensions of variability and describe a particular AIS niche, ICU (intensive care unit) patient monitoring, which we use for illustration throughout the paper. We have designed and implemented an agent architecture that supports all of different kinds of adaptation by exploiting a single underlying theoretical concept: An agent dynamically constructs explicit control plans to guide its choices among situation-triggered behaviors. We illustrate the architecture and its support for adaptation with examples from Guardian, an experimental agent for ICU monitoring.

Loss of niche-satellite cell interactions in syndecan-3 null mice alters muscle progenitor cell homeostasis improving muscle regeneration.

PubMed

Pisconti, Addolorata; Banks, Glen B; Babaeijandaghi, Farshad; Betta, Nicole Dalla; Rossi, Fabio M V; Chamberlain, Jeffrey S; Olwin, Bradley B

2016-01-01

The skeletal muscle stem cell niche provides an environment that maintains quiescent satellite cells, required for skeletal muscle homeostasis and regeneration. Syndecan-3, a transmembrane proteoglycan expressed in satellite cells, supports communication with the niche, providing cell interactions and signals to maintain quiescent satellite cells. Syndecan-3 ablation unexpectedly improves regeneration in repeatedly injured muscle and in dystrophic mice, accompanied by the persistence of sublaminar and interstitial, proliferating myoblasts. Additionally, muscle aging is improved in syndecan-3 null mice. Since syndecan-3 null myofiber-associated satellite cells downregulate Pax7 and migrate away from the niche more readily than wild type cells, syxndecan-3 appears to regulate satellite cell homeostasis and satellite cell homing to the niche. Manipulating syndecan-3 provides a promising target for development of therapies to enhance muscle regeneration in muscular dystrophies and in aged muscle.

Do Hypervolumes Have Holes?

PubMed

Blonder, Benjamin

2016-04-01

Hypervolumes are used widely to conceptualize niches and trait distributions for both species and communities. Some hypervolumes are expected to be convex, with boundaries defined by only upper and lower limits (e.g., fundamental niches), while others are expected to be maximal, with boundaries defined by the limits of available space (e.g., potential niches). However, observed hypervolumes (e.g., realized niches) could also have holes, defined as unoccupied hyperspace representing deviations from these expectations that may indicate unconsidered ecological or evolutionary processes. Detecting holes in more than two dimensions has to date not been possible. I develop a mathematical approach, implemented in the hypervolume R package, to infer holes in large and high-dimensional data sets. As a demonstration analysis, I assess evidence for vacant niches in a Galapagos finch community on Isabela Island. These mathematical concepts and software tools for detecting holes provide approaches for addressing contemporary research questions across ecology and evolutionary biology.

Multispecies coexistence of trees in tropical forests: spatial signals of topographic niche differentiation increase with environmental heterogeneity.

PubMed

Brown, C; Burslem, D F R P; Illian, J B; Bao, L; Brockelman, W; Cao, M; Chang, L W; Dattaraja, H S; Davies, S; Gunatilleke, C V S; Gunatilleke, I A U N; Huang, J; Kassim, A R; Lafrankie, J V; Lian, J; Lin, L; Ma, K; Mi, X; Nathalang, A; Noor, S; Ong, P; Sukumar, R; Su, S H; Sun, I F; Suresh, H S; Tan, S; Thompson, J; Uriarte, M; Valencia, R; Yap, S L; Ye, W; Law, R

2013-08-07

Neutral and niche theories give contrasting explanations for the maintenance of tropical tree species diversity. Both have some empirical support, but methods to disentangle their effects have not yet been developed. We applied a statistical measure of spatial structure to data from 14 large tropical forest plots to test a prediction of niche theory that is incompatible with neutral theory: that species in heterogeneous environments should separate out in space according to their niche preferences. We chose plots across a range of topographic heterogeneity, and tested whether pairwise spatial associations among species were more variable in more heterogeneous sites. We found strong support for this prediction, based on a strong positive relationship between variance in the spatial structure of species pairs and topographic heterogeneity across sites. We interpret this pattern as evidence of pervasive niche differentiation, which increases in importance with increasing environmental heterogeneity.

Using nurse practitioners to implement best practice care for the elderly during hospitalization: the NICHE journey at the University of Virginia Medical Center.

PubMed

Fletcher, Kathleen; Hawkes, Polly; Williams-Rosenthal, Suzann; Mariscal, Carol S; Cox, Betty A

2007-09-01

The Nurses Improving Care to Health System (NICHE) program has provided a valuable framework for developing initiatives that address the needs of the elderly. Three NICHE models have been implemented within the University of Virginia Health System since 1992. These include the Geriatric Resource Nurse model, the Acute Care of the Elderly model, and, most recently, the Geriatric Consultation Service model. Nurse practitioners (NPs) with geriatric expertise have provided the leadership in implementing these initiatives to achieve the goal of improving geriatric care delivery within the health system. Each NP functions in a broad role that is tailored to meet the needs of the patients and staff and includes the role components of clinician, educator, team leader, and care coordinator. Sustainability and growth of NICHE is contingent upon demonstrating favorable outcomes that can be directly attributed to NICHE.

Niche construction drives social dependence in hermit crabs.

PubMed

Laidre, Mark E

2012-10-23

Organisms can receive not only a genetic inheritance from their ancestors but also an ecological inheritance, involving modifications their ancestors made to the environment through niche construction. Ecological inheritances may persist as a legacy, potentially generating selection pressures that favor sociality. Yet, most proposed cases of sociality being impacted by an ecological inheritance come from organisms that live among close kin and were highly social before their niche construction began. Here, I show that in terrestrial hermit crabs (Coenobita compressus)--organisms that do not live with kin and reside alone, each in its own shell--niche-construction drives social dependence, such that individuals can only survive in remodeled shells handed down from conspecifics. These results suggest that niche construction can be an important initiator of evolutionary pressures to socialize, even among unrelated and otherwise asocial organisms. Copyright © 2012 Elsevier Ltd. All rights reserved.

Pollen dispersal slows geographical range shift and accelerates ecological niche shift under climate change

PubMed Central

Aguilée, Robin; Raoul, Gaël; Rousset, François; Ronce, Ophélie

2016-01-01

Species may survive climate change by migrating to track favorable climates and/or adapting to different climates. Several quantitative genetics models predict that species escaping extinction will change their geographical distribution while keeping the same ecological niche. We introduce pollen dispersal in these models, which affects gene flow but not directly colonization. We show that plant populations may escape extinction because of both spatial range and ecological niche shifts. Exact analytical formulas predict that increasing pollen dispersal distance slows the expected spatial range shift and accelerates the ecological niche shift. There is an optimal distance of pollen dispersal, which maximizes the sustainable rate of climate change. These conclusions hold in simulations relaxing several strong assumptions of our analytical model. Our results imply that, for plants with long distance of pollen dispersal, models assuming niche conservatism may not accurately predict their future distribution under climate change. PMID:27621443

A 2,000-year reconstruction of the rain-fed maize agricultural niche in the US Southwest.

PubMed

Bocinsky, R Kyle; Kohler, Timothy A

2014-12-04

Humans experience, adapt to and influence climate at local scales. Paleoclimate research, however, tends to focus on continental, hemispheric or global scales, making it difficult for archaeologists and paleoecologists to study local effects. Here we introduce a method for high-frequency, local climate-field reconstruction from tree-rings. We reconstruct the rain-fed maize agricultural niche in two regions of the southwestern United States with dense populations of prehispanic farmers. Niche size and stability are highly variable within and between the regions. Prehispanic rain-fed maize farmers tended to live in agricultural refugia--areas most reliably in the niche. The timing and trajectory of the famous thirteenth century Pueblo migration can be understood in terms of relative niche size and stability. Local reconstructions like these illuminate the spectrum of strategies past humans used to adapt to climate change by recasting climate into the distributions of resources on which they depended.

Pollen dispersal slows geographical range shift and accelerates ecological niche shift under climate change.

PubMed

Aguilée, Robin; Raoul, Gaël; Rousset, François; Ronce, Ophélie

2016-09-27

Species may survive climate change by migrating to track favorable climates and/or adapting to different climates. Several quantitative genetics models predict that species escaping extinction will change their geographical distribution while keeping the same ecological niche. We introduce pollen dispersal in these models, which affects gene flow but not directly colonization. We show that plant populations may escape extinction because of both spatial range and ecological niche shifts. Exact analytical formulas predict that increasing pollen dispersal distance slows the expected spatial range shift and accelerates the ecological niche shift. There is an optimal distance of pollen dispersal, which maximizes the sustainable rate of climate change. These conclusions hold in simulations relaxing several strong assumptions of our analytical model. Our results imply that, for plants with long distance of pollen dispersal, models assuming niche conservatism may not accurately predict their future distribution under climate change.

A method for quantifying limbal stem cell niches using OCT imaging.

PubMed

Haagdorens, Michel; Behaegel, Joséphine; Rozema, Jos; Van Gerwen, Veerle; Michiels, Sofie; Ní Dhubhghaill, Sorcha; Tassignon, Marie-José; Zakaria, Nadia

2017-09-01

To evaluate the efficacy of Fourier domain-optical coherence tomography (FD-OCT) in imaging and quantifying the limbal palisades of Vogt and to correlate these images with histological findings. The superior and inferior limbal region of both eyes of 50 healthy volunteers were imaged by FD-OCT. Images were processed and analysed using Matlab software. In vitro immunofluorescent staining of a cadaveric donor limbus was analysed to correlate the presence of stem cells in the visualised structures. FD-OCT could successfully visualise limbal crypts and the palisades of Vogt in the limbus region. Fluorescent labelling confirmed the presence of stem cells in these structures. The mean palisade ridge width (Δ PR ) and the mean interpalisade epithelial rete peg width (Δ ERP ) were both of the order of 72 μm, leading to a palisade density (PD) of about 7.4 palisades/mm . A significant difference in Δ PR , Δ ERP and PD was seen between the inferior and superior sides of the right eye and the superior sides of the left and right eye(p<0.05.). A significant influence of iris colour on parameters Δ PR , Δ ERP and PD was found, and of age on PD and Δ ERP (p<0.05). In vivo OCT imaging is a safe and effective modality to image the limbus and can be used to visualise the palisades of Vogt. Image processing using Matlab software enabled quantification and density calculation of imaged limbal palisades of Vogt. This technique may enhance targeted limbal biopsies for transplantation. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://www.bmj.com/company/products-services/rights-and-licensing/.

Species Sorting of Benthic Invertebrates in a Salinity Gradient - Importance of Dispersal Limitation.

PubMed

Josefson, Alf B

2016-01-01

The relative importance of environment and dispersal related processes for community assembly has attracted great interest over recent decades, but few empirical studies from the marine/estuarine realm have examined the possible effects of these two types of factors in the same system. Importance of these processes was investigated in a hypothetical metacommunity of benthic invertebrates in 16 micro-tidal estuaries connected to the same open sea area. The estuaries differed in size and connectivity to the open sea and represented a salinity gradient across the estuaries. The Elements of Metacommunity Structure (EMS) approach on estuary scale was complemented with a mechanistic variance partitioning approach on sample scale to disentangle effects of factors affecting assembly of three trait groups of species with different dispersivity. A quasi-Clementsian pattern was observed for all three traits, a likely response to some latent gradient. The primary axis in the pattern was most strongly related to gradients in estuary salinity and estuary entrance width and correlation with richness indicated nestedness only in the matrix of the most dispersive trait group. In the variance partitioning approach measures of turnover and nestedness between paired samples each from different estuaries were related to environmental distance in different gradients. Distance between estuaries was unimportant suggesting importance of factors characterizing the estuaries. While the high dispersive species mainly were sorted in the salinity gradient, apparently according to their tolerance ranges towards salinity, the two less dispersive traits were additionally affected by estuary entrance width and possibly also area. The results exemplify a mechanism of community assembly in the marine realm where the niche factor salinity in conjunction with differential dispersal structure invertebrates in a metacommunity of connected estuaries, and support the idea that dispersive species are more controlled by the environment than less dispersive species.

Coccolithophore assemblage response to Black Sea Water inflow into the North Aegean Sea (NE Mediterranean)

NASA Astrophysics Data System (ADS)

Karatsolis, B.-Th.; Triantaphyllou, M. V.; Dimiza, M. D.; Malinverno, E.; Lagaria, A.; Mara, P.; Archontikis, O.; Psarra, S.

2017-10-01

This study aims to presents the species composition of living coccolithophore communities in the NE Aegean Sea, investigating their spatial and temporal variations along a north-south transect in the area receiving the inflowing surface Black Sea Water (BSW) over the deeper Levantine Water (LW) layer. Coccolithophores in the area were relatively diverse and a total of 95 species over 3 sampling periods studied were recognized using Scanning Electron Microscope (SEM) techniques. R-mode hierarchical cluster analysis distinguished two coccolithophore Groups (I, IIa, IIb, IIc) with different ecological preferences. Emiliania huxleyi was the most abundant species of Group I, whereas Syracosphaera spp., Rhabdosphaera spp. and holococcolithophores were prevailing in the highly diversified Group II assemblages. Biometric analysis conducted on E. huxleyi coccoliths from Aegean water column and Black Sea sediment trap samples, indicated that during autumn, NE Aegean specimens in samples under BSW influence were featured by unimodal distribution concerning the coccolith relative tube width, with values similar to those provided by the Black Sea specimens. In early spring, coccoliths in the stations with increased BSW influx displayed a bimodal pattern of relative tube width with smaller values found mostly in the surface layers, while the distribution became again unimodal and dominated by larger values within the deeper LW layers. In the summer period, the typical LW holococcolithophore species (Group II) presented low cell numbers in the surface layer (<20 m), which is their usual ecological niche in the Aegean Sea, compared to greater depths, therefore marking LW mass flowing beneath the less saline BSW surface lid. In contrast to Black Sea early summer bloom conditions, E. huxleyi was almost absent in the NE Aegean during the summer sampling period.

Geochemical and physical drivers of microbial community structure in hot spring ecosystems

NASA Astrophysics Data System (ADS)

Havig, J. R.; Hamilton, T. L.; Boyd, E. S.; Meyer-Dombard, D. R.; Shock, E.

2012-12-01

Microbial communities in natural systems are typically characterized using samples collected from a single time point, thereby neglecting the temporal dynamics that characterize natural systems. The composition of these communities obtained from single point samples is then related to the geochemistry and physical parameters of the environment. Since most microbial life is adapted to a relatively narrow ecological niche (multiplicity of physical and chemical parameters that characterize a local habitat), these assessments provide only modest insight into the controls on community composition. Temporal variation in temperature or geochemical composition would be expected to add another dimension to the complexity of niche space available to support microbial diversity, with systems that experience greater variation supporting a greater biodiversity until a point where the variability is too extreme. . Hot springs often exhibit significant temporal variation, both in physical as well as chemical characteristics. This is a result of subsurface processes including boiling, phase separation, and differential mixing of liquid and vapor phase constituents. These characteristics of geothermal systems, which vary significantly over short periods of time, provide ideal natural laboratories for investigating how i) the extent of microbial community biodiversity and ii) the composition of those communities are shaped by temporal fluctuations in geochemistry. Geochemical and molecular samples were collected from 17 temporally variable hot springs across Yellowstone National Park, Wyoming. Temperature measurements using data-logging thermocouples, allowing accurate determination of temperature maximums, minimums, and ranges for each collection site, were collected in parallel, along with multiple geochemical characterizations as conditions varied. There were significant variations in temperature maxima (54.5 to 90.5°C), minima (12.5 to 82.5°C), and range (3.5 to 77.5°C) for the hot spring environments that spanned ranges of pH values (2.2 to 9.0) and geochemical compositions. We characterized the abundance, composition, and phylogenetic diversity of bacterial and archaeal 16S rRNA gene assemblages in sediment/biofilm samples collected from each site. 16S data can be used as proxy for metabolic dissimilarity. We predict that temporally fluctuating environments should provide additional complexity to the system (additional niche space) capable of supporting additional taxa, which should lead to greater 16S rRNA gene diversity. However, systems with too much variability should collapse the diversity. Thus, one would expect an optimal system for variability, with respect to 16S phylogenetic diversity. Community ecology tools were then applied to model the relative influence of physical and chemical characteristics (including temperature dynamics) on the local biodiversity. The results reveal unique insight into the role of temporal environmental variation in the development of biodiverse communities and provide a platform for predicting the response of an ecosystem to temperature perturbation.

Dynamic niches in the origination and differentiation of haematopoietic stem cells

PubMed Central

Wang, Leo D.; Wagers, Amy J.

2014-01-01

Haematopoietic stem cells (HSCs) are multipotent, self-renewing progenitors that generate all mature blood cells. HSC function is tightly controlled to maintain haematopoietic homeostasis, and this regulation relies on specialized cells and factors that constitute the haematopoietic ‘niche’, or microenvironment. Recent discoveries, aided in part by technological advances in in vivo imaging, have engendered a new appreciation for the dynamic nature of the niche, identifying novel cellular and acellular niche components and uncovering fluctuations in the relative importance of these components over time. These new insights significantly improve our understanding of haematopoiesis and raise fundamental questions about what truly constitutes a stem cell niche. PMID:21886187

Donor Satellite Cell Engraftment is Significantly Augmented When the Host Niche is Preserved and Endogenous Satellite Cells are Incapacitated

PubMed Central

Boldrin, Luisa; Neal, Alice; Zammit, Peter S; Muntoni, Francesco; Morgan, Jennifer E

2012-01-01

Stem cell transplantation is already in clinical practice for certain genetic diseases and is a promising therapy for dystrophic muscle. We used the mdx mouse model of Duchenne muscular dystrophy to investigate the effect of the host satellite cell niche on the contribution of donor muscle stem cells (satellite cells) to muscle regeneration. We found that incapacitation of the host satellite cells and preservation of the muscle niche promote donor satellite cell contribution to muscle regeneration and functional reconstitution of the satellite cell compartment. But, if the host niche is not promptly refilled, or is filled by competent host satellite cells, it becomes nonfunctional and donor engraftment is negligible. Application of this regimen to aged host muscles also promotes efficient regeneration from aged donor satellite cells. In contrast, if the niche is destroyed, yet host satellite cells remain proliferation-competent, donor-derived engraftment is trivial. Thus preservation of the satellite cell niche, concomitant with functional impairment of the majority of satellite cells within dystrophic human muscles, may improve the efficiency of stem cell therapy. Stem Cells2012;30:1971–1984 PMID:22730231

Adaptation and niche construction in human prehistory: a case study from the southern Scandinavian Late Glacial

PubMed Central

Riede, Felix

2011-01-01

The niche construction model postulates that human bio-social evolution is composed of three inheritance domains, genetic, cultural and ecological, linked by feedback selection. This paper argues that many kinds of archaeological data can serve as proxies for human niche construction processes, and presents a method for investigating specific niche construction hypotheses. To illustrate this method, the repeated emergence of specialized reindeer (Rangifer tarandus) hunting/herding economies during the Late Palaeolithic (ca 14.7–11.5 kyr BP) in southern Scandinavia is analysed from a niche construction/triple-inheritance perspective. This economic relationship resulted in the eventual domestication of Rangifer. The hypothesis of whether domestication was achieved as early as the Late Palaeolithic, and whether this required the use of domesticated dogs (Canis familiaris) as hunting, herding or transport aids, is tested via a comparative analysis using material culture-based phylogenies and ecological datasets in relation to demographic/genetic proxies. Only weak evidence for sustained niche construction behaviours by prehistoric hunter–gatherer in southern Scandinavia is found, but this study nonetheless provides interesting insights into the likely processes of dog and reindeer domestication, and into processes of adaptation in Late Glacial foragers. PMID:21320895

Untangling the relationships among regional occupancy, species traits, and niche characteristics in stream invertebrates

PubMed Central

Heino, Jani; Grönroos, Mira

2014-01-01

The regional occupancy and local abundance of species are affected by various species traits, but their relative effects are poorly understood. We studied the relationships between species traits and occupancy (i.e., proportion of sites occupied) or abundance (i.e., mean local abundance at occupied sites) of stream invertebrates using small-grained data (i.e., local stream sites) across a large spatial extent (i.e., three drainage basins). We found a significant, yet rather weak, linear relationship between occupancy and abundance. However, occupancy was strongly related to niche position (NP), but it showed a weaker relationship with niche breadth (NB). Abundance was at best weakly related to these explanatory niche-based variables. Biological traits, including feeding modes, habit traits, dispersal modes and body size classes, were generally less important in accounting for variation in occupancy and abundance. Our findings showed that the regional occupancy of stream invertebrate species is mostly related to niche characteristics, in particular, NP. However, the effects of NB on occupancy were affected by the measure itself. We conclude that niche characteristics determine the regional occupancy of species at relatively large spatial extents, suggesting that species distributions are determined by environmental variation among sites. PMID:24963387

Why the Shift? Taking a Closer Look at the Growing Interest in Niche Markets and Personalized Medicine

PubMed Central

Gibson, Shannon; Raziee, Hamid R; Lemmens, Trudo

2015-01-01

Pharmaceutical research and development is increasingly focused on niche markets, most notably treatments for rare diseases and “personalized” medicine. Drawing on the results of a qualitative study of 34 key Canadian stakeholders (including drug regulators, funders, scientists, policy experts, pharmaceutical industry representatives, and patient advocates), we explore the major trends that are reportedly contributing to the growing interest of the pharmaceutical industry in niche markets. Informed by both these key informant interviews and a review of the relevant literature, our paper provides a critical analysis of the many different—and sometimes conflicting—views on the reasons for and extent of the shift toward niche markets. We consider some of the potential advantages to industry, as well the important implications and risks that arise from the increasing pursuit of niche markets and pharmacogenomics. While there are many potential benefits associated with targeted therapies and drug development for historically neglected rare diseases, niche market therapies also present evidentiary challenges (e.g., smaller clinical trials and enrichment strategies) that can make approval decisions difficult, and uncertainties remain around the true benefits of many therapies. PMID:25914853

Adaptation and niche construction in human prehistory: a case study from the southern Scandinavian Late Glacial.

PubMed

Riede, Felix

2011-03-27

The niche construction model postulates that human bio-social evolution is composed of three inheritance domains, genetic, cultural and ecological, linked by feedback selection. This paper argues that many kinds of archaeological data can serve as proxies for human niche construction processes, and presents a method for investigating specific niche construction hypotheses. To illustrate this method, the repeated emergence of specialized reindeer (Rangifer tarandus) hunting/herding economies during the Late Palaeolithic (ca 14.7-11.5 kyr BP) in southern Scandinavia is analysed from a niche construction/triple-inheritance perspective. This economic relationship resulted in the eventual domestication of Rangifer. The hypothesis of whether domestication was achieved as early as the Late Palaeolithic, and whether this required the use of domesticated dogs (Canis familiaris) as hunting, herding or transport aids, is tested via a comparative analysis using material culture-based phylogenies and ecological datasets in relation to demographic/genetic proxies. Only weak evidence for sustained niche construction behaviours by prehistoric hunter-gatherer in southern Scandinavia is found, but this study nonetheless provides interesting insights into the likely processes of dog and reindeer domestication, and into processes of adaptation in Late Glacial foragers.

High invasion potential of Hydrilla verticillata in the Americas predicted using ecological niche modeling combined with genetic data.

PubMed

Zhu, Jinning; Xu, Xuan; Tao, Qing; Yi, Panpan; Yu, Dan; Xu, Xinwei

2017-07-01

Ecological niche modeling is an effective tool to characterize the spatial distribution of suitable areas for species, and it is especially useful for predicting the potential distribution of invasive species. The widespread submerged plant Hydrilla verticillata (hydrilla) has an obvious phylogeographical pattern: Four genetic lineages occupy distinct regions in native range, and only one lineage invades the Americas. Here, we aimed to evaluate climatic niche conservatism of hydrilla in North America at the intraspecific level and explore its invasion potential in the Americas by comparing climatic niches in a phylogenetic context. Niche shift was found in the invasion process of hydrilla in North America, which is probably mainly attributed to high levels of somatic mutation. Dramatic changes in range expansion in the Americas were predicted in the situation of all four genetic lineages invading the Americas or future climatic changes, especially in South America; this suggests that there is a high invasion potential of hydrilla in the Americas. Our findings provide useful information for the management of hydrilla in the Americas and give an example of exploring intraspecific climatic niche to better understand species invasion.

Modelling the ecological niche from functional traits

PubMed Central

Kearney, Michael; Simpson, Stephen J.; Raubenheimer, David; Helmuth, Brian

2010-01-01

The niche concept is central to ecology but is often depicted descriptively through observing associations between organisms and habitats. Here, we argue for the importance of mechanistically modelling niches based on functional traits of organisms and explore the possibilities for achieving this through the integration of three theoretical frameworks: biophysical ecology (BE), the geometric framework for nutrition (GF) and dynamic energy budget (DEB) models. These three frameworks are fundamentally based on the conservation laws of thermodynamics, describing energy and mass balance at the level of the individual and capturing the prodigious predictive power of the concepts of ‘homeostasis’ and ‘evolutionary fitness’. BE and the GF provide mechanistic multi-dimensional depictions of climatic and nutritional niches, respectively, providing a foundation for linking organismal traits (morphology, physiology, behaviour) with habitat characteristics. In turn, they provide driving inputs and cost functions for mass/energy allocation within the individual as determined by DEB models. We show how integration of the three frameworks permits calculation of activity constraints, vital rates (survival, development, growth, reproduction) and ultimately population growth rates and species distributions. When integrated with contemporary niche theory, functional trait niche models hold great promise for tackling major questions in ecology and evolutionary biology. PMID:20921046

Benthic food web structure in the Comau fjord, Chile (∼42°S): Preliminary assessment including a site with chemosynthetic activity

NASA Astrophysics Data System (ADS)

Zapata-Hernández, Germán; Sellanes, Javier; Mayr, Christoph; Muñoz, Práxedes

2014-12-01

Using C and N stable isotopes we analyzed different trophic aspects of the benthic fauna at two sites in the Comau fjord: one with presence of venting of chemically reducing fluids and extensive patches of bacterial mats (XH: X-Huinay), and one control site (PG: Punta Gruesa) with a typical fjord benthic habitat. Due to the widespread presence of such microbial patches in the fjord and their recognized trophic role in reducing environments, we hypothesize that these microbial communities could be contributing to the assimilated food of consumers and transferring carbon into high trophic levels in the food web. Food sources in the area included macroalgae with a wide range of δ13C values (-34.7 to -11.9‰), particulate organic matter (POM, δ13C = -20.1‰), terrestrial organic matter (TOM, δ13C = -32.3‰ to -27.9‰) and chemosynthetic filamentous bacteria (δ13C = ∼-33‰). At both sites, fauna depicted typical values indicating photosynthetic production as a main food source (>-20‰). However, at XH selected taxa reported lower δ13C values (e.g. -26.5‰ in Nacella deaurata), suggesting a partial use of chemosynthetic production. Furthermore, enhanced variability at this site in δ13C values of the polyplacophoran Chiton magnificus, the limpet Fissurella picta and the tanaid Zeuxoides sp. may also be responding to the use of a wider scope of primary food sources. Trophic position estimates suggest three trophic levels of consumers at both sites. However, low δ15N values in some grazer and suspension-feeder species suggest that these taxa could be using other sources still to be identified (e.g. bacterial films, microalgae and organic particles of small size-fractions). Furthermore, between-site comparisons of isotopic niche width measurements in some trophic guilds indicate that grazers from XH have more heterogenic trophic niches than at PG (measured as mean distance to centroid and standard deviation of nearest neighbor distance). This last could be ascribed to the utilization of a mixture of photosynthetic and chemosynthetic carbon sources. In addition, corrected standard ellipses area (SEAc) values in suspension-feeders and carnivores at both sites suggest a similar magnitude of exploitation of food sources. However, grazers from XH have a greater expansion of their isotopic niche (SEAc), probably explained by the presence of species with low δ13C and δ15N values, and directly associated to chemosynthetic carbon incorporation.

Concise Review: Conceptualizing Paralogous Stem-Cell Niches and Unfolding Bone Marrow Progenitor Cell Identities.

PubMed

Chen, Kevin G; Johnson, Kory R; McKay, Ronald D G; Robey, Pamela G

2018-01-01

Lineage commitment and differentiation of skeletal stem cells/bone marrow stromal cells (SSCs/BMSCs, often called bone marrow-derived "mesenchymal stem/stromal" cells) offer an important opportunity to study skeletal and hematopoietic diseases, and for tissue engineering and regenerative medicine. Currently, many studies in this field have relied on cell lineage tracing methods in mouse models, which have provided a significant advancement in our knowledge of skeletal and hematopoietic stem-cell niches in bone marrow (BM). However, there is a lack of agreement in numerous fundamental areas, including origins of various BM stem-cell niches, cell identities, and their physiological roles in the BM. In order to resolve these issues, we propose a new hypothesis of "paralogous" stem-cell niches (PSNs); that is, progressively altered parallel niches within an individual species throughout the life span of the organism. A putative PSN code seems to be plausible based on analysis of transcriptional signatures in two representative genes that encode Nes-GFP and leptin receptors, which are frequently used to monitor SSC lineage development in BM. Furthermore, we suggest a dynamic paralogous BM niche (PBMN) model that elucidates the coupling and uncoupling mechanisms between BM stem-cell niches and their zones of active regeneration during different developmental stages. Elucidation of these PBMNs would enable us to resolve the existing controversies, thus paving the way to achieving precision regenerative medicine and pharmaceutical applications based on these BM cell resources. Stem Cells 2018;36:11-21. © 2017 AlphaMed Press.

Advances and Limitations of Disease Biogeography Using Ecological Niche Modeling

PubMed Central

Escobar, Luis E.; Craft, Meggan E.

2016-01-01

Mapping disease transmission risk is crucial in public and animal health for evidence based decision-making. Ecology and epidemiology are highly related disciplines that may contribute to improvements in mapping disease, which can be used to answer health related questions. Ecological niche modeling is increasingly used for understanding the biogeography of diseases in plants, animals, and humans. However, epidemiological applications of niche modeling approaches for disease mapping can fail to generate robust study designs, producing incomplete or incorrect inferences. This manuscript is an overview of the history and conceptual bases behind ecological niche modeling, specifically as applied to epidemiology and public health; it does not pretend to be an exhaustive and detailed description of ecological niche modeling literature and methods. Instead, this review includes selected state-of-the-science approaches and tools, providing a short guide to designing studies incorporating information on the type and quality of the input data (i.e., occurrences and environmental variables), identification and justification of the extent of the study area, and encourages users to explore and test diverse algorithms for more informed conclusions. We provide a friendly introduction to the field of disease biogeography presenting an updated guide for researchers looking to use ecological niche modeling for disease mapping. We anticipate that ecological niche modeling will soon be a critical tool for epidemiologists aiming to map disease transmission risk, forecast disease distribution under climate change scenarios, and identify landscape factors triggering outbreaks. PMID:27547199

Ecological differentiation of diploid and polyploid cytotypes of Senecio carniolicus sensu lato (Asteraceae) is stronger in areas of sympatry.

PubMed

Sonnleitner, Michaela; Hülber, Karl; Flatscher, Ruth; Escobar García, Pedro; Winkler, Manuela; Suda, Jan; Schönswetter, Peter; Schneeweiss, Gerald M

2016-02-01

Ecological differentiation is recognized as an important factor for polyploid speciation, but little is known regarding whether the ecological niches of cytotypes differ between areas of sympatry and areas where single cytotypes occur (i.e. niche displacement). Ecological niches of four groups of Senecio carniolicus sensu lato (s.l.) (western and eastern diploid lineages, tetraploids and hexaploids) were characterized via Landolt indicator values of the accompanying vascular plant species and tested using multivariate and univariate statistics. The four groups of S. carniolicus s.l. were ecologically differentiated mainly with respect to temperature, light and soil (humus content, nutrients, moisture variability). Niche breadths did not differ significantly. In areas of sympatry hexaploids shifted towards sites with higher temperature, less light and higher soil humus content as compared with homoploid sites, whereas diploids and tetraploids shifted in the opposite direction. In heteroploid sites of tetraploids and the western diploid lineage the latter shifted towards sites with lower humus content but higher aeration. Niche displacement can facilitate the formation of stable contact zones upon secondary contact of polyploids and their lower-ploid ancestors and/or lead to convergence of the cytotypes' niches after they have attained non-overlapping ranges. Niche displacement is essential for understanding ecological consequences of polyploidy. © The Author 2015. Published by Oxford University Press on behalf of the Annals of Botany Company. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Advances and Limitations of Disease Biogeography Using Ecological Niche Modeling.

PubMed

Escobar, Luis E; Craft, Meggan E

2016-01-01

Mapping disease transmission risk is crucial in public and animal health for evidence based decision-making. Ecology and epidemiology are highly related disciplines that may contribute to improvements in mapping disease, which can be used to answer health related questions. Ecological niche modeling is increasingly used for understanding the biogeography of diseases in plants, animals, and humans. However, epidemiological applications of niche modeling approaches for disease mapping can fail to generate robust study designs, producing incomplete or incorrect inferences. This manuscript is an overview of the history and conceptual bases behind ecological niche modeling, specifically as applied to epidemiology and public health; it does not pretend to be an exhaustive and detailed description of ecological niche modeling literature and methods. Instead, this review includes selected state-of-the-science approaches and tools, providing a short guide to designing studies incorporating information on the type and quality of the input data (i.e., occurrences and environmental variables), identification and justification of the extent of the study area, and encourages users to explore and test diverse algorithms for more informed conclusions. We provide a friendly introduction to the field of disease biogeography presenting an updated guide for researchers looking to use ecological niche modeling for disease mapping. We anticipate that ecological niche modeling will soon be a critical tool for epidemiologists aiming to map disease transmission risk, forecast disease distribution under climate change scenarios, and identify landscape factors triggering outbreaks.

Innovation in Deep Space Habitat Interior Design: Lessons Learned From Small Space Design in Terrestrial Architecture

NASA Technical Reports Server (NTRS)

Simon, Matthew A.; Toups, Larry

2014-01-01

Increased public awareness of carbon footprints, crowding in urban areas, and rising housing costs have spawned a 'small house movement' in the housing industry. Members of this movement desire small, yet highly functional residences which are both affordable and sensitive to consumer comfort standards. In order to create comfortable, minimum-volume interiors, recent advances have been made in furniture design and approaches to interior layout that improve both space utilization and encourage multi-functional design for small homes, apartments, naval, and recreational vehicles. Design efforts in this evolving niche of terrestrial architecture can provide useful insights leading to innovation and efficiency in the design of space habitats for future human space exploration missions. This paper highlights many of the cross-cutting architectural solutions used in small space design which are applicable to the spacecraft interior design problem. Specific solutions discussed include reconfigurable, multi-purpose spaces; collapsible or transformable furniture; multi-purpose accommodations; efficient, space saving appliances; stowable and mobile workstations; and the miniaturization of electronics and computing hardware. For each of these design features, descriptions of how they save interior volume or mitigate other small space issues such as confinement stress or crowding are discussed. Finally, recommendations are provided to provide guidance for future designs and identify potential collaborations with the small spaces design community.

Dome-like behaviour at Mt. Etna: The case of the 28 December 2014 South East Crater paroxysm.

PubMed

Ferlito, C; Bruno, V; Salerno, G; Caltabiano, T; Scandura, D; Mattia, M; Coltorti, M

2017-07-13

On the 28 December 2014, a violent and short paroxysmal eruption occurred at the South East Crater (SEC) of Mount Etna that led to the formation of huge niches on the SW and NE flanks of the SEC edifice from which a volume of ~3 × 10 6  m 3 of lava was erupted. Two basaltic lava flows discharged at a rate of ~370 m 3 /s, reaching a maximum distance of ~5 km. The seismicity during the event was scarce and the eruption was not preceded by any notable ground deformation, which instead was dramatic during and immediately after the event. The SO 2 flux associated with the eruption was relatively low and even decreased few days before. Observations suggest that the paroxysm was not related to the ascent of volatile-rich fresh magma from a deep reservoir (dyke intrusion), but instead to a collapse of a portion of SEC, similar to what happens on exogenous andesitic domes. The sudden and fast discharge eventually triggered a depressurization in the shallow volcano plumbing system that drew up fresh magma from depth. Integration of data and observations has allowed to formulate a novel interpretation of mechanism leading volcanic activity at Mt. Etna and on basaltic volcanoes worldwide.

Picosecond timing resolution detection of ggr-photons utilizing microchannel-plate detectors: experimental tests of quantum nonlocality and photon localization

NASA Astrophysics Data System (ADS)

Irby, Victor D.

2004-09-01

The concept and subsequent experimental verification of the proportionality between pulse amplitude and detector transit time for microchannel-plate detectors is presented. This discovery has led to considerable improvement in the overall timing resolution for detection of high-energy ggr-photons. Utilizing a 22Na positron source, a full width half maximum (FWHM) timing resolution of 138 ps has been achieved. This FWHM includes detector transit-time spread for both chevron-stack-type detectors, timing spread due to uncertainties in annihilation location, all electronic uncertainty and any remaining quantum mechanical uncertainty. The first measurement of the minimum quantum uncertainty in the time interval between detection of the two annihilation photons is reported. The experimental results give strong evidence against instantaneous spatial localization of ggr-photons due to measurement-induced nonlocal quantum wavefunction collapse. The experimental results are also the first that imply momentum is conserved only after the quantum uncertainty in time has elapsed (Yukawa H 1935 Proc. Phys. Math. Soc. Japan 17 48).

Slip pulse and resonance of the Kathmandu basin during the 2015 Gorkha earthquake, Nepal

NASA Astrophysics Data System (ADS)

Galetzka, J.; Melgar, D.; Genrich, J. F.; Geng, J.; Owen, S.; Lindsey, E. O.; Xu, X.; Bock, Y.; Avouac, J.-P.; Adhikari, L. B.; Upreti, B. N.; Pratt-Sitaula, B.; Bhattarai, T. N.; Sitaula, B. P.; Moore, A.; Hudnut, K. W.; Szeliga, W.; Normandeau, J.; Fend, M.; Flouzat, M.; Bollinger, L.; Shrestha, P.; Koirala, B.; Gautam, U.; Bhatterai, M.; Gupta, R.; Kandel, T.; Timsina, C.; Sapkota, S. N.; Rajaure, S.; Maharjan, N.

2015-09-01

Detailed geodetic imaging of earthquake ruptures enhances our understanding of earthquake physics and associated ground shaking. The 25 April 2015 moment magnitude 7.8 earthquake in Gorkha, Nepal was the first large continental megathrust rupture to have occurred beneath a high-rate (5-hertz) Global Positioning System (GPS) network. We used GPS and interferometric synthetic aperture radar data to model the earthquake rupture as a slip pulse ~20 kilometers in width, ~6 seconds in duration, and with a peak sliding velocity of 1.1 meters per second, which propagated toward the Kathmandu basin at ~3.3 kilometers per second over ~140 kilometers. The smooth slip onset, indicating a large (~5-meter) slip-weakening distance, caused moderate ground shaking at high frequencies (>1 hertz; peak ground acceleration, ~16% of Earth’s gravity) and minimized damage to vernacular dwellings. Whole-basin resonance at a period of 4 to 5 seconds caused the collapse of tall structures, including cultural artifacts.

Slip pulse and resonance of the Kathmandu basin during the 2015 Gorkha earthquake, Nepal.

PubMed

Galetzka, J; Melgar, D; Genrich, J F; Geng, J; Owen, S; Lindsey, E O; Xu, X; Bock, Y; Avouac, J-P; Adhikari, L B; Upreti, B N; Pratt-Sitaula, B; Bhattarai, T N; Sitaula, B P; Moore, A; Hudnut, K W; Szeliga, W; Normandeau, J; Fend, M; Flouzat, M; Bollinger, L; Shrestha, P; Koirala, B; Gautam, U; Bhatterai, M; Gupta, R; Kandel, T; Timsina, C; Sapkota, S N; Rajaure, S; Maharjan, N

2015-09-04

Detailed geodetic imaging of earthquake ruptures enhances our understanding of earthquake physics and associated ground shaking. The 25 April 2015 moment magnitude 7.8 earthquake in Gorkha, Nepal was the first large continental megathrust rupture to have occurred beneath a high-rate (5-hertz) Global Positioning System (GPS) network. We used GPS and interferometric synthetic aperture radar data to model the earthquake rupture as a slip pulse ~20 kilometers in width, ~6 seconds in duration, and with a peak sliding velocity of 1.1 meters per second, which propagated toward the Kathmandu basin at ~3.3 kilometers per second over ~140 kilometers. The smooth slip onset, indicating a large (~5-meter) slip-weakening distance, caused moderate ground shaking at high frequencies (>1 hertz; peak ground acceleration, ~16% of Earth's gravity) and minimized damage to vernacular dwellings. Whole-basin resonance at a period of 4 to 5 seconds caused the collapse of tall structures, including cultural artifacts. Copyright © 2015, American Association for the Advancement of Science.

The scaling of complex craters

NASA Technical Reports Server (NTRS)

Croft, S. K.

1985-01-01

The empirical relation between the transient crater diameter (Dg) and final crater diameter (Dr) of complex craters and basins is estimated using cumulative terrace widths, central uplift diameters, continuous ejecta radii, and transient crater reconstructions determined from lunar and terrestrial impact structures. The ratio Dg/Dr is a power law function of Dr, decreasing uniformly from unity at the diameter of the simple-complex crater morphology transition to about 0.5 for large multiring basins like Imbrium on the moon. The empirical constants in the Dg/Dr relation are interpreted physically to mean that the position of the final rim relative to the transient crater, and hence the extent of collapse, is controlled or greatly influenced by the properties of the zone of dissociated material produced by the impact shock. The continuity of the Dg/Dr relation over the entire spectrum of morphologic types from complex craters to multiring basins implies that the rims of all these structures form in the same tectonic environment despite morphologic differences.

Multivariate analyses of crater parameters and the classification of craters

NASA Technical Reports Server (NTRS)

Siegal, B. S.; Griffiths, J. C.

1974-01-01

Multivariate analyses were performed on certain linear dimensions of six genetic types of craters. A total of 320 craters, consisting of laboratory fluidization craters, craters formed by chemical and nuclear explosives, terrestrial maars and other volcanic craters, and terrestrial meteorite impact craters, authenticated and probable, were analyzed in the first data set in terms of their mean rim crest diameter, mean interior relief, rim height, and mean exterior rim width. The second data set contained an additional 91 terrestrial craters of which 19 were of experimental percussive impact and 28 of volcanic collapse origin, and which was analyzed in terms of mean rim crest diameter, mean interior relief, and rim height. Principal component analyses were performed on the six genetic types of craters. Ninety per cent of the variation in the variables can be accounted for by two components. Ninety-nine per cent of the variation in the craters formed by chemical and nuclear explosives is explained by the first component alone.

The Green Bank Ammonia Survey: Unveiling the Dynamics of the Barnard 59 Star-forming Clump

NASA Astrophysics Data System (ADS)

Redaelli, E.; Alves, F. O.; Caselli, P.; Pineda, J. E.; Friesen, R. K.; Chacón-Tanarro, A.; Matzner, C. D.; Ginsburg, A.; Rosolowsky, E.; Keown, J.; Offner, S. S. R.; Di Francesco, J.; Kirk, H.; Myers, P. C.; Hacar, A.; Cimatti, A.; Chen, H. H.; Chen, M. C.; Lee, K. I.; Seo, Y. M.

2017-12-01

Understanding the early stages of star formation is a research field of ongoing development, both theoretically and observationally. In this context, molecular data have been continuously providing observational constraints on the gas dynamics at different excitation conditions and depths in the sources. We have investigated the Barnard 59 core, the only active site of star formation in the Pipe Nebula, to achieve a comprehensive view of the kinematic properties of the source. This information was derived by simultaneously fitting ammonia inversion transition lines (1, 1) and (2, 2). Our analysis unveils the imprint of protostellar feedback, such as increasing line widths, temperature, and turbulent motions in our molecular data. Combined with complementary observations of dust thermal emission, we estimate that the core is gravitationally bound following a virial analysis. If the core is not contracting, another source of internal pressure, most likely the magnetic field, is supporting it against gravitational collapse and limits its star formation efficiency.

An origin of arc structures deeply embedded in dense molecular cloud cores

NASA Astrophysics Data System (ADS)

Matsumoto, Tomoaki; Onishi, Toshikazu; Tokuda, Kazuki; Inutsuka, Shu-ichiro

2015-04-01

We investigated the formation of arc-like structures in the infalling envelope around protostars, motivated by the recent Atacama Large Millimeter/Submillimeter Array (ALMA) observations of the high-density molecular cloud core, MC27/L1521F. We performed self-gravitational hydrodynamical numerical simulations with an adaptive mesh refinement code. A filamentary cloud with a 0.1 pc width fragments into cloud cores because of perturbations due to weak turbulence. The cloud core undergoes gravitational collapse to form multiple protostars, and gravitational torque from the orbiting protostars produces arc structures extending up to a 1000 au scale. As well as on a spatial extent, the velocity ranges of the arc structures, ˜0.5 km s-1, are in agreement with the ALMA observations. We also found that circumstellar discs are often misaligned in triple system. The misalignment is caused by the tidal interaction between the protostars when they undergo close encounters because of a highly eccentric orbit of the tight binary pair.

Venus tectonics - Initial analysis from Magellan

NASA Technical Reports Server (NTRS)

Solomon, Sean C.; Head, James W.; Kaula, William M.; Schubert, Gerald; Mckenzie, Dan

1991-01-01

The styles of lithospheric deformation, the inferred mechanical properties of the lithosphere, and their implications for the tectonic history of Venus are discussed on the basis of radar imaging and altimetry data from Magellan. Observations of the planet plains reveal a superposition of different episodes of deformation and volcanism, strain both distributed and concentrated into zones of extension and shortening, and features reflecting a crustal response to mantle dynamic processes. Lithospheric shortening and crustal thickening are represented by ridge belts and mountain belts. The latter show the evidence for extension and collapse both during and following crustal compression. Venus displays quasi-circular coronae and broad rises with linear rift zones, associated with significant volcanism. Large-offset strike-slip faults have not been observed, although horizontal shear is accommodated across broad zones of crustal shortening. On Venus strain is distributed across zones that are one to a few hundred kilometers wide, and separated by stronger and less deformed blocks hundreds of kilometers in width, as in actively deforming continental regions on earth.

Disruption of Phosphatidylcholine Monolayers and Bilayers by Perfluorobutane Sulfonate

PubMed Central

Oldham, E. Davis; Xie, Wei; Farnoud, Amir M.; Fiegel, Jennifer; Lehmler, Hans-Joachim

2012-01-01

Perfluoroalkyl acids (PFAAs) are persistent environmental contaminants resistant to biological and chemical degradation due to the presence of carbon-fluorine bonds. These compounds exhibit developmental toxicity in vitro and in vivo. The mechanisms of toxicity may involve partitioning into lipid bilayers. We investigated the interaction between perfluorobutane sulfonate (PFBS), an emerging PFAA, and model phosphatidylcholine (PC) lipid assemblies (i.e., dimyristoyl-, dipalmitoyl- and distearylphosphatidylcholine) using fluorescence anisotropy and Langmuir monolayer techniques. PFBS decreased the transition temperature and transition width of PC bilayers. The apparent membrane partition coefficients ranged from 4.9 × 102 to 8.2 × 102. The effects on each PC were comparable. The limiting molecular area of PC monolayers increased and the surface pressure at collapse decreased in a concentration-dependent manner. The compressibility of all three PCs was decreased by PFBS. In summary, PFBS disrupted different model lipid assemblies indicating potential for PFBS to be a human toxicant. However the effects of PFBS are not as pronounced as those seen with longer chain PFAAs. PMID:22834732

Accretions Disks Around Class O Protostars: The Case of VLA 1623

NASA Astrophysics Data System (ADS)

Pudritz, Ralph E.; Wilson, Christine D.; Carlstrom, John E.; Lay, Oliver P.; Hills, Richard E.; Ward-Thompson, Derek

1996-10-01

Continuum emission at 220 and 355 GHz from the prototype class 0 source VLA 1623 has been detected using the James Clerk Maxwell Telescope-Caltech Submillimeter Observatory interferometer. Gaussian fits to the data place an upper limit of 70 AU on the half-width at half-maximum radius of the emission, which implies an upper limit of ~175 AU for the cutoff radius of the circumstellar disk in the system. In the context of existing collapse models, this disk could be magnetically supported on the largest scales and have an age of ~6 x 104 yr, consistent with previous suggestions that class 0 sources are quite young. The innermost region of the disk within ~6 AU is likely to be in centrifugal support, which is likely large enough to provide a drive for the outflow according to current theoretical models. Alternatively, if 175 AU corresponds to the centrifugal radius of the disk, the age of the system is ~2 x 105 yr, closer to age estimates for class I sources.

Projections of contemporary and future climate niche for Wyoming big sagebrush (Artemisia tridentate subsp. wyomingensis): A guide for restoration

Treesearch

Shannon M. Still; Bryce A. Richardson

2015-01-01

Big sagebrush (Artemisia tridentata) is one of the most widespread and abundant plant species in the intermountain regions of western North America. This species occupies an extremely wide ecological niche ranging from the semi-arid basins to the subalpine. Within this large niche, three widespread subspecies are recognized. Montane ecoregions are occupied by...

Unveiling Current Guanaco Distribution in Chile Based upon Niche Structure of Phylogeographic Lineages: Andean Puna to Subpolar Forests

PubMed Central

González, Benito A.; Samaniego, Horacio; Marín, Juan Carlos; Estades, Cristián F.

2013-01-01

Niche description and differentiation at broad geographic scales have been recent major topics in ecology and evolution. Describing the environmental niche structure of sister taxa with known evolutionary trajectories stands out as a useful exercise in understanding niche requirements. Here we model the environmental niche structure and distribution of the recently resolved phylogeography of guanaco (Lama guanicoe) lineages on the western slope of the southern Andes. Using a maximum entropy framework, field data, and information on climate, topography, human density, and vegetation cover, we identify differences between the two subspecies (L.g.cacsilensis, L.g.guanicoe) and their intermediate-hybrid lineage, that most likely determine the distribution of this species. While aridity seems to be a major factor influencing the distribution at the species-level (annual precipitation <900 mm), we also document important differences in niche specificity for each subspecies, where distribution of Northern lineage is explained mainly by elevation (mean = 3,413 m) and precipitation seasonality (mean = 161 mm), hybrid lineage by annual precipitation (mean = 139 mm), and Southern subspecies by annual precipitation (mean = 553 mm), precipitation seasonality (mean = 21 mm) and grass cover (mean = 8.2%). Among lineages, we detected low levels of niche overlap: I (Similarity Index) = 0.06 and D (Schoener’s Similarity Index) = 0.01; and higher levels when comparing Northern and Southern subspecies with hybrids lineage (I = 0.32-0.10 and D = 0.12-0.03, respectively). This suggests that important ecological and/or evolutionary processes are shaping the niche of guanacos in Chile, producing discrepancies when comparing range distribution at the species-level (81,756 km2) with lineages-level (65,321 km2). The subspecies-specific description of niche structure is provided here based upon detailed spatial distribution of the lineages of guanacos in Chile. Such description provides a scientific tool to further develop large scale plans for habitat conservation and preservation of intraspecific genetic variability for this far ranging South American camelid, which inhabits a diversity of ecoregion types from Andean puna to subpolar forests. PMID:24265726

Change of niche in guanaco (Lama guanicoe): the effects of climate change on habitat suitability and lineage conservatism in Chile.

PubMed

Castillo, Andrea G; Alò, Dominique; González, Benito A; Samaniego, Horacio

2018-01-01

The main goal of this contribution was to define the ecological niche of the guanaco ( Lama guanicoe ), to describe potential distributional changes, and to assess the relative importance of niche conservatism and divergence processes between the two lineages described for the species ( L.g. cacsilensis and L.g. guanicoe ). We used maximum entropy to model lineage's climate niche from 3,321 locations throughout continental Chile, and developed future niche models under climate change for two extreme greenhouse gas emission scenarios (RCP2.6 and RCP8.5). We evaluated changes of the environmental niche and future distribution of the largest mammal in the Southern Cone of South America. Evaluation of niche conservatism and divergence were based on identity and background similarity tests. We show that: (a) the current geographic distribution of lineages is associated with different climatic requirements that are related to the geographic areas where these lineages are located; (b) future distribution models predict a decrease in the distribution surface under both scenarios; (c) a 3% decrease of areal protection is expected if the current distribution of protected areas is maintained, and this is expected to occur at the expense of a large reduction of high quality habitats under the best scenario; (d) current and future distribution ranges of guanaco mostly adhere to phylogenetic niche divergence hypotheses between lineages. Associating environmental variables with species ecological niche seems to be an important aspect of unveiling the particularities of, both evolutionary patterns and ecological features that species face in a changing environment. We report specific descriptions of how these patterns may play out under the most extreme climate change predictions and provide a grim outlook of the future potential distribution of guanaco in Chile. From an ecological perspective, while a slightly smaller distribution area is expected, this may come with an important reduction of available quality habitats. From the evolutionary perspective, we describe the limitations of this taxon as it experiences forces imposed by climate change dynamics.

Round Window Membrane Implantation with an Active Middle Ear Implant: A Study of the Effects on the Performance of Round Window Exposure and Transducer Tip Diameter in Human Cadaveric Temporal Bones

PubMed Central

Tringali, Stéphane; Koka, Kanthaiah; Deveze, Arnaud; Holland, N. Julian; Jenkins, Herman A.; Tollin, Daniel J.

2010-01-01

Objectives To assess the importance of 2 variables, transducer tip diameter and resection of the round window (RW) niche, affecting the optimization of the mechanical stimulation of the RW membrane with an active middle ear implant (AMEI). Materials and Methods: Ten temporal bones were prepared with combined atticotomy and facial recess approach to expose the RW. An AMEI stimulated the RW with 2 ball tip diameters (0.5 and 1.0 mm) before and after the resection of the bony rim of the RW niche. The RW drive performance, assessed by stapes velocities using laser Doppler velocimetry, was analyzed in 3 frequency ranges: low (0.25–1 kHz), medium (1–3 kHz) and high (3–8 kHz). Results Driving the RW produced mean peak stapes velocities (HEV) of 0.305 and 0.255 mm/s/V at 3.03 kHz, respectively, for the 1- and 0.5-mm tips, with the RW niche intact. Niche drilling increased the HEV to 0.73 and 0.832 mm/s/V for the 1- and 0.5-mm tips, respectively. The tip diameter produced no difference in output at low and medium frequencies; however, the 0.5-mm tip was 5 and 6 dB better than the 1-mm tip at high frequencies before and after niche drilling, respectively. Drilling the niche significantly improved the output by 4 dB at high frequencies for the 1-mm tip, and by 6 and 10 dB in the medium- and high-frequency ranges for the 0.5-mm tip. Conclusion The AMEI was able to successfully drive the RW membrane in cadaveric temporal bones using a classical facial recess approach. Stimulation of the RW membrane with an AMEI without drilling the niche is sufficient for successful hearing outputs. However, the resection of the bony rim of the RW niche significantly improved the RW stimulation at medium and higher frequencies. Drilling the niche enhances the exposure of the RW membrane and facilitates positioning the implant tip. PMID:20150727

Change of niche in guanaco (Lama guanicoe): the effects of climate change on habitat suitability and lineage conservatism in Chile

PubMed Central

Castillo, Andrea G.; González, Benito A.

2018-01-01

Background The main goal of this contribution was to define the ecological niche of the guanaco (Lama guanicoe), to describe potential distributional changes, and to assess the relative importance of niche conservatism and divergence processes between the two lineages described for the species (L.g. cacsilensis and L.g. guanicoe). Methods We used maximum entropy to model lineage’s climate niche from 3,321 locations throughout continental Chile, and developed future niche models under climate change for two extreme greenhouse gas emission scenarios (RCP2.6 and RCP8.5). We evaluated changes of the environmental niche and future distribution of the largest mammal in the Southern Cone of South America. Evaluation of niche conservatism and divergence were based on identity and background similarity tests. Results We show that: (a) the current geographic distribution of lineages is associated with different climatic requirements that are related to the geographic areas where these lineages are located; (b) future distribution models predict a decrease in the distribution surface under both scenarios; (c) a 3% decrease of areal protection is expected if the current distribution of protected areas is maintained, and this is expected to occur at the expense of a large reduction of high quality habitats under the best scenario; (d) current and future distribution ranges of guanaco mostly adhere to phylogenetic niche divergence hypotheses between lineages. Discussion Associating environmental variables with species ecological niche seems to be an important aspect of unveiling the particularities of, both evolutionary patterns and ecological features that species face in a changing environment. We report specific descriptions of how these patterns may play out under the most extreme climate change predictions and provide a grim outlook of the future potential distribution of guanaco in Chile. From an ecological perspective, while a slightly smaller distribution area is expected, this may come with an important reduction of available quality habitats. From the evolutionary perspective, we describe the limitations of this taxon as it experiences forces imposed by climate change dynamics. PMID:29868293

Unveiling current Guanaco distribution in chile based upon niche structure of phylogeographic lineages: Andean puna to subpolar forests.

PubMed

González, Benito A; Samaniego, Horacio; Marín, Juan Carlos; Estades, Cristián F

2013-01-01

Niche description and differentiation at broad geographic scales have been recent major topics in ecology and evolution. Describing the environmental niche structure of sister taxa with known evolutionary trajectories stands out as a useful exercise in understanding niche requirements. Here we model the environmental niche structure and distribution of the recently resolved phylogeography of guanaco (Lama guanicoe) lineages on the western slope of the southern Andes. Using a maximum entropy framework, field data, and information on climate, topography, human density, and vegetation cover, we identify differences between the two subspecies (L.g.cacsilensis, L.g.guanicoe) and their intermediate-hybrid lineage, that most likely determine the distribution of this species. While aridity seems to be a major factor influencing the distribution at the species-level (annual precipitation <900 mm), we also document important differences in niche specificity for each subspecies, where distribution of Northern lineage is explained mainly by elevation (mean = 3,413 m) and precipitation seasonality (mean = 161 mm), hybrid lineage by annual precipitation (mean = 139 mm), and Southern subspecies by annual precipitation (mean = 553 mm), precipitation seasonality (mean = 21 mm) and grass cover (mean = 8.2%). Among lineages, we detected low levels of niche overlap: I (Similarity Index) = 0.06 and D (Schoener's Similarity Index) = 0.01; and higher levels when comparing Northern and Southern subspecies with hybrids lineage ( I = 0.32-0.10 and D = 0.12-0.03, respectively). This suggests that important ecological and/or evolutionary processes are shaping the niche of guanacos in Chile, producing discrepancies when comparing range distribution at the species-level (81,756 km(2)) with lineages-level (65,321 km(2)). The subspecies-specific description of niche structure is provided here based upon detailed spatial distribution of the lineages of guanacos in Chile. Such description provides a scientific tool to further develop large scale plans for habitat conservation and preservation of intraspecific genetic variability for this far ranging South American camelid, which inhabits a diversity of ecoregion types from Andean puna to subpolar forests.

Evaluation of lumbar segmental instability in degenerative diseases by using a new intraoperative measurement system.

PubMed

Hasegawa, Kazuhiro; Kitahara, Ko; Hara, Toshiaki; Takano, Ko; Shimoda, Haruka; Homma, Takao

2008-03-01

In vivo quantitative measurement of lumbar segmental stability has not been established. The authors developed a new measurement system to determine intraoperative lumbar stability. The objective of this study was to clarify the biomechanical properties of degenerative lumbar segments by using the new method. Twenty-two patients with a degenerative symptomatic segment were studied and their measurements compared with those obtained in normal or asymptomatic degenerative segments (Normal group). The measurement system produces cyclic flexion-extension through spinous process holders by using a computer-controlled motion generator with all ligamentous structures intact. The following biomechanical parameters were determined: stiffness, absorption energy (AE), and neutral zone (NZ). Discs with degeneration were divided into 2 groups based on magnetic resonance imaging grading: degeneration without collapse (Collapse[-]) and degeneration with collapse (Collapse[+]). Biomechanical parameters were compared among the groups. Relationships among the biomechanical parameters and age, diagnosis, or radiographic parameters were analyzed. The mean stiffness value in the Normal group was significantly greater than that in Collapse(-) or Collapse(+) group. There was no significant difference in the average AE value among the Normal, Collapse(-), and Collapse(+) groups. The NZ in the Collapse(-) was significantly higher than in the Normal or Collapse(+) groups. Stiffness was negatively and NZ was positively correlated with age. Stiffness demonstrated a significant negative and NZ a significant positive relationship with disc height, however. There were no significant differences in stiffness between spines in the Collapse(-) and Collapse(+) groups. The values of a more sensitive parameter, NZ, were higher in Collapse(-) than in Collapse(+) groups, demonstrating that degenerative segments with preserved disc height have a latent instability compared to segments with collapsed discs.

Niche construction through phenological plasticity: life history dynamics and ecological consequences.

PubMed

Donohue, Kathleen

2005-04-01

The ability of an organism to alter the environment that it experiences has been termed 'niche construction'. Plants have several ways whereby they can determine the environment to which they are exposed at different life stages. This paper discusses three of these: plasticity in dispersal, flowering timing and germination timing. It reviews pathways through which niche construction alters evolutionary and ecological trajectories by altering the selective environment to which organisms are exposed, the phenotypic expression of plastic characters, and the expression of genetic variation. It provides examples whereby niche construction creates positive or negative feedbacks between phenotypes and environments, which in turn cause novel evolutionary constraints and novel life-history expression. Copyright New Phytologist (2005).

Effects of Cascaded Voltage Collapse and Protection of Many Induction Machine Loads upon Load Characteristics Viewed from Bulk Transmission System

NASA Astrophysics Data System (ADS)

Kumano, Teruhisa

As known well, two of the fundamental processes which give rise to voltage collapse in power systems are the on load tap changers of transformers and dynamic characteristics of loads such as induction machines. It has been well established that, comparing among these two, the former makes slower collapse while the latter makes faster. However, in realistic situations, the load level of each induction machine is not uniform and it is well expected that only a part of loads collapses first, followed by collapse process of each load which did not go into instability during the preceding collapses. In such situations the over all equivalent collapse behavior viewed from bulk transmission level becomes somewhat different from the simple collapse driven by one aggregated induction machine. This paper studies the process of cascaded voltage collapse among many induction machines by time simulation, where load distribution on a feeder line is modeled by several hundreds of induction machines and static impedance loads. It is shown that in some cases voltage collapse really cascades among induction machines, where the macroscopic load dynamics viewed from upper voltage level makes slower collapse than expected by the aggregated load model. Also shown is the effects of machine protection of induction machines, which also makes slower collapse.

Experimental evidence that evolutionary relatedness does not affect the ecological mechanisms of coexistence in freshwater green algae.

PubMed

Narwani, Anita; Alexandrou, Markos A; Oakley, Todd H; Carroll, Ian T; Cardinale, Bradley J

2013-11-01

The coexistence of competing species depends on the balance between their fitness differences, which determine their competitive inequalities, and their niche differences, which stabilise their competitive interactions. Darwin proposed that evolution causes species' niches to diverge, but the influence of evolution on relative fitness differences, and the importance of both niche and fitness differences in determining coexistence have not yet been studied together. We tested whether the phylogenetic distances between species of green freshwater algae determined their abilities to coexist in a microcosm experiment. We found that niche differences were more important in explaining coexistence than relative fitness differences, and that phylogenetic distance had no effect on either coexistence or on the sizes of niche and fitness differences. These results were corroborated by an analysis of the frequency of the co-occurrence of 325 pairwise combinations of algal taxa in > 1100 lakes across North America. Phylogenetic distance may not explain the coexistence of freshwater green algae. © 2013 John Wiley & Sons Ltd/CNRS.

Tooth, hair and claw: comparing epithelial stem cell niches of ectodermal appendages

PubMed Central

Naveau, Adrien; Seidel, Kerstin; Klein, Ophir D.

2014-01-01

The vertebrate ectoderm gives rise to organs that produce mineralized or keratinized substances, including teeth, hair, and claws. Most of these ectodermal derivatives grow continuously throughout the animal’s life and have active pools of adult stem cells that generate all the necessary cell types. These organs provide powerful systems for understanding the mechanisms that enable stem cells to regenerate or renew ectodermally derived tissues, and remarkable progress in our understanding of these systems has been made in recent years using mouse models. We briefly compare what is known about stem cells and their niches in incisors, hair follicles, and claws, and we examine expression of Gli1 as a potential example of a shared stem cell marker. We summarize some of the features, structures, and functions of the stem cell niches in these ectodermal derivatives; definition of the basic elements of the stem cell niches in these organs will provide guiding principles for identification and characterization of the niche in similar systems. PMID:24530577

Blood-brain barrier-supported neurogenesis in healthy and diseased brain.

PubMed

Pozhilenkova, Elena A; Lopatina, Olga L; Komleva, Yulia K; Salmin, Vladimir V; Salmina, Alla B

2017-05-24

Adult neurogenesis is one of the most important mechanisms contributing to brain development, learning, and memory. Alterations in neurogenesis underlie a wide spectrum of brain diseases. Neurogenesis takes place in highly specialized neurogenic niches. The concept of neurogenic niches is becoming widely accepted due to growing evidence of the important role of the microenvironment established in the close vicinity to stem cells in order to provide adequate control of cell proliferation, differentiation, and apoptosis. Neurogenic niches represent the platform for tight integration of neurogenesis and angiogenesis supported by specific properties of cerebral microvessel endothelial cells contributing to establishment of partially compromised blood-brain barrier (BBB) for the adjustment of local conditions to the current metabolic needs of stem and progenitor cells. Here, we review up-to-date data on microvascular dynamics in activity-dependent neurogenesis, specific properties of BBB in neurogenic niches, endothelial-driven mechanisms of clonogenic activity, and future perspectives for reconstructing the neurogenic niches in vitro.

Stem Cell Spheroids and Ex Vivo Niche Modeling: Rationalization and Scaling-Up.

PubMed

Chimenti, Isotta; Massai, Diana; Morbiducci, Umberto; Beltrami, Antonio Paolo; Pesce, Maurizio; Messina, Elisa

2017-04-01

Improved protocols/devices for in vitro culture of 3D cell spheroids may provide essential cues for proper growth and differentiation of stem/progenitor cells (S/PCs) in their niche, allowing preservation of specific features, such as multi-lineage potential and paracrine activity. Several platforms have been employed to replicate these conditions and to generate S/PC spheroids for therapeutic applications. However, they incompletely reproduce the niche environment, with partial loss of its highly regulated network, with additional hurdles in the field of cardiac biology, due to debated resident S/PCs therapeutic potential and clinical translation. In this contribution, the essential niche conditions (metabolic, geometric, mechanical) that allow S/PCs maintenance/commitment will be discussed. In particular, we will focus on both existing bioreactor-based platforms for the culture of S/PC as spheroids, and on possible criteria for the scaling-up of niche-like spheroids, which could be envisaged as promising tools for personalized cardiac regenerative medicine, as well as for high-throughput drug screening.

Saccharomyces cerevisiae: a nomadic yeast with no niche?

PubMed

Goddard, Matthew R; Greig, Duncan

2015-05-01

Different species are usually thought to have specific adaptations, which allow them to occupy different ecological niches. But recent neutral ecology theory suggests that species diversity can simply be the result of random sampling, due to finite population sizes and limited dispersal. Neutral models predict that species are not necessarily adapted to specific niches, but are functionally equivalent across a range of habitats. Here, we evaluate the ecology of Saccharomyces cerevisiae, one of the most important microbial species in human history. The artificial collection, concentration and fermentation of large volumes of fruit for alcohol production produce an environment in which S. cerevisiae thrives, and therefore it is assumed that fruit is the ecological niche that S. cerevisiae inhabits and has adapted to. We find very little direct evidence that S. cerevisiae is adapted to fruit, or indeed to any other specific niche. We propose instead a neutral nomad model for S. cerevisiae, which we believe should be used as the starting hypothesis in attempting to unravel the ecology of this important microbe. © FEMS 2015.

Proximity-Based Differential Single-Cell Analysis of the Niche to Identify Stem/Progenitor Cell Regulators.

PubMed

Silberstein, Lev; Goncalves, Kevin A; Kharchenko, Peter V; Turcotte, Raphael; Kfoury, Youmna; Mercier, Francois; Baryawno, Ninib; Severe, Nicolas; Bachand, Jacqueline; Spencer, Joel A; Papazian, Ani; Lee, Dongjun; Chitteti, Brahmananda Reddy; Srour, Edward F; Hoggatt, Jonathan; Tate, Tiffany; Lo Celso, Cristina; Ono, Noriaki; Nutt, Stephen; Heino, Jyrki; Sipilä, Kalle; Shioda, Toshihiro; Osawa, Masatake; Lin, Charles P; Hu, Guo-Fu; Scadden, David T

2016-10-06

Physiological stem cell function is regulated by secreted factors produced by niche cells. In this study, we describe an unbiased approach based on the differential single-cell gene expression analysis of mesenchymal osteolineage cells close to, and further removed from, hematopoietic stem/progenitor cells (HSPCs) to identify candidate niche factors. Mesenchymal cells displayed distinct molecular profiles based on their relative location. We functionally examined, among the genes that were preferentially expressed in proximal cells, three secreted or cell-surface molecules not previously connected to HSPC biology-the secreted RNase angiogenin, the cytokine IL18, and the adhesion molecule Embigin-and discovered that all of these factors are HSPC quiescence regulators. Therefore, our proximity-based differential single-cell approach reveals molecular heterogeneity within niche cells and can be used to identify novel extrinsic stem/progenitor cell regulators. Similar approaches could also be applied to other stem cell/niche pairs to advance the understanding of microenvironmental regulation of stem cell function. Copyright © 2016 Elsevier Inc. All rights reserved.

Reconstructing geographical parthenogenesis: effects of niche differentiation and reproductive mode on Holocene range expansion of an alpine plant.

PubMed

Kirchheimer, Bernhard; Wessely, Johannes; Gattringer, Andreas; Hülber, Karl; Moser, Dietmar; Schinkel, Christoph C F; Appelhans, Marc; Klatt, Simone; Caccianiga, Marco; Dellinger, Agnes; Guisan, Antoine; Kuttner, Michael; Lenoir, Jonathan; Maiorano, Luigi; Nieto-Lugilde, Diego; Plutzar, Christoph; Svenning, Jens-Christian; Willner, Wolfgang; Hörandl, Elvira; Dullinger, Stefan

2018-03-01

Asexual taxa often have larger ranges than their sexual progenitors, particularly in areas affected by Pleistocene glaciations. The reasons given for this 'geographical parthenogenesis' are contentious, with expansion of the ecological niche or colonisation advantages of uniparental reproduction assumed most important in case of plants. Here, we parameterized a spread model for the alpine buttercup Ranunculus kuepferi and reconstructed the joint Holocene range expansion of its sexual and apomictic cytotype across the European Alps under different simulation settings. We found that, rather than niche broadening or a higher migration rate, a shift of the apomict's niche towards colder conditions per se was crucial as it facilitated overcoming of topographical barriers, a factor likely relevant for many alpine apomicts. More generally, our simulations suggest potentially strong interacting effects of niche differentiation and reproductive modes on range formation of related sexual and asexual taxa arising from their differential sensitivity to minority cytotype disadvantage. © 2018 The Authors. Ecology Letters published by CNRS and John Wiley & Sons Ltd.

A Stromal Cell Niche for Human and Mouse Type 3 Innate Lymphoid Cells.

PubMed

Hoorweg, Kerim; Narang, Priyanka; Li, Zhi; Thuery, Anne; Papazian, Natalie; Withers, David R; Coles, Mark C; Cupedo, Tom

2015-11-01

Adaptive immunity critically depends on the functional compartmentalization of secondary lymphoid organs. Mesenchymal stromal cells create and maintain specialized niches that support survival, activation, and expansion of T and B cells, and integrated analysis of lymphocytes and their niche has been instrumental in understanding adaptive immunity. Lymphoid organs are also home to type 3 innate lymphoid cells (ILC3), innate effector cells essential for barrier immunity. However, a specialized stromal niche for ILC3 has not been identified. A novel lineage-tracing approach now identifies a subset of murine fetal lymphoid tissue organizer cells that gives rise exclusively to adult marginal reticular cells. Moreover, both cell types are conserved from mice to humans and colocalize with ILC3 in secondary lymphoid tissues throughout life. In sum, we provide evidence that fetal stromal organizers give rise to adult marginal reticular cells and form a dedicated stromal niche for innate ILC3 in adaptive lymphoid organs. Copyright © 2015 by The American Association of Immunologists, Inc.

c-Kit-Mediated Functional Positioning of Stem Cells to Their Niches Is Essential for Maintenance and Regeneration of Adult Hematopoiesis

PubMed Central

Kimura, Yuki; Ding, Bisen; Imai, Norikazu; Nolan, Daniel J.; Butler, Jason M.; Rafii, Shahin

2011-01-01

The mechanism by which hematopoietic stem and progenitor cells (HSPCs) through interaction with their niches maintain and reconstitute adult hematopoietic cells is unknown. To functionally and genetically track localization of HSPCs with their niches, we employed novel mutant loxPs, lox66 and lox71 and Cre-recombinase technology to conditionally delete c-Kit in adult mice, while simultaneously enabling GFP expression in the c-Kit-deficient cells. Conditional deletion of c-Kit resulted in hematopoietic failure and splenic atrophy both at steady state and after marrow ablation leading to the demise of the treated adult mice. Within the marrow, the c-Kit-expressing GFP+ cells were positioned to Kit ligand (KL)-expressing niche cells. This c-Kit-mediated cellular adhesion was essential for long-term maintenance and expansion of HSPCs. These results lay the foundation for delivering KL within specific niches to maintain and restore hematopoiesis. PMID:22046410

Drosophila Perlecan Regulates Intestinal Stem Cell Activity via Cell-Matrix Attachment

PubMed Central

You, Jia; Zhang, Yan; Li, Zhouhua; Lou, Zhefeng; Jin, Longjin; Lin, Xinhua

2014-01-01

Summary Stem cells require specialized local microenvironments, termed niches, for normal retention, proliferation, and multipotency. Niches are composed of cells together with their associated extracellular matrix (ECM). Currently, the roles of ECM in regulating niche functions are poorly understood. Here, we demonstrate that Perlecan (Pcan), a highly conserved ECM component, controls intestinal stem cell (ISC) activities and ISC-ECM attachment in Drosophila adult posterior midgut. Loss of Pcan from ISCs, but not other surrounding cells, causes ISCs to detach from underlying ECM, lose their identity, and fail to proliferate. These defects are not a result of a loss of epidermal growth factor receptor (EGFR) or Janus kinase/signal transducer and activator of transcription (JAK/STAT) signaling activity but partially depend on integrin signaling activity. We propose that Pcan secreted by ISCs confers niche properties to the adjacent ECM that is required for ISC maintenance of stem cell identity, activity, and anchorage to the niche. PMID:24936464

Neutral competition of stem cells is skewed by proliferative changes downstream of Hh and Hpo.

PubMed

Amoyel, Marc; Simons, Benjamin D; Bach, Erika A

2014-10-16

Neutral competition, an emerging feature of stem cell homeostasis, posits that individual stem cells can be lost and replaced by their neighbors stochastically, resulting in chance dominance of a clone at the niche. A single stem cell with an oncogenic mutation could bias this process and clonally spread the mutation throughout the stem cell pool. The Drosophila testis provides an ideal system for testing this model. The niche supports two stem cell populations that compete for niche occupancy. Here, we show that cyst stem cells (CySCs) conform to the paradigm of neutral competition and that clonal deregulation of either the Hedgehog (Hh) or Hippo (Hpo) pathway allows a single CySC to colonize the niche. We find that the driving force behind such behavior is accelerated proliferation. Our results demonstrate that a single stem cell colonizes its niche through oncogenic mutation by co-opting an underlying homeostatic process. © 2014 The Authors.

Predators determine how weather affects the spatial niche of lizard prey: exploring niche dynamics at a fine scale.

PubMed

Lopez-Darias, Marta; Schoener, Thomas W; Spiller, David A; Losos, Jonathan B

2012-12-01

Although abiotic and biotic factors can interact to shape the spatial niche of a species, studies that explore the interactive effects of both at a local scale are rare. We demonstrate that one of the main axes (perch height) characterizing the spatial niche of a common lizard, Anolis sagrei, varies according to the interactive effects of weather and the activity of a larger predatory lizard, Leiocephalus carinatus. Results were completely consistent: no matter how favorable the weather conditions for using the ground (mainly characterized by temperature, humidity, wind speed, rain), A. sagrei did not do so if the predator was present. Hence, great behavioral plasticity enabled A. sagrei to adjust its use of space very quickly. To the best of our knowledge, these results constitute the first field demonstration for anoles (and possibly for other animals as well) of how time-varying environmental conditions and predator presence interact to produce short-term changes in utilization along a major niche axis.

Doctoral Education in a Successful Ecological Niche: A Qualitative Exploratory Case Study of the Relationship between the Microclimate and Doctoral Students' Learning to Become a Researcher

ERIC Educational Resources Information Center

Christensen, Mette K.; Lund, Ole

2014-01-01

Scholarly communities are dependent on and often measured by their ability to attract and develop doctoral students. Recent literature suggests that most scholarly communities entail ecological niches in which the doctoral students learn the codes and practices of research. In this article, we explore the microclimate in an ecological niche of…

Predicting fundamental and realized distributions based on thermal niche: A case study of a freshwater turtle

NASA Astrophysics Data System (ADS)

Rodrigues, João Fabrício Mota; Coelho, Marco Túlio Pacheco; Ribeiro, Bruno R.

2018-04-01

Species distribution models (SDM) have been broadly used in ecology to address theoretical and practical problems. Currently, there are two main approaches to generate SDMs: (i) correlative, which is based on species occurrences and environmental predictor layers and (ii) process-based models, which are constructed based on species' functional traits and physiological tolerances. The distributions estimated by each approach are based on different components of species niche. Predictions of correlative models approach species realized niches, while predictions of process-based are more akin to species fundamental niche. Here, we integrated the predictions of fundamental and realized distributions of the freshwater turtle Trachemys dorbigni. Fundamental distribution was estimated using data of T. dorbigni's egg incubation temperature, and realized distribution was estimated using species occurrence records. Both types of distributions were estimated using the same regression approaches (logistic regression and support vector machines), both considering macroclimatic and microclimatic temperatures. The realized distribution of T. dorbigni was generally nested in its fundamental distribution reinforcing theoretical assumptions that the species' realized niche is a subset of its fundamental niche. Both modelling algorithms produced similar results but microtemperature generated better results than macrotemperature for the incubation model. Finally, our results reinforce the conclusion that species realized distributions are constrained by other factors other than just thermal tolerances.

The niche, biogeography and species interactions

PubMed Central

Wiens, John J.

2011-01-01

In this paper, I review the relevance of the niche to biogeography, and what biogeography may tell us about the niche. The niche is defined as the combination of abiotic and biotic conditions where a species can persist. I argue that most biogeographic patterns are created by niche differences over space, and that even ‘geographic barriers’ must have an ecological basis. However, we know little about specific ecological factors underlying most biogeographic patterns. Some evidence supports the importance of abiotic factors, whereas few examples exist of large-scale patterns created by biotic interactions. I also show how incorporating biogeography may offer new perspectives on resource-related niches and species interactions. Several examples demonstrate that even after a major evolutionary radiation within a region, the region can still be invaded by ecologically similar species from another clade, countering the long-standing idea that communities and regions are generally ‘saturated’ with species. I also describe the somewhat paradoxical situation where competition seems to limit trait evolution in a group, but does not prevent co-occurrence of species with similar values for that trait (called here the ‘competition–divergence–co-occurrence conundrum’). In general, the interface of biogeography and ecology could be a major area for research in both fields. PMID:21768150

Purified hematopoietic stem cell engraftment of rare niches corrects severe lymphoid deficiencies without host conditioning

PubMed Central

Bhattacharya, Deepta; Rossi, Derrick J.; Bryder, David; Weissman, Irving L.

2006-01-01

In the absence of irradiation or other cytoreductive conditioning, endogenous hematopoietic stem cells (HSCs) are thought to fill the unique niches within the bone marrow that allow maintenance of full hematopoietic potential and thus prevent productive engraftment of transplanted donor HSCs. By transplantation of purified exogenous HSCs into unconditioned congenic histocompatible strains of mice, we show that ∼0.1–1.0% of these HSC niches are available for engraftment at any given point and find no evidence that endogenous HSCs can be displaced from the niches they occupy. We demonstrate that productive engraftment of HSCs within these empty niches is inhibited by host CD4+ T cells that recognize very subtle minor histocompatibility differences. Strikingly, transplantation of purified HSCs into a panel of severe combined immunodeficient (SCID) mice leads to a rapid and complete rescue of lymphoid deficiencies through engraftment of these very rare niches and expansion of donor lymphoid progenitors. We further demonstrate that transient antibody-mediated depletion of CD4+ T cells allows short-term HSC engraftment and regeneration of B cells in a mouse model of B(-) non-SCID. These experiments provide a general mechanism by which transplanted HSCs can correct hematopoietic deficiencies without any host conditioning or with only highly specific and transient lymphoablation. PMID:16380511

[Generation of functional organs from pluripotent stem cells].

PubMed

Miyamoto, Tatsuyuki; Nakauchi, Hiromitsu

2015-10-01

Hematopoietic stem cells (HSCs) have played a major role in stem cell biology, providing many conceptual ideas and models. Among them is the concept of the "niche", a special bone-marrow microenvironment that by exchanging cues regulates stem-cell fate. The HSC niche also plays an important role in HSC transplantation. Successful engraftment of donor HSCs depends on myeloablative pretreatment to empty the niche. The concept of the stem-cell niche has now been extended to the generation of organs. We postulated that an empty "organ niche" exists in a developing animal when development of an organ is genetically disabled. This organ niche should be developmentally compensated by blastocyst complementation using wild-type primary stem cells (PSCs). We proved the principle of organogenesis from xenogeneic PSCs in an embryo unable to form a specific organ, demonstrating the generation of functionally normal rat pancreas by injecting rat PSCs into pancreatogenesis-disabled mouse embryos. This principle has held in pigs. When pancreatogenesis-disabled pig embryos underwent complementation with blastomeres from wild-type pig embryos to produce chimeric pigs, the chimeras had normal pancreata and survived to adulthood. Demonstration of the generation of a functional organ from PSCs in pigs is a very important step toward generation of human cells, tissues, and organs from individual patients' own PSCs in large animals.

Global warming not so harmful for all plants - response of holomycotrophic orchid species for the future climate change.

PubMed

Kolanowska, Marta; Kras, Marta; Lipińska, Monika; Mystkowska, Katarzyna; Szlachetko, Dariusz L; Naczk, Aleksandra M

2017-10-05

Current and expected changes in global climate are major threat for biological diversity affecting individuals, communities and ecosystems. However, there is no general trend in the plants response to the climate change. The aim of present study was to evaluate impact of the future climate changes on the distribution of holomycotrophic orchid species using ecological niche modeling approach. Three different scenarios of future climate changes were tested to obtain the most comprehensive insight in the possible habitat loss of 16 holomycotrophic orchids. The extinction of Cephalanthera austiniae was predicted in all analyses. The coverage of suitable niches of Pogoniopsis schenckii will decrease to 1-30% of its current extent. The reduction of at least 50% of climatic niche of Erythrorchis cassythoides and Limodorum abortivum will be observed. In turn, the coverage of suitable niches of Hexalectris spicata, Uleiorchis ulaei and Wullschlaegelia calcarata may be even 16-74 times larger than in the present time. The conducted niche modeling and analysis of the similarity of their climatic tolerance showed instead that the future modification of the coverage of their suitable niches will not be unified and the future climate changes may be not so harmful for holomycotrophic orchids as expected.

Climatic niche conservatism and ecological opportunity in the explosive radiation of arvicoline rodents (Arvicolinae, Cricetidae).

PubMed

Lv, Xue; Xia, Lin; Ge, Deyan; Wu, Yongjie; Yang, Qisen

2016-05-01

Climatic niche conservatism shapes patterns of diversity in many taxonomic groups, while ecological opportunity (EO) can trigger rapid speciation that is less constrained by the amount of time a lineage has occupied a given habitat. These two processes are well studied, but limited research has considered their joint and relative roles in shaping diversity patterns. We characterized climatic and biogeographic variables for 102 species of arvicoline rodents (Arvicolinae, Cricetidae), testing the effects of climatic niche conservatism and EO on arvicoline diversification as lineages transitioned between biogeographic regions. We found that the amount of time a lineage has occupied a precipitation niche is positively correlated with diversity along a precipitation gradient, suggesting climatic niche conservatism. In contrast, shift in diversification rate explained diversity patterns along a temperature gradient. Our results suggest that an indirect relationship exists between temperature and diversification that is associated with EO as arvicoline rodents colonized warm Palearctic environments. Climatic niche conservatism alone did not fully explain diversity patterns under density-dependence, highlighting the additional importance of EO-related processes in promoting the explosive radiation in arvicoline rodents and shaping diversity pattern among biogeographic regions and along climatic gradients. © 2016 The Author(s). Evolution © 2016 The Society for the Study of Evolution.

Influence of climate on the presence of colour polymorphism in two montane reptile species

PubMed Central

Broennimann, Olivier; Ursenbacher, Sylvain; Meyer, Andreas; Golay, Philippe; Monney, Jean-Claude; Schmocker, Hans; Guisan, Antoine; Dubey, Sylvain

2014-01-01

The coloration of ectotherms plays an important role in thermoregulation processes. Dark individuals should heat up faster and be able to reach a higher body temperature than light individuals and should therefore have benefits in cool areas. In central Europe, montane local populations of adder (Vipera berus) and asp viper (Vipera aspis) exhibit a varying proportion of melanistic individuals. We tested whether the presence of melanistic V. aspis and V. berus could be explained by climatic conditions. We measured the climatic niche position and breadth of monomorphic (including strictly patterned individuals) and polymorphic local populations, calculated their niche overlap and tested for niche equivalency and similarity. In accordance with expectations, niche overlap between polymorphic local populations of both species is high, and even higher than that of polymorphic versus monomorphic montane local populations of V. aspis, suggesting a predominant role of melanism in determining the niche of ectothermic vertebrates. However, unexpectedly, the niche of polymorphic local populations of both species is narrower than that of monomorphic ones, indicating that colour polymorphism does not always enable the exploitation of a greater variability of resources, at least at the intraspecific level. Overall, our results suggest that melanism might be present only when the thermoregulatory benefit is higher than the cost of predation. PMID:25392313

Stem cell niches and other factors that influence the sensitivity of bone marrow to radiation-induced bone cancer and leukaemia in children and adults

PubMed Central

Richardson, Richard B

2011-01-01

Purpose: This paper reviews and reassesses the internationally accepted niches or ‘targets’ in bone marrow that are sensitive to the induction of leukaemia and primary bone cancer by radiation. Conclusions: The hypoxic conditions of the 10 μm thick endosteal/osteoblastic niche where preleukemic stem cells and hematopoietic stem cells (HSC) reside provides a radioprotective microenvironment that is 2-to 3-fold less radiosensitive than vascular niches. This supports partitioning the whole marrow target between the low haematological cancer risk of irradiating HSC in the endosteum and the vascular niches within central marrow. There is a greater risk of induced bone cancer when irradiating a 50 μm thick peripheral marrow adjacent to the remodelling/reforming portion of the trabecular bone surface, rather than marrow next to the quiescent bone surface. This choice of partitioned bone cancer target is substantiated by the greater radiosensitivity of: (i) Bone with high remodelling rates, (ii) the young, (iii) individuals with hypermetabolic benign diseases of bone, and (iv) the epidemiology of alpha-emitting exposures. Evidence is given to show that the absence of excess bone-cancer in atomic-bomb survivors may be partially related to the extremely low prevalence among Japanese of Paget's disease of bone. Radiation-induced fibrosis and the wound healing response may be implicated in not only radiogenic bone cancers but also leukaemia. A novel biological mechanism for adaptive response, and possibility of dynamic targets, is advocated whereby stem cells migrate from vascular niches to stress-mitigated, hypoxic niches. PMID:21204614

Climatic niche evolution in New World monkeys (Platyrrhini).

PubMed

Duran, Andressa; Meyer, Andreas L S; Pie, Marcio R

2013-01-01

Despite considerable interest in recent years on species distribution modeling and phylogenetic niche conservatism, little is known about the way in which climatic niches change over evolutionary time. This knowledge is of major importance to understand the mechanisms underlying limits of species distributions, as well as to infer how different lineages might be affected by anthropogenic climate change. In this study we investigate the tempo and mode climatic niche evolution in New World monkeys (Platyrrhini). Climatic conditions found throughout the distribution of 140 primate species were investigated using a principal component analysis, which indicated that mean temperature (particularly during the winter) is the most important climatic correlate of platyrrhine geographical distributions, accounting for nearly half of the interspecific variation in climatic niches. The effects of precipitation were associated with the second principal component, particularly with respect to the dry season. When models of trait evolution were fit to scores on each of the principal component axes, significant phylogenetic signal was detected for PC1 scores, but not for PC2 scores. Interestingly, although all platyrrhine families occupied comparable regions of climatic space, some aotid species such as Aotus lemurinus, A. jorgehernandezi, and A. miconax show highly distinctive climatic niches associated with drier conditions (high PC2 scores). This shift might have been made possible by their nocturnal habits, which could serve as an exaptation that allow them to be less constrained by humidity during the night. These results underscore the usefulness of investigating explicitly the tempo and mode of climatic niche evolution and its role in determining species distributions.