The Multiple Impacts of Tropical Forest Fragmentation on Arthropod Biodiversity and on their Patterns of Interactions with Host Plants.

PubMed

Benítez-Malvido, Julieta; Dáttilo, Wesley; Martínez-Falcón, Ana Paola; Durán-Barrón, César; Valenzuela, Jorge; López, Sara; Lombera, Rafael

2016-01-01

Tropical rain forest fragmentation affects biotic interactions in distinct ways. Little is known, however, about how fragmentation affects animal trophic guilds and their patterns of interactions with host plants. In this study, we analyzed changes in biotic interactions in forest fragments by using a multitrophic approach. For this, we classified arthropods associated with Heliconia aurantiaca herbs into broad trophic guilds (omnivores, herbivores and predators) and assessed the topological structure of intrapopulation plant-arthropod networks in fragments and continuous forests. Habitat type influenced arthropod species abundance, diversity and composition with greater abundance in fragments but greater diversity in continuous forest. According to trophic guilds, coleopteran herbivores were more abundant in continuous forest and overall omnivores in fragments. Continuous forest showed a greater diversity of interactions than fragments. Only in fragments, however, did the arthropod community associated with H aurantiaca show a nested structure, suggesting novel and/or opportunistic host-arthropod associations. Plants, omnivores and predators contributed more to nestedness than herbivores. Therefore, Heliconia-arthropod network properties do not appear to be maintained in fragments mainly caused by the decrease of herbivores. Our study contributes to the understanding of the impact of fragmentation on the structure and dynamics of multitrophic arthropod communities associated with a particular plant species of the highly biodiverse tropical forests. Nevertheless, further replication of study sites is needed to strengthen the conclusion that forest fragmentation negatively affects arthropod assemblages.

The Multiple Impacts of Tropical Forest Fragmentation on Arthropod Biodiversity and on their Patterns of Interactions with Host Plants

PubMed Central

Benítez-Malvido, Julieta; Dáttilo, Wesley; Martínez-Falcón, Ana Paola; Durán-Barrón, César; Valenzuela, Jorge; López, Sara; Lombera, Rafael

2016-01-01

Tropical rain forest fragmentation affects biotic interactions in distinct ways. Little is known, however, about how fragmentation affects animal trophic guilds and their patterns of interactions with host plants. In this study, we analyzed changes in biotic interactions in forest fragments by using a multitrophic approach. For this, we classified arthropods associated with Heliconia aurantiaca herbs into broad trophic guilds (omnivores, herbivores and predators) and assessed the topological structure of intrapopulation plant-arthropod networks in fragments and continuous forests. Habitat type influenced arthropod species abundance, diversity and composition with greater abundance in fragments but greater diversity in continuous forest. According to trophic guilds, coleopteran herbivores were more abundant in continuous forest and overall omnivores in fragments. Continuous forest showed a greater diversity of interactions than fragments. Only in fragments, however, did the arthropod community associated with H aurantiaca show a nested structure, suggesting novel and/or opportunistic host-arthropod associations. Plants, omnivores and predators contributed more to nestedness than herbivores. Therefore, Heliconia-arthropod network properties do not appear to be maintained in fragments mainly caused by the decrease of herbivores. Our study contributes to the understanding of the impact of fragmentation on the structure and dynamics of multitrophic arthropod communities associated with a particular plant species of the highly biodiverse tropical forests. Nevertheless, further replication of study sites is needed to strengthen the conclusion that forest fragmentation negatively affects arthropod assemblages. PMID:26731271

Testing the Success Rate of Establishing Multitrophic Vegetation for Stream Buffer Mitigation According to Georgia DOT Specifications on Different Slope Ratios

DOT National Transportation Integrated Search

2017-02-01

Multitrophic vegetative mitigation is required for stream buffers, wetlands, and retention basins within state waters. Downslopes adjacent to linear road construction are typically steep, which creates challenges for establishment and erosion control...

Multitrophic interaction facilitates parasite-host relationship between an invasive beetle and the honey bee.

PubMed

Torto, Baldwyn; Boucias, Drion G; Arbogast, Richard T; Tumlinson, James H; Teal, Peter E A

2007-05-15

Colony defense by honey bees, Apis mellifera, is associated with stinging and mass attack, fueled by the release of alarm pheromones. Thus, alarm pheromones are critically important to survival of honey bee colonies. Here we report that in the parasitic relationship between the European honey bee and the small hive beetle, Aethina tumida, the honey bee's alarm pheromones serve a negative function because they are potent attractants for the beetle. Furthermore, we discovered that the beetles from both Africa and the United States vector a strain of Kodamaea ohmeri yeast, which produces these same honey bee alarm pheromones when grown on pollen in hives. The beetle is not a pest of African honey bees because African bees have evolved effective methods to mitigate beetle infestation. However, European honey bees, faced with disease and pest management stresses different from those experienced by African bees, are unable to effectively inhibit beetle infestation. Therefore, the environment of the European honey bee colony provides optimal conditions to promote the unique bee-beetle-yeast-pollen multitrophic interaction that facilitates effective infestation of hives at the expense of the European honey bee.

Multitrophic Cry-protein flow in Bt-cotton

USDA-ARS?s Scientific Manuscript database

Although most genetically engineered cotton plants grown today produce the insecticidal Cry-proteins Cry1Ac and Cry2Ab, studies are lacking on multitrophic Cry-protein acquisition in dual-gene cotton fields. Such field data are important for the design and interpretation of laboratory risk assessmen...

Peracetic acid is an optimal disinfectant for fish-microalgae integrated multi-trophic aquaculture systems

USDA-ARS?s Scientific Manuscript database

Integrated multi-trophic aquaculture is a promising direction for the sustainable development of aquaculture. Instead of releasing nutrition-rich waste to the environment or decomposition of nutrients via the biofilter, the ‘waste’ from fish can be recycled to produce byproducts (e.g., algae, plants...

Correlations between El Niño Southern Oscillation and changes in Nearctic-Neotropic migrant condition in Central America

Treesearch

J.D. Wolfe; C.J. Ralph

2009-01-01

Climatic changes induced by the El Niño–Southern Oscillation (ENSO) commonly influence biological systems; however, climatic variability and multitrophic interactions within tropical latitudes remain poorly understood. We examined relationships between migrant condition and ENSO during spring migration in Costa Rica. Our study is based on correlating an ENSO index with...

Enantiospecific responses of southern pine beetle (Dendroctonus frontalis) and its clerid predator, Thanasimus dubius, to a-pinene.

Treesearch

Jenny C. Staeben; Brian Sullivan; John T. Nowak; Kamal J.K. Gandhi

2015-01-01

Multi-trophic interactions between pine bark beetles, their host trees, and predators are mediated in part by volatile terpenes in host tree oleoresin that can influence aggregation and/or host finding by both prey and predator species. The southern pine beetle, Dendroctonus frontalis Zimmermann, mass-attacks pine trees in response to its aggregation pheromone combined...

Multifaceted effects of host plants on entomopathogenic nematodes.

PubMed

Hazir, Selcuk; Shapiro-Ilan, David I; Hazir, Canan; Leite, Luis G; Cakmak, Ibrahim; Olson, Dawn

2016-03-01

The success of parasites can be impacted by multi-trophic interactions. Tritrophic interactions have been observed in parasite-herbivore-host plant systems. Here we investigate aspects of multi-trophic interactions in a system involving an entomopathogenic nematode (EPN), its insect host, and host plant. Novel issues investigated include the impact of tritrophic interactions on nematode foraging behavior, the ability of EPNs to overcome negative tritrophic effects through genetic selection, and interactions with a fourth trophic level (nematode predators). We tested infectivity of the nematode, Steinernema riobrave, to corn earworm larvae (Helicoverpa zea) in three host plants, tobacco, eggplant and tomato. Tobacco reduced nematode virulence and reproduction relative to tomato and eggplant. However, successive selection (5 passages) overcame the deficiency; selected nematodes no longer exhibited reductions in phenotypic traits. Despite the loss in virulence and reproduction nematodes, first passage S. riobrave was more attracted to frass from insects fed tobacco than insects fed on other host plants. Therefore, we hypothesized the reduced virulence and reproduction in S. riobrave infecting tobacco fed insects would be based on a self-medicating tradeoff, such as deterring predation. We tested this hypothesis by assessing predatory success of the mite Sancassania polyphyllae and the springtail Sinella curviseta on nematodes reared on tobacco-fed larvae versus those fed on greater wax moth, Galleria mellonella, tomato fed larvae, or eggplant fed larvae. No advantage was observed in nematodes derived from tobacco fed larvae. In conclusion, our results indicated that insect-host plant diet has an important effect on nematode foraging, infectivity and reproduction. However, negative host plant effects, might be overcome through directed selection. We propose that host plant species should be considered when designing biocontrol programs using EPNs. Copyright © 2016 Elsevier Inc. All rights reserved.

Role of 2-hexyl, 5-propyl resorcinol production by Pseudomonas chlororaphis PCL1606 in the multitrophic interactions in the avocado rhizosphere during the biocontrol process.

PubMed

Calderón, Claudia E; de Vicente, Antonio; Cazorla, Francisco M

2014-07-01

Different bacterial traits can contribute to the biocontrol of soilborne phytopathogenic fungus. Among others, (1) antagonism, (2) competition for nutrients and niches, (3) induction of systemic resistance of the plants and (4) predation and parasitism are the most studied. Pseudomonas chlororaphis PCL1606 is an antagonistic rhizobacterium that produces the antifungal metabolite 2-hexyl, 5-propyl resorcinol (HPR). This bacterium can biologically control the avocado white root rot caused by Rosellinia necatrix. Confocal laser scanning microscopy of the avocado rhizosphere revealed that this biocontrol bacterium and the fungal pathogen compete for the same niche and presumably also for root exudate nutrients. The use of derivative mutants in the geners related to HPR biosynthesis (dar genes) revealed that the lack of HPR production by P. chlororaphis PCL1606 negatively influences the bacterial colonisation of the avocado root surface. Microscopical analysis showed that P. chlororaphis PCL1606 closely interacts and colonises the fungal hyphae, which may represent a novel biocontrol mechanism in this pseudomonad. Additionally, the presence of HPR-producing biocontrol bacteria negatively affects the ability of the fungi to infect the avocado root. HPR production negatively affects hyphal growth, leading to alterations in the R. necatrix physiology visible under microscopy, including the curling, vacuolisation and branching of hyphae, which presumably affects the colonisation and infection abilities of the fungus. This study provides the first report of multitrophic interactions in the avocado rhizosphere, advancing our understanding of the role of HPR production in those interactions. © 2014 Federation of European Microbiological Societies. Published by John Wiley & Sons Ltd. All rights reserved.

Ants have a negative rather than a positive effect on extrafloral nectaried Crotalaria pallida performance

NASA Astrophysics Data System (ADS)

Pereira, Marcela Fernandes; Trigo, José Roberto

2013-08-01

Crotalaria pallida (Fabaceae) is a pantropical plant with extrafloral nectaries (EFNs) near the reproductive structures. EFN-visiting ants attack and remove arctiid moth Utetheisa ornatrix larvae, the main pre-dispersal seed predator, but the impact of ants on C. pallida fitness is unknown. To assess this impact, we controlled ant presence on plants and evaluated the reproductive output of C. pallida with and without ants. Predatory wasps also visit EFNs, prey upon U. ornatrix larvae, and may be driven out by ants during EFN feeding. Does this agonistic interaction affect the multitrophic interaction outcome? We found it difficult to evaluate the effect of both visitors because cages excluding wasps affect plant growth and do not allow U. ornatrix oviposition. Therefore, we verified whether ant presence inhibited wasp EFN visitation and predicted that (1) if ants confer a benefit for C. pallida, any negative effect of ants on wasps would be negligible for the plant because ants would be the best guardians, and (2) if ants are poor guardians, they would negatively affect wasps and negatively impact the fitness of C. pallida. Surprisingly, we found that the number of seeds/pods significantly increased, ca. 4.7 times, after ant removal. Additionally, we unexpectedly verified that controls showed a higher percentage of herbivore bored pods than ant-excluded plants. We found that wasps spent less time visiting EFNs patrolled by ants (ca. 299 s less). These results support our second prediction and suggest that the outcome of multitrophic interactions may vary with natural enemy actors.

Towards the Integration of Niche and Network Theories.

PubMed

Godoy, Oscar; Bartomeus, Ignasi; Rohr, Rudolf P; Saavedra, Serguei

2018-04-01

The quest for understanding how species interactions modulate diversity has progressed by theoretical and empirical advances following niche and network theories. Yet, niche studies have been limited to describe coexistence within tropic levels despite incorporating information about multi-trophic interactions. Network approaches could address this limitation, but they have ignored the structure of species interactions within trophic levels. Here we call for the integration of niche and network theories to reach new frontiers of knowledge exploring how interactions within and across trophic levels promote species coexistence. This integration is possible due to the strong parallelisms in the historical development, ecological concepts, and associated mathematical tools of both theories. We provide a guideline to integrate this framework with observational and experimental studies. Copyright © 2018 Elsevier Ltd. All rights reserved.

Symbiotic polydnavirus and venom reveal parasitoid to its hyperparasitoids.

PubMed

Zhu, Feng; Cusumano, Antonino; Bloem, Janneke; Weldegergis, Berhane T; Villela, Alexandre; Fatouros, Nina E; van Loon, Joop J A; Dicke, Marcel; Harvey, Jeffrey A; Vogel, Heiko; Poelman, Erik H

2018-05-15

Symbiotic relationships may provide organisms with key innovations that aid in the establishment of new niches. For example, during oviposition, some species of parasitoid wasps, whose larvae develop inside the bodies of other insects, inject polydnaviruses into their hosts. These symbiotic viruses disrupt host immune responses, allowing the parasitoid's progeny to survive. Here we show that symbiotic polydnaviruses also have a downside to the parasitoid's progeny by initiating a multitrophic chain of interactions that reveals the parasitoid larvae to their enemies. These enemies are hyperparasitoids that use the parasitoid progeny as host for their own offspring. We found that the virus and venom injected by the parasitoid during oviposition, but not the parasitoid progeny itself, affected hyperparasitoid attraction toward plant volatiles induced by feeding of parasitized caterpillars. We identified activity of virus-related genes in the caterpillar salivary gland. Moreover, the virus affected the activity of elicitors of salivary origin that induce plant responses to caterpillar feeding. The changes in caterpillar saliva were critical in inducing plant volatiles that are used by hyperparasitoids to locate parasitized caterpillars. Our results show that symbiotic organisms may be key drivers of multitrophic ecological interactions. We anticipate that this phenomenon is widespread in nature, because of the abundance of symbiotic microorganisms across trophic levels in ecological communities. Their role should be more prominently integrated in community ecology to understand organization of natural and managed ecosystems, as well as adaptations of individual organisms that are part of these communities.

Ecological Interactions Shape the Dynamics of Seed Predation in Acrocomia aculeata (Arecaceae)

PubMed Central

Pereira, Anielle C. F.; Fonseca, Francine S. A.; Mota, Gleicielle R.; Fernandes, Ane K. C.; Fagundes, Marcílio; Reis-Júnior, Ronaldo; Faria, Maurício L.

2014-01-01

Background The complex network of direct and indirect relationships determines not only the species abundances but also the community characteristics such as diversity and stability. In this context, seed predation is a direct interaction that affects the reproductive success of the plant. For Acrocomia aculeata, the seed predation by Pachymerus cardo and Speciomerus revoili in post-dispersal may destroy more than 70% of the propagules and is influenced by the herbivory of the fruits during pre-dispersal. Fruits of plants with a higher level of herbivory during pre-dispersal are less attacked by predators in post-dispersal. We proposed a hypothesis that describes this interaction as an indirect defense mediated by fungi in a multitrophic interaction. As explanations, we proposed the predictions: i) injuries caused by herbivores in the fruits of A. aculeata favor fungal colonization and ii) the colonization of A. acuelata fruit by decomposing fungi reduces the selection of the egg-laying site by predator. Methodology/Principal Findings For prediction (i), differences in the fungal colonization in fruits with an intact or damaged epicarp were evaluated in fruits exposed in the field. For prediction (ii), we performed fruit observations in the field to determine the number of eggs of P. cardo and/or S. revoili per fruit and the amount of fungal colonization in the fruits. In another experiment, in the laboratory, we use P. cardo females in a triple-choice protocol. Each insect to choose one of the three options: healthy fruits, fruits with fungus, or an empty pot. The proposed hypothesis was corroborated. Fruits with injuries in the epicarp had a higher fungal colonization, and fruits colonized by fungi were less attractive for egg-laying by seed predators. Conclusion/Significance This study emphasizes the importance of exploring the networks of interactions between multitrophic systems to understand the dynamics and maintenance of natural populations. PMID:24875386

Dynamic Plant-Plant-Herbivore Interactions Govern Plant Growth-Defence Integration.

PubMed

de Vries, Jorad; Evers, Jochem B; Poelman, Erik H

2017-04-01

Plants downregulate their defences against insect herbivores upon impending competition for light. This has long been considered a resource trade-off, but recent advances in plant physiology and ecology suggest this mechanism is more complex. Here we propose that to understand why plants regulate and balance growth and defence, the complex dynamics in plant-plant competition and plant-herbivore interactions needs to be considered. Induced growth-defence responses affect plant competition and herbivore colonisation in space and time, which has consequences for the adaptive value of these responses. Assessing these complex interactions strongly benefits from advanced modelling tools that can model multitrophic interactions in space and time. Such an exercise will allow a critical re-evaluation why and how plants integrate defence and competition for light. Copyright © 2016 Elsevier Ltd. All rights reserved.

Modeling of nitrogen transformation in an integrated multi-trophic aquaculture (IMTA)

NASA Astrophysics Data System (ADS)

Silfiana; Widowati; Putro, S. P.; Udjiani, T.

2018-03-01

The dynamic model of nitrogen transformation in IMTA (Integrated Multi-Trophic Aquaculture) is purposed. IMTA is a polyculture with several biotas maintained in it to optimize waste recycling as a food source. The purpose of this paper is to predict nitrogen decrease and nitrogen transformation in IMTA consisting of ammonia (NH3), Nitrite (NO2) and Nitrate (NO3). Nitrogen transformation of several processes, nitrification, assimilation, and volatilization. Numerical simulations are performed by providing initial parameters and values based on a review of previous research. The numerical results show that the rate of change in nitrogen concentration in IMTA decrease and reaches stable at different times.

Multitrophic functional diversity predicts ecosystem functioning in experimental assemblages of estuarine consumers.

PubMed

Lefcheck, Jonathan S; Duffy, J Emmett

2015-11-01

The use of functional traits to explain how biodiversity affects ecosystem functioning has attracted intense interest, yet few studies have a priori altered functional diversity, especially in multitrophic communities. Here, we manipulated multivariate functional diversity of estuarine grazers and predators within multiple levels of species richness to test how species richness and functional diversity predicted ecosystem functioning in a multitrophic food web. Community functional diversity was a better predictor than species richness for the majority of ecosystem properties, based on generalized linear mixed-effects models. Combining inferences from eight traits into a single multivariate index increased prediction accuracy of these models relative to any individual trait. Structural equation modeling revealed that functional diversity of both grazers and predators was important in driving final biomass within trophic levels, with stronger effects observed for predators. We also show that different species drove different ecosystem responses, with evidence for both sampling effects and complementarity. Our study extends experimental investigations of functional trait diversity to a multilevel food web, and demonstrates that functional diversity can be more accurate and effective than species richness in predicting community biomass in a food web context.

Tropical forest loss and its multitrophic effects on insect herbivory.

PubMed

Morante-Filho, José Carlos; Arroyo-Rodríguez, Víctor; Lohbeck, Madelon; Tscharntke, Teja; Faria, Deborah

2016-12-01

Forest loss threatens biodiversity, but its potential effects on multitrophic ecological interactions are poorly understood. Insect herbivory depends on complex bottom-up (e.g., resource availability and plant antiherbivore defenses) and top-down forces (e.g., abundance of predators and herbivorous), but its determinants in human-altered tropical landscapes are largely unknown. Using structural equation models, we assessed the direct and indirect effects of forest loss on insect herbivory in 40 landscapes (115 ha each) from two regions with contrasting land-use change trajectories in the Brazilian Atlantic rainforest. We considered landscape forest cover as an exogenous predictor and (1) forest structure, (2) abundance of predators (birds and arthropods), and (3) abundance of herbivorous arthropods as endogenous predictors of insect leaf damage. From 12 predicted pathways, 11 were significant and showed that (1) leaf damage increases with forest loss (direct effect); (2) leaf damage increases with forest loss through the simplification of vegetation structure and its associated dominance of herbivorous insects (indirect effect); and further demonstrate (3) a lack of top-down control of herbivores by predators (birds and arthropods). We conclude that forest loss favors insect herbivory by undermining the bottom-up control (presumably reduced plant antiherbivore defense mechanisms) in forests dominated by fast-growing pioneer plant species, and by improving the conditions required for herbivores proliferation. © 2016 by the Ecological Society of America.

Neutral Community Dynamics and the Evolution of Species Interactions.

PubMed

Coelho, Marco Túlio P; Rangel, Thiago F

2018-04-01

A contemporary goal in ecology is to determine the ecological and evolutionary processes that generate recurring structural patterns in mutualistic networks. One of the great challenges is testing the capacity of neutral processes to replicate observed patterns in ecological networks, since the original formulation of the neutral theory lacks trophic interactions. Here, we develop a stochastic-simulation neutral model adding trophic interactions to the neutral theory of biodiversity. Without invoking ecological differences among individuals of different species, and assuming that ecological interactions emerge randomly, we demonstrate that a spatially explicit multitrophic neutral model is able to capture the recurrent structural patterns of mutualistic networks (i.e., degree distribution, connectance, nestedness, and phylogenetic signal of species interactions). Nonrandom species distribution, caused by probabilistic events of migration and speciation, create nonrandom network patterns. These findings have broad implications for the interpretation of niche-based processes as drivers of ecological networks, as well as for the integration of network structures with demographic stochasticity.

Eliciting maize defense pathways aboveground attracts belowground biocontrol agents.

PubMed

Filgueiras, Camila Cramer; Willett, Denis S; Pereira, Ramom Vasconcelos; Moino Junior, Alcides; Pareja, Martin; Duncan, Larry W

2016-11-04

Plant defense pathways mediate multitrophic interactions above and belowground. Understanding the effects of these pathways on pests and natural enemies above and belowground holds great potential for designing effective control strategies. Here we investigate the effects of aboveground stimulation of plant defense pathways on the interactions between corn, the aboveground herbivore adult Diabrotica speciosa, the belowground herbivore larval D. speciosa, and the subterranean ento-mopathogenic nematode natural enemy Heterorhabditis amazonensis. We show that adult D. speciosa recruit to aboveground herbivory and methyl salicylate treatment, that larval D. speciosa are relatively indiscriminate, and that H. amazonensis en-tomopathogenic nematodes recruit to corn fed upon by adult D. speciosa. These results suggest that entomopathogenicnematodes belowground can be highly attuned to changes in the aboveground parts of plants and that biological control can be enhanced with induced plant defense in this and similar systems.

Tree mortality from drought, insects, and their interactions in a changing climate

USGS Publications Warehouse

Anderegg, William R.L.; Hicke, Jeffrey A.; Fisher, Rosie A.; Allen, Craig D.; Aukema, Juliann E.; Bentz, Barbara; Hood, Sharon; Lichstein, Jeremy W.; Macalady, Alison K.; McDowell, Nate G.; Pan, Yude; Raffa, Kenneth; Sala, Anna; Shaw, John D.; Stephenson, Nathan L.; Tague, Christina L.; Zeppel, Melanie

2015-01-01

Climate change is expected to drive increased tree mortality through drought, heat stress, and insect attacks, with manifold impacts on forest ecosystems. Yet, climate-induced tree mortality and biotic disturbance agents are largely absent from process-based ecosystem models. Using data sets from the western USA and associated studies, we present a framework for determining the relative contribution of drought stress, insect attack, and their interactions, which is critical for modeling mortality in future climates. We outline a simple approach that identifies the mechanisms associated with two guilds of insects – bark beetles and defoliators – which are responsible for substantial tree mortality. We then discuss cross-biome patterns of insect-driven tree mortality and draw upon available evidence contrasting the prevalence of insect outbreaks in temperate and tropical regions. We conclude with an overview of tools and promising avenues to address major challenges. Ultimately, a multitrophic approach that captures tree physiology, insect populations, and tree–insect interactions will better inform projections of forest ecosystem responses to climate change.

Tritrophic interactions between parasitoids and cereal aphids are mediated by nitrogen fertilizer.

PubMed

Aqueel, Muhammad A; Raza, Abu-bakar M; Balal, Rashad M; Shahid, Muhammad A; Mustafa, Irfan; Javaid, Muhammad M; Leather, Simon R

2015-12-01

Host plant nutritional quality can directly and indirectly affect the third trophic levels. The aphid-parasitoid relationship provides an ideal system to investigate tritrophic interactions (as the parasitoids are completely dependent for their development upon their hosts) and assess the bottom up forces operating at different concentrations of nitrogen applications. The effects of varying nitrogen fertilizer on the performance of Aphidius colemani (V.) reared on Sitobion avenae (F.) and Aphidius rhopalosiphi (D.) reared on Rhopalosiphum padi (L.) were measured. Parasitism and percent emergence of parasitoids were positively affected by nitrogen fertilizer treatments while developmental duration (egg, larval, and pupal stages) was not affected by increasing nitrogen inputs. In males and females of both parasitoid species, adult longevity increased with the increasing nitrogen fertilizer. Hind tibia length and mummy weight of both parasitoid species increased with nitrogen fertilizer concentrations, as a result of larger aphids. This study showed that nitrogen application to the soil can have important consequences for aboveground multitrophic interactions. © 2014 Institute of Zoology, Chinese Academy of Sciences.

The spatial scaling of species interaction networks.

PubMed

Galiana, Nuria; Lurgi, Miguel; Claramunt-López, Bernat; Fortin, Marie-Josée; Leroux, Shawn; Cazelles, Kevin; Gravel, Dominique; Montoya, José M

2018-05-01

Species-area relationships (SARs) are pivotal to understand the distribution of biodiversity across spatial scales. We know little, however, about how the network of biotic interactions in which biodiversity is embedded changes with spatial extent. Here we develop a new theoretical framework that enables us to explore how different assembly mechanisms and theoretical models affect multiple properties of ecological networks across space. We present a number of testable predictions on network-area relationships (NARs) for multi-trophic communities. Network structure changes as area increases because of the existence of different SARs across trophic levels, the preferential selection of generalist species at small spatial extents and the effect of dispersal limitation promoting beta-diversity. Developing an understanding of NARs will complement the growing body of knowledge on SARs with potential applications in conservation ecology. Specifically, combined with further empirical evidence, NARs can generate predictions of potential effects on ecological communities of habitat loss and fragmentation in a changing world.

Light availability impacts structure and function of phototrophic stream biofilms across domains and trophic levels.

PubMed

Bengtsson, Mia M; Wagner, Karoline; Schwab, Clarissa; Urich, Tim; Battin, Tom J

2018-04-21

Phototrophic biofilms are ubiquitous in freshwater and marine environments where they are critical for biogeochemical cycling, food webs and in industrial applications. In streams, phototrophic biofilms dominate benthic microbial life and harbor an immense prokaryotic and eukaryotic microbial biodiversity with biotic interactions across domains and trophic levels. Here, we examine how community structure and function of these biofilms respond to varying light availability, as the crucial energy source for phototrophic biofilms. Using metatranscriptomics, we found that under light limitation dominant phototrophs, including diatoms and cyanobacteria, displayed a remarkable plasticity in their photosynthetic machinery manifested as higher abundance of messenger RNAs (mRNAs) involved in photosynthesis and chloroplast ribosomal RNA. Under higher light availability, bacterial mRNAs involved in phosphorus metabolism, mainly from Betaproteobacteria and Cyanobacteria, increased, likely compensating for nutrient depletion in thick biofilms with high biomass. Consumers, including diverse ciliates, displayed community shifts indicating preferential grazing on algae instead of bacteria under higher light. For the first time, we show that the functional integrity of stream biofilms under variable light availability is maintained by structure-function adaptations on several trophic levels. Our findings shed new light on complex biofilms, or "microbial jungles", where in analogy to forests, diverse and multi-trophic level communities lend stability to ecosystem functioning. This multi-trophic level perspective, coupling metatranscriptomics to process measurements, could advance understanding of microbial-driven ecosystems beyond biofilms, including planktonic and soil environments. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

Microbial Eukaryotes: a Missing Link in Gut Microbiome Studies.

PubMed

Laforest-Lapointe, Isabelle; Arrieta, Marie-Claire

2018-01-01

Human-associated microbial communities include prokaryotic and eukaryotic organisms across high-level clades of the tree of life. While advances in high-throughput sequencing technology allow for the study of diverse lineages, the vast majority of studies are limited to bacteria, and very little is known on how eukaryote microbes fit in the overall microbial ecology of the human gut. As recent studies consider eukaryotes in their surveys, it is becoming increasingly clear that eukaryotes play important ecological roles in the microbiome as well as in host health. In this perspective, we discuss new evidence on eukaryotes as fundamental species of the human gut and emphasize that future microbiome studies should characterize the multitrophic interactions between microeukaryotes, other microorganisms, and the host.

Microbial Eukaryotes: a Missing Link in Gut Microbiome Studies

PubMed Central

2018-01-01

ABSTRACT Human-associated microbial communities include prokaryotic and eukaryotic organisms across high-level clades of the tree of life. While advances in high-throughput sequencing technology allow for the study of diverse lineages, the vast majority of studies are limited to bacteria, and very little is known on how eukaryote microbes fit in the overall microbial ecology of the human gut. As recent studies consider eukaryotes in their surveys, it is becoming increasingly clear that eukaryotes play important ecological roles in the microbiome as well as in host health. In this perspective, we discuss new evidence on eukaryotes as fundamental species of the human gut and emphasize that future microbiome studies should characterize the multitrophic interactions between microeukaryotes, other microorganisms, and the host. PMID:29556538

Trophic and Non-Trophic Interactions in a Biodiversity Experiment Assessed by Next-Generation Sequencing

PubMed Central

Tiede, Julia; Wemheuer, Bernd; Traugott, Michael; Daniel, Rolf; Tscharntke, Teja; Ebeling, Anne; Scherber, Christoph

2016-01-01

Plant diversity affects species richness and abundance of taxa at higher trophic levels. However, plant diversity effects on omnivores (feeding on multiple trophic levels) and their trophic and non-trophic interactions are not yet studied because appropriate methods were lacking. A promising approach is the DNA-based analysis of gut contents using next generation sequencing (NGS) technologies. Here, we integrate NGS-based analysis into the framework of a biodiversity experiment where plant taxonomic and functional diversity were manipulated to directly assess environmental interactions involving the omnivorous ground beetle Pterostichus melanarius. Beetle regurgitates were used for NGS-based analysis with universal 18S rDNA primers for eukaryotes. We detected a wide range of taxa with the NGS approach in regurgitates, including organisms representing trophic, phoretic, parasitic, and neutral interactions with P. melanarius. Our findings suggest that the frequency of (i) trophic interactions increased with plant diversity and vegetation cover; (ii) intraguild predation increased with vegetation cover, and (iii) neutral interactions with organisms such as fungi and protists increased with vegetation cover. Experimentally manipulated plant diversity likely affects multitrophic interactions involving omnivorous consumers. Our study therefore shows that trophic and non-trophic interactions can be assessed via NGS to address fundamental questions in biodiversity research. PMID:26859146

A multitrophic model to quantify the effects of marine viruses on microbial food webs and ecosystem processes

PubMed Central

Weitz, Joshua S; Stock, Charles A; Wilhelm, Steven W; Bourouiba, Lydia; Coleman, Maureen L; Buchan, Alison; Follows, Michael J; Fuhrman, Jed A; Jover, Luis F; Lennon, Jay T; Middelboe, Mathias; Sonderegger, Derek L; Suttle, Curtis A; Taylor, Bradford P; Frede Thingstad, T; Wilson, William H; Eric Wommack, K

2015-01-01

Viral lysis of microbial hosts releases organic matter that can then be assimilated by nontargeted microorganisms. Quantitative estimates of virus-mediated recycling of carbon in marine waters, first established in the late 1990s, were originally extrapolated from marine host and virus densities, host carbon content and inferred viral lysis rates. Yet, these estimates did not explicitly incorporate the cascade of complex feedbacks associated with virus-mediated lysis. To evaluate the role of viruses in shaping community structure and ecosystem functioning, we extend dynamic multitrophic ecosystem models to include a virus component, specifically parameterized for processes taking place in the ocean euphotic zone. Crucially, we are able to solve this model analytically, facilitating evaluation of model behavior under many alternative parameterizations. Analyses reveal that the addition of a virus component promotes the emergence of complex communities. In addition, biomass partitioning of the emergent multitrophic community is consistent with well-established empirical norms in the surface oceans. At steady state, ecosystem fluxes can be probed to characterize the effects that viruses have when compared with putative marine surface ecosystems without viruses. The model suggests that ecosystems with viruses will have (1) increased organic matter recycling, (2) reduced transfer to higher trophic levels and (3) increased net primary productivity. These model findings support hypotheses that viruses can have significant stimulatory effects across whole-ecosystem scales. We suggest that existing efforts to predict carbon and nutrient cycling without considering virus effects are likely to miss essential features of marine food webs that regulate global biogeochemical cycles. PMID:25635642

A multitrophic model to quantify the effects of marine viruses on microbial food webs and ecosystem processes.

PubMed

Weitz, Joshua S; Stock, Charles A; Wilhelm, Steven W; Bourouiba, Lydia; Coleman, Maureen L; Buchan, Alison; Follows, Michael J; Fuhrman, Jed A; Jover, Luis F; Lennon, Jay T; Middelboe, Mathias; Sonderegger, Derek L; Suttle, Curtis A; Taylor, Bradford P; Frede Thingstad, T; Wilson, William H; Eric Wommack, K

2015-06-01

Viral lysis of microbial hosts releases organic matter that can then be assimilated by nontargeted microorganisms. Quantitative estimates of virus-mediated recycling of carbon in marine waters, first established in the late 1990s, were originally extrapolated from marine host and virus densities, host carbon content and inferred viral lysis rates. Yet, these estimates did not explicitly incorporate the cascade of complex feedbacks associated with virus-mediated lysis. To evaluate the role of viruses in shaping community structure and ecosystem functioning, we extend dynamic multitrophic ecosystem models to include a virus component, specifically parameterized for processes taking place in the ocean euphotic zone. Crucially, we are able to solve this model analytically, facilitating evaluation of model behavior under many alternative parameterizations. Analyses reveal that the addition of a virus component promotes the emergence of complex communities. In addition, biomass partitioning of the emergent multitrophic community is consistent with well-established empirical norms in the surface oceans. At steady state, ecosystem fluxes can be probed to characterize the effects that viruses have when compared with putative marine surface ecosystems without viruses. The model suggests that ecosystems with viruses will have (1) increased organic matter recycling, (2) reduced transfer to higher trophic levels and (3) increased net primary productivity. These model findings support hypotheses that viruses can have significant stimulatory effects across whole-ecosystem scales. We suggest that existing efforts to predict carbon and nutrient cycling without considering virus effects are likely to miss essential features of marine food webs that regulate global biogeochemical cycles.

Tree mortality from drought, insects, and their interactions in a changing climate.

PubMed

Anderegg, William R L; Hicke, Jeffrey A; Fisher, Rosie A; Allen, Craig D; Aukema, Juliann; Bentz, Barbara; Hood, Sharon; Lichstein, Jeremy W; Macalady, Alison K; McDowell, Nate; Pan, Yude; Raffa, Kenneth; Sala, Anna; Shaw, John D; Stephenson, Nathan L; Tague, Christina; Zeppel, Melanie

2015-11-01

Climate change is expected to drive increased tree mortality through drought, heat stress, and insect attacks, with manifold impacts on forest ecosystems. Yet, climate-induced tree mortality and biotic disturbance agents are largely absent from process-based ecosystem models. Using data sets from the western USA and associated studies, we present a framework for determining the relative contribution of drought stress, insect attack, and their interactions, which is critical for modeling mortality in future climates. We outline a simple approach that identifies the mechanisms associated with two guilds of insects - bark beetles and defoliators - which are responsible for substantial tree mortality. We then discuss cross-biome patterns of insect-driven tree mortality and draw upon available evidence contrasting the prevalence of insect outbreaks in temperate and tropical regions. We conclude with an overview of tools and promising avenues to address major challenges. Ultimately, a multitrophic approach that captures tree physiology, insect populations, and tree-insect interactions will better inform projections of forest ecosystem responses to climate change. © 2015 The Authors. New Phytologist © 2015 New Phytologist Trust.

Indirect multi-trophic interactions mediated by induced plant resistance: impact of caterpillar feeding on aphid parasitoids

PubMed Central

Hagenbucher, Steffen; Wäckers, Felix L.; Romeis, Jörg

2014-01-01

Cotton produces insecticidal terpenoids that are induced by tissue-feeding herbivores. Damage by Heliothis virescens caterpillars increases the terpenoid content, which reduces the abundance of aphids. This effect is not evident in Bt-transgenic cotton, which is resistant to H. virescens. We determined whether induction of terpenoids by caterpillars influences the host quality of Aphis gossypii for the parasitoid Lysiphlebus testaceipes and whether this interaction is influenced by Bt cotton. The exposure of parasitoids to terpenoids was determined by quantifying terpenoids in the aphids. We detected several terpenoids in aphids and found a positive relationship between their concentrations in plants and aphids. When L. testaceipes was allowed to parasitize aphids on Bt and non-Bt cotton that was infested or uninfested with H. virescens, fewer parasitoid mummies were found on infested non-Bt than on Bt cotton. Important parasitoid life-table parameters, however, were not influenced by induced resistance following H. virescens infestation, or the Bt trait. Our study provides an example of a tritrophic indirect interaction web, where organisms are indirectly linked through changes in plant metabolites. PMID:24522627

Describing a multitrophic plant-herbivore-parasitoid system at four spatial scales

NASA Astrophysics Data System (ADS)

Cuautle, M.; Parra-Tabla, V.

2014-02-01

Herbivore-parasitoid interactions must be studied using a multitrophic and multispecies approach. The strength and direction of multiple effects through trophic levels may change across spatial scales. In this work, we use the herbaceous plant Ruellia nudiflora, its moth herbivore Tripudia quadrifera, and several parasitoid morphospecies that feed on the herbivore to answer the following questions: Do herbivore and parasitoid attack levels vary depending on the spatial scale considered? With which plant characteristics are the parasitoid and the herbivore associated? Do parasitoid morphospecies vary in the magnitude of their positive indirect effect on plant reproduction? We evaluated three approximations of herbivore and parasitoid abundance (raw numbers, ratios, and attack rates) at four spatial scales: regional (three different regions which differ in terms of abiotic and biotic characteristics); population (i.e. four populations within each region); patch (four 1 m2 plots in each population); and plant level (using a number of plant characteristics). Finally, we determined whether parasitoids have a positive indirect effect on plant reproductive success (seed number). Herbivore and parasitoid numbers differed at three of the spatial scales considered. However, herbivore/fruit ratio and attack rates did not differ at the population level. Parasitoid/host ratio and attack rates did not differ at any scale, although there was a tendency of a higher attack in one region. At the plant level, herbivore and parasitoid abundances were related to different plant traits, varying the importance and the direction (positive or negative) of those traits. In addition, only one parasitoid species (Bracon sp.) had a positive effect on plant fitness saving up to 20% of the seeds in a fruit. These results underline the importance of knowing the scales that are relevant to organisms at different trophic levels and distinguish between the specific effects of species.

Perseus Project: Interactive Teaching and Research Tools for Ancient Greek Civilization.

ERIC Educational Resources Information Center

Crane, Gregory; Harward, V. Judson

1987-01-01

Describes the Perseus Project, an educational program utilizing computer technology to study ancient Greek civilization. Including approximately 10 percent of all ancient literature and visual information on architecture, sculpture, ceramics, topography, and archaeology, the project spans a range of disciplines. States that Perseus fuels student…

Climate change effects on above- and below-ground interactions in a dryland ecosystem.

PubMed

González-Megías, Adela; Menéndez, Rosa

2012-11-19

Individual species respond to climate change by altering their abundance, distribution and phenology. Less is known, however, about how climate change affects multitrophic interactions, and its consequences for food-web dynamics. Here, we investigate the effect of future changes in rainfall patterns on detritivore-plant-herbivore interactions in a semiarid region in southern Spain by experimentally manipulating rainfall intensity and frequency during late spring-early summer. Our results show that rain intensity changes the effect of below-ground detritivores on both plant traits and above-ground herbivore abundance. Enhanced rain altered the interaction between detritivores and plants affecting flower and fruit production, and also had a direct effect on fruit and seed set. Despite this finding, there was no net effect on plant reproductive output. This finding supports the idea that plants will be less affected by climatic changes than by other trophic levels. Enhanced rain also affected the interaction between detritivores and free-living herbivores. The effect, however, was apparent only for generalist and not for specialist herbivores, demonstrating a differential response to climate change within the same trophic level. The complex responses found in this study suggest that future climate change will affect trophic levels and their interactions differentially, making extrapolation from individual species' responses and from one ecosystem to another very difficult.

Pathogenic marine microbes influence the effects of climate change on a commercially important tropical bivalve.

PubMed

Turner, Lucy M; Alsterberg, Christian; Turner, Andrew D; Girisha, S K; Rai, Ashwin; Havenhand, Jonathan N; Venugopal, M N; Karunasagar, Indrani; Godhe, Anna

2016-08-31

There is growing evidence that climate change will increase the prevalence of toxic algae and harmful bacteria, which can accumulate in marine bivalves. However, we know little about any possible interactions between exposure to these microorganisms and the effects of climate change on bivalve health, or about how this may affect the bivalve toxin-pathogen load. In mesocosm experiments, mussels, Perna viridis, were subjected to simulated climate change (warming and/or hyposalinity) and exposed to harmful bacteria and/or toxin-producing dinoflagellates. We found significant interactions between climate change and these microbes on metabolic and/or immunobiological function and toxin-pathogen load in mussels. Surprisingly, however, these effects were virtually eliminated when mussels were exposed to both harmful microorganisms simultaneously. This study is the first to examine the effects of climate change on determining mussel toxin-pathogen load in an ecologically relevant, multi-trophic context. The results may have considerable implications for seafood safety.

Consequences of tropical land use for multitrophic biodiversity and ecosystem functioning.

PubMed

Barnes, Andrew D; Jochum, Malte; Mumme, Steffen; Haneda, Noor Farikhah; Farajallah, Achmad; Widarto, Tri Heru; Brose, Ulrich

2014-10-28

Our knowledge about land-use impacts on biodiversity and ecosystem functioning is mostly limited to single trophic levels, leaving us uncertain about whole-community biodiversity-ecosystem functioning relationships. We analyse consequences of the globally important land-use transformation from tropical forests to oil palm plantations. Species diversity, density and biomass of invertebrate communities suffer at least 45% decreases from rainforest to oil palm. Combining metabolic and food-web theory, we calculate annual energy fluxes to model impacts of land-use intensification on multitrophic ecosystem functioning. We demonstrate a 51% reduction in energy fluxes from forest to oil palm communities. Species loss clearly explains variation in energy fluxes; however, this relationship depends on land-use systems and functional feeding guilds, whereby predators are the most heavily affected. Biodiversity decline from forest to oil palm is thus accompanied by even stronger reductions in functionality, threatening to severely limit the functional resilience of communities to cope with future global changes.

Palaeoproteomics for human evolution studies

NASA Astrophysics Data System (ADS)

Welker, Frido

2018-06-01

The commonplace sequencing of Neanderthal, Denisovan and ancient modern human DNA continues to revolutionize our understanding of hominin phylogeny and interaction(s). The challenge with older fossils is that the progressive fragmentation of DNA even under optimal conditions, a function of time and temperature, results in ever shorter fragments of DNA. This process continues until no DNA can be sequenced or reliably aligned. Ancient proteins ultimately suffer a similar fate, but are a potential alternative source of biomolecular sequence data to investigate hominin phylogeny given their slower rate of fragmentation. In addition, ancient proteins have been proposed to potentially provide insights into in vivo biological processes and can be used to provide additional ecological information through large scale ZooMS (Zooarchaeology by Mass Spectrometry) screening of unidentifiable bone fragments. However, as initially with ancient DNA, most ancient protein research has focused on Late Pleistocene or Holocene samples from Europe. In addition, only a limited number of studies on hominin remains have been published. Here, an updated review on ancient protein analysis in human evolutionary contexts is given, including the identification of specific knowledge gaps and existing analytical limits, as well as potential avenues to overcome these.

Diversity and natural functions of antibiotics produced by beneficial and plant pathogenic bacteria.

PubMed

Raaijmakers, Jos M; Mazzola, Mark

2012-01-01

Soil- and plant-associated environments harbor numerous bacteria that produce antibiotic metabolites with specific or broad-spectrum activities against coexisting microorganisms. The function and ecological importance of antibiotics have long been assumed to yield a survival advantage to the producing bacteria in the highly competitive but resource-limited soil environments through direct suppression. Although specific antibiotics may enhance producer persistence when challenged by competitors or predators in soil habitats, at subinhibitory concentrations antibiotics exhibit a diversity of other roles in the life history of the producing bacteria. Many processes modulated by antibiotics may be inherently critical to the producing bacterium, such as the acquisition of substrates or initiation of developmental changes that will ensure survival under stressful conditions. Antibiotics may also have roles in more complex interactions, including in virulence on host plants or in shaping the outcomes of multitrophic interactions. The innate functions of antibiotics to producing bacteria in their native ecosystem are just beginning to emerge, but current knowledge already reveals a breadth of activities well beyond the historical perspective of antibiotics as weaponry in microbial conflicts.

Bioremediation using Gracilaria lemaneiformis to manage the nitrogen and phosphorous balance in an integrated multi-trophic aquaculture system in Yantian Bay, China.

PubMed

Wei, Zhangliang; You, Jiaguo; Wu, Hailong; Yang, Fangfang; Long, Lijuan; Liu, Qiao; Huo, Yuanzi; He, Peimin

2017-08-15

To reduce negative environmental impacts from human aquaculture activities, the red alga Gracilaria lemaneiformis was co-cultured with the fish Pseudosciaena crocea in an integrated multi-trophic aquaculture (IMTA) system for 35d in Yantian Bay. The eutrophication index value decreased from 14.5 to 8.4 after seaweeds were co-cultured in cage farming areas, which indicated that the eutrophic water column in Yantian Bay could be mediated by IMTA. Total DIN and DIP of the tidal input and output were 9.23kg, 0.19kg and 11.08kg, and 0.27kg, respectively. Total 5.24kg of dissolved N and 0.81kg of dissolved P were released from IMTA system. These results indicate that G. lemaneiformis co-cultured in IMTA system could not completely remove all excess nutrients. In theory, at least 324.48kg of seaweed seedlings would be required to balance excess nutrients generated from fish cages. Copyright © 2017. Published by Elsevier Ltd.

Cuticular Lipids as a Cross-Talk among Ants, Plants and Butterflies

PubMed Central

Barbero, Francesca

2016-01-01

Even though insects and plants are distantly related organisms, they developed an integument which is functionally and structurally similar. Besides functioning as a physical barrier to cope with abiotic and biotic stress, this interface, called cuticle, is also a source of chemical signaling. Crucial compounds with this respect are surface lipids and especially cuticular hydrocarbons (CHCs). This review is focused on the role of CHCs in fostering multilevel relationships among ants, plants and Lepidoptera (primarily butterflies). Indeed, particular traits of ants as eusocial organisms allowed the evolution and the maintenance of a variety of associations with both plants and animals. Basic concepts of myrmecophilous interactions and chemical deception strategies together with chemical composition, biosynthetic pathways and functions of CHCs as molecular cues of multitrophic systems are provided. Finally, the need to adopt a multidisciplinary and comprehensive approach in the survey of complex models is discussed. PMID:27886144

Cuticular Lipids as a Cross-Talk among Ants, Plants and Butterflies.

PubMed

Barbero, Francesca

2016-11-24

Even though insects and plants are distantly related organisms, they developed an integument which is functionally and structurally similar. Besides functioning as a physical barrier to cope with abiotic and biotic stress, this interface, called cuticle, is also a source of chemical signaling. Crucial compounds with this respect are surface lipids and especially cuticular hydrocarbons (CHCs). This review is focused on the role of CHCs in fostering multilevel relationships among ants, plants and Lepidoptera (primarily butterflies). Indeed, particular traits of ants as eusocial organisms allowed the evolution and the maintenance of a variety of associations with both plants and animals. Basic concepts of myrmecophilous interactions and chemical deception strategies together with chemical composition, biosynthetic pathways and functions of CHCs as molecular cues of multitrophic systems are provided. Finally, the need to adopt a multidisciplinary and comprehensive approach in the survey of complex models is discussed.

Soil fungal effects on floral signals, rewards, and aboveground interactions in an alpine pollination web.

PubMed

Becklin, Katie M; Gamez, Guadalupe; Uelk, Bryan; Raguso, Robert A; Galen, Candace

2011-08-01

Plants interact with above- and belowground organisms; the combined effects of these interactions determine plant fitness and trait evolution. To better understand the ecological and evolutionary implications of multispecies interactions, we explored linkages between soil fungi, pollinators, and floral larcenists in Polemonium viscosum (Polemoniaceae). Using a fungicide, we experimentally reduced fungal colonization of krummholz and tundra P. viscosum in 2008-2009. We monitored floral signals and rewards, interactions with pollinators and larcenists, and seed set for fungicide-treated and control plants. Fungicide effects varied among traits, between interactions, and with environmental context. Treatment effects were negligible in 2008, but stronger in 2009, especially in the less-fertile krummholz habitat. There, fungicide increased nectar sugar content and damage by larcenist ants, but did not affect pollination. Surprisingly, fungicide also enhanced seed set, suggesting that direct resource costs of soil fungi exceed indirect benefits from reduced larceny. In the tundra, fungicide effects were negligible in both years. However, pooled across treatments, colonization by mycorrhizal fungi in 2009 correlated negatively with the intensity and diversity of floral volatile organic compounds, suggesting integrated above- and belowground signaling pathways. Fungicide effects on floral rewards in P. viscosum link soil fungi to ecological costs of pollinator attraction. Trait-specific linkages to soil fungi should decouple expression of sensitive and buffered floral phenotypes in P. viscosum. Overall, this study demonstrates how multitrophic linkages may lead to shifting selection pressures on interaction traits, restricting the evolution of specialization.

Lunar interactions: Abstracts of papers presented at the Conference on Interactions of the Interplanetary Plasma with the Modern and Ancient Moon

NASA Technical Reports Server (NTRS)

Criswell, D. R. (Editor); Freeman, J. W. (Editor)

1974-01-01

Reviewed are the active mechanisms relating the moon to its environment and the linkage between these mechanisms and their records in the lunar sample and geophysical data. Topics: (1) large scale plasma interactions with the moon and non-magnetic planets; (2) ancient and present day lunar surface magnetic and electric fields; (3) dynamics and evolution of the lunar atmosphere; (4) evolution of the solar plasma; (5) lunar record of solar radiations; (6) non-meteoritic and meteoritic disturbance and transport of lunar surface materials; and (7) future lunar exploration.

Ancient Wisdom, Applied Knowledge for a Sustainable Future

NASA Astrophysics Data System (ADS)

Peterson, K.; Philippe, R. Elde; Dardar, T. M. Elde

2017-12-01

Ancient wisdom informs traditional knowledges that guide Indigenous communities on how to interact with the world. These knowledges and the ancient wisdom have been the life-giving forces that have prevented the complete genocide of Indigenous peoples, and is also the wisdom that is rejuvenating ancient ways that will take the world into a future that embraces the seventh generation philosophy.. Western scientists and agency representatives are learning from the work and wisdom of Native Americans. This presentation will share the ways in which the representatives of two Tribes along the coast of Louisiana have been helping to educate and apply their work with Western scientists.

Hands-On Mathematics: Two Cases from Ancient Chinese Mathematics

ERIC Educational Resources Information Center

Wang, Youjun

2009-01-01

In modern mathematical teaching, it has become increasingly emphasized that mathematical knowledge should be taught by problem-solving, hands-on activities, and interactive learning experiences. Comparing the ideas of modern mathematical education with the development of ancient Chinese mathematics, we find that the history of mathematics in…

Multitrophic effects of calcium availability on invasive alien plants, birds, and bird prey items

Treesearch

Vince D' Amico; Greg Shriver; Jake Bowman; Meg Ballard; Whitney Wiest; Liz Tymkiw; Melissa Miller

2011-01-01

Acid rain alters forest soil calcium concentrations in two ways: (1) hydrogen ions displace exchangeable calcium adsorbed to soil surfaces, and (2) aluminum is released to soil water by acid rain and displaces adsorbed calcium. This increases the absorption of aluminum by plant roots, and decreases the absorption of calcium, causing calcium to be more readily leached...

Recombinant protease inhibitors for herbivore pest control: a multitrophic perspective.

PubMed

Schlüter, Urte; Benchabane, Meriem; Munger, Aurélie; Kiggundu, Andrew; Vorster, Juan; Goulet, Marie-Claire; Cloutier, Conrad; Michaud, Dominique

2010-10-01

Protease inhibitors are a promising complement to Bt toxins for the development of insect-resistant transgenic crops, but their limited specificity against proteolytic enzymes and the ubiquity of protease-dependent processes in living organisms raise questions about their eventual non-target effects in agroecosystems. After a brief overview of the main factors driving the impacts of insect-resistant transgenic crops on non-target organisms, the possible effects of protease inhibitors are discussed from a multitrophic perspective, taking into account not only the target herbivore proteases but also the proteases of other organisms found along the trophic chain, including the plant itself. Major progress has been achieved in recent years towards the design of highly potent broad-spectrum inhibitors and the field deployment of protease inhibitor-expressing transgenic plants resistant to major herbivore pests. A thorough assessment of the current literature suggests that, whereas the non-specific inhibitory effects of recombinant protease inhibitors in plant food webs could often be negligible and their 'unintended' pleiotropic effects in planta of potential agronomic value, the innocuity of these proteins might always remain an issue to be assessed empirically, on a case-by-case basis.

Insights into Ancient Human Populations and their Environment through Stable Isotope Analysis

NASA Astrophysics Data System (ADS)

Macko, S. A.

2011-12-01

Fundamental to the understanding of human history is the ability to make interpretations based on artifacts and other remains which are used to gather information about an ancient population. Sequestered in the organic matrices of these remains can be information concerning incidence of disease, population interactions, genetic defects and diet. Stable isotopes have long been used to interpret diet and trophic interactions in modern ecosystems. We suggest that the isotope compositions of a commonly overlooked material, human hair, is an ideal tool to be used in gleaning information, especially on human diets, about ancient civilizations. Hair can be well-preserved and is amenable to routine measurements of 13C, 15N and 34S isotope analyses and distinguishing sources of nutrition. We have isotopically characterized hair from both modern and ancient individuals. There is a wide diversity in isotope values owing, at least partially, to the levels of seafood, corn-fed animals and other grains in diet. Using these isotope tracers, new information regarding historical figures (George Washington, 1799 AD) to perhaps the most ancient of mummies, the Chinchorro of Chile (more than 7000 BP) as well as the Moche of Peru (1500 BP) and the best preserved mummy, the Neolithic Ice Man of the Oetztaler Alps (5200 BP), have been deciphered. It appears that the often-overlooked hair in archaeological sites represents a significant approach for understanding ancient human communities and their environments, as well as new perspectives on our use of our own modern nutritional sources.

Environmental geology of ancient Greek cities

NASA Astrophysics Data System (ADS)

Crouch, D. P.

1996-04-01

Man-environment relations in the ancient Greek world, as now, were complex interactions. To understand them, we need to study a range of physical features and man's impact on the setting. The underlying geological reality of this area is karst, which is widely distributed, dominating Greece, the southern half of Turkey, and southern Italy and Sicily, where the Greco-Roman cities that we study were located. Year-round water from karst springs was important because of scarce rainfall, intense evaporation, and infertile soil—none under human control. Examples from the Greek mainland (Corinth), an Aegean island (Rhodes), Turkey (Priene), and Sicily (Syracuse) are selected and described to suggest the way that karst water potential played an important role in site selection and development. A wider look at criteria for urban location and a new classification of urban patterns help to revise conventional understandings of these ancient cities. In conclusion, some modern findings about the interaction between city and setting suggest new research agendas for geologists and engineers, ancient historians and archaelogists, and water policy makers—preferrably working together.

Ancient Egyptian mummy genomes suggest an increase of Sub-Saharan African ancestry in post-Roman periods.

PubMed

Schuenemann, Verena J; Peltzer, Alexander; Welte, Beatrix; van Pelt, W Paul; Molak, Martyna; Wang, Chuan-Chao; Furtwängler, Anja; Urban, Christian; Reiter, Ella; Nieselt, Kay; Teßmann, Barbara; Francken, Michael; Harvati, Katerina; Haak, Wolfgang; Schiffels, Stephan; Krause, Johannes

2017-05-30

Egypt, located on the isthmus of Africa, is an ideal region to study historical population dynamics due to its geographic location and documented interactions with ancient civilizations in Africa, Asia and Europe. Particularly, in the first millennium BCE Egypt endured foreign domination leading to growing numbers of foreigners living within its borders possibly contributing genetically to the local population. Here we present 90 mitochondrial genomes as well as genome-wide data sets from three individuals obtained from Egyptian mummies. The samples recovered from Middle Egypt span around 1,300 years of ancient Egyptian history from the New Kingdom to the Roman Period. Our analyses reveal that ancient Egyptians shared more ancestry with Near Easterners than present-day Egyptians, who received additional sub-Saharan admixture in more recent times. This analysis establishes ancient Egyptian mummies as a genetic source to study ancient human history and offers the perspective of deciphering Egypt's past at a genome-wide level.

Ancient Egyptian mummy genomes suggest an increase of Sub-Saharan African ancestry in post-Roman periods

PubMed Central

Schuenemann, Verena J.; Peltzer, Alexander; Welte, Beatrix; van Pelt, W. Paul; Molak, Martyna; Wang, Chuan-Chao; Furtwängler, Anja; Urban, Christian; Reiter, Ella; Nieselt, Kay; Teßmann, Barbara; Francken, Michael; Harvati, Katerina; Haak, Wolfgang; Schiffels, Stephan; Krause, Johannes

2017-01-01

Egypt, located on the isthmus of Africa, is an ideal region to study historical population dynamics due to its geographic location and documented interactions with ancient civilizations in Africa, Asia and Europe. Particularly, in the first millennium BCE Egypt endured foreign domination leading to growing numbers of foreigners living within its borders possibly contributing genetically to the local population. Here we present 90 mitochondrial genomes as well as genome-wide data sets from three individuals obtained from Egyptian mummies. The samples recovered from Middle Egypt span around 1,300 years of ancient Egyptian history from the New Kingdom to the Roman Period. Our analyses reveal that ancient Egyptians shared more ancestry with Near Easterners than present-day Egyptians, who received additional sub-Saharan admixture in more recent times. This analysis establishes ancient Egyptian mummies as a genetic source to study ancient human history and offers the perspective of deciphering Egypt's past at a genome-wide level. PMID:28556824

Preserving ancient artifacts for the next millennia

Treesearch

Samuel L. Zelinka

2014-01-01

When wood is kept dry, it can remain intact for millennia, as evidenced by numerous artifacts from ancient Egypt (1). However, when wood interacts with water, numerous problems arise that can cause the wood to become permanently damaged or destroyed completely. Wood exhibits swelling on moisture uptake and shrinkage on drying, and these cyclical moisture changes lead...

Warming and top predator loss drive ecosystem multifunctionality.

PubMed

Antiqueira, Pablo Augusto P; Petchey, Owen L; Romero, Gustavo Quevedo

2018-01-01

Global change affects ecosystem functioning both directly by modifications in physicochemical processes, and indirectly, via changes in biotic metabolism and interactions. Unclear, however, is how multiple anthropogenic drivers affect different components of community structure and the performance of multiple ecosystem functions (ecosystem multifunctionality). We manipulated small natural freshwater ecosystems to investigate how warming and top predator loss affect seven ecosystem functions representing two major dimensions of ecosystem functioning, productivity and metabolism. We investigated their direct and indirect effects on community diversity and standing stock of multitrophic macro and microorganisms. Warming directly increased multifunctional ecosystem productivity and metabolism. In contrast, top predator loss indirectly affected multifunctional ecosystem productivity via changes in the diversity of detritivorous macroinvertebrates, but did not affect ecosystem metabolism. In addition to demonstrating how multiple anthropogenic drivers have different impacts, via different pathways, on ecosystem multifunctionality components, our work should further spur advances in predicting responses of ecosystems to multiple simultaneous environmental changes. © 2017 John Wiley & Sons Ltd/CNRS.

Simulated tri-trophic networks reveal complex relationships between species diversity and interaction diversity

PubMed Central

Lumpkin, Will; Hurtado, Paul J.; Dyer, Lee A.

2018-01-01

Most of earth’s biodiversity is comprised of interactions among species, yet it is unclear what causes variation in interaction diversity across space and time. We define interaction diversity as the richness and relative abundance of interactions linking species together at scales from localized, measurable webs to entire ecosystems. Large-scale patterns suggest that two basic components of interaction diversity differ substantially and predictably between different ecosystems: overall taxonomic diversity and host specificity of consumers. Understanding how these factors influence interaction diversity, and quantifying the causes and effects of variation in interaction diversity are important goals for community ecology. While previous studies have examined the effects of sampling bias and consumer specialization on determining patterns of ecological networks, these studies were restricted to two trophic levels and did not incorporate realistic variation in species diversity and consumer diet breadth. Here, we developed a food web model to generate tri-trophic ecological networks, and evaluated specific hypotheses about how the diversity of trophic interactions and species diversity are related under different scenarios of species richness, taxonomic abundance, and consumer diet breadth. We investigated the accumulation of species and interactions and found that interactions accumulate more quickly; thus, the accumulation of novel interactions may require less sampling effort than sampling species in order to get reliable estimates of either type of diversity. Mean consumer diet breadth influenced the correlation between species and interaction diversity significantly more than variation in both species richness and taxonomic abundance. However, this effect of diet breadth on interaction diversity is conditional on the number of observed interactions included in the models. The results presented here will help develop realistic predictions of the relationships between consumer diet breadth, interaction diversity, and species diversity within multi-trophic communities, which is critical for the conservation of biodiversity in this period of accelerated global change. PMID:29579077

Simulated tri-trophic networks reveal complex relationships between species diversity and interaction diversity.

PubMed

Pardikes, Nicholas A; Lumpkin, Will; Hurtado, Paul J; Dyer, Lee A

2018-01-01

Most of earth's biodiversity is comprised of interactions among species, yet it is unclear what causes variation in interaction diversity across space and time. We define interaction diversity as the richness and relative abundance of interactions linking species together at scales from localized, measurable webs to entire ecosystems. Large-scale patterns suggest that two basic components of interaction diversity differ substantially and predictably between different ecosystems: overall taxonomic diversity and host specificity of consumers. Understanding how these factors influence interaction diversity, and quantifying the causes and effects of variation in interaction diversity are important goals for community ecology. While previous studies have examined the effects of sampling bias and consumer specialization on determining patterns of ecological networks, these studies were restricted to two trophic levels and did not incorporate realistic variation in species diversity and consumer diet breadth. Here, we developed a food web model to generate tri-trophic ecological networks, and evaluated specific hypotheses about how the diversity of trophic interactions and species diversity are related under different scenarios of species richness, taxonomic abundance, and consumer diet breadth. We investigated the accumulation of species and interactions and found that interactions accumulate more quickly; thus, the accumulation of novel interactions may require less sampling effort than sampling species in order to get reliable estimates of either type of diversity. Mean consumer diet breadth influenced the correlation between species and interaction diversity significantly more than variation in both species richness and taxonomic abundance. However, this effect of diet breadth on interaction diversity is conditional on the number of observed interactions included in the models. The results presented here will help develop realistic predictions of the relationships between consumer diet breadth, interaction diversity, and species diversity within multi-trophic communities, which is critical for the conservation of biodiversity in this period of accelerated global change.

At limits of life: multidisciplinary insights reveal environmental constraints on biotic diversity in continental Antarctica.

PubMed

Magalhães, Catarina; Stevens, Mark I; Cary, S Craig; Ball, Becky A; Storey, Bryan C; Wall, Diana H; Türk, Roman; Ruprecht, Ulrike

2012-01-01

Multitrophic communities that maintain the functionality of the extreme Antarctic terrestrial ecosystems, while the simplest of any natural community, are still challenging our knowledge about the limits to life on earth. In this study, we describe and interpret the linkage between the diversity of different trophic level communities to the geological morphology and soil geochemistry in the remote Transantarctic Mountains (Darwin Mountains, 80°S). We examined the distribution and diversity of biota (bacteria, cyanobacteria, lichens, algae, invertebrates) with respect to elevation, age of glacial drift sheets, and soil physicochemistry. Results showed an abiotic spatial gradient with respect to the diversity of the organisms across different trophic levels. More complex communities, in terms of trophic level diversity, were related to the weakly developed younger drifts (Hatherton and Britannia) with higher soil C/N ratio and lower total soluble salts content (thus lower conductivity). Our results indicate that an increase of ion concentration from younger to older drift regions drives a succession of complex to more simple communities, in terms of number of trophic levels and diversity within each group of organisms analysed. This study revealed that integrating diversity across multi-trophic levels of biotic communities with abiotic spatial heterogeneity and geological history is fundamental to understand environmental constraints influencing biological distribution in Antarctic soil ecosystems.

Bacterial adaptation to sublethal antibiotic gradients can change the ecological properties of multitrophic microbial communities

PubMed Central

Friman, Ville-Petri; Guzman, Laura Melissa; Reuman, Daniel C.; Bell, Thomas

2015-01-01

Antibiotics leak constantly into environments due to widespread use in agriculture and human therapy. Although sublethal concentrations are well known to select for antibiotic-resistant bacteria, little is known about how bacterial evolution cascades through food webs, having indirect effect on species not directly affected by antibiotics (e.g. via population dynamics or pleiotropic effects). Here, we used an experimental evolution approach to test how temporal patterns of antibiotic stress, as well as migration within metapopulations, affect the evolution and ecology of microcosms containing one prey bacterium, one phage and two protist predators. We found that environmental variability, autocorrelation and migration had only subtle effects for population and evolutionary dynamics. However, unexpectedly, bacteria evolved greatest fitness increases to both antibiotics and enemies when the sublethal levels of antibiotics were highest, indicating positive pleiotropy. Crucially, bacterial adaptation cascaded through the food web leading to reduced predator-to-prey abundance ratio, lowered predator community diversity and increased instability of populations. Our results show that the presence of natural enemies can modify and even reverse the effects of antibiotics on bacteria, and that antibiotic selection can change the ecological properties of multitrophic microbial communities by having indirect effects on species not directly affected by antibiotics. PMID:25833854

Bacterial adaptation to sublethal antibiotic gradients can change the ecological properties of multitrophic microbial communities.

PubMed

Friman, Ville-Petri; Guzman, Laura Melissa; Reuman, Daniel C; Bell, Thomas

2015-05-07

Antibiotics leak constantly into environments due to widespread use in agriculture and human therapy. Although sublethal concentrations are well known to select for antibiotic-resistant bacteria, little is known about how bacterial evolution cascades through food webs, having indirect effect on species not directly affected by antibiotics (e.g. via population dynamics or pleiotropic effects). Here, we used an experimental evolution approach to test how temporal patterns of antibiotic stress, as well as migration within metapopulations, affect the evolution and ecology of microcosms containing one prey bacterium, one phage and two protist predators. We found that environmental variability, autocorrelation and migration had only subtle effects for population and evolutionary dynamics. However, unexpectedly, bacteria evolved greatest fitness increases to both antibiotics and enemies when the sublethal levels of antibiotics were highest, indicating positive pleiotropy. Crucially, bacterial adaptation cascaded through the food web leading to reduced predator-to-prey abundance ratio, lowered predator community diversity and increased instability of populations. Our results show that the presence of natural enemies can modify and even reverse the effects of antibiotics on bacteria, and that antibiotic selection can change the ecological properties of multitrophic microbial communities by having indirect effects on species not directly affected by antibiotics. © 2015 The Author(s) Published by the Royal Society. All rights reserved.

Spatially explicit analyses of gastropod biodiversity in ancient Lake Ohrid

NASA Astrophysics Data System (ADS)

Hauffe, T.; Albrecht, C.; Schreiber, K.; Birkhofer, K.; Trajanovski, S.; Wilke, T.

2010-07-01

Spatial heterogeneity of biodiversity arises from evolutionary processes, constraints of environmental factors and the interaction of communities. The quality of such spatial analyses of biodiversity is improved by (i) utilizing study areas with well defined physiogeographical boundaries, (ii) limiting the impact of widespread species, and (iii) using taxa with heterogeneous distributions. These conditions are typically met by ecosystems such as oceanic islands or ancient lakes and their biota. While research on ancient lakes has contributed significantly to our understanding of evolutionary processes, statistically sound studies of spatial variation of extant biodiversity have been hampered by the frequently vast size of ancient lakes, their limited accessibility, and the lack of infrastructure around them. The small European ancient Lake Ohrid provides a rare opportunity for such a reliable spatial study. The comprehensive horizontal and vertical sampling of a species-rich taxon, the Gastropoda, presented here, revealed interesting patterns of biodiversity, which, in part, have not been shown before for other ancient lakes. In a total of 224 locations throughout the Ohrid Basin, representatives of 68 gastropod species with 50 of them being endemic (=73.5%) could be reported. The spatial distribution of these species shows the following characteristics: (i) within Lake Ohrid, the most frequent species are endemic taxa with a wide depth range, (ii) widespread species (i.e. those occurring throughout the Balkans or beyond) are rare and mainly occur in the upper layer of the lake, (iii) while the total number of species decreases with water depth, the share of endemics increases, (iv) the deeper layers of Lake Ohrid appear to have a higher spatial homogeneity of biodiversity and related environmental factors, (v) biotic interaction due to possible spillover effects may contribute to the establishment of hotspots, and (vi) eco-insularity within the Ohrid Basin occurs at two levels, at the level of the lake proper and at the level of the feeder-springs. It is also shown that large scale effects such as type of water body or water depth are mainly responsible for the distribution of biodiversity. In addition, small scale effects like environmental gradients or biotic interaction affect gastropod composition within a particular depth zone.

Ancient Humans Influenced the Current Spatial Genetic Structure of Common Walnut Populations in Asia

PubMed Central

Pollegioni, Paola; Woeste, Keith E.; Chiocchini, Francesca; Del Lungo, Stefano; Olimpieri, Irene; Tortolano, Virginia; Clark, Jo; Hemery, Gabriel E.; Mapelli, Sergio; Malvolti, Maria Emilia

2015-01-01

Common walnut (Juglans regia L) is an economically important species cultivated worldwide for its wood and nuts. It is generally accepted that J. regia survived and grew spontaneously in almost completely isolated stands in its Asian native range after the Last Glacial Maximum. Despite its natural geographic isolation, J. regia evolved over many centuries under the influence of human management and exploitation. We evaluated the hypothesis that the current distribution of natural genetic resources of common walnut in Asia is, at least in part, the product of ancient anthropogenic dispersal, human cultural interactions, and afforestation. Genetic analysis combined with ethno-linguistic and historical data indicated that ancient trade routes such as the Persian Royal Road and Silk Road enabled long-distance dispersal of J. regia from Iran and Trans-Caucasus to Central Asia, and from Western to Eastern China. Ancient commerce also disrupted the local spatial genetic structure of autochthonous walnut populations between Tashkent and Samarkand (Central-Eastern Uzbekistan), where the northern and central routes of the Northern Silk Road converged. A significant association between ancient language phyla and the genetic structure of walnut populations is reported even after adjustment for geographic distances that could have affected both walnut gene flow and human commerce over the centuries. Beyond the economic importance of common walnut, our study delineates an alternative approach for understanding how the genetic resources of long-lived perennial tree species may be affected by the interaction of geography and human history. PMID:26332919

Dataset on the regulation of banana weevil abundance and corm damage associated with plant richness and the ground-dwelling arthropods' food web.

PubMed

Poeydebat, Charlotte; Tixier, Philippe; De Bellaire, Luc De Lapeyre; Carval, Dominique

2017-12-01

The data presented in this article are related to the research article entitled "Plant richness enhances banana weevil regulation in a tropical agroecosystem by affecting a multitrophic food web " [1]. It provides information about plant species richness, weevil corm damage and the abundance of different arthropod groups, including the banana weevil and its potential natural enemies and alternative preys.

Predator and prey biodiversity relationship and its consequences on marine ecosystem functioning-interplay between nanoflagellates and bacterioplankton.

PubMed

Yang, Jinny Wu; Wu, Wenxue; Chung, Chih-Ching; Chiang, Kuo-Ping; Gong, Gwo-Ching; Hsieh, Chih-Hao

2018-06-01

The importance of biodiversity effects on ecosystem functioning across trophic levels, especially via predatory-prey interactions, is receiving increased recognition. However, this topic has rarely been explored for marine microbes, even though microbial biodiversity contributes significantly to marine ecosystem function and energy flows. Here we examined diversity and biomass of bacteria (prey) and nanoflagellates (predators), as well as their effects on trophic transfer efficiency in the East China Sea. Specifically, we investigated: (i) predator diversity effects on prey biomass and trophic transfer efficiency (using the biomass ratio of predator/prey as a proxy), (ii) prey diversity effects on predator biomass and trophic transfer efficiency, and (iii) the relationship between predator and prey diversity. We found higher prey diversity enhanced both diversity and biomass of predators, as well as trophic transfer efficiency, which may arise from more balanced diet and/or enhanced niche complementarity owing to higher prey diversity. By contrast, no clear effect was detected for predator diversity on prey biomass and transfer efficiency. Notably, we found prey diversity effects on predator-prey interactions; whereas, we found no significant diversity effect on biomass within the same trophic level. Our findings highlight the importance of considering multi-trophic biodiversity effects on ecosystem functioning in natural ecosystems.

Microbiomes: unifying animal and plant systems through the lens of community ecology theory

PubMed Central

Christian, Natalie; Whitaker, Briana K.; Clay, Keith

2015-01-01

The field of microbiome research is arguably one of the fastest growing in biology. Bacteria feature prominently in studies on animal health, but fungi appear to be the more prominent functional symbionts for plants. Despite the similarities in the ecological organization and evolutionary importance of animal-bacterial and plant–fungal microbiomes, there is a general failure across disciplines to integrate the advances made in each system. Researchers studying bacterial symbionts in animals benefit from greater access to efficient sequencing pipelines and taxonomic reference databases, perhaps due to high medical and veterinary interest. However, researchers studying plant–fungal symbionts benefit from the relative tractability of fungi under laboratory conditions and ease of cultivation. Thus each system has strengths to offer, but both suffer from the lack of a common conceptual framework. We argue that community ecology best illuminates complex species interactions across space and time. In this synthesis we compare and contrast the animal-bacterial and plant–fungal microbiomes using six core theories in community ecology (i.e., succession, community assembly, metacommunities, multi-trophic interactions, disturbance, restoration). The examples and questions raised are meant to spark discussion amongst biologists and lead to the integration of these two systems, as well as more informative, manipulatory experiments on microbiomes research. PMID:26441846

Invasive mutualisms between a plant pathogen and insect vectors in the Middle East and Brazil

PubMed Central

Queiroz, Renan Batista; Silva, Fábio Nascimento; Al-Mahmmoli, Issa Hashil; Al-Sadi, Abdullah Mohammed; Carvalho, Claudine Márcia; Elliot, Simon L.

2016-01-01

Complex multi-trophic interactions in vectorborne diseases limit our understanding and ability to predict outbreaks. Arthropod-vectored pathogens are especially problematic, with the potential for novel interspecific interactions during invasions. Variations and novelties in plant–arthropod–pathogen triumvirates present significant threats to global food security. We examined aspects of a phytoplasma pathogen of citrus across two continents. ‘Candidatus Phytoplasma aurantifolia’ causes Witches' Broom Disease of Lime (WBDL) and has devastated citrus production in the Middle East. A variant of this phytoplasma currently displays asymptomatic or ‘silent’ infections in Brazil. We first studied vector capacity and fitness impacts of the pathogen on its vectors. The potential for co-occurring weed species to act as pathogen reservoirs was analysed and key transmission periods in the year were also studied. We demonstrate that two invasive hemipteran insects—Diaphorina citri and Hishimonus phycitis—can vector the phytoplasma. Feeding on phytoplasma-infected hosts greatly increased reproduction of its invasive vector D. citri both in Oman and Brazil; suggesting that increased fitness of invasive insect vectors thereby further increases the pathogen's capacity to spread. Based on our findings, this is a robust system for studying the effects of invasions on vectorborne diseases and highlights concerns about its spread to warmer, drier regions of Brazil. PMID:28083099

Study of a multitrophical integrated aquatic system for the teaching-learning of the subjects physics, chemistry and biology in the bachelor

NASA Astrophysics Data System (ADS)

Ramirez, Eva; Espinosa, Cecilia

2017-04-01

In Mexico exist due to the lack of water in the City, which is where the College of Sciences and Humanities Orient (at UNAM) is located. This is because a point of view from the Chemical, Physics and Biology subjects is important to find learning strategies that motivate students to seek solutions to problems such as these. As Science Mentors, students were asked to propose water treatment from the homes they live in. From these investigations the students concluded that it was necessary to study in depth the wetlands like Multi-trophic Aquatic System that allow the treatment of gray water, so that a prototype of Micro-scale Multitrophic Aquatic System was set up in the laboratory, where the pH was measured , The concentration of oxygen, phosphates, from a Chemical perspective. As for the subject of Biology, we worked on the search for mycorrhizal fungi associated with the growth of plants for the purification of water. In physics we worked the sedimentation system. Artificial wetlands are man-made zones in which, in a controlled manner, mechanisms for the removal of contaminants present in wastewater, occurring in natural wetlands through physical, biological and chemical processes, are constructed mechanically and Is waterproofed to prevent losses of water to the subsoil, the use of substrates different from the original land for rooting the plants and their selection that will colonize the wetland benefit the recovery of water. The present project aims to structure an Artificial Wetland to carry out didactic strategies, activities with students, as well as work on research projects in the sciences of Chemistry, Physics and Biology. Through the application of chemical, biological and physical concepts and processes, so that students of the different semesters of the College of Sciences and Humanities Plantel Oriente, appropriate the relevant knowledge in the area of experimental sciences, developing thinking skills and achieve Significant learning, which are reflected in the training of individuals competent to reflect, value and protect ecosystems and especially wetlands. Due to the above, it was promote the preparation of a Wetland and thus have an area that concentrates the necessary materials to make available to teachers, students and researchers. This tool, opens new possibilities of education to our community, and in this way bring young people to the Experimental Sciences.

A molecular portrait of maternal sepsis from Byzantine Troy

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

Devault, Alison M.; Mortimer, Tatum D.; Kitchen, Andrew

Pregnancy complications are poorly represented in the archeological record, despite their importance in contemporary and ancient societies. While we excavated a Byzantine cemetery in Troy, we discovered calcified abscesses among a woman’s remains. Scanning electron microscopy of the tissue revealed ‘ghost cells’, resulting from dystrophic calcification, which preserved ancient maternal, fetal and bacterial DNA of a severe infection, likely chorioamnionitis.Gardnerella vaginalisandStaphylococcus saprophyticusdominated the abscesses. Phylogenomic analyses of ancient, historical, and contemporary data showed thatG. vaginalisTroy fell within contemporary genetic diversity, whereasS. saprophyticusTroy belongs to a lineage that does not appear to be commonly associated with human disease today. We speculatemore » that the ecology ofS. saprophyticusinfection may have differed in the ancient world as a result of close contacts between humans and domesticated animals. Our results highlight the complex and dynamic interactions with our microbial milieu that underlie severe maternal infections.« less

A molecular portrait of maternal sepsis from Byzantine Troy

DOE PAGES

Devault, Alison M.; Mortimer, Tatum D.; Kitchen, Andrew; ...

2017-01-10

Pregnancy complications are poorly represented in the archeological record, despite their importance in contemporary and ancient societies. While we excavated a Byzantine cemetery in Troy, we discovered calcified abscesses among a woman’s remains. Scanning electron microscopy of the tissue revealed ‘ghost cells’, resulting from dystrophic calcification, which preserved ancient maternal, fetal and bacterial DNA of a severe infection, likely chorioamnionitis.Gardnerella vaginalisandStaphylococcus saprophyticusdominated the abscesses. Phylogenomic analyses of ancient, historical, and contemporary data showed thatG. vaginalisTroy fell within contemporary genetic diversity, whereasS. saprophyticusTroy belongs to a lineage that does not appear to be commonly associated with human disease today. We speculatemore » that the ecology ofS. saprophyticusinfection may have differed in the ancient world as a result of close contacts between humans and domesticated animals. Our results highlight the complex and dynamic interactions with our microbial milieu that underlie severe maternal infections.« less

At Limits of Life: Multidisciplinary Insights Reveal Environmental Constraints on Biotic Diversity in Continental Antarctica

PubMed Central

Magalhães, Catarina; Stevens, Mark I.; Cary, S. Craig; Ball, Becky A.; Storey, Bryan C.; Wall, Diana H.; Türk, Roman; Ruprecht, Ulrike

2012-01-01

Multitrophic communities that maintain the functionality of the extreme Antarctic terrestrial ecosystems, while the simplest of any natural community, are still challenging our knowledge about the limits to life on earth. In this study, we describe and interpret the linkage between the diversity of different trophic level communities to the geological morphology and soil geochemistry in the remote Transantarctic Mountains (Darwin Mountains, 80°S). We examined the distribution and diversity of biota (bacteria, cyanobacteria, lichens, algae, invertebrates) with respect to elevation, age of glacial drift sheets, and soil physicochemistry. Results showed an abiotic spatial gradient with respect to the diversity of the organisms across different trophic levels. More complex communities, in terms of trophic level diversity, were related to the weakly developed younger drifts (Hatherton and Britannia) with higher soil C/N ratio and lower total soluble salts content (thus lower conductivity). Our results indicate that an increase of ion concentration from younger to older drift regions drives a succession of complex to more simple communities, in terms of number of trophic levels and diversity within each group of organisms analysed. This study revealed that integrating diversity across multi-trophic levels of biotic communities with abiotic spatial heterogeneity and geological history is fundamental to understand environmental constraints influencing biological distribution in Antarctic soil ecosystems. PMID:23028563

Ecological and evolutionary consequences of tri-trophic interactions: Spatial variation and effects of plant density.

PubMed

Abdala-Roberts, Luis; Parra-Tabla, Víctor; Moreira, Xoaquín; Ramos-Zapata, José

2017-02-01

The factors driving variation in species interactions are often unknown, and few studies have made a link between changes in interactions and the strength of selection. We report on spatial variation in functional responses by a seed predator (SP) and its parasitic wasps associated with the herb Ruellia nudiflora . We assessed the influence of plant density on consumer responses and determined whether density effects and spatial variation in functional responses altered natural selection by these consumers on the plant. We established common gardens at two sites in Yucatan, Mexico, and planted R. nudiflora at two densities in each garden. We recorded fruit output and SP and parasitoid attack; calculated relative fitness (seed number) under scenarios of three trophic levels (accounting for SP and parasitoid effects), two trophic levels (accounting for SP but not parasitoid effects), and one trophic level (no consumer effects); and compared selection strength on fruit number under these scenarios across sites and densities. There was spatial variation in SP recruitment, whereby the SP functional response was negatively density-dependent at one site but density-independent at the other; parasitoid responses were density-independent and invariant across sites. Site variation in SP attack led, in turn, to differences in SP selection on fruit output, and parasitoids did not alter SP selection. There were no significant effects of density at either site. Our results provide a link between consumer functional responses and consumer selection on plants, which deepens our understanding of geographic variation in the evolutionary outcomes of multitrophic interactions. © 2017 Botanical Society of America.

Complexities of nitrogen isotope biogeochemistry in plant-soil systems: implications for the study of ancient agricultural and animal management practices

PubMed Central

Szpak, Paul

2014-01-01

Nitrogen isotopic studies have the potential to shed light on the structure of ancient ecosystems, agropastoral regimes, and human-environment interactions. Until relatively recently, however, little attention was paid to the complexities of nitrogen transformations in ancient plant-soil systems and their potential impact on plant and animal tissue nitrogen isotopic compositions. This paper discusses the importance of understanding nitrogen dynamics in ancient contexts, and highlights several key areas of archaeology where a more detailed understanding of these processes may enable us to answer some fundamental questions. This paper explores two larger themes that are prominent in archaeological studies using stable nitrogen isotope analysis: (1) agricultural practices (use of animal fertilizers, burning of vegetation or shifting cultivation, and tillage) and (2) animal domestication and husbandry (grazing intensity/stocking rate and the foddering of domestic animals with cultigens). The paucity of plant material in ancient deposits necessitates that these issues are addressed primarily through the isotopic analysis of skeletal material rather than the plants themselves, but the interpretation of these data hinges on a thorough understanding of the underlying biogeochemical processes in plant-soil systems. Building on studies conducted in modern ecosystems and under controlled conditions, these processes are reviewed, and their relevance discussed for ancient contexts. PMID:25002865

Modern tree species composition reflects ancient Maya "forest gardens" in northwest Belize.

PubMed

Ross, Nanci J

2011-01-01

Ecology and ethnobotany were integrated to assess the impact of ancient Maya tree-dominated home gardens (i.e., "forest gardens"), which contained a diversity of tree species used for daily household needs, on the modern tree species composition of a Mesoamerican forest. Researchers have argued that the ubiquity of these ancient gardens throughout Mesoamerica led to the dominance of species useful to Maya in the contemporary forest, but this pattern may be localized depending on ancient land use. The tested hypothesis was that species composition would be significantly different between areas of dense ancient residential structures (high density) and areas of little or no ancient settlement (low density). Sixty-three 400-m2 plots (31 high density and 32 low density) were censused around the El Pilar Archaeological Reserve in northwestern Belize. Species composition was significantly different, with higher abundances of commonly utilized "forest garden" species still persisting in high-density forest areas despite centuries of abandonment. Subsequent edaphic analyses only explained 5% of the species composition differences. This research provides data on the long-term impacts of Maya forests gardens for use in development of future conservation models. For Mesoamerican conservation programs to work, we must understand the complex ecological and social interactions within an ecosystem that developed in intimate association with humans.

Interacting agricultural pests and their effect on crop yield: application of a Bayesian decision theory approach to the joint management of Bromus tectorum and Cephus cinctus.

PubMed

Keren, Ilai N; Menalled, Fabian D; Weaver, David K; Robison-Cox, James F

2015-01-01

Worldwide, the landscape homogeneity of extensive monocultures that characterizes conventional agriculture has resulted in the development of specialized and interacting multitrophic pest complexes. While integrated pest management emphasizes the need to consider the ecological context where multiple species coexist, management recommendations are often based on single-species tactics. This approach may not provide satisfactory solutions when confronted with the complex interactions occurring between organisms at the same or different trophic levels. Replacement of the single-species management model with more sophisticated, multi-species programs requires an understanding of the direct and indirect interactions occurring between the crop and all categories of pests. We evaluated a modeling framework to make multi-pest management decisions taking into account direct and indirect interactions among species belonging to different trophic levels. We adopted a Bayesian decision theory approach in combination with path analysis to evaluate interactions between Bromus tectorum (downy brome, cheatgrass) and Cephus cinctus (wheat stem sawfly) in wheat (Triticum aestivum) systems. We assessed their joint responses to weed management tactics, seeding rates, and cultivar tolerance to insect stem boring or competition. Our results indicated that C. cinctus oviposition behavior varied as a function of B. tectorum pressure. Crop responses were more readily explained by the joint effects of management tactics on both categories of pests and their interactions than just by the direct impact of any particular management scheme on yield. In accordance, a C. cinctus tolerant variety should be planted at a low seeding rate under high insect pressure. However as B. tectorum levels increase, the C. cinctus tolerant variety should be replaced by a competitive and drought tolerant cultivar at high seeding rates despite C. cinctus infestation. This study exemplifies the necessity of accounting for direct and indirect biological interactions occurring within agroecosystems and propagating this information from the statistical analysis stage to the management stage.

An Interactive Immersive Serious Game Application for Kunyu Quantu World Map

NASA Astrophysics Data System (ADS)

Peng, S.-T.; Hsu, S.-Y.; Hsieh, K.-C.

2015-08-01

In recent years, more and more digital technologies and innovative concepts are applied on museum education. One of the concepts applied is "Serious game." Serious game is not designed for entertainment purpose but allows users to learn real world's cultural and educational knowledge in the virtual world through game-experiencing. Technologies applied on serious game are identical to those applied on entertainment game. Nowadays, the interactive technology applications considering users' movement and gestures in physical spaces are developing rapidly, which are extensively used in entertainment games, such as Kinect-based games. The ability to explore space via Kinect-based games can be incorporated into the design of serious game. The ancient world map, Kunyu Quantu, from the collection of the National Palace Museum is therefore applied in serious game development. In general, the ancient world map does not only provide geological information, but also contains museum knowledge. This particular ancient world map is an excellent content applied in games as teaching material. In the 17th century, it was first used by a missionary as a medium to teach the Kangxi Emperor of the latest geologic and scientific spirits from the West. On this map, it also includes written biological knowledge and climate knowledge. Therefore, this research aims to present the design of the interactive and immersive serious game based installation that developed from the rich content of the Kunyu Quantu World Map, and to analyse visitor's experience in terms of real world's cultural knowledge learning and interactive responses.

An ancient protein-DNA interaction underlying metazoan sex determination.

PubMed

Murphy, Mark W; Lee, John K; Rojo, Sandra; Gearhart, Micah D; Kurahashi, Kayo; Banerjee, Surajit; Loeuille, Guy-André; Bashamboo, Anu; McElreavey, Kenneth; Zarkower, David; Aihara, Hideki; Bardwell, Vivian J

2015-06-01

DMRT transcription factors are deeply conserved regulators of metazoan sexual development. They share the DM DNA-binding domain, a unique intertwined double zinc-binding module followed by a C-terminal recognition helix, which binds a pseudopalindromic target DNA. Here we show that DMRT proteins use a unique binding interaction, inserting two adjacent antiparallel recognition helices into a widened DNA major groove to make base-specific contacts. Versatility in how specific base contacts are made allows human DMRT1 to use multiple DNA binding modes (tetramer, trimer and dimer). Chromatin immunoprecipitation with exonuclease treatment (ChIP-exo) indicates that multiple DNA binding modes also are used in vivo. We show that mutations affecting residues crucial for DNA recognition are associated with an intersex phenotype in flies and with male-to-female sex reversal in humans. Our results illuminate an ancient molecular interaction underlying much of metazoan sexual development.

An ancient protein-DNA interaction underlying metazoan sex determination

DOE PAGES

Murphy, Mark W.; Lee, John K.; Rojo, Sandra; ...

2015-05-25

DMRT transcription factors are deeply conserved regulators of metazoan sexual development. They share the DM DNA-binding domain, a unique intertwined double zinc-binding module followed by a C-terminal recognition helix, which binds a pseudopalindromic target DNA. In this paper, we show that DMRT proteins use a unique binding interaction, inserting two adjacent antiparallel recognition helices into a widened DNA major groove to make base-specific contacts. Versatility in how specific base contacts are made allows human DMRT1 to use multiple DNA binding modes (tetramer, trimer and dimer). Chromatin immunoprecipitation with exonuclease treatment (ChIP-exo) indicates that multiple DNA binding modes also are usedmore » in vivo. We show that mutations affecting residues crucial for DNA recognition are associated with an intersex phenotype in flies and with male-to-female sex reversal in humans. Finally, our results illuminate an ancient molecular interaction underlying much of metazoan sexual development.« less

An ancient protein-DNA interaction underlying metazoan sex determination

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

Murphy, Mark W.; Lee, John K.; Rojo, Sandra

DMRT transcription factors are deeply conserved regulators of metazoan sexual development. They share the DM DNA-binding domain, a unique intertwined double zinc-binding module followed by a C-terminal recognition helix, which binds a pseudopalindromic target DNA. In this paper, we show that DMRT proteins use a unique binding interaction, inserting two adjacent antiparallel recognition helices into a widened DNA major groove to make base-specific contacts. Versatility in how specific base contacts are made allows human DMRT1 to use multiple DNA binding modes (tetramer, trimer and dimer). Chromatin immunoprecipitation with exonuclease treatment (ChIP-exo) indicates that multiple DNA binding modes also are usedmore » in vivo. We show that mutations affecting residues crucial for DNA recognition are associated with an intersex phenotype in flies and with male-to-female sex reversal in humans. Finally, our results illuminate an ancient molecular interaction underlying much of metazoan sexual development.« less

New influence factor inducing difficulty in selective flotation separation of Cu-Zn mixed sulfide minerals

NASA Astrophysics Data System (ADS)

Deng, Jiu-shuai; Mao, Ying-bo; Wen, Shu-ming; Liu, Jian; Xian, Yong-jun; Feng, Qi-cheng

2015-02-01

Selective flotation separation of Cu-Zn mixed sulfides has been proven to be difficult. Thus far, researchers have found no satisfactory way to separate Cu-Zn mixed sulfides by selective flotation, mainly because of the complex surface and interface interaction mechanisms in the flotation solution. Undesired activation occurs between copper ions and the sphalerite surfaces. In addition to recycled water and mineral dissolution, ancient fluids in the minerals are observed to be a new source of metal ions. In this study, significant amounts of ancient fluids were found to exist in Cu-Zn sulfide and gangue minerals, mostly as gas-liquid fluid inclusions. The concentration of copper ions released from the ancient fluids reached 1.02 × 10-6 mol/L, whereas, in the cases of sphalerite and quartz, this concentration was 0.62 × 10-6 mol/L and 0.44 × 10-6 mol/L, respectively. As a result, the ancient fluid is a significant source of copper ions compared to mineral dissolution under the same experimental conditions, which promotes the unwanted activation of sphalerite. Therefore, the ancient fluid is considered to be a new factor that affects the selective flotation separation of Cu-Zn mixed sulfide ores.

A molecular portrait of maternal sepsis from Byzantine Troy

PubMed Central

Devault, Alison M; Mortimer, Tatum D; Kitchen, Andrew; Kiesewetter, Henrike; Enk, Jacob M; Golding, G Brian; Southon, John; Kuch, Melanie; Duggan, Ana T; Aylward, William; Gardner, Shea N; Allen, Jonathan E; King, Andrew M; Wright, Gerard; Kuroda, Makoto; Kato, Kengo; Briggs, Derek EG; Fornaciari, Gino; Holmes, Edward C; Poinar, Hendrik N; Pepperell, Caitlin S

2017-01-01

Pregnancy complications are poorly represented in the archeological record, despite their importance in contemporary and ancient societies. While excavating a Byzantine cemetery in Troy, we discovered calcified abscesses among a woman’s remains. Scanning electron microscopy of the tissue revealed ‘ghost cells’, resulting from dystrophic calcification, which preserved ancient maternal, fetal and bacterial DNA of a severe infection, likely chorioamnionitis. Gardnerella vaginalis and Staphylococcus saprophyticus dominated the abscesses. Phylogenomic analyses of ancient, historical, and contemporary data showed that G. vaginalis Troy fell within contemporary genetic diversity, whereas S. saprophyticus Troy belongs to a lineage that does not appear to be commonly associated with human disease today. We speculate that the ecology of S. saprophyticus infection may have differed in the ancient world as a result of close contacts between humans and domesticated animals. These results highlight the complex and dynamic interactions with our microbial milieu that underlie severe maternal infections. DOI: http://dx.doi.org/10.7554/eLife.20983.001 PMID:28072390

Analyzing spatial patterns linked to the ecology of herbivores and their natural enemies in the soil.

PubMed

Campos-Herrera, R; Ali, J G; Diaz, B M; Duncan, L W

2013-09-30

Modern agricultural systems can benefit from the application of concepts and models from applied ecology. When understood, multitrophic interactions among plants, pests, diseases and their natural enemies can be exploited to increase crop production and reduce undesirable environmental impacts. Although the understanding of subterranean ecology is rudimentary compared to the perspective aboveground, technologies today vastly reduce traditional obstacles to studying cryptic communities. Here we emphasize advantages to integrating as much as possible the use of these methods in order to leverage the information gained from studying communities of soil organisms. PCR-based approaches to identify and quantify species (real time qPCR and next generation sequencing) greatly expand the ability to investigate food web interactions because there is less need for wide taxonomic expertise within research programs. Improved methods to capture and measure volatiles in the soil atmosphere in situ make it possible to detect and study chemical cues that are critical to communication across trophic levels. The application of SADIE to directly assess rather than infer spatial patterns in belowground agroecosystems has improved the ability to characterize relationships between organisms in space and time. We review selected methodology and use of these tools and describe some of the ways they were integrated to study soil food webs in Florida citrus orchards with the goal of developing new biocontrol approaches.

Analyzing spatial patterns linked to the ecology of herbivores and their natural enemies in the soil

PubMed Central

Campos-Herrera, R.; Ali, J. G.; Diaz, B. M.; Duncan, L. W.

2013-01-01

Modern agricultural systems can benefit from the application of concepts and models from applied ecology. When understood, multitrophic interactions among plants, pests, diseases and their natural enemies can be exploited to increase crop production and reduce undesirable environmental impacts. Although the understanding of subterranean ecology is rudimentary compared to the perspective aboveground, technologies today vastly reduce traditional obstacles to studying cryptic communities. Here we emphasize advantages to integrating as much as possible the use of these methods in order to leverage the information gained from studying communities of soil organisms. PCR-based approaches to identify and quantify species (real time qPCR and next generation sequencing) greatly expand the ability to investigate food web interactions because there is less need for wide taxonomic expertise within research programs. Improved methods to capture and measure volatiles in the soil atmosphere in situ make it possible to detect and study chemical cues that are critical to communication across trophic levels. The application of SADIE to directly assess rather than infer spatial patterns in belowground agroecosystems has improved the ability to characterize relationships between organisms in space and time. We review selected methodology and use of these tools and describe some of the ways they were integrated to study soil food webs in Florida citrus orchards with the goal of developing new biocontrol approaches. PMID:24137165

Associations between Ectomycorrhizal Fungi and Bacterial Needle Endophytes in Pinus radiata: Implications for Biotic Selection of Microbial Communities

PubMed Central

Rúa, Megan A.; Wilson, Emily C.; Steele, Sarah; Munters, Arielle R.; Hoeksema, Jason D.; Frank, Anna C.

2016-01-01

Studies of the ecological and evolutionary relationships between plants and their associated microbes have long been focused on single microbes, or single microbial guilds, but in reality, plants associate with a diverse array of microbes from a varied set of guilds. As such, multitrophic interactions among plant-associated microbes from multiple guilds represent an area of developing research, and can reveal how complex microbial communities are structured around plants. Interactions between coniferous plants and their associated microbes provide a good model system for such studies, as conifers host a suite of microorganisms including mutualistic ectomycorrhizal (ECM) fungi and foliar bacterial endophytes. To investigate the potential role ECM fungi play in structuring foliar bacterial endophyte communities, we sampled three isolated, native populations of Monterey pine (Pinus radiata), and used constrained analysis of principal coordinates to relate the community matrices of the ECM fungi and bacterial endophytes. Our results suggest that ECM fungi may be important factors for explaining variation in bacterial endophyte communities but this effect is influenced by population and environmental characteristics, emphasizing the potential importance of other factors — biotic or abiotic — in determining the composition of bacterial communities. We also classified ECM fungi into categories based on known fungal traits associated with substrate exploration and nutrient mobilization strategies since variation in these traits allows the fungi to acquire nutrients across a wide range of abiotic conditions and may influence the outcome of multi-species interactions. Across populations and environmental factors, none of the traits associated with fungal foraging strategy types significantly structured bacterial assemblages, suggesting these ECM fungal traits are not important for understanding endophyte-ECM interactions. Overall, our results suggest that both biotic species interactions and environmental filtering are important for structuring microbial communities but emphasize the need for more research into these interactions. PMID:27065966

Technical Note: A minimally invasive experimental system for pCO2 manipulation in plankton cultures using passive gas exchange (atmospheric carbon control simulator)

NASA Astrophysics Data System (ADS)

Love, Brooke A.; Olson, M. Brady; Wuori, Tristen

2017-05-01

As research into the biotic effects of ocean acidification has increased, the methods for simulating these environmental changes in the laboratory have multiplied. Here we describe the atmospheric carbon control simulator (ACCS) for the maintenance of plankton under controlled pCO2 conditions, designed for species sensitive to the physical disturbance introduced by the bubbling of cultures and for studies involving trophic interaction. The system consists of gas mixing and equilibration components coupled with large-volume atmospheric simulation chambers. These chambers allow gas exchange to counteract the changes in carbonate chemistry induced by the metabolic activity of the organisms. The system is relatively low cost, very flexible, and when used in conjunction with semi-continuous culture methods, it increases the density of organisms kept under realistic conditions, increases the allowable time interval between dilutions, and/or decreases the metabolically driven change in carbonate chemistry during these intervals. It accommodates a large number of culture vessels, which facilitate multi-trophic level studies and allow the tracking of variable responses within and across plankton populations to ocean acidification. It also includes components that increase the reliability of gas mixing systems using mass flow controllers.

Photooxidation and Microbial Processing of Ancient and Modern Dissolved Organic Carbon in the Kolyma River, Siberia.

NASA Astrophysics Data System (ADS)

Behnke, M. I.; Mann, P. J.; Schade, J. D.; Spawn, S.; Zimov, N.

2015-12-01

Permafrost soils in northern high latitudes store large quantities of organic carbon that have remained frozen for thousands of years. As global temperatures increase, permafrost deposits have begun to thaw, releasing previously stored ancient carbon to streams and rivers in the form of dissolved organic carbon (DOC). Newly mobilized DOC is then subjected to processing by photooxidation and microbial metabolism. Permafrost-derived DOC is highly bioavailable directly upon release relative to modern DOC derived from plants and surface active layer soils. Our objectives were to assess the interaction of photodegradation and microbial processing, and to quantify any light priming effect on the microbial consumption of both ancient and modern sourced DOC pools. We exposed sterilized mixtures of ancient and modern DOC to ambient sunlight for six days, and then inoculated mixtures (0, 1, 10, 25, 50 & 100% ancient DOC) with microbes from both modern and ancient water sources. After inoculation, samples were incubated in the dark for five days. We measured biological oxygen demand, changes in absorbance, and DOC concentrations to quantify microbial consumption of DOC and identify shifts in DOC composition and biolability. We found evidence of photobleaching during irradiation (decreasing S275-295, increasing slope ratio, and decreasing SUVA254). Once inoculated, mixtures with more ancient DOC showed initially increased microbial respiration compared to mixtures with primarily modern DOC. During the first 24 hours, the light-exposed mixture with 50% ancient DOC showed 47.6% more oxygen consumption than did the dark 50% mixture, while the purely modern DOC showed 11.5% greater oxygen consumption after light exposure. After 5 days, the modern light priming was comparable to the 50% mixture (31.2% compared to 20.5%, respectively). Our results indicate that natural photoexposure of both modern and newly released DOC increases microbial processing rates over non photo-exposed DOC.

Carnegie Mellon's STUDIO for Creative Inquiry [and] The Interdisciplinary Teaching Network (ITeN) [and] Interactive Fiction [and] The Networked Virtual Art Museum.

ERIC Educational Resources Information Center

Holden, Lynn; And Others

1992-01-01

Explains the STUDIO for Creative Inquiry, an interdisciplinary center at Carnegie Mellon University that supports experimental activities in the arts, and its Interdisciplinary Teaching Network. Three STUDIO projects are described: the Ancient Egypt Prototype application of the network; an interactive fiction system based on artificial…

Emotion, Emotional Expression, and the Cognitive-Physiological Interaction: A Readout View.

ERIC Educational Resources Information Center

Buck, Ross

A basic tenet of this paper is that, from the time of the ancient Greeks, Western thought has distinguished between rational processes unique to humans and the processes governing animal behavior. A model of motivation, emotion, and the cognitive/physiological interaction that can be applied to both animals and humans is presented. The special…

Comparative study of isotopic trends in two coastal ecosystems of North Biscay: A multitrophic spatial gradient approach

NASA Astrophysics Data System (ADS)

Mortillaro, J. M.; Schaal, G.; Grall, J.; Nerot, C.; Brind'Amour, A.; Marchais, V.; Perdriau, M.; Le Bris, H.

2014-01-01

In coastal estuarine embayments, retention of water masses due to coastal topography may result in an increased contribution of continental organic matter in food webs. However, in megatidal embayments, the effect of topography can be counterbalanced by the process of tidal mixing. Large amounts of continental organic matter are exported each year by rivers to the oceans. The fate of terrestrial organic matter in food webs of coastal areas and on neighboring coastal benthic communities was therefore evaluated, at multi-trophic levels, from primary producers to primary consumers and predators. Two coastal areas of the French Atlantic coast, differing in the contributions from their watershed, tidal range and aperture degree, were compared using carbon and nitrogen stable isotopes (δ13C and δ15N) during two contrasted periods. The Bay of Vilaine receives large inputs of freshwater from the Vilaine River, displaying 15N enriched and 13C depleted benthic communities, emphasizing the important role played by allochtonous inputs and anthropogenic impact on terrestrial organic matter in the food web. In contrast, the Bay of Brest which is largely affected by tidal mixing, showed a lack of agreement between isotopic gradients displayed by suspended particulate organic matter (SPOM) and suspension-feeders. Discrepancy between SPOM and suspension-feeders is not surprising due to differences in isotopes integration times. We suggest further that such a discrepancy may result from water replenishment due to coastal inputs, nutrient depletion by phytoplankton production, as well as efficient selection of highly nutritive phytoplanktonic particles by primary consumers.

Plant and arthropod community sensitivity to rainfall manipulation but not nitrogen enrichment in a successional grassland ecosystem.

PubMed

Lee, Mark A; Manning, Pete; Walker, Catherine S; Power, Sally A

2014-12-01

Grasslands provide many ecosystem services including carbon storage, biodiversity preservation and livestock forage production. These ecosystem services will change in the future in response to multiple global environmental changes, including climate change and increased nitrogen inputs. We conducted an experimental study over 3 years in a mesotrophic grassland ecosystem in southern England. We aimed to expose plots to rainfall manipulation that simulated IPCC 4th Assessment projections for 2100 (+15% winter rainfall and -30% summer rainfall) or ambient climate, achieving +15% winter rainfall and -39% summer rainfall in rainfall-manipulated plots. Nitrogen (40 kg ha(-1) year(-1)) was also added to half of the experimental plots in factorial combination. Plant species composition and above ground biomass were not affected by rainfall in the first 2 years and the plant community did not respond to nitrogen enrichment throughout the experiment. In the third year, above-ground plant biomass declined in rainfall-manipulated plots, driven by a decline in the abundances of grass species characteristic of moist soils. Declining plant biomass was also associated with changes to arthropod communities, with lower abundances of plant-feeding Auchenorrhyncha and carnivorous Araneae indicating multi-trophic responses to rainfall manipulation. Plant and arthropod community composition and plant biomass responses to rainfall manipulation were not modified by nitrogen enrichment, which was not expected, but may have resulted from prior nitrogen saturation and/or phosphorus limitation. Overall, our study demonstrates that climate change may in future influence plant productivity and induce multi-trophic responses in grasslands.

Host-plant species conservatism and ecology of a parasitoid fig wasp genus (Chalcidoidea; Sycoryctinae; Arachonia).

PubMed

McLeish, Michael J; Beukman, Gary; van Noort, Simon; Wossler, Theresa C

2012-01-01

Parasitoid diversity in terrestrial ecosystems is enormous. However, ecological processes underpinning their evolutionary diversification in association with other trophic groups are still unclear. Specialisation and interdependencies among chalcid wasps that reproduce on Ficus presents an opportunity to investigate the ecology of a multi-trophic system that includes parasitoids. Here we estimate the host-plant species specificity of a parasitoid fig wasp genus that attacks the galls of non-pollinating pteromalid and pollinating agaonid fig wasps. We discuss the interactions between parasitoids and the Ficus species present in a forest patch of Uganda in context with populations in Southern Africa. Haplotype networks are inferred to examine intraspecific mitochondrial DNA divergences and phylogenetic approaches used to infer putative species relationships. Taxonomic appraisal and putative species delimitation by molecular and morphological techniques are compared. Results demonstrate that a parasitoid fig wasp population is able to reproduce on at least four Ficus species present in a patch. This suggests that parasitoid fig wasps have relatively broad host-Ficus species ranges compared to fig wasps that oviposit internally. Parasitoid fig wasps did not recruit on all available host plants present in the forest census area and suggests an important ecological consequence in mitigating fitness trade-offs between pollinator and Ficus reproduction. The extent to which parasitoid fig wasps exert influence on the pollination mutualism must consider the fitness consequences imposed by the ability to interact with phenotypes of multiple Ficus and fig wasps species, but not equally across space and time.

Gut shuttle service: endozoochory of dispersal-limited soil fauna by gastropods.

PubMed

Türke, Manfred; Lange, Markus; Eisenhauer, Nico

2018-03-01

Numerous important ecosystem functions and services depend on soil biodiversity. However, little is known about the mechanisms which maintain the vast belowground biodiversity and about the filters shaping soil community composition. Yet, biotic interactions like facilitation and dispersal by animals are assumed to play a crucial role, particularly as most soil animal taxa are strongly limited in their active dispersal abilities. Here, we report on a newfound interaction of potentially high ubiquity and importance in soil communities: the endozoochorous dispersal of soil fauna by gastropods. We focus on the dispersal-limited group of oribatid mites, one of the most diverse and abundant soil animal groups. In a field survey in a German riparian forest, 73% of 40 collected slugs (Arion vulgaris) egested a total of 135 oribatid mites, belonging to 35 species. Notably, 70% of the egested mites were alive and survived the gut passage through slugs. Similar results were found for Roman snails (Helix pomatia), indicating the generality of our findings across different gastropod taxa. Complementary laboratory experiments confirmed our field observations, revealing that oribatid mites are, indeed, ingested and egested alive by slugs, and that they are able to independently escape the faeces and colonise new habitats. Our results strongly indicate that gastropods may help soil organisms to disperse within habitats, to overcome dispersal barriers, and to reach short-lived resource patches. Gastropods might even disperse whole multi-trophic micro-ecosystems, a discovery that could have profound implications for our understanding of dispersal mechanisms and the distribution of soil biodiversity.

Drought and root herbivory interact to alter the response of above-ground parasitoids to aphid infested plants and associated plant volatile signals.

PubMed

Tariq, Muhammad; Wright, Denis J; Bruce, Toby J A; Staley, Joanna T

2013-01-01

Multitrophic interactions are likely to be altered by climate change but there is little empirical evidence relating the responses of herbivores and parasitoids to abiotic factors. Here we investigated the effects of drought on an above/below-ground system comprising a generalist and a specialist aphid species (foliar herbivores), their parasitoids, and a dipteran species (root herbivore).We tested the hypotheses that: (1) high levels of drought stress and below-ground herbivory interact to reduce the performance of parasitoids developing in aphids; (2) drought stress and root herbivory change the profile of volatile organic chemicals (VOCs) emitted by the host plant; (3) parasitoids avoid ovipositing in aphids feeding on plants under drought stress and root herbivory. We examined the effect of drought, with and without root herbivory, on the olfactory response of parasitoids (preference), plant volatile emissions, parasitism success (performance), and the effect of drought on root herbivory. Under drought, percentage parasitism of aphids was reduced by about 40-55% compared with well watered plants. There was a significant interaction between drought and root herbivory on the efficacy of the two parasitoid species, drought stress partially reversing the negative effect of root herbivory on percent parasitism. In the absence of drought, root herbivory significantly reduced the performance (e.g. fecundity) of both parasitoid species developing in foliar herbivores. Plant emissions of VOCs were reduced by drought and root herbivores, and in olfactometer experiments parasitoids preferred the odour from well-watered plants compared with other treatments. The present work demonstrates that drought stress can change the outcome of interactions between herbivores feeding above- and below-ground and their parasitoids, mediated by changes in the chemical signals from plants to parasitoids. This provides a new insight into how the structure of terrestrial communities may be affected by drought.

Remnants of an Ancient Deltaretrovirus in the Genomes of Horseshoe Bats (Rhinolophidae).

PubMed

Hron, Tomáš; Farkašová, Helena; Gifford, Robert J; Benda, Petr; Hulva, Pavel; Görföl, Tamás; Pačes, Jan; Elleder, Daniel

2018-04-10

Endogenous retrovirus (ERV) sequences provide a rich source of information about the long-term interactions between retroviruses and their hosts. However, most ERVs are derived from a subset of retrovirus groups, while ERVs derived from certain other groups remain extremely rare. In particular, only a single ERV sequence has been identified that shows evidence of being related to an ancient Deltaretrovirus , despite the large number of vertebrate genome sequences now available. In this report, we identify a second example of an ERV sequence putatively derived from a past deltaretroviral infection, in the genomes of several species of horseshoe bats (Rhinolophidae). This sequence represents a fragment of viral genome derived from a single integration. The time of the integration was estimated to be 11-19 million years ago. This finding, together with the previously identified endogenous Deltaretrovirus in long-fingered bats (Miniopteridae), suggest a close association of bats with ancient deltaretroviruses.

Evolution of an ancient protein function involved in organized multicellularity in animals.

PubMed

Anderson, Douglas P; Whitney, Dustin S; Hanson-Smith, Victor; Woznica, Arielle; Campodonico-Burnett, William; Volkman, Brian F; King, Nicole; Thornton, Joseph W; Prehoda, Kenneth E

2016-01-07

To form and maintain organized tissues, multicellular organisms orient their mitotic spindles relative to neighboring cells. A molecular complex scaffolded by the GK protein-interaction domain (GKPID) mediates spindle orientation in diverse animal taxa by linking microtubule motor proteins to a marker protein on the cell cortex localized by external cues. Here we illuminate how this complex evolved and commandeered control of spindle orientation from a more ancient mechanism. The complex was assembled through a series of molecular exploitation events, one of which - the evolution of GKPID's capacity to bind the cortical marker protein - can be recapitulated by reintroducing a single historical substitution into the reconstructed ancestral GKPID. This change revealed and repurposed an ancient molecular surface that previously had a radically different function. We show how the physical simplicity of this binding interface enabled the evolution of a new protein function now essential to the biological complexity of many animals.

Metabolic co-dependence drives the evolutionarily ancient Hydra-Chlorella symbiosis.

PubMed

Hamada, Mayuko; Schröder, Katja; Bathia, Jay; Kürn, Ulrich; Fraune, Sebastian; Khalturina, Mariia; Khalturin, Konstantin; Shinzato, Chuya; Satoh, Nori; Bosch, Thomas Cg

2018-05-31

Many multicellular organisms rely on symbiotic associations for support of metabolic activity, protection, or energy. Understanding the mechanisms involved in controlling such interactions remains a major challenge. In an unbiased approach we identified key players that control the symbiosis between Hydra viridissima and its photosynthetic symbiont Chlorella sp. A99. We discovered significant up-regulation of Hydra genes encoding a phosphate transporter and glutamine synthetase suggesting regulated nutrition supply between host and symbionts. Interestingly, supplementing the medium with glutamine temporarily supports in vitro growth of the otherwise obligate symbiotic Chlorella , indicating loss of autonomy and dependence on the host. Genome sequencing of Chlorella sp. A99 revealed a large number of amino acid transporters and a degenerated nitrate assimilation pathway, presumably as consequence of the adaptation to the host environment. Our observations portray ancient symbiotic interactions as a codependent partnership in which exchange of nutrients appears to be the primary driving force. © 2018, Hamada et al.

Conference on Interactions of the Interplanetary Plasma with the Modern and Ancient Moon, George Williams College, Lake Geneva, Wis., September 30-October 4, 1974, Proceedings

NASA Technical Reports Server (NTRS)

1975-01-01

The papers deal with solar-wind and magnetospheric interactions with the moon, ancient and present-day lunar surface magnetic and electric fields, the dynamics and evolution of the lunar atmosphere, the lunar record of solar radiation, and nonmeteoric transport of lunar surface materials. Topics discussed include bow-shock protons in the lunar environment, energetic ion events during the lunar night, mapping of the lunar surface magnetic field from orbital observations of mirrored electrons, geomagnetic disturbances induced by the moon, the relationship between lunar topography and limb compressions, measurements of lunar sky brightness, atmospheric supply and loss mechanisms on the moon, the nature and composition of the lunar atmosphere, molecular gas species in that atmosphere, and vacuum-UV spectroscopic measurements of the surface properties of lunar materials. Individual items are announced in this issue.

Phytoplasma infection of a tropical root crop triggers bottom-up cascades by favoring generalist over specialist herbivores

PubMed Central

Graziosi, Ignazio; Burra, Dharani Dhar; Walter, Abigail Jan

2017-01-01

Global interest on plant-microbe-insect interactions is rapidly growing, revealing the multiple ways in which microorganisms mediate plant-herbivore interactions. Phytopathogens regularly alter whole repertoires of plant phenotypic traits, and bring about shifts in key chemical or morphological characteristics of plant hosts. Pathogens can also cause cascading effects on higher trophic levels, and eventually shape entire plant-associated arthropod communities. We tested the hypothesis that a Candidatus Phytoplasma causing cassava witches’ broom (CWB) on cassava (Manihot esculenta Grantz) is altering species composition of invasive herbivores and their associated parasitic hymenopterans. We conducted observational studies in cassava fields in eastern Cambodia to assess the effect of CWB infection on abundance of specialist and generalist mealybugs (Homoptera: Pseudococcidae), and associated primary and hyper-parasitoid species. CWB infection positively affects overall mealybug abundance and species richness at a plant- and field-level, and disproportionately favors a generalist mealybug over a specialist feeder. CWB phytoplasma infection led to increased parasitoid richness and diversity, with richness of ‘comparative’ specialist taxa being the most significantly affected. Parasitism rate did not differ among infected and uninfected plants, and mealybug host suppression was not impacted. CWB phytoplasma modifies host plant quality for sap-feeding homopterans, differentially affects success rates of two invasive species, and generates niche opportunities for higher trophic orders. By doing so, a Candidatus phytoplasma affects broader food web structure and functioning, and assumes the role of an ecosystem engineer. Our work unveils key facets of phytoplasma ecology, and sheds light upon complex multi-trophic interactions mediated by an emerging phytopathogen. These findings have further implications for invasion ecology and management. PMID:28813469

Innate lymphoid cells and parasites: Ancient foes with shared history.

PubMed

Neill, D R; Fallon, P G

2018-02-01

This special issue of Parasite Immunology charts the rapid advances made in our understanding of the myriad interactions between innate lymphoid cells and parasites and how these interactions have shaped our evolutionary history. Here, we provide an overview of the issue and highlight key findings from studies in mice and man. © 2017 The Authors. Parasite Immunology Published by John Wiley & Sons Ltd.

Lipids and Composition of Fatty Acids of Saccharina latissima Cultivated Year-Round in Integrated Multi-Trophic Aquaculture

PubMed Central

Marinho, Gonçalo S.; Holdt, Susan L.; Jacobsen, Charlotte; Angelidaki, Irini

2015-01-01

This study is evaluating the seasonal lipid and fatty acid composition of the brown seaweed Saccharina latissima. Biomass was sampled throughout the year (bi-monthly) at the commercial cultivation site near a fish farm in an integrated multi-trophic aquaculture (IMTA) and at a reference site in Denmark (2013–2014). Generally, there was no difference in the biomass composition between sites; however, significant seasonal changes were found. The lipid concentration varied from 0.62%–0.88% dry weight (DW) in July to 3.33%–3.35% DW in November (p < 0.05) in both sites. The fatty acid composition in January was significantly different from all the other sampling months. The dissimilarities were mainly explained by changes in the relative abundance of 20:5n-3 (13.12%–33.35%), 14:0 (11.07%–29.37%) and 18:1n-9 (10.15%–16.94%). Polyunsaturated fatty acids (PUFA’s) made up more than half of the fatty acids with a maximum in July (52.3%–54.0% fatty acid methyl esters; FAME). This including the most appreciated health beneficial PUFA’s, eicosapentaenoic (EPA; 20:5n-3) and docosahexaenoic acid (DHA; 22:6n-3), but also arachidonic (ARA) and stearidonic acid (SDA), which are not found in land vegetables such as cabbage and lettuce. Compared to fat (salmon) and lean fish (cod) this seaweed species contains higher proportions of ARA and SDA, but lower EPA (only cod) and DHA. Conclusively, the season of harvest is important for the choice of lipid quantity and quality, but the marine vegetables provide better sources of EPA, DHA and long-chain (LC)-PUFA’s in general compared to traditional vegetables. PMID:26184241

Biodiversity and ecosystem functioning in dynamic landscapes

PubMed Central

Brose, Ulrich; Hillebrand, Helmut

2016-01-01

The relationship between biodiversity and ecosystem functioning (BEF) and its consequence for ecosystem services has predominantly been studied by controlled, short-term and small-scale experiments under standardized environmental conditions and constant community compositions. However, changes in biodiversity occur in real-world ecosystems with varying environments and a dynamic community composition. In this theme issue, we present novel research on BEF in such dynamic communities. The contributions are organized in three sections on BEF relationships in (i) multi-trophic diversity, (ii) non-equilibrium biodiversity under disturbance and varying environmental conditions, and (iii) large spatial and long temporal scales. The first section shows that multi-trophic BEF relationships often appear idiosyncratic, while accounting for species traits enables a predictive understanding. Future BEF research on complex communities needs to include ecological theory that is based on first principles of species-averaged body masses, stoichiometry and effects of environmental conditions such as temperature. The second section illustrates that disturbance and varying environments have direct as well as indirect (via changes in species richness, community composition and species' traits) effects on BEF relationships. Fluctuations in biodiversity (species richness, community composition and also trait dominance within species) can severely modify BEF relationships. The third section demonstrates that BEF at larger spatial scales is driven by different variables. While species richness per se and community biomass are most important, species identity effects and community composition are less important than at small scales. Across long temporal scales, mass extinctions represent severe changes in biodiversity with mixed effects on ecosystem functions. Together, the contributions of this theme issue identify new research frontiers and answer some open questions on BEF relationships in dynamic communities of real-world landscapes. PMID:27114570

Land-use intensification causes multitrophic homogenization of grassland communities

NASA Astrophysics Data System (ADS)

Gossner, Martin M.; Lewinsohn, Thomas M.; Kahl, Tiemo; Grassein, Fabrice; Boch, Steffen; Prati, Daniel; Birkhofer, Klaus; Renner, Swen C.; Sikorski, Johannes; Wubet, Tesfaye; Arndt, Hartmut; Baumgartner, Vanessa; Blaser, Stefan; Blüthgen, Nico; Börschig, Carmen; Buscot, Francois; Diekötter, Tim; Jorge, Leonardo Ré; Jung, Kirsten; Keyel, Alexander C.; Klein, Alexandra-Maria; Klemmer, Sandra; Krauss, Jochen; Lange, Markus; Müller, Jörg; Overmann, Jörg; Pašalić, Esther; Penone, Caterina; Perović, David J.; Purschke, Oliver; Schall, Peter; Socher, Stephanie A.; Sonnemann, Ilja; Tschapka, Marco; Tscharntke, Teja; Türke, Manfred; Venter, Paul Christiaan; Weiner, Christiane N.; Werner, Michael; Wolters, Volkmar; Wurst, Susanne; Westphal, Catrin; Fischer, Markus; Weisser, Wolfgang W.; Allan, Eric

2016-12-01

Land-use intensification is a major driver of biodiversity loss. Alongside reductions in local species diversity, biotic homogenization at larger spatial scales is of great concern for conservation. Biotic homogenization means a decrease in β-diversity (the compositional dissimilarity between sites). Most studies have investigated losses in local (α)-diversity and neglected biodiversity loss at larger spatial scales. Studies addressing β-diversity have focused on single or a few organism groups (for example, ref. 4), and it is thus unknown whether land-use intensification homogenizes communities at different trophic levels, above- and belowground. Here we show that even moderate increases in local land-use intensity (LUI) cause biotic homogenization across microbial, plant and animal groups, both above- and belowground, and that this is largely independent of changes in α-diversity. We analysed a unique grassland biodiversity dataset, with abundances of more than 4,000 species belonging to 12 trophic groups. LUI, and, in particular, high mowing intensity, had consistent effects on β-diversity across groups, causing a homogenization of soil microbial, fungal pathogen, plant and arthropod communities. These effects were nonlinear and the strongest declines in β-diversity occurred in the transition from extensively managed to intermediate intensity grassland. LUI tended to reduce local α-diversity in aboveground groups, whereas the α-diversity increased in belowground groups. Correlations between the β-diversity of different groups, particularly between plants and their consumers, became weaker at high LUI. This suggests a loss of specialist species and is further evidence for biotic homogenization. The consistently negative effects of LUI on landscape-scale biodiversity underscore the high value of extensively managed grasslands for conserving multitrophic biodiversity and ecosystem service provision. Indeed, biotic homogenization rather than local diversity loss could prove to be the most substantial consequence of land-use intensification.

Land-use intensification causes multitrophic homogenization of grassland communities.

PubMed

Gossner, Martin M; Lewinsohn, Thomas M; Kahl, Tiemo; Grassein, Fabrice; Boch, Steffen; Prati, Daniel; Birkhofer, Klaus; Renner, Swen C; Sikorski, Johannes; Wubet, Tesfaye; Arndt, Hartmut; Baumgartner, Vanessa; Blaser, Stefan; Blüthgen, Nico; Börschig, Carmen; Buscot, Francois; Diekötter, Tim; Jorge, Leonardo Ré; Jung, Kirsten; Keyel, Alexander C; Klein, Alexandra-Maria; Klemmer, Sandra; Krauss, Jochen; Lange, Markus; Müller, Jörg; Overmann, Jörg; Pašalić, Esther; Penone, Caterina; Perović, David J; Purschke, Oliver; Schall, Peter; Socher, Stephanie A; Sonnemann, Ilja; Tschapka, Marco; Tscharntke, Teja; Türke, Manfred; Venter, Paul Christiaan; Weiner, Christiane N; Werner, Michael; Wolters, Volkmar; Wurst, Susanne; Westphal, Catrin; Fischer, Markus; Weisser, Wolfgang W; Allan, Eric

2016-12-08

Land-use intensification is a major driver of biodiversity loss. Alongside reductions in local species diversity, biotic homogenization at larger spatial scales is of great concern for conservation. Biotic homogenization means a decrease in β-diversity (the compositional dissimilarity between sites). Most studies have investigated losses in local (α)-diversity and neglected biodiversity loss at larger spatial scales. Studies addressing β-diversity have focused on single or a few organism groups (for example, ref. 4), and it is thus unknown whether land-use intensification homogenizes communities at different trophic levels, above- and belowground. Here we show that even moderate increases in local land-use intensity (LUI) cause biotic homogenization across microbial, plant and animal groups, both above- and belowground, and that this is largely independent of changes in α-diversity. We analysed a unique grassland biodiversity dataset, with abundances of more than 4,000 species belonging to 12 trophic groups. LUI, and, in particular, high mowing intensity, had consistent effects on β-diversity across groups, causing a homogenization of soil microbial, fungal pathogen, plant and arthropod communities. These effects were nonlinear and the strongest declines in β-diversity occurred in the transition from extensively managed to intermediate intensity grassland. LUI tended to reduce local α-diversity in aboveground groups, whereas the α-diversity increased in belowground groups. Correlations between the β-diversity of different groups, particularly between plants and their consumers, became weaker at high LUI. This suggests a loss of specialist species and is further evidence for biotic homogenization. The consistently negative effects of LUI on landscape-scale biodiversity underscore the high value of extensively managed grasslands for conserving multitrophic biodiversity and ecosystem service provision. Indeed, biotic homogenization rather than local diversity loss could prove to be the most substantial consequence of land-use intensification.

Lipids and Composition of Fatty Acids of Saccharina latissima Cultivated Year-Round in Integrated Multi-Trophic Aquaculture.

PubMed

Marinho, Gonçalo S; Holdt, Susan L; Jacobsen, Charlotte; Angelidaki, Irini

2015-07-15

This study is evaluating the seasonal lipid and fatty acid composition of the brown seaweed Saccharina latissima. Biomass was sampled throughout the year (bi-monthly) at the commercial cultivation site near a fish farm in an integrated multi-trophic aquaculture (IMTA) and at a reference site in Denmark (2013-2014). Generally, there was no difference in the biomass composition between sites; however, significant seasonal changes were found. The lipid concentration varied from 0.62%-0.88% dry weight (DW) in July to 3.33%-3.35% DW in November (p < 0.05) in both sites. The fatty acid composition in January was significantly different from all the other sampling months. The dissimilarities were mainly explained by changes in the relative abundance of 20:5n-3 (13.12%-33.35%), 14:0 (11.07%-29.37%) and 18:1n-9 (10.15%-16.94%). Polyunsaturated fatty acids (PUFA's) made up more than half of the fatty acids with a maximum in July (52.3%-54.0% fatty acid methyl esters; FAME). This including the most appreciated health beneficial PUFA's, eicosapentaenoic (EPA; 20:5n-3) and docosahexaenoic acid (DHA; 22:6n-3), but also arachidonic (ARA) and stearidonic acid (SDA), which are not found in land vegetables such as cabbage and lettuce. Compared to fat (salmon) and lean fish (cod) this seaweed species contains higher proportions of ARA and SDA, but lower EPA (only cod) and DHA. Conclusively, the season of harvest is important for the choice of lipid quantity and quality, but the marine vegetables provide better sources of EPA, DHA and long-chain (LC)-PUFA's in general compared to traditional vegetables.

Ancient Egypt

NASA Astrophysics Data System (ADS)

Swamy, Ashwin Balegar

This thesis involves development of an interactive GIS (Geographic Information System) based application, which gives information about the ancient history of Egypt. The astonishing architecture, the strange burial rituals and their civilization were some of the intriguing questions that motivated me towards developing this application. The application is a historical timeline starting from 3100 BC, leading up to 664 BC, focusing on the evolution of the Egyptian dynasties. The tool holds information regarding some of the famous monuments which were constructed during that era and also about the civilizations that co-existed. It also provides details about the religions followed by their kings. It also includes the languages spoken during those periods. The tool is developed using JAVA, a programing language and MOJO (Map Objects Java Objects) a product of ESRI (Environmental Science Research Institute) to create map objects, to provide geographic information. JAVA Swing is used for designing the user interface. HTML (Hyper Text Markup Language) pages are created to provide the user with more information related to the historic period. CSS (Cascade Style Sheets) and JAVA Scripts are used with HTML5 to achieve creative display of content. The tool is kept simple and easy for the user to interact with. The tool also includes pictures and videos for the user to get a feel of the historic period. The application is built to motivate people to know more about one of the prominent and ancient civilization of the Mediterranean world.

Jasmonate-Mediated Induced Volatiles in the American Cranberry, Vaccinium macrocarpon: From Gene Expression to Organismal Interactions

PubMed Central

Rodriguez-Saona, Cesar R.; Polashock, James; Malo, Edi A.

2013-01-01

Jasmonates, i.e., jasmonic acid (JA) and methyl jasmonate (MeJA), are signaling hormones that regulate a large number of defense responses in plants which in turn affect the plants’ interactions with herbivores and their natural enemies. Here, we investigated the effect of jasmonates on the emission of volatiles in the American cranberry, Vaccinium macrocarpon, at different levels of biological organization from gene expression to organismal interactions. At the molecular level, four genes (BCS, LLS, NER1, and TPS21) responded significantly to gypsy moth larval feeding, MeJA, and mechanical wounding, but to different degrees. The most dramatic changes in expression of BCS and TPS21 (genes in the sesquiterpenoid pathway) were when treated with MeJA. Gypsy moth-damaged and MeJA-treated plants also had significantly elevated expression of LLS and NER1 (genes in the monoterpene and homoterpene biosynthesis pathways, respectively). At the biochemical level, MeJA induced a complex blend of monoterpene and sesquiterpene compounds that differed from gypsy moth and mechanical damage, and followed a diurnal pattern of emission. At the organismal level, numbers of Sparganothis sulfureana moths were lower while numbers of parasitic wasps were higher on sticky traps near MeJA-treated cranberry plants than those near untreated plants. Out of 11 leaf volatiles tested, (Z)-3-hexenyl acetate, linalool, and linalool oxide elicited strong antennal (EAG) responses from S. sulfureana, whereas sesquiterpenes elicited weak EAG responses. In addition, mortality of S. sulfureana larvae increased by about 43% in JA treated cranberry plants as compared with untreated plants, indicating a relationship among adult preference, antennal sensitivity to plant odors, and offspring performance. This study highlights the role of the jasmonate-dependent defensive pathway in the emissions of herbivore-induced volatiles in cranberries and its importance in multi-trophic level interactions. PMID:23641249

Jasmonate-Mediated Induced Volatiles in the American Cranberry, Vaccinium macrocarpon: From Gene Expression to Organismal Interactions.

PubMed

Rodriguez-Saona, Cesar R; Polashock, James; Malo, Edi A

2013-01-01

Jasmonates, i.e., jasmonic acid (JA) and methyl jasmonate (MeJA), are signaling hormones that regulate a large number of defense responses in plants which in turn affect the plants' interactions with herbivores and their natural enemies. Here, we investigated the effect of jasmonates on the emission of volatiles in the American cranberry, Vaccinium macrocarpon, at different levels of biological organization from gene expression to organismal interactions. At the molecular level, four genes (BCS, LLS, NER1, and TPS21) responded significantly to gypsy moth larval feeding, MeJA, and mechanical wounding, but to different degrees. The most dramatic changes in expression of BCS and TPS21 (genes in the sesquiterpenoid pathway) were when treated with MeJA. Gypsy moth-damaged and MeJA-treated plants also had significantly elevated expression of LLS and NER1 (genes in the monoterpene and homoterpene biosynthesis pathways, respectively). At the biochemical level, MeJA induced a complex blend of monoterpene and sesquiterpene compounds that differed from gypsy moth and mechanical damage, and followed a diurnal pattern of emission. At the organismal level, numbers of Sparganothis sulfureana moths were lower while numbers of parasitic wasps were higher on sticky traps near MeJA-treated cranberry plants than those near untreated plants. Out of 11 leaf volatiles tested, (Z)-3-hexenyl acetate, linalool, and linalool oxide elicited strong antennal (EAG) responses from S. sulfureana, whereas sesquiterpenes elicited weak EAG responses. In addition, mortality of S. sulfureana larvae increased by about 43% in JA treated cranberry plants as compared with untreated plants, indicating a relationship among adult preference, antennal sensitivity to plant odors, and offspring performance. This study highlights the role of the jasmonate-dependent defensive pathway in the emissions of herbivore-induced volatiles in cranberries and its importance in multi-trophic level interactions.

An Ancient Fingerprint Indicates the Common Ancestry of Rossmann-Fold Enzymes Utilizing Different Ribose-Based Cofactors

PubMed Central

Laurino, Paola; Tóth-Petróczy, Ágnes; Meana-Pañeda, Rubén; Lin, Wei; Truhlar, Donald G.; Tawfik, Dan S.

2016-01-01

Nucleoside-based cofactors are presumed to have preceded proteins. The Rossmann fold is one of the most ancient and functionally diverse protein folds, and most Rossmann enzymes utilize nucleoside-based cofactors. We analyzed an omnipresent Rossmann ribose-binding interaction: a carboxylate side chain at the tip of the second β-strand (β2-Asp/Glu). We identified a canonical motif, defined by the β2-topology and unique geometry. The latter relates to the interaction being bidentate (both ribose hydroxyls interacting with the carboxylate oxygens), to the angle between the carboxylate and the ribose, and to the ribose’s ring configuration. We found that this canonical motif exhibits hallmarks of divergence rather than convergence. It is uniquely found in Rossmann enzymes that use different cofactors, primarily SAM (S-adenosyl methionine), NAD (nicotinamide adenine dinucleotide), and FAD (flavin adenine dinucleotide). Ribose-carboxylate bidentate interactions in other folds are not only rare but also have a different topology and geometry. We further show that the canonical geometry is not dictated by a physical constraint—geometries found in noncanonical interactions have similar calculated bond energies. Overall, these data indicate the divergence of several major Rossmann-fold enzyme classes, with different cofactors and catalytic chemistries, from a common pre-LUCA (last universal common ancestor) ancestor that possessed the β2-Asp/Glu motif. PMID:26938925

Tracking the elusive history of diversification in plant-herbivorous insect-parasitoid food webs: insights from figs and fig wasps.

PubMed

Kjellberg, Finn; Proffit, Magali

2016-02-01

The food webs consisting of plants, herbivorous insects and their insect parasitoids are a major component of terrestrial biodiversity. They play a central role in the functioning of all terrestrial ecosystems, and the number of species involved is mind-blowing (Nyman et al. 2015). Nevertheless, our understanding of the evolutionary and ecological determinants of their diversity is still in its infancy. In this issue of Molecular Ecology, Sutton et al. (2016) open a window into the comparative analysis of spatial genetic structuring in a set of comparable multitrophic models, involving highly species-specific interactions: figs and fig wasps. This is the first study to compare genetic structure using population genetics tools in a fig-pollinating wasp (Pleistodontes imperialis sp1) and its main parasitoid (Sycoscapter sp.A). The fig-pollinating wasp has a discontinuous spatial distribution that correlates with genetic differentiation, while the parasitoid bridges the discontinuity by parasitizing other pollinator species on the same host fig tree and presents basically no spatial genetic structure. The full implications of these results for our general understanding of plant-herbivorous insect-insect parasitoids diversification become apparent when envisioned within the framework of recent advances in fig and fig wasp biology. © 2016 John Wiley & Sons Ltd.

Mercury based drug in ancient India: The red sulfide of mercury in nanoscale.

PubMed

Mukhi, Priyabrata; Mohapatra, Swapna Sarita; Bhattacharjee, M; Ray, K K; Muraleedharan, T S; Arun, A; Sathyavathi, R; Juluri, R R; Satyam, P V; Panda, Alok K; Biswas, Ashis; Nayak, S; Bojja, Sreedhar; Pratihar, S; Roy, Sujit

Mercury is one of the elements which had attracted the attention of the chemists and physicians of ancient India and China. Among the various metal based drugs which utilize mercury, we became interested in the red sulfide of mercury which is known in ancient Indian literature as rasasindur (alias rasasindura, rasasindoor, rasasinduram, sindur, or sindoor) and is used extensively in various ailments and diseases. Following various physico-chemical characterizations it is concluded that rasasindur is chemically pure α-HgS with Hg:S ratio as 1:1. Analysis of rasasindur vide Transmission Electron Microscopy (TEM) showed that the particles are in nanoscale. Bio-chemical studies of rasasindur were also demonstrated. It interacts with Bovine Serum Albumin (BSA) with an association constant of (9.76 ± 0.56) × 10 3 M -1 and behaves as a protease inhibitor by inhibiting the proteolysis of BSA by trypsin. It also showed mild antioxidant properties. Copyright © 2017 Transdisciplinary University, Bangalore and World Ayurveda Foundation. Published by Elsevier B.V. All rights reserved.

Ancient DNA reveals a migration of the ancient Di-qiang populations into Xinjiang as early as the early Bronze Age.

PubMed

Gao, Shi-Zhu; Zhang, Ye; Wei, Dong; Li, Hong-Jie; Zhao, Yong-Bin; Cui, Yin-Qiu; Zhou, Hui

2015-05-01

Xinjiang is at the crossroads between East and West Eurasia, and it harbors a relatively complex genetic history. In order to better understand the population movements and interactions in this region, mitochondrial and Y chromosome analyses on 40 ancient human remains from the Tianshanbeilu site in eastern Xinjiang were performed. Twenty-nine samples were successfully assigned to specific mtDNA haplogroups, including the west Eurasian maternal lineages of U and W and the east Eurasian maternal lineages of A, C, D, F, G, Z, M7, and M10. In the male samples, two Y chromosome haplogroups, C* and N1 (xN1a, N1c), were successfully assigned. Our mitochondrial and Y-chromosomal DNA analyses combined with the archaeological studies revealed that the Di-qiang populations from the Hexi Corridor had migrated to eastern Xinjiang and admixed with the Eurasian steppe populations in the early Bronze Age. © 2014 Wiley Periodicals, Inc.

Evolution of an ancient protein function involved in organized multicellularity in animals

PubMed Central

Anderson, Douglas P; Whitney, Dustin S; Hanson-Smith, Victor; Woznica, Arielle; Campodonico-Burnett, William; Volkman, Brian F; King, Nicole; Thornton, Joseph W; Prehoda, Kenneth E

2016-01-01

To form and maintain organized tissues, multicellular organisms orient their mitotic spindles relative to neighboring cells. A molecular complex scaffolded by the GK protein-interaction domain (GKPID) mediates spindle orientation in diverse animal taxa by linking microtubule motor proteins to a marker protein on the cell cortex localized by external cues. Here we illuminate how this complex evolved and commandeered control of spindle orientation from a more ancient mechanism. The complex was assembled through a series of molecular exploitation events, one of which – the evolution of GKPID’s capacity to bind the cortical marker protein – can be recapitulated by reintroducing a single historical substitution into the reconstructed ancestral GKPID. This change revealed and repurposed an ancient molecular surface that previously had a radically different function. We show how the physical simplicity of this binding interface enabled the evolution of a new protein function now essential to the biological complexity of many animals. DOI: http://dx.doi.org/10.7554/eLife.10147.001 PMID:26740169

Finding out egyptian gods' secret using analytical chemistry: biomedical properties of egyptian black makeup revealed by amperometry at single cells.

PubMed

Tapsoba, Issa; Arbault, Stéphane; Walter, Philippe; Amatore, Christian

2010-01-15

Lead-based compounds were used during antiquity as both pigments and medicines in the formulation of makeup materials. Chemical analysis of cosmetics samples found in Egyptians tombs and the reconstitution of ancient recipes as reported by Greco-Roman authors have shown that two non-natural lead chlorides (laurionite Pb(OH)Cl and phosgenite Pb(2)Cl(2)CO(3)) were purposely synthesized and were used as fine powders in makeup and eye lotions. According to ancient Egyptian manuscripts, these were essential remedies for treating eye illness and skin ailments. This conclusion seems amazing because today we focus only on the well-recognized toxicity of lead salts. Here, using ultramicroelectrodes, we obtain new insights into the biochemical interactions between lead(II) ions and cells, which support the ancient medical use of sparingly soluble lead compounds. Submicromolar concentrations of Pb(2+) ions are shown to be sufficient for eliciting specific oxidative stress responses of keratinocytes. These consist essentially of an overproduction of nitrogen monoxide (NO degrees ). Owing to the biological role of NO degrees in stimulating nonspecific immunological defenses, one may argue that these lead compounds were deliberately manufactured and used in ancient Egyptian formulations to prevent and treat eye illnesses by promoting the action of immune cells.

Adaptive genetic variation mediates bottom-up and top-down control in an aquatic ecosystem

PubMed Central

Rudman, Seth M.; Rodriguez-Cabal, Mariano A.; Stier, Adrian; Sato, Takuya; Heavyside, Julian; El-Sabaawi, Rana W.; Crutsinger, Gregory M.

2015-01-01

Research in eco-evolutionary dynamics and community genetics has demonstrated that variation within a species can have strong impacts on associated communities and ecosystem processes. Yet, these studies have centred around individual focal species and at single trophic levels, ignoring the role of phenotypic variation in multiple taxa within an ecosystem. Given the ubiquitous nature of local adaptation, and thus intraspecific variation, we sought to understand how combinations of intraspecific variation in multiple species within an ecosystem impacts its ecology. Using two species that co-occur and demonstrate adaptation to their natal environments, black cottonwood (Populus trichocarpa) and three-spined stickleback (Gasterosteus aculeatus), we investigated the effects of intraspecific phenotypic variation on both top-down and bottom-up forces using a large-scale aquatic mesocosm experiment. Black cottonwood genotypes exhibit genetic variation in their productivity and consequently their leaf litter subsidies to the aquatic system, which mediates the strength of top-down effects from stickleback on prey abundances. Abundances of four common invertebrate prey species and available phosphorous, the most critically limiting nutrient in freshwater systems, are dictated by the interaction between genetic variation in cottonwood productivity and stickleback morphology. These interactive effects fit with ecological theory on the relationship between productivity and top-down control and are comparable in strength to the effects of predator addition. Our results illustrate that intraspecific variation, which can evolve rapidly, is an under-appreciated driver of community structure and ecosystem function, demonstrating that a multi-trophic perspective is essential to understanding the role of evolution in structuring ecological patterns. PMID:26203004

Adaptive genetic variation mediates bottom-up and top-down control in an aquatic ecosystem.

PubMed

Rudman, Seth M; Rodriguez-Cabal, Mariano A; Stier, Adrian; Sato, Takuya; Heavyside, Julian; El-Sabaawi, Rana W; Crutsinger, Gregory M

2015-08-07

Research in eco-evolutionary dynamics and community genetics has demonstrated that variation within a species can have strong impacts on associated communities and ecosystem processes. Yet, these studies have centred around individual focal species and at single trophic levels, ignoring the role of phenotypic variation in multiple taxa within an ecosystem. Given the ubiquitous nature of local adaptation, and thus intraspecific variation, we sought to understand how combinations of intraspecific variation in multiple species within an ecosystem impacts its ecology. Using two species that co-occur and demonstrate adaptation to their natal environments, black cottonwood (Populus trichocarpa) and three-spined stickleback (Gasterosteus aculeatus), we investigated the effects of intraspecific phenotypic variation on both top-down and bottom-up forces using a large-scale aquatic mesocosm experiment. Black cottonwood genotypes exhibit genetic variation in their productivity and consequently their leaf litter subsidies to the aquatic system, which mediates the strength of top-down effects from stickleback on prey abundances. Abundances of four common invertebrate prey species and available phosphorous, the most critically limiting nutrient in freshwater systems, are dictated by the interaction between genetic variation in cottonwood productivity and stickleback morphology. These interactive effects fit with ecological theory on the relationship between productivity and top-down control and are comparable in strength to the effects of predator addition. Our results illustrate that intraspecific variation, which can evolve rapidly, is an under-appreciated driver of community structure and ecosystem function, demonstrating that a multi-trophic perspective is essential to understanding the role of evolution in structuring ecological patterns. © 2015 The Author(s).

Integration of Plant Defense Traits with Biological Control of Arthropod Pests: Challenges and Opportunities

PubMed Central

Peterson, Julie A.; Ode, Paul J.; Oliveira-Hofman, Camila; Harwood, James D.

2016-01-01

Crop plants exhibit a wide diversity of defensive traits and strategies to protect themselves from damage by herbivorous pests and disease. These defensive traits may be naturally occurring or artificially selected through crop breeding, including introduction via genetic engineering. While these traits can have obvious and direct impacts on herbivorous pests, many have profound effects on higher trophic levels, including the natural enemies of herbivores. Multi-trophic effects of host plant resistance have the potential to influence, both positively and negatively, biological control. Plant defense traits can influence both the numerical and functional responses of natural enemies; these interactions can be semiochemically, plant toxin-, plant nutrient-, and/or physically mediated. Case studies involving predators, parasitoids, and pathogens of crop pests will be presented and discussed. These diverse groups of natural enemies may respond differently to crop plant traits based on their own unique biology and the ecological niches they fill. Genetically modified crop plants that have been engineered to express transgenic products affecting herbivorous pests are an additional consideration. For the most part, transgenic plant incorporated protectant (PIP) traits are compatible with biological control due to their selective toxicity to targeted pests and relatively low non-target impacts, although transgenic crops may have indirect effects on higher trophic levels and arthropod communities mediated by lower host or prey number and/or quality. Host plant resistance and biological control are two of the key pillars of integrated pest management; their potential interactions, whether they are synergistic, complementary, or disruptive, are key in understanding and achieving sustainable and effective pest management. PMID:27965695

Integration of Plant Defense Traits with Biological Control of Arthropod Pests: Challenges and Opportunities.

PubMed

Peterson, Julie A; Ode, Paul J; Oliveira-Hofman, Camila; Harwood, James D

2016-01-01

Crop plants exhibit a wide diversity of defensive traits and strategies to protect themselves from damage by herbivorous pests and disease. These defensive traits may be naturally occurring or artificially selected through crop breeding, including introduction via genetic engineering. While these traits can have obvious and direct impacts on herbivorous pests, many have profound effects on higher trophic levels, including the natural enemies of herbivores. Multi-trophic effects of host plant resistance have the potential to influence, both positively and negatively, biological control. Plant defense traits can influence both the numerical and functional responses of natural enemies; these interactions can be semiochemically, plant toxin-, plant nutrient-, and/or physically mediated. Case studies involving predators, parasitoids, and pathogens of crop pests will be presented and discussed. These diverse groups of natural enemies may respond differently to crop plant traits based on their own unique biology and the ecological niches they fill. Genetically modified crop plants that have been engineered to express transgenic products affecting herbivorous pests are an additional consideration. For the most part, transgenic plant incorporated protectant (PIP) traits are compatible with biological control due to their selective toxicity to targeted pests and relatively low non-target impacts, although transgenic crops may have indirect effects on higher trophic levels and arthropod communities mediated by lower host or prey number and/or quality. Host plant resistance and biological control are two of the key pillars of integrated pest management; their potential interactions, whether they are synergistic, complementary, or disruptive, are key in understanding and achieving sustainable and effective pest management.

Novel multitrophic interactions among an exotic, generalist herbivore, its host plants and resident enemies in California.

PubMed

Hopper, Julie V; Mills, Nicholas J

2016-12-01

What happens when an exotic herbivore invades and encounters novel host plants and enemies? Here, we investigate the impacts of host plant quality and plant architecture on an exotic generalist herbivore, Epiphyas postvittana (Lepidoptera: Tortricidae) and its interactions with resident parasitoids in California. Using artificial diet and five plant species, we found significant effects of diet on the fitness of E. postvittana under laboratory conditions. In the field, based on a common garden experiment with host plants of nine species, we found that larval parasitism varied among plant species by a factor of 2.1 with a higher risk of parasitism on shorter than taller plants. Parasitism of egg masses varied by a factor of 4.7 among plant species with a higher risk of parasitism on taller than shorter plants. In the laboratory, the foraging time of a resident egg parasitoid on excised leaves varied among plant species, but did not correspond to observed egg parasitism rates on these same plants in the field. On leaves of Plantago lanceolata, the probability of egg parasitism decreased with trichome density. Overall, there was a significant effect of host plant on the intrinsic rate of increase of E. postvittana and on the extent of parasitism by resident parasitoids, but no correlation existed between these two effects. The recent decline of E. postvittana in California may be due to the low quality of some host plants and to the many resident enemies that readily attack it, perhaps due to its phylogenetic relatedness to resident tortricids.

Piecemeal Buildup of the Genetic Code, Ribosomes, and Genomes from Primordial tRNA Building Blocks

PubMed Central

Caetano-Anollés, Derek; Caetano-Anollés, Gustavo

2016-01-01

The origin of biomolecular machinery likely centered around an ancient and central molecule capable of interacting with emergent macromolecular complexity. tRNA is the oldest and most central nucleic acid molecule of the cell. Its co-evolutionary interactions with aminoacyl-tRNA synthetase protein enzymes define the specificities of the genetic code and those with the ribosome their accurate biosynthetic interpretation. Phylogenetic approaches that focus on molecular structure allow reconstruction of evolutionary timelines that describe the history of RNA and protein structural domains. Here we review phylogenomic analyses that reconstruct the early history of the synthetase enzymes and the ribosome, their interactions with RNA, and the inception of amino acid charging and codon specificities in tRNA that are responsible for the genetic code. We also trace the age of domains and tRNA onto ancient tRNA homologies that were recently identified in rRNA. Our findings reveal a timeline of recruitment of tRNA building blocks for the formation of a functional ribosome, which holds both the biocatalytic functions of protein biosynthesis and the ability to store genetic memory in primordial RNA genomic templates. PMID:27918435

Piecemeal Buildup of the Genetic Code, Ribosomes, and Genomes from Primordial tRNA Building Blocks.

PubMed

Caetano-Anollés, Derek; Caetano-Anollés, Gustavo

2016-12-02

The origin of biomolecular machinery likely centered around an ancient and central molecule capable of interacting with emergent macromolecular complexity. tRNA is the oldest and most central nucleic acid molecule of the cell. Its co-evolutionary interactions with aminoacyl-tRNA synthetase protein enzymes define the specificities of the genetic code and those with the ribosome their accurate biosynthetic interpretation. Phylogenetic approaches that focus on molecular structure allow reconstruction of evolutionary timelines that describe the history of RNA and protein structural domains. Here we review phylogenomic analyses that reconstruct the early history of the synthetase enzymes and the ribosome, their interactions with RNA, and the inception of amino acid charging and codon specificities in tRNA that are responsible for the genetic code. We also trace the age of domains and tRNA onto ancient tRNA homologies that were recently identified in rRNA. Our findings reveal a timeline of recruitment of tRNA building blocks for the formation of a functional ribosome, which holds both the biocatalytic functions of protein biosynthesis and the ability to store genetic memory in primordial RNA genomic templates.

Diverse Phytochemicals and Bioactivities in the Ancient Fruit and Modern Functional Food Pomegranate (Punica granatum).

PubMed

Wu, Sheng; Tian, Li

2017-09-25

Having served as a symbolic fruit since ancient times, pomegranate ( Punica granatum ) has also gained considerable recognition as a functional food in the modern era. A large body of literature has linked pomegranate polyphenols, particularly anthocyanins (ATs) and hydrolyzable tannins (HTs), to the health-promoting activities of pomegranate juice and fruit extracts. However, it remains unclear as to how, and to what extent, the numerous phytochemicals in pomegranate may interact and exert cooperative activities in humans. In this review, we examine the structural and analytical information of the diverse phytochemicals that have been identified in different pomegranate tissues, to establish a knowledge base for characterization of metabolite profiles, discovery of novel phytochemicals, and investigation of phytochemical interactions in pomegranate. We also assess recent findings on the function and molecular mechanism of ATs as well as urolithins, the intestinal microbial derivatives of pomegranate HTs, on human nutrition and health. A better understanding of the structural diversity of pomegranate phytochemicals as well as their bioconversions and bioactivities in humans will facilitate the interrogation of their synergistic/antagonistic interactions and accelerate their applications in dietary-based cancer chemoprevention and treatment in the future.

The ancient history of the structure of ribonuclease P and the early origins of Archaea

PubMed Central

2010-01-01

Background Ribonuclease P is an ancient endonuclease that cleaves precursor tRNA and generally consists of a catalytic RNA subunit (RPR) and one or more proteins (RPPs). It represents an important macromolecular complex and model system that is universally distributed in life. Its putative origins have inspired fundamental hypotheses, including the proposal of an ancient RNA world. Results To study the evolution of this complex, we constructed rooted phylogenetic trees of RPR molecules and substructures and estimated RPP age using a cladistic method that embeds structure directly into phylogenetic analysis. The general approach was used previously to study the evolution of tRNA, SINE RNA and 5S rRNA, the origins of metabolism, and the evolution and complexity of the protein world, and revealed here remarkable evolutionary patterns. Trees of molecules uncovered the tripartite nature of life and the early origin of archaeal RPRs. Trees of substructures showed molecules originated in stem P12 and were accessorized with a catalytic P1-P4 core structure before the first substructure was lost in Archaea. This core currently interacts with RPPs and ancient segments of the tRNA molecule. Finally, a census of protein domain structure in hundreds of genomes established RPPs appeared after the rise of metabolic enzymes at the onset of the protein world. Conclusions The study provides a detailed account of the history and early diversification of a fundamental ribonucleoprotein and offers further evidence in support of the existence of a tripartite organismal world that originated by the segregation of archaeal lineages from an ancient community of primordial organisms. PMID:20334683

Convergence and Divergence in the Evolution of the APOBEC3G-Vif Interaction Reveal Ancient Origins of Simian Immunodeficiency Viruses

PubMed Central

Compton, Alex A.; Emerman, Michael

2013-01-01

Naturally circulating lentiviruses are abundant in African primate species today, yet their origins and history of transmitting between hosts remain obscure. As a means to better understand the age of primate lentiviruses, we analyzed primate genomes for signatures of lentivirus-driven evolution. Specifically, we studied the adaptive evolution of host restriction factor APOBEC3G (A3G) in Old World Monkey (OWM) species. We find recurrent mutation of A3G in multiple primate lineages at sites that determine susceptibility to antagonism by the lentiviral accessory protein Vif. Using a broad panel of SIV Vif isolates, we demonstrate that natural variation in OWM A3G confers resistance to Vif-mediated degradation, suggesting that adaptive variants of the host factor were selected upon exposure to pathogenic lentiviruses at least 5–6 million years ago (MYA). Furthermore, in members of the divergent Colobinae subfamily of OWM, a multi-residue insertion event in A3G that arose at least 12 MYA blocks the activity of Vif, suggesting an even more ancient origin of SIV. Moreover, analysis of the lentiviruses associated with Colobinae monkeys reveal that the interface of the A3G-Vif interaction has shifted and given rise to a second genetic conflict. Our analysis of virus-driven evolution describes an ancient yet ongoing genetic conflict between simian primates and lentiviruses on a million-year time scale. PMID:23359341

Supplementation with a proprietary blend of ancient peat and apple extract may improve body composition without affecting hematology in resistance-trained men.

PubMed

Joy, Jordan M; Falcone, Paul H; Vogel, Roxanne M; Mosman, Matt M; Kim, Michael P; Moon, Jordan R

2015-11-01

Adenosine-5'-triphosphate (ATP) is primarily known as a cellular source of energy. Increased ATP levels may have the potential to enhance body composition. A novel, proprietary blend of ancient peat and apple extracts has been reported to increase ATP levels, potentially by enhancing mitochondrial ATP production. Therefore, the purpose of this investigation was to determine the supplement's effects on body composition when consumed during 12 weeks of resistance training. Twenty-five healthy, resistance-trained, male subjects (age, 27.7 ± 4.8 years; height, 176.0 ± 6.5 cm; body mass, 83.2 ± 12.1 kg) completed this study. Subjects supplemented once daily with either 1 serving (150 mg) of a proprietary blend of ancient peat and apple extracts (TRT) or placebo (PLA). Supervised resistance training consisted of 8 weeks of daily undulating periodized training followed by a 2-week overreach and a 2-week taper phase. Body composition was assessed using dual-energy X-ray absorptiometry and ultrasound at weeks 0, 4, 8, 10, and 12. Vital signs and blood markers were assessed at weeks 0, 8, and 12. Significant group × time (p < 0.05) interactions were present for ultrasound-determined cross-sectional area, which increased in TRT (+0.91 cm(2)) versus PLA (-0.08 cm(2)), as well as muscle thickness (TRT: +0.46; PLA: +0.04 cm). A significant group × time (p < 0.05) interaction existed for creatinine (TRT: +0.06; PLA: +0.15 mg/dL), triglycerides (TRT: +24.1; PLA: -20.2 mg/dL), and very-low-density lipoprotein (TRT: +4.9; PLA: -3.9 mg/dL), which remained within clinical ranges. Supplementation with a proprietary blend of ancient peat and apple extracts may enhance resistance training-induced skeletal muscle hypertrophy without affecting fat mass or blood chemistry in healthy males.

The gibberellin GID1-DELLA signalling module exists in evolutionarily ancient conifers.

PubMed

Du, Ran; Niu, Shihui; Liu, Yang; Sun, Xinrui; Porth, Ilga; El-Kassaby, Yousry A; Li, Wei

2017-11-30

Gibberellins (GAs) participate in controlling various aspects of basic plant growth responses. With the exception of bryophytes, GA signalling in land plants, such as lycophytes, ferns and angiosperms, is mediated via GIBBERELLIN-INSENSITIVE DWARF1 (GID1) and DELLA proteins. To explore whether this GID1-DELLA mechanism is present in pines, we cloned an orthologue (PtGID1) of Arabidopsis AtGID1a and two putative DELLA proteins (PtDPL; PtRGA) from Pinus tabuliformis, a widespread indigenous conifer species in China, and studied their recombinant proteins. PtGID1 shares with AtGID1a the conserved HSL motifs for GA binding and an N-terminal feature that are essential for interaction with DELLA proteins. Indeed, A. thaliana 35S:PtGID1 overexpressors showed a strong GA-hypersensitive phenotype compared to the wild type. Interactions between PtGID1 and PtDELLAs, but also interactions between the conifer-angiosperm counterparts (i.e. between AtGID1 and PtDELLAs and between PtGID1 and AtDELLA), were detected in vivo. This demonstrates that pine has functional GID1-DELLA components. The Δ17-domains within PtDPL and PtRGA were identified as potential interaction sites within PtDELLAs. Our results show that PtGID1 has the ability to interact with DELLA and functions as a GA receptor. Thus, a GA-GID1-DELLA signalling module also operates in evolutionarily ancient conifers.

Enhancing Interaction through Positive Touch

ERIC Educational Resources Information Center

Pardew, E. Michelle; Bunse, Carol

2005-01-01

Positive touch is an application of the ancient practice of infant massage. Positive touch provides families and caregivers with simple and positive ways to touch their child that contribute to the overall goal of providing a nurturing environment that supports the child's growth and development. This article describes infant massage techniques in…

Storytelling: An Ancient Human Technology and Critical-Creative Pedagogy for Transformative Learning

ERIC Educational Resources Information Center

Kalogeras, Stavroula

2013-01-01

In the era of e-learning, student-centered approaches and constructivists learning environments are critical success factors. The inherent interactivity of the Internet and the emotional engagement of story can lead to transformative learning experiences in media rich environments. This paper focuses on Web-Based Transmedia Storytelling…

Subordinators and Supradialectal Formulas in the Dialectal Inscriptions from Mainland Greece (Excluding Attica)

ERIC Educational Resources Information Center

Minamimoto, Toru

2017-01-01

In this dissertation, I investigated the usage of subordinators in Ancient Greek dialectal inscriptions and their interactions with supradialectal formulas, i.e., relatively fixed expressions shared across dialectal borders. Subordinators are grammatical elements and therefore are expected to behave in a systematic manner; supradialectal formulas…

Seasonal phenology of interactions involving short-lived annual plants, a multivoltine herbivore and its endoparasitoid wasp.

PubMed

Fei, Minghui; Gols, Rieta; Harvey, Jeffrey A

2014-01-01

Spatial-temporal realism is often missing in many studies of multitrophic interactions, which are conducted at a single time frame and/or involving interactions between insects with a single species of plant. In this scenario, an underlying assumption is that the host-plant species is ubiquitous throughout the season and that the insects always interact with it. We studied interactions involving three naturally occurring wild species of cruciferous plants, Brassica rapa, Sinapis arvensis and Brassica nigra, that exhibit different seasonal phenologies, and a multivoltine herbivore, the large cabbage white butterfly, Pieris brassicae, and its gregarious endoparasitoid wasp, Cotesia glomerata. The three plants have very short life cycles. In central Europe, B. rapa grows in early spring, S. arvensis in late spring and early summer, and B. nigra in mid to late summer. P. brassicae generally has three generations per year, and C. glomerata at least two. This means that different generations of the insects must find and exploit different plant species that may differ in quality and which may be found some distance from one another. Insects were either reared on each of the three plant species for three successive generations or shifted between generations from B. rapa to S. arvensis to B. nigra. Development time from neonate to pupation and pupal fresh mass were determined in P. brassicae and egg-to-adult development time and body mass in C. glomerata. Overall, herbivores performed marginally better on S. arvensis and B. nigra plants than on B. rapa plants. Parasitoids performance was closely tailored with that of the host. Irrespective as to whether the insects were shifted to a new plant in successive generations or not, development time of P. brassicae and C. glomerata decreased dramatically over time. Our results show that there were some differences in insect development on different plant species and when transferred from one species to another. However, all three plants were of generally high quality in terms of insect performance. We discuss ecological and evolutionary constraints on insects that must search in new habitats for different plant species over successive generations. © 2013 The Authors. Journal of Animal Ecology © 2013 British Ecological Society.

Evolution of hormone signaling in elasmobranchs by exploitation of promiscuous receptors.

PubMed

Carroll, Sean Michael; Bridgham, Jamie T; Thornton, Joseph W

2008-12-01

Specific interactions among proteins, nucleic acids, and metabolites drive virtually all cellular functions and underlie phenotypic complexity and diversity. Despite the fundamental importance of interactions, the mechanisms and dynamics by which they evolve are poorly understood. Here we describe novel interactions between a lineage-specific hormone and its receptors in elasmobranchs, a subclass of cartilaginous fishes, and infer how these associations evolved using phylogenetic and protein structural analyses. The hormone 1alpha-hydroxycorticosterone (1alpha-B) is a physiologically important steroid synthesized only in elasmobranchs. We show that 1alpha-B modulates gene expression in vitro by activating two paralogous intracellular transcription factors, the mineralocorticoid receptor (MR) and glucocorticoid receptor (GR), in the little skate Leucoraja erinacea; MR serves as a high-sensitivity and GR as a low-sensitivity receptor. Using functional analysis of extant and resurrected ancestral proteins, we show that receptor sensitivity to 1alpha-B evolved millions of years before the hormone itself evolved. The 1alpha-B differs from more ancient corticosteroids only by the addition of a hydroxyl group; the three-dimensional structure of the ancestral receptor shows that the ligand pocket contained ample unoccupied space to accommodate this moiety. Our findings indicate that the interactions between 1alpha-B and elasmobranch GR and MR proteins evolved by molecular exploitation: a novel hormone recruited into new functional partnerships two ancient receptors that had previously interacted with other ligands. The ancestral receptor's promiscuous capacity to fortuitously bind compounds that are slight structural variants of its original ligands set the stage for the evolution of this new interaction.

Animal-specific C-terminal domain links myeloblastosis oncoprotein (Myb) to an ancient repressor complex

PubMed Central

Andrejka, Laura; Wen, Hong; Ashton, Jonathan; Grant, Megan; Iori, Kevin; Wang, Amy; Manak, J. Robert; Lipsick, Joseph S.

2011-01-01

Members of the Myb oncoprotein and E2F-Rb tumor suppressor protein families are present within the same highly conserved multiprotein transcriptional repressor complex, named either as Myb and synthetic multivuval class B (Myb-MuvB) or as Drosophila Rb E2F and Myb-interacting proteins (dREAM). We now report that the animal-specific C terminus of Drosophila Myb but not the more highly conserved N-terminal DNA-binding domain is necessary and sufficient for (i) adult viability, (ii) proper localization to chromosomes in vivo, (iii) regulation of gene expression in vivo, and (iv) interaction with the highly conserved core of the MuvB/dREAM transcriptional repressor complex. In addition, we have identified a conserved peptide motif that is required for this interaction. Our results imply that an ancient function of Myb in regulating G2/M genes in both plants and animals appears to have been transferred from the DNA-binding domain to the animal-specific C-terminal domain. Increased expression of B-MYB/MYBL2, the human ortholog of Drosophila Myb, correlates with poor prognosis in human patients with breast cancer. Therefore, our results imply that the specific interaction of the C terminus of Myb with the MuvB/dREAM core complex may provide an attractive target for the development of cancer therapeutics. PMID:21969598

DNA typing of ancient parasite eggs from environmental samples identifies human and animal worm infections in Viking-age settlement.

PubMed

Søe, Martin Jensen; Nejsum, Peter; Fredensborg, Brian Lund; Kapel, Christian Moliin Outzen

2015-02-01

Ancient parasite eggs were recovered from environmental samples collected at a Viking-age settlement in Viborg, Denmark, dated 1018-1030 A.D. Morphological examination identified Ascaris sp., Trichuris sp., and Fasciola sp. eggs, but size and shape did not allow species identification. By carefully selecting genetic markers, PCR amplification and sequencing of ancient DNA (aDNA) isolates resulted in identification of: the human whipworm, Trichuris trichiura , using SSUrRNA sequence homology; Ascaris sp. with 100% homology to cox1 haplotype 07; and Fasciola hepatica using ITS1 sequence homology. The identification of T. trichiura eggs indicates that human fecal material is present and, hence, that the Ascaris sp. haplotype 07 was most likely a human variant in Viking-age Denmark. The location of the F. hepatica finding suggests that sheep or cattle are the most likely hosts. Further, we sequenced the Ascaris sp. 18S rRNA gene in recent isolates from humans and pigs of global distribution and show that this is not a suited marker for species-specific identification. Finally, we discuss ancient parasitism in Denmark and the implementation of aDNA analysis methods in paleoparasitological studies. We argue that when employing species-specific identification, soil samples offer excellent opportunities for studies of human parasite infections and of human and animal interactions of the past.

Large-Scale Gene Relocations following an Ancient Genome Triplication Associated with the Diversification of Core Eudicots.

PubMed

Wang, Yupeng; Ficklin, Stephen P; Wang, Xiyin; Feltus, F Alex; Paterson, Andrew H

2016-01-01

Different modes of gene duplication including whole-genome duplication (WGD), and tandem, proximal and dispersed duplications are widespread in angiosperm genomes. Small-scale, stochastic gene relocations and transposed gene duplications are widely accepted to be the primary mechanisms for the creation of dispersed duplicates. However, here we show that most surviving ancient dispersed duplicates in core eudicots originated from large-scale gene relocations within a narrow window of time following a genome triplication (γ) event that occurred in the stem lineage of core eudicots. We name these surviving ancient dispersed duplicates as relocated γ duplicates. In Arabidopsis thaliana, relocated γ, WGD and single-gene duplicates have distinct features with regard to gene functions, essentiality, and protein interactions. Relative to γ duplicates, relocated γ duplicates have higher non-synonymous substitution rates, but comparable levels of expression and regulation divergence. Thus, relocated γ duplicates should be distinguished from WGD and single-gene duplicates for evolutionary investigations. Our results suggest large-scale gene relocations following the γ event were associated with the diversification of core eudicots.

Large-Scale Gene Relocations following an Ancient Genome Triplication Associated with the Diversification of Core Eudicots

PubMed Central

Wang, Yupeng; Ficklin, Stephen P.; Wang, Xiyin; Feltus, F. Alex; Paterson, Andrew H.

2016-01-01

Different modes of gene duplication including whole-genome duplication (WGD), and tandem, proximal and dispersed duplications are widespread in angiosperm genomes. Small-scale, stochastic gene relocations and transposed gene duplications are widely accepted to be the primary mechanisms for the creation of dispersed duplicates. However, here we show that most surviving ancient dispersed duplicates in core eudicots originated from large-scale gene relocations within a narrow window of time following a genome triplication (γ) event that occurred in the stem lineage of core eudicots. We name these surviving ancient dispersed duplicates as relocated γ duplicates. In Arabidopsis thaliana, relocated γ, WGD and single-gene duplicates have distinct features with regard to gene functions, essentiality, and protein interactions. Relative to γ duplicates, relocated γ duplicates have higher non-synonymous substitution rates, but comparable levels of expression and regulation divergence. Thus, relocated γ duplicates should be distinguished from WGD and single-gene duplicates for evolutionary investigations. Our results suggest large-scale gene relocations following the γ event were associated with the diversification of core eudicots. PMID:27195960

Modern freshwater microbialite analogues for ancient dendritic reef structures

NASA Technical Reports Server (NTRS)

Laval, B.; Cady, S. L.; Pollack, J. C.; McKay, C. P.; Bird, J. S.; Grotzinger, J. P.; Ford, D. C.; Bohm, H. R.

2000-01-01

Microbialites are organosedimentary structures that can be constructed by a variety of metabolically distinct taxa. Consequently, microbialite structures abound in the fossil record, although the exact nature of the biogeochemical processes that produced them is often unknown. One such class of ancient calcareous structures, Epiphyton and Girvanella, appear in great abundance during the Early Cambrian. Together with Archeocyathids, stromatolites and thrombolites, they formed major Cambrian reef belts. To a large extent, Middle to Late Cambrian reefs are similar to Precambrian reefs, with the exception that the latter, including terminal Proterozoic reefs, do not contain Epiphyton or Girvanella. Here we report the discovery in Pavilion Lake, British Columbia, Canada, of a distinctive assemblage of freshwater calcite microbialites, some of which display microstructures similar to the fabrics displayed by Epiphyton and Girvanella. The morphologies of the modern microbialites vary with depth, and dendritic microstructures of the deep water (> 30 m) mounds indicate that they may be modern analogues for the ancient calcareous structures. These microbialites thus provide an opportunity to study the biogeochemical interactions that produce fabrics similar to those of some enigmatic Early Cambrian reef structures.

Ancient DNA from latrines in Northern Europe and the Middle East (500 BC-1700 AD) reveals past parasites and diet.

PubMed

Søe, Martin Jensen; Nejsum, Peter; Seersholm, Frederik Valeur; Fredensborg, Brian Lund; Habraken, Ruben; Haase, Kirstine; Hald, Mette Marie; Simonsen, Rikke; Højlund, Flemming; Blanke, Louise; Merkyte, Inga; Willerslev, Eske; Kapel, Christian Moliin Outzen

2018-01-01

High-resolution insight into parasitic infections and diet of past populations in Northern Europe and the Middle East (500 BC- 1700 AD) was obtained by pre-concentration of parasite eggs from ancient latrines and deposits followed by shotgun sequencing of DNA. Complementary profiling of parasite, vertebrate and plant DNA proved highly informative in the study of ancient health, human-animal interactions as well as animal and plant dietary components. Most prominent were finding of soil-borne parasites transmitted directly between humans, but also meat-borne parasites that require consumption of raw or undercooked fish and pork. The detection of parasites for which sheep, horse, dog, pig, and rodents serves as definitive hosts are clear markers of domestic and synanthropic animals living in closer proximity of the respective sites. Finally, the reconstruction of full mitochondrial parasite genomes from whipworm (Ascaris lumbricoides) and roundworm species (Trichuris trichiura and Trichuris muris) and estimates of haplotype frequencies elucidates the genetic diversity and provides insights into epidemiology and parasite biology.

Ancient DNA from latrines in Northern Europe and the Middle East (500 BC–1700 AD) reveals past parasites and diet

PubMed Central

Nejsum, Peter; Seersholm, Frederik Valeur; Fredensborg, Brian Lund; Habraken, Ruben; Haase, Kirstine; Hald, Mette Marie; Simonsen, Rikke; Højlund, Flemming; Blanke, Louise; Merkyte, Inga; Willerslev, Eske; Kapel, Christian Moliin Outzen

2018-01-01

High-resolution insight into parasitic infections and diet of past populations in Northern Europe and the Middle East (500 BC- 1700 AD) was obtained by pre-concentration of parasite eggs from ancient latrines and deposits followed by shotgun sequencing of DNA. Complementary profiling of parasite, vertebrate and plant DNA proved highly informative in the study of ancient health, human-animal interactions as well as animal and plant dietary components. Most prominent were finding of soil-borne parasites transmitted directly between humans, but also meat-borne parasites that require consumption of raw or undercooked fish and pork. The detection of parasites for which sheep, horse, dog, pig, and rodents serves as definitive hosts are clear markers of domestic and synanthropic animals living in closer proximity of the respective sites. Finally, the reconstruction of full mitochondrial parasite genomes from whipworm (Ascaris lumbricoides) and roundworm species (Trichuris trichiura and Trichuris muris) and estimates of haplotype frequencies elucidates the genetic diversity and provides insights into epidemiology and parasite biology. PMID:29694397

Videodisks Offer a Detailed Portrait of Qin, the First Chinese Emperor.

ERIC Educational Resources Information Center

Watkins, Beverly T.

1992-01-01

Project Emperor-I has issued two interactive videodiscs on China's first emperor, Qin Shi Huang Di. The videodiscs contain film footage from the archaeological excavation in China, images of artifacts, interviews with Qin specialists, and the full text of articles about the ancient burial site. Development of the videodiscs for scholars involved…

In Measure, Number, and Weight: Studies in Mathematics and Culture.

ERIC Educational Resources Information Center

Hoyrup, Jens

In this collection of essays, the content of mathematics is dealt with in general terms, concentrating on cognitive organization, modes of thought, and the way that mathematics interacts with the sociocultural setting. Chapter 1 compares features of Sumero-Babylonian, ancient Greek, and Latin medieval mathematics. Chapter 2 traces the specific…

Complete Genome of Serratia sp. Strain FGI 94, a Strain Associated with Leaf-Cutter Ant Fungus Gardens

PubMed Central

Aylward, Frank O.; Tremmel, Daniel M.; Starrett, Gabriel J.; Bruce, David C.; Chain, Patrick; Chen, Amy; Davenport, Karen W.; Detter, Chris; Han, Cliff S.; Han, James; Huntemann, Marcel; Ivanova, Natalia N.; Kyrpides, Nikos C.; Markowitz, Victor; Mavrommatis, Kostas; Nolan, Matt; Pagani, Ioanna; Pati, Amrita; Pitluck, Sam; Teshima, Hazuki; Deshpande, Shweta; Goodwin, Lynne; Woyke, Tanja

2013-01-01

Serratia sp. strain FGI 94 was isolated from a fungus garden of the leaf-cutter ant Atta colombica. Analysis of its 4.86-Mbp chromosome will help advance our knowledge of symbiotic interactions and plant biomass degradation in this ancient ant-fungus mutualism. PMID:23516234

Functional characterization of p53 pathway components in the ancient metazoan Trichoplax adhaerens

NASA Astrophysics Data System (ADS)

Siau, Jia Wei; Coffill, Cynthia R.; Zhang, Weiyun Villien; Tan, Yaw Sing; Hundt, Juliane; Lane, David; Verma, Chandra; Ghadessy, Farid

2016-09-01

The identification of genes encoding a p53 family member and an Mdm2 ortholog in the ancient placozoan Trichoplax adhaerens advocates for the evolutionary conservation of a pivotal stress-response pathway observed in all higher eukaryotes. Here, we recapitulate several key functionalities ascribed to this known interacting protein pair by analysis of the placozoan proteins (Tap53 and TaMdm2) using both in vitro and cellular assays. In addition to interacting with each other, the Tap53 and TaMdm2 proteins are also able to respectively bind human Mdm2 and p53, providing strong evidence for functional conservation. The key p53-degrading function of Mdm2 is also conserved in TaMdm2. Tap53 retained DNA binding associated with p53 transcription activation function. However, it lacked transactivation function in reporter genes assays using a heterologous cell line, suggesting a cofactor incompatibility. Overall, the data supports functional roles for TaMdm2 and Tap53, and further defines the p53 pathway as an evolutionary conserved fulcrum mediating cellular response to stress.

Computer simulation and experimental self-assembly of irradiated glycine amino acid under magnetic fields: Its possible significance in prebiotic chemistry.

PubMed

Heredia, Alejandro; Colín-García, María; Puig, Teresa Pi I; Alba-Aldave, Leticia; Meléndez, Adriana; Cruz-Castañeda, Jorge A; Basiuk, Vladimir A; Ramos-Bernal, Sergio; Mendoza, Alicia Negrón

2017-12-01

Ionizing radiation may have played a relevant role in chemical reactions for prebiotic biomolecule formation on ancient Earth. Environmental conditions such as the presence of water and magnetic fields were possibly relevant in the formation of organic compounds such as amino acids. ATR-FTIR, Raman, EPR and X-ray spectroscopies provide valuable information about molecular organization of different glycine polymorphs under static magnetic fields. γ-glycine polymorph formation increases in irradiated samples interacting with static magnetic fields. The increase in γ-glycine polymorph agrees with the computer simulations. The AM1 semi-empirical simulations show a change in the catalyst behavior and dipole moment values in α and γ-glycine interaction with the static magnetic field. The simulated crystal lattice energy in α-glycine is also affected by the free radicals under the magnetic field, which decreases its stability. Therefore, solid α and γ-glycine containing free radicals under static magnetic fields might have affected the prebiotic scenario on ancient Earth by causing the oligomerization of glycine in prebiotic reactions. Copyright © 2017 Elsevier B.V. All rights reserved.

Act together—implications of symbioses in aquatic ciliates

PubMed Central

Dziallas, Claudia; Allgaier, Martin; Monaghan, Michael T.; Grossart, Hans-Peter

2012-01-01

Mutual interactions in the form of symbioses can increase the fitness of organisms and provide them with the capacity to occupy new ecological niches. The formation of obligate symbioses allows for rapid evolution of new life forms including multitrophic consortia. Microbes are important components of many known endosymbioses and their short generation times and strong potential for genetic exchange may be important drivers of speciation. Hosts provide endo- and ectosymbionts with stable, nutrient-rich environments, and protection from grazers. This is of particular importance in aquatic ecosystems, which are often highly variable, harsh, and nutrient-deficient habitats. It is therefore not surprising that symbioses are widespread in both marine and freshwater environments. Symbioses in aquatic ciliates are good model systems for exploring symbiont-host interactions. Many ciliate species are globally distributed and have been intensively studied in the context of plastid evolution. Their relatively large cell size offers an ideal habitat for numerous microorganisms with different functional traits including commensalism and parasitism. Phagocytosis facilitates the formation of symbiotic relationships, particularly since some ingested microorganisms can escape the digestion. For example, photoautotrophic algae and methanogens represent endosymbionts that greatly extend the biogeochemical functions of their hosts. Consequently, symbiotic relationships between protists and prokaryotes are widespread and often result in new ecological functions of the symbiotic communities. This enables ciliates to thrive under a wide range of environmental conditions including ultraoligotrophic or anoxic habitats. We summarize the current understanding of this exciting research topic to identify the many areas in which knowledge is lacking and to stimulate future research by providing an overview on new methodologies and by formulating a number of emerging questions in this field. PMID:22891065

Interrelated effects of mycorrhiza and free-living nitrogen fixers cascade up to aboveground herbivores.

PubMed

Khaitov, Botir; Patiño-Ruiz, José David; Pina, Tatiana; Schausberger, Peter

2015-09-01

Aboveground plant performance is strongly influenced by belowground microorganisms, some of which are pathogenic and have negative effects, while others, such as nitrogen-fixing bacteria and arbuscular mycorrhizal fungi, usually have positive effects. Recent research revealed that belowground interactions between plants and functionally distinct groups of microorganisms cascade up to aboveground plant associates such as herbivores and their natural enemies. However, while functionally distinct belowground microorganisms commonly co-occur in the rhizosphere, their combined effects, and relative contributions, respectively, on performance of aboveground plant-associated organisms are virtually unexplored. Here, we scrutinized and disentangled the effects of free-living nitrogen-fixing (diazotrophic) bacteria Azotobacter chroococcum (DB) and arbuscular mycorrhizal fungi Glomus mosseae (AMF) on host plant choice and reproduction of the herbivorous two-spotted spider mite Tetranychus urticae on common bean plants Phaseolus vulgaris. Additionally, we assessed plant growth, and AMF and DB occurrence and density as affected by each other. Both AMF alone and DB alone increased spider mite reproduction to similar levels, as compared to the control, and exerted additive effects under co-occurrence. These effects were similarly apparent in host plant choice, that is, the mites preferred leaves from plants with both AMF and DB to plants with AMF or DB to plants grown without AMF and DB. DB, which also act as AMF helper bacteria, enhanced root colonization by AMF, whereas AMF did not affect DB abundance. AMF but not DB increased growth of reproductive plant tissue and seed production, respectively. Both AMF and DB increased the biomass of vegetative aboveground plant tissue. Our study breaks new ground in multitrophic belowground-aboveground research by providing first insights into the fitness implications of plant-mediated interactions between interrelated belowground fungi-bacteria and aboveground herbivores.

Changes in plant defense chemistry (pyrrolizidine alkaloids) revealed through high-resolution spectroscopy

NASA Astrophysics Data System (ADS)

Carvalho, Sabrina; Macel, Mirka; Schlerf, Martin; Moghaddam, Fatemeh Eghbali; Mulder, Patrick P. J.; Skidmore, Andrew K.; van der Putten, Wim H.

2013-06-01

Plant toxic biochemicals play an important role in defense against natural enemies and often are toxic to humans and livestock. Hyperspectral reflectance is an established method for primary chemical detection and could be further used to determine plant toxicity in the field. In order to make a first step for pyrrolizidine alkaloids detection (toxic defense compound against mammals and many insects) we studied how such spectral data can estimate plant defense chemistry under controlled conditions. In a greenhouse, we grew three related plant species that defend against generalist herbivores through pyrrolizidine alkaloids: Jacobaea vulgaris, Jacobaea erucifolia and Senecio inaequidens, and analyzed the relation between spectral measurements and chemical concentrations using multivariate statistics. Nutrient addition enhanced tertiary-amine pyrrolizidine alkaloids contents of J. vulgaris and J. erucifolia and decreased N-oxide contents in S. inaequidens and J. vulgaris. Pyrrolizidine alkaloids could be predicted with a moderate accuracy. Pyrrolizidine alkaloid forms tertiary-amines and epoxides were predicted with 63% and 56% of the variation explained, respectively. The most relevant spectral regions selected for prediction were associated with electron transitions and Csbnd H, Osbnd H, and Nsbnd H bonds in the 1530 and 2100 nm regions. Given the relatively low concentration in pyrrolizidine alkaloids concentration (in the order of mg g-1) and resultant predictions, it is promising that pyrrolizidine alkaloids interact with incident light. Further studies should be considered to determine if such a non-destructive method may predict changes in PA concentration in relation to plant natural enemies. Spectroscopy may be used to study plant defenses in intact plant tissues, and may provide managers of toxic plants, food industry and multitrophic-interaction researchers with faster and larger monitoring possibilities.

Simultaneous exposure of nematophagous fungi, entomopathogenic nematodes and entomopathogenic fungi can modulate belowground insect pest control.

PubMed

Bueno-Pallero, Francisco Ángel; Blanco-Pérez, Rubén; Dionísio, Lídia; Campos-Herrera, Raquel

2018-05-01

Entomopathogenic nematodes (EPNs) and fungi (EPF) are well known biological control agents (BCAs) against insect pests. Similarly, the nematophagous fungi (NF) are considered good BCA candidates for controlling plant parasitic nematodes. Because NF can employ EPNs as food and interact with EPF, we speculate that the simultaneous application of EPNs and EPF might result in higher insect mortality, whereas the triple species combination with NF will reduce the EPN and EPF activity by predation or inhibition. Here we evaluated single, dual (EPN + EPF, EPF + NF, EPN + NF) and triple (EPN + EPF + NF) combinations of one EPN, Steinernema feltiae (Rhabditida: Steinernematidae), one EPF, Beauveria bassiana (Hypocreales: Clavicipitaceae), and two NF, Arthrobotrys musiformis (Orbiliales: Orbiliaceae) and Purpureocillium lilacinum (Hypocreales: Ophiocordycipitaceae) under laboratory conditions. First, we showed that EPF reduced the growth rate of NF and vice versa when combined in both rich and limiting media, suggesting a negative interaction when combining both fungi. Three different fungal applications (contact with mycelia-conidia, immersion in conidial suspension, and injection of conidial suspension) were tested in single, dual and triple species combinations, evaluating Galleria mellonella (Lepidoptera: Pyralidae) larval mortality and time to kill. When mycelia was presented, the EPF appeared to be the dominant in combined treatments, whereas in immersion exposure was the EPN. In both types of exposure, NF alone did not produce any effect on larvae. However, when A. musiformis was injected, it produced larval mortalities >70% in the same time span as EPN. Overall, additive effects dominated the dual and triple combinations, with the exception of injection method, where synergisms occurred for both NF species combined with EPN + EPF. This study illustrates how differences in species combination and timing of fungal arrival can modulate the action of BCAs when augmented in the soil. Further studies are required to fine-tune these multitrophic interactions to provide successful, sustainable and resilient pest management in agroecosystems. Copyright © 2018 Elsevier Inc. All rights reserved.

Dominant predators mediate the impact of habitat size on trophic structure in bromeliad invertebrate communities.

PubMed

Petermann, Jana S; Farjalla, Vinicius F; Jocque, Merlijn; Kratina, Pavel; MacDonald, A Andrew M; Marino, Nicholas A C; De Omena, Paula M; Piccoli, Gustavo C O; Richardson, Barbara A; Richardson, Michael J; Romero, Gustavo Q; Videla, Martin; Srivastava, Diane S

2015-02-01

Local habitat size has been shown to influence colonization and extinction processes of species in patchy environments. However, species differ in body size, mobility, and trophic level, and may not respond in the same way to habitat size. Thus far, we have a limited understanding of how habitat size influences the structure of multitrophic communities and to what extent the effects may be generalizable over a broad geographic range. Here, we used water-filled bromeliads of different sizes as a natural model system to examine the effects of habitat size on the trophic structure of their inhabiting invertebrate communities. We collected composition and biomass data from 651 bromeliad communities from eight sites across Central and South America differing in environmental conditions, species pools, and the presence of large-bodied odonate predators. We found that trophic structure in the communities changed dramatically with changes in habitat (bromeliad) size. Detritivore : resource ratios showed a consistent negative relationship with habitat size across sites. In contrast, changes in predator: detritivore (prey) ratios depended on the presence of odonates as dominant predators in the regional pool. At sites without odonates, predator: detritivore biomass ratios decreased with increasing habitat size. At sites with odonates, we found odonates to be more frequently present in large than in small bromeliads, and predator: detritivore biomass ratios increased with increasing habitat size to the point where some trophic pyramids became inverted. Our results show that the distribution of biomass amongst food-web levels depends strongly on habitat size, largely irrespective of geographic differences in environmental conditions or detritivore species compositions. However, the presence of large-bodied predators in the regional species pool may fundamentally alter this relationship between habitat size and trophic structure. We conclude that taking into account the response and multitrophic effects of dominant, mobile species may be critical when predicting changes in community structure along a habitat-size gradient.

A multitrophic approach to monitoring the effects of metal mining in otherwise pristine and ecologically sensitive rivers in northern Canada.

PubMed

Spencer, Paula; Bowman, Michelle F; Dubé, Monique G

2008-07-01

It is not known if current chemical and biological monitoring methods are appropriate for assessing the impacts of growing industrial development on ecologically sensitive northern waters. We used a multitrophic level approach to evaluate current monitoring methods and to determine whether metal-mining activities had affected 2 otherwise pristine rivers that flow into the South Nahanni River, Northwest Territories, a World Heritage Site. We compared upstream reference conditions in the rivers to sites downstream and further downstream of mines. The endpoints we evaluated included concentrations of metals in river water, sediments, and liver and flesh of slimy sculpin (Cottus cognatus); benthic algal and macroinvertebrate abundance, richness, diversity, and community composition; and various slimy sculpin measures, our sentinel forage fish species. Elevated concentrations of copper and iron in liver tissue of sculpin from the Flat River were associated with high concentrations of mine-derived iron in river water and copper in sediments that were above national guidelines. In addition, sites downstream of the mine on the Flat River had increased algal abundances and altered benthic macroinvertebrate communities, whereas the sites downstream of the mine on Prairie Creek had increased benthic macroinvertebrate taxa richness and improved sculpin condition. Biological differences in both rivers were consistent with mild enrichment of the rivers downstream of current and historical mining activity. We recommend that monitoring in these northern rivers focus on indicators in epilithon and benthic macroinvertebrate communities due to their responsiveness and as alternatives to lethal fish sampling in habitats with low fish abundance. We also recommend monitoring of metal burdens in periphyton and benthic invertebrates for assessment of exposure to mine effluent and causal association. Although the effects of mining activities on riverine biota currently are limited, our results show that there is potential for effects to occur with proposed growth in mining activities.

Towards Integrated Multi-Trophic Aquaculture: Lessons from Caprellids (Crustacea: Amphipoda)

PubMed Central

Hachero-Cruzado, Ismael; González-Romero, Pablo; Jiménez-Prada, Pablo; Cassell, Christopher; Ros, Macarena

2016-01-01

The search for alternative live feed organisms and the progression of Integrative Multi-Trophic Aquaculture (IMTA) are currently being highly prioritised in EU strategies. Caprellids could potentially be an important exploitable resource in aquaculture due to their high levels of beneficial polyunsaturated fatty acids, fast growing nature and widespread distribution. Furthermore, since they are mainly detritivorous, they could be excellent candidates for integration into IMTA systems, potentially benefitting from uneaten feed pellets and faeces released by cultured fish in fish farms and sea-cage structures. Despite this, there is a lack of experimental studies to: (i) test inexpensive diets for caprellids, such as detritus, (ii) develop sustainable caprellid culture techniques and (iii) include caprellids in IMTA systems. The main aim of this study was to determine whether detritus (D) in the form of fish faeces provided an adequate diet for caprellids in comparison to other traditional diets, such as Artemia nauplii (A) or phytoplankton (P). Adult survival rate was shown to be significantly higher for caprellids fed with D. Conversely, hatchlings had the highest survival rate with A, although the juvenile growth rate and number of moults was similar in the three diets. With regard to lipid composition, caprellids fed with A had higher concentrations of Triacylglycerols (TAG) and Phosphatidylcholine (PC) while those fed with P or D were richer in polyunsaturated fatty acids, especially 22:6(n-3) (DHA). Interestingly, caprellids fed with D were also a rich source of 18:2(n-6) (LA), considered to be an essential fatty acid in vertebrates. It was found that detritus based mainly on fish faeces and uneaten feed pellets can be considered an adequate feed for adult caprellids, providing a source of both omega-3 (DHA) and omega-6 (LA) fatty acids. Hatchlings however seem to require an additional input of TAG and PC during juvenile stages to properly grow. PMID:27124465

Empirical correspondence between trophic transfer efficiency in freshwater food webs and the slope of their size spectra.

PubMed

Mehner, Thomas; Lischke, Betty; Scharnweber, Kristin; Attermeyer, Katrin; Brothers, Soren; Gaedke, Ursula; Hilt, Sabine; Brucet, Sandra

2018-06-01

The density of organisms declines with size, because larger organisms need more energy than smaller ones and energetic losses occur when larger organisms feed on smaller ones. A potential expression of density-size distributions are Normalized Biomass Size Spectra (NBSS), which plot the logarithm of biomass independent of taxonomy within bins of logarithmic organismal size, divided by the bin width. Theoretically, the NBSS slope of multi-trophic communities is exactly -1.0 if the trophic transfer efficiency (TTE, ratio of production rates between adjacent trophic levels) is 10% and the predator-prey mass ratio (PPMR) is fixed at 10 4 . Here we provide evidence from four multi-trophic lake food webs that empirically estimated TTEs correspond to empirically estimated slopes of the respective community NBSS. Each of the NBSS considered pelagic and benthic organisms spanning size ranges from bacteria to fish, all sampled over three seasons in 1 yr. The four NBSS slopes were significantly steeper than -1.0 (range -1.14 to -1.19, with 95% CIs excluding -1). The corresponding average TTEs were substantially lower than 10% in each of the four food webs (range 1.0% to 3.6%, mean 1.85%). The overall slope merging all biomass-size data pairs from the four systems (-1.17) was almost identical to the slope predicted from the arithmetic mean TTE of the four food webs (-1.18) assuming a constant PPMR of 10 4 . Accordingly, our empirical data confirm the theoretically predicted quantitative relationship between TTE and the slope of the biomass-size distribution. Furthermore, we show that benthic and pelagic organisms can be merged into a community NBSS, but future studies have yet to explore potential differences in habitat-specific TTEs and PPMRs. We suggest that community NBSS may provide valuable information on the structure of food webs and their energetic pathways, and can result in improved accuracy of TTE-estimates. © 2018 by the Ecological Society of America.

Importance of kelp-derived organic carbon to the scallop Chlamys farreri in an integrated multi-trophic aquaculture system

NASA Astrophysics Data System (ADS)

Xu, Qiang; Gao, Fei; Yang, Hongsheng

2016-03-01

Bivalves and seaweeds are important cleaners that are widely used in integrated multi-trophic aquaculture (IMTA) systems. A beneficial relationship between seaweed and bivalve in the seaweed-based IMTA system has been confirmed, but the trophic importance of seaweed-derived particulate organic materials to the co-cultured bivalve is still unclear. We evaluated the trophic importance of the kelp Saccharina japonica to the co-cultured scallop Chlamys farreri in a typical IMTA farm in Sungo Bay (Weihai, North China). The dynamics of detritus carbon in the water were monitored during the culturing period. The proportion of kelp-derived organic matter in the diet of the co-cultured scallop was assessed via the stable carbon isotope method. Results showed that the detritus carbon in the water ranged from 75.52 to 265.19 μg/L, which was 25.6% to 73.8% of total particulate organic carbon (TPOC) during the study period. The amount of detritus carbon and its proportion in the TPOC changed throughout the culture cycle of the kelp. Stable carbon isotope analysis showed that the cultured scallop obtained 14.1% to 42.8% of its tissue carbon from the kelp, and that the percentages were closely correlated with the proportion of detritus carbon in the water ( F =0.993, P= 0.003). Evaluation showed that for 17 000 tons (wet weight) of annual scallop production, the kelp contributed about 139.3 tons of carbon (535.8 tons of dry mass). This confirms that cultured kelp plays a similar trophic role in IMTA systems as it does in a natural kelp bed. It is a major contributor to the detritus pool and supplies a vital food source to filter-feeding scallops in the IMTA system, especially during winter and early spring when phytoplankton are scarce.

Complete mitochondrial genomes of ancient canids suggest a European origin of domestic dogs.

PubMed

Thalmann, O; Shapiro, B; Cui, P; Schuenemann, V J; Sawyer, S K; Greenfield, D L; Germonpré, M B; Sablin, M V; López-Giráldez, F; Domingo-Roura, X; Napierala, H; Uerpmann, H-P; Loponte, D M; Acosta, A A; Giemsch, L; Schmitz, R W; Worthington, B; Buikstra, J E; Druzhkova, A; Graphodatsky, A S; Ovodov, N D; Wahlberg, N; Freedman, A H; Schweizer, R M; Koepfli, K-P; Leonard, J A; Meyer, M; Krause, J; Pääbo, S; Green, R E; Wayne, R K

2013-11-15

The geographic and temporal origins of the domestic dog remain controversial, as genetic data suggest a domestication process in East Asia beginning 15,000 years ago, whereas the oldest doglike fossils are found in Europe and Siberia and date to >30,000 years ago. We analyzed the mitochondrial genomes of 18 prehistoric canids from Eurasia and the New World, along with a comprehensive panel of modern dogs and wolves. The mitochondrial genomes of all modern dogs are phylogenetically most closely related to either ancient or modern canids of Europe. Molecular dating suggests an onset of domestication there 18,800 to 32,100 years ago. These findings imply that domestic dogs are the culmination of a process that initiated with European hunter-gatherers and the canids with whom they interacted.

Hgis and Archive Researches: a Tool for the Study of the Ancient Mill Channel of Cesena (italy)

NASA Astrophysics Data System (ADS)

Bitelli, G.; Bartolini, F.; Gatta, G.

2016-06-01

The present study aims to demonstrate the usefulness of GIS to support archive searches and historical studies (e.g. related to industrial archaeology), in the case of an ancient channel for mill powering near Cesena (Emilia-Romagna, Italy), whose history is weaved together with the history of the Compagnia dei Molini di Cesena mill company, the most ancient limited company in Italy. Several historical maps (about 40 sheets in total) inherent the studied area and 80 archive documents (drawings, photos, specifications, administrative acts, newspaper articles), over a period of more than 600 years, were collected. Once digitized, historical maps were analysed, georeferenced and mosaicked where necessary. Subsequently, in all the maps the channel with its four mills and the Savio river were vectorized. All the additional archive documents were digitized, catalogued and stored. Using the QGIS open source platform, a Historical GIS was created, encompassing the current cartographic base and all historical maps, with their vectorized elements; each archive document was linked to the proper historical map, so that the document can be immediately retrieved and visualized. In such a HGIS, the maps form the base for a spatial and temporal navigation, facilitated by a specific interface; the external documents linked to them complete the description of the represented elements. This simple and interactive tool offers a new approach to archive searches, as it allows reconstruction in space and time of the evolution of the ancient channel and the history of this important mill company.

Debating Whether Dinosaurs Should Be "Cloned" from Ancient DNA To Promote Cooperative Learning in an Introductory Evolution Course.

ERIC Educational Resources Information Center

Soja, Constance M.; Huerta, Deborah

2001-01-01

Describes an interactive internet exercise that enables students to engage in cooperative library and web research on a controversial topic in science, specifically the cloning of extinct lifeforms. Creates a dynamic learning environment in a large introductory geology course and demonstrates the importance of scientific literacy. (Author/SAH)

The Role of Libraries in a Changing Academic Environment.

ERIC Educational Resources Information Center

Skiadas, C. H.

This paper traces the roots of higher education from Ancient Greece to the first universities in European countries where the idea of upper education became centered on the interactive dialogue between a teacher and student. The report discusses the role of the university library today in an age of ever-developing technologies and ever-increasing…

Rethinking the history of common walnut (Juglans regia L.) in Europe: Its origins and human interactions

Treesearch

Paola Pollegioni; Keith Woeste; Francesca Chiocchini; Stefano Del Lungo; Marco Ciolfi; Irene Olimpieri; Virginia Tortolano; Jo Clark; Gabriel E. Hemery; Sergio Mapelli; Maria Emilia Malvolti; Tzen-Yuh Chiang

2017-01-01

Common walnut (Juglans regia L) is an economically important species cultivated worldwide for its high-quality wood and nuts. It is generally accepted that after the last glaciation J. regia survived and grew in almost completely isolated stands in Asia, and that ancient humans dispersed walnuts across Asia and into new...

Functional traits in agriculture: agrobiodiversity and ecosystem services.

PubMed

Wood, Stephen A; Karp, Daniel S; DeClerck, Fabrice; Kremen, Claire; Naeem, Shahid; Palm, Cheryl A

2015-09-01

Functional trait research has led to greater understanding of the impacts of biodiversity in ecosystems. Yet, functional trait approaches have not been widely applied to agroecosystems and understanding of the importance of agrobiodiversity remains limited to a few ecosystem processes and services. To improve this understanding, we argue here for a functional trait approach to agroecology that adopts recent advances in trait research for multitrophic and spatially heterogeneous ecosystems. We suggest that trait values should be measured across environmental conditions and agricultural management regimes to predict how ecosystem services vary with farm practices and environment. This knowledge should be used to develop management strategies that can be easily implemented by farmers to manage agriculture to provide multiple ecosystem services. Copyright © 2015 Elsevier Ltd. All rights reserved.

Meeting the Needs for More Fish Through Aquaculture

NASA Astrophysics Data System (ADS)

Giap, D. H.; Lam, T. J.

2015-10-01

Fish is one of the major sources of animal protein. Due to rising world populations, increasing income and urbanization, demand for fish has been increasing. In order to meet the need for more fish, aquaculture has become increasingly important as wild populations and production from capture fisheries have declined due to overfishing and poor management. In recent years, production from aquaculture has increased rapidly to address the shortfalls in capture fisheries, especially in Asia where aquaculture production accounts for about 90% of world aquaculture production by volume. This paper reviews the status of the world’s fish production, provides an update on Asian aquaculture, and highlights developments that are contributing to sustainable fish production, particularly integrated multi-trophic aquaculture and aquaponics.

An ancient defense system eliminates unfit cells from developing tissues during cell competition

PubMed Central

Meyer, S. N.; Amoyel, M.; Bergantiños, C.; de la Cova, C.; Schertel, C.; Basler, K.; Johnston, L. A.

2016-01-01

Developing tissues that contain mutant or compromised cells present risks to animal health. Accordingly, the appearance of a population of suboptimal cells in a tissue elicits cellular interactions that prevent their contribution to the adult. Here we report that this quality control process, cell competition, uses specific components of the evolutionarily ancient and conserved innate immune system to eliminate Drosophila cells perceived as unfit. We find that Toll-related receptors (TRRs) and the cytokine Spätzle (Spz) lead to NFκB-dependent apoptosis. Diverse “loser” cells require different TRRs and NFκB factors and activate distinct pro-death genes, implying that the particular response is stipulated by the competitive context. Our findings demonstrate a functional repurposing of components of TRRs and NFκB signaling modules in the surveillance of cell fitness during development. PMID:25477468

Conservation archaeogenomics: ancient DNA and biodiversity in the Anthropocene.

PubMed

Hofman, Courtney A; Rick, Torben C; Fleischer, Robert C; Maldonado, Jesús E

2015-09-01

There is growing consensus that we have entered the Anthropocene, a geologic epoch characterized by human domination of the ecosystems of the Earth. With the future uncertain, we are faced with understanding how global biodiversity will respond to anthropogenic perturbations. The archaeological record provides perspective on human-environment relations through time and across space. Ancient DNA (aDNA) analyses of plant and animal remains from archaeological sites are particularly useful for understanding past human-environment interactions, which can help guide conservation decisions during the environmental changes of the Anthropocene. Here, we define the emerging field of conservation archaeogenomics, which integrates archaeological and genomic data to generate baselines or benchmarks for scientists, managers, and policy-makers by evaluating climatic and human impacts on past, present, and future biodiversity. Copyright © 2015 Elsevier Ltd. All rights reserved.

Co-ordinated Changes in the Accumulation of Metal Ions in Maize (Zea mays ssp. mays L.) in Response to Inoculation with the Arbuscular Mycorrhizal Fungus Funneliformis mosseae

USDA-ARS?s Scientific Manuscript database

Arbuscular mycorrhizal symbiosis is an ancient interaction between plants and Glomeromycotan fungi. In exchange for photosynthetically fixed carbon, the fungus provides the plant host with greater access to soil nutrients via an extensive network of root-external hyphae. Here, to determine the impac...

Open, Online, and Blended: Transactional Interactions with MOOC Content by Learners in Three Different Course Formats

ERIC Educational Resources Information Center

Emanuel, Jeffrey P.; Lamb, Anne

2017-01-01

During the 2013-14 academic year, Harvard University piloted the use of Massive Open Online Courses (MOOCs) as tools for blended learning in select undergraduate and graduate residential and online courses. One of these courses, The Ancient Greek Hero, combined for-credit (Harvard College and Harvard Extension School) and open online (HarvardX)…

Distribution, habitat and adaptability of the genus Tapirus.

PubMed

García, Manolo J; Medici, Emília Patrícia; Naranjo, Eduardo J; Novarino, Wilson; Leonardo, Raquel S

2012-12-01

In this manuscript, as a starting point, the ancient and current distribution of the genus Tapirus are summarized, from its origins, apparently in Europe, to current ranges. Subsequently, original and current tapir habitats are described, as well as changes in ancient habitats. As the manuscript goes on, we examine the ways in which tapir species interact with their habitats and the main aspects of habitat use, spatial ecology and adaptability. Having reviewed the historic and current distribution of tapirs, as well as their use and selection of habitats, we introduce the concept of adaptability, considering that some of the tapir physiological characteristics and behavioral strategies can reduce the negative impact of habitat alteration and climate change. Finally, we provide recommendations for future research priorities. The conservation community is still missing important pieces of information for the effective conservation of tapirs and their remaining habitats in Central and South America and Southeast Asia. Reconstructing how tapir species reached their current distribution ranges, interpreting how they interact with their habitats and gathering information regarding the strategies they use to cope with habitat changes will increase our understanding about these animals and contribute to the development of conservation strategies. © 2012 Wiley Publishing Asia Pty Ltd, ISZS and IOZ/CAS.

Parallel paleogenomic transects reveal complex genetic history of early European farmers

PubMed Central

Lipson, Mark; Szécsényi-Nagy, Anna; Mallick, Swapan; Pósa, Annamária; Stégmár, Balázs; Keerl, Victoria; Rohland, Nadin; Stewardson, Kristin; Ferry, Matthew; Michel, Megan; Oppenheimer, Jonas; Broomandkhoshbacht, Nasreen; Harney, Eadaoin; Nordenfelt, Susanne; Llamas, Bastien; Mende, Balázs Gusztáv; Köhler, Kitti; Oross, Krisztián; Bondár, Mária; Marton, Tibor; Osztás, Anett; Jakucs, János; Paluch, Tibor; Horváth, Ferenc; Csengeri, Piroska; Koós, Judit; Sebők, Katalin; Anders, Alexandra; Raczky, Pál; Regenye, Judit; Barna, Judit P.; Fábián, Szilvia; Serlegi, Gábor; Toldi, Zoltán; Nagy, Emese Gyöngyvér; Dani, János; Molnár, Erika; Pálfi, György; Márk, László; Melegh, Béla; Bánfai, Zsolt; Domboróczki, László; Fernández-Eraso, Javier; Mujika-Alustiza, José Antonio; Fernández, Carmen Alonso; Echevarría, Javier Jiménez; Bollongino, Ruth; Orschiedt, Jörg; Schierhold, Kerstin; Meller, Harald; Cooper, Alan; Burger, Joachim; Bánffy, Eszter; Alt, Kurt W.; Lalueza-Fox, Carles; Haak, Wolfgang; Reich, David

2017-01-01

Ancient DNA studies have established that Neolithic European populations were descended from Anatolian migrants1–8 who received a limited amount of admixture from resident hunter-gatherers3–5,9. Many open questions remain, however, about the spatial and temporal dynamics of population interactions and admixture during the Neolithic period. Using the highest-resolution genome-wide ancient DNA data set assembled to date—a total of 180 samples, 130 newly reported here, from the Neolithic and Chalcolithic of Hungary (6000–2900 BCE, n = 100), Germany (5500–3000 BCE, n = 42), and Spain (5500–2200 BCE, n = 38)—we investigate the population dynamics of Neolithization across Europe. We find that genetic diversity was shaped predominantly by local processes, with varied sources and proportions of hunter-gatherer ancestry among the three regions and through time. Admixture between groups with different ancestry profiles was pervasive and resulted in observable population transformation across almost all cultural transitions. Our results shed new light on the ways that gene flow reshaped European populations throughout the Neolithic period and demonstrate the potential of time-series-based sampling and modeling approaches to elucidate multiple dimensions of historical population interactions. PMID:29144465

Soil and Human Interactions in Maya Wetlands

NASA Astrophysics Data System (ADS)

Beach, Timothy; Luzzadder-Beach, Sheryl

2013-04-01

Since the early 1990s, we have studied Maya interaction with soils in Mexico, Belize, Guatemala, and elsewhere. We studied upland and lowland soils, but here we focus on seasonal or 'Bajo' wetlands and perennial wetlands for different reasons. Around the bajos, the ancient Maya focused on intensive agriculture and habitation despite the difficulties their Vertisol soils posed. For the perennial wetlands, small populations spread diffusely through Mollisol and Histisol landscapes with large scale, intensive agro-ecosystems. These wetlands also represent important repositories for both environmental change and how humans responded in situ to environmental changes. Work analyzing bajo soils has recorded significant diversity but the soil and sediment record shows two main eras of soil instability: the Pleistocene-Holocene transition as rainfall fluctuated and increased and tropical forest pulsed through the region, and the Maya Preclassic to Classic 3000 to 1000 BP as deforestation, land use intensity, and drying waxed and waned. The ancient Maya adapted their bajo soil ecosystems successfully through agro-engineering but they also withdrew in many important places in the Late Preclassic about 2000 BP and Terminal Classic about 1200 BP. We continue to study and debate the importance of perennial wetland agro-ecosystems, but it is now clear that Maya interaction with these soil landscapes was significant and multifaceted. Based on soil excavation and coring with a broad toolkit of soil stratigraphy, chemistry, and paleoecology from 2001 to 2013, our results show the ancient Maya interacted with their wetland soils to maintain cropland for maize, tree crops, arrow root, and cassava against relative sea level rise, increased flooding, and aggradation by gypsum precipitation and sedimentation. We have studied these interactions across an area of 2000 km2 in Northern Belize to understand how Maya response varied and how these soil environments varied over time and distance. Most areas dealt with water table rise and gypsum aggradation from extremely sulfur- and calcium-rich water sources. Thus far we have evidence for Archaic to Classic aggradation (5000 BP to the present) and Classic period fields and canals as mostly piecemeal attempts by the Maya to adapt to these and other environmental changes. Wetland fields were mainly Classic period systems (1500 to 1000 BP) but varied from long- to short-lived. We found one example of a very Late/Terminal Classic (c. 1200 BP), preplanned reclamation project on a floodplain. One system had some reoccupation in the Postclassic about 800 BP. These findings and a recent discovery in Campeche, MX display the burgeoning evidence for intricate Maya connections with tropical wetland soils.

A total system approach to sustainable pest management

PubMed Central

Lewis, W. J.; van Lenteren, J. C.; Phatak, Sharad C.; Tumlinson, J. H.

1997-01-01

A fundamental shift to a total system approach for crop protection is urgently needed to resolve escalating economic and environmental consequences of combating agricultural pests. Pest management strategies have long been dominated by quests for “silver bullet” products to control pest outbreaks. However, managing undesired variables in ecosystems is similar to that for other systems, including the human body and social orders. Experience in these fields substantiates the fact that therapeutic interventions into any system are effective only for short term relief because these externalities are soon “neutralized” by countermoves within the system. Long term resolutions can be achieved only by restructuring and managing these systems in ways that maximize the array of “built-in” preventive strengths, with therapeutic tactics serving strictly as backups to these natural regulators. To date, we have failed to incorporate this basic principle into the mainstream of pest management science and continue to regress into a foot race with nature. In this report, we establish why a total system approach is essential as the guiding premise of pest management and provide arguments as to how earlier attempts for change and current mainstream initiatives generally fail to follow this principle. We then draw on emerging knowledge about multitrophic level interactions and other specific findings about management of ecosystems to propose a pivotal redirection of pest management strategies that would honor this principle and, thus, be sustainable. Finally, we discuss the potential immense benefits of such a central shift in pest management philosophy. PMID:9356432

Whole Genome Sequencing of the Braconid Parasitoid Wasp Fopius arisanus, an Important Biocontrol Agent of Pest Tepritid Fruit Flies

PubMed Central

Geib, Scott M.; Liang, Guang Hong; Murphy, Terence D.; Sim, Sheina B.

2017-01-01

The braconid wasp Fopius arisanus (Sonan) is an important biological control agent of tropical and subtropical pest fruit flies, including two important global pests, the Mediterranean fruit fly (Ceratitis capitata), and the oriental fruit fly (Bactrocera dorsalis). The goal of this study was to develop foundational genomic resources for this species to provide tools that can be used to answer questions exploring the multitrophic interactions between the host and parasitoid in this important research system. Here, we present a whole genome assembly of F. arisanus, derived from a pool of haploid offspring from a single unmated female. The genome is ∼154 Mb in size, with a N50 contig and scaffold size of 51,867 bp and 0.98 Mb, respectively. Utilizing existing RNA-Seq data for this species, as well as publicly available peptide sequences from related Hymenoptera, a high quality gene annotation set, which includes 10,991 protein coding genes, was generated. Prior to this assembly submission, no RefSeq proteins were present for this species. Parasitic wasps play an important role in a diverse ecosystem as well as a role in biological control of agricultural pests. This whole genome assembly and annotation data represents the first genome-scale assembly for this species or any closely related Opiine, and are publicly available in the National Center for Biotechnology Information Genome and RefSeq databases, providing a much needed genomic resource for this hymenopteran group. PMID:28584080

Organic/Inorganic Complex Pigments: Ancient Colors Maya Blue

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

Polette-Niewold, L.A.; Manciu, F.S.; Torres, B.

2009-06-04

Maya Blue is an ancient blue pigment composed of palygorskite clay and indigo. It was used by the ancient Maya and provides a dramatic background for some of the most impressive murals throughout Mesoamerica. Despite exposure to acids, alkalis, and chemical solvents, the color of the Maya Blue pigment remains unaltered. The chemical interaction between palygorskite and indigo form an organic/inorganic complex with the carbonyl oxygen of the indigo bound to a surface Al{sup 3+} in the Si-O lattice. In addition indigo will undergo an oxidation to dehydroindigo during preparation. The dehydro-indigo molecule forms a similar but stronger complex withmore » the Al{sup 3+}. Thus, Maya Blue varies in color due to the mixed indigo/dehydroindigo complex. The above conclusions are the result of application of multiple techniques (X-ray diffraction, differential thermal analysis/thermal gravimetric analysis, high resolution transmission electron microscopy, scanning electron microscopy, infrared and Raman spectroscopy) to the characterization of the organic/inorganic complex. A picture of the bonding of the organic molecule to the palygorskite surface forming a surface complex is developed and supported by the results of density functional theory calculations. We also report that other organic molecules such as thioindigo form similar organic/inorganic complexes thus, opening an entirely new class of complex materials for future applications.« less

The effect of thermal aging and color pigments on the Egyptian linen properties evaluated by physicochemical methods

NASA Astrophysics Data System (ADS)

El-Gaoudy, H.; Kourkoumelis, N.; Varella, E.; Kovala-Demertzi, D.

2011-11-01

Archaeologists in Egypt discovered ancient colored textiles in great quantities in comparison with the analogous uncolored ones. Furthermore, the latter are far more deteriorated. Most research investigations into archaeological linen have been concerned with manufacture, restoration, and conservation but little information is available about the properties of the fibers, and particularly their chemical and physical properties after dyeing with natural dyes or painted with pigments. The aim of this study is to evaluate the physicochemical properties of Egyptian linen textiles coloring with a variety of pigments used in painting in ancient times after thermally aged to get linen samples which are similar as possible to the ancient linen textiles. The evaluations were based on Fourier transform infrared spectroscopy (FTIR), scanning electron microscopy (SEM), X-ray diffraction and tensile strength, and elongation measurements. Results showed that beyond cosmetic reasons, colored textiles did indeed play a role as protecting agents affecting strength and reducing thermal deterioration. Specifically, in the molecular level, pigments under study seem to interact to cellulose and lignin compounds of the aged linen while in the macroscopic level tensile and elongation parameters are altered. Electron microscopy confirms that pigment particles are deposited on and between the fibers' surfaces.

Systems Thinking for Strategic Leaders

DTIC Science & Technology

2009-06-01

needed to man weapons systems and equipment to fight according to Army doctrine. There are series of interactions that have second and third order...otherwise go. The indirect approach to diplomacy is especially difficult for democracies because the approach may appear to be leading the state in a...military operations must be approached from a systems perspective. In the ancient world, Xenophon, a contemporary of Plato , described just such a

Antibiotics and evolution: food for thought.

PubMed

Strachan, C R; Davies, J

2016-03-01

The role of secondary metabolites in effecting and modulating reactions during early biochemical evolution has been largely unappreciated. It is possible that low molecular weight effectors were gradually replaced by polypeptides as polymerizing reactions became more complex, but retained some ability to interact with original receptor sites. Indeed, by reviewing the era of antibiotics in this light we can begin to reconcile the ancient and contemporary activities of these molecules. The corollary being that secondary metabolites participate in a vast array of interactions in nature and investigating their intended receptors will be revealing in both pharmacological and evolutionary terms.

Three ancient hormonal cues co-ordinate shoot branching in a moss.

PubMed

Coudert, Yoan; Palubicki, Wojtek; Ljung, Karin; Novak, Ondrej; Leyser, Ottoline; Harrison, C Jill

2015-03-25

Shoot branching is a primary contributor to plant architecture, evolving independently in flowering plant sporophytes and moss gametophytes. Mechanistic understanding of branching is largely limited to flowering plants such as Arabidopsis, which have a recent evolutionary origin. We show that in gametophytic shoots of Physcomitrella, lateral branches arise by re-specification of epidermal cells into branch initials. A simple model co-ordinating the activity of leafy shoot tips can account for branching patterns, and three known and ancient hormonal regulators of sporophytic branching interact to generate the branching pattern- auxin, cytokinin and strigolactone. The mode of auxin transport required in branch patterning is a key divergence point from known sporophytic pathways. Although PIN-mediated basipetal auxin transport regulates branching patterns in flowering plants, this is not so in Physcomitrella, where bi-directional transport is required to generate realistic branching patterns. Experiments with callose synthesis inhibitors suggest plasmodesmal connectivity as a potential mechanism for transport.

Unraveling the processes shaping mammalian gut microbiomes over evolutionary time

PubMed Central

Groussin, Mathieu; Mazel, Florent; Sanders, Jon G.; Smillie, Chris S.; Lavergne, Sébastien; Thuiller, Wilfried; Alm, Eric J.

2017-01-01

Whether mammal–microbiome interactions are persistent and specific over evolutionary time is controversial. Here we show that host phylogeny and major dietary shifts have affected the distribution of different gut bacterial lineages and did so on vastly different bacterial phylogenetic resolutions. Diet mostly influences the acquisition of ancient and large microbial lineages. Conversely, correlation with host phylogeny is mostly seen among more recently diverged bacterial lineages, consistent with processes operating at similar timescales to host evolution. Considering microbiomes at appropriate phylogenetic scales allows us to model their evolution along the mammalian tree and to infer ancient diets from the predicted microbiomes of mammalian ancestors. Phylogenetic analyses support co-speciation as having a significant role in the evolution of mammalian gut microbiome compositions. Highly co-speciating bacterial genera are also associated with immune diseases in humans, laying a path for future studies that probe these co-speciating bacteria for signs of co-evolution. PMID:28230052

Ancient symbiosis confers desiccation resistance to stored grain pest beetles.

PubMed

Engl, Tobias; Eberl, Nadia; Gorse, Carla; Krüger, Theresa; Schmidt, Thorsten H P; Plarre, Rudy; Adler, Cornel; Kaltenpoth, Martin

2018-04-01

Microbial symbionts of insects provide a range of ecological traits to their hosts that are beneficial in the context of biotic interactions. However, little is known about insect symbiont-mediated adaptation to the abiotic environment, for example, temperature and humidity. Here, we report on an ancient clade of intracellular, bacteriome-located Bacteroidetes symbionts that are associated with grain and wood pest beetles of the phylogenetically distant families Silvanidae and Bostrichidae. In the saw-toothed grain beetle Oryzaephilus surinamensis, we demonstrate that the symbionts affect cuticle thickness, melanization and hydrocarbon profile, enhancing desiccation resistance and thereby strongly improving fitness under dry conditions. Together with earlier observations on symbiont contributions to cuticle biosynthesis in weevils, our findings indicate that convergent acquisitions of bacterial mutualists represented key adaptations enabling diverse pest beetle groups to survive and proliferate under the low ambient humidity that characterizes dry grain storage facilities. © 2017 John Wiley & Sons Ltd.

A probable prehistoric case of meningococcal disease from San Francisco Bay: Next generation sequencing of Neisseria meningitidis from dental calculus and osteological evidence.

PubMed

Eerkens, Jelmer W; Nichols, Ruth V; Murray, Gemma G R; Perez, Katherine; Murga, Engel; Kaijankoski, Phil; Rosenthal, Jeffrey S; Engbring, Laurel; Shapiro, Beth

2018-05-25

Next Generation Sequencing (NGS) of ancient dental calculus samples from a prehistoric site in San Francisco Bay, CA-SCL-919, reveals a wide range of potentially pathogenic bacteria. One older adult woman, in particular, had high levels of Neisseria meningitidis and low levels of Haemophilus influenzae, species that were not observed in the calculus from three other individuals. Combined with the presence of incipient endocranial lesions and pronounced meningeal grooves, we interpret this as an ancient case of meningococcal disease. This disease afflicts millions around the globe today, but little is known about its (pre)history. With additional sampling, we suggest NGS of calculus offers an exciting new window into the evolutionary history of these bacterial species and their interactions with humans. Copyright © 2018 Elsevier Inc. All rights reserved.

Ancient dna from pleistocene fossils: Preservation, recovery, and utility of ancient genetic information for quaternary research

NASA Astrophysics Data System (ADS)

Yang, Hong

Until recently, recovery and analysis of genetic information encoded in ancient DNA sequences from Pleistocene fossils were impossible. Recent advances in molecular biology offered technical tools to obtain ancient DNA sequences from well-preserved Quaternary fossils and opened the possibilities to directly study genetic changes in fossil species to address various biological and paleontological questions. Ancient DNA studies involving Pleistocene fossil material and ancient DNA degradation and preservation in Quaternary deposits are reviewed. The molecular technology applied to isolate, amplify, and sequence ancient DNA is also presented. Authentication of ancient DNA sequences and technical problems associated with modern and ancient DNA contamination are discussed. As illustrated in recent studies on ancient DNA from proboscideans, it is apparent that fossil DNA sequence data can shed light on many aspects of Quaternary research such as systematics and phylogeny. conservation biology, evolutionary theory, molecular taphonomy, and forensic sciences. Improvement of molecular techniques and a better understanding of DNA degradation during fossilization are likely to build on current strengths and to overcome existing problems, making fossil DNA data a unique source of information for Quaternary scientists.

Ancient peat and apple extracts supplementation may improve strength and power adaptations in resistance trained men.

PubMed

Joy, Jordan M; Vogel, Roxanne M; Moon, Jordan R; Falcone, Paul H; Mosman, Matt M; Pietrzkowski, Zbigniew; Reyes, Tania; Kim, Michael P

2016-07-18

Increased cellular ATP levels have the potential to enhance athletic performance. A proprietary blend of ancient peat and apple extracts has been supposed to increase ATP production. Therefore, the purpose of this investigation was to determine the effects of this supplement on athletic performance when used during 12 weeks of supervised, periodized resistance training. Twenty-five healthy, resistance-trained, male subjects completed this study. Subjects supplemented once daily with either 1 serving (150 mg) of a proprietary blend of ancient peat and apple extract (TRT) or an equal-volume, visually-identical placebo (PLA) daily. Supervised resistance training consisted of 8 weeks of daily undulating periodized training followed by a 2 week overreach and a 2 week taper phase. Strength was determined using 1-repetition-maximum (1RM) testing in the barbell back squat, bench press (BP), and deadlift exercises. Peak power and peak velocity were determined during BP at 30 % 1RM and vertical jump tests as well as a 30s Wingate test, which also provided relative power (watt:mass) A group x time interaction was present for squat 1RM, deadlift 1RM, and vertical jump peak power and peak velocity. Squat and deadlift 1RM increased in TRT versus PLA from pre to post. Vertical jump peak velocity increased in TRT versus PLA from pre to week 10 as did vertical jump peak power, which also increased from pre to post. Wingate peak power and watt:mass tended to favor TRT. Supplementing with ancient peat and apple extract while participating in periodized resistance training may enhance performance adaptations. ClinicalTrials.gov registration ID: NCT02819219 , retrospectively registered on 6/29/2016.

Ancient DNA reveals genetic connections between early Di-Qiang and Han Chinese.

PubMed

Li, Jiawei; Zeng, Wen; Zhang, Ye; Ko, Albert Min-Shan; Li, Chunxiang; Zhu, Hong; Fu, Qiaomei; Zhou, Hui

2017-12-04

Ancient Di-Qiang people once resided in the Ganqing region of China, adjacent to the Central Plain area from where Han Chinese originated. While gene flow between the Di-Qiang and Han Chinese has been proposed, there is no evidence to support this view. Here we analyzed the human remains from an early Di-Qiang site (Mogou site dated ~4000 years old) and compared them to other ancient DNA across China, including an early Han-related site (Hengbei site dated ~3000 years old) to establish the underlying genetic relationship between the Di-Qiang and ancestors of Han Chinese. We found Mogou mtDNA haplogroups were highly diverse, comprising 14 haplogroups: A, B, C, D (D*, D4, D5), F, G, M7, M8, M10, M13, M25, N*, N9a, and Z. In contrast, Mogou males were all Y-DNA haplogroup O3a2/P201; specifically one male was further assigned to O3a2c1a/M117 using targeted unique regions on the non-recombining region of the Y-chromosome. We compared Mogou to 7 other ancient and 38 modern Chinese groups, in a total of 1793 individuals, and found that Mogou shared close genetic distances with Taojiazhai (a more recent Di-Qiang population), Hengbei, and Northern Han. We modeled their interactions using Approximate Bayesian Computation, and support was given to a potential admixture of ~13-18% between the Mogou and Northern Han around 3300-3800 years ago. Mogou harbors the earliest genetically identifiable Di-Qiang, ancestral to the Taojiazhai, and up to ~33% paternal and ~70% of its maternal haplogroups could be found in present-day Northern Han Chinese.

Identification and impacts of earthquakes on the Roman Town of Patras- Archaeological evidence

NASA Astrophysics Data System (ADS)

Stamati, Alexandra-Venetia; Stiros, Stathis

2015-04-01

In this paper we examine the interactions between earthquakes and inhabitation history of the town of Patras (NW Peloponnese, Greece), flourishing during the Roman period. Instrumental seismicity data and the seismic history of the last two centuries indicate that the wider area is among the most seismically active parts of Europe. But surprisingly, for older periods no historical evidence of ancient earthquakes exists. If this absence of evidence of ancient earthquakes is indicative of a real absence of earthquakes, this may be important for different disciplines. For Seismology, it may perhaps indicate clusters of seismicity separated by intervals of quiescence, each at least several thousand years long. It may also indicate that the inhabitation history of Patras town was not interrupted by major natural catastrophic events, and some destruction observed in ancient remains can be assigned to anthropogenic effects. In order to contribute in the solution of this problem, we made a systematic Archaeoseismological investigation of Patras and examined for the first time several hundreds of reports of archaeological excavations that have been made during period of reconstruction of the city (1972-2004). Among these, about 100 reports provide evidence of destruction layers, some of which satisfy the criteria for identification of earthquakes from archaeological data. A further correlation of this evidence in space and time was made, and permitted to identify with certainty a few major seismic events which marked the history of Roman Patras (1st-6th century AD). In spite of their catastrophic effects, these earthquakes have not led to the abandonment of the ancient town (inhabitation hiatus), but have certainly left their marks in the urban and perhaps social and economic history of this Roman town. Some certain uniformity in the frequency of earthquakes in Patras was also inferred.

Organic matter in hydrothermal metal ores and hydrothermal fluids

USGS Publications Warehouse

Orem, W.H.; Spiker, E. C.; Kotra, R.K.

1990-01-01

Massive polymetallic sulfides are currently being deposited around active submarine hydrothermal vents associated with spreading centers. Chemoautolithotrophic bacteria are responsible for the high production of organic matter also associated with modern submarine hydrothermal activity. Thus, there is a significant potential for organic matter/metal interactions in these systems. We have studied modern and ancient hydrothermal metal ores and modern hydrothermal fluids in order to establish the amounts and origin of the organic matter associated with the metal ores. Twenty-six samples from modern and ancient hydrothermal systems were surveyed for their total organic C contents. Organic C values ranged from 0.01% to nearly 4.0% in these samples. Metal ores from modern and ancient sediment-covered hydrothermal systems had higher organic C values than those from modern and ancient hydrothermal systems lacking appreciable sedimentary cover. One massive pyrite sample from the Galapagos spreading center (3% organic C) had stable isotope values of -27.4% (??13C) and 2.1% (??15N), similar to those in benthic siphonophors from active vents and distinct from seep sea sedimentary organic matter. This result coupled with other analyses (e.g. 13C NMR, pyrolysis/GC, SEM) of this and other samples suggests that much of the organic matter may originate from chemoautolithotrophic bacteria at the vents. However, the organic matter in hydrothermal metal ores from sediment covered vents probably arises from complex sedimentary organic matter by hydrothermal pyrolysis. The dissolved organic C concentrations of hydrothermal fluids from one site (Juan de Fuca Ridge) were found to be the same as that of background seawater. This result may indicate that dissolved organic C is effectively scavenged from hydrothermal fluids by biological activity or by co-precipitation with metal ores. ?? 1990.

Crustacean amphipods from marsh ponds: a nutritious feed resource with potential for application in Integrated Multi-Trophic Aquaculture.

PubMed

Jiménez-Prada, Pablo; Hachero-Cruzado, Ismael; Giráldez, Inmaculada; Fernández-Diaz, Catalina; Vilas, César; Cañavate, José Pedro; Guerra-García, José Manuel

2018-01-01

Coastal protection, nutrient cycling, erosion control, water purification, and carbon sequestration are ecosystem services provided by salt marshes. Additionally, salt ponds offer coastal breeding and a nursery habitat for fishes and they provide abundant invertebrates, such as amphipods, which are potentially useful as a resource in aquaculture. Fishmeal and fish oil are necessary food resources to support aquaculture of carnivorous species due to their omega-3 long-chain polyunsaturated fatty acids (n-3 LC-PUFA). Currently, aquaculture depends on limited fisheries and feed with elevated n-3 LC-PUFA levels, but the development of more sustainable food sources is necessary. Amphipods appear to be a potential high quality alternative feed resource for aquaculture. Hence, a nutritional study was carried out for several main amphipod species- Microdeutopus gryllotalpa , Monocorophium acherusicum , Gammarus insensibilis , Melita palmata and Cymadusa filosa -in terrestrial ponds in the South of Spain. These species showed high protein content (up to 40%), high n-3 PUFA and phospholipid levels, and high levels of phophatidylcholine (PC), phosphatidylethanolamine (PE) and triacylglycerols (TAG), the latter being significantly high for M. acherusicum . M. gryllotalpa and M. acherusicum showed the highest proportion of lipids (19.15% and 18.35%, respectively). Isoleucine, glycine and alanine were the dominant amino acids in all species. In addition, amphipods collected from ponds showed low levels of heavy metals. Furthermore, the biochemical profiles of the five species of amphipods have been compared with other studied alternative prey. Therefore, pond amphipods are good candidates to be used as feed, and are proposed as a new sustainable economic resource to be used in aquaculture. G. insensibilis may be the best for intensive culture as an alternative feed resource because it shows: (1) adequate n-3 PUFA and PL composition; (2) high levels of glycine, alanine, tyrosine, isoleucine and lysine; (3) high natural densities; (4) large body size (≥1 cm), and (5) high concentration of calcium. Moreover, a combined culture of amphipods and fishes in these marsh ponds seems a promising and environmentally sustainable way to develop Integrate Multi-Trophic Aquaculture (IMTA) in these ecosystems.

Crustacean amphipods from marsh ponds: a nutritious feed resource with potential for application in Integrated Multi-Trophic Aquaculture

PubMed Central

Hachero-Cruzado, Ismael; Giráldez, Inmaculada; Fernández-Diaz, Catalina; Vilas, César; Cañavate, José Pedro; Guerra-García, José Manuel

2018-01-01

Coastal protection, nutrient cycling, erosion control, water purification, and carbon sequestration are ecosystem services provided by salt marshes. Additionally, salt ponds offer coastal breeding and a nursery habitat for fishes and they provide abundant invertebrates, such as amphipods, which are potentially useful as a resource in aquaculture. Fishmeal and fish oil are necessary food resources to support aquaculture of carnivorous species due to their omega-3 long-chain polyunsaturated fatty acids (n-3 LC-PUFA). Currently, aquaculture depends on limited fisheries and feed with elevated n-3 LC-PUFA levels, but the development of more sustainable food sources is necessary. Amphipods appear to be a potential high quality alternative feed resource for aquaculture. Hence, a nutritional study was carried out for several main amphipod species—Microdeutopus gryllotalpa, Monocorophium acherusicum, Gammarus insensibilis, Melita palmata and Cymadusa filosa—in terrestrial ponds in the South of Spain. These species showed high protein content (up to 40%), high n-3 PUFA and phospholipid levels, and high levels of phophatidylcholine (PC), phosphatidylethanolamine (PE) and triacylglycerols (TAG), the latter being significantly high for M. acherusicum. M. gryllotalpa and M. acherusicum showed the highest proportion of lipids (19.15% and 18.35%, respectively). Isoleucine, glycine and alanine were the dominant amino acids in all species. In addition, amphipods collected from ponds showed low levels of heavy metals. Furthermore, the biochemical profiles of the five species of amphipods have been compared with other studied alternative prey. Therefore, pond amphipods are good candidates to be used as feed, and are proposed as a new sustainable economic resource to be used in aquaculture. G. insensibilis may be the best for intensive culture as an alternative feed resource because it shows: (1) adequate n-3 PUFA and PL composition; (2) high levels of glycine, alanine, tyrosine, isoleucine and lysine; (3) high natural densities; (4) large body size (≥1 cm), and (5) high concentration of calcium. Moreover, a combined culture of amphipods and fishes in these marsh ponds seems a promising and environmentally sustainable way to develop Integrate Multi-Trophic Aquaculture (IMTA) in these ecosystems. PMID:29340233

Examining the effects of metal mining mixtures on fathead minnow (Pimephales promelas) using field-based multi-trophic artificial streams.

PubMed

Rozon-Ramilo, Lisa D; Dubé, Monique G; Rickwood, Carrie J; Niyogi, Som

2011-09-01

This study illustrates the use of a mesocosm approach for assessing the independent effects of three treated metal mine effluents (MME) discharging into a common receiving environment and regulated under the same regulation. A field-based, multi-trophic artificial stream study was conducted in August 2008 to assess the effects of three metal mining effluents on fathead minnow (Pimephales promelas) in a 21-day reproduction bioassay. The nature of the approach allowed for assessment of both dietary and waterborne exposure pathways. Elements (e.g. Se, Co, Cl, Cu, Fe) were analyzed in several media (water, sediments) and tissues (biofilm, Chironomus dilutus, female fathead minnow (FHM) body, ovary, liver, gills). Significant increases in metal and micronutrient concentrations were observed in the water and biofilm tissues in all MME treatments [20% surface water effluent (SWE), 30% mine water effluent (MWE), and 45% process water effluent (PWE)], compared to reference. However, copper was the only element to significantly increase in the sediments when exposed to PWE. Co and Ni increased significantly in C. dilutus tissues in SWE (1.4- and 1.5-fold, respectively), Cu and Se also increased in chironomid tissues in PWE (5.2- and 3.3-fold, respectively); however, no significant increases in metals or micronutrients occurred in chironomid tissues when exposed to MWE compared to reference. There were no significant increases in metal concentrations in female FHM tissues (body, liver, gonads, gills) in any of the treatments suggesting that metals were either not bioavailable, lost from the females via the eggs, or naturally regulated through homeostatic mechanisms. Cumulative number of eggs per female per day increased significantly (∼127%) after exposure to SWE and decreased significantly (∼33%) after exposure to PWE when compared to reference. Mean total number of days to hatch was reduced in PWE compared to reference. This study shows the importance of isolating treatment streams in cumulative discharge environments to assess aquatic effects due to the different nature of the effluents. Copyright © 2011 Elsevier Inc. All rights reserved.

Ancient Astronomy in Armenia

NASA Astrophysics Data System (ADS)

Parsamian, Elma S.

2007-08-01

The most important discovery, which enriched our knowledge of ancient astronomy in Armenia, was the complex of platforms for astronomical observations on the Small Hill of Metzamor, which may be called an ancient “observatory”. Investigations on that Hill show that the ancient inhabitants of the Armenian Highlands have left us not only pictures of celestial bodies, but a very ancient complex of platforms for observing the sky. Among the ancient monuments in Armenia there is a megalithic monument, probably, being connected with astronomy. 250km South-East of Yerevan there is a structure Zorats Kar (Karahunge) dating back to II millennium B.C. Vertical megaliths many of which are more than two meters high form stone rings resembling ancient stone monuments - henges in Great Britain and Brittany. Medieval observations of comets and novas by data in ancient Armenian manuscripts are found. In the collection of ancient Armenian manuscripts (Matenadaran) in Yerevan there are many manuscripts with information about observations of astronomical events as: solar and lunar eclipses, comets and novas, bolides and meteorites etc. in medieval Armenia.

Astronomical Context of Georgian Folklore

NASA Astrophysics Data System (ADS)

Jijelava1, Badri; Holbrook, Jarita; Simonia, Irakli

2016-10-01

Objectives: The religious Ancient megalithic monuments are accordingly o/riente to the ancient Gods - The Sun, Moon, luminaries. The aim of this work to research the ethnographic data, current folklore and based on the results, harmonize the ancient Gods and the orientations of the religious megalithic complexes. Methods/Statistical Analysis: We harmonized the ethnographical, folklore and historical information and restoration of ancient celestial sphere (using special astronomy application) and identified the correlations between the some acronychal or helical rising/set of luminaries and orientations of megalithic objects. Such connections are stored in a folklore. Findings: This technique of investigations gives us more clear understanding of ancient universe. Using this method, we can receive additional information about the ancient Gods - Luminaries, clarify current mythology, date the megalithic complex. Application/Improvements: This method of investigation - Harmonization cultural astronomy and archae or astronomy with the archeological investigations will be more fruitful, because it gives us reliable information concerning the ancient culture, ancient religion and ancient people.

Fluid Structure Interaction Effect on Sandwich Composite Structures

DTIC Science & Technology

2011-09-01

far back as ancient Egyptian times in the use of straw and bricks, or more recently in the last century with the use of steel rebar in concrete ...construction of sandwich composites; however, this particular material was selected for its uniform pattern and translucent qualities after it is wetted out...excellent fire retardant and corrosion resistant qualities making it a natural selection for shipboard applications. The same translucent qualities

New long-proboscid lacewings of the mid-Cretaceous provide insights into ancient plant-pollinator interactions.

PubMed

Lu, Xiu-Mei; Zhang, Wei-Wei; Liu, Xing-Yue

2016-05-05

Many insects with long-proboscid mouthparts are among the pollinators of seed plants. Several cases of the long-proboscid pollination mode are known between fossil insects (e.g., true flies, scorpionflies, and lacewings) and various extinct gymnosperm lineages, beginning in the Early Permian and increasing during the Middle Jurassic to Early Cretaceous. However, details on the morphology of lacewing proboscides and the relevant pollination habit are largely lacking. Here we report on three lacewing species that belong to two new genera and a described genus from mid-Cretaceous (Albian-Cenomanian) amber of Myanmar. All these species possess relatively long proboscides, which are considered to be modified from maxillary and labial elements, probably functioning as a temporary siphon for feeding on nectar. Remarkably, these proboscides range from 0.4-1.0 mm in length and are attributed to the most diminutive ones among the contemporary long-proboscid insect pollinators. Further, they clearly differ from other long-proboscid lacewings which have a much longer siphon. The phylogenetic analysis indicates that these Burmese long-proboscid lacewings belong to the superfamily Psychopsoidea but cannot be placed into any known family. The present findings represent the first description of the mouthparts of long-proboscid lacewings preserved in amber and highlight the evolutionary diversification of the ancient plant-pollinator interactions.

Urology and the scientific method in ancient Egypt.

PubMed

Gordetsky, Jennifer; O'Brien, Jeanne

2009-03-01

To examine the practice of urology in ancient Egypt using various sources, including the Edwin Smith and Ebers Papyri. The sources of knowledge of ancient Egyptian medicine include medical papyri, paleopathology, art, and hieroglyphic carvings. A brief overview of the medical system in ancient Egypt was completed, in addition to an examination of the training and specialization of the physician in the ancient world. Urologic diseases treated in ancient Egypt and some of the first documented urologic surgeries are presented. Finally, we studied the role of the physician-priest and the intertwined use of religion and magic in ancient Egyptian medicine. The same medical conditions urologists treat in the office today were methodically documented thousands of years ago. Medical papyri show evidence that the ancient Egyptians practiced medicine using a scientific method based on the clinical observation of disease. This has been exemplified by the Edwin Smith Surgical Papyrus, a collection of surgical cases that gives a diagnosis, treatment, and prognosis for each ailment, and the discovery of medical specialization in ancient Egypt, giving us perhaps the world's first urologists. Intertwined with the scientific method was also the rich mysticism and religion of ancient Egypt, which were integral components of the healing process. We present an overview of the practice of urology in ancient Egypt, in terms of both pharmacologic and surgical intervention, as well as with a look into the religion of medicine practiced at that time.

Systematic identification of phosphorylation-mediated protein interaction switches

PubMed Central

Wichmann, Oliver; Utz, Mathias; Andre, Timon; Minguez, Pablo; Parca, Luca; Roth, Frederick P.; Gavin, Anne-Claude; Bork, Peer; Russell, Robert B.

2017-01-01

Proteomics techniques can identify thousands of phosphorylation sites in a single experiment, the majority of which are new and lack precise information about function or molecular mechanism. Here we present a fast method to predict potential phosphorylation switches by mapping phosphorylation sites to protein-protein interactions of known structure and analysing the properties of the protein interface. We predict 1024 sites that could potentially enable or disable particular interactions. We tested a selection of these switches and showed that phosphomimetic mutations indeed affect interactions. We estimate that there are likely thousands of phosphorylation mediated switches yet to be uncovered, even among existing phosphorylation datasets. The results suggest that phosphorylation sites on globular, as distinct from disordered, parts of the proteome frequently function as switches, which might be one of the ancient roles for kinase phosphorylation. PMID:28346509

Sediments and flow have mainly independent effects on multitrophic stream communities and ecosystem functions.

PubMed

Mustonen, Kaisa-Riikka; Mykrä, Heikki; Louhi, Pauliina; Markkola, Annamari; Tolkkinen, Mikko; Huusko, Ari; Alioravainen, Nico; Lehtinen, Sirkku; Muotka, Timo

2016-10-01

Stream ecosystems are affected by multiple abiotic stressors, and species responses to simultaneous stressors may differ from those predicted based on single-stressor responses. Using 12 semi-natural stream channels, we examined the individual and interactive effects of flow level (low or high flow) and addition of fine sediments (grain size <2 mm) on key ecosystem processes (leaf breakdown, algal biomass accrual) and benthic macroinvertebrate and fungal communities. Both stressors had mostly independent effects on biological responses, with sand addition being the more influential of the two. Sand addition decreased algal biomass and microbe-mediated leaf breakdown significantly, whereas invertebrate shredder-mediated breakdown only responded to flow level. Macroinvertebrate community composition responded significantly to both stressors. Fungal biomass decreased and shredder abundance increased when sand was added; thus, organisms at different trophic levels can exhibit highly variable responses to the same stressor. Terrestrial endophytic fungi were abundant in low-flow flumes where leaf mass loss was also highest, indicating that terrestrial endophytes may contribute importantly to leaf decomposition in the aquatic environment. Leaf breakdown rates depended on the identity and abundance of the dominant decomposer species, suggesting that the effects of anthropogenic activities on ecosystem processes may be driven by changes in the abundance of a few key species. The few observed interactive effects were all antagonistic (i.e., less than the sum of the individual effects); for example, increased flow stimulated algal biomass accumulation but this effect was largely cancelled by sand. While our finding that sand and stream flow did not have strong synergistic effects can be considered reassuring for management, future experiments should manipulate these and other human stressors in experiments that run for much longer periods, thus focusing on the long-term impacts of multiple simultaneously operating stressors. © 2016 by the Ecological Society of America.

The Influence of Host Plant Extrafloral Nectaries on Multitrophic Interactions: An Experimental Investigation

PubMed Central

Koptur, Suzanne; Jones, Ian M.; Peña, Jorge E.

2015-01-01

A field experiment was conducted with outplantings of the native perennial shrub Senna mexicana var. chapmanii in a semi-natural area adjacent to native pine rockland habitat in southern Florida. The presence of ants and the availability of extrafloral nectar were manipulated in a stratified random design. Insect communities were monitored and recorded over a period of six months with a view to addressing three main questions. Do ants provide biotic defense against key herbivores on S. chapmanii? Is the presence of ants on S. chapmanii mediated by EFN? Finally, are there ecological costs associated with the presence of ants on S. chapmanii, such as a reduction in alternative predator or parasitoid numbers? Herbivores on S. chapmanii included immature stages of three pierid butterflies, and adult weevils. Eight species of ants were associated with the plants, and other predators included spiders, ladybugs, wasps, and hemipterans. Parasitic, haemolymph-sucking midges (Ceratopogonidae) and parasitoid flies were also associated with the caterpillar herbivores, and possibly the extrafloral nectaries of the plants. The presence of ants did not appear to influence oviposition by butterflies, as numbers of lepidopterans of all developmental stages did not differ among treatments. Significantly more late instar caterpillars, however, were observed on plants with ants excluded, indicating that ants remove small caterpillars from plants. Substantially more alternative predators (spiders, ladybugs, and wasps) were observed on plants with ants excluded. Rates of parasitization did not differ among the treatments, but there were substantially fewer caterpillars succumbing to virus among those collected from control plants. We provide a rare look at facultative ant-plant mutualisms in the context of the many other interactions with which they overlap. We conclude that ants provide some biotic defense against herbivores on S. chapmanii, and plants benefit overall from the presence of ants, despite negative impacts on non-ant predators. PMID:26394401

What can ancient mummies teach us about atherosclerosis?

PubMed

Wann, Samuel; Thomas, Gregory S

2014-10-01

Ancient mummies have captivated a wide variety of audiences for centuries. In order to better understand the evolution and causative features of atherosclerosis, the Horus group is applying modern scientific methods to study ancient mummies. We have used CT scanning to detect calcification in arteries as an indication of the presence of atherosclerosis, and are correlating these results with cultural and lifestyle features of various populations of ancient people as represented by their ancient mummified remains. We are also pursuing related studies of ancient DNA to define genotypes associated with atherosclerotic phenotypes. Copyright © 2014 Elsevier Inc. All rights reserved.

Neanderthal behaviour, diet, and disease inferred from ancient DNA in dental calculus.

PubMed

Weyrich, Laura S; Duchene, Sebastian; Soubrier, Julien; Arriola, Luis; Llamas, Bastien; Breen, James; Morris, Alan G; Alt, Kurt W; Caramelli, David; Dresely, Veit; Farrell, Milly; Farrer, Andrew G; Francken, Michael; Gully, Neville; Haak, Wolfgang; Hardy, Karen; Harvati, Katerina; Held, Petra; Holmes, Edward C; Kaidonis, John; Lalueza-Fox, Carles; de la Rasilla, Marco; Rosas, Antonio; Semal, Patrick; Soltysiak, Arkadiusz; Townsend, Grant; Usai, Donatella; Wahl, Joachim; Huson, Daniel H; Dobney, Keith; Cooper, Alan

2017-04-20

Recent genomic data have revealed multiple interactions between Neanderthals and modern humans, but there is currently little genetic evidence regarding Neanderthal behaviour, diet, or disease. Here we describe the shotgun-sequencing of ancient DNA from five specimens of Neanderthal calcified dental plaque (calculus) and the characterization of regional differences in Neanderthal ecology. At Spy cave, Belgium, Neanderthal diet was heavily meat based and included woolly rhinoceros and wild sheep (mouflon), characteristic of a steppe environment. In contrast, no meat was detected in the diet of Neanderthals from El Sidrón cave, Spain, and dietary components of mushrooms, pine nuts, and moss reflected forest gathering. Differences in diet were also linked to an overall shift in the oral bacterial community (microbiota) and suggested that meat consumption contributed to substantial variation within Neanderthal microbiota. Evidence for self-medication was detected in an El Sidrón Neanderthal with a dental abscess and a chronic gastrointestinal pathogen (Enterocytozoon bieneusi). Metagenomic data from this individual also contained a nearly complete genome of the archaeal commensal Methanobrevibacter oralis (10.2× depth of coverage)-the oldest draft microbial genome generated to date, at around 48,000 years old. DNA preserved within dental calculus represents a notable source of information about the behaviour and health of ancient hominin specimens, as well as a unique system that is useful for the study of long-term microbial evolution.

Ancient DNA Analysis Suggests Negligible Impact of the Wari Empire Expansion in Peru’s Central Coast during the Middle Horizon

PubMed Central

Barreto Romero, María Inés; Flores Espinoza, Isabel; Cooper, Alan; Fehren-Schmitz, Lars

2016-01-01

The analysis of ancient human DNA from South America allows the exploration of pre-Columbian population history through time and to directly test hypotheses about cultural and demographic evolution. The Middle Horizon (650–1100 AD) represents a major transitional period in the Central Andes, which is associated with the development and expansion of ancient Andean empires such as Wari and Tiwanaku. These empires facilitated a series of interregional interactions and socio-political changes, which likely played an important role in shaping the region’s demographic and cultural profiles. We analyzed individuals from three successive pre-Columbian cultures present at the Huaca Pucllana archaeological site in Lima, Peru: Lima (Early Intermediate Period, 500–700 AD), Wari (Middle Horizon, 800–1000 AD) and Ychsma (Late Intermediate Period, 1000–1450 AD). We sequenced 34 complete mitochondrial genomes to investigate the potential genetic impact of the Wari Empire in the Central Coast of Peru. The results indicate that genetic diversity shifted only slightly through time, ruling out a complete population discontinuity or replacement driven by the Wari imperialist hegemony, at least in the region around present-day Lima. However, we caution that the very subtle genetic contribution of Wari imperialism at the particular Huaca Pucllana archaeological site might not be representative for the entire Wari territory in the Peruvian Central Coast. PMID:27248693

Animal Management at the Ancient Metropolis of Teotihuacan, Mexico: Stable Isotope Analysis of Leporid (Cottontail and Jackrabbit) Bone Mineral.

PubMed

Somerville, Andrew D; Sugiyama, Nawa; Manzanilla, Linda R; Schoeninger, Margaret J

2016-01-01

Human-animal interactions have played crucial roles in the development of complex societies across the globe. This study examines the human-leporid (cottontail and jackrabbit) relationship at the pre-Hispanic (AD 1-550) city of Teotihuacan in the Basin of Mexico and tests the hypothesis that leporids were managed or bred for food and secondary products within the urban core. We use stable isotope analysis (δ13Capatite and δ18Oapatite) of 134 leporid specimens from five archaeological contexts within the city and 13 modern specimens from across central Mexico to quantify aspects of leporid diet and ecology. The results demonstrate that leporids from Oztoyahualco, a residential complex associated with a unique rabbit sculpture and archaeological traces of animal butchering, exhibit the highest δ13Capatite values of the sample. These results imply greater consumption of human-cultivated foods, such as maize (Zea mays), by cottontails and jackrabbits at this complex and suggest practices of human provisioning. A lack of significant differences in δ18Oapatite values between ancient and modern leporids and between Oztoyahualco and other locations within Teotihuacan indicates generally similar relative humidity from sampled contexts. Results of this study support the notion that residents provisioned, managed, or bred leporids during the height of the city, and provide new evidence for mammalian animal husbandry in the ancient New World.

Ancient DNA Analysis Suggests Negligible Impact of the Wari Empire Expansion in Peru's Central Coast during the Middle Horizon.

PubMed

Valverde, Guido; Barreto Romero, María Inés; Flores Espinoza, Isabel; Cooper, Alan; Fehren-Schmitz, Lars; Llamas, Bastien; Haak, Wolfgang

2016-01-01

The analysis of ancient human DNA from South America allows the exploration of pre-Columbian population history through time and to directly test hypotheses about cultural and demographic evolution. The Middle Horizon (650-1100 AD) represents a major transitional period in the Central Andes, which is associated with the development and expansion of ancient Andean empires such as Wari and Tiwanaku. These empires facilitated a series of interregional interactions and socio-political changes, which likely played an important role in shaping the region's demographic and cultural profiles. We analyzed individuals from three successive pre-Columbian cultures present at the Huaca Pucllana archaeological site in Lima, Peru: Lima (Early Intermediate Period, 500-700 AD), Wari (Middle Horizon, 800-1000 AD) and Ychsma (Late Intermediate Period, 1000-1450 AD). We sequenced 34 complete mitochondrial genomes to investigate the potential genetic impact of the Wari Empire in the Central Coast of Peru. The results indicate that genetic diversity shifted only slightly through time, ruling out a complete population discontinuity or replacement driven by the Wari imperialist hegemony, at least in the region around present-day Lima. However, we caution that the very subtle genetic contribution of Wari imperialism at the particular Huaca Pucllana archaeological site might not be representative for the entire Wari territory in the Peruvian Central Coast.

Animal Management at the Ancient Metropolis of Teotihuacan, Mexico: Stable Isotope Analysis of Leporid (Cottontail and Jackrabbit) Bone Mineral

PubMed Central

Somerville, Andrew D.; Sugiyama, Nawa; Manzanilla, Linda R.; Schoeninger, Margaret J.

2016-01-01

Human-animal interactions have played crucial roles in the development of complex societies across the globe. This study examines the human-leporid (cottontail and jackrabbit) relationship at the pre-Hispanic (AD 1–550) city of Teotihuacan in the Basin of Mexico and tests the hypothesis that leporids were managed or bred for food and secondary products within the urban core. We use stable isotope analysis (δ13Capatite and δ18Oapatite) of 134 leporid specimens from five archaeological contexts within the city and 13 modern specimens from across central Mexico to quantify aspects of leporid diet and ecology. The results demonstrate that leporids from Oztoyahualco, a residential complex associated with a unique rabbit sculpture and archaeological traces of animal butchering, exhibit the highest δ13Capatite values of the sample. These results imply greater consumption of human-cultivated foods, such as maize (Zea mays), by cottontails and jackrabbits at this complex and suggest practices of human provisioning. A lack of significant differences in δ18Oapatite values between ancient and modern leporids and between Oztoyahualco and other locations within Teotihuacan indicates generally similar relative humidity from sampled contexts. Results of this study support the notion that residents provisioned, managed, or bred leporids during the height of the city, and provide new evidence for mammalian animal husbandry in the ancient New World. PMID:27532515

Emergence and evolution of an interaction between intrinsically disordered proteins

PubMed Central

Hultqvist, Greta; Åberg, Emma; Camilloni, Carlo; Sundell, Gustav N; Andersson, Eva; Dogan, Jakob; Chi, Celestine N; Vendruscolo, Michele; Jemth, Per

2017-01-01

Protein-protein interactions involving intrinsically disordered proteins are important for cellular function and common in all organisms. However, it is not clear how such interactions emerge and evolve on a molecular level. We performed phylogenetic reconstruction, resurrection and biophysical characterization of two interacting disordered protein domains, CID and NCBD. CID appeared after the divergence of protostomes and deuterostomes 450–600 million years ago, while NCBD was present in the protostome/deuterostome ancestor. The most ancient CID/NCBD formed a relatively weak complex (Kd∼5 µM). At the time of the first vertebrate-specific whole genome duplication, the affinity had increased (Kd∼200 nM) and was maintained in further speciation. Experiments together with molecular modeling using NMR chemical shifts suggest that new interactions involving intrinsically disordered proteins may evolve via a low-affinity complex which is optimized by modulating direct interactions as well as dynamics, while tolerating several potentially disruptive mutations. DOI: http://dx.doi.org/10.7554/eLife.16059.001 PMID:28398197

Bacteria-Phagocyte Interactions: Emerging Tactics in an Ancient Rivalry

DTIC Science & Technology

1990-01-01

afhitan. mechanisms by which microbes cvade the deposi- Mimicry of decay -accelerating factor aExample. T ’ruzi tion of immunogiobulin and complement on...their , Possible Isis of decay accelerating factor on host cell, surfaces have been well-studied (Table 2). For Example. Bacterial phospholipase example...activators of protein that mimics the action of decay accelerat- the alternate complement pathway 1171. ing factor (DAF) [261. This protein is part of a

Establishing the science foundation to sustain high-elevation five-needle pine forests threatened by novel interacting stresses in four western National Parks

Treesearch

A. W. Schoettle; J. Connor; J. Mack; P. Pineda Bovin; J. Beck; G. M. Baker; R. A. Sniezko; K. S. Burns

2013-01-01

High-elevation, five-needle white pines are among the most picturesque trees in many national parks as well as other federal, state, and private lands in western North America. These trees often live to a great age; the trees' gnarled trunks give testimony to fierce winds that buffet them on exposed rocky sites. Ancient limber pines (Pinus flexilis) in Rocky...

Interaction of Language, Culture and Cognition in Group Dynamics for Understanding the Adversary

DTIC Science & Technology

2010-07-01

is particularly evident in noun class b. described above, which mixes women with what European cultures would classify as “inanimate” entities, as...languages emerge gradually from an ancient -root prototypical language. For example, when modern Italian and modern French emerged (and diverged) from...Rather, CGT relates to what an individual might conceptualize as ingroup and outgroup in a given context. In CGT, two kinds of groups are defined

Establishing the science foundation to sustain high-elevation five-needle pine forests threatened by novel interacting stresses in four western National Parks [Proceedings

Treesearch

A. W. Schoettle; Jeff Connor; John Mack; Phyllis Pineda Bovin; Jen Beck; Gretchen Baker; R. A. Sniezko; K. S. Burns

2014-01-01

High-elevation five-needle white pines are among the most picturesque trees in many national parks, as well as other federal, state, and private lands in western North America. These trees often live to great ages; the trees' gnarled trunks give testimony to fierce winds that buffet them on exposed rocky sites. Ancient limber pines (Pinus flexilis) in Rocky...

Apps for Ancient Civilizations

ERIC Educational Resources Information Center

Thompson, Stephanie

2011-01-01

This project incorporates technology and a historical emphasis on science drawn from ancient civilizations to promote a greater understanding of conceptual science. In the Apps for Ancient Civilizations project, students investigate an ancient culture to discover how people might have used science and math smartphone apps to make their lives…

Assessing the Relationship of Ancient and Modern Populations

PubMed Central

Schraiber, Joshua G.

2018-01-01

Genetic material sequenced from ancient samples is revolutionizing our understanding of the recent evolutionary past. However, ancient DNA is often degraded, resulting in low coverage, error-prone sequencing. Several solutions exist to this problem, ranging from simple approach, such as selecting a read at random for each site, to more complicated approaches involving genotype likelihoods. In this work, we present a novel method for assessing the relationship of an ancient sample with a modern population, while accounting for sequencing error and postmortem damage by analyzing raw reads from multiple ancient individuals simultaneously. We show that, when analyzing SNP data, it is better to sequence more ancient samples to low coverage: two samples sequenced to 0.5× coverage provide better resolution than a single sample sequenced to 2× coverage. We also examined the power to detect whether an ancient sample is directly ancestral to a modern population, finding that, with even a few high coverage individuals, even ancient samples that are very slightly diverged from the modern population can be detected with ease. When we applied our approach to European samples, we found that no ancient samples represent direct ancestors of modern Europeans. We also found that, as shown previously, the most ancient Europeans appear to have had the smallest effective population sizes, indicating a role for agriculture in modern population growth. PMID:29167200

Bird and bat predation services in tropical forests and agroforestry landscapes.

PubMed

Maas, Bea; Karp, Daniel S; Bumrungsri, Sara; Darras, Kevin; Gonthier, David; Huang, Joe C-C; Lindell, Catherine A; Maine, Josiah J; Mestre, Laia; Michel, Nicole L; Morrison, Emily B; Perfecto, Ivette; Philpott, Stacy M; Şekercioğlu, Çagan H; Silva, Roberta M; Taylor, Peter J; Tscharntke, Teja; Van Bael, Sunshine A; Whelan, Christopher J; Williams-Guillén, Kimberly

2016-11-01

Understanding distribution patterns and multitrophic interactions is critical for managing bat- and bird-mediated ecosystem services such as the suppression of pest and non-pest arthropods. Despite the ecological and economic importance of bats and birds in tropical forests, agroforestry systems, and agricultural systems mixed with natural forest, a systematic review of their impact is still missing. A growing number of bird and bat exclosure experiments has improved our knowledge allowing new conclusions regarding their roles in food webs and associated ecosystem services. Here, we review the distribution patterns of insectivorous birds and bats, their local and landscape drivers, and their effects on trophic cascades in tropical ecosystems. We report that for birds but not bats community composition and relative importance of functional groups changes conspicuously from forests to habitats including both agricultural areas and forests, here termed 'forest-agri' habitats, with reduced representation of insectivores in the latter. In contrast to previous theory regarding trophic cascade strength, we find that birds and bats reduce the density and biomass of arthropods in the tropics with effect sizes similar to those in temperate and boreal communities. The relative importance of birds versus bats in regulating pest abundances varies with season, geography and management. Birds and bats may even suppress tropical arthropod outbreaks, although positive effects on plant growth are not always reported. As both bats and birds are major agents of pest suppression, a better understanding of the local and landscape factors driving the variability of their impact is needed. © 2015 Cambridge Philosophical Society.

Evolutionary Proteomics Uncovers Ancient Associations of Cilia with Signaling Pathways.

PubMed

Sigg, Monika Abedin; Menchen, Tabea; Lee, Chanjae; Johnson, Jeffery; Jungnickel, Melissa K; Choksi, Semil P; Garcia, Galo; Busengdal, Henriette; Dougherty, Gerard W; Pennekamp, Petra; Werner, Claudius; Rentzsch, Fabian; Florman, Harvey M; Krogan, Nevan; Wallingford, John B; Omran, Heymut; Reiter, Jeremy F

2017-12-18

Cilia are organelles specialized for movement and signaling. To infer when during evolution signaling pathways became associated with cilia, we characterized the proteomes of cilia from sea urchins, sea anemones, and choanoflagellates. We identified 437 high-confidence ciliary candidate proteins conserved in mammals and discovered that Hedgehog and G-protein-coupled receptor pathways were linked to cilia before the origin of bilateria and transient receptor potential (TRP) channels before the origin of animals. We demonstrated that candidates not previously implicated in ciliary biology localized to cilia and further investigated ENKUR, a TRP channel-interacting protein identified in the cilia of all three organisms. ENKUR localizes to motile cilia and is required for patterning the left-right axis in vertebrates. Moreover, mutation of ENKUR causes situs inversus in humans. Thus, proteomic profiling of cilia from diverse eukaryotes defines a conserved ciliary proteome, reveals ancient connections to signaling, and uncovers a ciliary protein that underlies development and human disease. Copyright © 2017 Elsevier Inc. All rights reserved.

Kinetics of oil saponification by lead salts in ancient preparations of pharmaceutical lead plasters and painting lead mediums.

PubMed

Cotte, M; Checroun, E; Susini, J; Dumas, P; Tchoreloff, P; Besnard, M; Walter, Ph

2006-12-15

Lead soaps can be found in archaeological cosmetics as well as in oil paintings, as product of interactions of lead salts with oil. In this context, a better understanding of the formation of lead soaps allows a follow-up of the historical evolution of preparation recipes and provides new insights into conservation conditions. First, ancient recipes of both pharmaceutical lead plasters and painting lead mediums, mixtures of oil and lead salts, were reconstructed. The ester saponification by lead salts is determined by the preparation parameters which were quantified by FT-IR spectrometry. In particular, ATR/FT-IR spectrometer was calibrated by the standard addition method to quantitatively follow the kinetics of this reaction. The influence of different parameters such as temperature, presence of water and choice of lead salts was assessed: the saponification is clearly accelerated by water and heating. This analysis provides chemical explanations to the historical evolution of cosmetic and painting preparation recipes.

Three ancient hormonal cues co-ordinate shoot branching in a moss

PubMed Central

Coudert, Yoan; Palubicki, Wojtek; Ljung, Karin; Novak, Ondrej; Leyser, Ottoline; Harrison, C Jill

2015-01-01

Shoot branching is a primary contributor to plant architecture, evolving independently in flowering plant sporophytes and moss gametophytes. Mechanistic understanding of branching is largely limited to flowering plants such as Arabidopsis, which have a recent evolutionary origin. We show that in gametophytic shoots of Physcomitrella, lateral branches arise by re-specification of epidermal cells into branch initials. A simple model co-ordinating the activity of leafy shoot tips can account for branching patterns, and three known and ancient hormonal regulators of sporophytic branching interact to generate the branching pattern- auxin, cytokinin and strigolactone. The mode of auxin transport required in branch patterning is a key divergence point from known sporophytic pathways. Although PIN-mediated basipetal auxin transport regulates branching patterns in flowering plants, this is not so in Physcomitrella, where bi-directional transport is required to generate realistic branching patterns. Experiments with callose synthesis inhibitors suggest plasmodesmal connectivity as a potential mechanism for transport. DOI: http://dx.doi.org/10.7554/eLife.06808.001 PMID:25806686

Late Neolithic phytolith and charcoal records of human activities and vegetation change in Shijiahe culture, Tanjialing site, China

PubMed Central

Zhu, Xiao Hong; Li, Bing; Ma, Chun Mei; Zhu, Cheng; Wu, Li; Liu, Hui

2017-01-01

There is significant archaeological evidence marking the collapse of the Shijiahe culture in the middle reaches of the Yangtze River in China during the late Neolithic Period. However, the causes for this cultural collapse remain unclear. Our sedimentary records from a 3.3 m long profile and 76 phytolith and charcoal samples from the Tanjialing archaeological sites provide records of interactions between an ancient culture and vegetation change. During the early Shijiahe culture (c, 4850–4400 cal BP), the climate was warm and humid. Fire was intensively used to clear the vegetation. In the mid-period of the Shijiahe culture (c, 4400–4200 cal BP), the climate became slightly dry-cold and this was accompanied by decreasing water, leading to settlements. From c, 4200 cal BP, severe drought eroded the economic foundation of rice-cultivation. These conditions forced people to abandon the Shijiahe ancient city to find water in other regions, leading to the collapse of the Shijiahe culture. PMID:28542219

Late Neolithic phytolith and charcoal records of human activities and vegetation change in Shijiahe culture, Tanjialing site, China.

PubMed

Zhu, Xiao Hong; Li, Bing; Ma, Chun Mei; Zhu, Cheng; Wu, Li; Liu, Hui

2017-01-01

There is significant archaeological evidence marking the collapse of the Shijiahe culture in the middle reaches of the Yangtze River in China during the late Neolithic Period. However, the causes for this cultural collapse remain unclear. Our sedimentary records from a 3.3 m long profile and 76 phytolith and charcoal samples from the Tanjialing archaeological sites provide records of interactions between an ancient culture and vegetation change. During the early Shijiahe culture (c, 4850-4400 cal BP), the climate was warm and humid. Fire was intensively used to clear the vegetation. In the mid-period of the Shijiahe culture (c, 4400-4200 cal BP), the climate became slightly dry-cold and this was accompanied by decreasing water, leading to settlements. From c, 4200 cal BP, severe drought eroded the economic foundation of rice-cultivation. These conditions forced people to abandon the Shijiahe ancient city to find water in other regions, leading to the collapse of the Shijiahe culture.

An Evaluation of the Historical Importance of Fertility and Its Reflection in Ancient Mythology

PubMed Central

Behjati-Ardakani, Zohreh; Akhondi, Mohammad Mehdi; Mahmoodzadeh, Homa; Hosseini, Seyed Hasan

2016-01-01

Myths are reflective of human concerns and needs during ancient times. By reviewing them, it turns out that many human problems today, have a historical background. Among the main themes of ancient mythologies, fertility and reproduction have various representations in ancient civilizations. The purpose of this paper was to review myths and common symbols of fertility and reproduction in ancient civilizations and evaluate the reasons of their continuous importance in different cultures. The data in this review study was obtained by scrutinizing the related literature. The gathered data indicated the multiplicity and variety of fertility symbols in ancient myths. Most ancient fertility symbols were inspired by the nature and some of them like earth and water were common in mythology of different civilizations. Therefore, the symbols consolidate the concept of conformity between human reproductive concerns and the nature's necessities. PMID:26962477

Design and development of an ancient Chinese document recognition system

NASA Astrophysics Data System (ADS)

Peng, Liangrui; Xiu, Pingping; Ding, Xiaoqing

2003-12-01

The digitization of ancient Chinese documents presents new challenges to OCR (Optical Character Recognition) research field due to the large character set of ancient Chinese characters, variant font types, and versatile document layout styles, as these documents are historical reflections to the thousands of years of Chinese civilization. After analyzing the general characteristics of ancient Chinese documents, we present a solution for recognition of ancient Chinese documents with regular font-types and layout-styles. Based on the previous work on multilingual OCR in TH-OCR system, we focus on the design and development of two key technologies which include character recognition and page segmentation. Experimental results show that the developed character recognition kernel of 19,635 Chinese characters outperforms our original traditional Chinese recognition kernel; Benchmarked test on printed ancient Chinese books proves that the proposed system is effective for regular ancient Chinese documents.

Reassessing the Ancient Martian Ocean Hypothesis using Global Distribution of Valley Networks

NASA Astrophysics Data System (ADS)

Chan, Ngai-Ham; Perron, J. Taylor; Mitrovica, Jerry X.

2016-04-01

We re-examine the connection between true polar wander and the Martian ocean hypothesis. Previous studies have investigated the plausibility of an ancient ocean on Mars by examining the ancient putative sea-level markers on the planet's surface. One such study has argued that topographic benches, or contacts, are ancient shorelines, and that these contacts display long-wavelength topographic variations consistent with post-depositional true polar wander (Perron et al., Nature, 2007). In contrast, a second study has argued that the topography of ancient deltaic deposits associated with an ocean on early Mars are not consistent with the true polar wander scenario (Achille & Hynek, Nature Geosci., 2010). We revisit this issue by examining another marker of ancient shorelines --- the fluvial valley networks observed on the surface of Mars. Our results provide further evidence that a true polar wander event drove significant post-depositional deflection of surface features related to an ancient Martian ocean.

Reassessing the Ancient Martian Ocean Hypothesis using Global Distribution of Valley Networks

NASA Astrophysics Data System (ADS)

Chan, N. H.; Perron, J. T.; Mitrovica, J. X.

2015-12-01

We re-examine the connection between true polar wander and the Martian ocean hypothesis. Previous studies have investigated the plausibility of an ancient ocean on Mars by examining the topography of ancient putative sea-level markers on the planet's surface. A previous study has argued that topographic benches, or contacts, are ancient shorelines, and that these contacts display long-wavelength topographic variations consistent with post-depositional true polar wander (Perron et al., Nature, 2007). In contrast, a second study has argued that the topography of ancient deltaic deposits associated with an ocean on early Mars are not consistent with the true polar wander scenario (Achille & Hynek, Nature Geosci., 2010). We revisit this issue by examining another marker of ancient shorelines --- the fluvial valley networks observed on the surface of Mars. Our results provide further evidence that a true polar wander event drove significant post-depositional deflection of surface features related to an ancient Martian ocean.

An Evaluation of the Historical Importance of Fertility and Its Reflection in Ancient Mythology.

PubMed

Behjati-Ardakani, Zohreh; Akhondi, Mohammad Mehdi; Mahmoodzadeh, Homa; Hosseini, Seyed Hasan

2016-01-01

Myths are reflective of human concerns and needs during ancient times. By reviewing them, it turns out that many human problems today, have a historical background. Among the main themes of ancient mythologies, fertility and reproduction have various representations in ancient civilizations. The purpose of this paper was to review myths and common symbols of fertility and reproduction in ancient civilizations and evaluate the reasons of their continuous importance in different cultures. The data in this review study was obtained by scrutinizing the related literature. The gathered data indicated the multiplicity and variety of fertility symbols in ancient myths. Most ancient fertility symbols were inspired by the nature and some of them like earth and water were common in mythology of different civilizations. Therefore, the symbols consolidate the concept of conformity between human reproductive concerns and the nature's necessities.

The thyroid gland in ancient Greece: a historical perspective.

PubMed

Konstantinidou, Sevasti; Konstantinidou, Eirini

2018-06-19

Thyroidology is a discipline of Endocrinology which has evolved markedly over the past few decades. However, its historical roots can be seen in the literature of, among others, ancient Greek medicine. In the present article, we present the descriptions of the thyroid gland by ancient Greek physicians and its depiction in ancient Greek art.

78 FR 26682 - Culturally Significant Objects Imported for Exhibition Determinations: “Hall of Ancient Egypt”

Federal Register 2010, 2011, 2012, 2013, 2014

2013-05-07

... Determinations: ``Hall of Ancient Egypt'' AGENCY: Department of State. ACTION: Notice, correction. SUMMARY: On... determinations made by the Department of State pertaining to the exhibition ``Hall of Ancient Egypt.'' The... additional objects to be included in the exhibition ``Hall of Ancient Egypt,'' imported from abroad for...

The Ancient Kemetic Roots of Library and Information Science.

ERIC Educational Resources Information Center

Zulu, Itibari M.

This paper argues that the ancient people of Kemet (Egypt), "the black land," built and operated the first major libraries and institutions of higher education in the world. Topics of discussion include the Ancient Egyptians as an African people; a chronology of Ancient Kemet; literature in Kemet; a history of Egyptian Librarianship; the…

Public Engagement for the U.S. Rosetta Project using Interactive Multimedia

NASA Astrophysics Data System (ADS)

Smith, H.; Graham, S.; Alexander, C. J.

2009-12-01

The U.S. Rosetta Project is NASA contribution to the International Rosetta Mission. The mission is a long-duration mission to explore a comet and escort the nucleus from deep space around the Sun and for a portion of its outbound trajectory. The Rosetta stone, the symbol of the mission, is the inspiration for the mission’s name. As stated on by the European Space Agency, Rosetta is expected to provide the keys to the primordial solar system the way the original Rosetta Stone provided a key to ancient language. Four interactives serve as key components of the website portion of the project's public engagement efforts. This first is a presentation of the mission timeline using an interactive that resembles an iTunes front page. The second is a presentation of the space between Earth (Jupiter) and the next star (Proxima Centauri), in which the comet home of the Kuiper Belt with several of the planet-sized object embedded there, the Heliosphere, the comet home of the Oort Cloud, and other interstellar clouds are presented. The third is a presentation of ancient languages (still under development) - space terminology translated into Native American languages as part of the project's outreach to the Native American community. In the fourth interactive we have taken the relatively sophisticated scientific comet environment model, one that was produced on a super computer, and worked the output into 'representations' of how a comet changes as it moves around the Sun, with definitions of the scientific regions that evolve. Still under development, this interactive is expected to be a key component of explaining to the public what the instruments expect to measure and encounter as the target changes in time. A fifth animated component is addressed to informal education with younger audience members in the form of cartoon characters and their adventures on a comet. In this talk we will showcase these pieces and discuss how these interactives are intended for teaching and learning in (mostly informal) education. Work at the Jet Propulsion Laboratory, California Institute of Technology, was supported by NASA. The Rosetta mission is a cooperative project of NASA and the European Space Agency.

The case of the Egyptian mummy head.

PubMed

Singarella, T

1986-01-01

This article describes how biocommunicators became an integral part of an interdisciplinary team of health sciences professionals charged with learning more about an ancient Egyptian mummy head. Presented and discussed are events and activities concerning the discovery of a 2,000 year old mummy head, the development and interactions of the interdisciplinary team, and the involvement of biocommunicators and their efforts to research and reconstruct through airbrush illustrations how the mummy head would have appeared prior to mummification.

Cardiorespiratory interactions previously identified as mammalian are present in the primitive lungfish

PubMed Central

Monteiro, Diana A.; Taylor, Edwin W.; Sartori, Marina R.; Cruz, André L.; Rantin, Francisco T.; Leite, Cleo A. C.

2018-01-01

The present study has revealed that the lungfish has both structural and functional features of its system for physiological control of heart rate, previously considered solely mammalian, that together generate variability (HRV). Ultrastructural and electrophysiological investigation revealed that the nerves connecting the brain to the heart are myelinated, conferring rapid conduction velocities, comparable to mammalian fibers that generate instantaneous changes in heart rate at the onset of each air breath. These respiration-related changes in beat-to-beat cardiac intervals were detected by complex analysis of HRV and shown to maximize oxygen uptake per breath, a causal relationship never conclusively demonstrated in mammals. Cardiac vagal preganglionic neurons, responsible for controlling heart rate via the parasympathetic vagus nerve, were shown to have multiple locations, chiefly within the dorsal vagal motor nucleus that may enable interactive control of the circulatory and respiratory systems, similar to that described for tetrapods. The present illustration of an apparently highly evolved control system for HRV in a fish with a proven ancient lineage, based on paleontological, morphological, and recent genetic evidence, questions much of the anthropocentric thinking implied by some mammalian physiologists and encouraged by many psychobiologists. It is possible that some characteristics of mammalian respiratory sinus arrhythmia, for which functional roles have been sought, are evolutionary relics that had their physiological role defined in ancient representatives of the vertebrates with undivided circulatory systems. PMID:29507882

Rhizobium–legume symbiosis shares an exocytotic pathway required for arbuscule formation

PubMed Central

Ivanov, Sergey; Fedorova, Elena E.; Limpens, Erik; De Mita, Stephane; Genre, Andrea; Bonfante, Paola; Bisseling, Ton

2012-01-01

Endosymbiotic interactions are characterized by the formation of specialized membrane compartments, by the host in which the microbes are hosted, in an intracellular manner. Two well-studied examples, which are of major agricultural and ecological importance, are the widespread arbuscular mycorrhizal symbiosis and the Rhizobium–legume symbiosis. In both symbioses, the specialized host membrane that surrounds the microbes forms a symbiotic interface, which facilitates the exchange of, for example, nutrients in a controlled manner and, therefore, forms the heart of endosymbiosis. Despite their key importance, the molecular and cellular mechanisms underlying the formation of these membrane interfaces are largely unknown. Recent studies strongly suggest that the Rhizobium–legume symbiosis coopted a signaling pathway, including receptor, from the more ancient arbuscular mycorrhizal symbiosis to form a symbiotic interface. Here, we show that two highly homologous exocytotic vesicle-associated membrane proteins (VAMPs) are required for formation of the symbiotic membrane interface in both interactions. Silencing of these Medicago VAMP72 genes has a minor effect on nonsymbiotic plant development and nodule formation. However, it blocks symbiosome as well as arbuscule formation, whereas root colonization by the microbes is not affected. Identification of these VAMP72s as common symbiotic regulators in exocytotic vesicle trafficking suggests that the ancient exocytotic pathway forming the periarbuscular membrane compartment has also been coopted in the Rhizobium–legume symbiosis. PMID:22566631

Human-flood interactions in Rome over the past 150 years

NASA Astrophysics Data System (ADS)

Di Baldassarre, Giuliano; Saccà, Smeralda; Tito Aronica, Giuseppe; Grimaldi, Salvatore; Ciullo, Alessio; Crisci, Massimiliano

2017-02-01

Throughout history, the socio-economic development of the city of Rome has been intertwined with the magnitude and frequency of flooding events from the Tiber, one of Italy's largest rivers. Ancient Rome mostly developed on the hills, while the Tiber's floodplain was mainly exploited for agricultural purposes. A few small communities did settle in the riparian areas of the Tiber, but they had a relatively peaceful relationship with the frequent occurrence of flooding events. Instead, numerous people live nowadays in modern districts in the Tiber's floodplain, unaware of their exposure to potentially catastrophic flooding. This research work aims to explore the dynamics of changing flood risk between these two opposite pictures of ancient and contemporary Rome. To this end, we carried out a socio-hydrological study by using long time series of hydrological (extreme flood events) and social (human population dynamics) processes, along with information about human interactions with the environment (flood defence structures). The historical analysis showed how human and water systems have been co-evolving over time, while being abruptly altered by the occurrence of an extreme flood event in 1870, just before Rome became the capital of a recently unified Italy. The outcomes of this study were then compared to the results of a socio-hydrological model simulating the dynamics emerging from the mutual shaping of floods and societies.

Cardiorespiratory interactions previously identified as mammalian are present in the primitive lungfish.

PubMed

Monteiro, Diana A; Taylor, Edwin W; Sartori, Marina R; Cruz, André L; Rantin, Francisco T; Leite, Cleo A C

2018-02-01

The present study has revealed that the lungfish has both structural and functional features of its system for physiological control of heart rate, previously considered solely mammalian, that together generate variability (HRV). Ultrastructural and electrophysiological investigation revealed that the nerves connecting the brain to the heart are myelinated, conferring rapid conduction velocities, comparable to mammalian fibers that generate instantaneous changes in heart rate at the onset of each air breath. These respiration-related changes in beat-to-beat cardiac intervals were detected by complex analysis of HRV and shown to maximize oxygen uptake per breath, a causal relationship never conclusively demonstrated in mammals. Cardiac vagal preganglionic neurons, responsible for controlling heart rate via the parasympathetic vagus nerve, were shown to have multiple locations, chiefly within the dorsal vagal motor nucleus that may enable interactive control of the circulatory and respiratory systems, similar to that described for tetrapods. The present illustration of an apparently highly evolved control system for HRV in a fish with a proven ancient lineage, based on paleontological, morphological, and recent genetic evidence, questions much of the anthropocentric thinking implied by some mammalian physiologists and encouraged by many psychobiologists. It is possible that some characteristics of mammalian respiratory sinus arrhythmia, for which functional roles have been sought, are evolutionary relics that had their physiological role defined in ancient representatives of the vertebrates with undivided circulatory systems.

Conceptualizing socio-hydrological drought processes: the rise and fall of the Ancient Maya civilization

NASA Astrophysics Data System (ADS)

Kuil, Linda; Carr, Gemma; Viglione, Alberto; Prskawetz, Alexia; Bloeschl, Guenter

2016-04-01

Different communities have followed different paths to arrive at their present situation as a consequence of the continuous, specific interactions between the hydrological and social system. The need to understand the current and future pathways to water security becomes more and more pressing, considering the increasingly delicate balance between water demand and water supply. To contribute to addressing this challenge, we examine the link between water stress and society through socio-hydrological modeling. Within the spirit of the Easter Island model by Brander and Taylor and drawing from the vulnerability literature, we conceptualize the interactions of an agricultural society with its environment. We apply the model to the case of the ancient Maya, a civilization who occupied the Maya Lowlands (parts of present day Mexico, Guatemala, Belize) from around 2000 BC to after AD 830. The hypothesis that modest drought periods played a major role in the fall of the society is explored. We are able to simulate plausible feedbacks and find that a modest reduction in rainfall is a necessary, but not a sufficient condition in order to observe a collapse of 80 percent of the population. Equally important are actual population density and the impact of drought on crop growth. The model shows that reservoirs allow the society to grow larger, but also that the vulnerability to drought increases.

New long-proboscid lacewings of the mid-Cretaceous provide insights into ancient plant-pollinator interactions

PubMed Central

Lu, Xiu-Mei; Zhang, Wei-Wei; Liu, Xing-Yue

2016-01-01

Many insects with long-proboscid mouthparts are among the pollinators of seed plants. Several cases of the long-proboscid pollination mode are known between fossil insects (e.g., true flies, scorpionflies, and lacewings) and various extinct gymnosperm lineages, beginning in the Early Permian and increasing during the Middle Jurassic to Early Cretaceous. However, details on the morphology of lacewing proboscides and the relevant pollination habit are largely lacking. Here we report on three lacewing species that belong to two new genera and a described genus from mid-Cretaceous (Albian-Cenomanian) amber of Myanmar. All these species possess relatively long proboscides, which are considered to be modified from maxillary and labial elements, probably functioning as a temporary siphon for feeding on nectar. Remarkably, these proboscides range from 0.4–1.0 mm in length and are attributed to the most diminutive ones among the contemporary long-proboscid insect pollinators. Further, they clearly differ from other long-proboscid lacewings which have a much longer siphon. The phylogenetic analysis indicates that these Burmese long-proboscid lacewings belong to the superfamily Psychopsoidea but cannot be placed into any known family. The present findings represent the first description of the mouthparts of long-proboscid lacewings preserved in amber and highlight the evolutionary diversification of the ancient plant-pollinator interactions. PMID:27149436

Architecture of an Antagonistic Tree/Fungus Network: The Asymmetric Influence of Past Evolutionary History

PubMed Central

Vacher, Corinne; Piou, Dominique; Desprez-Loustau, Marie-Laure

2008-01-01

Background Compartmentalization and nestedness are common patterns in ecological networks. The aim of this study was to elucidate some of the processes shaping these patterns in a well resolved network of host/pathogen interactions. Methology/Principal Findings Based on a long-term (1972–2005) survey of forest health at the regional scale (all French forests; 15 million ha), we uncovered an almost fully connected network of 51 tree taxa and 157 parasitic fungal species. Our analyses revealed that the compartmentalization of the network maps out the ancient evolutionary history of seed plants, but not the ancient evolutionary history of fungal species. The very early divergence of the major fungal phyla may account for this asymmetric influence of past evolutionary history. Unlike compartmentalization, nestedness did not reflect any consistent phylogenetic signal. Instead, it seemed to reflect the ecological features of the current species, such as the relative abundance of tree species and the life-history strategies of fungal pathogens. We discussed how the evolution of host range in fungal species may account for the observed nested patterns. Conclusion/Significance Overall, our analyses emphasized how the current complexity of ecological networks results from the diversification of the species and their interactions over evolutionary times. They confirmed that the current architecture of ecological networks is not only dependant on recent ecological processes. PMID:18320058

Paleomicrobiology: a Snapshot of Ancient Microbes and Approaches to Forensic Microbiology

PubMed Central

RIVERA-PEREZ, JESSICA I.; SANTIAGO-RODRIGUEZ, TASHA M.; TORANZOS, GARY A.

2017-01-01

Paleomicrobiology, or the study of ancient microorganisms, has raised both fascination and skepticism for many years. While paleomicrobiology is not a recent field, the application of emerging techniques, such as DNA sequencing, is proving essential and has provided novel information regarding the evolution of viruses, antibiotic resistance, saprophytes, and pathogens, as well as ancient health and disease status, cultural customs, ethnic diets, and historical events. In this review, we highlight the importance of studying ancient microbial DNA, its contributions to current knowledge, and the role that forensic paleomicrobiology has played in deciphering historical enigmas. We also discuss the emerging techniques used to study the microbial composition of ancient samples as well as major concerns that accompany ancient DNA analyses. PMID:27726770

The Multitrophic Effects of Climate Change and Glacier Retreat in Mountain Rivers

PubMed Central

2017-01-01

Abstract Climate change is driving the thinning and retreat of many glaciers globally. Reductions of ice-melt inputs to mountain rivers are changing their physicochemical characteristics and, in turn, aquatic communities. Glacier-fed rivers can serve as model systems for investigations of climate-change effects on ecosystems because of their strong atmospheric–cryospheric links, high biodiversity of multiple taxonomic groups, and significant conservation interest concerning endemic species. From a synthesis of existing knowledge, we develop a new conceptual understanding of how reducing glacier cover affects organisms spanning multiple trophic groups. Although the response of macroinvertebrates to glacier retreat has been well described, we show that there remains a relative paucity of information for biofilm, microinvertebrate, and vertebrate taxa. Enhanced understanding of whole river food webs will improve the prediction of river-ecosystem responses to deglaciation while offering the potential to identify and protect a wider range of sensitive and threatened species. PMID:29599537

The Multitrophic Effects of Climate Change and Glacier Retreat in Mountain Rivers.

PubMed

Fell, Sarah C; Carrivick, Jonathan L; Brown, Lee E

2017-10-01

Climate change is driving the thinning and retreat of many glaciers globally. Reductions of ice-melt inputs to mountain rivers are changing their physicochemical characteristics and, in turn, aquatic communities. Glacier-fed rivers can serve as model systems for investigations of climate-change effects on ecosystems because of their strong atmospheric-cryospheric links, high biodiversity of multiple taxonomic groups, and significant conservation interest concerning endemic species. From a synthesis of existing knowledge, we develop a new conceptual understanding of how reducing glacier cover affects organisms spanning multiple trophic groups. Although the response of macroinvertebrates to glacier retreat has been well described, we show that there remains a relative paucity of information for biofilm, microinvertebrate, and vertebrate taxa. Enhanced understanding of whole river food webs will improve the prediction of river-ecosystem responses to deglaciation while offering the potential to identify and protect a wider range of sensitive and threatened species.

Ancient Rome: The Latin Teacher and Life in the Big City.

ERIC Educational Resources Information Center

Ramage, Edwin S.

This paper attempts to answer the question of what life was really like in ancient Rome, with a view to using this kind of information as cultural background for teaching Latin language and literature. There were many problems associated with daily living in ancient Rome. Writings of some inhabitants of ancient Rome attest to the fact that these…

Legacy of the Ancient World: An Educational Guide. Understanding Ancient Culture through Art at the Tampa Museum of Art.

ERIC Educational Resources Information Center

Whitelaw, R. Lynn

Among the many contributions made by Ancient Greeks and Romans to contemporary life, are those which influence art, architecture, literature, philosophy, mathematics and science, theater, athletics, religion, and the founding of democracy. The Tampa Museum of Art's classical collection offers a unique opportunity to learn about Ancient Greeks and…

Re-discovering ancient wheat varieties as functional foods.

PubMed

Cooper, Raymond

2015-07-01

With the gluten-free food market worth almost $1.6 bn in 2011, there is every reason for renewed interest in ancient grains. This resurgent interest is expressed in re-discovering ancient varieties as functional foods. In particular, people affected by celiac disease have to avoid all gluten in their diet and several ancient grains may offer an important alternative.

Mapping the Ancient Maya Landscape from Space

NASA Technical Reports Server (NTRS)

Sever, Tom

2003-01-01

This project uses new satellite and airborne imagery in combination with remote sensing, GIS, and GPS technology to understand the dynamics of how the Maya successfully interacted with their karst topographic landscape for several centuries in the northern Peten region of Guatemala. The ancient Maya attained one of the greatest population densities in human history in the tropical forest of the Peten, Guatemala, and it was in this region that the Maya civilization began, flourished, and abruptly disappeared for unknown reasons around AD 800. How the Maya were able to successfully manage water and feed this dense population is not known at this time. However, a recent NASA-funded project was the first to investigate large seasonal swamps (bajos) that make up 40 percent of the landscape. Through the use of remote sensing, ancient Maya features such as cities, roadways, canals and water reservoirs have been detected and verified through ground reconnaissance. The results of this research cast new light on the adaptation of the ancient Maya to their environment. Micro-environmental variation within the wetlands was elucidated and the different vegetational associations identified in the satellite imagery. More than 70 new archeological sites within and at the edges of the bajo were mapped and tested. Modification of the landscape by the Maya in the form of dams and reservoirs in the Holmul River and its tributaries and possible drainage canals in bajos was demonstrated. The recent acquisition of one-meter IKONOS imagery and high resolution STAR-3i radar imagery (2.5m backscatter/ 10m DEM), opens new possibilities for understanding how a civilization was able to survive for centuries upon a karst topographic landscape and their human-induced effects upon the local climate. This understanding is critical for the current population that is presently experiencing rapid population growth and destroying the landscape through non-traditional farming and grazing techniques, resulting in socioeconomic problems.

Ancient sedimentary structures in the <3.7 Ga Gillespie Lake Member, Mars, that resemble macroscopic morphology, spatial associations, and temporal succession in terrestrial microbialites.

PubMed

Noffke, Nora

2015-02-01

Sandstone beds of the <3.7 Ga Gillespie Lake Member on Mars have been interpreted as evidence of an ancient playa lake environment. On Earth, such environments have been sites of colonization by microbial mats from the early Archean to the present time. Terrestrial microbial mats in playa lake environments form microbialites known as microbially induced sedimentary structures (MISS). On Mars, three lithofacies of the Gillespie Lake Member sandstone display centimeter- to meter-scale structures similar in macroscopic morphology to terrestrial MISS that include "erosional remnants and pockets," "mat chips," "roll-ups," "desiccation cracks," and "gas domes." The microbially induced sedimentary-like structures identified in Curiosity rover mission images do not have a random distribution. Rather, they were found to be arranged in spatial associations and temporal successions that indicate they changed over time. On Earth, if such MISS occurred with this type of spatial association and temporal succession, they would be interpreted as having recorded the growth of a microbially dominated ecosystem that thrived in pools that later dried completely: erosional pockets, mat chips, and roll-ups resulted from water eroding an ancient microbial mat-covered sedimentary surface; during the course of subsequent water recess, channels would have cut deep into the microbial mats, leaving erosional remnants behind; desiccation cracks and gas domes would have occurred during a final period of subaerial exposure of the microbial mats. In this paper, the similarities of the macroscopic morphologies, spatial associations, and temporal succession of sedimentary structures on Mars to MISS preserved on Earth has led to the following hypothesis: The sedimentary structures in the <3.7 Ga Gillespie Lake Member on Mars are ancient MISS produced by interactions between microbial mats and their environment. Proposed here is a strategy for detecting, identifying, confirming, and differentiating possible MISS during current and future Mars missions.

Medicine and psychiatry in Western culture: Ancient Greek myths and modern prejudices

PubMed Central

Fornaro, Michele; Clementi, Nicoletta; Fornaro, Pantaleo

2009-01-01

The origins of Western culture extensively relate to Ancient Greek culture. While many ancient cultures have contributed to our current knowledge about medicine and the origins of psychiatry, the Ancient Greeks were among the best observers of feelings and moods patients expressed towards medicine and toward what today is referred to as 'psychopathology'. Myths and religious references were used to explain what was otherwise impossible to understand or be easily communicated. Most ancient myths focus on ambiguous feelings patients may have had towards drugs, especially psychotropic ones. Interestingly, such prejudices are common even today. Recalling ancient findings and descriptions made using myths could represent a valuable knowledge base for modern physicians, especially for psychiatrists and their patients, with the aim of better understanding each other and therefore achieving a better clinical outcome. This paper explores many human aspects and feelings towards doctors and their cures, referring to ancient myths and focusing on the perception of mental illness. PMID:19811642

Cardiovascular benefits from ancient grain bread consumption: findings from a double-blinded randomized crossover intervention trial.

PubMed

Sereni, Alice; Cesari, Francesca; Gori, Anna Maria; Maggini, Niccolò; Marcucci, Rossella; Casini, Alessandro; Sofi, Francesco

2017-02-01

Ancient grain varieties have been shown to have some beneficial effects on health. Forty-five clinically healthy subjects were included in a randomized, double-blinded crossover trial aimed at evaluating the effect of a replacement diet with bread derived from ancient grain varieties versus modern grain variety on cardiovascular risk profile. After 8 weeks of intervention, consumption of bread obtained by the ancient varieties showed a significant amelioration of various cardiovascular parameters. Indeed, the ancient varieties were shown to result in a significant reduction of total cholesterol, low-density lipoprotein (LDL)-cholesterol and blood glucose, whereas no significant differences during the phase with the modern variety were reported. Moreover, a significant increase in circulating endothelial progenitor cells were reported after the consumption of products made from the ancient "Verna" variety. The present results suggest that a dietary consumption of bread obtained from ancient grain varieties was effective in reducing cardiovascular risk factors.

Tamil merchant in ancient Mesopotamia.

PubMed

Palanichamy, Malliya Gounder; Mitra, Bikash; Debnath, Monojit; Agrawal, Suraksha; Chaudhuri, Tapas Kumar; Zhang, Ya-Ping

2014-01-01

Recent analyses of ancient Mesopotamian mitochondrial genomes have suggested a genetic link between the Indian subcontinent and Mesopotamian civilization. There is no consensus on the origin of the ancient Mesopotamians. They may be descendants of migrants, who founded regional Mesopotamian groups like that of Terqa or they may be merchants who were involved in trans Mesopotamia trade. To identify the Indian source population showing linkage to the ancient Mesopotamians, we screened a total of 15,751 mitochondrial DNAs (11,432 from the literature and 4,319 from this study) representing all major populations of India. Our results although suggest that south India (Tamil Nadu) and northeast India served as the source of the ancient Mesopotamian mtDNA gene pool, mtDNA of these ancient Mesopotamians probably contributed by Tamil merchants who were involved in the Indo-Roman trade.

The Limits of Life in the Deep Subsurface - Implications for the Origin of Life

NASA Astrophysics Data System (ADS)

Baross, John

2013-06-01

There are very few environments on Earth where life is absent. Microbial life has proliferated into habitats that span nearly every imaginable physico-chemical variable. Only the availability of liquid water and temperature are known to prevent the growth of organisms. The other extreme physical and chemical variables, such as pH, pressure, high concentrations of solutes, damaging radiation, and toxic metals, are life-prohibiting factors for most organisms but not for all. The deep subsurface environments span all of the extreme conditions encountered by life including habitat conditions not yet explored, such as those that combine high temperature, high and low pH and extreme pressures. Some of the ``extremophile'' microorganisms inhabiting the deep subsurface environments have been shown to be among the most ``ancient'' of extant life. Their genomes and physiologies have led to a broader understanding of the geological settings of early life, the most ancient energy pathways, and the importance of water/rock interactions and tectonics in the origin and early evolution of life. The case can now be made that deep subsurface environments contributed to life's origin and provided the habitat(s) for the earliest microbial communities. However, there is much more to be done to further our understanding on the role of moderate to high pressures and temperatures on the chemical and biochemical ``steps'' leading to life, and on the evolution and physiology of both ancient and present-day subsurface microbial communities.

Leishmania tarentolae molecular signatures in a 300 hundred-years-old human Brazilian mummy.

PubMed

Novo, Shênia P C; Leles, Daniela; Bianucci, Raffaella; Araujo, Adauto

2015-02-04

L. tarentolae, the lizard-infecting species of Old World geckos, has been classified as non-pathogenic to man. While it has been demonstrated that L. tarentolae is capable of infecting human phagocytic cells and to differentiate into amastigote-like forms, there is no clear evidence for its efficient replication within macrophages. Here we provide first evidence for L. tarentolae ancient DNA sequences from bone marrow and intestines of a 300yo adult male. We identified molecular signatures of Leishmania tarentolae, the lizard-infecting species of Old World geckos, in hard and soft tissue biopsies from a Brazilian mummy (A74) uncovered in Itacambira (Brazil) and dating to the Colonial Period (end of 18th/beginning of the 19th century). Our results imply that efficient replication of the parasite occurred within human macrophage and to lead to a systemic spread and visceralization in this individual. The ancient sequences show a 100% similarity with those of isolated L. tarentolae parasites grown on artificial nutrient media and a 99% similarity with two modern sequences isolated from reptiles. De facto, our findings re-open the debate about the potential survival of ancient L. tarentolae strain within human macrophage and its ability to spread systemically. They also raise ecological issues since it is unknown whether this parasite circulates in the reptilian reservoir in modern day Brazil or not. Investigations on fossil fauna and arthropods are needed to shed light on the interactions between saurian Leishmania and lizards in Brazil's remote and recent past.

Studies in Continuity and Change: A Comparative Study of the Mother Goddess in Ancient India and Ancient Egypt.

ERIC Educational Resources Information Center

Hardiman, W. J.

Visiting the Temple of Kali in Calcutta, India, one understands the importance of an Afro-centric methodology in describing the complex nature of the Mother Goddess in ancient India. Discoveries of ancient female figurines indicate an early Indian concept of the female role in the creation of civilization and culture and of the notion of the…

Research of Ancient Architectures in Jin-Fen Area Based on GIS&BIM Technology

NASA Astrophysics Data System (ADS)

Jia, Jing; Zheng, Qiuhong; Gao, Huiying; Sun, Hai

2017-05-01

The number of well-preserved ancient buildings located in Shanxi Province, enjoying the absolute maximum proportion of ancient architectures in China, is about 18418, among which, 9053 buildings have the structural style of wood frame. The value of the application of BIM (Building Information Modeling) and GIS (Geographic Information System) is gradually probed and testified in the corresponding fields of ancient architecture’s spatial distribution information management, routine maintenance and special conservation & restoration, the evaluation and simulation of related disasters, such as earthquake. The research objects are ancient architectures in JIN-FEN area, which were first investigated by Sicheng LIANG and recorded in his work of “Chinese ancient architectures survey report”. The research objects, i.e. the ancient architectures in Jin-Fen area include those in Sicheng LIANG’s investigation, and further adjustments were made through authors’ on-site investigation and literature searching & collection. During this research process, the spatial distributing Geodatabase of research objects is established utilizing GIS. The BIM components library for ancient buildings is formed combining on-site investigation data and precedent classic works, such as “Yingzao Fashi”, a treatise on architectural methods in Song Dynasty, “Yongle Encyclopedia” and “Gongcheng Zuofa Zeli”, case collections of engineering practice, by the Ministry of Construction of Qing Dynasty. A building of Guangsheng temple in Hongtong county is selected as an example to elaborate the BIM model construction process based on the BIM components library for ancient buildings. Based on the foregoing work results of spatial distribution data, attribute data of features, 3D graphic information and parametric building information model, the information management system for ancient architectures in Jin-Fen Area, utilizing GIS&BIM technology, could be constructed to support the further research of seismic disaster analysis and seismic performance simulation.

Gastropod diversification and community structuring processes in ancient Lake Ohrid: a metacommunity speciation perspective

NASA Astrophysics Data System (ADS)

Hauffe, T.; Albrecht, C.; Wilke, T.

2015-09-01

The Balkan Lake Ohrid is the oldest and most speciose freshwater lacustrine system in Europe. However, it remains unclear whether the diversification of its endemic taxa is mainly driven by neutral processes, environmental factors, or species interactions. This calls for a holistic perspective involving both evolutionary processes and ecological dynamics. Such a unifying framework - the metacommunity speciation model - considers how community assembly affects diversification and vice versa by assessing the relative contribution of the three main community assembly processes, dispersal limitation, environmental filtering, and species interaction. The current study therefore used the species-rich model taxon Gastropoda to assess how extant communities in Lake Ohrid are structured by performing process based metacommunity analyses. Specifically, the study aimed at (i) identifying the relative importance of the three community assembly processes and (ii) to test whether the importance of these individual processes changes gradually with lake depth or whether they are distinctively related to eco-zones. Based on specific simulation steps for each of the three processes, it could be demonstrated that dispersal limitation had the strongest influence on gastropod community structures in Lake Ohrid. However, it was not the exclusive assembly process but acted together with the other two processes - environmental filtering, and species interaction. In fact, the relative importance of the three community assembly processes varied both with lake depth and eco-zones, though the processes were better predicted by the latter. The study thus corroborated the high importance of dispersal limitation for both maintaining species richness in Lake Ohrid (through its impact on community structure) and generating endemic biodiversity (via its influence on diversification processes). However, according to the metacommunity speciation model, the inferred importance of environmental filtering and biotic interaction also suggests a small but significant influence of ecological speciation. These findings contribute to the main goal of the SCOPSCO initiative - inferring the drivers of biotic evolution - and might provide an integrative perspective on biological and limnological dynamics in ancient Lake Ohrid.

Medicine and psychiatry in Western culture: among Ancient Greek myths and modern prejudices.

PubMed

Fornaro, Michele; Clementi, Nicoletta; Fornaro, Pantaleo

2009-01-01

While many ancient cultures contributed to our current knowledge about medicine and psychiatry origins, Ancient Greeks were among the best observers of feelings and moods patients could express toward medicine and toward what today referred as "psychopathology". Myths and religious references were used to explain what elsewhere impossible to understand or easily communicated. Most of ancient myths focus on ambiguous feelings patients could have towards drugs, especially psychotropic ones. Interestingly, such prejudices are common yet today. Recalling ancient findings and descriptions made using myths, should represent a valuable knowledge for modern physicians, especially for psychiatrists, and their patients, with the aim of better understanding each other and therefore achieving a better clinical outcome. The paper explores many human aspects and feelings toward doctors and their cures, referring to ancient myths, focusing on the perception of mental illness.

Investigating Microbe-Mineral Interactions: Recent Advances in X-Ray and Electron Microscopy and Redox-Sensitive Methods

NASA Astrophysics Data System (ADS)

Miot, Jennyfer; Benzerara, Karim; Kappler, Andreas

2014-05-01

Microbe-mineral interactions occur in diverse modern environments, from the deep sea and subsurface rocks to soils and surface aquatic environments. They may have played a central role in the geochemical cycling of major (e.g., C, Fe, Ca, Mn, S, P) and trace (e.g., Ni, Mo, As, Cr) elements over Earth's history. Such interactions include electron transfer at the microbe-mineral interface that left traces in the rock record. Geomicrobiology consists in studying interactions at these organic-mineral interfaces in modern samples and looking for traces of past microbe-mineral interactions recorded in ancient rocks. Specific tools are required to probe these interfaces and to understand the mechanisms of interaction between microbes and minerals from the scale of the biofilm to the nanometer scale. In this review, we focus on recent advances in electron microscopy, in particular in cryoelectron microscopy, and on a panel of electrochemical and synchrotron-based methods that have recently provided new understanding and imaging of the microbe-mineral interface, ultimately opening new fields to be explored.

Improving the Awareness of the Influence of Geography Upon Historical Events in Ancient Mesopotamia and in Ancient Egypt in Ninth Grade World History Students.

ERIC Educational Resources Information Center

Milton, Henry

This practicum was designed to incorporate the study of geography into a ninth grade world history class with the aim of improving student awareness of the influence of geography upon the historical development of ancient Mesopotamia and ancient Egypt. By means of a questionnaire and map tests it was determined that ninth grade world history…

Is atherosclerosis fundamental to human aging? Lessons from ancient mummies.

PubMed

Clarke, Emily M; Thompson, Randall C; Allam, Adel H; Wann, L Samuel; Lombardi, Guido P; Sutherland, M Linda; Sutherland, James D; Cox, Samantha L; Soliman, Muhammad Al-Tohamy; Abd el-Maksoud, Gomaa; Badr, Ibrahem; Miyamoto, Michael I; Frohlich, Bruno; Nur el-din, Abdel-Halim; Stewart, Alexandre F R; Narula, Jagat; Zink, Albert R; Finch, Caleb E; Michalik, David E; Thomas, Gregory S

2014-05-01

Case reports from Johan Czermak, Marc Ruffer, and others a century or more ago demonstrated ancient Egyptians had atherosclerosis three millennia ago. The Horus study team extended their findings, demonstrating that atherosclerosis was prevalent among 76 ancient Egyptian mummies and among 61 mummies from each of the ancient cultures of Peru, the American Southwest, and the Aleutian Islands. These findings challenge the assumption that atherosclerosis is a modern disease caused by present day risk factors. An extensive autopsy of an ancient Egyptian teenage male weaver named Nakht found that he was infected with four parasites: Schistosoma haematobium, Taenia species, Trichinella spiralis, and Plasmodium falciparum. Modern day patients with chronic inflammatory disease such as rheumatoid arthritis, systemic lupus erythematosus, and human immunodeficiency virus experience premature atherosclerosis. Could the burden of chronic inflammatory disease have been a risk factor for atherosclerosis in these ancient cultures? The prevalence of atherosclerosis in four diverse ancient cultures is consistent with atherosclerosis being fundamental to aging. The impact of risk factors in modern times, and potentially in ancient times, suggests a strong gene-environmental interplay: human genes provide a vulnerability to atherosclerosis, the environment determines when and if atherosclerosis becomes manifest clinically. Copyright © 2014 Japanese College of Cardiology. Published by Elsevier Ltd. All rights reserved.

Setting the stage - building and working in an ancient DNA laboratory.

PubMed

Knapp, Michael; Clarke, Andrew C; Horsburgh, K Ann; Matisoo-Smith, Elizabeth A

2012-01-20

With the introduction of next generation high throughput sequencing in 2005 and the resulting revolution in genetics, ancient DNA research has rapidly developed from an interesting but marginal field within evolutionary biology into one that can contribute significantly to our understanding of evolution in general and the development of our own species in particular. While the amount of sequence data available from ancient human, other animal and plant remains has increased dramatically over the past five years, some key limitations of ancient DNA research remain. Most notably, reduction of contamination and the authentication of results are of utmost importance. A number of studies have addressed different aspects of sampling, DNA extraction and DNA manipulation in order to establish protocols that most efficiently generate reproducible and authentic results. As increasing numbers of researchers from different backgrounds become interested in using ancient DNA technology to address key questions, the need for practical guidelines on how to construct and use an ancient DNA facility arises. The aim of this article is therefore to provide practical tips for building a state-of-the-art ancient DNA facility. It is intended to help researchers new to the field of ancient DNA research generally, and those considering the application of next generation sequencing, in their planning process. Copyright © 2011 Elsevier GmbH. All rights reserved.

Evidence for long-lived subduction of an ancient tectonic plate beneath the southern Indian Ocean: Ancient Slab Beneath the Indian Ocean

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

Simmons, N. A.; Myers, S. C.; Johannesson, G.

In this study, ancient subducted tectonic plates have been observed in past seismic images of the mantle beneath North America and Eurasia, and it is likely that other ancient slab structures have remained largely hidden, particularly in the seismic-data-limited regions beneath the vast oceans in the Southern Hemisphere. Here we present a new global tomographic image, which shows a slab-like structure beneath the southern Indian Ocean with coherency from the upper mantle to the core-mantle boundary region—a feature that has never been identified. We postulate that the structure is an ancient tectonic plate that sank into the mantle along anmore » extensive intraoceanic subduction zone that migrated southwestward across the ancient Tethys Ocean in the Mesozoic Era. Slab material still trapped in the transition zone is positioned near the edge of East Gondwana at 140 Ma suggesting that subduction terminated near the margin of the ancient continent prior to breakup and subsequent dispersal of its subcontinents.« less

Evidence for long-lived subduction of an ancient tectonic plate beneath the southern Indian Ocean: Ancient Slab Beneath the Indian Ocean

DOE PAGES

Simmons, N. A.; Myers, S. C.; Johannesson, G.; ...

2015-11-14

In this study, ancient subducted tectonic plates have been observed in past seismic images of the mantle beneath North America and Eurasia, and it is likely that other ancient slab structures have remained largely hidden, particularly in the seismic-data-limited regions beneath the vast oceans in the Southern Hemisphere. Here we present a new global tomographic image, which shows a slab-like structure beneath the southern Indian Ocean with coherency from the upper mantle to the core-mantle boundary region—a feature that has never been identified. We postulate that the structure is an ancient tectonic plate that sank into the mantle along anmore » extensive intraoceanic subduction zone that migrated southwestward across the ancient Tethys Ocean in the Mesozoic Era. Slab material still trapped in the transition zone is positioned near the edge of East Gondwana at 140 Ma suggesting that subduction terminated near the margin of the ancient continent prior to breakup and subsequent dispersal of its subcontinents.« less

Inferring the palaeoenvironment of ancient bacteria on the basis of resurrected proteins

NASA Technical Reports Server (NTRS)

Gaucher, Eric A.; Thomson, J. Michael; Burgan, Michelle F.; Benner, Steven A.

2003-01-01

Features of the physical environment surrounding an ancestral organism can be inferred by reconstructing sequences of ancient proteins made by those organisms, resurrecting these proteins in the laboratory, and measuring their properties. Here, we resurrect candidate sequences for elongation factors of the Tu family (EF-Tu) found at ancient nodes in the bacterial evolutionary tree, and measure their activities as a function of temperature. The ancient EF-Tu proteins have temperature optima of 55-65 degrees C. This value seems to be robust with respect to uncertainties in the ancestral reconstruction. This suggests that the ancient bacteria that hosted these particular genes were thermophiles, and neither hyperthermophiles nor mesophiles. This conclusion can be compared and contrasted with inferences drawn from an analysis of the lengths of branches in trees joining proteins from contemporary bacteria, the distribution of thermophily in derived bacterial lineages, the inferred G + C content of ancient ribosomal RNA, and the geological record combined with assumptions concerning molecular clocks. The study illustrates the use of experimental palaeobiochemistry and assumptions about deep phylogenetic relationships between bacteria to explore the character of ancient life.

The Ancient World Explorer: Space Invaders, Copycats or Independent Inventors? Sixth Grade Activity. Schools of California Online Resources for Education (SCORE): Connecting California's Classrooms to the World.

ERIC Educational Resources Information Center

Benoit, Ty

When archaeologists dig up the artifacts of ancient civilizations, they make discoveries and attempt to find out what life was like for ancient people. Students in the classroom explore the civilizations of the ancient world attempting to answer questions about how people lived thousands of years ago. In this activity for grade 6, students, in…

Did I Say Cosmology? On Modern Cosmologies and Ancient World-views

NASA Astrophysics Data System (ADS)

Iwaniszewski, S.

2009-08-01

The modern cosmology that emerged from observational astronomy in 16th century Europe meant a radical break-away from earlier conceptions of the world. While all ancient and nonwestern worldviews usually describe a multidimensional reality in which diverse environmental, economic, sociopolitical and ideological factors intersect, modern cosmologies espouse the vision of a radically different universe which is completely dehumanized, ethically indifferent and universally valid. Despite these differences cosmology and worldview tend to be used interchangeably to depict ancient and nonwestern worldviews.Any correspondences which can be found between different parts of ancient and/or nonwestern worldviews and modern cosmologies tend to transfer modern conceptions to the premodern world. Ignoring ancient cultural contexts, we risk imposing modern cosmological concepts on past worldview categories. While we have to describe ancient astronomies in our own terms, our ultimate goal is to understand them on their own terms.

Discovery and evolution of bunyavirids in arctic phantom midges and ancient bunyavirid-like sequences in insect genomes.

PubMed

Ballinger, Matthew J; Bruenn, Jeremy A; Hay, John; Czechowski, Donna; Taylor, Derek J

2014-08-01

Bunyaviridae is a large family of RNA viruses chiefly comprised of vertebrate and plant pathogens. We discovered novel bunyavirids that are approximately equally divergent from each of the five known genera. We characterized novel genome sequences for two bunyavirids, namely, Kigluaik phantom virus (KIGV), from tundra-native phantom midges (Chaoborus), and Nome phantom virus (NOMV), from tundra-invading phantom midges, and demonstrated that these bunyavirid-like sequences belong to an infectious virus by passaging KIGV in mosquito cell culture, although the infection does not seem to be well sustained beyond a few passages. Virus and host gene sequences from individuals collected on opposite ends of North America, a region spanning 4,000 km, support a long-term, vertically transmitted infection of KIGV in Chaoborus trivittatus. KIGV-like sequences ranging from single genes to full genomes are present in transcriptomes and genomes of insects belonging to six taxonomic orders, suggesting an ancient association of this clade with insect hosts. In Drosophila, endogenous virus genes have been coopted, forming an orthologous tandem gene family that has been maintained by selection during the radiation of the host genus. Our findings indicate that bunyavirid-host interactions in nonbloodsucking arthropods have been much more extensive than previously thought. Very little is known about the viral diversity in polar freshwater ponds, and perhaps less is known about the effects that climate-induced habitat changes in these regions will have on virus-host interactions in the coming years. Our results show that at the tundra-boreal boundary, a hidden viral landscape is being altered as infected boreal phantom midges colonize tundra ponds. Likewise, relatively little is known of the deeper evolutionary history of bunyavirids that has led to the stark lifestyle contrasts between some genera. The discovery of this novel bunyavirid group suggests that ancient and highly divergent bunyavirid lineages remain undetected in nature and may offer fresh insight into host reservoirs, potential sources of emerging disease, and major lifestyle shifts in the evolutionary history of viruses in the family Bunyaviridae. Copyright © 2014, American Society for Microbiology. All Rights Reserved.

Evolutionary Patterns and Processes: Lessons from Ancient DNA.

PubMed

Leonardi, Michela; Librado, Pablo; Der Sarkissian, Clio; Schubert, Mikkel; Alfarhan, Ahmed H; Alquraishi, Saleh A; Al-Rasheid, Khaled A S; Gamba, Cristina; Willerslev, Eske; Orlando, Ludovic

2017-01-01

Ever since its emergence in 1984, the field of ancient DNA has struggled to overcome the challenges related to the decay of DNA molecules in the fossil record. With the recent development of high-throughput DNA sequencing technologies and molecular techniques tailored to ultra-damaged templates, it has now come of age, merging together approaches in phylogenomics, population genomics, epigenomics, and metagenomics. Leveraging on complete temporal sample series, ancient DNA provides direct access to the most important dimension in evolution—time, allowing a wealth of fundamental evolutionary processes to be addressed at unprecedented resolution. This review taps into the most recent findings in ancient DNA research to present analyses of ancient genomic and metagenomic data.

Evolutionary Patterns and Processes: Lessons from Ancient DNA

PubMed Central

Leonardi, Michela; Librado, Pablo; Der Sarkissian, Clio; Schubert, Mikkel; Alfarhan, Ahmed H.; Alquraishi, Saleh A.; Al-Rasheid, Khaled A. S.; Gamba, Cristina; Willerslev, Eske

2017-01-01

Abstract Ever since its emergence in 1984, the field of ancient DNA has struggled to overcome the challenges related to the decay of DNA molecules in the fossil record. With the recent development of high-throughput DNA sequencing technologies and molecular techniques tailored to ultra-damaged templates, it has now come of age, merging together approaches in phylogenomics, population genomics, epigenomics, and metagenomics. Leveraging on complete temporal sample series, ancient DNA provides direct access to the most important dimension in evolution—time, allowing a wealth of fundamental evolutionary processes to be addressed at unprecedented resolution. This review taps into the most recent findings in ancient DNA research to present analyses of ancient genomic and metagenomic data. PMID:28173586

Deep Sequencing of RNA from Ancient Maize Kernels

PubMed Central

Rasmussen, Morten; Cappellini, Enrico; Romero-Navarro, J. Alberto; Wales, Nathan; Alquezar-Planas, David E.; Penfield, Steven; Brown, Terence A.; Vielle-Calzada, Jean-Philippe; Montiel, Rafael; Jørgensen, Tina; Odegaard, Nancy; Jacobs, Michael; Arriaza, Bernardo; Higham, Thomas F. G.; Ramsey, Christopher Bronk; Willerslev, Eske; Gilbert, M. Thomas P.

2013-01-01

The characterization of biomolecules from ancient samples can shed otherwise unobtainable insights into the past. Despite the fundamental role of transcriptomal change in evolution, the potential of ancient RNA remains unexploited – perhaps due to dogma associated with the fragility of RNA. We hypothesize that seeds offer a plausible refuge for long-term RNA survival, due to the fundamental role of RNA during seed germination. Using RNA-Seq on cDNA synthesized from nucleic acid extracts, we validate this hypothesis through demonstration of partial transcriptomal recovery from two sources of ancient maize kernels. The results suggest that ancient seed transcriptomics may offer a powerful new tool with which to study plant domestication. PMID:23326310

Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome.

PubMed

Pedersen, Jakob Skou; Valen, Eivind; Velazquez, Amhed M Vargas; Parker, Brian J; Rasmussen, Morten; Lindgreen, Stinus; Lilje, Berit; Tobin, Desmond J; Kelly, Theresa K; Vang, Søren; Andersson, Robin; Jones, Peter A; Hoover, Cindi A; Tikhonov, Alexei; Prokhortchouk, Egor; Rubin, Edward M; Sandelin, Albin; Gilbert, M Thomas P; Krogh, Anders; Willerslev, Eske; Orlando, Ludovic

2014-03-01

Epigenetic information is available from contemporary organisms, but is difficult to track back in evolutionary time. Here, we show that genome-wide epigenetic information can be gathered directly from next-generation sequence reads of DNA isolated from ancient remains. Using the genome sequence data generated from hair shafts of a 4000-yr-old Paleo-Eskimo belonging to the Saqqaq culture, we generate the first ancient nucleosome map coupled with a genome-wide survey of cytosine methylation levels. The validity of both nucleosome map and methylation levels were confirmed by the recovery of the expected signals at promoter regions, exon/intron boundaries, and CTCF sites. The top-scoring nucleosome calls revealed distinct DNA positioning biases, attesting to nucleotide-level accuracy. The ancient methylation levels exhibited high conservation over time, clustering closely with modern hair tissues. Using ancient methylation information, we estimated the age at death of the Saqqaq individual and illustrate how epigenetic information can be used to infer ancient gene expression. Similar epigenetic signatures were found in other fossil material, such as 110,000- to 130,000-yr-old bones, supporting the contention that ancient epigenomic information can be reconstructed from a deep past. Our findings lay the foundation for extracting epigenomic information from ancient samples, allowing shifts in epialleles to be tracked through evolutionary time, as well as providing an original window into modern epigenomics.

Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome

PubMed Central

Pedersen, Jakob Skou; Valen, Eivind; Velazquez, Amhed M. Vargas; Parker, Brian J.; Rasmussen, Morten; Lindgreen, Stinus; Lilje, Berit; Tobin, Desmond J.; Kelly, Theresa K.; Vang, Søren; Andersson, Robin; Jones, Peter A.; Hoover, Cindi A.; Tikhonov, Alexei; Prokhortchouk, Egor; Rubin, Edward M.; Sandelin, Albin; Gilbert, M. Thomas P.; Krogh, Anders; Willerslev, Eske; Orlando, Ludovic

2014-01-01

Epigenetic information is available from contemporary organisms, but is difficult to track back in evolutionary time. Here, we show that genome-wide epigenetic information can be gathered directly from next-generation sequence reads of DNA isolated from ancient remains. Using the genome sequence data generated from hair shafts of a 4000-yr-old Paleo-Eskimo belonging to the Saqqaq culture, we generate the first ancient nucleosome map coupled with a genome-wide survey of cytosine methylation levels. The validity of both nucleosome map and methylation levels were confirmed by the recovery of the expected signals at promoter regions, exon/intron boundaries, and CTCF sites. The top-scoring nucleosome calls revealed distinct DNA positioning biases, attesting to nucleotide-level accuracy. The ancient methylation levels exhibited high conservation over time, clustering closely with modern hair tissues. Using ancient methylation information, we estimated the age at death of the Saqqaq individual and illustrate how epigenetic information can be used to infer ancient gene expression. Similar epigenetic signatures were found in other fossil material, such as 110,000- to 130,000-yr-old bones, supporting the contention that ancient epigenomic information can be reconstructed from a deep past. Our findings lay the foundation for extracting epigenomic information from ancient samples, allowing shifts in epialleles to be tracked through evolutionary time, as well as providing an original window into modern epigenomics. PMID:24299735

Ancient bacterial endosymbionts of insects: Genomes as sources of insight and springboards for inquiry.

PubMed

Wernegreen, Jennifer J

2017-09-15

Ancient associations between insects and bacteria provide models to study intimate host-microbe interactions. Currently, a wealth of genome sequence data for long-term, obligately intracellular (primary) endosymbionts of insects reveals profound genomic consequences of this specialized bacterial lifestyle. Those consequences include severe genome reduction and extreme base compositions. This minireview highlights the utility of genome sequence data to understand how, and why, endosymbionts have been pushed to such extremes, and to illuminate the functional consequences of such extensive genome change. While the static snapshots provided by individual endosymbiont genomes are valuable, comparative analyses of multiple genomes have shed light on evolutionary mechanisms. Namely, genome comparisons have told us that selection is important in fine-tuning gene content, but at the same time, mutational pressure and genetic drift contribute to genome degradation. Examples from Blochmannia, the primary endosymbiont of the ant tribe Camponotini, illustrate the value and constraints of genome sequence data, and exemplify how genomes can serve as a springboard for further comparative and experimental inquiry. Copyright © 2017. Published by Elsevier Inc.

Dog Breed Differences in Visual Communication with Humans.

PubMed

Konno, Akitsugu; Romero, Teresa; Inoue-Murayama, Miho; Saito, Atsuko; Hasegawa, Toshikazu

2016-01-01

Domestic dogs (Canis familiaris) have developed a close relationship with humans through the process of domestication. In human-dog interactions, eye contact is a key element of relationship initiation and maintenance. Previous studies have suggested that canine ability to produce human-directed communicative signals is influenced by domestication history, from wolves to dogs, as well as by recent breed selection for particular working purposes. To test the genetic basis for such abilities in purebred dogs, we examined gazing behavior towards humans using two types of behavioral experiments: the 'visual contact task' and the 'unsolvable task'. A total of 125 dogs participated in the study. Based on the genetic relatedness among breeds subjects were classified into five breed groups: Ancient, Herding, Hunting, Retriever-Mastiff and Working). We found that it took longer time for Ancient breeds to make an eye-contact with humans, and that they gazed at humans for shorter periods of time than any other breed group in the unsolvable situation. Our findings suggest that spontaneous gaze behavior towards humans is associated with genetic similarity to wolves rather than with recent selective pressure to create particular working breeds.

Depth profiling analysis of solar wind helium collected in diamond-like carbon film from Genesis

DOE PAGES

Bajo, Ken-ichi; Olinger, Chad T.; Jurewicz, Amy J.G.; ...

2015-01-01

The distribution of solar-wind ions in Genesis mission collectors, as determined by depth profiling analysis, constrains the physics of ion solid interactions involving the solar wind. Thus, they provide an experimental basis for revealing ancient solar activities represented by solar-wind implants in natural samples. We measured the first depth profile of ⁴He in a collector; the shallow implantation (peaking at <20 nm) required us to use sputtered neutral mass spectrometry with post-photoionization by a strong field. The solar wind He fluence calculated using depth profiling is ~8.5 x 10¹⁴ cm⁻². The shape of the solar wind ⁴He depth profile ismore » consistent with TRIM simulations using the observed ⁴He velocity distribution during the Genesis mission. It is therefore likely that all solar-wind elements heavier than H are completely intact in this Genesis collector and, consequently, the solar particle energy distributions for each element can be calculated from their depth profiles. Ancient solar activities and space weathering of solar system objects could be quantitatively reproduced by solar particle implantation profiles.« less

Periodic climate cooling enhanced natural disasters and wars in China during AD 10–1900

PubMed Central

Zhang, Zhibin; Tian, Huidong; Cazelles, Bernard; Kausrud, Kyrre L.; Bräuning, Achim; Guo, Fang; Stenseth, Nils Chr

2010-01-01

Recent studies have linked climatic and social instabilities in ancient China; the underlying causal mechanisms have, however, often not been quantitatively assessed. Here, using historical records and palaeoclimatic reconstructions during AD 10–1900, we demonstrate that war frequency, price of rice, locust plague, drought frequency, flood frequency and temperature in China show two predominant periodic bands around 160 and 320 years where they interact significantly with each other. Temperature cooling shows direct positive association with the frequency of external aggression war to the Chinese dynasties mostly from the northern pastoral nomadic societies, and indirect positive association with the frequency of internal war within the Chinese dynasties through drought and locust plagues. The collapses of the agricultural dynasties of the Han, Tang, Song and Ming are more closely associated with low temperature. Our study suggests that food production during the last two millennia has been more unstable during cooler periods, resulting in more social conflicts owing to rebellions within the dynasties or/and southward aggressions from northern pastoral nomadic societies in ancient China. PMID:20630883

Possible impact of the Earth's magnetic field on the history of ancient civilizations

NASA Astrophysics Data System (ADS)

Gallet, Yves; Genevey, Agnès; Le Goff, Maxime; Fluteau, Frédéric; Ali Eshraghi, Safar

2006-06-01

We report new archeointensity results from Iranian and Syrian archeological excavations dated from the second millennium BC. These high-temperature magnetization data were obtained using a laboratory-built triaxial vibrating sample magnetometer. Together with our previously published archeointensity results from Mesopotamia, we constructed a rather detailed geomagnetic field intensity variation curve for this region from 3000 BC to 0 BC. Four potential geomagnetic events ("archeomagnetic jerks"), marked by strong intensity increases, are observed and appear to be synchronous with cooling episodes in the North Atlantic. This temporal coincidence strengthens the recent suggestion that the geomagnetic field influences climate change over multi-decadal time scales, possibly through the modulation of cosmic ray flux interacting with the atmosphere. Moreover, the cooling periods in the North Atlantic coincide with episodes of enhanced aridity in the Middle East, when abrupt societal changes occurred in the eastern Mediterranean and Mesopotamia. Although the coincidences discussed in this paper must be considered with caution, they lead to the possibility that the geomagnetic field impacted the history of ancient civilizations through climatically driven environmental changes, triggering economic, social and political instability.

Pre-Columbian archaeological ruins are revealed through Costa Rican rain forest in this photo taken during NASA's AirSAR 2004 campaign

NASA Image and Video Library

2004-03-05

Pre-Columbian archaeological ruins are revealed through Costa Rican rain forest in this photo taken during NASA's AirSAR 2004 Mesoamerica campaign. AirSAR 2004 Mesoamerica is a three-week expedition by an international team of scientists that uses an all-weather imaging tool, called the Airborne Synthetic Aperture Radar (AirSAR) which is located onboard NASA's DC-8 airborne laboratory. The radar, developed by NASA's Jet Propulsion Laboratory, can penetrate clouds and also collect data at night. Its high-resolution sensors operate at multiple wavelengths and modes, allowing AirSAR to see beneath treetops, through thin sand, and dry snow pack. Much of the archaeological evidence needed to understand Pre-Columbian societies in Central America comes from features on the landscape. Difficult terrain and logistics have limited ground data collection. AirSAR helped to detect signs of ancient civilizations hidden beneath the forest. Its images will shed insights into the way modern humans interact with their landscape, and how ancient peoples lived and what became of their civilizations.

Periodic climate cooling enhanced natural disasters and wars in China during AD 10-1900.

PubMed

Zhang, Zhibin; Tian, Huidong; Cazelles, Bernard; Kausrud, Kyrre L; Bräuning, Achim; Guo, Fang; Stenseth, Nils Chr

2010-12-22

Recent studies have linked climatic and social instabilities in ancient China; the underlying causal mechanisms have, however, often not been quantitatively assessed. Here, using historical records and palaeoclimatic reconstructions during AD 10-1900, we demonstrate that war frequency, price of rice, locust plague, drought frequency, flood frequency and temperature in China show two predominant periodic bands around 160 and 320 years where they interact significantly with each other. Temperature cooling shows direct positive association with the frequency of external aggression war to the Chinese dynasties mostly from the northern pastoral nomadic societies, and indirect positive association with the frequency of internal war within the Chinese dynasties through drought and locust plagues. The collapses of the agricultural dynasties of the Han, Tang, Song and Ming are more closely associated with low temperature. Our study suggests that food production during the last two millennia has been more unstable during cooler periods, resulting in more social conflicts owing to rebellions within the dynasties or/and southward aggressions from northern pastoral nomadic societies in ancient China.

ANIMAL DNA IN PCR REAGENTS PLAGUES ANCIENT DNA RESEARCH

EPA Science Inventory

Ancient DNA analysis is becoming widespread. These studies use polymerase chain reaction (PCR) to amplify minute quantities of heavily damaged template. Unusual steps are taken to achieve the sensitivity necessary to detect ancient DNA, including high-cycle PCR amplification targ...

Herbivory by the insect diaphorina citri induces greater change in citrus plant volatile profile than does infection by the bacterium, Candidatus Liberibacter asiaticus

PubMed Central

Hijaz, Faraj; El-Shesheny, Ibrahim; Killiny, Nabil

2013-01-01

The volatile organic compound (VOC) profile in plant leaves often changes after biotic and abiotic stresses. Monitoring changes in VOCs in plant leaves could provide valuable information about multitrophic interactions. In the current study, we investigated the effect of Asian citrus psyllid (ACP) infestation, citrus greening pathogen (Candidatus Liberibacter asiaticus [CLas]) infection, and simultaneous attack by ACP and CLas on the VOC content of citrus leaves. Leaf volatiles were extracted using hexane and analyzed with gas chromatography-mass spectrometry (GC-MS). Although ACP is a phloem-sucking insect that causes minimal damage to plant tissues, the relative amount of 21 out of the 27 VOCs increased 2- to 10-fold in ACP-infested plants. The relative amount of d-limonene, β-phelandrene, citronellal, and undecanal were increased 4- to 20- fold in CLas-infected plants. A principle component analysis (PCA) and cluster analysis (CA) showed that VOC patterns of ACP-infested and CLas-infected plants were different from each other and were also different from the controls, while the VOC pattern of double-attacked plants was more like that of the controls than that of ACP-infested or CLas-infected plants. VOC amounts from leaves were compromised when plants were attacked by ACP and CLas. The results of this study showed that a simple direct extraction of citrus leaf volatiles could be successfully used to discriminate between healthy and CLas-infected plants. Information about the effects of insect and pathogen attack on the VOC content profile of plants might contribute to a better understanding of biotic stress. PMID:23857364

Meta-Analysis of Reciprocal Linkages between Temperate Seagrasses and Waterfowl with Implications for Conservation.

PubMed

Kollars, Nicole M; Henry, Amy K; Whalen, Matthew A; Boyer, Katharyn E; Cusson, Mathieu; Eklöf, Johan S; Hereu, Clara M; Jorgensen, Pablo; Kiriakopolos, Stephanie L; Reynolds, Pamela L; Tomas, Fiona; Turner, Mo S; Ruesink, Jennifer L

2017-01-01

Multi-trophic conservation and management strategies may be necessary if reciprocal linkages between primary producers and their consumers are strong. While herbivory on aquatic plants is well-studied, direct top-down control of seagrass populations has received comparatively little attention, particularly in temperate regions. Herein, we used qualitative and meta-analytic approaches to assess the scope and consequences of avian (primarily waterfowl) herbivory on temperate seagrasses of the genus Zostera . Meta-analyses revealed widespread evidence of spatio-temporal correlations between Zostera and waterfowl abundances as well as strong top-down effects of grazing on Zostera . We also documented the identity and diversity of avian species reported to consume Zostera and qualitatively assessed their potential to exert top-down control. Our results demonstrate that Zostera and their avian herbivores are ecologically linked and we suggest that bird herbivory may influence the spatial structure, composition, and functioning of the seagrass ecosystem. Therefore, the consequences of avian herbivory should be considered in the management of seagrass populations. Of particular concern are instances of seagrass overgrazing by waterfowl which result in long-term reductions in seagrass biomass or coverage, with subsequent impacts on local populations of waterfowl and other seagrass-affiliated species. While our results showed that bird density and type may affect the magnitude of the top-down effects of avian herbivory, empirical research on the strength, context-dependency, and indirect effects of waterfowl- Zostera interactions remains limited. For example, increased efforts that explicitly measure the effects of different functional groups of birds on seagrass abundance and/or document how climate change-driven shifts in waterfowl migratory patterns impact seagrass phenology and population structure will advance research programs for both ecologists and managers concerned with the joint conservation of both seagrasses and their avian herbivores.

Yet More “Weeds” in the Garden: Fungal Novelties from Nests of Leaf-Cutting Ants

PubMed Central

Augustin, Juliana O.; Groenewald, Johannes Z.; Nascimento, Robson J.; Mizubuti, Eduardo S. G.; Barreto, Robert W.; Elliot, Simon L.; Evans, Harry C.

2013-01-01

Background Symbiotic relationships modulate the evolution of living organisms in all levels of biological organization. A notable example of symbiosis is that of attine ants (Attini; Formicidae: Hymenoptera) and their fungal cultivars (Lepiotaceae and Pterulaceae; Agaricales: Basidiomycota). In recent years, this mutualism has emerged as a model system for studying coevolution, speciation, and multitrophic interactions. Ubiquitous in this ant-fungal symbiosis is the “weedy” fungus Escovopsis (Hypocreales: Ascomycota), known only as a mycoparasite of attine fungal gardens. Despite interest in its biology, ecology and molecular phylogeny—noting, especially, the high genetic diversity encountered—which has led to a steady flow of publications over the past decade, only two species of Escovopsis have formally been described. Methods and Results We sampled from fungal gardens and garden waste (middens) of nests of the leaf-cutting ant genus Acromyrmex in a remnant of subtropical Atlantic rainforest in Minas Gerais, Brazil. In culture, distinct morphotypes of Escovopsis sensu lato were recognized. Using both morphological and molecular analyses, three new species of Escovopsis were identified. These are described and illustrated herein—E. lentecrescens, E. microspora, and E. moelleri—together with a re-description of the genus and the type species, E. weberi. The new genus Escovopsioides is erected for a fourth morphotype. We identify, for the first time, a mechanism for horizontal transmission via middens. Conclusions The present study makes a start at assigning names and formal descriptions to these specific fungal parasites of attine nests. Based on the results of this exploratory and geographically-restricted survey, we expect there to be many more species of the genus Escovopsis and its relatives associated with nests of both the lower and higher Attini throughout their neotropical range, as suggested in previous studies. PMID:24376525

Herbivory by the insect diaphorina citri induces greater change in citrus plant volatile profile than does infection by the bacterium, Candidatus Liberibacter asiaticus.

PubMed

Hijaz, Faraj; El-Shesheny, Ibrahim; Killiny, Nabil

2013-10-01

The volatile organic compound (VOC) profile in plant leaves often changes after biotic and abiotic stresses. Monitoring changes in VOCs in plant leaves could provide valuable information about multitrophic interactions. In the current study, we investigated the effect of Asian citrus psyllid (ACP) infestation, citrus greening pathogen (Candidatus Liberibacter asiaticus [CLas]) infection, and simultaneous attack by ACP and CLas on the VOC content of citrus leaves. Leaf volatiles were extracted using hexane and analyzed with gas chromatography-mass spectrometry (GC-MS). Although ACP is a phloem-sucking insect that causes minimal damage to plant tissues, the relative amount of 21 out of the 27 VOCs increased 2- to 10-fold in ACP-infested plants. The relative amount of d-limonene, β-phelandrene, citronellal, and undecanal were increased 4- to 20- fold in CLas-infected plants. A principle component analysis (PCA) and cluster analysis (CA) showed that VOC patterns of ACP-infested and CLas-infected plants were different from each other and were also different from the controls, while the VOC pattern of double-attacked plants was more like that of the controls than that of ACP-infested or CLas-infected plants. VOC amounts from leaves were compromised when plants were attacked by ACP and CLas. The results of this study showed that a simple direct extraction of citrus leaf volatiles could be successfully used to discriminate between healthy and CLas-infected plants. Information about the effects of insect and pathogen attack on the VOC content profile of plants might contribute to a better understanding of biotic stress.

Biological legacies: Direct early ecosystem recovery and food web reorganization after a volcanic eruption in Alaska

USGS Publications Warehouse

Walker, Lawrence R.; Sikes, Derek S.; DeGange, Anthony R.; Jewett, Stephen C.; Michaelson, Gary; Talbot, Sandra L.; Talbot, Stephen S.; Wang, Bronwen; Williams, Jeffrey C.

2014-01-01

Attempts to understand how communities assemble following a disturbance are challenged by the difficulty of determining the relative importance of stochastic and deterministic processes. Biological legacies, which result from organisms that survive a disturbance, can favour deterministic processes in community assembly and improve predictions of successional trajectories. Recently disturbed ecosystems are often so rapidly colonized by propagules that the role of biological legacies is obscured. We studied biological legacies on a remote volcanic island in Alaska following a devastating eruption where the role of colonization from adjacent communities was minimized. The role of biological legacies in the near shore environment was not clear, because although some kelp survived, they were presumably overwhelmed by the many vagile propagules in a marine environment. The legacy concept was most applicable to terrestrial invertebrates and plants that survived in remnants of buried soil that were exposed by post-eruption erosion. If the legacy concept is extended to include ex situ survival by transient organisms, then it was also applicable to the island's thousands of seabirds, because the seabirds survived the eruption by leaving the island and have begun to return and rebuild their nests as local conditions improve. Our multi-trophic examination of biological legacies in a successional context suggests that the relative importance of biological legacies varies with the degree of destruction, the availability of colonizing propagules, the spatial and temporal scales under consideration, and species interactions. Understanding the role of biological legacies in community assembly following disturbances can help elucidate the relative importance of colonists versus survivors, the role of priority effects among the colonists, convergence versus divergence of successional trajectories, the influence of spatial heterogeneity, and the role of island biogeographical concepts.

Environmental change and predator diversity drive alpha and beta diversity in freshwater macro and microorganisms.

PubMed

Antiqueira, Pablo Augusto P; Petchey, Owen L; Dos Santos, Viviane Piccin; de Oliveira, Valéria Maia; Romero, Gustavo Quevedo

2018-05-17

Global biodiversity is eroding due to anthropogenic causes such as climate change, habitat loss, and trophic simplification of biological communities. Most studies address only isolated causes within a single group of organisms; however, biological groups of different trophic levels may respond in particular ways to different environmental impacts. Our study used natural microcosms to investigate the predicted individual and interactive effects of warming, changes in top predator diversity, and habitat size on the alpha and beta diversity of macrofauna, microfauna and bacteria. Alpha diversity (i.e., richness within each bromeliad) generally explained a larger proportion of the gamma diversity (partitioned in alpha and beta diversity). Overall, dissimilarity between communities occurred due to species turnover and not species loss (nestedness). Nevertheless, the three biological groups responded differently to each environmental stressor. Microfauna were the most sensitive group, with alpha and beta diversity being affected by environmental changes (warming and habitat size) and trophic structure (diversity of top predators). Macrofauna alpha and beta diversity was sensitive to changes in predator diversity and habitat size, but not warming. In contrast, the bacterial community was not influenced by the treatments. The community of each biological group was not mutually concordant with the environmental and trophic changes. Our results demonstrate that distinct anthropogenic impacts differentially affect the components of macro and microorganism diversity through direct and indirect effects (i.e., bottom-up and top-down effects). Therefore, a multitrophic and multispecies approach is necessary to assess the effects of different anthropogenic impacts on biodiversity. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

Isotopic ages and characteristics of ancient (pre-Serenitatis) crustal rocks at Apollo 17

NASA Technical Reports Server (NTRS)

Premo, W. R.; Tatsumoto, M.

1992-01-01

The topics covered include the following: (1) problems with the isotopic systematics in lunar samples; (2) ancient crustal ages at the Apollo 17 site; and (3) isotopic characteristics of ancient Apollo 17 rocks - implications for their petrogenesis.

Natural Resource Scarcity and Adaptive States: The Desire for Individual Freedom Versus the Need for Governmental Control

DTIC Science & Technology

2011-06-01

George Bass , ―It [Yassi Ada] continued a trend, starting two or three centuries earlier, that reflected improved technology and also cut down the...from an Ancient Ship," in Ancient Mariners (USA: PBS, 1981). 34 George F. Bass , "Film Guide for Ancient Mariners, Tales from an Ancient Ship," in...needs and the DRC must import 11% of its cereal grains.135 Subsistence agriculture hinders social mobility. There is no middle class.136 71% of

The Arthasastra: Assessing the Contemporary Relevance of an Ancient Indian Treatise on Statecraft

DTIC Science & Technology

2016-06-10

the midst of scholars such as Sun - Tzu and Thucydides, Kautilya’s Arthaśāstra remains a lesser-known work from ancient India. This thesis researches...scholars such as Sun - Tzu and Thucydides, Kautilya’s Arthaśāstra remains a lesser-known work from ancient India. This thesis researches Kautilya’s...Peloponnesian War Overview Strategists’ respect for Thucydides and Sun Tzu as eminent strategic thinkers of the ancient world rests in the fact that

Fast, Accurate and Automatic Ancient Nucleosome and Methylation Maps with epiPALEOMIX.

PubMed

Hanghøj, Kristian; Seguin-Orlando, Andaine; Schubert, Mikkel; Madsen, Tobias; Pedersen, Jakob Skou; Willerslev, Eske; Orlando, Ludovic

2016-12-01

The first epigenomes from archaic hominins (AH) and ancient anatomically modern humans (AMH) have recently been characterized, based, however, on a limited number of samples. The extent to which ancient genome-wide epigenetic landscapes can be reconstructed thus remains contentious. Here, we present epiPALEOMIX, an open-source and user-friendly pipeline that exploits post-mortem DNA degradation patterns to reconstruct ancient methylomes and nucleosome maps from shotgun and/or capture-enrichment data. Applying epiPALEOMIX to the sequence data underlying 35 ancient genomes including AMH, AH, equids and aurochs, we investigate the temporal, geographical and preservation range of ancient epigenetic signatures. We first assess the quality of inferred ancient epigenetic signatures within well-characterized genomic regions. We find that tissue-specific methylation signatures can be obtained across a wider range of DNA preparation types than previously thought, including when no particular experimental procedures have been used to remove deaminated cytosines prior to sequencing. We identify a large subset of samples for which DNA associated with nucleosomes is protected from post-mortem degradation, and nucleosome positioning patterns can be reconstructed. Finally, we describe parameters and conditions such as DNA damage levels and sequencing depth that limit the preservation of epigenetic signatures in ancient samples. When such conditions are met, we propose that epigenetic profiles of CTCF binding regions can be used to help data authentication. Our work, including epiPALEOMIX, opens for further investigations of ancient epigenomes through time especially aimed at tracking possible epigenetic changes during major evolutionary, environmental, socioeconomic, and cultural shifts. © The Author 2016. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

Reconstructing ancient river dynamics from the stratigraphic record: can lessons from the past inform our future?

NASA Astrophysics Data System (ADS)

Hajek, E. A.; Chamberlin, E.; Baisden, T.

2014-12-01

The richness of the deep-time record and its potential for revealing important characteristics of ancient fluvial landscapes has been demonstrated time and again, including compelling examples of rivers altering their behavior in response to changes in vegetation patterns or abrupt shifts in water and sediment discharge. At present, reconstructions of ancient river and floodplain dynamics are commonly qualitative, and when quantitative metrics are used, it is often for comparison among ancient deposits. Without being able to reconstruct, more comprehensively, important aspects of ancient river and floodplains dynamics, this information has only anecdotal relevance for evaluating and managing present-day landscapes. While methods for reconstructing hydrodynamic and morphodynamic aspects of ancient rivers and floodplains are useful, uncertainties associated with these snapshots complicate the ability to translate observations from geologic to engineering scales, thereby limiting the utility of insight from Earth's past in decision-making and development of sustainable landscape-management practices for modern fluvial landscapes. Here, we explore the degree to which paleomorphodynamic reconstructions from ancient channel and floodplain deposits can be used to make specific, quantitative inferences about ancient river dynamics. We compare a suite of paleoenvironmental measurements from a variety of ancient fluvial deposits (including reconstructions of paleoflow depth, paleoslope, paleo-channel mobility, the caliber of paleo-sediment load, and paleo-floodplain heterogeneity) in an effort to evaluate sampling and empirical uncertainties associated with these methods and identify promising avenues for developing more detailed landscape reconstructions. This work is aimed at helping to develop strategies for extracting practicable information from the stratigraphic record that is relevant for sustainably managing and predicting changes in today's environments.

Colonization of the Scottish islands via long-distance Neolithic transport of red deer (Cervus elaphus).

PubMed

Stanton, David W G; Mulville, Jacqueline A; Bruford, Michael W

2016-04-13

Red deer (Cervus elaphus) have played a key role in human societies throughout history, with important cultural significance and as a source of food and materials. This relationship can be traced back to the earliest human cultures and continues to the present day. Humans are thought to be responsible for the movement of a considerable number of deer throughout history, although the majority of these movements are poorly described or understood. Studying such translocations allows us to better understand ancient human-wildlife interactions, and in the case of island colonizations, informs us about ancient human maritime practices. This study uses DNA sequences to characterise red deer genetic diversity across the Scottish islands (Inner and Outer Hebrides and Orkney) and mainland using ancient deer samples, and attempts to infer historical colonization events. We show that deer from the Outer Hebrides and Orkney are unlikely to have originated from mainland Scotland, implying that humans introduced red deer from a greater distance. Our results are also inconsistent with an origin from Ireland or Norway, suggesting long-distance maritime travel by Neolithic people to the outer Scottish Isles from an unknown source. Common haplotypes and low genetic differentiation between the Outer Hebrides and Orkney imply common ancestry and/or gene flow across these islands. Close genetic proximity between the Inner Hebrides and Ireland, however, corroborates previous studies identifying mainland Britain as a source for red deer introductions into Ireland. This study provides important information on the processes that led to the current distribution of the largest surviving indigenous land mammal in the British Isles. © 2016 The Authors.

The phylogenomic roots of modern biochemistry: origins of proteins, cofactors and protein biosynthesis.

PubMed

Caetano-Anollés, Gustavo; Kim, Kyung Mo; Caetano-Anollés, Derek

2012-02-01

The complexity of modern biochemistry developed gradually on early Earth as new molecules and structures populated the emerging cellular systems. Here, we generate a historical account of the gradual discovery of primordial proteins, cofactors, and molecular functions using phylogenomic information in the sequence of 420 genomes. We focus on structural and functional annotations of the 54 most ancient protein domains. We show how primordial functions are linked to folded structures and how their interaction with cofactors expanded the functional repertoire. We also reveal protocell membranes played a crucial role in early protein evolution and show translation started with RNA and thioester cofactor-mediated aminoacylation. Our findings allow elaboration of an evolutionary model of early biochemistry that is firmly grounded in phylogenomic information and biochemical, biophysical, and structural knowledge. The model describes how primordial α-helical bundles stabilized membranes, how these were decorated by layered arrangements of β-sheets and α-helices, and how these arrangements became globular. Ancient forms of aminoacyl-tRNA synthetase (aaRS) catalytic domains and ancient non-ribosomal protein synthetase (NRPS) modules gave rise to primordial protein synthesis and the ability to generate a code for specificity in their active sites. These structures diversified producing cofactor-binding molecular switches and barrel structures. Accretion of domains and molecules gave rise to modern aaRSs, NRPS, and ribosomal ensembles, first organized around novel emerging cofactors (tRNA and carrier proteins) and then more complex cofactor structures (rRNA). The model explains how the generation of protein structures acted as scaffold for nucleic acids and resulted in crystallization of modern translation.

Mosaic genome of endobacteria in arbuscular mycorrhizal fungi: Transkingdom gene transfer in an ancient mycoplasma-fungus association.

PubMed

Torres-Cortés, Gloria; Ghignone, Stefano; Bonfante, Paola; Schüßler, Arthur

2015-06-23

For more than 450 million years, arbuscular mycorrhizal fungi (AMF) have formed intimate, mutualistic symbioses with the vast majority of land plants and are major drivers in almost all terrestrial ecosystems. The obligate plant-symbiotic AMF host additional symbionts, so-called Mollicutes-related endobacteria (MRE). To uncover putative functional roles of these widespread but yet enigmatic MRE, we sequenced the genome of DhMRE living in the AMF Dentiscutata heterogama. Multilocus phylogenetic analyses showed that MRE form a previously unidentified lineage sister to the hominis group of Mycoplasma species. DhMRE possesses a strongly reduced metabolic capacity with 55% of the proteins having unknown function, which reflects unique adaptations to an intracellular lifestyle. We found evidence for transkingdom gene transfer between MRE and their AMF host. At least 27 annotated DhMRE proteins show similarities to nuclear-encoded proteins of the AMF Rhizophagus irregularis, which itself lacks MRE. Nuclear-encoded homologs could moreover be identified for another AMF, Gigaspora margarita, and surprisingly, also the non-AMF Mortierella verticillata. Our data indicate a possible origin of the MRE-fungus association in ancestors of the Glomeromycota and Mucoromycotina. The DhMRE genome encodes an arsenal of putative regulatory proteins with eukaryotic-like domains, some of them encoded in putative genomic islands. MRE are highly interesting candidates to study the evolution and interactions between an ancient, obligate endosymbiotic prokaryote with its obligate plant-symbiotic fungal host. Our data moreover may be used for further targeted searches for ancient effector-like proteins that may be key components in the regulation of the arbuscular mycorrhiza symbiosis.

Ancient and modern women in the "Woman's World".

PubMed

Hurst, Isobel

2009-01-01

Under the editorship of Oscar Wilde, the "Woman's World" exemplified the popular dissemination of Hellenism through periodical culture. Addressing topics such as marriage, politics, and education in relation to the lives of women in the ancient world, the magazine offered an unfamiliar version of the reception of ancient Greece and Rome in late-Victorian aestheticism, one that was accessible to a wide readership because it was often based on images rather than texts. The classical scholar Jane Ellen Harrison addressed herself to this audience of women readers, discussing the similarities between modern collegiate life and the "woman's world" that enabled Sappho to flourish in ancient Greece. The "Woman's World" thus questions gender stereotypes by juxtaposing ancient and modern women, implicitly endorsing varied models of womanhood.

No rheumatoid arthritis in ancient Egypt: a reappraisal.

PubMed

Kwiecinski, Jakub; Rothschild, Bruce M

2016-06-01

Antiquity of rheumatoid arthritis (RA) remains controversial, and its origins in Americas or in the Old World are disputed. Proponents of the latter frequently refer to RA in ancient Egypt, but validity of those claims has never been examined. Review of all reported RA cases from ancient Egypt revealed that none of them represent real RA, instead being either examples of changing naming conventions or of imprecise diagnostic criteria. Most cases represented osteoarthritis or spondyloarthropathies. Also review of preserved ancient Egyptian medical writings revealed many descriptions of musculoskeletal disorders, but none of them resembled RA. This suggests that RA was absent in ancient Egypt and supports the hypothesis of the New World origin of RA and its subsequent global spread in the last several centuries.

Effect of ancient population structure on the degree of polymorphism shared between modern human populations and ancient hominins.

PubMed

Eriksson, Anders; Manica, Andrea

2012-08-28

Recent comparisons between anatomically modern humans and ancient genomes of other hominins have raised the tantalizing, and hotly debated, possibility of hybridization. Although several tests of hybridization have been devised, they all rely on the degree to which different modern populations share genetic polymorphisms with the ancient genomes of other hominins. However, spatial population structure is expected to generate genetic patterns similar to those that might be attributed to hybridization. To investigate this problem, we take Neanderthals as a case study, and build a spatially explicit model of the shared history of anatomically modern humans and this hominin. We show that the excess polymorphism shared between Eurasians and Neanderthals is compatible with scenarios in which no hybridization occurred, and is strongly linked to the strength of population structure in ancient populations. Thus, we recommend caution in inferring admixture from geographic patterns of shared polymorphisms, and argue that future attempts to investigate ancient hybridization between humans and other hominins should explicitly account for population structure.

The Ancients' Appliance of Science

ERIC Educational Resources Information Center

Stephenson, Philip; Sword, Frances

2004-01-01

An innovative collaboration between the Fitzwilliam Museum in Cambridge and the University of Cambridge Faculty of Education encourages new questions to be asked of ancient objects. In the museum galleries children work directly from ancient Egyptian objects through activities designed to encourage questioning that unpicks the technologies of the…

Eternal Egypt: Masterworks of Ancient Art from the British Museum. Learning from Exhibitions.

ERIC Educational Resources Information Center

Johnson, Mark M.

2001-01-01

Introduces the exhibition "Eternal Egypt: Masterworks of Ancient Art from the British Museum" that explores the four major periods of Egyptian history. Provides background information on ancient Egypt and describes the art that was present in each of the four kingdoms. (CMK)

Historical Digressions in Greek Geometry Lessons.

ERIC Educational Resources Information Center

Thomaidis, Yannis

1991-01-01

Presents an attempt to combine the history of mathematics of ancient Greece with the course on theoretical geometry taught in Greek secondary schools. Three sections present the history of ancient Greek geometry, geometrical constructions using straightedges and compasses, and an application of Ptolemy's theorem in solving ancient astronomy…

History through Art and Architecture: Ancient Greek Architecture [and] Ancient Greek Sculpture. Teacher's Manual.

ERIC Educational Resources Information Center

Campbell, Ann

This document consists of two teaching manuals designed to accompany a commercially-available "multicultural, interdisciplinary video program," consisting of four still videotape programs (72 minutes, 226 frames), one teaching poster, and these two manuals. "Teacher's Manual: Ancient Greek Architecture" covers: "Ancient…

75 FR 57825 - Culturally Significant Objects Imported for Exhibition Determinations: “Ancient Chinese Bronzes...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-09-22

... DEPARTMENT OF STATE [Public Notice 7181] Culturally Significant Objects Imported for Exhibition Determinations: ``Ancient Chinese Bronzes From the Shouyang Studio: The Katherine and George Fan Collection... ``Ancient Chinese Bronzes from the Shouyang Studio: The Katherine and George Fan Collection,'' imported from...

Herbivory and climate interact serially to control monoterpene emissions from pinyon pine forests.

PubMed

Trowbridge, Amy M; Daly, Ryan W; Helmig, Detlev; Stoy, Paul C; Monson, Russell K

2014-06-01

The emission of volatile monoterpenes from coniferous trees impacts the oxidative state of the troposphere and multi-trophic signaling between plants and animals. Previous laboratory studies have revealed that climate anomalies and herbivory alter the rate of tree monoterpene emissions. However, no studies to date have been conducted to test these relations in situ. We conducted a two-year field experiment at two semiarid sites dominated by pinyon pine (Pinus edulis) during outbreaks of a specialist herbivore, the southwestern tiger moth (Lophocampa ingens: Arctiidae). We discovered that during the early spring, when herbivory rates were highest, monoterpene emission rates were approximately two to six times higher from undamaged needles on damaged trees, with this increase in emissions due to alpha-pinene, beta-pinene, and camphene at both sites. During mid-summer, emission rates did not differ between previously damaged and undamaged trees at the site on the Western Slope of the Rocky Mountains, but rather tracked changes in the temperature and precipitation regime characteristic of the region. As the mid-summer drought progressed at the Eastern Slope site, emission rates were low, but differences between previously damaged and undamaged trees were not statistically significant. Despite no difference in emissions, mid-summer tissue monoterpene concentrations were significantly lower in previously damaged trees at both sites. With the onset of monsoon rains during late summer, emission rates from previously damaged trees increased to levels higher than those of undamaged trees despite the lack of herbivory. We conclude that (1) herbivory systemically increases the flux of terpenes to the atmosphere during the spring, (2) drought overrides the effect of past herbivory as the primary control over emissions during the mid-summer, and (3) a release from drought and the onset of late-summer rains is correlated with a secondary increase in emissions, particularly from herbivore-damaged trees, possibly due to a drought-delayed stimulation of induced monoterpene synthesis and/or increases in stomatal conductance. A greater understanding of the interactive effects of seasonality and herbivory on monoterpene emissions provides much needed information regarding the atmospheric and ecological consequences that these compounds will have for semiarid ecosystems.

Radiogenic nature of argon-40 in the oldest biotites of the Kola peninsula

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

Gerling, E.K.; Gorokhovskii, B.M.

1986-07-01

It is shown by three graphical methods that ancient biotite aged 5.1.10/sup 9/ yr. and older does not contain excess /sup 40/Ar and that the whole /sup 40/Ar was formed via radioactive decay of /sup 40/K present in the minerals. It is suggested that due to variation in the force of gravitational interaction with the age of the universe, the K-decay of the /sup 40/K nucleus slowed down, which indeed is the cause of enhanced age of the Kola biotite.

The Iconography and Symbolism of Sun God in Urartian Art

NASA Astrophysics Data System (ADS)

Poghosyan, Gayane

2016-12-01

The predominating symbol of the winged sun disc in Urartian religious iconography testifies the significant role and importance of the sun in worship. The stylistic variation and peculiar iconographic features of the winged discs, sacred animals and divine images associated with solar deity shows the relationship between the cult of the sun god, sequence of the different phases of the year and constellations in Urartian culture. Such kind of iconography is possibly formed and stylized in result of interaction of ancient human imaginations, influence of rock paintings and religious beliefs.

Pyschodermatology: a trip through history*

PubMed Central

França, Katlein; Chacon, Anna; Ledon, Jennifer; Savas, Jessica; Nouri, Keyvan

2013-01-01

The interaction between the mind and diseases of the skin has been the study focus for many researchers worldwide. The field of Psychodermatology, or Psychocutaneous Medicine, is the result of the merging of two major medical specialties, psychiatry and dermatology. Although the history of Psychodermatology is rather old and interesting, the field has only recently gained popularity. Since ancient times, philosophers, surgeons, dermatologists and psychiatrists have reported the presence of psychocutaneous diseases in various scenarios. In this article, the authors describe curious and remarkable facts in the history of Psychodermatology. PMID:24173201

Ancient Egypt.

ERIC Educational Resources Information Center

Evers, Virginia

This four-week fourth grade social studies unit dealing with religious dimensions in ancient Egyptian culture was developed by the Public Education Religion Studies Center at Wright State University. It seeks to help students understand ancient Egypt by looking at the people, the culture, and the people's world view. The unit begins with outlines…

Evolution of Management Thought in the Ancient Times.

ERIC Educational Resources Information Center

Sharma, C. L.

This paper argues that although systematic management thought is a distinctly modern development, the writings of ancient scholars and records of ancient rulers infer that they understood the rudiments of management principles and concepts. To support this thesis, the author reviews the evidence of management practices and concepts in various…

76 FR 73759 - Culturally Significant Objects Imported for Exhibition Determinations: “Ancient Egypt-Art and...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-11-29

... DEPARTMENT OF STATE [Public Notice 7700] Culturally Significant Objects Imported for Exhibition Determinations: ``Ancient Egypt--Art and Magic: Treasures From the Foundation Gandur pour L'Art, Geneva..., 2003), I hereby determine that the objects to be included in the exhibition ``Ancient Egypt--Art and...

Attitudes Toward Deviant Sex in Ancient Mesopotamia

ERIC Educational Resources Information Center

Bullough, Vern L.

1971-01-01

The article concludes that the whole question of sexual life in ancient Mesopotamia is difficult to reconstruct and fraught with many uncertainties. Nevertheless, it seems certain that the ancient Mesopotamians had fewer prohibitions against sex than our own civilization, and regarded as acceptable many practices which later societies condemned.…

Clay Mask Workshop

ERIC Educational Resources Information Center

Gamble, David L.

2012-01-01

Masks can represent so many things, such as emotions (happy, sad, fearful) and power. The familiar "comedy and tragedy" masks, derived from ancient Greek theater, are just one example from mask history. Death masks from the ancient Egyptians influenced the ancient Romans into creating similar masks for their departed. Masks can represent many…

An Ancient Inca Tax and Metallurgy in Peru

ERIC Educational Resources Information Center

Journal of Chemical Education, 2007

2007-01-01

The discovery of ancient Inca tax rulers and other metallurgical objects in Peru show that the ancient civilizations of the country smelted metals. The analysis shows that the smelters in Peru switched from the production of copper to silver after a tax was imposed on them by the Inca rulers.

Middle School Law Awareness Curriculum Guide, 1980.

ERIC Educational Resources Information Center

Seminole County Board of Public Instruction, Sanford, FL.

Materials, activities, and lesson plans for educating middle school students about the law and the legal system are presented. Materials for the sixth grade are contained in six sections: (1) Prehistoric Man; (2) Ancient Civilizations; (3) Ancient Greece; (4) Ancient Rome; (5) Medieval Civilizations; and (6) the Renaissance. Grade 7 has three…

Ancient DNA and the rewriting of human history: be sparing with Occam's razor.

PubMed

Haber, Marc; Mezzavilla, Massimo; Xue, Yali; Tyler-Smith, Chris

2016-01-11

Ancient DNA research is revealing a human history far more complex than that inferred from parsimonious models based on modern DNA. Here, we review some of the key events in the peopling of the world in the light of the findings of work on ancient DNA.

Communication Media in Ancient Cultures.

ERIC Educational Resources Information Center

Jabusch, David M.

Interest in early means of communication and in the uses and kinds of media that existed in ancient cultures is starting to grow among communication scholars. Conversation analysis of these cultures is obviously impossible, so that the emphasis must rest with material cultural artifacts. Many ancient cultures used non-verbal codes for dyadic…

Teff, buckwheat, quinoa and amaranth: Ancient whole grain gluten-free egg-free pasta

USDA-ARS?s Scientific Manuscript database

This report demonstrates innovative ancient whole grains, gluten-free, egg-free pasta (no chemicals added) made using a kitchen counter-top appliance. Whole grain, fusilli pasta was prepared with teff, buckwheat, quinoa and amaranth flours. These ancient grains are called “Super Foods” due to thei...

Views of Ancient Egypt. Teacher's Guide. School Arts: Looking/Learning.

ERIC Educational Resources Information Center

Downs, Linda; Brenner, Carla

This teaching guide discusses ancient Egyptian culture, the lithographs made by Napoleon's scientists in 1798-99 to study and record every aspect of Egypt, the world's subsequent fascination with Egypt, ancient Egyptian architecture, Egyptian writing, and archeologists' illustrations of Egypt. The guide suggests activities for elementary school,…

An Application of the Cosmologic Concepts and Astronomical Symbols in the Ancient Medical Science and Astrology Systems

NASA Astrophysics Data System (ADS)

Pikichyan, H. V.

2015-07-01

Employing the cosmologic concepts and astronomical symbols, the features of the ancient subjective approach of the achievement or perception of the knowledge and its systematic delivery ways are presented. In particular, the ancient systems of the natural medical science and the art of astrology are discussed, whereas the relations of the five cosmological elements, three dynamical agents, nine luminaries and twelve zodiac signs are applied. It is pointed out some misunderstandings encountered in the contemporary interpretation on the evaluation of ancient systems of the knowledge.

Meteor Beliefs Project: The Palladium in ancient and early Medieval sources

NASA Astrophysics Data System (ADS)

McBeath, A. Alistair; Gheorghe, A. D.

2004-08-01

An examination of the, apparently meteoritic, object, anciently called the Palladium after the Greek goddess Pallas Athene, is presented, as discussed in various ancient and early medieval sources. Although made of wood, the Palladium was believed to have fallen from the sky. In myths, it was a powerful totemic object, first at the legendary city of Troy, then later at Rome, and had magically protective properties associated with it. Despite its implausibly meteoritic nature, the Palladium can be suggested as supporting the case for ancient meteorite worship.

[Venom as a cure--some notes on ancient medicine].

PubMed

Teichfischer, Philipp

2015-01-01

Very little is known today about the linguistics and facts relating to venoms in the ancient world. The article concerns itself initially with the terminology: How were venoms conceptualized and what position did they occupy among medicines and other poisons? Additionally ancient knowledge of the constitution and location of the venoms will be examined. Furthermore, it shall be outlined how it was perceived that the poisons actually took effect. The results of our investigations indicate that it was unlikely that venoms were used for medicinal purposes in ancient times.

Black Contributions to the Early History of Western Medicine: Lack of Recognition as a Cause of Black Under-Representation in US Medical Schools

PubMed Central

Newsome, Frederick

1979-01-01

During several millenia, blacks in ancient Egypt made numerous contributions to medicine and were acknowledged as the inventors of the art of medicine. They produced the earliest physicians, medical knowledge, and medical literature. They contributed to the development of medicine in ancient Greece. Ancient writers, including Herodotus, Isocrates, and Diodorus, affirm this. Modern presentations of ancient medicine, however, deprive blacks of the knowledge of their early contributions to medicine by ignoring or subtly misrepresenting the black identity of the ancient Egyptians. Blacks are currently under-represented in US medical schools. It is proposed that the recognition of the contributions of blacks to the early history of Western medicine would inspire black students to study medicine. PMID:423296

Investigation on maternal lineage of a Neolithic group from northern Shaanxi based on ancient DNA.

PubMed

Zhao, Jing; Liu, Fang-E; Lin, Song; Liu, Zhi-Zhen; Sun, Zhou-Yong; Wu, Xiao-Ming; Zhang, Hu-Qin

2017-09-01

A magnetic bead purification method was successfully used to extract ancient DNA from the skeletal remains of 10 specimens excavated from Wuzhuangguoliang (Wzhgl) site, which was located in northern Shaanxi. The multidimensional scaling (MDS) and analysis of molecular variance approach (AMOVA) revealed that ancient Wzhgl people bored a very high similarity to southern Han Chinese. By constructing the MJ-network of various modern people including Han Chinese and Japanese, the phylogenetic analysis indicated that the Wzhgl population had close maternal distance with ancient Shandong and Xinjiang people. These findings indicated that Wzhgl contributed to the gene pool of Han Chinese and modern Japanese. In addition, population migration and interflow between Wzhgl people and ancient Shandong or Xinjiang probably occurred in Neolithic period.

The building stones of ancient Egypt a gift of its geology

NASA Astrophysics Data System (ADS)

Klemm, Dietrich D.; Klemm, Rosemarie

2001-08-01

Building stones and clay-rich Nile mud were ancient Egypt's main raw construction materials. While the mud was easily accessible along the Nile river valley, the immense quantities of the different stone materials used for construction of the famous pyramids, precious temples and tombs needed a systematic quarrying organization, well arranged transport logistics over extreme distances and a high standard of stone masonry. The petrography, occurrence, and main applications of the 11 most popular stone types used in ancient Egypt are described in this contribution. Rough estimates of the scale of this mining activity, based on the volume of many different ancient quarry sites, all over Egypt, reveal that the monuments known today represent only a small fraction of the amount of building stones mined during the long, ancient Egyptian history.

Ancient Resistome.

PubMed

Olaitan, Abiola Olumuyiwa; Rolain, Jean-Marc

2016-08-01

Antibiotic resistance is an ancient biological mechanism in bacteria, although its proliferation in our contemporary world has been amplified through antimicrobial therapy. Recent studies conducted on ancient environmental and human samples have uncovered numerous antibiotic-resistant bacteria and resistance genes. The resistance genes that have been reported from the analysis of ancient bacterial DNA include genes coding for several classes of antibiotics, such as glycopeptides, β-lactams, tetracyclines, and macrolides. The investigation of the resistome of ancient bacteria is a recent and emerging field of research, and technological advancements such as next-generation sequencing will further contribute to its growth. It is hoped that the knowledge gained from this research will help us to better understand the evolution of antibiotic resistance genes and will also be used in drug design as a proactive measure against antibiotic resistance.

Ancient DNA and the tropics: a rodent's tale.

PubMed

Gutiérrez-García, Tania A; Vázquez-Domínguez, Ella; Arroyo-Cabrales, Joaquín; Kuch, Melanie; Enk, Jacob; King, Christine; Poinar, Hendrik N

2014-06-01

Most genetic studies of Holocene fauna have been performed with ancient samples from dry and cold regions, in which preservation of fossils is facilitated and molecular damage is reduced. Ancient DNA work from tropical regions has been precluded owing to factors that limit DNA preservation (e.g. temperature, hydrolytic damage). We analysed ancient DNA from rodent jawbones identified as Ototylomys phyllotis, found in Holocene and Late Pleistocene stratigraphic layers from Loltún, a humid tropical cave located in the Yucatan peninsula. We extracted DNA and amplified six short overlapping fragments of the cytochrome b gene, totalling 666 bp, which represents an unprecedented success considering tropical ancient DNA samples. We performed genetic, phylogenetic and divergence time analyses, combining sequences from ancient and modern O. phyllotis, in order to assess the ancestry of the Loltún samples. Results show that all ancient samples fall into a unique clade that diverged prior to the divergence of the modern O. phyllotis, supporting it as a distinct Pleistocene form of the Ototylomys genus. Hence, this rodent's tale suggests that the sister group to modern O. phyllotis arose during the Miocene-Pliocene, diversified during the Pleistocene and went extinct in the Holocene. © 2014 The Author(s) Published by the Royal Society. All rights reserved.

Environmental Effects on Volcanic Eruptions:From Deep Ocean to Deep Space. Chapter 3. Volcanism and Ice Interactions on Earth and Mars. Chapter 3

NASA Technical Reports Server (NTRS)

Chapman, Mary G.; Allen, Carlton C.; Gudmundsson, Magnus T.; Gulick, Virginia C.; Jakobsson, Sveinn P.; Lucchitta, Baerbel K.; Skilling, Ian P.; Waitt, Richard B.

2000-01-01

CONCLUSION Volcano/ice interactions produce meltwater. Meltwater can enter the groundwater cycle and under the influence of hydrothermal systems, it can be later discharged to form channels and valleys or cycled upward to melt permafrost. Water or ice-saturated ground can erupt into phreatic craters when covered by lava. Violent mixing of meltwater and volcanic material and rapid release can generate lahars or jokulhlaups, that have the ability to freight coarse material, great distances downslope from the vent. Eruption into meltwater generate unique appearing edifices, that are definitive indicators of volcano/ice interaction. These features are hyaloclastic ridges or mounds and if capped by lava, tuyas. On Earth, volcano/ice interactions are limited to alpine regions and ice-capped polar and temperate regions. On Mars, where precipitation may be an ancient phenomenon, these interactions may be limited to areas of ground ice accumulation or the northern lowlands where water may have ponded fairly late in martian history. The recognition of features caused by volcano/ice interactions could provide strong constraints for the history of volatiles on Mars.

Mitochondrial DNA and Y-chromosomal diversity in ancient populations of domestic sheep (Ovis aries) in Finland: comparison with contemporary sheep breeds.

PubMed

Niemi, Marianna; Bläuer, Auli; Iso-Touru, Terhi; Nyström, Veronica; Harjula, Janne; Taavitsainen, Jussi-Pekka; Storå, Jan; Lidén, Kerstin; Kantanen, Juha

2013-01-22

Several molecular and population genetic studies have focused on the native sheep breeds of Finland. In this work, we investigated their ancestral sheep populations from Iron Age, Medieval and Post-Medieval periods by sequencing a partial mitochondrial DNA D-loop and the 5'-promoter region of the SRY gene. We compared the maternal (mitochondrial DNA haplotypes) and paternal (SNP oY1) genetic diversity of ancient sheep in Finland with modern domestic sheep populations in Europe and Asia to study temporal changes in genetic variation and affinities between ancient and modern populations. A 523-bp mitochondrial DNA sequence was successfully amplified for 26 of 36 sheep ancient samples i.e. five, seven and 14 samples representative of Iron Age, Medieval and Post-Medieval sheep, respectively. Genetic diversity was analyzed within the cohorts. This ancient dataset was compared with present-day data consisting of 94 animals from 10 contemporary European breeds and with GenBank DNA sequence data to carry out a haplotype sharing analysis. Among the 18 ancient mitochondrial DNA haplotypes identified, 14 were present in the modern breeds. Ancient haplotypes were assigned to the highly divergent ovine haplogroups A and B, haplogroup B being the major lineage within the cohorts. Only two haplotypes were detected in the Iron Age samples, while the genetic diversity of the Medieval and Post-Medieval cohorts was higher. For three of the ancient DNA samples, Y-chromosome SRY gene sequences were amplified indicating that they originated from rams. The SRY gene of these three ancient ram samples contained SNP G-oY1, which is frequent in modern north-European sheep breeds. Our study did not reveal any sign of major population replacement of native sheep in Finland since the Iron Age. Variations in the availability of archaeological remains may explain differences in genetic diversity estimates and patterns within the cohorts rather than demographic events that occurred in the past. Our ancient DNA results fit well with the genetic context of domestic sheep as determined by analyses of modern north-European sheep breeds.

Mitochondrial DNA and Y-chromosomal diversity in ancient populations of domestic sheep (Ovis aries) in Finland: comparison with contemporary sheep breeds

PubMed Central

2013-01-01

Background Several molecular and population genetic studies have focused on the native sheep breeds of Finland. In this work, we investigated their ancestral sheep populations from Iron Age, Medieval and Post-Medieval periods by sequencing a partial mitochondrial DNA D-loop and the 5’-promoter region of the SRY gene. We compared the maternal (mitochondrial DNA haplotypes) and paternal (SNP oY1) genetic diversity of ancient sheep in Finland with modern domestic sheep populations in Europe and Asia to study temporal changes in genetic variation and affinities between ancient and modern populations. Results A 523-bp mitochondrial DNA sequence was successfully amplified for 26 of 36 sheep ancient samples i.e. five, seven and 14 samples representative of Iron Age, Medieval and Post-Medieval sheep, respectively. Genetic diversity was analyzed within the cohorts. This ancient dataset was compared with present-day data consisting of 94 animals from 10 contemporary European breeds and with GenBank DNA sequence data to carry out a haplotype sharing analysis. Among the 18 ancient mitochondrial DNA haplotypes identified, 14 were present in the modern breeds. Ancient haplotypes were assigned to the highly divergent ovine haplogroups A and B, haplogroup B being the major lineage within the cohorts. Only two haplotypes were detected in the Iron Age samples, while the genetic diversity of the Medieval and Post-Medieval cohorts was higher. For three of the ancient DNA samples, Y-chromosome SRY gene sequences were amplified indicating that they originated from rams. The SRY gene of these three ancient ram samples contained SNP G-oY1, which is frequent in modern north-European sheep breeds. Conclusions Our study did not reveal any sign of major population replacement of native sheep in Finland since the Iron Age. Variations in the availability of archaeological remains may explain differences in genetic diversity estimates and patterns within the cohorts rather than demographic events that occurred in the past. Our ancient DNA results fit well with the genetic context of domestic sheep as determined by analyses of modern north-European sheep breeds. PMID:23339395

Periodic and chaotic host-parasite interactions in human malaria.

PubMed Central

Kwiatkowski, D; Nowak, M

1991-01-01

It has been recognized since ancient times that malaria fever is highly periodic but the mechanism has been poorly understood. Malaria fever is related to the parasite growth cycle in erythrocytes. After a fixed period of replication, a mature parasite (schizont) causes the infected erythrocyte to rupture, releasing progeny that quickly invade other erythrocytes. Simultaneous rupture of a large number of schizonts stimulates a host fever response. Febrile temperatures are damaging to Plasmodium falciparum, particularly in the second half of its 48-hr replicative cycle. Using a mathematical model, we show that these interactions naturally tend to generate periodic fever. The model predicts chaotic parasite population dynamics at high multiplication rates, consistent with the classical observation that P. falciparum causes less regular fever than other species of parasite. PMID:2052590

Phenotypic responses to microbial volatiles render a mold fungus more susceptible to insect damage.

PubMed

Caballero Ortiz, Silvia; Trienens, Monika; Pfohl, Katharina; Karlovsky, Petr; Holighaus, Gerrit; Rohlfs, Marko

2018-04-01

In decomposer systems, fungi show diverse phenotypic responses to volatile organic compounds of microbial origin (volatiles). The mechanisms underlying such responses and their consequences for the performance and ecological success of fungi in a multitrophic community context have rarely been tested explicitly. We used a laboratory-based approach in which we investigated a tripartite yeast-mold-insect model decomposer system to understand the possible influence of yeast-borne volatiles on the ability of a chemically defended mold fungus to resist insect damage. The volatile-exposed mold phenotype (1) did not exhibit protein kinase A-dependent morphological differentiation, (2) was more susceptible to insect foraging activity, and (3) had reduced insecticidal properties. Additionally, the volatile-exposed phenotype was strongly impaired in secondary metabolite formation and unable to activate "chemical defense" genes upon insect damage. These results suggest that volatiles can be ecologically important factors that affect the chemical-based combative abilities of fungi against insect antagonists and, consequently, the structure and dynamics of decomposer communities.

Bioremediation using Gracilaria chouae co-cultured with Sparus macrocephalus to manage the nitrogen and phosphorous balance in an IMTA system in Xiangshan Bay, China.

PubMed

Wu, Hailong; Huo, Yuanzi; Han, Fang; Liu, Yuanyuan; He, Peimin

2015-02-15

A cage experiment using the red alga Gracilaria chouae co-cultured with the black seabream Sparus macrocephalus in Xiangshan Bay, China was conducted to measure the nutrient flux of the integrated multi-trophic aquaculture (IMTA) system. Results showed that trash fish were the main nutrient input contributor and adult fish were the main nutrient output contributor in the system. Contents of N and P in adult fish accounted for 54.45% and 59.48% of N and P in trash fish and fry, which suggests that 45.55% of N and 40.52% of P generated by fish farming were released into to the water. G. chouae proved to be an efficient bioremediation species in this IMTA system. To balance the excess nutrients generated by the system, 231.09 kg of seedlings should be cultured and 5315.07 kg of adult seaweed should be harvested. Copyright © 2014 Elsevier Ltd. All rights reserved.

Short-Term Effects of the Anti-sea Lice Therapeutant Emamectin Benzoate on Clam Worms (Nereis virens).

PubMed

McBriarty, G J; Kidd, K A; Burridge, L E

2018-05-01

The polychaete Nereis virens occurs commonly in marine sediments, is widely distributed, and is a popular bait species, as well as a potential replacement for wild-caught fish in commercial fish feed preparations. It is being considered as a potential co-extractive species for culture in integrated multi-trophic aquaculture operations. However, it is not known whether pesticides or drugs used to treat sea lice on farmed salmon, such as emamectin benzoate (EB), would adversely affect cultured or wild worms, because these compounds may persist in the environment. To determine the potential effects of EB to N. virens, bioassays were performed wherein worms were exposed in sand for 30 days to a concentration of 400 µg/kg dw (nominal). While no treatment-related mortality occurred, significant decreases in worm mass and marked behavioral changes (lack of burrowing) were observed in EB-treated sand compared with controls. These lab-based observations suggest a potential hazard to worms at sites where EB treatments have occurred.

Recognition of foreign oviposition-marking pheromone in a multi-trophic context

NASA Astrophysics Data System (ADS)

Stelinski, L. L.; Rodriguez-Saona, C.; Meyer, W. L.

2009-05-01

Both phytophagous and parasitic insects deposit oviposition-marking pheromones (OMPs) following oviposition that function to inform conspecifics of a previously utilized host of reduced suitability. The blueberry maggot fly, Rhagoletis mendax Curran (Diptera: Tephritidae), deposits eggs individually into blueberries and then marks the fruit surface with an OMP which reduces acceptance of fruit for oviposition by conspecifics. Diachasma alloeum (Muesebeck) (Hymenoptera: Braconidae) is a parasitic wasp attacking larval R. mendax which also deposits an OMP, signaling conspecifics of a wasp-occupied host. Behavioral studies were conducted testing the hypothesis that the OMP of the parasitic wasp modifies the oviposition behavior of its host fly. In this study, we show that the OMP of D. alloeum is recognized by R. mendax, and female flies will reject wasp-marked fruit for oviposition. Thus, we present a rare demonstration of pheromonal recognition between animals occupying different taxonomic orders and trophic levels. This chemical eavesdropping may enhance the ability of the fly to avoid fruit unsuitable for larval development.

Strategies to improve the mechanical strength and water resistance of agar films for food packaging applications.

PubMed

Sousa, Ana M M; Gonçalves, Maria P

2015-11-05

Agar films possess several properties adequate for food packaging applications. However, their high cost-production and quality variations caused by physiological and environmental factors affecting wild seaweeds make them less attractive for industries. In this work, native (NA) and alkali-modified (AA) agars obtained from sustainably grown seaweeds (integrated multi-trophic aquaculture) were mixed with locust bean gum (LBG) to make 'knife-coated' films with fixed final concentration (1 wt%) and variable agar/LBG ratios. Agar films were easier to process upon LBG addition (viscosity increase and gelling character decrease of the film-forming solutions observed by dynamic oscillatory and steady shear measurements). The mechanical properties and water resistance were optimal for films with 50 and/or 75% LBG contents and best in the case of NA (cheaper to extract). These findings can help reduce the cost-production of agar packaging films. Moreover, the controlled cultivation of seaweeds can provide continuous and reliable feedstock for transformation industries. Copyright © 2015 Elsevier Ltd. All rights reserved.

Development of a seaweed species-selection index for successful culture in a seaweed-based integrated aquaculture system

NASA Astrophysics Data System (ADS)

Kang, Yun Hee; Hwang, Jae Ran; Chung, Ik Kyo; Park, Sang Rul

2013-03-01

Integrated multi-trophic aquaculture (IMTA) has been proposed as a concept that combines the cultivation of fed aquaculture species ( e.g., finfish/shrimp) with extractive aquaculture species ( e.g., shellfish/seaweed). In seaweed-based integrated aquaculture, seaweeds have the capacity to reduce the environmental impact of nitrogen-rich effluents on coastal ecosystems. Thus, selection of optimal species for such aquaculture is of great importance. The present study aimed to develop a seaweed species-selection index for selecting suitable species in seaweed-based integrated aquaculture system. The index was synthesized using available literature-based information, reference data, and physiological seaweed experiments to identify and prioritize the desired species. Undaria pinnatifida, Porphyra yezoensis and Ulva compressa scored the highest according to a seaweed-based integrated aquaculture suitability index (SASI). Seaweed species with the highest scores were adjudged to fit the integrated aquaculture systems. Despite the application of this model limited by local aquaculture environment, it is considered to be a useful tool for selecting seaweed species in IMTA.

76 FR 23642 - Culturally Significant Objects Imported for Exhibition Determinations: “Marajo: Ancient Ceramics...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-04-27

... DEPARTMENT OF STATE [Public Notice: 7432] Culturally Significant Objects Imported for Exhibition Determinations: ``Marajo: Ancient Ceramics at the Mouth of the Amazon'' SUMMARY: Notice is hereby given of the... that the objects to be included in the exhibition ``Marajo: Ancient Ceramics at the Mouth of the Amazon...

Harappans and Aryans: Old and New Perspectives of Ancient Indian History.

ERIC Educational Resources Information Center

Manian, Padma

1998-01-01

Examines how nine world history texts treat the Harappan (Indus) civilization and the Aryans in ancient India. Analyzes the pioneering scholars of Indian studies, exploring the development of ideas about ancient Indian history. Discusses the ideas of recent scholars about the Aryan invasion theory, the Indus civilization, and the Vedas. (CMK)

Ancient whole grain Gluten-free egg-free Teff, Buckwheat, Quinoa and Amaranth pasta (abstract)

USDA-ARS?s Scientific Manuscript database

This report demonstrates innovative ancient whole grain, gluten-free, egg-free pasta (no chemicals added) made using a kitchen counter-top appliance. Whole grain, fusilli pasta was prepared with teff, buckwheat, quinoa and amaranth flours. These ancient grains are called “Super Foods” due to thei...

Notions of "Rhetoric as Epistemic" in Ancient Greece.

ERIC Educational Resources Information Center

Benoit, William L.

The notion that rhetoric (and to a lesser extent, argument) is epistemic is an increasingly popular one today, although it can be traced to ancient Greece. The notion holds that rhetoric, or the art of persuasion, creates and shapes knowledge. Two ancient authors--Aristophanes and Plato--provide evidence that others had notions of rhetoric as…

Ancient scientific basis of the "great serpent" from historical evidence.

PubMed

Stothers, Richard B

2004-06-01

Zoological data and a growing mythology contributed to ancient Western knowledge about large serpents. Yet little modern attention has been paid to the sources, transmission, and receipt in the early Middle Ages of the ancients' information concerning "dragons" and "sea serpents." Real animals--primarily pythons and whales--lie behind the ancient stories. Other animals, conflations of different animals, simple misunderstandings, and willful exaggerations are found to account for the fanciful embellishments, but primitive myths played no significant role in this process during classical times. The expedition of Alexander the Great into India (327-325 B.C.) and the Bagradas River incident in North Africa (256 B.C.) had enormous repercussions on the development of serpent lore. Credible evidence is found for the presence of ancient populations of pythons living along the North African coast west of Egypt and along the coast of the Arabian Sea between the Indus River and the Strait of Hormuz--places where they no longer exist today. The maximum sizes of ancient pythons may have been greater than those of today's specimens.

Ancient scientific basis of the "great serpent" from historical evidence

NASA Technical Reports Server (NTRS)

Stothers, Richard B.

2004-01-01

Zoological data and a growing mythology contributed to ancient Western knowledge about large serpents. Yet little modern attention has been paid to the sources, transmission, and receipt in the early Middle Ages of the ancients' information concerning "dragons" and "sea serpents." Real animals--primarily pythons and whales--lie behind the ancient stories. Other animals, conflations of different animals, simple misunderstandings, and willful exaggerations are found to account for the fanciful embellishments, but primitive myths played no significant role in this process during classical times. The expedition of Alexander the Great into India (327-325 B.C.) and the Bagradas River incident in North Africa (256 B.C.) had enormous repercussions on the development of serpent lore. Credible evidence is found for the presence of ancient populations of pythons living along the North African coast west of Egypt and along the coast of the Arabian Sea between the Indus River and the Strait of Hormuz--places where they no longer exist today. The maximum sizes of ancient pythons may have been greater than those of today's specimens.

Limited contribution of ancient methane to surface waters of the U.S. Beaufort Sea shelf

PubMed Central

Sparrow, Katy J.; Kessler, John D.; Southon, John R.; Garcia-Tigreros, Fenix; Schreiner, Kathryn M.; Ruppel, Carolyn D.; Miller, John B.; Lehman, Scott J.; Xu, Xiaomei

2018-01-01

In response to warming climate, methane can be released to Arctic Ocean sediment and waters from thawing subsea permafrost and decomposing methane hydrates. However, it is unknown whether methane derived from this sediment storehouse of frozen ancient carbon reaches the atmosphere. We quantified the fraction of methane derived from ancient sources in shelf waters of the U.S. Beaufort Sea, a region that has both permafrost and methane hydrates and is experiencing significant warming. Although the radiocarbon-methane analyses indicate that ancient carbon is being mobilized and emitted as methane into shelf bottom waters, surprisingly, we find that methane in surface waters is principally derived from modern-aged carbon. We report that at and beyond approximately the 30-m isobath, ancient sources that dominate in deep waters contribute, at most, 10 ± 3% of the surface water methane. These results suggest that even if there is a heightened liberation of ancient carbon–sourced methane as climate change proceeds, oceanic oxidation and dispersion processes can strongly limit its emission to the atmosphere. PMID:29349299

Limited contribution of ancient methane to surface waters of the U.S. Beaufort Sea shelf

USGS Publications Warehouse

Sparrow, Katy J.; Kessler, John D.; Southon, John R.; Garcia-Tigreros, Fenix; Schreiner, Kathryn M.; Ruppel, Carolyn D.; Miller, John B.; Lehman, Scott J.; Xu, Xiaomei

2018-01-01

In response to warming climate, methane can be released to Arctic Ocean sediment and waters from thawing subsea permafrost and decomposing methane hydrates. However, it is unknown whether methane derived from this sediment storehouse of frozen ancient carbon reaches the atmosphere. We quantified the fraction of methane derived from ancient sources in shelf waters of the U.S. Beaufort Sea, a region that has both permafrost and methane hydrates and is experiencing significant warming. Although the radiocarbon-methane analyses indicate that ancient carbon is being mobilized and emitted as methane into shelf bottom waters, surprisingly, we find that methane in surface waters is principally derived from modern-aged carbon. We report that at and beyond approximately the 30-m isobath, ancient sources that dominate in deep waters contribute, at most, 10 ± 3% of the surface water methane. These results suggest that even if there is a heightened liberation of ancient carbon–sourced methane as climate change proceeds, oceanic oxidation and dispersion processes can strongly limit its emission to the atmosphere.

Ancient DNA analysis reveals woolly rhino evolutionary relationships.

PubMed

Orlando, Ludovic; Leonard, Jennifer A; Thenot, Aurélie; Laudet, Vincent; Guerin, Claude; Hänni, Catherine

2003-09-01

With ancient DNA technology, DNA sequences have been added to the list of characters available to infer the phyletic position of extinct species in evolutionary trees. We have sequenced the entire 12S rRNA and partial cytochrome b (cyt b) genes of one 60-70,000-year-old sample, and partial 12S rRNA and cyt b sequences of two 40-45,000-year-old samples of the extinct woolly rhinoceros (Coelodonta antiquitatis). Based on these two mitochondrial markers, phylogenetic analyses show that C. antiquitatis is most closely related to one of the three extant Asian rhinoceros species, Dicerorhinus sumatrensis. Calculations based on a molecular clock suggest that the lineage leading to C. antiquitatis and D. sumatrensis diverged in the Oligocene, 21-26 MYA. Both results agree with morphological models deduced from palaeontological data. Nuclear inserts of mitochondrial DNA were identified in the ancient specimens. These data should encourage the use of nuclear DNA in future ancient DNA studies. It also further establishes that the degraded nature of ancient DNA does not completely protect ancient DNA studies based on mitochondrial data from the problems associated with nuclear inserts.

History, etymology, and fallacy: attitudes toward male masturbation in the ancient Western world.

PubMed

Elia, J P

1987-01-01

This article examines the attitudes toward male masturbation in the ancient western world. More specifically, this work deals with ancient Egypt, Greece, and Rome. By comparing each epoch and geographic region, intolerance of autoerotic activity can be seen. Although there is a pattern of intolerance, the act of masturbation is always viewed provisionally. In addition, by examining these three periods of history not only can attitudes be scrutinized, but also it can be seen quite clearly that there was no golden age of sexuality: The attitude of accepted and encouraged unlimited and varied sexual practices does not exist in the ancient western world. As in many other cultures in various stages of history, procreative sexuality is the dominating theme. Thus, current attitudes of sex are derived from, and still survive due to the influence of, ancient western civilization.

An investigation into the ancient abortion laws: comparing ancient Persia with ancient Greece and Rome.

PubMed

Yarmohammadi, Hassan; Zargaran, Arman; Vatanpour, Azadeh; Abedini, Ehsan; Adhami, Siamak

2013-01-01

Since the dawn of medicine, medical rights and ethics have always been one of mankind's concerns. In any civilisation, attention paid to medical laws and ethics depends on the progress of human values and the advancement of medical science. The history of various civilisations teaches that each had its own views on medical ethics, but most had something in common. Ancient civilisations such as Greece, Rome, or Assyria did not consider the foetus to be alive and therefore to have human rights. In contrast, ancient Persians valued the foetus as a living person equal to others. Accordingly, they brought laws against abortion, even in cases of sexual abuse. Furthermore, abortion was considered to be a murder and punishments were meted out to the mother, father, and the person performing it.

[Tuberculosis in ancient Egypt].

PubMed

Ziskind, B; Halioua, B

2007-12-01

Did Tuberculosis plague Ancient Egypt five millennia ago? Some medical papyri appear to evoke tuberculosis. Egyptian physicians did not individualize it, but they seem to have noticed some of its clinical expressions, such as cough, cervical adenitis, and cold abscesses. In Egyptian iconography, some cases of hump-backs were probably due to Pott's disease of the spine Descriptive paleopathology, born with the 20th century, has identified pulmonary and especially spinal lesions compatible with tuberculosis. Progress of molecular biology has made a decisive contribution with the diagnosis of tuberculosis on ancient samples. Tuberculosis has been identified using PCR in nearly a third of the Egyptian mummies recently examined. Spoligotyping has made it possible to re-evaluate the phylogenic tree of the Mycobacterium tuberculosis complex in Ancient Egypt. Tuberculosis certainly plagued the Nile Valley and appears to have been an important cause of mortality in Ancient Egypt.

[A study on the true nature of "Chinese jinseng"].

PubMed

Yang, Jeong-pil; Yeo, In-sok

2003-12-01

Studies generally, it is believed that the ancient 'Chinese ginseng' did exist due to the fact that it is clearly recorded in the Chinese historical and medicine-related sources. Although it is hard to deny that such 'ginseng' did exist in ancient China, the re-examination of its true nature is also necessary. In other words, certain refutation can be made against the claim that ancient 'Chinese jinseng' was in fact 'Panax jinseng' (C. A. Mey.), since the Chinese jinseng accounts do not tell that it is such. For example, when looking into its shape based on descriptions, the 'Chinese Jinseng' has black seed, hairy stem, and violet flower. ' Panax jinseng' on the other hand, has opal seed, no-hair stem, and light-green flower. In terms of cultivation centre, most of mainland China is unsuitable for Jinseng production with the exception of the Shangdang area of Shanxi province, which solely had the reputation of being the production centre of ancient 'Chinese jinseng'. However, when looking into the Chinese sources for jinseng-producing areas, they show that Hepei and Liaoning province and Jiangnan (south of the Yangtze river) areas also have had some jinseng-related history. Regardless of such instance, these regions did not cultivate Panax jinseng. As shown above, ancient 'Chinese jinseng' was far from being identical, in respect to its shape or production areas, to Panax jinseng. Hence, this study came to the conclusion that there is indeed very high skepticism about whether the true nature of 'jinseng' in ancient China was in fact Panax jinseng. On the contrary, there is higher possibility that the ancient 'Chinese jinseng' is totally different plant from Panax jinseng which is actually Codonopsis pilosula. When examining the shape and production areas of Codonopsis pilosula, it is closely matched with many parts of ancient 'Chinese jinseng' texts. In short, it is presumed that the 'Chinese jinseng' did indeed exist in ancient China but it was Codonopsis pilosula instead of Panax jinseng.

Ancient Egyptian herbal wines

PubMed Central

McGovern, Patrick E.; Mirzoian, Armen; Hall, Gretchen R.

2009-01-01

Chemical analyses of ancient organics absorbed into pottery jars from the beginning of advanced ancient Egyptian culture, ca. 3150 B.C., and continuing for millennia have revealed that a range of natural products—specifically, herbs and tree resins—were dispensed by grape wine. These findings provide chemical evidence for ancient Egyptian organic medicinal remedies, previously only ambiguously documented in medical papyri dating back to ca. 1850 B.C. They illustrate how humans around the world, probably for millions of years, have exploited their natural environments for effective plant remedies, whose active compounds have recently begun to be isolated by modern analytical techniques. PMID:19365069

Microbiology of ancient and modern hydrothermal systems.

PubMed

Reysenbach, A L; Cady, S L

2001-02-01

Hydrothermal systems have prevailed throughout geological history on earth, and ancient ARCHAEAN hydrothermal deposits could provide clues to understanding earth's earliest biosphere. Modern hydrothermal systems support a plethora of microorganisms and macroorganisms, and provide good comparisons for paleontological interpretation of ancient hydrothermal systems. However, all of the microfossils associated with ancient hydrothermal deposits reported to date are filamentous, and limited STABLE ISOTOPE analysis suggests that these microfossils were probably autotrophs. Therefore, the morphology and mode of carbon metabolism are attributes of microorganisms from modern hydrothermal systems that provide valuable information for interpreting the geological record using morphological and isotopic signatures.

Genetic Drift. The ancient Egyptian dwarfs of the Walters Art Museum.

PubMed

Kozma, Chahira

2010-10-01

The ancient Egyptians left an impressive artistic legacy documenting many aspects of their society including the existence of dwarfs as highly valued members. In previous publications in the Journal, I discussed dwarfs and skeletal dysplasia in ancient Egypt. In this study, I examined the ancient Egyptian representations of dwarfs of the Walters Art Museum in Baltimore, Maryland. One of the highlights of the collection is a group of five ivory figurines from Predynastic Times (pre 3500-3100 BCE) depicting a couple, a man with a child, and two females. Representations from other periods include ordinary as well as dwarf deities. The dwarf gods, Bes and Ptah, are frequently depicted holding or biting snakes or standing on crocodiles symbolizing their ability to ward off dangers. A couple of statuettes from the Greco-Roman Period that, in contrast to earlier Egyptian Periods, depict harsh physical anomalies, twisted bodies, and facial pain. The artistic impression can be interpreted as either tragic or humorous. The grotesque depiction of dwarfs during the Greco-Roman Period in ancient Egypt is believed to be due to a greater infusion of Hellenistic influence. This study provides a microcosm of the legacy of dwarfs in ancient Egypt and supports the premise that dwarfs were accepted and integrated in the ancient Egyptian society, and with a few exceptions, their disorder was not depicted as a physical handicap. Copyright © 2010 Wiley-Liss, Inc.

Evaluation of the safety of ancient strains of wheat in coeliac disease reveals heterogeneous small intestinal T cell responses suggestive of coeliac toxicity.

PubMed

Šuligoj, Tanja; Gregorini, Armando; Colomba, Mariastella; Ellis, H Julia; Ciclitira, Paul J

2013-12-01

Coeliac disease is a chronic small intestinal immune-mediated enteropathy triggered by dietary gluten in genetically predisposed individuals. Since it is unknown if all wheat varieties are equally toxic to coeliac patients seven Triticum accessions showing different origin (ancient/modern) and ploidy (di-, tetra- hexaploid) were studied. Selected strains of wheat were ancient Triticum monococcum precoce (AA genome) and Triticum speltoides (BB genome), accessions of Triticum turgidum durum (AABB genome) including two ancient (Graziella Ra and Kamut) and two modern (Senatore Cappelli and Svevo) durum strains of wheat and Triticum aestivum compactum (AABBDD genome). Small intestinal gluten-specific T-cell lines generated from 13 coeliac patients were tested with wheat accessions by proliferation assays. All strains of wheat independent of ploidy or ancient/modern origin triggered heterogeneous responses covering wide ranges of stimulation indices. Ancient strains of wheat, although previously suggested to be low or devoid of coeliac toxicity, should be tested for immunogenicity using gluten-specific T-cell lines from multiple coeliac patients rather than gluten-specific clones to assess their potential toxicity. Our findings provide further evidence for the need for a strict gluten-free diet in coeliac patients, including avoidance of ancient strains of wheat. Copyright © 2013 Elsevier Ltd and European Society for Clinical Nutrition and Metabolism. All rights reserved.

Integrated archaeological prospection of the 1th mile of ancient Appian way (Roma, Italy)

NASA Astrophysics Data System (ADS)

Manacorda, D.; Picciola, S.; Piro, S.

2003-04-01

The Project is based on the integration of archaeological methods with indirect geophysical investigations, to study the urban area, inside the “Mura Aureliane” in correspondence of the first mile of the ancient Appia way (Roma, Italy). This programme is characterised by: (a) Topographic studies through the evaluation of the connections between the ancient urban “regiones” I and XII, the ancient and medieval road network, the typology of public and private monuments of ancient age, the organisation of ancient necropolis, the study of the religious buildings of the ancient and medieval age and the evaluation of the environment; (b) Epigraphic studies to make card indexing of the known epigraphic context, the reconstruction of the epigraphic context missing during the excavations made between the XV and XIX centuries; (c) The study of documentation analysis of the documentation related to the building’s properties of the selected area for the period between XVI and XX centuries, to reconstruct the medieval and modern urban landscape; (d) Non-destructive geophysical investigations to locate the hypothised archaeological structures. In this work the results of a high-resolution GPR survey carried out, during October 2001 May 2002, to detect archaeological remains are presented. A high-resolution data acquisition method has been adopted with the aim to reconstruct a global vision of investigated area. Taking into account the known archaeological information, the geophysical results are discussed and preliminarily interpreted.

Genomic fossils reveal adaptation of non-autonomous pararetroviruses driven by concerted evolution of noncoding regulatory sequences.

PubMed

Chen, Sunlu; Zheng, Huizhen; Kishima, Yuji

2017-06-01

The interplay of different virus species in a host cell after infection can affect the adaptation of each virus. Endogenous viral elements, such as endogenous pararetroviruses (PRVs), have arisen from vertical inheritance of viral sequences integrated into host germline genomes. As viral genomic fossils, these sequences can thus serve as valuable paleogenomic data to study the long-term evolutionary dynamics of virus-virus interactions, but they have rarely been applied for this purpose. All extant PRVs have been considered autonomous species in their parasitic life cycle in host cells. Here, we provide evidence for multiple non-autonomous PRV species with structural defects in viral activity that have frequently infected ancient grass hosts and adapted through interplay between viruses. Our paleogenomic analyses using endogenous PRVs in grass genomes revealed that these non-autonomous PRV species have participated in interplay with autonomous PRVs in a possible commensal partnership, or, alternatively, with one another in a possible mutualistic partnership. These partnerships, which have been established by the sharing of noncoding regulatory sequences (NRSs) in intergenic regions between two partner viruses, have been further maintained and altered by the sequence homogenization of NRSs between partners. Strikingly, we found that frequent region-specific recombination, rather than mutation selection, is the main causative mechanism of NRS homogenization. Our results, obtained from ancient DNA records of viruses, suggest that adaptation of PRVs has occurred by concerted evolution of NRSs between different virus species in the same host. Our findings further imply that evaluation of within-host NRS interactions within and between populations of viral pathogens may be important.

World History. Volumes I and II. [Sahuarita High School Career Curriculum Project].

ERIC Educational Resources Information Center

Hoffman, Judy

Volumes I and II of a world history course, part of a high school career curriculum project, are outlined. Objectives are listed by course title. Course titles include: Early Communication - Languages and Writing; World History; Law and Order in Ancient Times; Early Transportation; Women in Ancient Times; Art and Literature in Ancient Times;…

China: A Simulation of Ancient Chung Kuo, the World's Most Ancient Civilization.

ERIC Educational Resources Information Center

Sargent, Marcia; Baral, Wanda

This simulation allows students to participate in the "ways" of ancient Chinese history and culture. The unit is organized into five major phases or "li's." Students may spend about one week on activities in each "li" which focuses on a major aspect of Chinese history, culture, or geography. In each "li"…

Finding Hidden Chemistry in Ancient Egyptian Artifacts: Pigment Degradation Taught in a Chemical Engineering Course

ERIC Educational Resources Information Center

Gime´nez, Javier

2015-01-01

The main objective of this work was to show the application of the study of ancient technology and science on teaching (and learning) chemistry in Chemical Engineering Undergraduate studies. Degradation patterns of pigments used in Ancient Egypt were incorporated in the syllabus of the course entitled "Technological and Scientific…

Relief Carvings: A Journey from Scandinavia to America

ERIC Educational Resources Information Center

Pandey, Annette H.

2010-01-01

The author could have chosen any ancient symbolic language, such as Egyptian or Pre-Columbian, but being from Denmark, she developed a unit that would introduce American students to artwork familiar to northern Europeans. Looking at examples of ancient art from Denmark and Sweden, students were to think about the use of symbols in ancient time and…

Comparative scaffolding and gap filling of ancient bacterial genomes applied to two ancient Yersinia pestis genomes

PubMed Central

Doerr, Daniel; Chauve, Cedric

2017-01-01

Yersinia pestis is the causative agent of the bubonic plague, a disease responsible for several dramatic historical pandemics. Progress in ancient DNA (aDNA) sequencing rendered possible the sequencing of whole genomes of important human pathogens, including the ancient Y. pestis strains responsible for outbreaks of the bubonic plague in London in the 14th century and in Marseille in the 18th century, among others. However, aDNA sequencing data are still characterized by short reads and non-uniform coverage, so assembling ancient pathogen genomes remains challenging and often prevents a detailed study of genome rearrangements. It has recently been shown that comparative scaffolding approaches can improve the assembly of ancient Y. pestis genomes at a chromosome level. In the present work, we address the last step of genome assembly, the gap-filling stage. We describe an optimization-based method AGapEs (ancestral gap estimation) to fill in inter-contig gaps using a combination of a template obtained from related extant genomes and aDNA reads. We show how this approach can be used to refine comparative scaffolding by selecting contig adjacencies supported by a mix of unassembled aDNA reads and comparative signal. We applied our method to two Y. pestis data sets from the London and Marseilles outbreaks, for which we obtained highly improved genome assemblies for both genomes, comprised of, respectively, five and six scaffolds with 95 % of the assemblies supported by ancient reads. We analysed the genome evolution between both ancient genomes in terms of genome rearrangements, and observed a high level of synteny conservation between these strains. PMID:29114402

Spiking of contemporary human template DNA with ancient DNA extracts induces mutations under PCR and generates nonauthentic mitochondrial sequences.

PubMed

Pusch, Carsten M; Bachmann, Lutz

2004-05-01

Proof of authenticity is the greatest challenge in palaeogenetic research, and many safeguards have become standard routine in laboratories specialized on ancient DNA research. Here we describe an as-yet unknown source of artifacts that will require special attention in the future. We show that ancient DNA extracts on their own can have an inhibitory and mutagenic effect under PCR. We have spiked PCR reactions including known human test DNA with 14 selected ancient DNA extracts from human and nonhuman sources. We find that the ancient DNA extracts inhibit the amplification of large fragments to different degrees, suggesting that the usual control against contaminations, i.e., the absence of long amplifiable fragments, is not sufficient. But even more important, we find that the extracts induce mutations in a nonrandom fashion. We have amplified a 148-bp stretch of the mitochondrial HVRI from contemporary human template DNA in spiked PCR reactions. Subsequent analysis of 547 sequences from cloned amplicons revealed that the vast majority (76.97%) differed from the correct sequence by single nucleotide substitutions and/or indels. In total, 34 positions of a 103-bp alignment are affected, and most mutations occur repeatedly in independent PCR amplifications. Several of the induced mutations occur at positions that have previously been detected in studies of ancient hominid sequences, including the Neandertal sequences. Our data imply that PCR-induced mutations are likely to be an intrinsic and general problem of PCR amplifications of ancient templates. Therefore, ancient DNA sequences should be considered with caution, at least as long as the molecular basis for the extract-induced mutations is not understood.

[Comparative research into the process of forming the theory of constitution in ancient western medicine and that of four trigrams constitution in Korean medicine and contents of two theories of constitution].

PubMed

Park, Joo-Hong

2009-06-01

After conducting comparative research into the process of forming the Theory of Constitution in Ancient Western Medicine and that of Four Trigrams Constitution(Sasang Constitution) in Korean Medicine and contents of two Theories of Constitution in terms of medical history, both theories were found to be formed by an interaction between philosophy and medicine, followed by a combination of the two, on a philosophical basis. The Theory of Constitution in Ancient Western Medicine began with the Theory of Four Elements presented by Empedocles, followed by the Theory of Four Humors presented by Hippocrates and the Theory of Four Temperaments by Galenos, forming and developing the Theory of Constitution. After the Middle Ages, there was no significant advance in the Theory of Constitution by modern times ; however, it developed into the theory of constitution type of Kretschmer and others after the 19th century and into the scientific theory of constitution based on genetics presented by Garrod and others early in the 20th century. The Theory of Four Trigrams Constitution began with the Theory of Constitution in Huangdi Neijing, followed by developments and influences of existing medicine called beginning, restoration, and revival periods and DongeuisoosebowonSaSangChoBonGwon based on the original philosophy of Four Trigrams presented by Lee Je-ma, which is found in GyeokChiGo, DongMuYuGo and so on, ultimately forming and developing into the Theory of Four Trigrams Constitution in Dongeuisoosebowon. Recently, a lot of research is being conducted into making it objective in order to achieve reproducibility in diagnosis and so forth of Four Trigrams Constitution.

Compositional data supports decentralized model of production and circulation of artifacts in the pre-Columbian south-central Andes.

PubMed

Lazzari, Marisa; Pereyra Domingorena, Lucas; Stoner, Wesley D; Scattolin, María Cristina; Korstanje, María Alejandra; Glascock, Michael D

2017-05-16

The circulation and exchange of goods and resources at various scales have long been considered central to the understanding of complex societies, and the Andes have provided a fertile ground for investigating this process. However, long-standing archaeological emphasis on typological analysis, although helpful to hypothesize the direction of contacts, has left important aspects of ancient exchange open to speculation. To improve understanding of ancient exchange practices and their potential role in structuring alliances, we examine material exchanges in northwest Argentina (part of the south-central Andes) during 400 BC to AD 1000 (part of the regional Formative Period), with a multianalytical approach (petrography, instrumental neutron activation analysis, laser ablation inductively coupled plasma mass spectrometry) to artifacts previously studied separately. We assess the standard centralized model of interaction vs. a decentralized model through the largest provenance database available to date in the region. The results show: ( i ) intervalley heterogeneity of clays and fabrics for ordinary wares; ( ii ) intervalley homogeneity of clays and fabrics for a wide range of decorated wares (e.g., painted Ciénaga); ( iii ) selective circulation of two distinct polychrome wares (Vaquerías and Condorhuasi); ( iv ) generalized access to obsidian from one major source and various minor sources; and ( v ) selective circulation of volcanic rock tools from a single source. These trends reflect the multiple and conflicting demands experienced by people in small-scale societies, which may be difficult to capitalize by aspiring elites. The study undermines centralized narratives of exchange for this period, offering a new platform for understanding ancient exchange based on actual material transfers, both in the Andes and beyond.

Combined use of FE-SEM+EDS, ToF-SIMS, XPS, XRD and OM for the study of ancient gilded artefacts

NASA Astrophysics Data System (ADS)

Ingo, G. M.; Riccucci, C.; Pascucci, M.; Messina, E.; Giuliani, C.; Biocca, P.; Tortora, L.; Fierro, G.; Di Carlo, G.

2018-07-01

Gilded brooches dating back to 16th-17th centuries CE were investigated by means of integrated and complementary analytical techniques such as high spatial resolution field emission scanning electron microscopy coupled with energy dispersive X-ray spectrometry (FE-SEM+EDS), time of flight secondary ion mass spectrometry (ToF-SIMS), X-ray photoelectron spectroscopy (XPS), X-ray diffraction (XRD) and optical microscopy (OM). The results reveal in detail the surface and subsurface morphology and the chemical features of the micrometric decorative Au layer that has been deposited by means of the so-called fire-gilding technique based on the use of an amalgam. Moreover, the results allow to recognise chlorine, sulphur and phosphorous species as the main degradation agents and to identify the corrosion products naturally formed during the long-term interaction with the burial soil constituents. The findings show also that the galvanic coupling between the two dissimilar metals, i.e. Cu and Au, lead to enhancement of corrosion phenomena causing the spalling of the gold thin film and the disfigurement of the object. From a conservation point of view, the results suggest a targeted use of low-toxic inhibitors to hinder the detrimental role of chlorine as possible responsible of future further severe degradation phenomena. In conclusions, the micro and nano-chemical, structural and morphological investigations in a depth range from a few nanometers to micrometers have revealed the complex nature of corroded surface of ancient gold coated artefacts, highlighting some specific aspects related to their peculiar degradation mechanisms thus extending the scientific relevance of the tailored use of complementary and integrated surface and subsurface analytical techniques for the investigation of ancient coated artefacts.

Compositional data supports decentralized model of production and circulation of artifacts in the pre-Columbian south-central Andes

PubMed Central

Pereyra Domingorena, Lucas; Stoner, Wesley D.; Scattolin, María Cristina; Korstanje, María Alejandra; Glascock, Michael D.

2017-01-01

The circulation and exchange of goods and resources at various scales have long been considered central to the understanding of complex societies, and the Andes have provided a fertile ground for investigating this process. However, long-standing archaeological emphasis on typological analysis, although helpful to hypothesize the direction of contacts, has left important aspects of ancient exchange open to speculation. To improve understanding of ancient exchange practices and their potential role in structuring alliances, we examine material exchanges in northwest Argentina (part of the south-central Andes) during 400 BC to AD 1000 (part of the regional Formative Period), with a multianalytical approach (petrography, instrumental neutron activation analysis, laser ablation inductively coupled plasma mass spectrometry) to artifacts previously studied separately. We assess the standard centralized model of interaction vs. a decentralized model through the largest provenance database available to date in the region. The results show: (i) intervalley heterogeneity of clays and fabrics for ordinary wares; (ii) intervalley homogeneity of clays and fabrics for a wide range of decorated wares (e.g., painted Ciénaga); (iii) selective circulation of two distinct polychrome wares (Vaquerías and Condorhuasi); (iv) generalized access to obsidian from one major source and various minor sources; and (v) selective circulation of volcanic rock tools from a single source. These trends reflect the multiple and conflicting demands experienced by people in small-scale societies, which may be difficult to capitalize by aspiring elites. The study undermines centralized narratives of exchange for this period, offering a new platform for understanding ancient exchange based on actual material transfers, both in the Andes and beyond. PMID:28461485

Anticancer activity of botanical compounds in ancient fermented beverages (review).

PubMed

McGovern, P E; Christofidou-Solomidou, M; Wang, W; Dukes, F; Davidson, T; El-Deiry, W S

2010-07-01

Humans around the globe probably discovered natural remedies against disease and cancer by trial and error over the millennia. Biomolecular archaeological analyses of ancient organics, especially plants dissolved or decocted as fermented beverages, have begun to reveal the preliterate histories of traditional pharmacopeias, which often date back thousands of years earlier than ancient textual, ethnohistorical, and ethnological evidence. In this new approach to drug discovery, two case studies from ancient Egypt and China illustrate how ancient medicines can be reconstructed from chemical and archaeological data and their active compounds delimited for testing their anticancer and other medicinal effects. Specifically, isoscopoletin from Artemisia argyi, artemisinin from Artemisia annua, and the latter's more easily assimilated semi-synthetic derivative, artesunate, showed the greatest activity in vitro against lung and colon cancers. In vivo tests of these compounds previously unscreened against lung and pancreatic cancers are planned for the future.

snpAD: An ancient DNA genotype caller.

PubMed

Prüfer, Kay

2018-06-21

The study of ancient genomes can elucidate the evolutionary past. However, analyses are complicated by base-modifications in ancient DNA molecules that result in errors in DNA sequences. These errors are particularly common near the ends of sequences and pose a challenge for genotype calling. I describe an iterative method that estimates genotype frequencies and errors along sequences to allow for accurate genotype calling from ancient sequences. The implementation of this method, called snpAD, performs well on high-coverage ancient data, as shown by simulations and by subsampling the data of a high-coverage Neandertal genome. Although estimates for low-coverage genomes are less accurate, I am able to derive approximate estimates of heterozygosity from several low-coverage Neandertals. These estimates show that low heterozygosity, compared to modern humans, was common among Neandertals. The C ++ code of snpAD is freely available at http://bioinf.eva.mpg.de/snpAD/. Supplementary data are available at Bioinformatics online.

Physicians of ancient India.

PubMed

Saini, Anu

2016-01-01

A survey of Indian medical historiography will reveal no dearth of work on the systems of medicine and medical literature of ancient India. However, the people who were responsible for the healing have not received much attention. This article traces the evolution of the physician as a professional in ancient India. This article reviews the secondary literature on healing and medical practice in India, specifically pertaining to the individual medical practitioner, drawing from varied sources. The healers of ancient India hailed from different castes and classes. They were well-respected and enjoyed state patronage. They were held to the highest ethical standards of the day and were bound by a strict code of conduct. They underwent rigorous training in both medicine and surgery. Most physicians were multi-skilled generalists, and expected to be skilled in elocution and debate. They were reasonably well-off financially. The paper also briefly traces the evolution of medicinal ideas in ancient India.

Ancient DNA from nomads in 2500-year-old archeological sites of Pengyang, China.

PubMed

Zhao, Yong-Bin; Li, Hong-Jie; Cai, Da-Wei; Li, Chun-Xiang; Zhang, Quan-Chao; Zhu, Hong; Zhou, Hui

2010-04-01

Six human remains (dating approximately 2500 years ago) were excavated from Pengyang, China, an area occupied by both ancient nomadic and farming people. The funerary objects found with these remains suggested they were nomads. To further confirm their ancestry, we analyzed both the maternal lineages and paternal lineages of the ancient DNA. From the mitochondrial DNA, six haplotypes were identified as three haplogroups: C, D4 and M10. The haplotype-sharing populations and phylogenetic analyses revealed that these individuals were closely associated with the ancient Xiongnu and modern northern Asians. Single-nucleotide polymorphism analysis of Y chromosomes from four male samples that were typed as haplogroup Q indicated that these people had originated in Siberia. These results show that these ancient people from Pengyang present a close genetic affinity to nomadic people, indicating that northern nomads had reached the Central Plain area of China nearly 2500 years ago.

Identifications of ancient Egyptian royal mummies from the 18th Dynasty reconsidered.

PubMed

Habicht, M E; Bouwman, A S; Rühli, F J

2016-01-01

For centuries, ancient Egyptian Royal mummies have drawn the attention both of the general public and scientists. Many royal mummies from the New Kingdom have survived. The discoveries of the bodies of these ancient rulers have always sparked much attention, yet not all identifications are clear even nowadays. This study presents a meta-analysis to demonstrate the difficulties in identifying ancient Egyptian royal mummies. Various methods and pitfalls in the identification of the Pharaohs are reassessed since new scientific methods can be used, such as ancient DNA-profiling and CT-scanning. While the ancestors of Tutankhamun have been identified, some identities are still highly controversial (e.g., the mystery of the KV-55 skeleton, recently most likely identified as the genetic father of Tutankhamun). The meta-analysis confirms the suggested identity of some mummies (e.g., Amenhotep III, Thutmosis IV, and Queen Tjye). © 2016 Wiley Periodicals, Inc.

[Restore of the ancient "moxibustion the pulse" method].

PubMed

Wu, Qi-Fei; Bai, Xing-Hua

2013-03-01

The manipulation of ancient "moxibustion the pulse" method are replicated and discussed through literature review. It turned out that the old year moxa was the best material for moxibustion in ancient times because of its mild heat power and uninjurious to the skin or blood and vessels; it was believed by the ancient people that the ideal fire to light moxa which could play the curative effect best was "sunfire" (lighted through the bronze concave mirror focussing) while the prohibited were "eight kinds of wood fire"; the moxibustion area were the convergence of the pulse on limb ends. The way to determine the time and amount of moxibustion were various, but in general the moxa amount was larger; still after moxibustion, proper exercise and diet were recommended, the nursing methods of the moxibustion sore were recorded. In ancient times, moxibustion was not only a treatment method but also an unique culture carrier to reflect the faith and worship.

2000 Year-old ancient equids: an ancient-DNA lesson from pompeii remains.

PubMed

Di Bernardo, Giovanni; Del Gaudio, Stefania; Galderisi, Umberto; Cipollaro, Marilena

2004-11-15

Ancient DNA extracted from 2000 year-old equine bones was examined in order to amplify mitochondrial and nuclear DNA fragments. A specific equine satellite-type sequence representing 3.7%-11% of the entire equine genome, proved to be a suitable target to address the question of the presence of aDNA in ancient bones. The PCR strategy designed to investigate this specific target also allowed us to calculate the molecular weight of amplifiable DNA fragments. Sequencing of a 370 bp DNA fragment of mitochondrial control region allowed the comparison of ancient DNA sequences with those of modern horses to assess their genetic relationship. The 16S rRNA mitochondrial gene was also examined to unravel the post-mortem base modification feature and to test the status of Pompeian equids taxon on the basis of a Mae III restriction site polymorphism. Copyright 2004 Wiley-Liss, Inc.

Spectral analysis of pharmaceutical formulations prepared according to ancient recipes in comparison with old museum remains.

PubMed

Gamberini, M Cristina; Baraldi, C; Freguglia, G; Baraldi, P

2011-10-01

A study of the composition of the remains of ancient ointments from museums was undertaken to enable understanding of the preparation techniques. Comparison of ancient recipes from different historical periods and spectroscopic characteristics of inorganic and/or organic remains recovered in museum vessels enabled preparation of ancient pharmaceutical-cosmetic formulations. Farmacopea Augustana by Occo was one the most important books studied for the 14 formulations prepared in the laboratory. Three formulations are discussed in detail and raw materials and new preparations were proposed for ozone ageing. The most important micro Raman results are discussed. The spectra of the raw materials lipids, beeswax, and resins are discussed; beeswax and pig suet (axŭngia) Raman spectra were found to be similar, but different from those of the aged oils. SERS was applied to ancient ointments and galbanum and the Raman spectra are reported and discussed for the first time.

Limited contribution of ancient methane to surface waters of the U.S. Beaufort Sea shelf

NASA Astrophysics Data System (ADS)

Sparrow, K. J.; Kessler, J. D.

2017-12-01

In response to climate change, methane can be released to ocean sediments and waters from thawing subsea permafrost and decomposing methane hydrates. However, it is unknown if methane derived from these massive stores of frozen, ancient carbon reaches the atmosphere. We quantified the fraction of methane sourced from ancient carbon in shelf waters of the U.S. Beaufort Sea, a region that has both permafrost and methane hydrates and is experiencing significant warming. While the radiocarbon-methane analyses indicate that ancient carbon is being mobilized and emitted as methane into shelf bottom waters, surprisingly, we find that modern sources of methane predominate in surface waters of relatively shallow mid-outer shelf stations. These results suggest that even if there is a heightened liberation of ancient methane as climate change proceeds, oceanic dispersion and oxidation processes can strongly limit its emission to the atmosphere.

Influence of elevated alkalinity and natural organic matter (NOM) on tissue-specific metal accumulation and reproductive performance in fathead minnows during chronic, multi-trophic exposures to a metal mine effluent.

PubMed

Ouellet, Jacob D; Dubé, Monique G; Niyogi, Som

2013-09-01

Metal bioavailability in aquatic organisms is known to be influenced by various water chemistry parameters. The present study examined the influence of alkalinity and natural organic matter (NOM) on tissue-specific metal accumulation and reproductive performance of fathead minnows (Pimephales promelas) during environmentally relevant chronic exposures to a metal mine effluent (MME). Sodium bicarbonate (NaHCO3) or NOM (as commercial humic acid) were added to a Canadian MME [45 percent process water effluent (PWE)] in order to evaluate whether increases in alkalinity (3-4 fold) or NOM (~1.5-3mg/L dissolved organic carbon) would reduce metal accumulation and mitigate reproductive toxicity in fathead minnows during a 21-day multi-trophic exposure. Eleven metals (barium, boron, cobalt, copper, lithium, manganese, molybdenum, nickel, rubidium, selenium, and strontium) were elevated in the 45 percent PWE relative to the reference water. Exposure to the unmodified 45 percent PWE resulted in a decrease of fathead minnow egg production (~300 fewer eggs/pair) relative to the unmodified reference water, over the 21-day exposure period. Water chemistry modifications produced a modest decrease in free ion activity of some metals (as shown by MINTEQ, Version 3) in the 45 percent PWE exposure water, but did not alter the metal burden in the treatment-matched larval Chironomus dilutus (the food source of fish during exposure). The tissue-specific metal accumulation increased in fish exposed to the 45 percent PWE relative to the reference water, irrespective of water chemistry modifications, and the tissue metal concentrations were found to be similar between fish in the unmodified and modified 45 percent PWE (higher alkalinity or NOM) treatments. Interestingly however, increased alkalinity and NOM markedly improved fish egg production both in the reference water (~500 and ~590 additional eggs/pair, respectively) and 45 percent PWE treatments (~570 and ~260 additional eggs/pair, respectively), although fecundity over 21 day exposure consistently remained lower in the 45 percent PWE treatment groups relative to the treatment-matched reference groups. Collectively, these findings suggest that metal accumulation caused by chronic 45 percent PWE exposure cannot solely explain the reproductive toxicity in fish, and decrease in food availability (decrease in C. dilutus abundance in 45 percent PWE exposures) might have played a role. In addition, it appears that NaHCO3 or humic acid mitigated reproductive toxicity in fish exposed to 45 percent PWE by their direct beneficial effects on the physiological status of fish. Copyright © 2013 Elsevier Inc. All rights reserved.

The water quality and Cultivant enrichment potency of pond based on saprobic index at north coastal waters of Central Java, Indonesia

NASA Astrophysics Data System (ADS)

Hidayat, Jafron W.

2018-05-01

Central Java is one of many areas which has long coastline, especially in the Northern Coast of Java Island. Intertidal activities occurred at this area may affect the transport of material and energy from surroundings. Cultivation activity supplies many inputs, i.e. feeds, chemicals (vitamin and mineral), including pollutants from feces and unconsumed feeds that affects the environment. One of water management is done through bioremediation by using vegetative agents (soft rehabilitation), such as seaweed and mangrove stands. The implementation of soft rehabilitation is highly depend on the existing environmental conditions of the ponds and surrounding waters. Therefore, it is very important to identify the condition of those waters first. The purpose of this study is to identify the quality of waters in the north coast of Central Java. Besides, it is also to analyze the potency of enriching cultivated commodity (cultivant), as well as a soft remediation mechanism using seaweed. The study was conducted in the coastal areas of Central Java, mainly to the locations commonly practicing cultivation in the pond waters; namely Brebes, Pemalang, Semarang, Demak, Pati and Jepara. Data were taken by sampling at least at 3 different sites as repetition, included ponds, public irrigations and coastline waters. The water sample was taken as much as 30 lt and filtered using plankton net no 25. Biodiversity of Shannon-Wiener Index (H'), evenness index (e) and Saprobic Index were used to analyze the plankton data. Result showed that plankton diversity in Central Java coasts were varied generally between 10 – 28 species. The most widely found species were Oscillatoria sp, Rhizosolenia styliformes, Surirella sp and Lyngbia conferoides. The diversity index varied from 1.83 to 2.9 with the stability status were between small to medium. The saprobic index showed a value between 0.33 up to 2.27; which indicated very small up to lightly contaminated status. The biggest stability disturbance was found in Batangan (Pati) water, especially because the existence of salt production practice in the pond during dry season. The optimum polyculture practice was found in Brebes, since this water was still suitable to support aquaculture in multitrophic basis, so called IMTA (Integrated Multitrophic Aquaculture). In general, the other pantura waters were still liable to be enriched with other cultivants, including seaweed which is also economically valuable (as a commodity) and also ecologically functional in controlling turbidity and contamination.

Assembly processes of gastropod community change with horizontal and vertical zonation in ancient Lake Ohrid: a metacommunity speciation perspective

NASA Astrophysics Data System (ADS)

Hauffe, Torsten; Albrecht, Christian; Wilke, Thomas

2016-05-01

The Balkan Lake Ohrid is the oldest and most diverse freshwater lacustrine system in Europe. However, it remains unclear whether species community composition, as well as the diversification of its endemic taxa, is mainly driven by dispersal limitation, environmental filtering, or species interaction. This calls for a holistic perspective involving both evolutionary processes and ecological dynamics, as provided by the unifying framework of the "metacommunity speciation model".The current study used the species-rich model taxon Gastropoda to assess how extant communities in Lake Ohrid are structured by performing process-based metacommunity analyses. Specifically, the study aimed (1) to identifying the relative importance of the three community assembly processes and (2) to test whether the importance of these individual processes changes gradually with lake depth or discontinuously with eco-zone shifts.Based on automated eco-zone detection and process-specific simulation steps, we demonstrated that dispersal limitation had the strongest influence on gastropod community composition. However, it was not the exclusive assembly process, but acted together with the other two processes - environmental filtering and species interaction. The relative importance of the community assembly processes varied both with lake depth and eco-zones, though the processes were better predicted by the latter.This suggests that environmental characteristics have a pronounced effect on shaping gastropod communities via assembly processes. Moreover, the study corroborated the high importance of dispersal limitation for both maintaining species richness in Lake Ohrid (through its impact on community composition) and generating endemic biodiversity (via its influence on diversification processes). However, according to the metacommunity speciation model, the inferred importance of environmental filtering and biotic interaction also suggests a small but significant influence of ecological speciation. These findings contribute to the main goal of the Scientific Collaboration on Past Speciation Conditions in Lake Ohrid (SCOPSCO) deep drilling initiative - inferring the drivers of biotic evolution - and might provide an integrative perspective on biological and limnological dynamics in ancient Lake Ohrid.

Disentangling Ancient Interactions: A New Extinct Passerine Provides Insights on Character Displacement among Extinct and Extant Island Finches

PubMed Central

Rando, Juan Carlos; Alcover, Josep Antoni; Illera, Juan Carlos

2010-01-01

Background Evolutionary studies of insular biotas are based mainly on extant taxa, although such biotas represent artificial subsets of original faunas because of human-caused extinctions of indigenous species augmented by introduced exotic taxa. This makes it difficult to obtain a full understanding of the history of ecological interactions between extant sympatric species. Morphological bill variation of Fringilla coelebs and F. teydea (common and blue chaffinches) has been previously studied in the North Atlantic Macaronesian archipelagos. Character displacement between both species has been argued to explain bill sizes in sympatry. However, this explanation is incomplete, as similar patterns of bill size have been recorded in F. coelebs populations from islands with and without F. teydea. Methodology/Principal Findings The discovery of a new extinct species in Tenerife (Canary Islands), here named Carduelis aurelioi n. sp. (slender-billed greenfinch), provides the opportunity to study ancient ecological interactions among Macaronesian finches. To help understand the evolutionary histories of forest granivores in space and time, we have performed a multidisciplinary study combining: (1) morphological analyses and radiocarbon dating (11,460±60 yr BP) of the new taxon and, (2) molecular divergence among the extant finch species and populations in order to infer colonization times (1.99 and 1.09 My for F. teydea and F. coelebs respectively). Conclusion/Significance C. aurelioi, F. coelebs and F. teydea co-habited in Tenerife for at least one million years. The unique anatomical trends of the new species, namely chaffinch-like beak and modified hind and forelimbs, reveal that there was a process of divergence of resource competition traits among the three sympatric finches. The results of our study, combined with the presence of more extinct greenfinches in other Macaronesian islands with significant variation in their beak sizes, suggests that the character displacement has influenced patterns of divergence in bill size and shape on other Macaronesian islands as well. PMID:20886036

The Evoluation Impact of the Geological Environment in Expansion of Ancient Civilization at Butrint - Foenike Region, Southern Albania.

NASA Astrophysics Data System (ADS)

Kavaja, V. S.; Durmishi, S.; Vincani, F. N.

2003-12-01

The rise, creation and decline of the ancient civilization depended on paleo-geographic development changing at the geological environmental.This region is a worldknown archaeological site protected by UNESCO. The area under investigation occupies about 80 km2 and encompassing a large expanse of land at southern and northern side of the Butrinti lake, which is with oval shape and 21.5 depth. Throughout its long history, Butrint had an interactive relationship with its hinterland and the even-changing coastline. Preliminary research suggests that in the Holocene the Lake of Butrint was a sea inlet that stretched 20 km to north of Butrint, as far as the city of Foenike, later Epirot capital. Today the Butrint Lake is just 7.5 km long, being the result of gradual silting up this inlet with soils brought down by Bistrica River in the north side and Pavllo River in the South from surrounding mountain ranges. The goal of this study is investigation of the link between the evolution of Butrinti lake and hydrologicacal systems of the lake, its silting history and how this has impacted and interacted with land and human activity. Histories of terrestrial erosion, near-shore sediment redistribution, times, subsidence and compaction, land-sea interaction are obvious now. Geophysical observation consist of vertical electric soundings (V.E.S.) and magnetic measurements inside a layout of 80 km2. The soundings data, particularly resistivity variations are the base for sedimentologic studies due to the lack of boreholes. For a gravel deposition, in addition to the usual parameter maps as resistivity and thickness maps, combined multiparametric characterization maps have been plotted. Based on the sedimentologic and structural factors studied and geophysical maps and cross-sections, plenty of geomorphic problems are resolve. The evaluations of the regional water bearing are estimated, separating salty waters area.

Fluid-rock interaction recorded in fault rocks of the Nobeoka Thrust, fossilized megasplay fault in an ancient accretionary complex

NASA Astrophysics Data System (ADS)

Hasegawa, R.; Yamaguchi, A.; Fukuchi, R.; Kitamura, Y.; Kimura, G.; Hamada, Y.; Ashi, J.; Ishikawa, T.

2017-12-01

The relationship between faulting and fluid behavior has been in debate. In this study, we clarify the fluid-rock interaction in the Nobeoka Thrust by major/trace element composition analysis using the boring core of the Nobeoka Thrust, an exhumed analogue of an ancient megasplay fault in Shimanto accretionary complex, southwest Japan. The hanging wall and the footwall of the Nobeoka Thrust show difference in lithology and metamorphic grade, and their maximum burial temperature is estimated from vitrinite reflectance analysis to be 320 330°C and 250 270°C, respectively (Kondo et al., 2005). The fault zone was formed in a fluid-rich condition, as evidenced by warm fluid migration suggested by fluid inclusion analysis (Kondo et al., 2005), implosion brecciation accompanied by carbonate precipitation followed by formation of pseudotachylyte (Okamoto et al., 2006), ankerite veins coseismically formed under reducing conditions (Yamaguchi et al., 2011), and quartz veins recording stress rotation in seismic cycles (Otsubo et al., 2016). In this study, first we analyzed the major/trace element composition across the principal slip zone (PSZ) of the Nobeoka Thrust by using fragments of borehole cores penetrated through the Nobeoka Thrust. Many elements fluctuated just above the PSZ, whereas K increase and Na, Si decrease suggesting illitization of plagioclase, as well as positive anomalies in Li and Cs were found within the PSZ. For more detail understanding, we observed polished slabs and thin sections of the PSZ. Although grain size reduction of deformed clast and weak development of foliation were observed entirely in the PSZ by macroscopic observation, remarkable development of composite planar fabric nor evidence of friction melting were absent. In this presentation, we show the result of major/trace element composition corresponding to the internal structure of PSZ, and discuss fluid-rock interaction and its impact to megasplay fault activity in subduction zones.

Nutrigenomics: Definitions and Advances of This New Science

PubMed Central

Sales, N. M. R.; Pelegrini, P. B.; Goersch, M. C.

2014-01-01

The search for knowledge regarding healthy/adequate food has increased in the last decades among the world population, researchers, nutritionists, and health professionals. Since ancient times, humans have known that environment and food can interfere with an individual's health condition, and have used food and plants as medicines. With the advance of science, especially after the conclusion of the Human Genome Project (HGP), scientists started questioning if the interaction between genes and food bioactive compounds could positively or negatively influence an individual's health. In order to assess this interaction between genes and nutrients, the term “Nutrigenomics” was created. Hence, Nutrigenomics corresponds to the use of biochemistry, physiology, nutrition, genomics, proteomics, metabolomics, transcriptomics, and epigenomics to seek and explain the existing reciprocal interactions between genes and nutrients at a molecular level. The discovery of these interactions (gene-nutrient) will aid the prescription of customized diets according to each individual's genotype. Thus, it will be possible to mitigate the symptoms of existing diseases or to prevent future illnesses, especially in the area of Nontransmissible Chronic Diseases (NTCDs), which are currently considered an important world public health problem. PMID:24795820

Ancient DNA, pig domestication, and the spread of the Neolithic into Europe

PubMed Central

Larson, Greger; Albarella, Umberto; Dobney, Keith; Rowley-Conwy, Peter; Schibler, Jörg; Tresset, Anne; Vigne, Jean-Denis; Edwards, Ceiridwen J.; Schlumbaum, Angela; Dinu, Alexandru; Bălăçsescu, Adrian; Dolman, Gaynor; Tagliacozzo, Antonio; Manaseryan, Ninna; Miracle, Preston; Van Wijngaarden-Bakker, Louise; Masseti, Marco; Bradley, Daniel G.; Cooper, Alan

2007-01-01

The Neolithic Revolution began 11,000 years ago in the Near East and preceded a westward migration into Europe of distinctive cultural groups and their agricultural economies, including domesticated animals and plants. Despite decades of research, no consensus has emerged about the extent of admixture between the indigenous and exotic populations or the degree to which the appearance of specific components of the “Neolithic cultural package” in Europe reflects truly independent development. Here, through the use of mitochondrial DNA from 323 modern and 221 ancient pig specimens sampled across western Eurasia, we demonstrate that domestic pigs of Near Eastern ancestry were definitely introduced into Europe during the Neolithic (potentially along two separate routes), reaching the Paris Basin by at least the early 4th millennium B.C. Local European wild boar were also domesticated by this time, possibly as a direct consequence of the introduction of Near Eastern domestic pigs. Once domesticated, European pigs rapidly replaced the introduced domestic pigs of Near Eastern origin throughout Europe. Domestic pigs formed a key component of the Neolithic Revolution, and this detailed genetic record of their origins reveals a complex set of interactions and processes during the spread of early farmers into Europe. PMID:17855556

The Two-pore channel (TPC) interactome unmasks isoform-specific roles for TPCs in endolysosomal morphology and cell pigmentation

PubMed Central

Lin-Moshier, Yaping; Keebler, Michael V.; Hooper, Robert; Boulware, Michael J.; Liu, Xiaolong; Churamani, Dev; Abood, Mary E.; Walseth, Timothy F.; Brailoiu, Eugen; Patel, Sandip; Marchant, Jonathan S.

2014-01-01

The two-pore channels (TPC1 and TPC2) belong to an ancient family of intracellular ion channels expressed in the endolysosomal system. Little is known about how regulatory inputs converge to modulate TPC activity, and proposed activation mechanisms are controversial. Here, we compiled a proteomic characterization of the human TPC interactome, which revealed that TPCs complex with many proteins involved in Ca2+ homeostasis, trafficking, and membrane organization. Among these interactors, TPCs were resolved to scaffold Rab GTPases and regulate endomembrane dynamics in an isoform-specific manner. TPC2, but not TPC1, caused a proliferation of endolysosomal structures, dysregulating intracellular trafficking, and cellular pigmentation. These outcomes required both TPC2 and Rab activity, as well as their interactivity, because TPC2 mutants that were inactive, or rerouted away from their endogenous expression locale, or deficient in Rab binding, failed to replicate these outcomes. Nicotinic acid adenine dinucleotide phosphate (NAADP)-evoked Ca2+ release was also impaired using either a Rab binding-defective TPC2 mutant or a Rab inhibitor. These data suggest a fundamental role for the ancient TPC complex in trafficking that holds relevance for lysosomal proliferative scenarios observed in disease. PMID:25157141

The Two-pore channel (TPC) interactome unmasks isoform-specific roles for TPCs in endolysosomal morphology and cell pigmentation.

PubMed

Lin-Moshier, Yaping; Keebler, Michael V; Hooper, Robert; Boulware, Michael J; Liu, Xiaolong; Churamani, Dev; Abood, Mary E; Walseth, Timothy F; Brailoiu, Eugen; Patel, Sandip; Marchant, Jonathan S

2014-09-09

The two-pore channels (TPC1 and TPC2) belong to an ancient family of intracellular ion channels expressed in the endolysosomal system. Little is known about how regulatory inputs converge to modulate TPC activity, and proposed activation mechanisms are controversial. Here, we compiled a proteomic characterization of the human TPC interactome, which revealed that TPCs complex with many proteins involved in Ca(2+) homeostasis, trafficking, and membrane organization. Among these interactors, TPCs were resolved to scaffold Rab GTPases and regulate endomembrane dynamics in an isoform-specific manner. TPC2, but not TPC1, caused a proliferation of endolysosomal structures, dysregulating intracellular trafficking, and cellular pigmentation. These outcomes required both TPC2 and Rab activity, as well as their interactivity, because TPC2 mutants that were inactive, or rerouted away from their endogenous expression locale, or deficient in Rab binding, failed to replicate these outcomes. Nicotinic acid adenine dinucleotide phosphate (NAADP)-evoked Ca(2+) release was also impaired using either a Rab binding-defective TPC2 mutant or a Rab inhibitor. These data suggest a fundamental role for the ancient TPC complex in trafficking that holds relevance for lysosomal proliferative scenarios observed in disease.

Incubation Patterns in a Central-Place Forager Affect Lifetime Reproductive Success: Scaling of Patterns from a Foraging Bout to a Lifetime

PubMed Central

Shoji, Akiko; Elliott, Kyle H.; Aris-Brosou, Stéphane; Crump, Doug; Gaston, Anthony J.

2011-01-01

Background Long-lived seabirds face a conflict between current and lifelong reproductive success. During incubation shifts, egg neglect is sometimes necessary to avoid starvation, but may compromise the current reproductive attempt. However, factors underlying this decision process are poorly understood. We focus on the ancient murrelet, Synthliboramphus antiquus, an alcid with exceptionally long incubation shift lengths, and test the impact of environmental factors on incubation shift length in relation to reproductive success. Methodology/Principal Findings Using an information theoretic approach, we show that incubation shift length was a strong predictor of reproductive success for ancient murrelets at Reef Island, Haida Gwaii, British Columbia, Canada during the 2007 and 2008 breeding seasons. The most important factors explaining an individual's shift length were egg size, wind speed and the length of the mate's previous shift. Wind speed and tide height were the two most important factors for determining foraging behavior, as measured by dive frequency and depth. Conclusions/Significance Our study demonstrates that (i) species-specific reproductive strategies interact with environmental conditions such as wind speed to form multiple incubation patterns and (ii) maintaining regular incubation shifts is an essential component of reproductive success. PMID:21423631

Hearing the irrational: music and the development of the modern concept of number.

PubMed

Pesic, Peter

2010-09-01

Because the modern concept of number emerged within a quadrivium that included music alongside arithmetic, geometry, and astronomy, musical considerations affected mathematical developments. Michael Stifel embedded the then-paradoxical term "irrational numbers" (numerici irrationales) in a musical context (1544), though his philosophical aversion to the "cloud of infinity" surrounding such numbers finally outweighed his musical arguments in their favor. Girolamo Cardano gave the same status to irrational and rational quantities in his algebra (1545), for which his contemporaneous work on music suggested parallels and empirical examples. Nicola Vicentino's attempt to revive ancient "enharmonic" music (1555) required and hence defended the use of "irrational proportions" (proportiones inrationales) as if they were numbers. These developments emerged in richly interactive social and cultural milieus whose participants interwove musical and mathematical interests so closely that their intense controversies about ancient Greek music had repercussions for mathematics as well. The musical interests of Stifel, Cardano, and Vicentino influenced their respective treatments of "irrational numbers." Practical as well as theoretical music both invited and opened the way for the recognition of a radically new concept of number, even in the teeth of paradox.

Dog Breed Differences in Visual Communication with Humans

PubMed Central

Konno, Akitsugu; Romero, Teresa; Inoue-Murayama, Miho; Saito, Atsuko; Hasegawa, Toshikazu

2016-01-01

Domestic dogs (Canis familiaris) have developed a close relationship with humans through the process of domestication. In human-dog interactions, eye contact is a key element of relationship initiation and maintenance. Previous studies have suggested that canine ability to produce human-directed communicative signals is influenced by domestication history, from wolves to dogs, as well as by recent breed selection for particular working purposes. To test the genetic basis for such abilities in purebred dogs, we examined gazing behavior towards humans using two types of behavioral experiments: the ‘visual contact task’ and the ‘unsolvable task’. A total of 125 dogs participated in the study. Based on the genetic relatedness among breeds subjects were classified into five breed groups: Ancient, Herding, Hunting, Retriever-Mastiff and Working). We found that it took longer time for Ancient breeds to make an eye-contact with humans, and that they gazed at humans for shorter periods of time than any other breed group in the unsolvable situation. Our findings suggest that spontaneous gaze behavior towards humans is associated with genetic similarity to wolves rather than with recent selective pressure to create particular working breeds. PMID:27736990

Japan: The Modernization of an Ancient Culture. Series on Public Issues No. 3.

ERIC Educational Resources Information Center

Wolken, Lawrence C.

This booklet, one of a series of booklets intended to apply economic principles to major social and political issues of the day, traces the modernization of the ancient culture of Japan. Four major areas are covered: (1) "An Ancient Culture" covers the period from the first settling of Japan through the Heian period, the medieval ages,…

Attitudes to Ancient Greek in Three Schools: A Case Study

ERIC Educational Resources Information Center

Foster, Frances

2018-01-01

This study comes in response to recent changes in UK policy, whereby Ancient Greek and Latin have been included alongside modern languages as part of the curriculum at Key Stage 2. It aims to understand how Ancient Greek is surviving and thriving in three different types of schools. After a short overview of the history of Greek teaching in the…

Emphasizing Local Features for Effective Environmental Education: Environmental Attitudes of Elementary School Students Living in Ancient Halicarnassus (Turkey)

ERIC Educational Resources Information Center

Bas, Meltem; Teksoz, Gaye Tuncer; Ertepinar, Hamide

2011-01-01

Ancient Halicarnassus, the site of the Mausoleum of Halicarnassus, has become famous since the 1980s as one of the major tourism centers of Turkey. Although the contribution of Ancient Halicarnassus to Turkey's economy increases as the number of tourists visiting the area increases, the area's historical, cultural and environmental values have…

Should Japan Become a Normal Country

DTIC Science & Technology

2005-12-01

9 B. ANCIENT JAPAN: ORIGINS AND ASUKA, NARA, AND HEIAN PERIODS...ANCIENT JAPAN: ORIGINS AND ASUKA, NARA, AND HEIAN PERIODS Japanese culture emerged on Yamato plain around the 2nd and 3rd centuries A.D. and continued...record of ancient matters.22 Immediately following this era was the Heian period during which the imperial court moved to a new, permanent capital

An Ancient Relation between Units of Length and Volume Based on a Sphere

PubMed Central

Zapassky, Elena; Gadot, Yuval; Finkelstein, Israel; Benenson, Itzhak

2012-01-01

The modern metric system defines units of volume based on the cube. We propose that the ancient Egyptian system of measuring capacity employed a similar concept, but used the sphere instead. When considered in ancient Egyptian units, the volume of a sphere, whose circumference is one royal cubit, equals half a hekat. Using the measurements of large sets of ancient containers as a database, the article demonstrates that this formula was characteristic of Egyptian and Egyptian-related pottery vessels but not of the ceramics of Mesopotamia, which had a different system of measuring length and volume units. PMID:22470489

An Integrated 3S and Historical Materials Analysis of the Keriya Paleoriver, NW China

NASA Astrophysics Data System (ADS)

Luo, Lei; Wang, Xinyuan; Cai, Heng

2014-03-01

Combining analysis of 3S (RS, GIS and GPS) and historical materials (historical records, ancient map and academic and literary writings) allows mapping of the Keriya Paleoriver of Southern Xinjiang, NW China. Keriya Paleoriver, one of the ancient Four Green Corridors which passes through the Taklimakan Desert from south to north in the Tarim Basin, recorded changes of the climate-environment in the ancient Silk Road of the region. According to the archaeological data, historical materials and paleoclimates information, its eco-environment and climate have had great changes since the 1.09Ma B.P., especially during the last 2,000 years, which has led to many famous ancient cities to be abandoned and the route of the ancient Silk Road to be moved southward. Using RS (optical and radar imagery), GIS (mapping and spatial analysis) and GPS (study area investigation), we mapped a major paleodrainage system of Keriya River, which have linked the Kunlun Mountains to the Tienshan Mountains through the Taklimakan Desert, possibly as far back as the early Pleistocene. This study illustrates the capability of the 3S and historical materials, in mapping the Keriya Paleoriver drainage networks and archaeological study on the ancient Silk Road.

Characterizing DNA preservation in degraded specimens of Amara alpina (Carabidae: Coleoptera).

PubMed

Heintzman, Peter D; Elias, Scott A; Moore, Karen; Paszkiewicz, Konrad; Barnes, Ian

2014-05-01

DNA preserved in degraded beetle (Coleoptera) specimens, including those derived from dry-stored museum and ancient permafrost-preserved environments, could provide a valuable resource for researchers interested in species and population histories over timescales from decades to millenia. However, the potential of these samples as genetic resources is currently unassessed. Here, using Sanger and Illumina shotgun sequence data, we explored DNA preservation in specimens of the ground beetle Amara alpina, from both museum and ancient environments. Nearly all museum specimens had amplifiable DNA, with the maximum amplifiable fragment length decreasing with age. Amplification of DNA was only possible in 45% of ancient specimens. Preserved mitochondrial DNA fragments were significantly longer than those of nuclear DNA in both museum and ancient specimens. Metagenomic characterization of extracted DNA demonstrated that parasite-derived sequences, including Wolbachia and Spiroplasma, are recoverable from museum beetle specimens. Ancient DNA extracts contained beetle DNA in amounts comparable to museum specimens. Overall, our data demonstrate that there is great potential for both museum and ancient specimens of beetles in future genetic studies, and we see no reason why this would not be the case for other orders of insect. © 2013 John Wiley & Sons Ltd.

The rights of patients as consumers: An ancient view.

PubMed

Barapatre, Nishant Bhimraj; Joglekar, Vishnu Prabhakar

2016-01-01

As far as the rights of consumers are concerned, the International Organization of Consumer's Union (IOCU) in 1983 has specified about the eight rights of a consumer. The Consumer Protection Act (CPA), 1986 then prescribed six "Rights of Consumers," which are protected under the act. However, these rights can be observed in the ancient Indian texts such as Brihat-trayee , Narad Smruti , and Kautilya Arthashastra ., in the form of rights given to patients. For the purpose of present study, the implemented methodology includes - (1) study of the consumer rights described by IOCU and CPA, (2) detailed review of literature for observance of replication of these consumer rights in the ancient Indian texts and (3) a comparative study of the present consumer rights with the rights of patients observed in ancient Indian texts. This study shows that the substance of consumer rights is not a recent evolution, but the foundation of these rights has been laid well beforehand in the ancient times, which were provided to the patients by medical profession as well as by the rulers. The current scenario of protection of consumer rights is the replication of this ancient practice only.

The rights of patients as consumers: An ancient view

PubMed Central

Barapatre, Nishant Bhimraj; Joglekar, Vishnu Prabhakar

2016-01-01

As far as the rights of consumers are concerned, the International Organization of Consumer's Union (IOCU) in 1983 has specified about the eight rights of a consumer. The Consumer Protection Act (CPA), 1986 then prescribed six “Rights of Consumers,” which are protected under the act. However, these rights can be observed in the ancient Indian texts such as Brihat-trayee, Narad Smruti, and Kautilya Arthashastra., in the form of rights given to patients. For the purpose of present study, the implemented methodology includes – (1) study of the consumer rights described by IOCU and CPA, (2) detailed review of literature for observance of replication of these consumer rights in the ancient Indian texts and (3) a comparative study of the present consumer rights with the rights of patients observed in ancient Indian texts. This study shows that the substance of consumer rights is not a recent evolution, but the foundation of these rights has been laid well beforehand in the ancient times, which were provided to the patients by medical profession as well as by the rulers. The current scenario of protection of consumer rights is the replication of this ancient practice only. PMID:29491665

Combining remote sensing image with DEM to identify ancient Minqin Oasis, northwest of China

NASA Astrophysics Data System (ADS)

Xie, Yaowen

2008-10-01

The developing and desertification process of Minqin oasis is representative in the whole arid area of northwest China. Combining Remote Sensing image with Digital Elevation Model (DEM) can produce the three-dimensional image of the research area which can give prominence to the spatial background of historical geography phenomenon's distribution, providing the conditions for extracting and analyzing historical geographical information thoroughly. This research rebuilds the ancient artificial Oasis based on the three-dimensional images produced by the TM digital Remote Sensing image and DEM created using 1:100000 topographic maps. The result indicates that the whole area of the ancient artificial oasis in Minqin Basin over the whole historical period reaches 321km2, in the form of discontinuous sheet, separated on the two banks of ancient Shiyang River and its branches, namely, Xishawo area, west to modern Minqin Basin and Zhongshawo area, in the center of the oasis. Except for a little of the ancient oasis unceasingly used by later people, most of it became desert. The combination of digital Remote Sensing image and DEM can integrate the advantages of both in identifying ancient oasis and improve the interpreting accuracy greatly.

Non-Simian Foamy Viruses: Molecular Virology, Tropism and Prevalence and Zoonotic/Interspecies Transmission

PubMed Central

Kehl, Timo; Tan, Juan; Materniak, Magdalena

2013-01-01

Within the field of retrovirus, our knowledge of foamy viruses (FV) is still limited. Their unique replication strategy and mechanism of viral persistency needs further research to gain understanding of the virus-host interactions, especially in the light of the recent findings suggesting their ancient origin and long co-evolution with their nonhuman hosts. Unquestionably, the most studied member is the primate/prototype foamy virus (PFV) which was originally isolated from a human (designated as human foamy virus, HFV), but later identified as chimpanzee origin; phylogenetic analysis clearly places it among other Old World primates. Additionally, the study of non-simian animal FVs can contribute to a deeper understanding of FV-host interactions and development of other animal models. The review aims at highlighting areas of special interest regarding the structure, biology, virus-host interactions and interspecies transmission potential of primate as well as non-primate foamy viruses for gaining new insights into FV biology. PMID:24064793

The secret to a successful relationship: lasting chemistry between ascidians and their symbiotic bacteria

PubMed Central

Schmidt, Eric W.

2014-01-01

Bioactive secondary metabolites are common components of marine animals. In many cases, symbiotic bacteria, and not the animals themselves, synthesize the compounds. Among marine animals, ascidians are good models for understanding these symbioses. Ascidians often contain potently bioactive secondary metabolites as their major extractable components. Strong evidence shows that ~8% of the known secondary metabolites from ascidians are made by symbiotic bacteria, and indirect evidence implicates bacteria in the synthesis of many more. Far from being “secondary” to the animals, secondary metabolites are essential components of the interaction between host animals and their symbiotic bacteria. These interactions have complex underlying biology, but the chemistry is clearly ascidian-species specific. The chemical interactions are ancient in at least some cases, and they are widespread among ascidians. Ascidians maintain secondary metabolic symbioses with bacteria that are phylogenetically diverse, indicating a convergent solution to obtaining secondary metabolites and reinforcing the importance of secondary metabolism in animal survival. PMID:25937788

Paleopathological findings in radiographs of ancient and modern Greek skulls.

PubMed

Papagrigorakis, Manolis J; Karamesinis, Kostas G; Daliouris, Kostas P; Kousoulis, Antonis A; Synodinos, Philippos N; Hatziantoniou, Michail D

2012-12-01

The skull, when portrayed radiologically, can be a useful tool in detecting signs of systemic diseases and results of pathological growth mechanisms. The aim of this study was therefore to examine, compare, and classify findings in cranial configuration of pathological origin, in modern and ancient skulls. The material consists of 240 modern and 141 ancient dry skulls. Three radiographs for each skull (lateral, anteroposterior, basilar) provide enough evidence for differential diagnoses. Cases of osteoporosis are among the interesting pathological findings. A prevalence of female modern skulls in those determined as osteoporotic skulls is noted. Special interest is placed on the area of the sella turcica and many variations, regarding the shape and texture, are recognized both in ancient and modern skulls. Malignancies and important causes of cranial destruction are identified in both skull collections. Diploid thickening and osteolytic areas appear commonly among ancient remains. Moreover, from the ancient skull collection, one case possibly recognizable as fibrous dysplasia is noted while another case with an unusual exostosis gives rise to many questions. Interpreted with caution, the results of the present study, which can serve as an approach of paleopathology and paleoradiology, indicate similarity trends in cranial configuration of pathologic origin in modern and ancient people. Radiography and cephalometry were the main diagnostic tools used to gather evidence and are evaluated as a quite appropriate method to examine anthropological material and assess the internal structure of skeletal remains since they are non-destructive techniques.

Twelve weeks supplementation with an extended-release caffeine and ATP-enhancing supplement may improve body composition without affecting hematology in resistance-trained men.

PubMed

Joy, Jordan M; Vogel, Roxanne M; Moon, Jordan R; Falcone, Paul H; Mosman, Matt M; Kim, Michael P

2016-01-01

Increased ATP levels may enhance training-induced muscle accretion and fat loss, and caffeine is a known ergogenic aid. A novel supplement containing ancient peat and apple extracts has reported enhanced mitochondrial ATP production and it has been coupled with an extended-release caffeine. Therefore, the purpose of this investigation was to determine the effects of this supplement on body composition when used in conjunction with 12 weeks of resistance training. Twenty-one resistance-trained subjects (27.2 ± 5.6y; 173.5 ± 5.7 cm; 82.8 ± 12.0 kg) completed this study. Subjects supplemented daily with either 1 serving of the supplement (TRT), which consisted of 150 mg ancient peat and apple extracts, 180 mg blend of caffeine anhydrous and pterostilbene-bound caffeine, and 38 mg B vitamins, or an equal-volume, visually-identical placebo (PLA) 45 min prior to training or at the same time of day on rest days. Supervised resistance training consisted of 8 weeks of daily undulating periodized training followed by a 2-week overreach and a 2-week taper phase. Body composition was assessed using DEXA and ultrasound at weeks 0, 4, 8, 10, and 12. Vital signs and blood markers were assessed at weeks 0, 8, and 12. Significant group x time (p < 0.05) interactions were present for cross-sectional area of the rectus femoris, which increased in TRT (+1.07 cm(2)) versus PLA (-0.08 cm(2)), as well as muscle thickness (TRT: +0.49 cm; PLA: +0.04 cm). A significant group x time (p < 0.05) interaction existed for creatinine (TRT: +0.00 mg/dL; PLA: +0.15 mg/dL) and estimated glomerular filtration rate (TRT: -0.70 mL/min/1.73; PLA: -14.6 mL/min/1.73), which remained within clinical ranges, but no other significant observations were observed. Supplementation with a combination of extended-release caffeine and ancient peat and apple extracts may enhance resistance training-induced skeletal muscle hypertrophy without adversely affecting blood chemistry.

Hydrothermal systems on Mars: an assessment of present evidence

NASA Technical Reports Server (NTRS)

Farmer, J. D.

1996-01-01

Hydrothermal processes have been suggested to explain a number of observations for Mars, including D/H ratios of water extracted from Martian meteorites, as a means for removing CO2 from the Martian atmosphere and sequestering it in the crust as carbonates, and as a possible origin for iron oxide-rich spectral units on the floors of some rifted basins (chasmata). There are numerous examples of Martian channels formed by discharges of subsurface water near potential magmatic heat sources, and hydrothermal processes have also been proposed as a mechanism for aquifer recharge needed to sustain long term erosion of sapping channels. The following geological settings have been identified as targets for ancient hydrothermal systems on Mars: channels located along the margins of impact crater melt sheets and on the slopes of ancient volcanoes; chaotic and fretted terranes where shallow subsurface heat sources are thought to have interacted with ground ice; and the floors of calderas and rifted basins (e.g. chasmata). On Earth, such geological environments are often a locus for hydrothermal mineralization. But we presently lack the mineralogical information needed for a definitive evaluation of hypotheses. A preferred tool for identifying minerals by remote sensing methods on Earth is high spatial resolution, hyperspectral, near-infrared spectroscopy, a technique that has been extensively developed by mineral explorationists. Future efforts to explore Mars for ancient hydrothermal systems would benefit from the application of methods developed by the mining industry to look for similar deposits on Earth. But Earth-based exploration models must be adapted to account for the large differences in the climatic and geological history of Mars. For example, it is likely that the early surface environment of Mars was cool, perhaps consistently below freezing, with the shallow portions of hydrothermal systems being dominated by magma-cryosphere interactions. Given the smaller gravitational field, declining atmospheric pressure, and widespread, permeable megaregolith on Mars, volatile outgassing and magmatic cooling would have been more effective than on Earth. Thus, hydrothermal systems are likely to have had much lower average surface temperatures than comparable geological settings on Earth. The likely predominance of basaltic crust on Mars suggests that hydrothermal fluids and associated deposits should be enriched in Fe, Mg, Si and Ca, with surficial deposits being dominated by lower temperature, mixed iron oxide and carbonate mineralogies.

Hydrothermal systems on Mars: an assessment of present evidence.

PubMed

Farmer, J D

1996-01-01

Hydrothermal processes have been suggested to explain a number of observations for Mars, including D/H ratios of water extracted from Martian meteorites, as a means for removing CO2 from the Martian atmosphere and sequestering it in the crust as carbonates, and as a possible origin for iron oxide-rich spectral units on the floors of some rifted basins (chasmata). There are numerous examples of Martian channels formed by discharges of subsurface water near potential magmatic heat sources, and hydrothermal processes have also been proposed as a mechanism for aquifer recharge needed to sustain long term erosion of sapping channels. The following geological settings have been identified as targets for ancient hydrothermal systems on Mars: channels located along the margins of impact crater melt sheets and on the slopes of ancient volcanoes; chaotic and fretted terranes where shallow subsurface heat sources are thought to have interacted with ground ice; and the floors of calderas and rifted basins (e.g. chasmata). On Earth, such geological environments are often a locus for hydrothermal mineralization. But we presently lack the mineralogical information needed for a definitive evaluation of hypotheses. A preferred tool for identifying minerals by remote sensing methods on Earth is high spatial resolution, hyperspectral, near-infrared spectroscopy, a technique that has been extensively developed by mineral explorationists. Future efforts to explore Mars for ancient hydrothermal systems would benefit from the application of methods developed by the mining industry to look for similar deposits on Earth. But Earth-based exploration models must be adapted to account for the large differences in the climatic and geological history of Mars. For example, it is likely that the early surface environment of Mars was cool, perhaps consistently below freezing, with the shallow portions of hydrothermal systems being dominated by magma-cryosphere interactions. Given the smaller gravitational field, declining atmospheric pressure, and widespread, permeable megaregolith on Mars, volatile outgassing and magmatic cooling would have been more effective than on Earth. Thus, hydrothermal systems are likely to have had much lower average surface temperatures than comparable geological settings on Earth. The likely predominance of basaltic crust on Mars suggests that hydrothermal fluids and associated deposits should be enriched in Fe, Mg, Si and Ca, with surficial deposits being dominated by lower temperature, mixed iron oxide and carbonate mineralogies.

Ankyrin-repeat containing proteins of microbes: a conserved structure with functional diversity

PubMed Central

Al-Khodor, Souhaila; Price, Christopher T.; Kalia, Awdhesh; Kwaik, Yousef Abu

2009-01-01

Summary The ankyrin repeat (ANK) is the most common protein-protein interaction motif in nature and predominantly found in eukaryotic proteins. The genome sequencing of various pathogenic or symbiotic bacteria and eukaryotic viruses identified numerous genes encoding ANK-containing proteins that were proposed to have been acquired from eukaryotes by horizontal gene transfer. However, the recent discovery of additional ANK-containing proteins encoded in the genomes of archaea and free-living bacteria suggests either a more ancient origin of the ANK motif or multiple convergent evolution events. Many bacterial pathogens employ various types of secretion systems to deliver ANK-containing proteins into eukaryotic cells where they mimic or manipulate various host functions. Understanding the molecular and biochemical functions of this family of proteins will enhance our understanding of important host-microbe interactions. PMID:19962898

A New Global Geomorphology?

NASA Technical Reports Server (NTRS)

Baker, V. R.

1985-01-01

Geomorphology is entering a new era of discovery and scientific excitement centered on expanding scales of concern in both time and space. The catalysts for this development include technological advances in global remote sensing systems, mathematical modeling, and the dating of geomorphic surfaces and processes. Even more important are new scientific questions centered on comparative planetary geomorphology, the interaction of tectonism with landscapes, the dynamics of late Cenozoic climatic changes, the influence of cataclysmic processes, the recognition of extremely ancient landforms, and the history of the world's hydrologic systems. These questions all involve feedback relationships with allied sciences that have recently yielded profound developments.

Sustained UK marine observations. Where have we been? Where are we now? Where are we going?

PubMed Central

Owens, Nicholas J. P.

2014-01-01

This introduction traces the earliest interaction of ancient humans with their marine environment, through marine explorations in the Middle Ages and Renaissance, to the development of early marine science in the Enlightenment. This sets the scene for how marine observations developed in the modern era and explains the status of today's marine observation networks. The paper concludes with an assessment of the future needs and constraints of sustained marine observation networks and suggests the lessons from a long history might be the key to the future. PMID:25157193

In vivo response of Mesocestoides vogae to human insulin.

PubMed

Canclini, L; Esteves, A

2009-02-01

Successful host invasion by parasitic helminths involves detection and appropriate response to a range of host-derived signals. Insulin signal response pathways are ancient and highly-conserved throughout the metazoans. However, very little is known about helminth insulin signalling and the potential role it may play in host-parasite interactions. The response of Mesocestoides vogae (Cestoda: Cyclophyllidea) larvae to human insulin was investigated, focusing on tyrosine-phosphorylation status, glucose content, survival and asexual reproduction rate. Parasite larvae were challenged with different levels of insulin for variable periods. The parameters tested were influenced by human insulin, and suggested a host-parasite molecular dialogue.

Kaleidoscopes of reality.

PubMed

Franquemont, Sharon

2014-01-01

This article addresses the broad context of shifting definitions of how knowledge and reality can be described, including the transition from positivism to postpositivism in the 20th century. It provides an exploration of ways of knowing, from ancient Greek and yogic traditions to Barbara Carper's Fundamental Patterns of Knowing in Nursing (1978). It examines three reported components of modern care (intuition, cultural knowing, and spirituality) which are simultaneously present and absent in nursing. It concludes with an imaginative exploration of how nursing might be changed by transdisciplinary scholarship and education, new knowledge creation through interactive online communities, and the emergence of collective wisdom.

Merging genomes with geochemistry in hydrothermal ecosystems.

PubMed

Reysenbach, Anna-Louise; Shock, Everett

2002-05-10

Thermophilic microbial inhabitants of active seafloor and continental hot springs populate the deepest branches of the universal phylogenetic tree, making hydrothermal ecosystems the most ancient continuously inhabited ecosystems on Earth. Geochemical consequences of hot water-rock interactions render these environments habitable and supply a diverse array of energy sources. Clues to the strategies for how life thrives in these dynamic ecosystems are beginning to be elucidated through a confluence of biogeochemistry, microbiology, ecology, molecular biology, and genomics. These efforts have the potential to reveal how ecosystems originate, the extent of the subsurface biosphere, and the driving forces of evolution.

Structure of Ancient Glass by 29 Si Magic Angle Spinning NMR Spectroscopy.

PubMed

Bradford, Henry; Ryder, Amy; Henderson, Julian; Titman, Jeremy J

2018-05-23

29 Si magic angle spinning (MAS) NMR spectroscopy has been applied for the first time to the structural analysis of ancient glass samples obtained from archaeological excavations. The results show that it is possible to establish the distribution of Si environments in ancient glass by 29 Si MAS NMR, so long as the concentrations of magnetic impurities, such as Mn and Fe oxides, are low. In general, good agreement has been obtained with compositions determined by means of electron probe microanalysis. In addition, the 29 Si MAS NMR data reveal structural differences between glasses manufactured at separate ancient sites. © 2018 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

New developments in ancient genomics.

PubMed

Millar, Craig D; Huynen, Leon; Subramanian, Sankar; Mohandesan, Elmira; Lambert, David M

2008-07-01

Ancient DNA research is on the crest of a 'third wave' of progress due to the introduction of a new generation of DNA sequencing technologies. Here we review the advantages and disadvantages of the four new DNA sequencers that are becoming available to researchers. These machines now allow the recovery of orders of magnitude more DNA sequence data, albeit as short sequence reads. Hence, the potential reassembly of complete ancient genomes seems imminent, and when used to screen libraries of ancient sequences, these methods are cost effective. This new wealth of data is also likely to herald investigations into the functional properties of extinct genes and gene complexes and will improve our understanding of the biological basis of extinct phenotypes.

Twins in Ancient Greece: a synopsis.

PubMed

Malamitsi-Puchner, Ariadne

2016-01-01

This brief outline associates twins with several aspects of life in Ancient Greece. In Greek mythology twins caused ambivalent reactions and were believed to have ambivalent feelings for each other. Very often, they were viewed as the representatives of the dualistic nature of the universe. Heteropaternal superfecundation, which dominates in ancient myths, explains on one hand, the god-like qualities and, on the other hand, the mortal nature of many twins. An assumption is presented that legends referring to twins might reflect the territorial expansions of Ancient Greeks in Northern Mediterranean, around the Black Sea, in Asia Minor, as well as North East Africa. In conclusion, in Greek antiquity, twins have been used as transitional figures between myth and reality.

Ancient "Observatories" - A Relevant Concept?

NASA Astrophysics Data System (ADS)

Belmonte, Juan Antonio

It is quite common, when reading popular books on astronomy, to see a place referred to as "the oldest observatory in the world". In addition, numerous books on archaeoastronomy, of various levels of quality, frequently refer to the existence of "prehistoric" or "ancient" observatories when describing or citing monuments that were certainly not built with the primary purpose of observing the skies. Internet sources are also guilty of this practice. In this chapter, the different meanings of the word observatory will be analyzed, looking at how their significances can be easily confused or even interchanged. The proclaimed "ancient observatories" are a typical result of this situation. Finally, the relevance of the concept of the ancient observatory will be evaluated.

The ancient lunar crust, Apollo 17 region

NASA Technical Reports Server (NTRS)

James, O. B.

1992-01-01

The Apollo 17 highland collection is dominated by fragment-laden melt rocks, generally thought to represent impact melt from the Serenitatis basin-forming impact. Fortunately for our understanding of the lunar crust, the melt rocks contain unmelted clasts of preexisting rocks. Similar ancient rocks are also found in the regolith; most are probably clasts eroded out of melt rocks. The ancient rocks can be divided into groups by age, composition, and history. Oldest are plutonic igneous rocks, representing the magmatic components of the ancient crust. The younger are granulitic breccias, which are thoroughly recrystallized rocks of diverse parentages. The youngest are KREEPy basalts and felsites, products of relatively evolved magmas. Some characteristics of each group are given.

A bittersweet story: the true nature of the laurel of the Oracle of Delphi.

PubMed

Harissis, Haralampos V

2014-01-01

It is known from ancient sources that "laurel," identified with sweet bay, was used at the ancient Greek oracle of Delphi. The Pythia, the priestess who spoke the prophecies, purportedly used laurel as a means to inspire her divine frenzy. However, the clinical symptoms of the Pythia, as described in ancient sources, cannot be attributed to the use of sweet bay, which is harmless. A review of contemporary toxicological literature indicates that it is oleander that causes symptoms similar to those of the Pythia, while a closer examination of ancient literary texts indicates that oleander was often included under the generic term laurel. It is therefore likely that it was oleander, not sweet bay, that the Pythia used before the oracular procedure. This explanation could also shed light on other ancient accounts regarding the alleged spirit and chasm of Delphi, accounts that have been the subject of intense debate and interdisciplinary research for the last hundred years.

Intraosseous neurilemmoma of the mandible: report of a rare ancient type.

PubMed

Jahanshahi, Gholamreza; Haghighat, Abbas; Azmoodeh, Faezeh

2011-01-01

The neurilemmoma is a benign neoplasm of Schwann cell origin. One of the histopathologic subtypes of this tumor is ancient schwannoma which is characterized by degenerative alterations including cystic change, calcification, hemorrhage, and hyalinization.Intraosseous schwannomas especially ancient ones are rare tumors. Here we present a case of intraosseous ancient schwannoma in the lower jaw of an 11-year-old girl which caused a non-tender expansion. Radiographic examination showed a well-circumscribed, unilocular radiolucent lesion with thin sclerotic borders in the mandibular body and the ramus. Histopathologic examination of the incisional biopsy showed areas of typical Antoni A with verocay bodies and Antoni B that was strongly suggestive of a schwannoma. Complete excision of the lesion was done under general anesthesia. The histopathologic examination confirmed the primary diagnosis and also degenerative changes such as hyalinization and calcification. Based on these findings, the diagnosis of ancient schwannoma was made. No recurrence was observed in the follow-up examination after 3 months.

Insights in the history of pancreas: Restoring the true meaning of "kallikreas".

PubMed

Papavramidou, Niki

2018-05-04

This paper investigates the history of pancreas in classical and late antiquity with the intent to correlate it to the modern medical knowledge. Furthermore, an attempt is made to understand the true meaning of the term "kallikreas". Only primary textual sources are used in the transcription of ancient references of "pancreas" and/or "kallikreas". All of the references are analyzed and interpreted under a modern prism for better understanding the ancient anatomy proposed. The ancient references describe the actual organ, its position and the blood vessels related to it. An attempt if made to correlate the ancient physiology of the organ to the modern one. Finally, the problematic issue of the ancient terminology is studied. Textual proofs are offered that the knowledge that exists and that travelled through the ages concerning the identification of pancreas with "kallikreas", from which the hormone kallikrein took its name, is erroneous and that the term refers instead to the mesentery. Copyright © 2018 IAP and EPC. Published by Elsevier B.V. All rights reserved.

Feature recognition and detection for ancient architecture based on machine vision

NASA Astrophysics Data System (ADS)

Zou, Zheng; Wang, Niannian; Zhao, Peng; Zhao, Xuefeng

2018-03-01

Ancient architecture has a very high historical and artistic value. The ancient buildings have a wide variety of textures and decorative paintings, which contain a lot of historical meaning. Therefore, the research and statistics work of these different compositional and decorative features play an important role in the subsequent research. However, until recently, the statistics of those components are mainly by artificial method, which consumes a lot of labor and time, inefficiently. At present, as the strong support of big data and GPU accelerated training, machine vision with deep learning as the core has been rapidly developed and widely used in many fields. This paper proposes an idea to recognize and detect the textures, decorations and other features of ancient building based on machine vision. First, classify a large number of surface textures images of ancient building components manually as a set of samples. Then, using the convolution neural network to train the samples in order to get a classification detector. Finally verify its precision.

Identification of Milk Component in Ancient Food Residue by Proteomics

PubMed Central

Hong, Chuan; Jiang, Hongen; Lü, Enguo; Wu, Yunfei; Guo, Lihai; Xie, Yongming; Wang, Changsui; Yang, Yimin

2012-01-01

Background Proteomic approaches based on mass spectrometry have been recently used in archaeological and art researches, generating promising results for protein identification. Little information is known about eastward spread and eastern limits of prehistoric milking in eastern Eurasia. Methodology/Principal Finding In this paper, an ancient visible food remain from Subeixi Cemeteries (cal. 500 to 300 years BC) of the Turpan Basin in Xinjiang, China, preliminarily determined containing 0.432 mg/kg cattle casein with ELISA, was analyzed by using an improved method based on liquid chromatography (LC) coupled with MALDI-TOF/TOF-MS to further identify protein origin. The specific sequence of bovine casein and the homology sequence of goat/sheep casein were identified. Conclusions/Significance The existence of milk component in ancient food implies goat/sheep and cattle milking in ancient Subeixi region, the furthest eastern location of prehistoric milking in the Old World up to date. It is envisioned that this work provides a new approach for ancient residue analysis and other archaeometry field. PMID:22615887

The potential for biologically catalyzed anaerobic methane oxidation on ancient Mars.

PubMed

Marlow, Jeffrey J; Larowe, Douglas E; Ehlmann, Bethany L; Amend, Jan P; Orphan, Victoria J

2014-04-01

This study examines the potential for the biologically mediated anaerobic oxidation of methane (AOM) coupled to sulfate reduction on ancient Mars. Seven distinct fluids representative of putative martian groundwater were used to calculate Gibbs energy values in the presence of dissolved methane under a range of atmospheric CO2 partial pressures. In all scenarios, AOM is exergonic, ranging from -31 to -135 kJ/mol CH4. A reaction transport model was constructed to examine how environmentally relevant parameters such as advection velocity, reactant concentrations, and biomass production rate affect the spatial and temporal dependences of AOM reaction rates. Two geologically supported models for ancient martian AOM are presented: a sulfate-rich groundwater with methane produced from serpentinization by-products, and acid-sulfate fluids with methane from basalt alteration. The simulations presented in this study indicate that AOM could have been a feasible metabolism on ancient Mars, and fossil or isotopic evidence of this metabolic pathway may persist beneath the surface and in surface exposures of eroded ancient terrains.

Paleo-oncology: the role of ancient remains in the study of cancer.

PubMed

Halperin, Edward C

2004-01-01

Paleo-oncology is the study of carcinomas and sarcomas in ancient human populations and their hominid precursors. These populations are informative concerning the possible influences on cancer of morphologic and functional evolution, diet, lifestyle, and other environmental factors. The prevalence of cancer in ancient populations might have differed from that in modern humans, because of substantial differences in tobacco and alcohol use, diet, life expectancy, and the availability of treatment. The available physical data concerning cancer in antiquity includes evidence of its existence in animal fossils and ancient humans and their precursors. The difficulties of paleo-oncologic research include a limited soft tissue record. In evaluating cancer in ancient remains, one must also deal with the problem of pseudopathology: whether an observed tissue change is all antemortem pathologic lesion or a postmortem artifact. Future archeological discoveries and the application of improved diagnostic techniques may enable paleo-oncology to make further contributions to our understanding of cancer.

Intraosseous Neurilemmoma of the Mandible: Report of a Rare Ancient Type

PubMed Central

Jahanshahi, Gholamreza; Haghighat, Abbas; Azmoodeh, Faezeh

2011-01-01

The neurilemmoma is a benign neoplasm of Schwann cell origin. One of the histopathologic subtypes of this tumor is ancient schwannoma which is characterized by degenerative alterations including cystic change, calcification, hemorrhage, and hyalinization. Intraosseous schwannomas especially ancient ones are rare tumors. Here we present a case of intraosseous ancient schwannoma in the lower jaw of an 11-year-old girl which caused a non-tender expansion. Radiographic examination showed a well-circumscribed, unilocular radiolucent lesion with thin sclerotic borders in the mandibular body and the ramus. Histopathologic examination of the incisional biopsy showed areas of typical Antoni A with verocay bodies and Antoni B that was strongly suggestive of a schwannoma. Complete excision of the lesion was done under general anesthesia. The histopathologic examination confirmed the primary diagnosis and also degenerative changes such as hyalinization and calcification. Based on these findings, the diagnosis of ancient schwannoma was made. No recurrence was observed in the follow-up examination after 3 months. PMID:22013479

Application and comparison of large-scale solution-based DNA capture-enrichment methods on ancient DNA

PubMed Central

Ávila-Arcos, María C.; Cappellini, Enrico; Romero-Navarro, J. Alberto; Wales, Nathan; Moreno-Mayar, J. Víctor; Rasmussen, Morten; Fordyce, Sarah L.; Montiel, Rafael; Vielle-Calzada, Jean-Philippe; Willerslev, Eske; Gilbert, M. Thomas P.

2011-01-01

The development of second-generation sequencing technologies has greatly benefitted the field of ancient DNA (aDNA). Its application can be further exploited by the use of targeted capture-enrichment methods to overcome restrictions posed by low endogenous and contaminating DNA in ancient samples. We tested the performance of Agilent's SureSelect and Mycroarray's MySelect in-solution capture systems on Illumina sequencing libraries built from ancient maize to identify key factors influencing aDNA capture experiments. High levels of clonality as well as the presence of multiple-copy sequences in the capture targets led to biases in the data regardless of the capture method. Neither method consistently outperformed the other in terms of average target enrichment, and no obvious difference was observed either when two tiling designs were compared. In addition to demonstrating the plausibility of capturing aDNA from ancient plant material, our results also enable us to provide useful recommendations for those planning targeted-sequencing on aDNA. PMID:22355593

Defining Astrology in Ancient and Classical History

NASA Astrophysics Data System (ADS)

Campion, Nicholas

2015-05-01

Astrology in the ancient and classical worlds can be partly defined by its role, and partly by the way in which scholars spoke about it. The problem is complicated by the fact that the word is Greek - it has no Babylonian or Egyptian cognates - and even in Greece it was interchangeable with its cousin, 'astronomy'. Yet if we are to understand the role of the sky, stars and planets in culture, debates about the nature of ancient astrology, by both classical and modern scholars, must be taken into account. This talk will consider modern scholars' typologies of ancient astrology, together with ancient debates from Cicero in the 1st century BC, to Plotinus (204/5-270 AD) and Isidore of Seville (c. 560 - 4 April 636). It will consider the implications for our understanding of astronomy's role in culture, and conclude that in the classical period astrology may be best understood through its diversity and allegiance to competing philosophies, and that its functions were therefore similarly varied.

[The image of the ancient Indian pharmacists in the Chinese Buddhist scriptures].

PubMed

Wang, D W; Gao, Y X

2016-09-28

In the Chinese Buddhist Scriptures, there are many stories or topics about the ancient Indian pharmacist, however, they are not the Medicine Buddha as people knows, but real doctors. In the Chinese Buddhist Scriptures, the doctors gave the medical service to the monks and the laymen. Some of them are respected as the "miracle doctor" or the "king of doctor" , influencing the medicine of ancient East Asian.

Islamism and Radicalism in the Maldives

DTIC Science & Technology

2011-12-01

traffic in ancient times. Numerous commercial vessels sailed these waters on their journeys to the Far East, as well as fishermen from the coastal areas...races of ancient civilizations such as Mesopotamia and Indus, revered the sun. They claimed to be descendants of the sun and considered it their...Romero-Frias, The Maldive Islanders: A Study of the Popular Culture of an Ancient Ocean Kingdom (Barcelona: Nova Ethnographica Indica, 1999). This is

Cognitive aspects of ancient Maya eclipse theory.

NASA Astrophysics Data System (ADS)

Closs, M. P.

This paper is concerned with determining the nature of eclipse phenomena as it was perceived by the ancient Maya. It approaches the problem by considering the linguistic information pertaining to eclipses and by exploring the traditional beliefs associated with the occurrence of eclipses among the postconquest Maya. These data yield a model of a native eclipse theory which is compatible with hieroglyphic and iconographic materials pertaining to the ancient Maya.

"Ancient" schwannoma of the submandibular gland: A case report and literature review.

PubMed

Ho, Che-Fang; Wu, Pei-Wen; Lee, Ta-Jen; Huang, Chien-Chia

2017-12-01

Schwannomas are solitary neurogenic tumors that arise from cells of the neural sheath. Ancient schwannoma is a relatively rare variant of schwannoma, characterized by increased cellularity and atypia. These cellular changes could be confusing and make the accurate pathologic diagnosis difficult. A 36-year-old man presented with painless swelling in left submandibular region for more than 2 years. The computed tomography confirmed a well-defined cystic lesion in the left submandibular space, which caused superior and posterior displacement of the left submandibular gland. Surgical excision was performed and the pathology confirmed the diagnosis of ancient schwannoma. To our knowledge, this patient is the second case of primary submandibular ancient schwannoma reported in the literatures. The patient underwent tumor resection and postoperative recovery was uneventful. There were no nerve deficits after the operation. There was no recurrence within 1 year of follow-up. Schwannoma originated from the submandibular gland is extremely rare and only a few cases have been reported. Ancient schwannoma is an even more rare tumor. The increased cellularity and atypia of ancient schwannoma can resemble features of malignancy. Great care must be taken to make differential diagnosis with fibrosarcomas and malignant schwannoma. Copyright © 2017 The Authors. Published by Wolters Kluwer Health, Inc. All rights reserved.

Emergence of ancient cities in relation to geopolitical circumstances and climate change during late Holocene in northeastern Tibetan Plateau, China

NASA Astrophysics Data System (ADS)

Dong, Guanghui; Liu, Honggao; Yang, Yishi; Yang, Ying; Zhou, Aifeng; Wang, Zhongxin; Ren, Xiaoyan; Chen, Fahu

2016-12-01

The study of the history of human activities in ancient cities has provided valuable evidences for understanding the evolution of human-land relations during the late Holocene. Numerous ancient cities were discovered through archaeological surveys of the east Qinghai Province, located on the northeastern border of the Tibetan Plateau, China; however, the mystery of when or why these cities were built remains unsolved. As recorded in this paper, we sampled reliable dating materials from 47 ancient cities in the area, determined their ages by radiocarbon dating, and compared the dating results with historical documents and high resolution paleoclimate records to explore the influencing factors for the development of these ancient cities. The 54 radiocarbon dates indicated that most of these cities were built or repaired during the Han Dynasty (202 BC‒AD 220), Tang Dynasty (AD 618‒AD 907), the Five Dynasties and Ten Kingdoms period (AD 907‒AD 960), the Song dynasty (AD 960‒AD 1279), and the Ming Dynasty (AD 1368‒AD 1644). The radiocarbon dates correspond well with historical records of the area. Our work suggests the ancient cities in east Qinghai Province were likely built primarily for military defense, and may have also have been affected by climate change.

Health benefits of ancient grains. Comparison among bread made with ancient, heritage and modern grain flours in human cultured cells.

PubMed

Valli, Veronica; Taccari, Annalisa; Di Nunzio, Mattia; Danesi, Francesca; Bordoni, Alessandra

2018-05-01

Nowadays the higher nutritional value of whole grains compared to refined grains is recognized. In the last decade, there has been a renewed interest in the ancient wheat varieties for producing high-value food products with enhanced health benefits. This study compared two ancient grains, two heritage grains, and four modern grains grown in the same agronomic conditions considering not only their chemical characteristics, but also their biological effects. Whole grain flours were obtained and used to make bread. Bread was in vitro digested, the digesta were supplemented to HepG2 cells, and the biological effects of supplementation were evaluated. In addition, cells previously supplemented with the different digested bread types were then exposed to inflammatory agents to evidence possible protective effects of the pre-treatments. Despite the impossibility to discriminate bread made with different grains based on their chemical composition, results herein reported evidence that their supplementation to cultured cells exerts different effects, confirming the potential health benefits of ancient grains. This research represents an advancement for the evaluation of the apparent positive effects of ancient grains and the formulation of cereal-based products with added nutritional value. Copyright © 2018 Elsevier Ltd. All rights reserved.

Intrinsic challenges in ancient microbiome reconstruction using 16S rRNA gene amplification.

PubMed

Ziesemer, Kirsten A; Mann, Allison E; Sankaranarayanan, Krithivasan; Schroeder, Hannes; Ozga, Andrew T; Brandt, Bernd W; Zaura, Egija; Waters-Rist, Andrea; Hoogland, Menno; Salazar-García, Domingo C; Aldenderfer, Mark; Speller, Camilla; Hendy, Jessica; Weston, Darlene A; MacDonald, Sandy J; Thomas, Gavin H; Collins, Matthew J; Lewis, Cecil M; Hofman, Corinne; Warinner, Christina

2015-11-13

To date, characterization of ancient oral (dental calculus) and gut (coprolite) microbiota has been primarily accomplished through a metataxonomic approach involving targeted amplification of one or more variable regions in the 16S rRNA gene. Specifically, the V3 region (E. coli 341-534) of this gene has been suggested as an excellent candidate for ancient DNA amplification and microbial community reconstruction. However, in practice this metataxonomic approach often produces highly skewed taxonomic frequency data. In this study, we use non-targeted (shotgun metagenomics) sequencing methods to better understand skewed microbial profiles observed in four ancient dental calculus specimens previously analyzed by amplicon sequencing. Through comparisons of microbial taxonomic counts from paired amplicon (V3 U341F/534R) and shotgun sequencing datasets, we demonstrate that extensive length polymorphisms in the V3 region are a consistent and major cause of differential amplification leading to taxonomic bias in ancient microbiome reconstructions based on amplicon sequencing. We conclude that systematic amplification bias confounds attempts to accurately reconstruct microbiome taxonomic profiles from 16S rRNA V3 amplicon data generated using universal primers. Because in silico analysis indicates that alternative 16S rRNA hypervariable regions will present similar challenges, we advocate for the use of a shotgun metagenomics approach in ancient microbiome reconstructions.

Intrinsic challenges in ancient microbiome reconstruction using 16S rRNA gene amplification

PubMed Central

Ziesemer, Kirsten A.; Mann, Allison E.; Sankaranarayanan, Krithivasan; Schroeder, Hannes; Ozga, Andrew T.; Brandt, Bernd W.; Zaura, Egija; Waters-Rist, Andrea; Hoogland, Menno; Salazar-García, Domingo C.; Aldenderfer, Mark; Speller, Camilla; Hendy, Jessica; Weston, Darlene A.; MacDonald, Sandy J.; Thomas, Gavin H.; Collins, Matthew J.; Lewis, Cecil M.; Hofman, Corinne; Warinner, Christina

2015-01-01

To date, characterization of ancient oral (dental calculus) and gut (coprolite) microbiota has been primarily accomplished through a metataxonomic approach involving targeted amplification of one or more variable regions in the 16S rRNA gene. Specifically, the V3 region (E. coli 341–534) of this gene has been suggested as an excellent candidate for ancient DNA amplification and microbial community reconstruction. However, in practice this metataxonomic approach often produces highly skewed taxonomic frequency data. In this study, we use non-targeted (shotgun metagenomics) sequencing methods to better understand skewed microbial profiles observed in four ancient dental calculus specimens previously analyzed by amplicon sequencing. Through comparisons of microbial taxonomic counts from paired amplicon (V3 U341F/534R) and shotgun sequencing datasets, we demonstrate that extensive length polymorphisms in the V3 region are a consistent and major cause of differential amplification leading to taxonomic bias in ancient microbiome reconstructions based on amplicon sequencing. We conclude that systematic amplification bias confounds attempts to accurately reconstruct microbiome taxonomic profiles from 16S rRNA V3 amplicon data generated using universal primers. Because in silico analysis indicates that alternative 16S rRNA hypervariable regions will present similar challenges, we advocate for the use of a shotgun metagenomics approach in ancient microbiome reconstructions. PMID:26563586

Divine and rational: the reproductive health of women in ancient Egypt.

PubMed

Sullivan, R

1997-10-01

Analysis of existing evidence indicates that the ancient Egyptians created a systematic medical profession that resorted to divine interventions only when practical treatments failed. Ancient Egyptian women had predetermined roles but high status in society and lived according to strict hierarchial social organization. Inscriptions indicate that monogamous marriage was the norm, and the first year of marriage was probationary. An unspecified interval of months was the known duration of pregnancy, and a number of gods and goddesses were invoked to assist women during pregnancy and delivery. While little is currently known about pregnancy complication suffered by ancient Egyptian women, new techniques of studying mummies will soon yield additional information. The medical papyri yield few references to treatments prescribed for pregnancy complications, and no surgical instruments have been found that have recognizable obstetrical purposes. Accounts of Egyptian sex behavior survive in the writings of ancient historians and erotic texts. There is evidence that both religious (serving the priests) and social prostitution existed. A common theme in ancient texts is the belief that dreams of a sexual nature were ill omens. Medical papyri point to the existence of chlamydia and gonorrhea but not syphilis, various methods of contraception, and treatment for women with symptoms of genitourinary infection. Ancient Egyptians could diagnose pregnancy and even devised a rational pregnancy test. While most known physicians were men, there is evidence that female midwives may have attended births. Examination of Egyptian medical history shows how civilization attempted rational interventions into matters previously believed to be completely controlled by nature.

Specific expression patterns and cell distribution of ancient and modern PAG in bovine placenta during pregnancy.

PubMed

Touzard, Eve; Reinaud, Pierrette; Dubois, Olivier; Guyader-Joly, Catherine; Humblot, Patrice; Ponsart, Claire; Charpigny, Gilles

2013-10-01

Pregnancy-associated glycoproteins (PAGs) constitute a multigenic family of aspartic proteinases expressed in the trophoblast of the ruminant placenta. In Bos taurus, this family comprises 21 members segregated into ancient and modern phylogenetic groups. Ancient PAGs have been reported to be synthesized throughout the trophoblastic cell layer whereas modern PAGs are produced by binucleate cells of cotyledons. The aim of this study was to investigate modern and ancient PAGs during gestation in cotyledonary and intercotyledonary tissues. To obtain convincing and innovative results despite the high sequence identity shared between PAGs, we designed specific tools such as amplification primers and antibodies. Using real-time RT-PCR, we described the transcript expression of 16 bovine PAGs. Overall, PAGs are characterized by an increase in their expression during gestation. However, we demonstrated a segregation of modern PAGs in cotyledons and of ancient PAGs in the intercotyledonary chorion, except for the ancient PAG2 expressed in cotyledons. By raising specific antibodies against the modern PAG1 and ancient PAG11 and PAG2, we established the expression kinetics of the proteins using western blotting. Immunohistochemistry showed that PAGs were produced by specific cellular populations: PAG1 by binucleate cells in the whole trophoblastic layer, PAG11 was localized in binucleate cells of the intercotyledonary trophoblast and the chorionic plate of the cotyledon, while PAG2 was produced in mononucleate cells of the internal villi of the cotyledon. These results revealed a highly specific regulation of PAG expression and cell localization as a function of their phylogenetic status, suggesting distinct biological functions within placental tissues.

Skeletal dysplasia in ancient Egypt.

PubMed

Kozma, Chahira

2008-12-01

The ancient Egyptian civilization lasted for over 3000 years and ended in 30 BCE. Many aspects of ancient Egyptian culture, including the existence of skeletal dysplasias, and in particular achondroplasia, are well known through the monuments and records that survived until modern times. The hot and dry climate in Egypt allowed for the preservation of bodies and skeletal anomalies. The oldest dwarf skeleton, the Badarian skeleton (4500 BCE), possibly represents an epiphyseal disorder. Among the remains of dwarfs with achondroplasia from ancient Egypt (2686-2190 BCE), exists a skeleton of a pregnant female, believed to have died during delivery with a baby's remains in situ. British museums have partial skeletons of dwarfs with achondroplasia, humeri probably affected with mucopolysaccharidoses, and a skeleton of a child with osteogenesis imperfecta. Skeletal dysplasia is also found among royal remains. The mummy of the pharaoh Siptah (1342-1197 BCE) shows a deformity of the left leg and foot. A mummified fetus, believed to be the daughter of king Tutankhamun, has scoliosis, spina bifida, and Sprengel deformity. In 2006 I reviewed the previously existing knowledge of dwarfism in ancient Egypt. The purpose of this second historical review is to add to that knowledge with an expanded contribution. The artistic documentation of people with skeletal dysplasia from ancient Egypt is plentiful including hundreds of amulets, statues, and drawing on tomb and temple walls. Examination of artistic reliefs provides a glance of the role of people with skeletal dysplasia and the societal attitudes toward them. Both artistic evidence and moral teachings in ancient Egypt reveal wide integration of individuals with disabilities into the society. Copyright (c) 2008 Wiley-Liss, Inc.

Ancient wheat species and human health: Biochemical and clinical implications.

PubMed

Dinu, Monica; Whittaker, Anne; Pagliai, Giuditta; Benedettelli, Stefano; Sofi, Francesco

2018-02-01

Wheat is the major staple food in many diets. Based on the increase in worldwide mortality attributable to diet-related chronic diseases, there is an increasing interest in identifying wheat species with greater health potential, more specifically for improved anti-oxidant and anti-inflammatory properties. In particular, ancient varieties (defined as those species that have remained unchanged over the last hundred years) are gaining interest since several studies suggested that they present a healthier nutritional profile than modern wheats. This manuscript reviews the nutritional value and health benefits of ancient wheats varieties, providing a summary of all in vitro, ex vivo, animal and human studies that have thus far been published. Differences in chemical composition, and biochemical and clinical implications of emmer, einkorn, spelt, khorasan and various regional Italian varieties are discussed. Although many studies based on in vitro analyses of grain components provide support to the premise of a healthier nutritional and functional potential of ancient wheat, other in vitro studies performed are not in support of an improved potential of ancient varieties. In the light of existing evidence derived from in vivo experiments, the ancient wheat varieties have shown convincing beneficial effects on various parameters linked to cardio-metabolic diseases such as lipid and glycaemic profiles, as well as the inflammatory and oxidative status. However, given the limited number of human trials, it is not possible to definitively conclude that ancient wheat varieties are superior to all modern counterparts in reducing chronic disease risk. Copyright © 2017 Elsevier Inc. All rights reserved.

Characterizing avulsion stratigraphy in ancient alluvial deposits

NASA Astrophysics Data System (ADS)

Jones, H. L.; Hajek, E. A.

2007-11-01

Guidelines for identifying ancient avulsion deposits were set forth by Kraus and Wells [Kraus, M.J., Wells, T.M., 1999. Recognizing avulsion deposits in the ancient stratigraphical record. In: Smith, N.D., Rogers, J. (Eds.), Fluvial Sedimentology VI, Special Publication of the International Association of Sedimentologists, vol. 28, pp. 251-268], building on the study by Smith et al. [Smith, N.D., Cross, T.A., Dufficy, J.P., Clough, S.R., 1989. Anatomy of an avulsion. Sedimentology 36, 1-23] of the modern Saskatchewan River system (Cumberland Marshes, central Canada), and serve to characterize avulsion depositional sequences in the ancient Willwood and Fort Union Formations (Paleogene, Bighorn Basin, NW Wyoming, USA). We recognize, however, that the model is not universally applicable to avulsion-dominated successions, specifically systems which lack defining "heterolithic avulsion deposits", set forth by Kraus and Wells [Kraus, M.J., Wells, T.M., 1999. Recognizing avulsion deposits in the ancient stratigraphical record. In: Smith, N.D., Rogers, J. (Eds.), Fluvial Sedimentology VI, Special Publication of the International Association of Sedimentologists, vol. 28, pp. 251-268]. Observations in several fluvial intervals suggest that the avulsion stratigraphy outlined by Kraus and Wells [Kraus, M.J., Wells, T.M., 1999. Recognizing avulsion deposits in the ancient stratigraphical record. In: Smith, N.D., Rogers, J. (Eds.), Fluvial Sedimentology VI, Special Publication of the International Association of Sedimentologists, vol. 28, pp. 251-268] represents one category of avulsion stratigraphy found in the rock record, but does not capture the nature of avulsion deposits everywhere. Based on observations (using measured sections, outcrop photo-panels, and aerial photographs) in the Willwood Formation (Eocene, Wyoming) and Ferris Formation (Cretaceous/Paleogene, Wyoming), we present two end-member categories of avulsion stratigraphy in ancient deposits; stratigraphically abrupt, when a main paleochannel is stratigraphically juxtaposed directly atop floodplain/overbank deposits, and stratigraphically transitional, where crevasse splays and other non-floodplain/-overbank deposits stratigraphically precede a main paleochannel. This characterization provides a broader, more inclusive way to recognize and describe avulsion stratigraphy in ancient deposits and may be an important factor to consider when modeling connectivity in fluvial reservoirs. Furthermore, our observations show that one type of avulsion channel stratigraphy may prevail over another within an ancient basin, suggesting that system-wide factors such as splay-proneness or avulsion style (i.e. aggradational, incisional, etc.; [Slingerland, R., Smith, N.D., 2004. River avulsions and their deposits. Annual Review of Earth and Planetary Sciences 32, 257-285]) may be primary controls on the type of avulsion stratigraphy deposited and preserved in ancient basin-fills.

Stability and instability on Maya Lowlands tropical hillslope soils

NASA Astrophysics Data System (ADS)

Beach, Timothy; Luzzadder-Beach, Sheryl; Cook, Duncan; Krause, Samantha; Doyle, Colin; Eshleman, Sara; Wells, Greta; Dunning, Nicholas; Brennan, Michael L.; Brokaw, Nicholas; Cortes-Rincon, Marisol; Hammond, Gail; Terry, Richard; Trein, Debora; Ward, Sheila

2018-03-01

Substantial lake core and other evidence shows accelerated soil erosion occurred in the Maya Lowlands of Central America over ancient Maya history from 3000 to 1000 years ago. But we have little evidence of the wider network of the sources and sinks of that eroded sediment cascade. This study begins to solve the mystery of missing soil with new research and a synthesis of existing studies of tropical forest soils along slopes in NW Belize. The research aim is to understand soil formation, long-term human impacts on slopes, and slope stability over time, and explore ecological implications. We studied soils on seven slopes in tropical forest areas that have experienced intensive ancient human impacts and those with little ancient impacts. All of our soil catenas, except for one deforested from old growth two years before, contain evidence for about 1000 years of stable, tropical forest cover since Maya abandonment. We characterized the physical, chemical, and taxonomic characteristics of soils at crest-shoulder, backslopes, footslopes, and depression locations, analyzing typical soil parameters, chemical elements, and carbon isotopes (δ13C) in dated and undated sequences. Four footslopes or depressions in areas of high ancient occupation preserved evidence of buried, clay-textured soils covered by coarser sediment dating from the Maya Classic period. Three footslopes from areas with scant evidence of ancient occupation had little discernable deposition. These findings add to a growing corpus of soil toposequences with similar facies changes in footslopes and depressions that date to the Maya period. Using major elemental concentrations across a range of catenas, we derived a measure (Ca + Mg) / (Al + Fe + Mn) of the relative contributions of autochthonous and allochthonous materials and the relative age of soil catenas. We found very low ratios in clearly older, buried soils in footslopes and depressions and on slopes that had not undergone ancient Maya erosion. We found high (Ca + Mg) / (Al + Fe + Mn) values on slopes with several lines of evidence that suggest relative youth, soils possibly formed since Maya abandonment. Carbon isotopes (δ13C) also provide some evidence of past vegetation change on slopes. We found strong evidence for maize or other alien C4 species in an ancient terrace soil and additional evidence in buried footslopes but only evidence for C3 species (like tropical trees) on the backslopes and other crest-shoulders. The fact that steep slopes preserved no evidence of C4 species inputs may mean that the ancient Maya maintained forests here. Alternatively, ancient Maya land uses eroded slopes, with the δ13C signatures detected today being the result of more recent soil development under forest over the last millennium. Additional evidence that these soils are recent in age includes elevated (Ca + Mg) / (Al + Fe + Mn) values, skeletal soil profiles, and low soil magnetic susceptibility. Besides the evidence for truncating backslopes and aggrading footslopes, the ancient Maya built agricultural terraces that accumulated soils and altered drainage. All these ancient Maya slope alterations would have influenced modern tree distributions, because many tree species in the modern forest show strong preferences for different soil types and topographic situations that the ancient Maya changed.

Religious Zionism and Israeli Settlement Policy

DTIC Science & Technology

2014-06-01

Kook translate directly into the doctrines and actions of Gush Emunim.270 These ideas include Israel’s God -given ownership of their ancient homeland...founded by Theodore Herzl in 1897, and the traditional rabbinic teaching that rejects human efforts to secure a return to the ancient land of... ancient land of Israel. Religious Zionism is founded on the belief that Jews have an obligation to return to Israel; such a return is considered a

Unravelling ancient microbial history with community proteogenomics and lipid geochemistry.

PubMed

Brocks, Jochen J; Banfield, Jillian

2009-08-01

Our window into the Earth's ancient microbial past is narrow and obscured by missing data. However, we can glean information about ancient microbial ecosystems using fossil lipids (biomarkers) that are extracted from billion-year-old sedimentary rocks. In this Opinion article, we describe how environmental genomics and related methodologies will give molecular fossil research a boost, by increasing our knowledge about how evolutionary innovations in microorganisms have changed the surface of planet Earth.

Peopling the past: new perspectives on the ancient Maya.

PubMed

Robin, C

2001-01-02

The new direction in Maya archaeology is toward achieving a greater understanding of people and their roles and their relations in the past. To answer emerging humanistic questions about ancient people's lives Mayanists are increasingly making use of new and existing scientific methods from archaeology and other disciplines. Maya archaeology is bridging the divide between the humanities and sciences to answer questions about ancient people previously considered beyond the realm of archaeological knowledge.

Look and Do Ancient Egypt. Teacher's Manual: Primary Program, Ancient Egypt Art & Architecture [and] Workbook: The Art and Architecture of Ancient Egypt [and] K-4 Videotape. History through Art and Architecture.

ERIC Educational Resources Information Center

Luce, Ann Campbell

This resource contains a teaching manual, reproducible student workbook, and color teaching poster, which were designed to accompany a 2-part, 34-minute videotape, but may be adapted for independent use. Part 1 of the program, "The Old Kingdom," explains Egyptian beliefs concerning life after death as evidenced in art, architecture and…

Getting comfortable with death & near-death experiences. Near-death experiences: an essay in medicine & philosophy.

PubMed

Moody, Raymond A

2013-01-01

Near-death experiences are an ancient and very common phenomenon that spans from ancient philosophy, religion and healing to the most modern clinical practice of medicine. Probably we are not much closer to an ultimate explanation of NDEs than were early thinkers like Plato and Democritus. Puzzling cases of near-death experiences continue to come to light and the ancient debate about what they mean continues unabated.

Absolute determination of copper and silver in ancient coins using 14 MeV neutrons

NASA Astrophysics Data System (ADS)

Chalouhi, Ch.; Hourani, E.; Loos, R.; Melki, S.

1982-09-01

A method for absolute determination of copper and silver in ancient coins is described. Activation analysis by 14 MeV neutrons is performed. In the experimental procedure emphasis is placed on corrections for neutrons and gamma attenuation. In the analytical procedure, a multi linear-regression calculation is used to separate different contributions to the 511 keV gamma peak. The precision in the absolute determination of Cu and Ag is better than 2% in recent coins of definite shapes, whereas it is a somewhat lower in ancient coins of irregular shapes. The method was applied to ancient coins provided by the Museum of the American University of Beirut. Overall consistency and suitability of the method were obtained.

Microanalysis study on ancient Wiangkalong Pottery

NASA Astrophysics Data System (ADS)

Won-in, K.; Tancharakorn, S.; Dararutana, P.

2017-09-01

Wiangkalong is one of major ceramic production cities in northern of Thailand, once colonized by the ancient Lanna Kingdom (1290 A.D.). Ancient Wiangkalong potteries were produced with shapes and designs as similar as those of the Chinese Yuan and Ming Dynasties. Due to the complex nature of materials and objects, extremely sensitive, spatially resolved, multi-elemental and versatile analytical instruments using non-destructive and non-sampling methods to analyze theirs composition are need. In this work, micro-beam X-ray fluorescence spectroscopy based on synchrotron radiation was firstly used to characterize the elemental composition of the ancient Wiangkalong pottery. The results showed the variations in elemental composition of the body matrix, the glaze and the underglaze painting, such as K, Ca, Ti, V, Cr, Mn and Fe.

Polaris Undergraduates Connecting With K-12 Students Though Story Telling-Learning About Climate Change Using Web-Mapping Based Investigations

NASA Astrophysics Data System (ADS)

Wood, J. H.; Natali, S.; Schade, J. D.; Fiske, G. J.; Linder, C.; Ramos, E.; Weber, L. R.; Kuhn, M. A.

2014-12-01

The Polaris Project is a unique undergraduate education, research, and outreach initiative that examines global climate change in the Siberian Arctic. The program focuses on permafrost and carbon processes in the boreal and tundra ecosystems of the Kolyma Watershed, the largest watershed underlain by continuous permafrost. Each summer, a diverse group of undergraduate students and faculty mentors spends one month living on the Kolyma River, developing independent projects that engage the students directly in the biogeosciences through authentic scientific research experiences in remote field sites. In all cases the student projects contribute to the overall goal of the Polaris Project to investigate the transport and transformations of carbon and nutrients as they move among terrestrial and aquatic ecosystems and the atmosphere. Through the use of online interactive ArcGIS maps the students share their experiences and learning, while posing questions in a format that can be used to engage K-12 learners in the classroom. By embedding information; including databases, photographs and video, informational text, and geospatial data; into user-friendly maps the Polaris Project students will "tell the story" of studying climate change in the Siberian tundra in a way that allows the users to explore climate science through inquiry and web-map based investigation. Through performance expectation topics including Weather and Climate, Interactions, Earth's Systems, and Human impacts, this investigation uses consideration of the vast amounts of ancient organic matter locked up in permafrost in the region, and concerns about the fate of this ancient organic carbon as temperatures warm and permafrost thaws, to make K-12 climate change connections with the Next Generation Science Standards (NGSS).

Stochastic processes in the social sciences: Markets, prices and wealth distributions

NASA Astrophysics Data System (ADS)

Romero, Natalia E.

The present work uses statistical mechanics tools to investigate the dynamics of markets, prices, trades and wealth distribution. We studied the evolution of market dynamics in different stages of historical development by analyzing commodity prices from two distinct periods ancient Babylon, and medieval and early modern England. We find that the first-digit distributions of both Babylon and England commodity prices follow Benfords law, indicating that the data represent empirical observations typically arising from a free market. Further, we find that the normalized prices of both Babylon and England agricultural commodities are characterized by stretched exponential distributions, and exhibit persistent correlations of a power law type over long periods of up to several centuries, in contrast to contemporary markets. Our findings suggest that similar market interactions may underlie the dynamics of ancient agricultural commodity prices, and that these interactions may remain stable across centuries. To further investigate the dynamics of markets we present the analogy between transfers of money between individuals and the transfer of energy through particle collisions by means of the kinetic theory of gases. We introduce a theoretical framework of how the micro rules of trading lead to the emergence of income and wealth distribution. Particularly, we study the effects of different types of distribution of savings/investments among individuals in a society and different welfare/subsidies redistribution policies. Results show that while considering savings propensities the models approach empirical distributions of wealth quite well the effect of redistribution better captures specific features of the distributions which earlier models failed to do; moreover the models still preserve the exponential decay observed in empirical income distributions reported by tax data and surveys.

Theory of Earth

NASA Astrophysics Data System (ADS)

Anderson, D. L.

2014-12-01

Earth is an isolated, cooling planet that obeys the 2nd law. Interior dynamics is driven from the top, by cold sinking slabs. High-resolution broad-band seismology and geodesy has confirmed that mantle flow is characterized by narrow downwellings and ~20 broad slowly rising updrafts. The low-velocity zone (LVZ) consists of a hot melange of sheared peridotite intruded with aligned melt-rich lamellae that are tapped by intraplate volcanoes. The high temperature is a simple consequence of the thermal overshoot common in large bodies of convecting fluids. The transition zone consists of ancient eclogite layers that are displaced upwards by slabs to become broad passive, and cool, ridge feeding updrafts of ambient mantle. The physics that is overlooked in canonical models of mantle dynamics and geochemistry includes; the 2nd law, convective overshoots, subadiabaticity, wave-melt interactions, Archimedes' principle, and kinetics (rapid transitions allow stress-waves to interact with melting and phase changes, creating LVZs; sluggish transitions in cold slabs keep eclogite in the TZ where it warms up by extracting heat from mantle below 650 km, creating the appearance of slab penetration). Canonical chemical geodynamic models are the exact opposite of physics and thermodynamic based models and of the real Earth. A model that results from inverting the assumptions regarding initial and boundary conditions (hot origin, secular cooling, no external power sources, cooling internal boundaries, broad passive upwellings, adiabaticity and whole-mantle convection not imposed, layering and self-organization allowed) results in a thick refractory-yet-fertile surface layer, with ancient xenoliths and cratons at the top and a hot overshoot at the base, and a thin mobile D" layer that is an unlikely plume generation zone. Accounting for the physics that is overlooked, or violated (2nd law), in canonical models, plus modern seismology, undermines the assumptions and conclusions of these models.

HUBBLE SPIES HUGE CLUSTERS OF STARS FORMED

NASA Technical Reports Server (NTRS)

2002-01-01

BY ANCIENT ENCOUNTER This stunningly beautiful image [right] taken with the NASA Hubble Space Telescope shows the heart of the prototypical starburst galaxy M82. The ongoing violent star formation due to an ancient encounter with its large galactic neighbor, M81, gives this galaxy its disturbed appearance. The smaller picture at upper left shows the entire galaxy. The image was taken in December 1994 by the Kitt Peak National Observatory's 0.9-meter telescope. Hubble's view is represented by the white outline in the center. In the Hubble image, taken by the Wide Field and Planetary Camera 2, the huge lanes of dust that crisscross M82's disk are another telltale sign of the flurry of star formation. Below the center and to the right, a strong galactic wind is spewing knotty filaments of hydrogen and nitrogen gas. More than 100 super star clusters -- very bright, compact groupings of about 100,000 stars -- are seen in this detailed Hubble picture as white dots sprinkled throughout M82's central region. The dark region just above the center of the picture is a huge dust cloud. A collaboration of European and American scientists used these clusters to date the ancient interaction between M82 and M81. About 600 million years ago, a region called 'M82 B' (the bright area just below and to the left of the central dust cloud) exploded with new stars. Scientists have discovered that this ancient starburst was triggered by the violent encounter with M81. M82 is a bright (eighth magnitude), nearby (12 million light-years from Earth) galaxy in the constellation Ursa Major (the Great Bear). The Hubble picture was taken Sept. 15, 1997. The natural-color composite was constructed from three Wide Field and Planetary Camera 2 exposures, which were combined in chromatic order: 4,250 seconds through a blue filter (428 nm); 2,800 seconds through a green filter (520 nm); and 2,200 seconds through a red (820 nm) filter. Credits for Hubble image: NASA, ESA, R. de Grijs (Institute of Astronomy, Cambridge, UK) Credits for ground-based picture: N.A. Sharp (Association of Universities for Research in Astronomy, National Optical Astronomy Observatories, National Science Foundation)

Geoarchaeological research of the mid-age Ilyas Bey complex buildings with ground penetrating radar in Miletus, Aydin, Western Anatolia, Turkey

NASA Astrophysics Data System (ADS)

Kadioğlu, S.; Kadioğlu, Y. K.; Akyol, A. A.

2008-07-01

The ancient Miletus which were one of the most important city of ancient Iona, are today of great value from cultural standpoint of Turkey. Miletus, situated near the village of Balat in the present district of Soke was founded on a peninsula, approximately 2.5 km long. In the Byzantine period, the city boundaries were quite reduced. In 1424 Miletus was taken inside of the Ottoman Empire and was completely abandoned in the 17th century. Ancient Miletus excavation studies were first begun in 1899 by in Berlin Museum and interrupted during the World War I. At present, the extensive restoration works in Ilyas Bey Complex has applied as a project since 2006. Ilyas Bey Complex that includes Mosque, Medresah and baths situated on the archaeological area in ancient Miletus. Impressive Mosque built in 1404 by Ilyas Bey, Emir of Menteseogullari founded in 1279 and the complex was named after him, is one of the most remarkable buildings of mid-age Miletus. There are two main purposes of the study are (1) to determine archaeological remains of the study area underneath Ilyas Bey Complex and (2) to define the nature of main rock unit and their sources in the vicinity or Aegean region. After preliminary archaeometrical studies, acquired GPR profile data paralleled each other in Ilyas Bey Mosque and its around, Medresah Courtyard and inner Courtyard of the Mosque. After processing 2D parallel GPR profiles, we constructed 3D data volume by lining processed 2D profiles up to correlate remain signatures from each profile for each studied area. It was obtained transparent 3D visualisation of GPR data by assigning a new colour scale for the amplitude range and by constructing a new opacity function instead of the linear opacity function. Therefore we could successfully image the archaeological remains in an interactive transparent 3D volume and its sub-volumes, starting at different depth levels or limited profiles. The archaeometrical (geological and mineralogical, petrographical) studies reveal that the main bulding rock units of Ilyas Bey Mosque are mainly composed of 4 main units these are marble, metalimestone, mica gneiss and granodiorite. The marble, metalimestone with the mica gneiss were obtained from Menderes Massif in Western Anatolia. The granodiorite columns might be obtained from Kozak Pluton in the north of Bergama-Izmir line of western Anatolia.

Dwarfs in ancient Egypt.

PubMed

Kozma, Chahira

2006-02-15

Ancient Egypt was one of the most advanced and productive civilizations in antiquity, spanning 3000 years before the "Christian" era. Ancient Egyptians built colossal temples and magnificent tombs to honor their gods and religious leaders. Their hieroglyphic language, system of organization, and recording of events give contemporary researchers insights into their daily activities. Based on the record left by their art, the ancient Egyptians documented the presence of dwarfs in almost every facet of life. Due to the hot dry climate and natural and artificial mummification, Egypt is a major source of information on achondroplasia in the old world. The remains of dwarfs are abundant and include complete and partial skeletons. Dwarfs were employed as personal attendants, animal tenders, jewelers, and entertainers. Several high-ranking dwarfs especially from the Old Kingdom (2700-2190 BCE) achieved important status and had lavish burial places close to the pyramids. Their costly tombs in the royal cemeteries and the inscriptions on their statutes indicate their high-ranking position in Egyptian society and their close relation to the king. Some of them were Seneb, Pereniankh, Khnumhotpe, and Djeder. There were at least two dwarf gods, Ptah and Bes. The god Ptah was associated with regeneration and rejuvenation. The god Bes was a protector of sexuality, childbirth, women, and children. He was a favored deity particularly during the Greco-Roman period. His temple was recently excavated in the Baharia oasis in the middle of Egypt. The burial sites and artistic sources provide glimpses of the positions of dwarfs in daily life in ancient Egypt. Dwarfs were accepted in ancient Egypt; their recorded daily activities suggest assimilation into daily life, and their disorder was not shown as a physical handicap. Wisdom writings and moral teachings in ancient Egypt commanded respect for dwarfs and other individuals with disabilities. Copyright (c) 2005 Wiley-Liss, Inc.

Classification of Ancient Mammal Individuals Using Dental Pulp MALDI-TOF MS Peptide Profiling

PubMed Central

Tran, Thi-Nguyen-Ny; Aboudharam, Gérard; Gardeisen, Armelle; Davoust, Bernard; Bocquet-Appel, Jean-Pierre; Flaudrops, Christophe; Belghazi, Maya; Raoult, Didier; Drancourt, Michel

2011-01-01

Background The classification of ancient animal corpses at the species level remains a challenging task for forensic scientists and anthropologists. Severe damage and mixed, tiny pieces originating from several skeletons may render morphological classification virtually impossible. Standard approaches are based on sequencing mitochondrial and nuclear targets. Methodology/Principal Findings We present a method that can accurately classify mammalian species using dental pulp and mass spectrometry peptide profiling. Our work was organized into three successive steps. First, after extracting proteins from the dental pulp collected from 37 modern individuals representing 13 mammalian species, trypsin-digested peptides were used for matrix-assisted laser desorption/ionization time-of-flight mass spectrometry analysis. The resulting peptide profiles accurately classified every individual at the species level in agreement with parallel cytochrome b gene sequencing gold standard. Second, using a 279–modern spectrum database, we blindly classified 33 of 37 teeth collected in 37 modern individuals (89.1%). Third, we classified 10 of 18 teeth (56%) collected in 15 ancient individuals representing five mammal species including human, from five burial sites dating back 8,500 years. Further comparison with an upgraded database comprising ancient specimen profiles yielded 100% classification in ancient teeth. Peptide sequencing yield 4 and 16 different non-keratin proteins including collagen (alpha-1 type I and alpha-2 type I) in human ancient and modern dental pulp, respectively. Conclusions/Significance Mass spectrometry peptide profiling of the dental pulp is a new approach that can be added to the arsenal of species classification tools for forensics and anthropology as a complementary method to DNA sequencing. The dental pulp is a new source for collagen and other proteins for the species classification of modern and ancient mammal individuals. PMID:21364886

Omics for Precious Rare Biosamples: Characterization of Ancient Human Hair by a Proteomic Approach.

PubMed

Fresnais, Margaux; Richardin, Pascale; Sepúlveda, Marcela; Leize-Wagner, Emmanuelle; Charrié-Duhaut, Armelle

2017-07-01

Omics technologies have far-reaching applications beyond clinical medicine. A case in point is the analysis of ancient hair samples. Indeed, hair is an important biological indicator that has become a material of choice in archeometry to study the ancient civilizations and their environment. Current characterization of ancient hair is based on elemental and structural analyses, but only few studies have focused on the molecular aspects of ancient hair proteins-keratins-and their conservation state. In such cases, applied extraction protocols require large amounts of raw hair, from 30 to 100 mg. In the present study, we report an optimized new proteomic approach to accurately identify archeological hair proteins, and assess their preservation state, while using a minimum of raw material. Testing and adaptation of three protocols and of nano liquid chromatography-tandem mass spectrometry (nanoLC-MS/MS) parameters were performed on modern hair. On the basis of mass spectrometry data quality, and of the required initial sample amount, the most promising workflow was selected and applied to an ancient archeological sample, dated to about 3880 years before present. Finally, and importantly, we were able to identify 11 ancient hair proteins and to visualize the preservation state of mummy's hair from only 500 μg of raw material. The results presented here pave the way for new insights into the understanding of hair protein alteration processes such as those due to aging and ecological exposures. This work could enable omics scientists to apply a proteomic approach to precious and rare samples, not only in the context of archeometrical studies but also for future applications that would require the use of very small amounts of sample.

Vascular plants promote ancient peatland carbon loss with climate warming.

PubMed

Walker, Tom N; Garnett, Mark H; Ward, Susan E; Oakley, Simon; Bardgett, Richard D; Ostle, Nicholas J

2016-05-01

Northern peatlands have accumulated one third of the Earth's soil carbon stock since the last Ice Age. Rapid warming across northern biomes threatens to accelerate rates of peatland ecosystem respiration. Despite compensatory increases in net primary production, greater ecosystem respiration could signal the release of ancient, century- to millennia-old carbon from the peatland organic matter stock. Warming has already been shown to promote ancient peatland carbon release, but, despite the key role of vegetation in carbon dynamics, little is known about how plants influence the source of peatland ecosystem respiration. Here, we address this issue using in situ (14)C measurements of ecosystem respiration on an established peatland warming and vegetation manipulation experiment. Results show that warming of approximately 1 °C promotes respiration of ancient peatland carbon (up to 2100 years old) when dwarf-shrubs or graminoids are present, an effect not observed when only bryophytes are present. We demonstrate that warming likely promotes ancient peatland carbon release via its control over organic inputs from vascular plants. Our findings suggest that dwarf-shrubs and graminoids prime microbial decomposition of previously 'locked-up' organic matter from potentially deep in the peat profile, facilitating liberation of ancient carbon as CO2. Furthermore, such plant-induced peat respiration could contribute up to 40% of ecosystem CO2 emissions. If consistent across other subarctic and arctic ecosystems, this represents a considerable fraction of ecosystem respiration that is currently not acknowledged by global carbon cycle models. Ultimately, greater contribution of ancient carbon to ecosystem respiration may signal the loss of a previously stable peatland carbon pool, creating potential feedbacks to future climate change. © 2016 John Wiley & Sons Ltd.

Assessing the Fidelity of Ancient DNA Sequences Amplified From Nuclear Genes

PubMed Central

Binladen, Jonas; Wiuf, Carsten; Gilbert, M. Thomas P.; Bunce, Michael; Barnett, Ross; Larson, Greger; Greenwood, Alex D.; Haile, James; Ho, Simon Y. W.; Hansen, Anders J.; Willerslev, Eske

2006-01-01

To date, the field of ancient DNA has relied almost exclusively on mitochondrial DNA (mtDNA) sequences. However, a number of recent studies have reported the successful recovery of ancient nuclear DNA (nuDNA) sequences, thereby allowing the characterization of genetic loci directly involved in phenotypic traits of extinct taxa. It is well documented that postmortem damage in ancient mtDNA can lead to the generation of artifactual sequences. However, as yet no one has thoroughly investigated the damage spectrum in ancient nuDNA. By comparing clone sequences from 23 fossil specimens, recovered from environments ranging from permafrost to desert, we demonstrate the presence of miscoding lesion damage in both the mtDNA and nuDNA, resulting in insertion of erroneous bases during amplification. Interestingly, no significant differences in the frequency of miscoding lesion damage are recorded between mtDNA and nuDNA despite great differences in cellular copy numbers. For both mtDNA and nuDNA, we find significant positive correlations between total sequence heterogeneity and the rates of type 1 transitions (adenine → guanine and thymine → cytosine) and type 2 transitions (cytosine → thymine and guanine → adenine), respectively. Type 2 transitions are by far the most dominant and increase relative to those of type 1 with damage load. The results suggest that the deamination of cytosine (and 5-methyl cytosine) to uracil (and thymine) is the main cause of miscoding lesions in both ancient mtDNA and nuDNA sequences. We argue that the problems presented by postmortem damage, as well as problems with contamination from exogenous sources of conserved nuclear genes, allelic variation, and the reliance on single nucleotide polymorphisms, call for great caution in studies relying on ancient nuDNA sequences. PMID:16299392

The study of human Y chromosome variation through ancient DNA.

PubMed

Kivisild, Toomas

2017-05-01

High throughput sequencing methods have completely transformed the study of human Y chromosome variation by offering a genome-scale view on genetic variation retrieved from ancient human remains in context of a growing number of high coverage whole Y chromosome sequence data from living populations from across the world. The ancient Y chromosome sequences are providing us the first exciting glimpses into the past variation of male-specific compartment of the genome and the opportunity to evaluate models based on previously made inferences from patterns of genetic variation in living populations. Analyses of the ancient Y chromosome sequences are challenging not only because of issues generally related to ancient DNA work, such as DNA damage-induced mutations and low content of endogenous DNA in most human remains, but also because of specific properties of the Y chromosome, such as its highly repetitive nature and high homology with the X chromosome. Shotgun sequencing of uniquely mapping regions of the Y chromosomes to sufficiently high coverage is still challenging and costly in poorly preserved samples. To increase the coverage of specific target SNPs capture-based methods have been developed and used in recent years to generate Y chromosome sequence data from hundreds of prehistoric skeletal remains. Besides the prospects of testing directly as how much genetic change in a given time period has accompanied changes in material culture the sequencing of ancient Y chromosomes allows us also to better understand the rate at which mutations accumulate and get fixed over time. This review considers genome-scale evidence on ancient Y chromosome diversity that has recently started to accumulate in geographic areas favourable to DNA preservation. More specifically the review focuses on examples of regional continuity and change of the Y chromosome haplogroups in North Eurasia and in the New World.

An ancient rule for constructing dodecagonal quasiperiodic patterns

NASA Astrophysics Data System (ADS)

Ajlouni, Rima

2017-02-01

The discovery of complex dodecagonal patterns in historical Islamic architecture is generating a renewed interest into understanding the mathematical principles of traditional Islamic geometry. By employing a compass and a straightedge, ancient craftsmen utilized consistent design principles that allowed for diverse geometric expressions to be realized throughout the ancient world. Derived from these principles, a global multi-level structural model is proposed that provides a general guiding principle for constructing a wide variety of infinite dodecagon-based quasiperiodic patterns.

Investigation of Ancient Egyptian Baking and Brewing Methods by Correlative Microscopy

PubMed

Samuel

1996-07-26

Ancient Egyptian methods of baking and brewing are investigated by optical and scanning electron microscopy of desiccated bread loaves and beer remains. The results suggest that current conceptions about ancient Egyptian bread and beer making should be modified. Bread was made not only with flour from raw grain, but sometimes also with malt and with yeast. Brewing blended cooked and uncooked malt with water; the mixture was strained free of husk before inoculation with yeast.

Sirius in Ancient Greek and Roman Literature: From the Orphic Argonautics to the Astronomical Tables of Georgios Chrysococca

NASA Astrophysics Data System (ADS)

Theodossiou, Efstratios; Manimanis, Vassilios N.; Dimitrijevi, Milan S.; Mantarakis, Peter Z.

2011-11-01

The brightest star of the night sky, is Sirius, Alpha Canis Majoris (α CMa). Due to its intense brightness, Sirius had one of the dominant positions in ancient mythology, legends and traditions. In this paper the references of the many ancient classical Greek and Roman authors and poets who wrote about Sirius are examined, and the problem of its 'red' color reported in some of these references is discussed.

George Washington and the Establishment of Civil-Military Relations in Relation to the Declaration of Independence

DTIC Science & Technology

2015-06-12

the foundation of what colonists called the rights of Englishmen. They traced the history of English rights from an idealistic view of the ancient ...their rights and liberties as an English birthright originating with the ancient Saxons and viewed much of subsequent English history as a struggle to...preserve these ancient freedoms against the arbitrary rule of kings.2 A closer examination of this history, or the colonial perception of this

Peopling the past: New perspectives on the ancient Maya

PubMed Central

Robin, Cynthia

2001-01-01

The new direction in Maya archaeology is toward achieving a greater understanding of people and their roles and their relations in the past. To answer emerging humanistic questions about ancient people's lives Mayanists are increasingly making use of new and existing scientific methods from archaeology and other disciplines. Maya archaeology is bridging the divide between the humanities and sciences to answer questions about ancient people previously considered beyond the realm of archaeological knowledge. PMID:11136245

Endocrinology in ancient Sparta.

PubMed

Tsoulogiannis, Ioannis N; Spandidos, Demetrios A

2007-01-01

This article attempts to analyze the crucial link between the plant Agnus castus and human health, particularly hormonal status, with special reference to the needs of the society of ancient Sparta. The ancient Spartans used Agnus both as a cure for infertility and as a remedy to treat battle wounds. These special properties were recognized by the sanctuary of Asclepios Agnita, which was located in Sparta, as well as by medical practitioners in Sparta during the classical, Hellenistic and Roman ages.

[The method and application to construct experience recommendation platform of acupuncture ancient books based on data mining technology].

PubMed

Chen, Chuyun; Hong, Jiaming; Zhou, Weilin; Lin, Guohua; Wang, Zhengfei; Zhang, Qufei; Lu, Cuina; Lu, Lihong

2017-07-12

To construct a knowledge platform of acupuncture ancient books based on data mining technology, and to provide retrieval service for users. The Oracle 10 g database was applied and JAVA was selected as development language; based on the standard library and ancient books database established by manual entry, a variety of data mining technologies, including word segmentation, speech tagging, dependency analysis, rule extraction, similarity calculation, ambiguity analysis, supervised classification technology were applied to achieve text automatic extraction of ancient books; in the last, through association mining and decision analysis, the comprehensive and intelligent analysis of disease and symptom, meridians, acupoints, rules of acupuncture and moxibustion in acupuncture ancient books were realized, and retrieval service was provided for users through structure of browser/server (B/S). The platform realized full-text retrieval, word frequency analysis and association analysis; when diseases or acupoints were searched, the frequencies of meridian, acupoints (diseases) and techniques were presented from high to low, meanwhile the support degree and confidence coefficient between disease and acupoints (special acupoint), acupoints and acupoints in prescription, disease or acupoints and technique were presented. The experience platform of acupuncture ancient books based on data mining technology could be used as a reference for selection of disease, meridian and acupoint in clinical treatment and education of acupuncture and moxibustion.

[Investigation of potential toxic factors for fleece-flower root： from perspective of processing methods evolution].

PubMed

Cui, He-Rong; Bai, Zhao-Fang; Song, Hai-Bo; Jia, Tian-Zhu; Wang, Jia-Bo; Xiao, Xiao-He

2016-01-01

In recent years, the rapid growth of reports on fleece-flower root-caused liver damages has drawn wide attention of both at home and abroad, however, there were rare literature on toxicology of fleece-flower root in ancient Chinese medicine. But why there are so many reports on toxicology of fleece-flower root now compared with the ancient literature? As a typical tonic medicine, the clinical utility of fleece-flower root was largely limited by its standardization and reliability of processing methods in ancient Chinese medicine. The ancient processing methods of fleece-flower root emphasized nine times of steaming and nine times of drying, while the modern processes have been simplified into one time of steaming. Whether the differences between ancient and modern processing methods are the potential cause of the increased events of fleece-flower root-caused liver damages. We will make deep analysis and provide new clues and perspectives for the research on its toxicity. This article, therefore, would discuss the affecting factors and key problems in toxicity attenuation of fleece-flower root on the basis of sorting out the processing methods of fleece-flower root in ancient medical books and modern standards, in order to provide the reference for establishing specification for toxicity attenuation of fleece-flower root. Copyright© by the Chinese Pharmaceutical Association.

Non-Destructive Sampling of Ancient Insect DNA

PubMed Central

Thomsen, Philip Francis; Elias, Scott; Gilbert, M. Thomas P.; Haile, James; Munch, Kasper; Kuzmina, Svetlana; Froese, Duane G.; Holdaway, Richard N.; Willerslev, Eske

2009-01-01

Background A major challenge for ancient DNA (aDNA) studies on insect remains is that sampling procedures involve at least partial destruction of the specimens. A recent extraction protocol reveals the possibility of obtaining DNA from past insect remains without causing visual morphological damage. We test the applicability of this protocol on historic museum beetle specimens dating back to AD 1820 and on ancient beetle chitin remains from permafrost (permanently frozen soil) dating back more than 47,000 years. Finally, we test the possibility of obtaining ancient insect DNA directly from non-frozen sediments deposited 3280-1800 years ago - an alternative approach that also does not involve destruction of valuable material. Methodology/Principal Findings The success of the methodological approaches are tested by PCR and sequencing of COI and 16S mitochondrial DNA (mtDNA) fragments of 77–204 base pairs (-bp) in size using species-specific and general insect primers. Conclusion/Significance The applied non-destructive DNA extraction method shows promising potential on insect museum specimens of historical age as far back as AD 1820, but less so on the ancient permafrost-preserved insect fossil remains tested, where DNA was obtained from samples up to ca. 26,000 years old. The non-frozen sediment DNA approach appears to have great potential for recording the former presence of insect taxa not normally preserved as macrofossils and opens new frontiers in research on ancient biodiversity. PMID:19337382

Paleobiology of Pleistocene Proboscideans

NASA Astrophysics Data System (ADS)

Fisher, Daniel C.

2018-05-01

The paleobiology of Pleistocene proboscideans plays a pivotal role in understanding their history and in answering fundamental questions involving their interactions with other taxa, including humans. Much of our view of proboscidean paleobiology is influenced by analogies with extant elephants. However, a wealth of information is available for reconstructing the paleobiology of ancient proboscideans using data from fossil specimens and preservational settings. Remarkable opportunities include permafrost-derived specimens with preserved soft tissue, intestinal contents with direct evidence of diet, and compositional and structural profiles with subannual temporal resolution archived in appositional systems such as proboscidean tusks. New information on diets and local climates puts our understanding of proboscidean paleoecology on a firmer foundation, but the greatest prospects for new insight spring from life history data now being retrieved from accelerator mass spectrometry–dated fossil material. Interaction between humans and proboscideans has been a critical factor in the history of both groups.

Conserved mRNA-binding proteomes in eukaryotic organisms.

PubMed

Matia-González, Ana M; Laing, Emma E; Gerber, André P

2015-12-01

RNA-binding proteins (RBPs) are essential for post-transcriptional regulation of gene expression. Recent high-throughput screens have dramatically increased the number of experimentally identified RBPs; however, comprehensive identification of RBPs within living organisms is elusive. Here we describe the repertoire of 765 and 594 proteins that reproducibly interact with polyadenylated mRNAs in Saccharomyces cerevisiae and Caenorhabditis elegans, respectively. Furthermore, we report the differential association of mRNA-binding proteins (mRPBs) upon induction of apoptosis in C. elegans L4-stage larvae. Strikingly, most proteins composing mRBPomes, including components of early metabolic pathways and the proteasome, are evolutionarily conserved between yeast and C. elegans. We speculate, on the basis of our evidence that glycolytic enzymes bind distinct glycolytic mRNAs, that enzyme-mRNA interactions relate to an ancient mechanism for post-transcriptional coordination of metabolic pathways that perhaps was established during the transition from the early 'RNA world' to the 'protein world'.

Mind-Body Therapies: Evidence and Implications in Advanced Oncology Practice

PubMed Central

Mayden,, Kelley D.

2012-01-01

The idea that thoughts and emotions influence health outcomes is an ancient concept that was initially abandoned by Western medicine researchers. Today, researchers are showing a renewed interest in the interactions of the mind and body and the role these interactions play in disease formation and recovery. Complementary and alternative interventions, such as mind-body therapies, are increasingly being used by cancer survivors for disease prevention, immune system enhancement, and symptom control. Traditional training has not been structured to provide advanced practitioners with an in-depth knowledge of the clinical applications of mind-body therapies. The aim of this article is to acquaint the reader with common mind-body modalities (meditation/mindfulness-based stress reduction, relaxation therapy, cognitive-behavioral therapy, hypnosis, biofeedback, music therapy, art therapy, support groups, and aromatherapy) and to examine important evidence in support of or against their clinical application. PMID:25031967

Healthy clocks, healthy body, healthy mind.

PubMed

Reddy, Akhilesh B; O'Neill, John S

2010-01-01

Circadian rhythms permeate mammalian biology. They are manifested in the temporal organisation of behavioural, physiological, cellular and neuronal processes. Whereas it has been shown recently that these approximately 24-hour cycles are intrinsic to the cell and persist in vitro, internal synchrony in mammals is largely governed by the hypothalamic suprachiasmatic nuclei that facilitate anticipation of, and adaptation to, the solar cycle. Our timekeeping mechanism is deeply embedded in cell function and is modelled as a network of transcriptional and/or post-translational feedback loops. Concurrent with this, we are beginning to understand how this ancient timekeeper interacts with myriad cell systems, including signal transduction cascades and the cell cycle, and thus impacts on disease. An exemplary area where this knowledge is rapidly expanding and contributing to novel therapies is cancer, where the Period genes have been identified as tumour suppressors. In more complex disorders, where aetiology remains controversial, interactions with the clockwork are only now starting to be appreciated.

Ancient Biomolecules and Evolutionary Inference.

PubMed

Cappellini, Enrico; Prohaska, Ana; Racimo, Fernando; Welker, Frido; Pedersen, Mikkel Winther; Allentoft, Morten E; de Barros Damgaard, Peter; Gutenbrunner, Petra; Dunne, Julie; Hammann, Simon; Roffet-Salque, Mélanie; Ilardo, Melissa; Moreno-Mayar, J Víctor; Wang, Yucheng; Sikora, Martin; Vinner, Lasse; Cox, Jürgen; Evershed, Richard P; Willerslev, Eske

2018-04-25

Over the last decade, studies of ancient biomolecules-particularly ancient DNA, proteins, and lipids-have revolutionized our understanding of evolutionary history. Though initially fraught with many challenges, the field now stands on firm foundations. Researchers now successfully retrieve nucleotide and amino acid sequences, as well as lipid signatures, from progressively older samples, originating from geographic areas and depositional environments that, until recently, were regarded as hostile to long-term preservation of biomolecules. Sampling frequencies and the spatial and temporal scope of studies have also increased markedly, and with them the size and quality of the data sets generated. This progress has been made possible by continuous technical innovations in analytical methods, enhanced criteria for the selection of ancient samples, integrated experimental methods, and advanced computational approaches. Here, we discuss the history and current state of ancient biomolecule research, its applications to evolutionary inference, and future directions for this young and exciting field. Expected final online publication date for the Annual Review of Biochemistry Volume 87 is June 20, 2018. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

Different Types of Peptide Detected by Mass Spectrometry among Fresh Silk and Archaeological Silk Remains for Distinguishing Modern Contamination

PubMed Central

Li, Li; Gong, Yuxuan; Yin, Hao; Gong, Decai

2015-01-01

Archaeological silk provides abundant information for studying ancient technologies and cultures. However, due to the spontaneous degradation and the damages from burial conditions, most ancient silk fibers which suffered the damages for thousands of years were turned into invisible molecular residues. For the obtained rare samples, extra care needs to be taken to accurately identify the genuine archaeological silk remains from modern contaminations. Although mass spectrometry (MS) is a powerful tool for identifying and analyzing the ancient protein residues, the traditional approach could not directly determine the dating and contamination of each sample. In this paper, a series of samples with a broad range of ages were tested by MS to find an effective and innovative approach to determine whether modern contamination exists, in order to verify the authenticity and reliability of the ancient samples. The new findings highlighted that the detected peptide types of the fibroin light chain can indicate the degradation levels of silk samples and help to distinguish contamination from ancient silk remains. PMID:26186676

Textural and Carbon Isotopic Analyses of Modern Carbonate Microbialites: Possible Ancient and Martian Analogs

NASA Technical Reports Server (NTRS)

Thompson, Joel B.

1998-01-01

Many modem and ancient carbonate deposits around the world have been recognized as microbial buildups or microbialites. Ancient microbialite structures have been divided into two basic categories based on their internal fabric or texture. They include stromatolites which have a predominantly laminated internal fabric and thrombolites which have an open-porous clotted fabric, that lacks laminae. The origin of these two basic microbial fabrics is still being debated in the literature. Understanding the origin and the various microorganisms involved in forming these modem fabrics is the key to the interpretation of similar fabrics in ancient and possibly Martian rocks. Therefore, detailed studies are needed on the microbiological makeup and origin of the fabrics in modem microbialites. Such studies may serve as analogs for ancient and Martian microbialites in the future. The purpose of this study is to examine the textures and carbon isotopic signatures of the following modem microbialites from the Bahamas: 1) a modem subtidal microbialite from Iguana Cay, Bahamas and 2) a modem microbial mat (stromatolite) from a hypersaline pond on Lee Stocking Island, Bahamas.

Genome data from a sixteenth century pig illuminate modern breed relationships

PubMed Central

Ramírez, O; Burgos-Paz, W; Casas, E; Ballester, M; Bianco, E; Olalde, I; Santpere, G; Novella, V; Gut, M; Lalueza-Fox, C; Saña, M; Pérez-Enciso, M

2015-01-01

Ancient DNA (aDNA) provides direct evidence of historical events that have modeled the genome of modern individuals. In livestock, resolving the differences between the effects of initial domestication and of subsequent modern breeding is not straight forward without aDNA data. Here, we have obtained shotgun genome sequence data from a sixteenth century pig from Northeastern Spain (Montsoriu castle), the ancient pig was obtained from an extremely well-preserved and diverse assemblage. In addition, we provide the sequence of three new modern genomes from an Iberian pig, Spanish wild boar and a Guatemalan Creole pig. Comparison with both mitochondrial and autosomal genome data shows that the ancient pig is closely related to extant Iberian pigs and to European wild boar. Although the ancient sample was clearly domestic, admixture with wild boar also occurred, according to the D-statistics. The close relationship between Iberian, European wild boar and the ancient pig confirms that Asian introgression in modern Iberian pigs has not existed or has been negligible. In contrast, the Guatemalan Creole pig clusters apart from the Iberian pig genome, likely due to introgression from international breeds. PMID:25204303

A multidisciplinary study of archaeological grape seeds

NASA Astrophysics Data System (ADS)

Cappellini, Enrico; Gilbert, M. Thomas P.; Geuna, Filippo; Fiorentino, Girolamo; Hall, Allan; Thomas-Oates, Jane; Ashton, Peter D.; Ashford, David A.; Arthur, Paul; Campos, Paula F.; Kool, Johan; Willerslev, Eske; Collins, Matthew J.

2010-02-01

We report here the first integrated investigation of both ancient DNA and proteins in archaeobotanical samples: medieval grape ( Vitis vinifera L.) seeds, preserved by anoxic waterlogging, from an early medieval (seventh-eighth century A.D.) Byzantine rural settlement in the Salento area (Lecce, Italy) and a late (fourteenth-fifteenth century A.D.) medieval site in York (England). Pyrolysis gas chromatography mass spectrometry documented good carbohydrate preservation, whilst amino acid analysis revealed approximately 90% loss of the original protein content. In the York sample, mass spectrometry-based sequencing identified several degraded ancient peptides. Nuclear microsatellite locus (VVS2, VVMD5, VVMD7, ZAG62 and ZAG79) analysis permitted a tentative comparison of the genetic profiles of both the ancient samples with the modern varieties. The ability to recover microsatellite DNA has potential to improve biomolecular analysis on ancient grape seeds from archaeological contexts. Although the investigation of five microsatellite loci cannot assign the ancient samples to any geographic region or modern cultivar, the results allow speculation that the material from York was not grown locally, whilst the remains from Supersano could represent a trace of contacts with the eastern Mediterranean.

Ancient genomics

PubMed Central

Der Sarkissian, Clio; Allentoft, Morten E.; Ávila-Arcos, María C.; Barnett, Ross; Campos, Paula F.; Cappellini, Enrico; Ermini, Luca; Fernández, Ruth; da Fonseca, Rute; Ginolhac, Aurélien; Hansen, Anders J.; Jónsson, Hákon; Korneliussen, Thorfinn; Margaryan, Ashot; Martin, Michael D.; Moreno-Mayar, J. Víctor; Raghavan, Maanasa; Rasmussen, Morten; Velasco, Marcela Sandoval; Schroeder, Hannes; Schubert, Mikkel; Seguin-Orlando, Andaine; Wales, Nathan; Gilbert, M. Thomas P.; Willerslev, Eske; Orlando, Ludovic

2015-01-01

The past decade has witnessed a revolution in ancient DNA (aDNA) research. Although the field's focus was previously limited to mitochondrial DNA and a few nuclear markers, whole genome sequences from the deep past can now be retrieved. This breakthrough is tightly connected to the massive sequence throughput of next generation sequencing platforms and the ability to target short and degraded DNA molecules. Many ancient specimens previously unsuitable for DNA analyses because of extensive degradation can now successfully be used as source materials. Additionally, the analytical power obtained by increasing the number of sequence reads to billions effectively means that contamination issues that have haunted aDNA research for decades, particularly in human studies, can now be efficiently and confidently quantified. At present, whole genomes have been sequenced from ancient anatomically modern humans, archaic hominins, ancient pathogens and megafaunal species. Those have revealed important functional and phenotypic information, as well as unexpected adaptation, migration and admixture patterns. As such, the field of aDNA has entered the new era of genomics and has provided valuable information when testing specific hypotheses related to the past. PMID:25487338

[The history of medicine in the ancient time].

PubMed

Tesarová, Drahomíra

2012-01-01

This article deals with the history of medicine in the ancient Greece; from the cult of the God Asklepios, to the founder of the scientific rational medicine, Hippokrates. The humoral theory of Hippokrates is explained (the human body consists from four liquids) and his ideal of a physician's approach to a patient is emphasized. In the Hellenistic period the medical development continued in the Alexandria Medical School (Herofilos and Erasistratos). At first, not much attention was given to medicine and scientific health prevention in ancient Rome. Only 293 AD have physicians from Greece first been invited to Rome--e.g. Asklepiades. During the reign of C. lulius Caesar, foreigners, who engaged in medical practice, were granted Roman citizenship and thanks to a number of benefits the medical condition in Roman Empire blossomed. Medical clinics (iatreia), infirmaries (valetudinaria) and, under the influence of Christianity, hospitals were established. In the 2nd century AD ancient medicine reached its climax with physician Galenos, who created the entire system of medical science and became the most significant, but also last medical figure of ancient Rome.

Museums and disease: using tissue archive and museum samples to study pathogens.

PubMed

Tsangaras, Kyriakos; Greenwood, Alex D

2012-01-20

Molecular studies of archival and fossil samples have traditionally focused on the nucleic acids derived from the host species. However, there has recently been an increase in ancient DNA research on the identification and characterization of infectious agents within the hosts. The study of pathogens from the past provides great opportunities for discovering the causes of historical infection events, characterizing host-microorganism co-evolution and directly investigating the evolution of specific pathogens. Several research teams have been able to isolate and characterize a variety of different bacterial, parasite and viral microorganisms. However, this emerging field is not without obstacles. The diagenetic processes that make ancient DNA research generally difficult are also impediments to ancient pathogen research and perhaps more so given that their DNA may represent an even rarer proportion of the remaining nucleic acids in a fossil sample than host DNA. However, studies performed under controlled conditions and following stringent ancient DNA protocols can and have yielded reliable and often surprising results. This article reviews the advantages, problems, and failures of ancient microbiological research. Copyright © 2011 Elsevier GmbH. All rights reserved.

On the Development and Evolution of Astronomy in ancient Egypt

NASA Astrophysics Data System (ADS)

Maravelias, S. E.

In the present paper the development and evolution of astronomy in = Ancient Egypt are briefly examined. Emphasis is given to the = applications of astronomy on: (i) the orientation of temples and = pyramids, and the subsequent determination of the year; (ii) the = reorientation of temples --after the lapse of several centuries-- (due = to the fact that the priesthood was empirically aware of the precession = of equinoxes, and the subsequent use of this very fact in order to = estimate the archaeological age of temples, tombs and pyramids; (iii) = the heliacal rising of Sirius, which was used by ancient = priests-astronomers in order to fix the New Year's Day and determine the = seasons of the civil year, although the discre pancy of the Sothic cycle = in their calendrical system was not seriously taken into account. = Finally the conclusion put forward is that astronomy in Ancient Egypt = never reached the grounds of pure science (as in Ancient Greece), at = least before the Ptolemaic era, but always remained under the influence = of traditionalism and mythology pertaining more to the sphere of = religion and dogma.

Classification and Recognition of Tomb Information in Hyperspectral Image

NASA Astrophysics Data System (ADS)

Gu, M.; Lyu, S.; Hou, M.; Ma, S.; Gao, Z.; Bai, S.; Zhou, P.

2018-04-01

There are a large number of materials with important historical information in ancient tombs. However, in many cases, these substances could become obscure and indistinguishable by human naked eye or true colour camera. In order to classify and identify materials in ancient tomb effectively, this paper applied hyperspectral imaging technology to archaeological research of ancient tomb in Shanxi province. Firstly, the feature bands including the main information at the bottom of the ancient tomb are selected by the Principal Component Analysis (PCA) transformation to realize the data dimension. Then, the image classification was performed using Support Vector Machine (SVM) based on feature bands. Finally, the material at the bottom of ancient tomb is identified by spectral analysis and spectral matching. The results show that SVM based on feature bands can not only ensure the classification accuracy, but also shorten the data processing time and improve the classification efficiency. In the material identification, it is found that the same matter identified in the visible light is actually two different substances. This research result provides a new reference and research idea for archaeological work.

Paleomagnetic Records of Ancient Core Dynamos

NASA Astrophysics Data System (ADS)

Tikoo, S. M.

2018-05-01

We review paleomagnetic results that constrain the field intensities and longevities of ancient core dynamos operating within the Moon as well as within the parent bodies of several meteorite classes.

Insect symbiotic bacteria harbour viral pathogens for transovarial transmission.

PubMed

Jia, Dongsheng; Mao, Qianzhuo; Chen, Yong; Liu, Yuyan; Chen, Qian; Wu, Wei; Zhang, Xiaofeng; Chen, Hongyan; Li, Yi; Wei, Taiyun

2017-03-06

Many insects, including mosquitoes, planthoppers, aphids and leafhoppers, are the hosts of bacterial symbionts and the vectors for transmitting viral pathogens 1-3 . In general, symbiotic bacteria can indirectly affect viral transmission by enhancing immunity and resistance to viruses in insects 3-5 . Whether symbiotic bacteria can directly interact with the virus and mediate its transmission has been unknown. Here, we show that an insect symbiotic bacterium directly harbours a viral pathogen and mediates its transovarial transmission to offspring. We observe rice dwarf virus (a plant reovirus) binding to the envelopes of the bacterium Sulcia, a common obligate symbiont of leafhoppers 6-8 , allowing the virus to exploit the ancient oocyte entry path of Sulcia in rice leafhopper vectors. Such virus-bacterium binding is mediated by the specific interaction of the viral capsid protein and the Sulcia outer membrane protein. Treatment with antibiotics or antibodies against Sulcia outer membrane protein interferes with this interaction and strongly prevents viral transmission to insect offspring. This newly discovered virus-bacterium interaction represents the first evidence that a viral pathogen can directly exploit a symbiotic bacterium for its transmission. We believe that such a model of virus-bacterium communication is a common phenomenon in nature.

Control of trace element toxicity in Chesapeake Bay by dominant phytoplankton. Final report

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

Sanders, J.G.; Riedel, G.F.; Connell, D.B.

1992-02-01

Copper (Cu) and arsenic (As), but not chromium (Cr), underwent large changes in chemical form during the development and senescence of natural phytoplankton blooms. In general, the percentage of organically-associated Cu was lowest during periods of rapid cell growth and highest during periods of cell decline or periods of dominance by red tide-forming dinoflagellates, a pattern tied to periods of release of organic compounds during either bloom senescence or during unusual algal blooms. Chromium, in contrast, was unreactive. The end result of biological mediation of both As and Cu was to increase the proportion of the element present in amore » less toxic form, at least to phytoplankton, thus affecting the potential toxicity of either element to a natural ecosystem. The results of the project provide a framework for the construction of general predictive models of likely trace element behavior in productive ecosystems and provide a conceptual theory of how such toxic contaminants may affect ecosystem structure and food webs within Chesapeake Bay. Predictive models of ecosystem impact will require further experimentation with multi-trophic level food chains.« less

A cross-taxa study using environmental DNA/RNA metabarcoding to measure biological impacts of offshore oil and gas drilling and production operations.

PubMed

Laroche, Olivier; Wood, Susanna A; Tremblay, Louis A; Ellis, Joanne I; Lear, Gavin; Pochon, Xavier

2018-02-01

Standardized ecosystem-based monitoring surveys are critical for providing information on marine ecosystem health. Environmental DNA/RNA (eDNA/eRNA) metabarcoding may facilitate such surveys by quickly and effectively characterizing multi-trophic levels. In this study, we assessed the suitability of eDNA/eRNA metabarcoding to evaluate changes in benthic assemblages of bacteria, Foraminifera and other eukaryotes along transects at three offshore oil and gas (O&G) drilling and production sites, and compared these to morphologically characterized macro-faunal assemblages. Bacterial communities were the most responsive to O&G activities, followed by Foraminifera, and macro-fauna (the latter assessed by morphology). The molecular approach enabled detection of hydrocarbon degrading taxa such as the bacteria Alcanivorax and Microbulbifer at petroleum impacted stations. Most identified indicator taxa, notably among macro-fauna, were highly specific to site conditions. Based on our results we suggest that eDNA/eRNA metabarcoding can be used as a stand-alone method for biodiversity assessment or as a complement to morphology-based monitoring approaches. Copyright © 2017 Elsevier Ltd. All rights reserved.

Can greening of aquaculture sequester blue carbon?

PubMed

Ahmed, Nesar; Bunting, Stuart W; Glaser, Marion; Flaherty, Mark S; Diana, James S

2017-05-01

Globally, blue carbon (i.e., carbon in coastal and marine ecosystems) emissions have been seriously augmented due to the devastating effects of anthropogenic pressures on coastal ecosystems including mangrove swamps, salt marshes, and seagrass meadows. The greening of aquaculture, however, including an ecosystem approach to Integrated Aquaculture-Agriculture (IAA) and Integrated Multi-Trophic Aquaculture (IMTA) could play a significant role in reversing this trend, enhancing coastal ecosystems, and sequestering blue carbon. Ponds within IAA farming systems sequester more carbon per unit area than conventional fish ponds, natural lakes, and inland seas. The translocation of shrimp culture from mangrove swamps to offshore IMTA could reduce mangrove loss, reverse blue carbon emissions, and in turn increase storage of blue carbon through restoration of mangroves. Moreover, offshore IMTA may create a barrier to trawl fishing which in turn could help restore seagrasses and further enhance blue carbon sequestration. Seaweed and shellfish culture within IMTA could also help to sequester more blue carbon. The greening of aquaculture could face several challenges that need to be addressed in order to realize substantial benefits from enhanced blue carbon sequestration and eventually contribute to global climate change mitigation.

Chemical and ecotoxicological analyses of sediments and elutriates of contaminated rivers due to e-waste recycling activities using a diverse battery of bioassays.

PubMed

Wang, F; Leung, A O W; Wu, S C; Yang, M S; Wong, M H

2009-07-01

A multi-trophic, multi-exposure phase assessment approach was applied to characterize the toxicity of sediments collected from two rivers in Guiyu, China, an e-waste recycling centre. Elutriate toxicity tests (bacterium Vibrio fischeri and microalga Selenastrum capricornutum) and whole sediment toxicity test (crustacean Heterocypris incongruens) showed that most sediments exhibited acute toxicity, due to elevated heavy metals and PAHs levels, and low pH caused by uncontrolled acid discharge. The survival rates of crustaceans were negatively (p < 0.05) correlated with total PAHs in sediments (411-1755 mg kg(-1)); EC50s of V. fischeri on the elutriates were significantly correlated with elutriate pH (p < 0.01). Significant (p < 0.05) correlations between the induction of hepatic metallothionein in tilapia (Oreochromis mossambicus) and metal concentrations (Cu, Zn, Pb) in sediments were also observed, when fish were fed with diets containing sediment. The results showed that uncontrolled e-waste recycling activities may bring adverse effects to local aquatic ecosystem.

Impact of cultivation of Mastocarpus stellatus in IMTA on the seaweeds chemistry and hybrid carrageenan properties.

PubMed

Azevedo, Gabriela; Domingues, Bernardo; Abreu, Helena; Sousa-Pinto, Isabel; Feio, Gabriel; Hilliou, Loic

2015-02-13

The biomass yield potential of Mastocarpus stellatus, a commercially attractive carrageenophyte for foods and pharmaceutics, was investigated by cultivating the seaweeds in the nutrient-rich outflow of a commercial fish farm. Results from two consecutive 4 weeks experiments indicate that the cultivation of this seaweed produces a mean biomass of 21 to 40.6 gDW m(-2) day(-1) depending on the time of the experiment. DRIFT and CP-MAS NMR analyses of seaweeds indicate that cultivation during May affected quantitatively the seaweeds chemistry, and thus the chemical and gelling properties of native extracts of kappa/iota-hybrid carrageenan (KI). Overall, algal growth leads to the production of more sulphated KI, the percentage increase varying between 27% and 44% for the two experiments. However, alkali treatment of seaweeds before extraction reduces the variations in gelling properties of KI induced by the algal growth. This study demonstrates the capacity of growing M. stellatus in an integrated multi-trophic aquaculture system for the sustainable production of high value polysaccharides. Copyright © 2014 Elsevier Ltd. All rights reserved.

Volcanic Rocks As Targets For Astrobiology Missions

NASA Astrophysics Data System (ADS)

Banerjee, N.

2010-12-01

Almost two decades of study highlight the importance of terrestrial subaqueous volcanic rocks as microbial habitats, particularly in glass produced by the quenching of basaltic lava upon contact with water. On Earth, microbes rapidly begin colonizing glassy surfaces along fractures and cracks exposed to water. Microbial colonization of basaltic glass leads to enhanced alteration through production of characteristic granular and/or tubular bioalteration textures. Infilling of formerly hollow alteration textures by minerals enable their preservation through geologic time. Basaltic rocks are a major component of the Martian crust and are widespread on other solar system bodies. A variety of lines of evidence strongly suggest the long-term existence of abundant liquid water on ancient Mars. Recent orbiter, lander and rover missions have found evidence for the presence of transient liquid water on Mars, perhaps persisting to the present day. Many other solar system bodies, notably Europa, Enceladus and other icy satellites, may contain (or have once hosted) subaqueous basaltic glasses. The record of terrestrial glass bioalteration has been interpreted to extend back ~3.5 billion years and is widespread in modern oceanic crust and its ancient metamorphic equivalents. The terrestrial record of glass bioalteration strongly suggests that glassy or formerly glassy basaltic rocks on extraterrestrial bodies that have interacted with liquid water are high-value targets for astrobiological exploration.

Paleovirology of bornaviruses: What can be learned from molecular fossils of bornaviruses.

PubMed

Horie, Masayuki; Tomonaga, Keizo

2018-04-06

Endogenous viral elements (EVEs) are virus-derived sequences embedded in eukaryotic genomes formed by germline integration of viral sequences. As many EVEs were integrated into eukaryotic genomes millions of years ago, EVEs are considered molecular fossils of viruses. EVEs can be valuable informational sources about ancient viruses, including their time scale, geographical distribution, genetic information, and hosts. Although integration of viral sequences is not required for replications of viruses other than retroviruses, many non-retroviral EVEs have been reported to exist in eukaryotes. Investigation of these EVEs has expanded our knowledge regarding virus-host interactions, as well as provided information on ancient viruses. Among them, EVEs derived from bornaviruses, non-retroviral RNA viruses, have been relatively well studied. Bornavirus-derived EVEs are widely distributed in animal genomes, including the human genome, and the history of bornaviruses can be dated back to more than 65 million years. Although there are several reports focusing on the biological significance of bornavirus-derived sequences in mammals, paleovirology of bornaviruses has not yet been well described and summarized. In this paper, we describe what can be learned about bornaviruses from endogenous bornavirus-like elements from the view of paleovirology using published results and our novel data. Copyright © 2018 Elsevier B.V. All rights reserved.

Four thousand years of environmental change and human activity in the Cochabamba Basin, Bolivia

NASA Astrophysics Data System (ADS)

Williams, Joseph J.; Gosling, William D.; Coe, Angela L.; Brooks, Stephen J.; Gulliver, Pauline

The Cochabamba Basin (Bolivia) is on the ancient road network connecting Andean and lowland areas. Little is known about the longevity of this trade route or how people responded to past environmental changes. The eastern end of the Cochabamba valley system constricts at the Vacas Lake District, constraining the road network and providing an ideal location in which to examine past human-environmental interactions. Multi-proxy analysis of sediment from Lake Challacaba has allowed a c. 4000 year environmental history to be reconstructed. Fluctuations in drought tolerant pollen taxa and calcium carbonate indicate two periods of reduced moisture availability ( c. 4000-3370 and c. 2190-1020 cal yr BP) compared to adjacent wetter episodes ( c. 3370-2190 and c. 1020 cal yr BP-present). The moisture fluctuations broadly correlate to El Niño/Southern Oscillation variations reported elsewhere. High charcoal abundance from c. 4000 to 2000 yr ago indicates continuous use of the ancient road network. A decline in charcoal and an increase in dung fungus ( Sporormiella) c. 1340 -1210 cal yr BP, suggests that cultural changes were a major factor in shaping the modern landscape. Despite undisputable impacts of human populations on the Polylepis woodlands today, we see no evidence of woodland clearance in the Challacaba record.

Evidence and Implications of Frequent Fires in Ancient Shrub Tundra

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

Higuera, P E; Brubaker, L B; Anderson, P M

2008-03-06

Understanding feedbacks between terrestrial and atmospheric systems is vital for predicting the consequences of global change, particularly in the rapidly changing Arctic. Fire is a key process in this context, but the consequences of altered fire regimes in tundra ecosystems are rarely considered, largely because tundra fires occur infrequently on the modern landscape. We present paleoecological data that indicate frequent tundra fires in northcentral Alaska between 14,000 and 10,000 years ago. Charcoal and pollen from lake sediments reveal that ancient birchdominated shrub tundra burned as often as modern boreal forests in the region, every 144 years on average (+/- 90more » s.d.; n = 44). Although paleoclimate interpretations and data from modern tundra fires suggest that increased burning was aided by low effective moisture, vegetation cover clearly played a critical role in facilitating the paleo-fires by creating an abundance of fine fuels. These records suggest that greater fire activity will likely accompany temperature-related increases in shrub-dominated tundra predicted for the 21st century and beyond. Increased tundra burning will have broad impacts on physical and biological systems as well as land-atmosphere interactions in the Arctic, including the potential to release stored organic carbon to the atmosphere.« less

Accumulation of fossil fuels and metallic minerals in active and ancient rift lakes

USGS Publications Warehouse

Robbins, E.I.

1983-01-01

A study of active and ancient rift systems around the world suggests that accumulations of fossil fuels and metallic minerals are related to the interactions of processes that form rift valleys with those that take place in and around rift lakes. The deposition of the precursors of petroleum, gas, oil shale, coal, phosphate, barite, Cu-Pb-Zn sulfides, and uranium begins with erosion of uplifted areas, and the consequent input of abundant nutrients and solute loads into swamps and tectonic lakes. Hot springs and volcanism add other nutrients and solutes. The resulting high biological productivity creates oxidized/reduced interfaces, and anoxic and H2S-rich bottom waters which preserves metal-bearing organic tissues and horizons. In the depositional phases, the fine-grained lake deposits are in contact with coarse-grained beach, delta, river, talus, and alluvial fan deposits. Earthquake-induced turbidites also are common coarse-grained deposits of rift lakes. Postdepositional processes in rifts include high heat flow and a resulting concentration of the organic and metallic components that were dispersed throughout the lakebeds. Postdepositional faulting brings organic- and metal-rich sourcebeds in contact with coarse-grained host and reservoir rocks. A suite of potentially economic deposits is therefore a characteristic of rift valleys. ?? 1983.

Accumulation of fossil fuels and metallic minerals in active and ancient rift lakes

NASA Astrophysics Data System (ADS)

Robbins, Eleanora Iberall

1983-05-01

A study of active and ancient rift systems around the world suggests that accumulations of fossil fuels and metallic minerals are related to the interactions of processes that form rift valleys with those that take place in and around rift lakes. The deposition of the precursors of petroleum, gas, oil shale, coal, phosphate, barite, Cu-Pb-Zn sulfides, and uranium begins with erosion of uplifted areas, and the consequent input of abundant nutrients and solute loads into swamps and tectonic lakes. Hot springs and volcanism add other nutrients and solutes. The resulting high biological productivity creates oxidized/reduced interfaces, and anoxic and H 2S-rich bottom waters which preserves metal-bearing organic tissues and horizons. In the depositional phases, the fine-grained lake deposits are in contact with coarse-grained beach, delta, river, talus, and alluvial fan deposits. Earthquake-induced turbidites also are common coarse-grained deposits of rift lakes. Postdepositional processes in rifts include high heat flow and a resulting concentration of the organic and metallic components that were dispersed throughout the lakebeds. Postdepositional faulting brings organic- and metal-rich sourcebeds in contact with coarse-grained host and reservoir rocks. A suite of potentially economic deposits is therefore a characteristic of rift valleys.

Frequent Fires in Ancient Shrub Tundra: Implications of Paleorecords for Arctic Environmental Change

PubMed Central

Higuera, Philip E.; Brubaker, Linda B.; Anderson, Patricia M.; Brown, Thomas A.; Kennedy, Alison T.; Hu, Feng Sheng

2008-01-01

Understanding feedbacks between terrestrial and atmospheric systems is vital for predicting the consequences of global change, particularly in the rapidly changing Arctic. Fire is a key process in this context, but the consequences of altered fire regimes in tundra ecosystems are rarely considered, largely because tundra fires occur infrequently on the modern landscape. We present paleoecological data that indicate frequent tundra fires in northcentral Alaska between 14,000 and 10,000 years ago. Charcoal and pollen from lake sediments reveal that ancient birch-dominated shrub tundra burned as often as modern boreal forests in the region, every 144 years on average (+/− 90 s.d.; n = 44). Although paleoclimate interpretations and data from modern tundra fires suggest that increased burning was aided by low effective moisture, vegetation cover clearly played a critical role in facilitating the paleofires by creating an abundance of fine fuels. These records suggest that greater fire activity will likely accompany temperature-related increases in shrub-dominated tundra predicted for the 21st century and beyond. Increased tundra burning will have broad impacts on physical and biological systems as well as on land-atmosphere interactions in the Arctic, including the potential to release stored organic carbon to the atmosphere. PMID:18320025

Evidence for oxygenic photosynthesis half a billion years before the Great Oxidation Event

NASA Astrophysics Data System (ADS)

Planavsky, Noah J.; Asael, Dan; Hofmann, Axel; Reinhard, Christopher T.; Lalonde, Stefan V.; Knudsen, Andrew; Wang, Xiangli; Ossa Ossa, Frantz; Pecoits, Ernesto; Smith, Albertus J. B.; Beukes, Nicolas J.; Bekker, Andrey; Johnson, Thomas M.; Konhauser, Kurt O.; Lyons, Timothy W.; Rouxel, Olivier J.

2014-04-01

The early Earth was characterized by the absence of oxygen in the ocean-atmosphere system, in contrast to the well-oxygenated conditions that prevail today. Atmospheric concentrations first rose to appreciable levels during the Great Oxidation Event, roughly 2.5-2.3 Gyr ago. The evolution of oxygenic photosynthesis is generally accepted to have been the ultimate cause of this rise, but it has proved difficult to constrain the timing of this evolutionary innovation. The oxidation of manganese in the water column requires substantial free oxygen concentrations, and thus any indication that Mn oxides were present in ancient environments would imply that oxygenic photosynthesis was ongoing. Mn oxides are not commonly preserved in ancient rocks, but there is a large fractionation of molybdenum isotopes associated with the sorption of Mo onto the Mn oxides that would be retained. Here we report Mo isotopes from rocks of the Sinqeni Formation, Pongola Supergroup, South Africa. These rocks formed no less than 2.95 Gyr ago in a nearshore setting. The Mo isotopic signature is consistent with interaction with Mn oxides. We therefore infer that oxygen produced through oxygenic photosynthesis began to accumulate in shallow marine settings at least half a billion years before the accumulation of significant levels of atmospheric oxygen.

Structure of a Spumaretrovirus Gag Central Domain Reveals an Ancient Retroviral Capsid

PubMed Central

Dutta, Moumita; Pollard, Dominic J.; Goldstone, David C.; Ramos, Andres; Müllers, Erik; Stirnnagel, Kristin; Stanke, Nicole; Lindemann, Dirk; Taylor, William R.; Rosenthal, Peter B.

2016-01-01

The Spumaretrovirinae, or foamy viruses (FVs) are complex retroviruses that infect many species of monkey and ape. Despite little sequence homology, FV and orthoretroviral Gag proteins perform equivalent functions, including genome packaging, virion assembly, trafficking and membrane targeting. However, there is a paucity of structural information for FVs and it is unclear how disparate FV and orthoretroviral Gag molecules share the same function. To probe the functional overlap of FV and orthoretroviral Gag we have determined the structure of a central region of Gag from the Prototype FV (PFV). The structure comprises two all α-helical domains NtDCEN and CtDCEN that although they have no sequence similarity, we show they share the same core fold as the N- (NtDCA) and C-terminal domains (CtDCA) of archetypal orthoretroviral capsid protein (CA). Moreover, structural comparisons with orthoretroviral CA align PFV NtDCEN and CtDCEN with NtDCA and CtDCA respectively. Further in vitro and functional virological assays reveal that residues making inter-domain NtDCEN—CtDCEN interactions are required for PFV capsid assembly and that intact capsid is required for PFV reverse transcription. These data provide the first information that relates the Gag proteins of Spuma and Orthoretrovirinae and suggests a common ancestor for both lineages containing an ancient CA fold. PMID:27829070

Efficient Moment-Based Inference of Admixture Parameters and Sources of Gene Flow

PubMed Central

Levin, Alex; Reich, David; Patterson, Nick; Berger, Bonnie

2013-01-01

The recent explosion in available genetic data has led to significant advances in understanding the demographic histories of and relationships among human populations. It is still a challenge, however, to infer reliable parameter values for complicated models involving many populations. Here, we present MixMapper, an efficient, interactive method for constructing phylogenetic trees including admixture events using single nucleotide polymorphism (SNP) genotype data. MixMapper implements a novel two-phase approach to admixture inference using moment statistics, first building an unadmixed scaffold tree and then adding admixed populations by solving systems of equations that express allele frequency divergences in terms of mixture parameters. Importantly, all features of the model, including topology, sources of gene flow, branch lengths, and mixture proportions, are optimized automatically from the data and include estimates of statistical uncertainty. MixMapper also uses a new method to express branch lengths in easily interpretable drift units. We apply MixMapper to recently published data for Human Genome Diversity Cell Line Panel individuals genotyped on a SNP array designed especially for use in population genetics studies, obtaining confident results for 30 populations, 20 of them admixed. Notably, we confirm a signal of ancient admixture in European populations—including previously undetected admixture in Sardinians and Basques—involving a proportion of 20–40% ancient northern Eurasian ancestry. PMID:23709261

Oilseed rape: learning about ancient and recent polyploid evolution from a recent crop species.

PubMed

Mason, A S; Snowdon, R J

2016-11-01

Oilseed rape (Brassica napus) is one of our youngest crop species, arising several times under cultivation in the last few thousand years and completely unknown in the wild. Oilseed rape originated from hybridisation events between progenitor diploid species B. rapa and B. oleracea, both important vegetable species. The diploid progenitors are also ancient polyploids, with remnants of two previous polyploidisation events evident in the triplicated genome structure. This history of polyploid evolution and human agricultural selection makes B. napus an excellent model with which to investigate processes of genomic evolution and selection in polyploid crops. The ease of de novo interspecific hybridisation, responsiveness to tissue culture, and the close relationship of oilseed rape to the model plant Arabidopsis thaliana, coupled with the recent availability of reference genome sequences and suites of molecular cytogenetic and high-throughput genotyping tools, allow detailed dissection of genetic, genomic and phenotypic interactions in this crop. In this review we discuss the past and present uses of B. napus as a model for polyploid speciation and evolution in crop species, along with current and developing analysis tools and resources. We further outline unanswered questions that may now be tractable to investigation. © 2016 German Botanical Society and The Royal Botanical Society of the Netherlands.