Did the Ancient Crenarchaeal Viruses from the Dawn of Life Survive Exceptionally Well the Eons of Meteorite Bombardment?

NASA Astrophysics Data System (ADS)

Jalasvuori, Matti; Bamford, Jaana K. H.

2009-02-01

The viruses of Crenarchaeota are unexpectedly diverse in their morphologies, and most have no, or few, genes related to bacterial, eukaryal, euryarchaeal, or other crenarchaeal viruses. Though several different virus morphotypes have been discovered in enrichment cultures of microbial communities collected from geothermally heated environments around the world, the origins of such differences are unknown. We present a model that combines consideration of Earth's geological history, the early emergence of hyperthermophiles, and the early formation of viruses from primordial genes with the intent to explain this vast diversity of crenarchaeal viruses. Several meteorite- or flood basalt-induced extinction events in the past resulted in a reduction in the numbers of cellular organisms. Acidophilic hyperthermophiles survived the global thermal rises and, therefore, still host a wide variety of ancient virus morphotypes. In contrast, other, more "recent" cellular lineages have lost the majority of their original viruses, as they have been separated geologically and genetically, and have gone through several near-extinction-level episodes of decimation. This view suggests that, among crenarchaeal viruses, the direct descendants of very early genetic elements are well preserved; thus, their examination would improve our understanding as to how life actually evolved from its origins to the complex cellular systems we see today. We also present a hypothesis that describes the role of viral armadas and extinctions during evolution, as extinctions may have episodically eliminated most of the abusive parasites.

Pythium invasion of plant-based life support systems: biological control and sources

NASA Technical Reports Server (NTRS)

Jenkins, D. G.; Cook, K. L.; Garland, J. L.; Board, K. F.; Sager, J. C. (Principal Investigator)

2000-01-01

Invasion of plant-based life support systems by plant pathogens could cause plant disease and disruption of life support capability. Root rot caused by the fungus, Pythium, was observed during tests of prototype plant growth systems containing wheat at the Kennedy Space Center (KSC). We conducted experiments to determine if the presence of complex microbial communities in the plant root zone (rhizosphere) resisted invasion by the Pythium species isolated from the wheat root. Rhizosphere inocula of different complexity (as assayed by community-level physiological profile: CLPP) were developed using a dilution/extinction approach, followed by growth in hydroponic rhizosphere. Pythium growth on wheat roots and concomitant decreases in plant growth were inversely related to the complexity of the inocula during 20-day experiments in static hydroponic systems. Pythium was found on the seeds of several different wheat cultivars used in controlled environmental studies, but it is unclear if the seed-borne fungal strain(s) were identical to the pathogenic strain recovered from the KSC studies. Attempts to control pathogens and their effects in hydroponic life support systems should include early inoculation with complex microbial communities, which is consistent with ecological theory.

Anaerobic psychrophiles from Alaska, Antarctica, and Patagonia: implications to possible life on Mars and Europa

NASA Astrophysics Data System (ADS)

Hoover, Richard B.; Pikuta, Elena V.; Marsic, Damien; Ng, Joseph D.

2002-02-01

Microorganisms preserved within the permafrost, glaciers, and polar ice sheets of planet Earth provide analogs for microbial life forms that may be encountered in ice or permafrost of Mars, Europa, Callisto, Ganymede, asteroids, comets or other frozen worlds in the Cosmos. The psychrophilic and psychrotolerant microbes of the terrestrial cryosphere help establish the thermal and temporal limitations of life on Earth and provide clues to where and how we should search for evidence of life elsewhere in the Universe. For this reason, the cold-loving microorganisms are directly relevant to Astrobiology. Cryopreserved microorganisms can remain viable (in deep anabiosis) in permafrost and ice for millions of years. Permafrost, ice wedges, pingos, glaciers, and polar ice sheets may contain intact ancient DNA, lipids, enzymes, proteins, genes, and even frozen and yet viable ancient microbiota. Some microorganisms carry out metabolic processes in water films and brine, acidic, or alkaline channels in permafrost or ice at temperatures far below 0 degree(s)C. Complex microbial communities live in snow, ice-bubbles, cryoconite holes on glaciers and ancient microbial ecosystems are cryopreserved within the permafrost, glaciers, and polar caps. In the Astrobiology group of the NASA Marshall Space Flight Center and the University of Alabama at Huntsville, we have employed advanced techniques for the isolation, culture, and phylogenetic analysis of many types of microbial extremophiles. We have also used the Environmental Scanning Electron Microscope to study the morphology, ultra-microstructure and chemical composition of microorganisms in ancient permafrost and ice. We discuss several interesting and novel anaerobic microorganisms that we have isolated and cultured from the Pleistocene ice of the Fox Tunnel of Alaska, guano of the Magellanic Penguin, deep-sea sediments from the vicinity of the Rainbow Hydrothermal Vent and enrichment cultures from ice of the Patriot Hills of Antarctica. The microbial extremophiles recovered from permafrost, ice, cold pools and deep-sea sediments may provide information relevant to the question of how and where we should search for evidence of extant or extinct microbial life elsewhere in the Cosmos.

Anaerobic Psychrophiles from Alaska, Antarctica, and Patagonia: Implications to Possible Life on Mars and Europa

NASA Technical Reports Server (NTRS)

Hoover, Richard B.; Pikuta, Elena V.; Marsic, Damien; Ng, Joseph

2002-01-01

Microorganisms preserved within the permafrost, glaciers, and polar ice sheets of planet Earth provide analogs for microbial life forms that may be encountered in ice or permafrost of Mars, Europa, Callisto, Ganymede, asteroids, comets or other frozen worlds in the Cosmos. The psychrophilic and psychrotolerant microbes of the terrestrial cryosphere help establish the thermal and temporal limitations of life on Earth and provide clues to where and how we should search for evidence of life elsewhere in the Universe. For this reason, the cold-loving microorganisms are directly relevant to Astrobiology. Cryopreserved microorganisms can remain viable (in deep anabiosis) in permafrost and ice for millions of years. Permafrost, ice wedges, pingos, glaciers, and polar ice sheets may contain intact ancient DNA, lipids, enzymes, proteins, genes, and even frozen and yet viable ancient microbiota. Some microorganisms carry out metabolic processes in water films and brine, acidic, or alkaline channels in permafrost or ice at temperatures far below 0 C. Complex microbial communities live in snow, ice-bubbles, cryoconite holes on glaciers and ancient microbial ecosystems are cryopreserved within the permafrost, glaciers, and polar caps. In the Astrobiology group of the NASA Marshall Space Flight Center and the University of Alabama at Huntsville, we have employed advanced techniques for the isolation, culture, and phylogenetic analysis of many types of microbial extremophiles. We have also used the Environmental Scanning Electron Microscope to study the morphology, ultra-microstructure and chemical composition of microorganisms in ancient permafrost and ice. We discuss several interesting and novel anaerobic microorganisms that we have isolated and cultured from the Pleistocene ice of the Fox Tunnel of Alaska, guano of the Magellanic Penguin, deep-sea sediments from the vicinity of the Rainbow Hydrothermal Vent and enrichment cultures from ice of the Patriot Hills of Antarctica. The microbial extremophiles recovered from permafrost, ice, cold pools and deep-sea sediments may provide information relevant to the question of how and where we should search for evidence of extant or extinct microbial life elsewhere in the Cosmos.

Anaerobic Psychrophiles from Alaska, Antarctica, and Patagonia: Implications to Possible Life on Mars and Europa

NASA Technical Reports Server (NTRS)

Hoover, Richard B.; Pikuta, Elena V.; Marsic, Damien; Ng, Joseph; Six, N. Frank (Technical Monitor)

2001-01-01

Microorganisms preserved within the permafrost, glaciers, and polar ice sheets of planet Earth provide analogs for microbial life forms that may be encountered in ice or permafrost of Mars, Europa, Callisto, Ganymede, asteroids, comets or other frozen worlds in the Cosmos. The psychrophilic and psychrotolerant microbes of the terrestrial cryosphere help establish the thermal and temporal limitations of life on Earth and provide clues to where and how we should search for evidence of life elsewhere in the Universe. For this reason, the cold-loving microorganisms are directly relevant to Astrobiology. Cryo-preserved microorganisms can remain viable (in deep anabiosis) in permafrost and ice for millions of years. Permafrost, ice wedges, pingos, glaciers, and polar ice sheets may contain intact ancient DNA, lipids, enzymes, proteins, genes, and even frozen and yet viable ancient microbiota. Some microorganisms carry out metabolic processes in water films and brine, acidic, or alkaline channels in permafrost or ice at temperatures far below 0 T. Complex microbial communities live in snow, ice-bubbles, cryoconite holes on glaciers and ancient microbial ecosystems are cryopreserved within the permafrost, glaciers, and polar caps. In the Astrobiology group of the NASA Marshall Space Flight Center and the University of Alabama at Huntsville, we have employed advanced techniques for the isolation, culture, and phylogenetic analysis of many types of microbial extremophiles. We have also used the Environmental Scanning Electron Microscope to study the morphology, ultra-microstructure and chemical composition of microorganisms in ancient permafrost and ice. We discuss several interesting and novel anaerobic microorganisms that we have isolated and cultured from the Pleistocene ice of the Fox Tunnel of Alaska, guano of the Magellanic Penguin, deep sea sediments from the vicinity of the Rainbow Hydrothermal Vent and enrichment cultures from ice of the Patriot Hills of Antarctica. The microbial extremophiles recovered from permafrost, ice, cold pools and deep sea sediments may provide information relevant to the question of how and where we should search for evidence of extant or extinct microbial life elsewhere in the Cosmos.

Space life sciences: search for signatures of life, and space flight environmental effects on the nervous system.

PubMed

2004-01-01

This volume contains selected papers of the Joint COSPAR-IAC event "Search for signatures of life in the solar system, terrestrial analogues and simulation experiments" held during the World Space Congress 2002 in Houston, Texas, USA. The first section of the volume reports on the rich variety of terrestrial microbial communities adapted to extreme environments, such as microbial life at very low temperatures in permafrost and ice layers, at high salt concentrations, as inhabitants of rocks and the microbial recolonization of impact-shocked rocks. These communities are suggested to serve as analogues for extraterrestrial habitats, which are also described in this section. The second section deals with the detection of biomarkers and signatures from extinct life on Earth, which might provide clues for detection of potential extraterrestrial biomarkers. This section is followed by reports of experiments in space and in the laboratory simulating space conditions, such as the prebiotic organic chemistry, the chemistry of dust particles to be detected during the Cassini mission to Saturn, as well as the photochemistry of biological systems exposed to space or planetary surface conditions. The second part of the issue contains papers from the session "The nervous system: space flight environmental factors effects--present results and new perspectives." The presentations in this session explored various aspects of the effects of exposure to protons and heavy particles on central nervous system function and on behavior. The second series of papers examines the effects of exposure to heavy particles and protons on neurochemistry and on behavior.

Post-Extinction Ecological Recovery of Marine Life Modes

NASA Astrophysics Data System (ADS)

Park, C.; de la Torre, N. G.; Heim, N.; Payne, J.

2016-12-01

A mass extinction is defined by a substantial increase in extinction rates, resulting in a loss of taxonomic and ecological diversity. Bush et al. (2007) defined ecological life modes as the feeding, motility, and tiering habits and organized them in a six-by-six "eco-cube" in which each section represented a life mode. In our research, we analyzed the ecological recovery of each life mode after the five mass extinctions. Using a fossil marine genera database, we compiled five heat maps that depict the recovery of the life modes by plotting the diversity of genera in each life mode two intervals before and five intervals after each mass extinction interval. New life modes seem to appear either immediately following or three or more intervals after a mass extinction, which indicates that ecological recovery is not a gradual process, but rather occurs in a punctuated manner. Furthermore, the "filling order" of new life modes differ in each extinction. However, some seem to have defined patterns, such as the Ordovician, where earlier post-extinction intervals experienced an increase in the diversity of erect (tiering) ecospaces, followed by that of surficial and shallow infaunal life modes. The Devonian mass extinction followed a similar pattern as the end Ordovician where erect organisms came first followed by surficial, deep-infaunal, and pelagic life modes. Conversely, intervals following the end-Permian mass extinction experienced a recovery in pelagic, freely-moving life modes, followed by a recovery in infaunal organisms and an explosion in semi-infaunal, erect, surficial, and pelagic ecospaces in the Ladinian. New life modes in the Triassic and Cretaceous mass extinctions did not seem to generate in a distinct pattern. Overall, we conclude that recovery patterns are unique depending on the cause of each mass extinction, and that any general tendency in post-extinction ecological recovery was most likely overridden by the environmental condition of the recovery intervals.

Microbes: Agents of Isotopic Change

NASA Astrophysics Data System (ADS)

Fogel, M. L.

2012-12-01

Microbes drive many of the important oxidation and reduction reactions on Earth; digest almost all forms of organic matter; and can serve as both primary and secondary producers. Because of their versatile biochemistry and physiology, they impart unique isotopic signatures to organic and inorganic materials, which have proven to be key measurements for understanding elemental cycling now and throughout Earth's history. Understanding microbial isotope fractionations in laboratory experiments has been important for interpreting isotopic patterns measured in natural settings. In fact, the pairing of simple experiment with natural observation has been the pathway for interpreting the fingerprint of microbial processes in ancient sediments and rocks. Examples of how key experiments have explained stable isotope fractionations by microbes and advanced the field of microbial ecology will be presented. Learning the isotopic signatures of Earth's microbes is a valuable exercise for predicting what isotopic signatures could be displayed by possible extant or extinct extraterrestrial life. Given the potential for discovery on Mars, Enceladus, and other solar system bodies, new methods and techniques for pinpointing what is unique about microbial isotope signatures is particularly relevant.

Electromagnetic Attenuation Characteristics of Microbial Materials in the Infrared Band.

PubMed

Wang, Peng; Liu, Hongxia; Zhao, Yizheng; Gu, Youlin; Chen, Wei; Wang, Li; Li, Le; Zhao, Xinying; Lei, Wuhu; Hu, Yihua; Zheng, Zhiming

2016-09-01

In this study, seven microbial materials (entomogenous fungi Bb3088 mycelia, entomogenous fungi Bb3088 spores, entomogenous fungi Ma2677 mycelia, entomogenous fungi Ma2677 spores, Bacillus subtilis 8204, Staphylococcus aureus 6725, and Saccharomyces cerevisiae 1025) were used to measure electromagnetic (EM) signal extinction. They were subjected to light absorption and reflection measurements in the range of 4000-400 cm(-1) (2.5-25 µm) using Fourier transform infrared spectroscopy. The specular reflection spectrum method was used to calculate the real (n) and imaginary (k) parts of the complex refractive index. The complex refractive index with real part n and imaginary part k in the infrared band satisfies the following conditions n ≥ 1 and k ≥ 0. The mass extinction coefficient was calculated based on Mie theory. Entomogenous fungi Ma2677 spores and entomogenous fungi Bb3088 spores were selected as EM signal extinction materials in the smoke box test. The transmittances of entomogenous fungi Bb3088 spores and entomogenous fungi Ma2677 spores were 11.63% and 5.42%, and the mass extinction coefficients were 1.8337 m(2)/g and 1.227 m(2)/g. These results showed that entomogenous fungi Bb3088 spores and entomogenous fungi Ma2677 spores have higher extinction characteristics than other microbial materials. © The Author(s) 2016.

Biomineralization of endolithic microbes in rocks from the McMurdo Dry Valleys of Antarctica: implications for microbial fossil formation and their detection.

PubMed

Wierzchos, Jacek; Sancho, Leopoldo García; Ascaso, Carmen

2005-04-01

In some zones of Antarctica's cold and dry desert, the extinction of cryptoendolithic microorganisms leaves behind inorganic traces of microbial life. In this paper, we examine the transition from live microorganisms, through their decay, to microbial fossils using in situ microscopy (transmission electron microscopy, scanning electron microscopy in back-scattered electron mode) and microanalytical (energy dispersive X-ray spectroscopy) techniques. Our results demonstrate that, after their death, endolithic microorganisms inhabiting Commonwealth Glacier sandstone from the Antarctica McMurdo Dry Valleys become mineralized. In some cases, epicellular deposition of minerals and/or simply filling up of empty moulds by minerals leads to the formation of cell-shaped structures that may be considered biomarkers. The continuous deposition of allochthonous clay minerals and sulfate-rich salts fills the sandstone pores. This process can give rise to microbial fossils with distinguishable cell wall structures. Often, fossilized cell interiors were of a different chemical composition to the mineralized cell walls. We propose that the microbial fossil formation observed was induced by mineral precipitation resulting from inorganic processes occurring after the death of cryptoendolithic microorganisms. Nevertheless, it must have been the organic template that provoked the diffusion of mineral elements and gave rise to their characteristic distribution pattern inside the fossilized cells.

The changing role of mammal life histories in Late Quaternary extinction vulnerability on continents and islands

PubMed Central

Miller, Joshua H.; Fraser, Danielle; Smith, Felisa A.; Boyer, Alison; Lindsey, Emily; Mychajliw, Alexis M.

2016-01-01

Understanding extinction drivers in a human-dominated world is necessary to preserve biodiversity. We provide an overview of Quaternary extinctions and compare mammalian extinction events on continents and islands after human arrival in system-specific prehistoric and historic contexts. We highlight the role of body size and life-history traits in these extinctions. We find a significant size-bias except for extinctions on small islands in historic times. Using phylogenetic regression and classification trees, we find that while life-history traits are poor predictors of historic extinctions, those associated with difficulty in responding quickly to perturbations, such as small litter size, are good predictors of prehistoric extinctions. Our results are consistent with the idea that prehistoric and historic extinctions form a single continuing event with the same likely primary driver, humans, but the diversity of impacts and affected faunas is much greater in historic extinctions. PMID:27330176

The changing role of mammal life histories in Late Quaternary extinction vulnerability on continents and islands.

PubMed

Lyons, S Kathleen; Miller, Joshua H; Fraser, Danielle; Smith, Felisa A; Boyer, Alison; Lindsey, Emily; Mychajliw, Alexis M

2016-06-01

Understanding extinction drivers in a human-dominated world is necessary to preserve biodiversity. We provide an overview of Quaternary extinctions and compare mammalian extinction events on continents and islands after human arrival in system-specific prehistoric and historic contexts. We highlight the role of body size and life-history traits in these extinctions. We find a significant size-bias except for extinctions on small islands in historic times. Using phylogenetic regression and classification trees, we find that while life-history traits are poor predictors of historic extinctions, those associated with difficulty in responding quickly to perturbations, such as small litter size, are good predictors of prehistoric extinctions. Our results are consistent with the idea that prehistoric and historic extinctions form a single continuing event with the same likely primary driver, humans, but the diversity of impacts and affected faunas is much greater in historic extinctions. © 2016 The Author(s).

Loss of soil microbial diversity may increase insecticide uptake by crop

USDA-ARS?s Scientific Manuscript database

Belowground biodiversity is essential for soil functioning, but the effect of belowground biodiversity loss on food safety is unknown. We investigated the loss of soil microbial diversity on insecticides accumulation in Brassica. We manipulated soil biodiversity using the dilution-to-extinction appr...

Diversification dynamics of rhynchostomatian ciliates: the impact of seven intrinsic traits on speciation and extinction in a microbial group.

PubMed

Vďačný, Peter; Rajter, Ľubomír; Shazib, Shahed Uddin Ahmed; Jang, Seok Won; Shin, Mann Kyoon

2017-08-30

Ciliates are a suitable microbial model to investigate trait-dependent diversification because of their comparatively complex morphology and high diversity. We examined the impact of seven intrinsic traits on speciation, extinction, and net-diversification of rhynchostomatians, a group of comparatively large, predatory ciliates with proboscis carrying a dorsal brush (sensoric structure) and toxicysts (organelles used to kill the prey). Bayesian estimates under the binary-state speciation and extinction model indicate that two types of extrusomes and two-rowed dorsal brush raise diversification through decreasing extinction. On the other hand, the higher number of contractile vacuoles and their dorsal location likely increase diversification via elevating speciation rate. Particular nuclear characteristics, however, do not significantly differ in their diversification rates and hence lineages with various macronuclear patterns and number of micronuclei have similar probabilities to generate new species. Likelihood-based quantitative state diversification analyses suggest that rhynchostomatians conform to Cope's rule in that their diversity linearly grows with increasing body length and relative length of the proboscis. Comparison with other litostomatean ciliates indicates that rhynchostomatians are not among the cladogenically most successful lineages and their survival over several hundred million years could be associated with their comparatively large and complex bodies that reduce the risk of extinction.

Gaian bottlenecks and planetary habitability maintained by evolving model biospheres: the ExoGaia model

NASA Astrophysics Data System (ADS)

Nicholson, Arwen E.; Wilkinson, David M.; Williams, Hywel T. P.; Lenton, Timothy M.

2018-06-01

The search for habitable exoplanets inspires the question - how do habitable planets form? Planet habitability models traditionally focus on abiotic processes and neglect a biotic response to changing conditions on an inhabited planet. The Gaia hypothesis postulates that life influences the Earth's feedback mechanisms to form a self-regulating system, and hence that life can maintain habitable conditions on its host planet. If life has a strong influence, it will have a role in determining a planet's habitability over time. We present the ExoGaia model - a model of simple `planets' host to evolving microbial biospheres. Microbes interact with their host planet via consumption and excretion of atmospheric chemicals. Model planets orbit a `star' that provides incoming radiation, and atmospheric chemicals have either an albedo or a heat-trapping property. Planetary temperatures can therefore be altered by microbes via their metabolisms. We seed multiple model planets with life while their atmospheres are still forming and find that the microbial biospheres are, under suitable conditions, generally able to prevent the host planets from reaching inhospitable temperatures, as would happen on a lifeless planet. We find that the underlying geochemistry plays a strong role in determining long-term habitability prospects of a planet. We find five distinct classes of model planets, including clear examples of `Gaian bottlenecks' - a phenomenon whereby life either rapidly goes extinct leaving an inhospitable planet or survives indefinitely maintaining planetary habitability. These results suggest that life might play a crucial role in determining the long-term habitability of planets.

"Life history space": a multivariate analysis of life history variation in extant and extinct Malagasy lemurs.

PubMed

Catlett, Kierstin K; Schwartz, Gary T; Godfrey, Laurie R; Jungers, William L

2010-07-01

Studies of primate life history variation are constrained by the fact that all large-bodied extant primates are haplorhines. However, large-bodied strepsirrhines recently existed. If we can extract life history information from their skeletons, these species can contribute to our understanding of primate life history variation. This is particularly important in light of new critiques of the classic "fast-slow continuum" as a descriptor of variation in life history profiles across mammals in general. We use established dental histological methods to estimate gestation length and age at weaning for five extinct lemur species. On the basis of these estimates, we reconstruct minimum interbirth intervals and maximum reproductive rates. We utilize principal components analysis to create a multivariate "life history space" that captures the relationships among reproductive parameters and brain and body size in extinct and extant lemurs. Our data show that, whereas large-bodied extinct lemurs can be described as "slow" in some fashion, they also varied greatly in their life history profiles. Those with relatively large brains also weaned their offspring late and had long interbirth intervals. These were not the largest of extinct lemurs. Thus, we distinguish size-related life history variation from variation that linked more strongly to ecological factors. Because all lemur species larger than 10 kg, regardless of life history profile, succumbed to extinction after humans arrived in Madagascar, we argue that large body size increased the probability of extinction independently of reproductive rate. We also provide some evidence that, among lemurs, brain size predicts reproductive rate better than body size. (c) 2010 Wiley-Liss, Inc.

Flourishing ocean drives the end-Permian marine mass extinction

PubMed Central

Schobben, Martin; Stebbins, Alan; Ghaderi, Abbas; Strauss, Harald; Korn, Dieter; Korte, Christoph

2015-01-01

The end-Permian mass extinction, the most severe biotic crisis in the Phanerozoic, was accompanied by climate change and expansion of oceanic anoxic zones. The partitioning of sulfur among different exogenic reservoirs by biological and physical processes was of importance for this biodiversity crisis, but the exact role of bioessential sulfur in the mass extinction is still unclear. Here we show that globally increased production of organic matter affected the seawater sulfate sulfur and oxygen isotope signature that has been recorded in carbonate rock spanning the Permian−Triassic boundary. A bifurcating temporal trend is observed for the strata spanning the marine mass extinction with carbonate-associated sulfate sulfur and oxygen isotope excursions toward decreased and increased values, respectively. By coupling these results to a box model, we show that increased marine productivity and successive enhanced microbial sulfate reduction is the most likely scenario to explain these temporal trends. The new data demonstrate that worldwide expansion of euxinic and anoxic zones are symptoms of increased biological carbon recycling in the marine realm initiated by global warming. The spatial distribution of sulfidic water column conditions in shallow seafloor environments is dictated by the severity and geographic patterns of nutrient fluxes and serves as an adequate model to explain the scale of the marine biodiversity crisis. Our results provide evidence that the major biodiversity crises in Earth’s history do not necessarily implicate an ocean stripped of (most) life but rather the demise of certain eukaryotic organisms, leading to a decline in species richness. PMID:26240323

Flourishing ocean drives the end-Permian marine mass extinction.

PubMed

Schobben, Martin; Stebbins, Alan; Ghaderi, Abbas; Strauss, Harald; Korn, Dieter; Korte, Christoph

2015-08-18

The end-Permian mass extinction, the most severe biotic crisis in the Phanerozoic, was accompanied by climate change and expansion of oceanic anoxic zones. The partitioning of sulfur among different exogenic reservoirs by biological and physical processes was of importance for this biodiversity crisis, but the exact role of bioessential sulfur in the mass extinction is still unclear. Here we show that globally increased production of organic matter affected the seawater sulfate sulfur and oxygen isotope signature that has been recorded in carbonate rock spanning the Permian-Triassic boundary. A bifurcating temporal trend is observed for the strata spanning the marine mass extinction with carbonate-associated sulfate sulfur and oxygen isotope excursions toward decreased and increased values, respectively. By coupling these results to a box model, we show that increased marine productivity and successive enhanced microbial sulfate reduction is the most likely scenario to explain these temporal trends. The new data demonstrate that worldwide expansion of euxinic and anoxic zones are symptoms of increased biological carbon recycling in the marine realm initiated by global warming. The spatial distribution of sulfidic water column conditions in shallow seafloor environments is dictated by the severity and geographic patterns of nutrient fluxes and serves as an adequate model to explain the scale of the marine biodiversity crisis. Our results provide evidence that the major biodiversity crises in Earth's history do not necessarily implicate an ocean stripped of (most) life but rather the demise of certain eukaryotic organisms, leading to a decline in species richness.

Extinctions of life

NASA Technical Reports Server (NTRS)

Sepkoski, J. J. Jr; Sepkoski JJ, J. r. (Principal Investigator)

1988-01-01

This meeting presentation examines mass extinctions through earth's history. Extinctions are charted for marine families and marine genera. Timing of marine genera extinctions is discussed. Periodicity in extinctions during the Mesozoic and Cenozoic eras is plotted and compared with Paleozoic extinction peaks. The role of extinction in evolution and mankind's role in present extinctions are examined.

Microbial island biogeography: isolation shapes the life history characteristics but not diversity of root-symbiotic fungal communities.

PubMed

Davison, John; Moora, Mari; Öpik, Maarja; Ainsaar, Leho; Ducousso, Marc; Hiiesalu, Inga; Jairus, Teele; Johnson, Nancy; Jourand, Philippe; Kalamees, Rein; Koorem, Kadri; Meyer, Jean-Yves; Püssa, Kersti; Reier, Ülle; Pärtel, Meelis; Semchenko, Marina; Traveset, Anna; Vasar, Martti; Zobel, Martin

2018-06-08

Island biogeography theory is one of the most influential paradigms in ecology. That island characteristics, including remoteness, can profoundly modulate biological diversity has been borne out by studies of animals and plants. By contrast, the processes influencing microbial diversity in island systems remain largely undetermined. We sequenced arbuscular mycorrhizal (AM) fungal DNA from plant roots collected on 13 islands worldwide and compared AM fungal diversity on islands with existing data from mainland sites. AM fungal communities on islands (even those >6000 km from the closest mainland) comprised few endemic taxa and were as diverse as mainland communities. Thus, in contrast to patterns recorded among macro-organisms, efficient dispersal appears to outweigh the effects of taxogenesis and extinction in regulating AM fungal diversity on islands. Nonetheless, AM fungal communities on more distant islands comprised a higher proportion of previously cultured and large-spored taxa, indicating that dispersal may be human-mediated or require tolerance of significant environmental stress, such as exposure to sunlight or high salinity. The processes driving large-scale patterns of microbial diversity are a key consideration for attempts to conserve and restore functioning ecosystems in this era of rapid global change.

Proliferation of MISS-related microbial mats following the end-Permian mass extinction in terrestrial ecosystems: Evidence from the Lower Triassic of the Yiyang area, Henan Province, North China

NASA Astrophysics Data System (ADS)

Tu, Chenyi; Chen, Zhong-Qiang; Retallack, Gregory J.; Huang, Yuangeng; Fang, Yuheng

2016-03-01

Microbially induced sedimentary structures (MISSs) are commonly present in siliciclastic shallow marine settings following the end-Permian mass extinction, but have been rarely reported in the post-extinction terrestrial ecosystems. Here, we present six types of well-preserved MISSs from the upper Sunjiagou Formation and lower Liujiagou Formation of Induan (Early Triassic) age in the Yiyang area, Henan Province, North China. These MISSs include: polygonal sand cracks, worm-like structures, wrinkle structures, sponge pore fabrics, gas domes, and leveled ripple marks. Microanalysis shows that these MISSs are characterized by thin clayey laminae and filamentous mica grains arranged parallel to bedding plane as well as oriented matrix supported quartz grains, which are indicative of biogenic origin. Facies analysis suggests that the MISS-hosting sediments were deposited in a fluvial sedimentary system during the Early Triassic, including lake delta, riverbeds/point bars, and flood plain paleoenvironments. Abundant MISSs from Yiyang indicate that microbes also proliferated in terrestrial ecosystems in the aftermath of the Permian-Triassic (P-Tr) biocrisis, like they behaved in marine ecosystems. Microbial blooms, together with dramatic loss of metazoans, may reflect environmental stress and degradation of terrestrial ecosystems or arid climate immediately after the severe Permian-Triassic ecologic crisis.

Trait synergisms and the rarity, extirpation, and extinction risk of desert fishes.

PubMed

Olden, Julian D; Poff, N LeRoy; Bestgen, Kevin R

2008-03-01

Understanding the causes and consequences of species extinctions is a central goal in ecology. Faced with the difficult task of identifying those species with the greatest need for conservation, ecologists have turned to using predictive suites of ecological and life-history traits to provide reasonable estimates of species extinction risk. Previous studies have linked individual traits to extinction risk, yet the nonadditive contribution of multiple traits to the entire extinction process, from species rarity to local extirpation to global extinction, has not been examined. This study asks whether trait synergisms predispose native fishes of the Lower Colorado River Basin (USA) to risk of extinction through their effects on rarity and local extirpation and their vulnerability to different sources of threat. Fish species with "slow" life histories (e.g., large body size, long life, and delayed maturity), minimal parental care to offspring, and specialized feeding behaviors are associated with smaller geographic distribution, greater frequency of local extirpation, and higher perceived extinction risk than that expected by simple additive effects of traits in combination. This supports the notion that trait synergisms increase the susceptibility of native fishes to multiple stages of the extinction process, thus making them prone to the multiple jeopardies resulting from a combination of fewer individuals, narrow environmental tolerances, and long recovery times following environmental change. Given that particular traits, some acting in concert, may differentially predispose native fishes to rarity, extirpation, and extinction, we suggest that management efforts in the Lower Colorado River Basin should be congruent with the life-history requirements of multiple species over large spatial and temporal scales.

Timing of global regression and microbial bloom linked with the Permian-Triassic boundary mass extinction: implications for driving mechanisms

PubMed Central

Baresel, Björn; Bucher, Hugo; Bagherpour, Borhan; Brosse, Morgane; Guodun, Kuang; Schaltegger, Urs

2017-01-01

New high-resolution U-Pb dates indicate a duration of 89 ± 38 kyr for the Permian hiatus and of 14 ± 57 kyr for the overlying Triassic microbial limestone in shallow water settings of the Nanpanjiang Basin, South China. The age and duration of the hiatus coincides with the Permian-Triassic boundary (PTB) and the extinction interval in the Meishan Global Stratotype Section and Point, and strongly supports a glacio-eustatic regression, which best explains the genesis of the worldwide hiatus straddling the PTB in shallow water records. In adjacent deep marine troughs, rates of sediment accumulation display a six-fold decrease across the PTB compatible with a dryer and cooler climate as indicated by terrestrial plants. Our model of the Permian-Triassic boundary mass extinction (PTBME) hinges on the synchronicity of the hiatus with the onset of the Siberian Traps volcanism. This early eruptive phase released sulfur-rich volatiles into the stratosphere, thus simultaneously eliciting a short-lived ice age responsible for the global regression and a brief but intense acidification. Abrupt cooling, shrunk habitats on shelves and acidification may all have synergistically triggered the PTBME. Subsequently, the build-up of volcanic CO2 induced a transient cool climate whose early phase saw the deposition of the microbial limestone. PMID:28262815

Timing of global regression and microbial bloom linked with the Permian-Triassic boundary mass extinction: implications for driving mechanisms

NASA Astrophysics Data System (ADS)

Baresel, Björn; Bucher, Hugo; Bagherpour, Borhan; Brosse, Morgane; Guodun, Kuang; Schaltegger, Urs

2017-03-01

New high-resolution U-Pb dates indicate a duration of 89 ± 38 kyr for the Permian hiatus and of 14 ± 57 kyr for the overlying Triassic microbial limestone in shallow water settings of the Nanpanjiang Basin, South China. The age and duration of the hiatus coincides with the Permian-Triassic boundary (PTB) and the extinction interval in the Meishan Global Stratotype Section and Point, and strongly supports a glacio-eustatic regression, which best explains the genesis of the worldwide hiatus straddling the PTB in shallow water records. In adjacent deep marine troughs, rates of sediment accumulation display a six-fold decrease across the PTB compatible with a dryer and cooler climate as indicated by terrestrial plants. Our model of the Permian-Triassic boundary mass extinction (PTBME) hinges on the synchronicity of the hiatus with the onset of the Siberian Traps volcanism. This early eruptive phase released sulfur-rich volatiles into the stratosphere, thus simultaneously eliciting a short-lived ice age responsible for the global regression and a brief but intense acidification. Abrupt cooling, shrunk habitats on shelves and acidification may all have synergistically triggered the PTBME. Subsequently, the build-up of volcanic CO2 induced a transient cool climate whose early phase saw the deposition of the microbial limestone.

Venus: A search for clues to early biological possibilities

NASA Technical Reports Server (NTRS)

Colin, Larry; Kasting, James F.

1992-01-01

The extensive evidence that there is no extant life on Venus is summarized. The current atmospheric environment, which is far too hostile by terrestrial standards to support life, is described. However, exobiologists are interested in the possibility of extinct life on Venus. The early history of Venus is discussed in terms of its ability to sustain life that may now be extinct.

Theory of a microfluidic serial dilution bioreactor for growth of planktonic and biofilm populations.

PubMed

Hsu, Sze-Bi; Yang, Ya-Tang

2016-04-01

We present the theory of a microfluidic bioreactor with a two-compartment growth chamber and periodic serial dilution. In the model, coexisting planktonic and biofilm populations exchange by adsorption and detachment. The criteria for coexistence and global extinction are determined by stability analysis of the global extinction state. Stability analysis yields the operating diagram in terms of the dilution and removal ratios, constrained by the plumbing action of the bioreactor. The special case of equal uptake function and logistic growth is analytically solved and explicit growth curves are plotted. The presented theory is applicable to generic microfluidic bioreactors with discrete growth chambers and periodic dilution at discrete time points. Therefore, the theory is expected to assist the design of microfluidic devices for investigating microbial competition and microbial biofilm growth under serial dilution conditions.

Microbial diversity and structure are drivers of the biological barrier effect against Listeria monocytogenes in soil.

PubMed

Vivant, Anne-Laure; Garmyn, Dominique; Maron, Pierre-Alain; Nowak, Virginie; Piveteau, Pascal

2013-01-01

Understanding the ecology of pathogenic organisms is important in order to monitor their transmission in the environment and the related health hazards. We investigated the relationship between soil microbial diversity and the barrier effect against Listeria monocytogenes invasion. By using a dilution-to-extinction approach, we analysed the consequence of eroding microbial diversity on L. monocytogenes population dynamics under standardised conditions of abiotic parameters and microbial abundance in soil microcosms. We demonstrated that highly diverse soil microbial communities act as a biological barrier against L. monocytogenes invasion and that phylogenetic composition of the community also has to be considered. This suggests that erosion of diversity may have damaging effects regarding circulation of pathogenic microorganisms in the environment.

The fossil record of evolution: Data on diversification and extinction

NASA Technical Reports Server (NTRS)

Sepkoski, J. John, Jr.

1990-01-01

The two principle efforts include: (1) a compilation of a synoptic, mesoscale data base on times of origination and extinction of animal genera in the oceans over the last 600 million years of geologic time; and (2) an analysis of statistical patterns in these data that relate to the diversification of complex life and to the occurrence of mass extinctions, especially those that might be associated with extraterrestrial phenomena. The data base is unique in its taxonomic scope and detail and in its temporal resolution. It is a valuable resource for investigating evolutionary expansions and extinctions of complex life.

Perennial Lakeshores as an Exploration Target for Microbial Remains on Mars Based on Earth Analogs

NASA Astrophysics Data System (ADS)

Blair, T. C.

2013-12-01

Exploring for evidence of present or past life is a key part of the NASA Mars program. Satellite data show the existence on the Martian surface of several types of potentially habitable settings for past microbial life if it existed, including remnants of former environments still in morphologic context. Of these environments, lakeshores are a prime target for future rover missions because they manifest a past critical interface between atmosphere, sunlit water, and a solid substrate. Case studies were made of possible analog remnants from now desiccated late Pleistocene perennial lakes of the western Basin and Range province, USA, to better understand microbial remains in this setting. These case studies show that the best preserved and most concentrated records of fossil microbial life developed in the upper photic zone of former shorezones where: 1) coeval clastic sedimentation was low; 2) a solid substrate such as coarse clasts or bedrock was present for colonization; 3) lake level was relatively stable for at least a few thousand years; and 4) chemical conditions promoted some mineral precipitation, such as of calcite. Although not a prerequisite, microbial accumulations also are common in the studied Pleistocene lakes where effluent from piedmont groundwater mixed with chemically different lake water either diffusely in the beachface or at springs in the shoreface. Martian river deltas with discernible multi-sequence deposits are a good indicator of past stable levels in associated lakes because such deltaic intervals record a sustained history. An example is the Eberswalde delta. River discharge delivered sediment to build the deltas and concurrently added water to maintain the lakes. A distinction between river deltas and alluvial fans or fan deltas is necessary to identify these targets, and this can easily be achieved using Earth case studies. An appreciation that river deltas are not reclassified as alluvial fans simply because they were abandoned also is needed. Although Martian river delta plain, delta front, and prodelta deposits may contain the remains of microbial life if it existed at the time of deposition, the studied western Basin and Range lakes show that such remains are most abundant and concentrated along former coarse gravelly or rocky shorelines away from the delta, where clear water and a stable substrate prevailed, and fossil dilution by detrital input was low. The elevations of the delta plains provide the target levels for shoreline exploration elsewhere along the lake. The extinct western Basin and Range lakes, such as Lake Manly in Death Valley, further teach that former shorelines readily apparent on satellite imagery may lack a biological or sedimentary record, whereas less obvious or unapparent shoreline segments at key levels may have a bounty of microbial remains. The latter scenario results from partial obscuration of the former shoreline by post-lake weathering, including through erosion or the partial cover by eolian or gravity-driven colluvial sediment.

Rhizome of life, catastrophes, sequence exchanges, gene creations, and giant viruses: how microbial genomics challenges Darwin

PubMed Central

Merhej, Vicky; Raoult, Didier

2012-01-01

Darwin's theory about the evolution of species has been the object of considerable dispute. In this review, we have described seven key principles in Darwin's book The Origin of Species and tried to present how genomics challenge each of these concepts and improve our knowledge about evolution. Darwin believed that species evolution consists on a positive directional selection ensuring the “survival of the fittest.” The most developed state of the species is characterized by increasing complexity. Darwin proposed the theory of “descent with modification” according to which all species evolve from a single common ancestor through a gradual process of small modification of their vertical inheritance. Finally, the process of evolution can be depicted in the form of a tree. However, microbial genomics showed that evolution is better described as the “biological changes over time.” The mode of change is not unidirectional and does not necessarily favors advantageous mutations to increase fitness it is rather subject to random selection as a result of catastrophic stochastic processes. Complexity is not necessarily the completion of development: several complex organisms have gone extinct and many microbes including bacteria with intracellular lifestyle have streamlined highly effective genomes. Genomes evolve through large events of gene deletions, duplications, insertions, and genomes rearrangements rather than a gradual adaptative process. Genomes are dynamic and chimeric entities with gene repertoires that result from vertical and horizontal acquisitions as well as de novo gene creation. The chimeric character of microbial genomes excludes the possibility of finding a single common ancestor for all the genes recorded currently. Genomes are collections of genes with different evolutionary histories that cannot be represented by a single tree of life (TOL). A forest, a network or a rhizome of life may be more accurate to represent evolutionary relationships among species. PMID:22973559

The Effect of Size and Ecology on Extinction Susceptibility

NASA Astrophysics Data System (ADS)

Huynh, C.; Yuan, A.; Heim, N.; Payne, J.

2015-12-01

Although life on Earth first emerged as prokaryotic organisms, it eventually evolved into billions of different species. However, extinctions on Earth, especially the five mass extinctions, have decimated species. So what leads to a species survival or demise during a mass extinction? Are certain species more susceptible to extinctions based on their size and ecology? For this project, we focused on the data of marine animals. To examine the impact of size and ecology on a species's likelihood of survival, we compared the sizes and ecologies of the survivors and victims of the five mass extinctions. The ecology, or life mode, of a genus consists of the combination of tiering, motility, and feeding mechanism. Tiering refers to the animal's typical location in the water column and sediments, motility refers to its ability to move, and feeding mechanism describes the way the organism eats; together, they describe the animal's behavior. We analyzed the effect of ecology on survival using logistic regression, which compares life mode to the success or failure of a genus during each mass extinction interval. For organism size, we found the extinct organisms' mean size (both volume and length) and compared it with the average size of survivors on a graph. Our results show that while surviving genera of mass extinctions tended to be slightly larger than those that went extinct, there was no significant difference. Even though the Permian (Changhsingian) and Triassic (Rhaetian) extinctions had larger surviving species, likewise the difference was small. Ecology had a more obvious impact on the likelihood of survival; fast-moving, predatory pelagic organisms were the most likely to go extinct, while sedentary, infaunal suspension feeders had the greatest chances of survival. Overall, ecology played a greater role than size in determining the survival of a species. With this information, we can use ecology to predict which species would survive future extinctions.

A general theory of impacts and mass extinctions, and the consequences of large-body impact on the Earth

NASA Technical Reports Server (NTRS)

Rampino, M. R.

1994-01-01

The theory that large-body impacts are the primary cause of mass extinctions of life on the Earth now has a sound theoretical and observational foundation. A convergence of evidence suggests that the biosphere may be a sensitive detector of large impact events, which result in the recorded global mass extinction pulses. The astronomically observed flux of asteroids and comets in the neighborhood of the Earth, and the threshold impact size calculated to produce a global environment catastrophe, can be used to predict a time history of large impact events and related mass extinctions of life that agrees well with the record of approx. 24 extinction events in the last 540 m.y.

Endolithic microbial life in extreme cold climate: snow is required, but perhaps less is more.

PubMed

Sun, Henry J

2013-04-03

Cyanobacteria and lichens living under sandstone surfaces in the McMurdo Dry Valleys require snow for moisture. Snow accumulated beyond a thin layer, however, is counterproductive, interfering with rock insolation, snow melting, and photosynthetic access to light. With this in mind, the facts that rock slope and direction control colonization, and that climate change results in regional extinctions, can be explained. Vertical cliffs, which lack snow cover and are perpetually dry, are devoid of organisms. Boulder tops and edges can trap snow, but gravity and wind prevent excessive buildup. There, the organisms flourish. In places where snow-thinning cannot occur and snow drifts collect, rocks may contain living or dead communities. In light of these observations, the possibility of finding extraterrestrial endolithic communities on Mars cannot be eliminated.

Biogenic iron oxide transformation by hyperthermophiles: spectral and physiological potentials

NASA Astrophysics Data System (ADS)

Kashyap, S.; Sklute, E.; Dyar, M. D.; Holden, J. F.

2017-12-01

It is likely that any putative life in our Solar System beyond Earth, extinct or extant, is microbial. However, to detect such life, distinct organic or mineral biosignatures need to be established. Microbe-mineral interactions and mineral transformations deserve further examination in this regard. This study focused on hyperthermophilic iron oxide-reducing archaea and addressed the types of iron-oxide minerals that are favored for growth, the kinetics of such reactions, and the mineral transformations that occur depending upon the electron acceptor. Two hyperthermophilic archaea (Pyrodictium delaneyi and Pyrobaculum islandicum) and six laboratory-synthesized nanophase iron oxide minerals (2-line ferrihydrite, lepidocrocite, akaganéite, goethite, hematite and maghemite) were tested for cell growth and Fe(II) production. The mineral end-products were further characterized by examining the spectral signatures associated with these transformations using reflectance, Raman, and Mössbauer spectroscopies and electron diffraction patterns. Additionally, we critically examined how sample preparation techniques influence the end products of these transformations by comparing freeze-dried samples against those still in solution. Results showed that both organisms utilize all six nanophase iron oxides, although with varying success. The best candidates for microbial reduction were ferrihydrite, akaganéite, and lepidocrocite. The mineral transformation products and the extent of reduction varied and showed subtle differences based on organism and the type of iron oxide used. The subtle spectral differences were best characterized using combined spectroscopy techniques. This research provides new insights into microbe-mineral interactions and the discrimination of potential biosignatures in the search for life beyond Earth.

Redox conditions and marine microbial community changes during the end-Ordovician mass extinction event

NASA Astrophysics Data System (ADS)

Smolarek, Justyna; Marynowski, Leszek; Trela, Wiesław; Kujawski, Piotr; Simoneit, Bernd R. T.

2017-02-01

The end-Ordovician (Hirnantian) crisis is the first globally distinct extinction during the Phanerozoic, but its causes are still not fully known. Here, we present an integrated geochemical and petrographic analysis to understand the sedimentary conditions taking place before, during and after the Late Ordovician ice age. New data from the Zbrza (Holy Cross Mountains) and Gołdap (Baltic Depression) boreholes shows that, like in other worldwide sections, the total organic carbon (TOC) content is elevated in the upper Katian and uppermost Hirnantian to Rhudannian black shales, but depleted (below 1%) during most of the Hirnantian. Euxinic conditions occurred in the photic zone in both TOC-rich intervals. This is based on the maleimide distribution, occurrence of aryl isoprenoids and isorenieratane, as well as a dominance of tiny pyrite framboids. Euxinic conditions were interrupted by the Hirnantian regression caused by glaciation. Sedimentation on the deep shelf changed to aerobic probably due to intense thermohaline circulation. Euxinia in the water column occurred directly during the time associated with the second pulse of the mass extinction with a termination of the end-Ordovician glaciation and sea level rise just at the Ordovician/Silurian (O/S) boundary. In contrast, we suggest based on inorganic proxies that bottom water conditions were generally oxic to dysoxic due to upwelling in the Rheic Ocean. The only episode of seafloor anoxia in the Zbrza basin was found at the O/S boundary, where all inorganic indicators showed elevated values typical for anoxia (U/Th > 1.25; V/Cr > 4.25; V/(V + Ni): 0.54-0.82 and Mo > 10-25 ppm). Significant differences in hopanes to steranes ratio and in C27-C29 sterane distribution between the Katian, Rhudannian and Hirnantian deposits indicate changes in marine microbial communities triggered by sharp climate change and Gondwana glaciation. The increase from biomarkers of cyanobacteria (2α-methylhopanes) after the O/S boundary implied enhanced microbial activity following the mass extinction event.

Breeding Young as a Survival Strategy during Earth’s Greatest Mass Extinction

NASA Astrophysics Data System (ADS)

Botha-Brink, Jennifer; Codron, Daryl; Huttenlocker, Adam K.; Angielczyk, Kenneth D.; Ruta, Marcello

2016-04-01

Studies of the effects of mass extinctions on ancient ecosystems have focused on changes in taxic diversity, morphological disparity, abundance, behaviour and resource availability as key determinants of group survival. Crucially, the contribution of life history traits to survival during terrestrial mass extinctions has not been investigated, despite the critical role of such traits for population viability. We use bone microstructure and body size data to investigate the palaeoecological implications of changes in life history strategies in the therapsid forerunners of mammals before and after the Permo-Triassic Mass Extinction (PTME), the most catastrophic crisis in Phanerozoic history. Our results are consistent with truncated development, shortened life expectancies, elevated mortality rates and higher extinction risks amongst post-extinction species. Various simulations of ecological dynamics indicate that an earlier onset of reproduction leading to shortened generation times could explain the persistence of therapsids in the unpredictable, resource-limited Early Triassic environments, and help explain observed body size distributions of some disaster taxa (e.g., Lystrosaurus). Our study accounts for differential survival in mammal ancestors after the PTME and provides a methodological framework for quantifying survival strategies in other vertebrates during major biotic crises.

Breeding Young as a Survival Strategy during Earth's Greatest Mass Extinction.

PubMed

Botha-Brink, Jennifer; Codron, Daryl; Huttenlocker, Adam K; Angielczyk, Kenneth D; Ruta, Marcello

2016-04-05

Studies of the effects of mass extinctions on ancient ecosystems have focused on changes in taxic diversity, morphological disparity, abundance, behaviour and resource availability as key determinants of group survival. Crucially, the contribution of life history traits to survival during terrestrial mass extinctions has not been investigated, despite the critical role of such traits for population viability. We use bone microstructure and body size data to investigate the palaeoecological implications of changes in life history strategies in the therapsid forerunners of mammals before and after the Permo-Triassic Mass Extinction (PTME), the most catastrophic crisis in Phanerozoic history. Our results are consistent with truncated development, shortened life expectancies, elevated mortality rates and higher extinction risks amongst post-extinction species. Various simulations of ecological dynamics indicate that an earlier onset of reproduction leading to shortened generation times could explain the persistence of therapsids in the unpredictable, resource-limited Early Triassic environments, and help explain observed body size distributions of some disaster taxa (e.g., Lystrosaurus). Our study accounts for differential survival in mammal ancestors after the PTME and provides a methodological framework for quantifying survival strategies in other vertebrates during major biotic crises.

Microbial Diversity and Structure Are Drivers of the Biological Barrier Effect against Listeria monocytogenes in Soil

PubMed Central

Vivant, Anne-Laure; Garmyn, Dominique; Maron, Pierre-Alain; Nowak, Virginie; Piveteau, Pascal

2013-01-01

Understanding the ecology of pathogenic organisms is important in order to monitor their transmission in the environment and the related health hazards. We investigated the relationship between soil microbial diversity and the barrier effect against Listeria monocytogenes invasion. By using a dilution-to-extinction approach, we analysed the consequence of eroding microbial diversity on L. monocytogenes population dynamics under standardised conditions of abiotic parameters and microbial abundance in soil microcosms. We demonstrated that highly diverse soil microbial communities act as a biological barrier against L. monocytogenes invasion and that phylogenetic composition of the community also has to be considered. This suggests that erosion of diversity may have damaging effects regarding circulation of pathogenic microorganisms in the environment. PMID:24116193

Extinction-effective population index: incorporating life-history variations in population viability analysis.

PubMed

Fujiwara, Masami

2007-09-01

Viability status of populations is a commonly used measure for decision-making in the management of populations. One of the challenges faced by managers is the need to consistently allocate management effort among populations. This allocation should in part be based on comparison of extinction risks among populations. Unfortunately, common criteria that use minimum viable population size or count-based population viability analysis (PVA) often do not provide results that are comparable among populations, primarily because they lack consistency in determining population size measures and threshold levels of population size (e.g., minimum viable population size and quasi-extinction threshold). Here I introduce a new index called the "extinction-effective population index," which accounts for differential effects of demographic stochasticity among organisms with different life-history strategies and among individuals in different life stages. This index is expected to become a new way of determining minimum viable population size criteria and also complement the count-based PVA. The index accounts for the difference in life-history strategies of organisms, which are modeled using matrix population models. The extinction-effective population index, sensitivity, and elasticity are demonstrated in three species of Pacific salmonids. The interpretation of the index is also provided by comparing them with existing demographic indices. Finally, a measure of life-history-specific effect of demographic stochasticity is derived.

Too big or too narrow? Disturbance characteristics determine the functional resilience in virtual microbial ecosystems

NASA Astrophysics Data System (ADS)

König, Sara; Firle, Anouk-Letizia; Koehnke, Merlin; Banitz, Thomas; Frank, Karin

2017-04-01

In general ecology, there is an ongoing debate about the influence of fragmentation on extinction thresholds. Whether this influence is positive or negative depends on the considered type of fragmentation: whereas habitat fragmentation often has a negative influence on population extinction thresholds, spatially fragmented disturbances are observed to have mostly positive effects on the extinction probability. Besides preventing population extinction, in soil systems ecology we are interested in analyzing how ecosystem functions are maintained despite disturbance events. Here, we analyzed the influence of disturbance size and fragmentation on the functional resilience of a microbial soil ecosystem. As soil is a highly heterogeneous environment exposed to disturbances of different spatial configurations, the identification of critical disturbance characteristics for maintaining its functions is crucial. We used the numerical simulation model eColony considering bacterial growth, degradation and dispersal for analyzing the dynamic response of biodegradation examplary for an important microbial ecosystem service to disturbance events of different spatial configurations. We systematically varied the size and the degree of fragmentation of the affected area (disturbance pattern). We found that the influence of the disturbance size on functional recovery and biodegradation performance highly depends on the spatial fragmentation of the disturbance. Generally, biodegradation performance decreases with increasing clumpedness and increasing size of the affected area. After spatially correlated disturbance events, biodegradation performance decreases linear with increasing disturbance size. After spatially fragmented disturbance events, on the other hand, an increase in disturbance size has no influence on the biodegradation performance until a critical disturbance size is reached. Is the affected area bigger than this critical size, the functional performance decreases dramatically. Under recurrent disturbance events, this threshold is shifted to lower disturbance sizes. The more frequent disturbances are recurring, the lower is the critical disturbance size. Our simulation results indicate the importance of spatial characteristics of disturbance events for the functional resilience of microbial ecosystems. Critical values for disturbance size and fragmentation emerge from an interplay between both characteristics. In consequence, a precise definition of the specific disturbance regime is necessary for analysing functional resilience. With this study, we show that we need to consider the influence of fragmentation in terrestrial environments not only on population extincions but also on the resilience of ecosystem functions. Moreover, spatial disturbance characteristics - which are widely discussed on landscape scale - are an important factor on smaller scales, too.

Planetary environments and the conditions of life.

PubMed

Chang, S

1988-01-01

Life arose on Earth within a billion years (1 Ga) after planetary accretion and core formation. The geological record, which begins 3.8 Ga BP, indicates environmental conditions much like today's, except for the absence of oxygen. By 3.5 Ga BP microbial ecosystems were already colonizing shallow marine hydrothermal environments along shorelines of volcanic islands. Although similar environments could have existed more than 3.8 Ga BP, they may not have been the spawning grounds of life. Geophysical models of the first 600 Ma of Earth history following accretion and core formation point to a period of great environmental disequilibrium. In such an environment the passage of energy from Earth's interior and from the Sun through gas-liquid-solid domains and their boundaries with each other generated a dynamically interacting, complex hierarchy of self-organized structures, ranging from bubbles at the sea-air interface to tectonic plates. Nested within this hierarchy were the precursors of living systems. The ability of a planet to produce such a hierarchy is speculated to be a prerequisite for the origin and sustenance of life. Application of this criterion to Mars, which apparently experienced no plate tectonism, argues against the origin of martian life. Because only further geological and biogeochemical exploration of the planet can place these qualitative speculations on firm ground, the search for evidence of extinct life on Mars continues to be of highest scientific priority.

All about Endangered and Extinct Animals. Animal Life for Children. [Videotape].

ERIC Educational Resources Information Center

2000

While there are thousands of different animals in the world, some have been extinct for many years and others are on the verge of extinction. In this videotape, students learn about the natural and man-made factors that lead to the endangerment and extinction of animals. Children find out why it is essential for people to help all forms of…

In Situ Geochronology on the Mars 2020 Rover with KArLE (Potassium-Argon Laser Experiment)

NASA Technical Reports Server (NTRS)

Cohen, B. A.; Swindle, T. D.; Roark, S. E.

2014-01-01

If extinct and/or extant life is discovered on Mars, knowledge of the chronology of the biosphere will be of paramount importance. KArLE will provide absolute ages of Mars 2020 rocks, which will allow us to understand them in the context of Mars' geologic history, connect them to other landing sites, and compare Martian epochs of habitability with the Earth's history and evolution of life. KArLE significantly enhances the ability of Mars 2020 to meet its science objectives by performing in situ age dating on key lithologies, enabling targeted searches for ancient biosignatures and increasing the chances of identifying evidence for Martian microbial life. The KArLE investigation makes its measurements on a core sample obtained with the rover drill, inserted into a small, mechanically simple chamber, followed by interrogation by laser-induced breakdown spectroscopy (LIBS), mass spectrometry, and optical imaging. The KArLE experiment is flexible enough to accommodate any partner providing these instrument components, a creative approach that extends the ability of the Mars 2020 payload to accomplish an additional highly-desirable science measurement for low cost and risk and minimal extra hardware.

Impact of Life History on Fear Memory and Extinction

PubMed Central

Remmes, Jasmin; Bodden, Carina; Richter, S. Helene; Lesting, Jörg; Sachser, Norbert; Pape, Hans-Christian; Seidenbecher, Thomas

2016-01-01

Behavioral profiles are strongly shaped by an individual's whole life experience. The accumulation of negative experiences over lifetime is thought to promote anxiety-like behavior in adulthood (“allostatic load hypothesis”). In contrast, the “mismatch hypothesis” of psychiatric disease suggests that high levels of anxiety-like behavior are the result of a discrepancy between early and late environment. The aim of the present study was to investigate how different life histories shape the expression of anxiety-like behavior and modulate fear memory. In addition, we aimed to clarify which of the two hypotheses can better explain the modulation of anxiety and fear. For this purpose, male mice grew up under either adverse or beneficial conditions during early phase of life. In adulthood they were further subdivided in groups that either matched or mismatched the condition experienced before, resulting in four different life histories. The main results were: (i) Early life benefit followed by late life adversity caused decreased levels of anxiety-like behavior. (ii) Accumulation of adversity throughout life history led to impaired fear extinction learning. Late life adversity as compared to late life benefit mainly affected extinction training, while early life adversity as compared to early life benefit interfered with extinction recall. Concerning anxiety-like behavior, the results do neither support the allostatic load nor the mismatch hypothesis, but rather indicate an anxiolytic effect of a mismatched early beneficial and later adverse life history. In contrast, fear memory was strongly affected by the accumulation of adverse experiences over the lifetime, therefore supporting allostatic load hypothesis. In summary, this study highlights that anxiety-like behavior and fear memory are differently affected by specific combinations of adverse or beneficial events experienced throughout life. PMID:27757077

Endolithic Microbial Life in Extreme Cold Climate: Snow Is Required, but Perhaps Less Is More

PubMed Central

Sun, Henry J.

2013-01-01

Cyanobacteria and lichens living under sandstone surfaces in the McMurdo Dry Valleys require snow for moisture. Snow accumulated beyond a thin layer, however, is counterproductive, interfering with rock insolation, snow melting, and photosynthetic access to light. With this in mind, the facts that rock slope and direction control colonization, and that climate change results in regional extinctions, can be explained. Vertical cliffs, which lack snow cover and are perpetually dry, are devoid of organisms. Boulder tops and edges can trap snow, but gravity and wind prevent excessive buildup. There, the organisms flourish. In places where snow-thinning cannot occur and snow drifts collect, rocks may contain living or dead communities. In light of these observations, the possibility of finding extraterrestrial endolithic communities on Mars cannot be eliminated. PMID:24832803

Marine planktonic microbes survived climatic instabilities in the past

PubMed Central

Cermeño, Pedro

2012-01-01

In the geological past, changes in climate and tectonic activity are thought to have spurred the tempo of evolutionary change among major taxonomic groups of plants and animals. However, the extent to which these historical contingencies increased the risk of extinction of microbial plankton species remains largely unknown. Here, I analyse fossil records of marine planktonic diatoms and calcareous nannoplankton over the past 65 million years from the world oceans and show that the probability of species' extinction is not correlated with secular changes in climatic instability. Further supporting these results, analyses of genera survivorship curves based on fossil data concurred with the predictions of a birth–death model that simulates the extinction of genera through time assuming stochastically constant rates of speciation and extinction. However, my results also show that these marine microbes responded to exceptional climatic contingencies in a manner that appears to have promoted net diversification. These results highlight the ability of marine planktonic microbes to survive climatic instabilities in the geological past, and point to different mechanisms underlying the processes of speciation and extinction in these micro-organisms. PMID:21775329

Multiple origins of life

NASA Technical Reports Server (NTRS)

Raup, D. M.; Valentine, J. W.

1983-01-01

There is some indication that life may have originated readily under primitive earth conditions. If there were multiple origins of life, the result could have been a polyphyletic biota today. Using simple stochastic models for diversification and extinction, we conclude: (1) the probability of survival of life is low unless there are multiple origins, and (2) given survival of life and given as many as 10 independent origins of life, the odds are that all but one would have gone extinct, yielding the monophyletic biota we have now. The fact of the survival of our particular form of life does not imply that it was unique or superior.

Selectivity of end-Cretaceous marine bivalve extinctions

NASA Technical Reports Server (NTRS)

Jablonski, D.; Raup, D. M.

1995-01-01

Analyses of the end-Cretaceous or Cretaceous-Tertiary mass extinction show no selectivity of marine bivalve genera by life position (burrowing versus exposed), body size, bathymetric position on the continental shelf, or relative breadth of bathymetric range. Deposit-feeders as a group have significantly lower extinction intensities than suspension-feeders, but this pattern is due entirely to low extinction in two groups (Nuculoida and Lucinoidea), which suggests that survivorship was not simply linked to feeding mode. Geographically widespread genera have significantly lower extinction intensities than narrowly distributed genera. These results corroborate earlier work suggesting that some biotic factors that enhance survivorship during times of lesser extinction intensities are ineffectual during mass extinctions.

The fossil record of evolution: Data on diversification and extinction

NASA Technical Reports Server (NTRS)

Sepkoski, J. J., Jr.

1986-01-01

Synoptic studies of the fossil record of complex life on Earth indicate increasingly that extinction, and especially mass extinction, were extremely important driving forces in the history of life. Analysis of a new compilation of geologic ranges for 25,000 genera of marine animals suggests that extinction events were much more frequent in occurrence and variable in magnitude than previously suspected. At least 30 well documented and potential mass extinctions were identified in the dataset. The most recent event, distributed over 260 to 0 ma. exhibit a stationary periodicity of 26.1 + or - 1 ma, implicating a cosmological forcing mechanism. Earlier events, especially in the 575 to 450 ma interval, are more frequent, possibly indicating either a breakdown of periodicity in the more distant past; and as yet undemonstrated diminution of the period length; or frequent aperiodic terrestrial perturbations of a less stable biota superimposed upon the cosmological periodicity.

Individual differences in fear extinction and anxiety-like behavior

PubMed Central

King, Gabrielle; Scott, Elliot; Graham, Bronwyn M.; Richardson, Rick

2017-01-01

There is growing appreciation for the substantial individual differences in the acquisition and inhibition of aversive associations, and the insights this might give into identifying individuals particularly vulnerable to stress and psychopathology. We examined whether animals that differed in rate of extinction (i.e., Fast versus Slow) were different in their response to an acute stress in adulthood or following a chronic stress that occurred either early or later in life. We found that Slow Extinguishers had significantly poorer extinction retention than Fast Extinguishers, but an acute stressor did not differentially affect anxiety-like behavior in the two groups. Further, while exposure to chronic stress in adulthood did not impact on the extinction phenotypes or anxiety-like behavior, exposure to chronic stress early in life affected both extinction retention and anxiety-like behavior. These findings have implications for the development of a more nuanced approach to identifying those most at risk of anxiety disorders. PMID:28416629

Quantitative Modeling of Microbial Population Responses to Chronic Irradiation Combined with Other Stressors

PubMed Central

Shuryak, Igor; Dadachova, Ekaterina

2016-01-01

Microbial population responses to combined effects of chronic irradiation and other stressors (chemical contaminants, other sub-optimal conditions) are important for ecosystem functioning and bioremediation in radionuclide-contaminated areas. Quantitative mathematical modeling can improve our understanding of these phenomena. To identify general patterns of microbial responses to multiple stressors in radioactive environments, we analyzed three data sets on: (1) bacteria isolated from soil contaminated by nuclear waste at the Hanford site (USA); (2) fungi isolated from the Chernobyl nuclear-power plant (Ukraine) buildings after the accident; (3) yeast subjected to continuous γ-irradiation in the laboratory, where radiation dose rate and cell removal rate were independently varied. We applied generalized linear mixed-effects models to describe the first two data sets, whereas the third data set was amenable to mechanistic modeling using differential equations. Machine learning and information-theoretic approaches were used to select the best-supported formalism(s) among biologically-plausible alternatives. Our analysis suggests the following: (1) Both radionuclides and co-occurring chemical contaminants (e.g. NO2) are important for explaining microbial responses to radioactive contamination. (2) Radionuclides may produce non-monotonic dose responses: stimulation of microbial growth at low concentrations vs. inhibition at higher ones. (3) The extinction-defining critical radiation dose rate is dramatically lowered by additional stressors. (4) Reproduction suppression by radiation can be more important for determining the critical dose rate, than radiation-induced cell mortality. In conclusion, the modeling approaches used here on three diverse data sets provide insight into explaining and predicting multi-stressor effects on microbial communities: (1) the most severe effects (e.g. extinction) on microbial populations may occur when unfavorable environmental conditions (e.g. fluctuations of temperature and/or nutrient levels) coincide with radioactive contamination; (2) an organism’s radioresistance and bioremediation efficiency in rich laboratory media may be insufficient to carry out radionuclide bioremediation in the field—robustness against multiple stressors is needed. PMID:26808049

Evidence for biological activity in mineralization of secondary sulphate deposits in a basaltic environment: implications for the search for life in the Martian subsurface

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

C. Doc Richardson; Nancy W. Hinman; Jill R. Scott

Evidence of microbial activity associated with mineralization of secondary Na-sulphate minerals (thenardite, mirabilite) in the basaltic subsurface of Craters of the Moon National Monument (COM), Idaho were examined by scanning electron microscopy, X-ray diffraction, laser desorption Fourier transform ion cyclotron resonance mass spectrometry (LD-FTICR-MS), Fourier transform infrared spectroscopy (FTIR) and isotope ratio mass spectrometry. Peaks suggestive of bio/organic compounds were observed in the secondary Na-sulphate deposits by LD-FTICR-MS. FTIR provided additional evidence for the presence of bio/organic compounds. Sulphur fractionation was explored to assist in determining if microbes may play a role in oxidizing sulphur. The presence of bio/organic compoundsmore » associated with Na-sulphate deposits, along with the necessity of oxidizing reduced sulphur to sulphate, suggests that biological activity may be involved in the formation of these secondary minerals. The secondary Na-sulphate minerals probably form from the overlying basalt through leached sodium ions and sulphate ions produced by bio-oxidation of Fe-sulphide minerals. Since the COM basalts are one of the most comparable terrestrial analogues for their Martian counterparts, the occurrence of biological activity in the formation of sulphate minerals at COM has direct implications for the search for life on Mars. In addition, the presence of caves on Mars suggests the importance of these environments as possible locations for growth and preservation of microbial activity. Therefore, understanding the physiochemical pathways of abiotic and biotic mineralization in the COM subsurface and similar basaltic settings has direct implications for the search for extinct or extant life on Mars.« less

Evidence for biological activity in mineralization of secondary sulphate deposits in a basaltic environment: implications for the search for life in the Martian subsurface

NASA Astrophysics Data System (ADS)

Richardson, C. Doc; Hinman, Nancy W.; Scott, Jill R.

2013-10-01

Evidence of microbial activity associated with mineralization of secondary Na-sulphate minerals (thenardite, mirabilite) in the basaltic subsurface of Craters of the Moon National Monument (COM), Idaho were examined by scanning electron microscopy, X-ray diffraction, laser desorption Fourier transform ion cyclotron resonance mass spectrometry (LD-FTICR-MS), Fourier transform infrared spectroscopy (FTIR) and isotope ratio mass spectrometry. Peaks suggestive of bio/organic compounds were observed in the secondary Na-sulphate deposits by LD-FTICR-MS. FTIR provided additional evidence for the presence of bio/organic compounds. Sulphur fractionation was explored to assist in determining if microbes may play a role in oxidizing sulphur. The presence of bio/organic compounds associated with Na-sulphate deposits, along with the necessity of oxidizing reduced sulphur to sulphate, suggests that biological activity may be involved in the formation of these secondary minerals. The secondary Na-sulphate minerals probably form from the overlying basalt through leached sodium ions and sulphate ions produced by bio-oxidation of Fe-sulphide minerals. Since the COM basalts are one of the most comparable terrestrial analogues for their Martian counterparts, the occurrence of biological activity in the formation of sulphate minerals at COM has direct implications for the search for life on Mars. In addition, the presence of caves on Mars suggests the importance of these environments as possible locations for growth and preservation of microbial activity. Therefore, understanding the physiochemical pathways of abiotic and biotic mineralization in the COM subsurface and similar basaltic settings has direct implications for the search for extinct or extant life on Mars.

On the Brink of Extinction: Conserving the Diversity of Life. Worldwatch Paper 78.

ERIC Educational Resources Information Center

Wolf, Edward C.

Concerns associated with biological diversity and the extinction of species are addressed in this report. Major topic areas examined include: (1) historical records of extinctions; (2) conservation biology and tropical ecology; (3) human-management regeneration potentials; (4) restoration ecology; (5) experimental restoration efforts; (6)…

Early-life inflammation with LPS delays fear extinction in adult rodents.

PubMed

Doenni, V M; Song, C M; Hill, M N; Pittman, Q J

2017-07-01

A large body of evidence has been brought forward connecting developmental immune activation to abnormal fear and anxiety levels. Anxiety disorders have extremely high lifetime prevalence, yet susceptibility factors that contribute to their emergence are poorly understood. In this research we investigated whether an inflammatory insult early in life can alter the response to fear conditioning in adulthood. Fear learning and extinction are important and adaptive behaviors, mediated largely by the amygdala and its interconnectivity with cortico-limbic circuits. Male and female rat pups were given LPS (100μg/kg i.p.) or saline at postnatal day 14; LPS activated cFos expression in the central amygdala 2.5h after exposure, but not the basal or lateral nuclei. When tested in adulthood, acquisition of an auditory cued or contextual learned fear memory was largely unaffected as was the extinction of fear to a conditioned context. However, we detected a deficit in auditory fear extinction in male and female rats that experienced early-life inflammation, such that there is a significant delay in fear extinction processes resulting in more sustained fear behaviors in response to a conditioned cue. This response was specific to extinction training and did not persist into extinction recall. The effect could not be explained by differences in pain threshold (unaltered) or in baseline anxiety, which was elevated in adolescent females only and unaltered in adolescent males and adult males and females. This research provides further evidence for the involvement of the immune system during development in the shaping of fear and anxiety related behaviors. Copyright © 2016 Elsevier Inc. All rights reserved.

Some Ecological Mechanisms to Generate Habitability in Planetary Subsurface Areas by Chemolithotrophic Communities: The Ro Tinto Subsurface Ecosystem as a Model System

NASA Astrophysics Data System (ADS)

Fernández-Remolar, David C.; Gómez, Felipe; Prieto-Ballesteros, Olga; Schelble, Rachel T.; Rodríguez, Nuria; Amiols, Ricardo

2008-02-01

Chemolithotrophic communities that colonize subsurface habitats have great relevance for the astrobiological exploration of our Solar System. We hypothesize that the chemical and thermal stabilization of an environment through microbial activity could make a given planetary region habitable. The MARTE project ground-truth drilling campaigns that sampled cryptic subsurface microbial communities in the basement of the Ro Tinto headwaters have shown that acidic surficial habitats are the result of the microbial oxidation of pyritic ores. The oxidation process is exothermic and releases heat under both aerobic and anaerobic conditions. These microbial communities can maintain the subsurface habitat temperature through storage heat if the subsurface temperature does not exceed their maximum growth temperature. In the acidic solutions of the Ro Tinto, ferric iron acts as an effective buffer for controlling water pH. Under anaerobic conditions, ferric iron is the oxidant used by microbes to decompose pyrite through the production of sulfate, ferrous iron, and protons. The integration between the physical and chemical processes mediated by microorganisms with those driven by the local geology and hydrology have led us to hypothesize that thermal and chemical regulation mechanisms exist in this environment and that these homeostatic mechanisms could play an essential role in creating habitable areas for other types of microorganisms. Therefore, searching for the physicochemical expression of extinct and extant homeostatic mechanisms through physical and chemical anomalies in the Mars crust (i.e., local thermal gradient or high concentration of unusual products such as ferric sulfates precipitated out from acidic solutions produced by hypothetical microbial communities) could be a first step in the search for biological traces of a putative extant or extinct Mars biosphere.

Some ecological mechanisms to generate habitability in planetary subsurface areas by chemolithotrophic communities: the Río Tinto subsurface ecosystem as a model system.

PubMed

Fernández-Remolar, David C; Gómez, Felipe; Prieto-Ballesteros, Olga; Schelble, Rachel T; Rodríguez, Nuria; Amils, Ricardo

2008-02-01

Chemolithotrophic communities that colonize subsurface habitats have great relevance for the astrobiological exploration of our Solar System. We hypothesize that the chemical and thermal stabilization of an environment through microbial activity could make a given planetary region habitable. The MARTE project ground-truth drilling campaigns that sampled cryptic subsurface microbial communities in the basement of the Río Tinto headwaters have shown that acidic surficial habitats are the result of the microbial oxidation of pyritic ores. The oxidation process is exothermic and releases heat under both aerobic and anaerobic conditions. These microbial communities can maintain the subsurface habitat temperature through storage heat if the subsurface temperature does not exceed their maximum growth temperature. In the acidic solutions of the Río Tinto, ferric iron acts as an effective buffer for controlling water pH. Under anaerobic conditions, ferric iron is the oxidant used by microbes to decompose pyrite through the production of sulfate, ferrous iron, and protons. The integration between the physical and chemical processes mediated by microorganisms with those driven by the local geology and hydrology have led us to hypothesize that thermal and chemical regulation mechanisms exist in this environment and that these homeostatic mechanisms could play an essential role in creating habitable areas for other types of microorganisms. Therefore, searching for the physicochemical expression of extinct and extant homeostatic mechanisms through physical and chemical anomalies in the Mars crust (i.e., local thermal gradient or high concentration of unusual products such as ferric sulfates precipitated out from acidic solutions produced by hypothetical microbial communities) could be a first step in the search for biological traces of a putative extant or extinct Mars biosphere.

Biological extinction in earth history

NASA Technical Reports Server (NTRS)

Raup, D. M.

1986-01-01

Virtually all plant and animal species that have ever lived on the earth are extinct. For this reason alone, extinction must play an important role in the evolution of life. The five largest mass extinctions of the past 600 million years are of greatest interest, but there is also a spectrum of smaller events, many of which indicate biological systems in profound stress. Extinction may be episodic at all scales, with relatively long periods of stability alternating with short-lived extinction events. Most extinction episodes are biologically selective, and further analysis of the victims and survivors offers the greatest chance of deducing the proximal causes of extinction. A drop in sea level and climatic change are most frequently invoked to explain mass extinctions, but new theories of collisions with extraterrestrial bodies are gaining favor. Extinction may be constructive in a Darwinian sense or it may only perturb the system by eliminating those organisms that happen to be susceptible to geologically rare stresses.

Biological Extinction in Earth History

NASA Astrophysics Data System (ADS)

Raup, David M.

1986-03-01

Virtually all plant and animal species that have ever lived on the earth are extinct. For this reason alone, extinction must play an important role in the evolution of life. The five largest mass extinctions of the past 600 million years are of greatest interest, but there is also a spectrum of smaller events, many of which indicate biological systems in profound stress. Extinction may be episodic at all scales, with relatively long periods of stability alternating with short-lived extinction events. Most extinction episodes are biologically selective, and further analysis of the victims and survivors offers the greatest chance of deducing the proximal causes of extinction. A drop in sea level and climatic change are most frequently invoked to explain mass extinctions, but new theories of collisions with extraterrestrial bodies are gaining favor. Extinction may be constructive in a Darwinian sense or it may only perturb the system by eliminating those organisms that happen to be susceptible to geologically rare stresses.

Endangered & Extinct Animals. Animal Life in Action[TM]. Schlessinger Science Library. [Videotape].

ERIC Educational Resources Information Center

2000

This 23-minute videotape for grades 5-8, presents the myriad of animal life that exists on the planet. Students can view and perform experiments and investigations that help explain animal traits and habits. Due to environmental factors and human interference, many of Earth's creatures have ceased to exist or are on the verge of extinction. In…

Amount of fear extinction changes its underlying mechanisms

PubMed Central

An, Bobae; Kim, Jihye; Park, Kyungjoon; Lee, Sukwon; Song, Sukwoon; Choi, Sukwoo

2017-01-01

There has been a longstanding debate on whether original fear memory is inhibited or erased after extinction. One possibility that reconciles this uncertainty is that the inhibition and erasure mechanisms are engaged in different phases (early or late) of extinction. In this study, using single-session extinction training and its repetition (multiple-session extinction training), we investigated the inhibition and erasure mechanisms in the prefrontal cortex and amygdala of rats, where neural circuits underlying extinction reside. The inhibition mechanism was prevalent with single-session extinction training but faded when single-session extinction training was repeated. In contrast, the erasure mechanism became prevalent when single-session extinction training was repeated. Moreover, ablating the intercalated neurons of amygdala, which are responsible for maintaining extinction-induced inhibition, was no longer effective in multiple-session extinction training. We propose that the inhibition mechanism operates primarily in the early phase of extinction training, and the erasure mechanism takes over after that. DOI: http://dx.doi.org/10.7554/eLife.25224.001 PMID:28671550

Functional gene polymorphisms in the serotonin system and traumatic life events modulate the neural basis of fear acquisition and extinction.

PubMed

Hermann, Andrea; Küpper, Yvonne; Schmitz, Anja; Walter, Bertram; Vaitl, Dieter; Hennig, Jürgen; Stark, Rudolf; Tabbert, Katharina

2012-01-01

Fear acquisition and extinction are crucial mechanisms in the etiology and maintenance of anxiety disorders. Moreover, they might play a pivotal role in conveying the influence of genetic and environmental factors on the development of a (more or less) stronger proneness for, or resilience against psychopathology. There are only few insights in the neurobiology of genetically and environmentally based individual differences in fear learning and extinction. In this functional magnetic resonance imaging study, 74 healthy subjects were investigated. These were invited according to 5-HTTLPR/rs25531 (S+ vs. L(A)L(A); triallelic classification) and TPH2 (G(-703)T) (T+ vs. T-) genotype. The aim was to investigate the influence of genetic factors and traumatic life events on skin conductance responses (SCRs) and neural responses (amygdala, insula, dorsal anterior cingulate cortex (dACC) and ventromedial prefrontal cortex (vmPFC)) during acquisition and extinction learning in a differential fear conditioning paradigm. Fear acquisition was characterized by stronger late conditioned and unconditioned responses in the right insula in 5-HTTLPR S-allele carriers. During extinction traumatic life events were associated with reduced amygdala activation in S-allele carriers vs. non-carriers. Beyond that, T-allele carriers of the TPH2 (G(-703)T) polymorphism with a higher number of traumatic life events showed enhanced responsiveness in the amygdala during acquisition and in the vmPFC during extinction learning compared with non-carriers. Finally, a combined effect of the two polymorphisms with higher responses in S- and T-allele carriers was found in the dACC during extinction. The results indicate an increased expression of conditioned, but also unconditioned fear responses in the insula in 5-HTTLPR S-allele carriers. A combined effect of the two polymorphisms on dACC activation during extinction might be associated with prolonged fear expression. Gene-by-environment interactions in amygdala and vmPFC activation may reflect a neural endophenotype translating genetic and adverse environmental influences into vulnerability for or resilience against developing affective psychopathology.

Early life programming of fear conditioning and extinction in adult male rats.

PubMed

Stevenson, Carl W; Spicer, Clare H; Mason, Rob; Marsden, Charles A

2009-12-28

The early rearing environment programs corticolimbic function and neuroendocrine stress reactivity in adulthood. Although early environmental programming of innate fear has been previously examined, its impact on fear learning and memory later in life remains poorly understood. Here we examined the role of the early rearing environment in programming fear conditioning and extinction in adult male rats. Pups were subjected to maternal separation (MS; 360 min), brief handling (H; 15 min), or animal facility rearing (AFR) on post-natal days 2-14. As adults, animals were tested in a 3-day fear learning and memory paradigm which assessed the acquisition, expression and extinction of fear conditioning to an auditory cue; the recall of extinction was also assessed. In addition, contextual fear was assessed prior to cued extinction and its recall. We found that the acquisition of fear conditioning to the cue was modestly impaired by MS. However, no early rearing group differences were observed in cue-induced fear expression. In contrast, both the rate of extinction and extinction recall were attenuated by H. Finally, although contextual fear was reduced after extinction to the cue, no differences in context-induced fear were observed between the early rearing groups. These results add to a growing body of evidence supporting an important role for early environmental programming of fear conditioning and extinction. They also indicate that different early rearing conditions can program varying effects on distinct fear learning and memory processes in adulthood.

Mass Extinctions and Supernova Explosions

NASA Astrophysics Data System (ADS)

Korschinek, Gunther

A nearby supernova (SN) explosion could have negatively influenced life on Earth, maybe even been responsible for mass extinctions. Mass extinction poses a significant extinction of numerous species on Earth, as recorded in the paleontologic, paleoclimatic, and geological record of our planet. Depending on the distance between the Sun and the SN, different types of threats have to be considered, such as ozone depletion on Earth, causing increased exposure to the Sun's ultraviolet radiation or the direct exposure of lethal X-rays. Another indirect effect is cloud formation, induced by cosmic rays in the atmosphere which result in a drop in the Earth's temperature, causing major glaciations of the Earth. The discovery of highly intensive gamma-ray bursts (GRBs), which could be connected to SNe, initiated further discussions on possible life-threatening events in the Earth's history. The probability that GRBs hit the Earth is very low. Nevertheless, a past interaction of Earth with GRBs and/or SNe cannot be excluded and might even have been responsible for past extinction events.

Individual differences in fear extinction and anxiety-like behavior.

PubMed

King, Gabrielle; Scott, Elliot; Graham, Bronwyn M; Richardson, Rick

2017-05-01

There is growing appreciation for the substantial individual differences in the acquisition and inhibition of aversive associations, and the insights this might give into identifying individuals particularly vulnerable to stress and psychopathology. We examined whether animals that differed in rate of extinction (i.e., Fast versus Slow) were different in their response to an acute stress in adulthood or following a chronic stress that occurred either early or later in life. We found that Slow Extinguishers had significantly poorer extinction retention than Fast Extinguishers, but an acute stressor did not differentially affect anxiety-like behavior in the two groups. Further, while exposure to chronic stress in adulthood did not impact on the extinction phenotypes or anxiety-like behavior, exposure to chronic stress early in life affected both extinction retention and anxiety-like behavior. These findings have implications for the development of a more nuanced approach to identifying those most at risk of anxiety disorders. © 2017 King et al.; Published by Cold Spring Harbor Laboratory Press.

Is IR going extinct?

PubMed

Mitchell, Audra

2017-03-01

A global extinction crisis may threaten the survival of most existing life forms. Influential discourses of 'existential risk' suggest that human extinction is a real possibility, while several decades of evidence from conservation biology suggests that the Earth may be entering a 'sixth mass extinction event'. These conditions threaten the possibilities of survival and security that are central to most branches of International Relations. However, this discipline lacks a framework for addressing (mass) extinction. From notions of 'nuclear winter' and 'omnicide' to contemporary discourses on catastrophe, International Relations thinking has treated extinction as a superlative of death. This is a profound category mistake: extinction needs to be understood not in the ontic terms of life and death, but rather in the ontological context of be(com)ing and negation. Drawing on the work of theorists of the 'inhuman' such as Quentin Meillassoux, Claire Colebrook, Ray Brassier, Jean-Francois Lyotard and Nigel Clark, this article provides a pathway for thinking beyond existing horizons of survival and imagines a profound transformation of International Relations. Specifically, it outlines a mode of cosmopolitics that responds to the element of the inhuman and the forces of extinction. Rather than capitulating to narratives of tragedy, this cosmopolitics would make it possible to think beyond the restrictions of existing norms of 'humanity' to embrace an ethics of gratitude and to welcome the possibility of new worlds, even in the face of finitude.

Is IR going extinct?

PubMed Central

Mitchell, Audra

2016-01-01

A global extinction crisis may threaten the survival of most existing life forms. Influential discourses of ‘existential risk’ suggest that human extinction is a real possibility, while several decades of evidence from conservation biology suggests that the Earth may be entering a ‘sixth mass extinction event’. These conditions threaten the possibilities of survival and security that are central to most branches of International Relations. However, this discipline lacks a framework for addressing (mass) extinction. From notions of ‘nuclear winter’ and ‘omnicide’ to contemporary discourses on catastrophe, International Relations thinking has treated extinction as a superlative of death. This is a profound category mistake: extinction needs to be understood not in the ontic terms of life and death, but rather in the ontological context of be(com)ing and negation. Drawing on the work of theorists of the ‘inhuman’ such as Quentin Meillassoux, Claire Colebrook, Ray Brassier, Jean-Francois Lyotard and Nigel Clark, this article provides a pathway for thinking beyond existing horizons of survival and imagines a profound transformation of International Relations. Specifically, it outlines a mode of cosmopolitics that responds to the element of the inhuman and the forces of extinction. Rather than capitulating to narratives of tragedy, this cosmopolitics would make it possible to think beyond the restrictions of existing norms of ‘humanity’ to embrace an ethics of gratitude and to welcome the possibility of new worlds, even in the face of finitude. PMID:29708126

The Sixth Great Mass Extinction

ERIC Educational Resources Information Center

Wagler, Ron

2012-01-01

Five past great mass extinctions have occurred during Earth's history. Humanity is currently in the midst of a sixth, human-induced great mass extinction of plant and animal life (e.g., Alroy 2008; Jackson 2008; Lewis 2006; McDaniel and Borton 2002; Rockstrom et al. 2009; Rohr et al. 2008; Steffen, Crutzen, and McNeill 2007; Thomas et al. 2004;…

Extinction events can accelerate evolution.

PubMed

Lehman, Joel; Miikkulainen, Risto

2015-01-01

Extinction events impact the trajectory of biological evolution significantly. They are often viewed as upheavals to the evolutionary process. In contrast, this paper supports the hypothesis that although they are unpredictably destructive, extinction events may in the long term accelerate evolution by increasing evolvability. In particular, if extinction events extinguish indiscriminately many ways of life, indirectly they may select for the ability to expand rapidly through vacated niches. Lineages with such an ability are more likely to persist through multiple extinctions. Lending computational support for this hypothesis, this paper shows how increased evolvability will result from simulated extinction events in two computational models of evolved behavior. The conclusion is that although they are destructive in the short term, extinction events may make evolution more prolific in the long term.

Megafaunal split ends: microscopical characterisation of hair structure and function in extinct woolly mammoth and woolly rhino

NASA Astrophysics Data System (ADS)

Tridico, Silvana R.; Rigby, Paul; Kirkbride, K. Paul; Haile, James; Bunce, Michael

2014-01-01

The large extinct megafaunal species of the Late Pleistocene, Mammuthus primigenius (woolly mammoth) and Coelodonta antiquitatis (woolly rhino) are renowned for their pelage. Despite this, very little research has been conducted on the form and function of hair from these iconic species. Using permafrost preserved hair samples from seven extinct megafaunal remains, this study presents an in-depth microscopical characterisation of preservation, taphonomy, microbial damage, pigmentation and morphological features of more than 420 hairs. The presence of unique structural features in hairs, from two extinct megafauna species, such as multiple medullae and unparallelled stiffness suggests evolution of traits that may have been critical for their survival in the harsh arctic environment. Lastly, despite popular depictions of red-haired and/or uniformly coloured mammoths, a closer examination of pigmentation reveals that mammoth coats may have exhibited a mottled/variegated appearance and that their 'true' colours were not the vivid red/orange colour often depicted in reconstructions. Insights gained from microscopical examination of hundreds of extinct megafauna hairs demonstrate the value of extracting as much morphological data as possible from ancient hairs prior to destructive sampling for molecular analyses.

Biomarkers: d13C and d15N Distribution Tightly Coupled to Nutrient Dynamics and Viral Lysing in a Microbial Mat From Death Valley, California

NASA Astrophysics Data System (ADS)

Hewson, I.; Archer, R.; Mahaffey, C.; Scott, J.; Tsapin, A.

2002-12-01

Extrapolations into ancient biomes make many assumptions and inferences regarding life modes and environmental habitat. While definition of a stromatolite as an extinct microbial biome by petrographic analysis is promising, Life interacts with is environment, actively manipulating energy flow across chemical disequilibria gradients, harvesting energy crucial for physiological maintenance and reproduction. Such structuring of communities in turn, leaves specific chemical/isotopic imprints related to physiological processes of prokaryotic communities specific to each oxidation/redox horizon. We examine stable isotopic d13C signals (d13C and d15N) as potential biomarkers reflecting bacterial physiology and microbial community nutrient-energy dynamics. While isotopes may reveal ancient chemical structuring of microbial mats, we also turn to invoking viral lysing of bacterial hosts in nutrient cycling within modern extreme environments as well as ancient stromatic structures of early Earth. Our records of d13C indicate extreme enrichment(-12%) for Corg in our extant mat due to CO2 limitation across a hypersaline diffusive barrier at the mat's surface. d15N is lowest at the mat's surface (indicating N2- fixation) where nitrogen- fixing cyanobacteria Microcoleus sp. are present . Viruses are extremely abundant in the microbial mat, exceeding bacterial abundances by a factor of ten. The ratio of viruses to bacteria was very high (VBR = 39 ñ 10) compared with abundances in marine sediments. Distribution of viruses closely follows distribution of bacteria, suggesting bacteria as primary hosts. The ratio of viruses to bacteria is inversely correlated to the concentration of organic C suggesting virus abundance is responsive to host substrate availability. High ratios of viruses to bacteria in mid-mat horizons (2.5 - 3.7 cm) above increasing levels of d13C in deeper horizons, coupled with a lack of increase in bacteria, suggests that viral lysis contributes to significant downward organic C (polysaccaride exudates) transport within the mat. Subsequent accumulation of d13C as well as heavier d15N in deeper sediment(denitrification)horizons elucidates tight nutrient coupling between evaporite substrate, nitrogen fixing primary producers and downcore zones of active denitrification and sulphate reduction. Discrepencies between d13C of ancient stromatolites (in line with C-3 photosynthetic pathways) and modern analogues (Badwater, CA) suggest a migration of microbial mats towards more extreme environments through time. A methodology for isotopically testing environmental and physiological responses in the geological record is presented here.

Getting the measure of extinction.

PubMed

Mace, G

1998-01-01

Like all species, plants, mammals, and birds have been subject to extinction as a fundamental part of evolution. Indeed, only about 2-4% of all the species that have ever lived during the 600 million years of the fossil record still survive today. Looking at the fossil record, it can be said that invertebrate species and mammals have had an average life span of 5-10 and 1-2 million years, respectively. More recent extinction records for birds and mammals lost over the last half of the century indicate that 1 out of 14,000 species becomes extinct each year, giving each species an average life span of 10,000 years--100 to 1000 times shorter than the lifetime of species in the fossil record. Drawing on the World's Conservation Union Red List of threatened animals (1996), species lifetimes of birds, mammals and reptiles are estimated at 300-500 years and 100-1000 years across broader groups. In general, these estimates show that extinction rates today are 1000 to 10,000 times higher than in the past, making current rates of species loss at least equivalent to the mass extinctions in the past. A major difference, however, is the fact that almost all extinctions that have transpired today are due to the impact of human activities.

The importance of habitat and life history to extinction risk in sharks, skates, rays and chimaeras

PubMed Central

García, Verónica B; Lucifora, Luis O; Myers, Ransom A

2007-01-01

We compared life-history traits and extinction risk of chondrichthyans (sharks, rays and chimaeras), a group of high conservation concern, from the three major marine habitats (continental shelves, open ocean and deep sea), controlling for phylogenetic correlation. Deep-water chondrichthyans had a higher age at maturity and longevity, and a lower growth completion rate than shallow-water species. The average fishing mortality needed to drive a deep-water chondrichthyan species to extinction (Fextinct) was 38–58% of that estimated for oceanic and continental shelf species, respectively. Mean values of Fextinct were 0.149, 0.250 and 0.368 for deep-water, oceanic and continental shelf species, respectively. Reproductive mode was an important determinant of extinction risk, while body size had a weak effect on extinction risk. As extinction risk was highly correlated with phylogeny, the loss of species will be accompanied by a loss of phylogenetic diversity. Conservation priority should not be restricted to large species, as is usually suggested, since many small species, like those inhabiting the deep ocean, are also highly vulnerable to extinction. Fishing mortality of deep-water chondrichthyans already exploited should be minimized, and new deep-water fisheries affecting chondrichthyans should be prevented. PMID:17956843

Extinction Risk and Diversification Are Linked in a Plant Biodiversity Hotspot

PubMed Central

Davies, T. Jonathan; Smith, Gideon F.; Bellstedt, Dirk U.; Boatwright, James S.; Bytebier, Benny; Cowling, Richard M.; Forest, Félix; Harmon, Luke J.; Muasya, A. Muthama; Schrire, Brian D.; Steenkamp, Yolande; van der Bank, Michelle; Savolainen, Vincent

2011-01-01

It is widely recognized that we are entering an extinction event on a scale approaching the mass extinctions seen in the fossil record. Present-day rates of extinction are estimated to be several orders of magnitude greater than background rates and are projected to increase further if current trends continue. In vertebrates, species traits, such as body size, fecundity, and geographic range, are important predictors of vulnerability. Although plants are the basis for life on Earth, our knowledge of plant extinctions and vulnerabilities is lagging. Here, we disentangle the underlying drivers of extinction risk in plants, focusing on the Cape of South Africa, a global biodiversity hotspot. By comparing Red List data for the British and South African floras, we demonstrate that the taxonomic distribution of extinction risk differs significantly between regions, inconsistent with a simple, trait-based model of extinction. Using a comprehensive phylogenetic tree for the Cape, we reveal a phylogenetic signal in the distribution of plant extinction risks but show that the most threatened species cluster within short branches at the tips of the phylogeny—opposite to trends in mammals. From analyzing the distribution of threatened species across 11 exemplar clades, we suggest that mode of speciation best explains the unusual phylogenetic structure of extinction risks in plants of the Cape. Our results demonstrate that explanations for elevated extinction risk in plants of the Cape flora differ dramatically from those recognized for vertebrates. In the Cape, extinction risk is higher for young and fast-evolving plant lineages and cannot be explained by correlations with simple biological traits. Critically, we find that the most vulnerable plant species are nonetheless marching towards extinction at a more rapid pace but, surprisingly, independently from anthropogenic effects. Our results have important implications for conservation priorities and cast doubts on the utility of current Red List criteria for plants in regions such as the Cape, where speciation has been rapid, if our aim is to maximize the preservation of the tree-of-life. PMID:21629678

Life History Correlates and Extinction Risk of Capital-Breeding Fishes

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

Jager, Yetta; Vila-Gispert, Dr Anna; Rose, Kenneth A.

2008-03-01

We consider a distinction for fishes, often made for birds and reptiles, between capital-breeding and income-breeding species. Species that follow a capital-breeding strategy tend to evolve longer intervals between reproductive events and tend to have characteristics that we associate with higher extinction risk. To examine whether these ideas are relevant for fishes, we assembled life-history data for fish species, including an index of extinction risk, the interval between spawning events, the degree of parental care, and whether or not the species migrates to spawn. These data were used to evaluate two hypotheses: 1) fish species with a major accessory activitymore » to spawning (migration or parental care) spawn less often and 2) fish species that spawn less often are at greater risk of extinction. We tested these hypotheses by applying two alternative statistical methods that account for phylogenetic correlation in cross-taxon comparisons. The two methods predicted average intervals between spawning events 0.13 to 0.20 years longer for fishes with a major accessory activity. Both accessories, above-average parental care and spawning migration, were individually associated with longer average spawning intervals. We conclude that the capital-breeding paradigm is relevant for fishes. We also confirmed the second hypothesis, that species in higher IUCN extinction risk categories had longer average spawning intervals. Further research is needed to understand the relationship between extinction risk and spawning interval, within the broader context of life history traits and aquatic habitats.« less

Surviving Mass Extinctions through Biomineralized DNA.

PubMed

Turon, Pau; Puiggalí, Jordi; Bertrán, Oscar; Alemán, Carlos

2015-12-21

Even in the worst of conditions, such as those which occurred during mass extinction events, life on Earth never totally stopped. Aggressive chemical and physical attacks able to sterilize or poison living organisms occurred repeatedly. Surprisingly, DNA was not degraded, denatured or modified to the point of losing the capability of transferring the genetic information to the next generations. After the events of mass extinction life was able to survive and thrive. DNA was passed on despite being an extremely fragile biomolecule. The potential implications of hydroxyapatite protection of DNA are discussed in this Concept article including how DNA acts as a template for hydroxyapatite (HAp) formation, how cell death can trigger biomineralization, and how DNA can be successfully released from HAp when the conditions are favorable for life. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Amygdala-ventral striatum circuit activation decreases long-term fear

PubMed Central

Correia, Susana S; McGrath, Anna G; Lee, Allison; Graybiel, Ann M; Goosens, Ki A

2016-01-01

In humans, activation of the ventral striatum, a region associated with reward processing, is associated with the extinction of fear, a goal in the treatment of fear-related disorders. This evidence suggests that extinction of aversive memories engages reward-related circuits, but a causal relationship between activity in a reward circuit and fear extinction has not been demonstrated. Here, we identify a basolateral amygdala (BLA)-ventral striatum (NAc) pathway that is activated by extinction training. Enhanced recruitment of this circuit during extinction learning, either by pairing reward with fear extinction training or by optogenetic stimulation of this circuit during fear extinction, reduces the return of fear that normally follows extinction training. Our findings thus identify a specific BLA-NAc reward circuit that can regulate the persistence of fear extinction and point toward a potential therapeutic target for disorders in which the return of fear following extinction therapy is an obstacle to treatment. DOI: http://dx.doi.org/10.7554/eLife.12669.001 PMID:27671733

Extinction Events Can Accelerate Evolution

PubMed Central

Lehman, Joel; Miikkulainen, Risto

2015-01-01

Extinction events impact the trajectory of biological evolution significantly. They are often viewed as upheavals to the evolutionary process. In contrast, this paper supports the hypothesis that although they are unpredictably destructive, extinction events may in the long term accelerate evolution by increasing evolvability. In particular, if extinction events extinguish indiscriminately many ways of life, indirectly they may select for the ability to expand rapidly through vacated niches. Lineages with such an ability are more likely to persist through multiple extinctions. Lending computational support for this hypothesis, this paper shows how increased evolvability will result from simulated extinction events in two computational models of evolved behavior. The conclusion is that although they are destructive in the short term, extinction events may make evolution more prolific in the long term. PMID:26266804

High sedimentation rates in the Early Triassic after latest Permian mass extinction: Carbonate production is main factor in non-Arctic regions

NASA Astrophysics Data System (ADS)

Horacek, Micha; Brandner, Rainer

2016-04-01

A substantial change in sedimentation rates towards higher values has been documented from the Late Permian to the Lower Triassic. Although it is assumed and also has been shown that the deposition of siliciclastic material increased in the Lower Triassic due to stronger erosion because of loss of land cover and increased chemical and physical weathering with extreme climate warming, the main sediment production occurred by marine carbonate production. Still, carbonate production might have been significantly influenced by weathering and erosion in the hinterland, as the transport of dust by storms into the ocean water probably was a main nutrient source for microbial carbonate producers, because "normal" nutrient supply by ocean circulation, i. e. upwelling was strongly reduced due to the elevated temperatures resulting in water-column stratification . Sediment accumulation was also clearly influenced by the paleo-geographic and latitudinal position, with lower carbonate production and sedimentation rates in moderate latitudes. The existence of a "boundary clay" and microbial carbonate mounds and layers in the immediate aftermath of the latest Permian mass extinction points towards a development from a short-timed acid ocean water - resulting in a carbonate production gap and the deposition of the boundary clay towards the deposition of the microbial mounds and layers due to the microbial production of micro-environments with higher alkalinity allowing the production of carbonate. After the return of the ocean water to normal alkalinity planktic production of carbonate resulted in a very high sedimentation rate, especially taking into account the absence of carbonate producing eukaryotic algae and animals.

Marine extinction risk shaped by trait-environment interactions over 500 million years.

PubMed

Orzechowski, Emily A; Lockwood, Rowan; Byrnes, Jarrett E K; Anderson, Sean C; Finnegan, Seth; Finkel, Zoe V; Harnik, Paul G; Lindberg, David R; Liow, Lee Hsiang; Lotze, Heike K; McClain, Craig R; McGuire, Jenny L; O'Dea, Aaron; Pandolfi, John M; Simpson, Carl; Tittensor, Derek P

2015-10-01

Perhaps the most pressing issue in predicting biotic responses to present and future global change is understanding how environmental factors shape the relationship between ecological traits and extinction risk. The fossil record provides millions of years of insight into how extinction selectivity (i.e., differential extinction risk) is shaped by interactions between ecological traits and environmental conditions. Numerous paleontological studies have examined trait-based extinction selectivity; however, the extent to which these patterns are shaped by environmental conditions is poorly understood due to a lack of quantitative synthesis across studies. We conducted a meta-analysis of published studies on fossil marine bivalves and gastropods that span 458 million years to uncover how global environmental and geochemical changes covary with trait-based extinction selectivity. We focused on geographic range size and life habit (i.e., infaunal vs. epifaunal), two of the most important and commonly examined predictors of extinction selectivity. We used geochemical proxies related to global climate, as well as indicators of ocean acidification, to infer average global environmental conditions. Life-habit selectivity is weakly dependent on environmental conditions, with infaunal species relatively buffered from extinction during warmer climate states. In contrast, the odds of taxa with broad geographic ranges surviving an extinction (>2500 km for genera, >500 km for species) are on average three times greater than narrow-ranging taxa (estimate of odds ratio: 2.8, 95% confidence interval = 2.3-3.5), regardless of the prevailing global environmental conditions. The environmental independence of geographic range size extinction selectivity emphasizes the critical role of geographic range size in setting conservation priorities. © 2015 John Wiley & Sons Ltd.

Life in the Aftermath of Mass Extinctions.

PubMed

Hull, Pincelli

2015-10-05

The vast majority of species that have ever lived went extinct sometime other than during one of the great mass extinction events. In spite of this, mass extinctions are thought to have outsized effects on the evolutionary history of life. While part of this effect is certainly due to the extinction itself, I here consider how the aftermaths of mass extinctions might contribute to the evolutionary importance of such events. Following the mass loss of taxa from the fossil record are prolonged intervals of ecological upheaval that create a selective regime unique to those times. The pacing and duration of ecosystem change during extinction aftermaths suggests strong ties between the biosphere and geosphere, and a previously undescribed macroevolutionary driver - earth system succession. Earth system succession occurs when global environmental or biotic change, as occurs across extinction boundaries, pushes the biosphere and geosphere out of equilibrium. As species and ecosystems re-evolve in the aftermath, they change global biogeochemical cycles - and in turn, species and ecosystems - over timescales typical of the geosphere, often many thousands to millions of years. Earth system succession provides a general explanation for the pattern and timing of ecological and evolutionary change in the fossil record. Importantly, it also suggests that a speed limit might exist for the pace of global biotic change after massive disturbance - a limit set by geosphere-biosphere interactions. For mass extinctions, earth system succession may drive the ever-changing ecological stage on which species evolve, restructuring ecosystems and setting long-term evolutionary trajectories as they do. Copyright © 2015 Elsevier Ltd. All rights reserved.

Temporal Patterns in Diversity Change on Earth Over Time

NASA Astrophysics Data System (ADS)

Bambach, Richard

2007-05-01

Multi-celled animals and plants did not originate until about 600 million years ago. Since then the diversity of life has expanded greatly, but this has not been a monotonic increase. Diversity, as taxonomic variety or richness, is produced by the interaction of origination and extinction. Origination and extinction are almost equally balanced; it has taken 600 million years to accumulate 10 to 30 million living species. With most species life spans in the range of one to fifteen million years most species that have ever originated are extinct and global diversity has “turned over” many times. Paleontologists recognize about 18 short-term events of elevated extinction intensity and diversity loss of sufficient magnitude to warrant the term “mass extinction.” Interestingly, in only one instance, the end-Cretaceous extinction, is there a consensus for the triggering event, but the kill mechanism or mechanisms that caused the widespread death of lineages is not established. We know less about the cause-effect relationships for other events. Recently a 62 million-year periodicity in the fluctuation of diversity has been documented, expressed primarily in the variation of diversity of marine genera that survived 45 million years or less. Analysis of the pattern of diversity change at the finest temporal scale possible suggests that the short-term mass extinctions are superimposed on this regular pattern of diversity fluctuations, rather than causal of them. However, most mass extinctions (14 of 18) occurred during the intervals of general diversity loss. It remains to be seen how origination and extinction interact to produce the periodic fluctuation in diversity.

IODP/ICDP Expedition 364-Drilling the Cretaceous-Paleogene Chicxulub impact crater: Insights into large craters formation and their effect on life.

NASA Astrophysics Data System (ADS)

Gulick, S. P. S.; Morgan, J. V.; Fucugauchi, J. U.; Bralower, T. J.; Chenot, É.; Christeson, G. L.; Claeys, P.; Cockell, C. S.; Collins, G. S.; Coolen, M.; Gebhardt, C.; Goto, K.; Kring, D. A.; Xiao, L.; Lowery, C.; Mellett, C.; Ocampo-Torres, R.; Osinski, G. R.; Perez-Cruz, L. L.; Pickersgill, A.; Poelchau, M.; Rae, A.; Rasmussen, C.; Rebolledo-Vieyra, M.; Riller, U. P.; Sato, H.; Schmitt, D. R.; Smit, J.; Tikoo, S.; Tomioka, N.; Whalen, M. T.; Zylberman, W.; Jones, H.; Gareth, C.; Wittmann, A.; Lofi, J.; Yamaguchi, K. E.; Ferrière, L.

2016-12-01

An international project to drill the Chicxulub impact crater was conducted in April and May, 2016 as Expedition 364 of the International Ocean Discovery Program (IODP) and International Continental Scientific Drilling Project (ICDP). Site M0077 is located offshore Yucatan in the southern Gulf of Mexico. The target was to core the only pristine terrestrial peak ring and to measure physical properties of the entire borehole. Specific questions included: What rocks comprise a topographic peak ring? How are peak rings formed? How are rocks weakened during large impacts to allow them to collapse and form relatively wide, flat craters? What insights arise from biologic recovery in the Paleogene within a potentially "toxic" ocean basin? Are impact craters (including peak rings) habitats for life? Coring occurred from 503 - 1334.7 mbsf with nearly 100% recovery. Wireline logs were collected from ultra slimline tools to total depth including gamma ray, magnetic susceptibility, sonic, borehole fluid temperature and conductivity, resistivity data, borehole images, and a finely spaced vertical seismic profile. Stratigraphy cored included 110 m of Eocene and Paleocene carbonates, 130 m of allochthonous impactites, and 590 m of crustal basement with dikes. All cores were measured using a shipboard core logger (density, gamma ray, magnetic susceptibility and resistivity) and shorebased dual energy, 0.3 mm resolution CT scanner. These data allow us to: 1) refine numerical models of the formation of the Chicxulub impact structure; 2) place constraints on environmental perturbations that led to the K-Pg mass extinction; 3) improve simulations of impact craters on other planetary bodies; 4) examine deformation mechanisms for insights into how rocks weaken during impacts; 5) study impact generated hydrothermal systems and 6) understand the effects of impacts on the deep biosphere including as a habitat for microbial life with implications for evolution on Earth and astrobiology. Key results are that the Chicxulub peak ring is formed from fractured basement rocks that may host a subsurface biosphere. The impactite layer overlying the peak ring in turn provides insight into resurge and tsunami processes, while the Paleogene sediments contain the record of the recovery of life after the mass extinction event.

Critical edge between frozen extinction and chaotic life

NASA Astrophysics Data System (ADS)

Monetti, Roberto A.; Albano, Ezequiel V.

1995-12-01

The cellular automata ``game of life'' (GL) proposed by J. Conway simulates the dynamic evolution of a society of living organisms. It has been extensively studied in order to understand the emergence of complexity and diversity from a set of local rules. More recently, the capability of GL to self-oranize into a critical state has opened an interesting debate. In this work we adopt a different approach: by introducing stochastic rules in the GL it is found that ``life'' exhibits a very rich critical behavior. Discontinuous (first-order) irreversible phase transitions (IPT's) between an extinct phase and a steady state supporting life are found. A precise location of the critical edge is achieved by means of an epidemic analysis, which also allows us to determine dynamic critical exponents. Furthermore, by means of a damage spreading study we conclude that the living phase is chaotic. The edge of the frozen-chaotic transition coincides with that of the IPT's life extinction. Close to the edge, fractal spreading of the damage is observed; however, deep inside the living phase such spreading becomes homogeneous. (c) 1995 The American Physical Society

Unravelling the structure of species extinction risk for predictive conservation science.

PubMed

Lee, Tien Ming; Jetz, Walter

2011-05-07

Extinction risk varies across species and space owing to the combined and interactive effects of ecology/life history and geography. For predictive conservation science to be effective, large datasets and integrative models that quantify the relative importance of potential factors and separate rapidly changing from relatively static threat drivers are urgently required. Here, we integrate and map in space the relative and joint effects of key correlates of The International Union for Conservation of Nature-assessed extinction risk for 8700 living birds. Extinction risk varies significantly with species' broad-scale environmental niche, geographical range size, and life-history and ecological traits such as body size, developmental mode, primary diet and foraging height. Even at this broad scale, simple quantifications of past human encroachment across species' ranges emerge as key in predicting extinction risk, supporting the use of land-cover change projections for estimating future threat in an integrative setting. A final joint model explains much of the interspecific variation in extinction risk and provides a remarkably strong prediction of its observed global geography. Our approach unravels the species-level structure underlying geographical gradients in extinction risk and offers a means of disentangling static from changing components of current and future threat. This reconciliation of intrinsic and extrinsic, and of past and future extinction risk factors may offer a critical step towards a more continuous, forward-looking assessment of species' threat status based on geographically explicit environmental change projections, potentially advancing global predictive conservation science.

Microbial shaping of sedimentary wrinkle structures

NASA Astrophysics Data System (ADS)

Mariotti, G.; Pruss, S. B.; Perron, J. T.; Bosak, T.

2014-10-01

Wrinkle structures on sandy bed surfaces were present in some of the earliest sedimentary environments, but are rare in modern environments. These enigmatic millimetre- to centimetre-scale ridges or pits are particularly common in sediments that harbour trace fossils and imprints of early animals, and appeared in the aftermath of some large mass extinctions. Wrinkle structures have been interpreted as possible remnants of microbial mats, but the formation mechanism and associated palaeoenvironmental and palaeoecological implications of these structures remain debated. Here we show that microbial aggregates can form wrinkle structures on a bed of bare sand in wave tank experiments. Waves with a small orbital amplitude at the bed surface do not move sand grains directly. However, they move millimetre-size, light microbial fragments and thereby produce linear sand ridges and rounded scour pits at the wavelengths observed in nature within hours. We conclude that wrinkle structures are morphological biosignatures that form at the sediment-water interface in wave-dominated environments, and not beneath microbial mats as previously thought. During early animal evolution, grazing by eukaryotic organisms may have temporarily increased the abundance of microbial fragments and thus the production of wrinkle structures.

Life history and spatial traits predict extinction risk due to climate change

NASA Astrophysics Data System (ADS)

Pearson, Richard G.; Stanton, Jessica C.; Shoemaker, Kevin T.; Aiello-Lammens, Matthew E.; Ersts, Peter J.; Horning, Ned; Fordham, Damien A.; Raxworthy, Christopher J.; Ryu, Hae Yeong; McNees, Jason; Akçakaya, H. Reşit

2014-03-01

There is an urgent need to develop effective vulnerability assessments for evaluating the conservation status of species in a changing climate. Several new assessment approaches have been proposed for evaluating the vulnerability of species to climate change based on the expectation that established assessments such as the IUCN Red List need revising or superseding in light of the threat that climate change brings. However, although previous studies have identified ecological and life history attributes that characterize declining species or those listed as threatened, no study so far has undertaken a quantitative analysis of the attributes that cause species to be at high risk of extinction specifically due to climate change. We developed a simulation approach based on generic life history types to show here that extinction risk due to climate change can be predicted using a mixture of spatial and demographic variables that can be measured in the present day without the need for complex forecasting models. Most of the variables we found to be important for predicting extinction risk, including occupied area and population size, are already used in species conservation assessments, indicating that present systems may be better able to identify species vulnerable to climate change than previously thought. Therefore, although climate change brings many new conservation challenges, we find that it may not be fundamentally different from other threats in terms of assessing extinction risks.

The seasonal effect in one-dimensional Daisyworld.

PubMed

Biton, Eli; Gildor, Hezi

2012-12-07

We have studied the effects of seasonal Solar Radiation Forcing (SRF) on the climate self-regulatory capability of life, using a latitudinal-dependent Daisyworld model. Because the seasonal polarity of SRF increases poleward, habitable conditions exist in the equatorial regions year round, whereas, in the high latitudes, harsh winters cause annual extinction of life, and only the summers are inhabited or regulated by life. Seasonality affects climate regulation by two major mechanisms: (1) the cold winter conditions in the high latitudes reduce the global temperature below the optimal temperature; (2) during summer, life experiences higher SRF anomalies and, therefore, shifts to higher albedo when compared to annual mean SRF. In turn, a full capacity for temperature regulation is reached at lower SRF, and the range of SRF over which life regulates climate is significantly reduced. Lastly, initiation/extinction of life at low/highly-perturbed SRF occurs at the poles. Therefore, an irreversible global extinction occurs once life passes its regulatory capacity in the poles. We conduct extensive sensitivity analyses on various model parameters (latitudinal heat diffusion, heat capacity, and population death rate), strengthening the generality/robustness of the above net seasonal effects. Applications to other SRF fluctuation, as Milankovitch cycles are discussed. Copyright © 2012 Elsevier Ltd. All rights reserved.

Timing of global regression and microbial bloom linked with the Permian-Triassic boundary mass extinction: implications for driving mechanisms

NASA Astrophysics Data System (ADS)

Baresel, Bjoern; Bucher, Hugo; Bagherpour, Borhan; Brosse, Morgane; Guodun, Kuang; Schaltegger, Urs

2017-04-01

High-precision U-Pb dating of single-zircon crystals by chemical abrasion-isotope dilution-thermal ionization mass spectrometry (CA-ID-TIMS) is applied to volcanic beds that are intercalated in sedimentary sequences across the Permian-Triassic boundary (PTB). By assuming that the zircon crystallization age closely approximate that of the volcanic eruption and subsequent deposition, U-Pb zircon geochronology is the preferred approach for dating abiotic and biotic events, such as the formational PTB and the Permian-Triassic boundary mass extinction (PTBME). We will present new U-Pb zircon dates for a series of volcanic ash beds in shallow-marine Permian-Triassic sections in the Nanpanjiang Basin, South China. These high-resolution U-Pb dates indicate a duration of 90 ± 38 kyr for the Permian sedimentary hiatus and a duration of 13 ± 57 kyr for the overlying Triassic microbial limestone in the shallow water settings of the Nanpanjiang pull apart Basin. The age and duration of the hiatus coincides with the formational PTB and the extinction interval in the Meishan Global Stratotype Section and Point, thus strongly supporting a glacio-eustatic regression, which best explains the genesis of the worldwide hiatus straddling the PTB in shallow water records. In adjacent deep marine troughs, rates of sediment accumulation display a six-fold decrease across the PTB compatible with a dryer and cooler climate during the Griesbachian as indicated by terrestrial plants. Our model of the PTBME hinges on the synchronicity of the hiatus with the onset of the Siberian Traps volcanism. This early eruptive phase likely released sulfur-rich volatiles into the stratosphere, thus simultaneously eliciting a short-lived ice age responsible for the global regression and a brief but intense acidification. Abrupt cooling, shrunk habitats on shelves and acidification may all have synergistically triggered the PTBME. Subsequently, the build-up of volcanic CO2 induced this transient cool climate whose early phase saw the deposition of the microbial limestone.

Variation in crown light utilization characteristics among tropical canopy trees.

PubMed

Kitajima, Kaoru; Mulkey, Stephen S; Wright, S Joseph

2005-02-01

Light extinction through crowns of canopy trees determines light availability at lower levels within forests. The goal of this paper is the exploration of foliage distribution and light extinction in crowns of five canopy tree species in relation to their shoot architecture, leaf traits (mean leaf angle, life span, photosynthetic characteristics) and successional status (from pioneers to persistent). Light extinction was examined at three hierarchical levels of foliage organization, the whole crown, the outermost canopy and the individual shoots, in a tropical moist forest with direct canopy access with a tower crane. Photon flux density and cumulative leaf area index (LAI) were measured at intervals of 0.25-1 m along multiple vertical transects through three to five mature tree crowns of each species to estimate light extinction coefficients (K). Cecropia longipes, a pioneer species with the shortest leaf life span, had crown LAI <0.5. Among the remaining four species, crown LAI ranged from 2 to 8, and species with orthotropic terminal shoots exhibited lower light extinction coefficients (0.35) than those with plagiotropic shoots (0.53-0.80). Within each type, later successional species exhibited greater maximum LAI and total light extinction. A dense layer of leaves at the outermost crown of a late successional species resulted in an average light extinction of 61% within 0.5 m from the surface. In late successional species, leaf position within individual shoots does not predict the light availability at the individual leaf surface, which may explain their slow decline of photosynthetic capacity with leaf age and weak differentiation of sun and shade leaves. Later-successional tree crowns, especially those with orthotropic branches, exhibit lower light extinction coefficients, but greater total LAI and total light extinction, which contribute to their efficient use of light and competitive dominance.

A sudden end-Permian mass extinction (Invited)

NASA Astrophysics Data System (ADS)

Shen, S.

2013-12-01

The end-Permian mass extinction is the largest of the Phanerozoic. In the immediate aftermath the marine ecosystem was dominated by microbial and communities with disaster taxa. Plausible kill mechanism includes an extremely rapid, explosive release of gases such as carbon dioxide, methane and hydrogen sulfide. Siberian flood volcanism has been suggested as the most possible mechanism to trigger the massive release of greenhouse gases from volcanic eruptions and interaction of magmas with carbon from thick organic-rich deposits or rapid venting of coal-derived methane or massive combustion of coal. A sharp δ13C isotopic excursion, rapid disappearance of carbonate benthic communities and δ18O data from conodont apatite suggest rapid global warming. The end-Permian mass extinction occurred in less than 200,000 years. This extinction interval is constrained by two ash beds (Beds 25 and 28) at the Meishan section. However, the extinction patterns remain controversial largely due to the condensed nature of the Meishan sections. Geochemical signals and their interpretations are also contentious. Thus, the level of achievable stratigraphic resolution becomes crucial to determine the nature of the event and a detailed study of the extinction interval is essential to unravel the extinction pattern, chemostratigraphy, and the causes. However, the extinction interval at Meishan is only 26 cm thick and contains distinct gaps at the Permian-Triassic boundary (PTB) and possibly the base of Bed 25. Thus, it is impossible to resolve a detailed extinction pattern. Studying expanded sections is crucial to understand the detailed events before, during and after the main extinction. In this report, we show a highly-expanded Permian-Triassic boundary section in Guangxi Province, South China. The last 4.5 m between beds 22 and 28 of the Meishan sections is represented by a sequence of ~560 m at the section and the extinction interval between beds 24e and 28 at Meishan is represented by an interval about ~95 m which contains abundant benthic fossils. This expanded section reveals a very sudden extinction in a transgressive sequence that is inferred to have occurred within a few thousands of years.

Extinctions in ancient and modern seas.

PubMed

Harnik, Paul G; Lotze, Heike K; Anderson, Sean C; Finkel, Zoe V; Finnegan, Seth; Lindberg, David R; Liow, Lee Hsiang; Lockwood, Rowan; McClain, Craig R; McGuire, Jenny L; O'Dea, Aaron; Pandolfi, John M; Simpson, Carl; Tittensor, Derek P

2012-11-01

In the coming century, life in the ocean will be confronted with a suite of environmental conditions that have no analog in human history. Thus, there is an urgent need to determine which marine species will adapt and which will go extinct. Here, we review the growing literature on marine extinctions and extinction risk in the fossil, historical, and modern records to compare the patterns, drivers, and biological correlates of marine extinctions at different times in the past. Characterized by markedly different environmental states, some past periods share common features with predicted future scenarios. We highlight how the different records can be integrated to better understand and predict the impact of current and projected future environmental changes on extinction risk in the ocean. Copyright © 2012 Elsevier Ltd. All rights reserved.

Managing Amphibian Disease with Skin Microbiota.

PubMed

Woodhams, Douglas C; Bletz, Molly; Kueneman, Jordan; McKenzie, Valerie

2016-01-16

The contribution of emerging amphibian diseases to the sixth mass extinction is driving innovative wildlife management strategies, including the use of probiotics. Bioaugmentation of the skin mucosome, a dynamic environment including host and microbial components, may not provide a generalized solution. Multi-omics technologies and ecological context underlie effective implementation. Copyright © 2015 Elsevier Ltd. All rights reserved.

Managing Amphibian Disease with Skin Microbiota.

PubMed

Woodhams, Douglas C; Bletz, Molly; Kueneman, Jordan; McKenzie, Valerie

2016-03-01

The contribution of emerging amphibian diseases to the sixth mass extinction is driving innovative wildlife management strategies, including the use of probiotics. Bioaugmentation of the skin mucosome, a dynamic environment including host and microbial components, may not provide a generalized solution. Multi-omics technologies and ecological context underlie effective implementation. Copyright © 2015 Elsevier Ltd. All rights reserved.

Life history trade-off moderates model predictions of diversity loss from climate change.

PubMed

Moor, Helen

2017-01-01

Climate change can trigger species range shifts, local extinctions and changes in diversity. Species interactions and dispersal capacity are important mediators of community responses to climate change. The interaction between multispecies competition and variation in dispersal capacity has recently been shown to exacerbate the effects of climate change on diversity and to increase predictions of extinction risk dramatically. Dispersal capacity, however, is part of a species' overall ecological strategy and are likely to trade off with other aspects of its life history that influence population growth and persistence. In plants, a well-known example is the trade-off between seed mass and seed number. The presence of such a trade-off might buffer the diversity loss predicted by models with random but neutral (i.e. not impacting fitness otherwise) differences in dispersal capacity. Using a trait-based metacommunity model along a warming climatic gradient the effect of three different dispersal scenarios on model predictions of diversity change were compared. Adding random variation in species dispersal capacity caused extinctions by the introduction of strong fitness differences due an inherent property of the dispersal kernel. Simulations including a fitness-equalising trade-off based on empirical relationships between seed mass (here affecting dispersal distance, establishment probability, and seedling biomass) and seed number (fecundity) maintained higher initial species diversity and predicted lower extinction risk and diversity loss during climate change than simulations with variable dispersal capacity. Large seeded species persisted during climate change, but developed lags behind their climate niche that may cause extinction debts. Small seeded species were more extinction-prone during climate change but tracked their niches through dispersal and colonisation, despite competitive resistance from residents. Life history trade-offs involved in coexistence mechanisms may increase community resilience to future climate change and are useful guides for model development.

Microbial Populations in Extreme Environments: Investigations and Characterizations of the Microbiology and Geochemistry of Galapagos Island Fumaroles

NASA Astrophysics Data System (ADS)

Mayhew, L. E.; Childers, S. E.; Geist, D.

2005-12-01

The extreme physiochemical conditions, insularity, and wide range in ages of fumaroles of the Galapagos Islands provide an excellent opportunity to explore for novel microorganisms and to study life in extreme environments. This is the first study that measures microbial diversity of Galapagos fumaroles. Forty-seven samples were collected from six distinct fumarole fields on Sierra Negra and Alcedo volcanoes. Vulcan Chico, on Sierra Negra, was activated during the last eruption in 1979. Two of the other fumarole fields on Sierra Negra are associated with a long-lived fault system on the caldera floor and are therefore likely to be significantly older. The fault-associated fumaroles have widespread alteration haloes (up to 100 m in diameter) and thick deposits of native sulfur. The most vigorous of the fumarole fields on Alcedo activated in late 1993 to early 1994. The second fumarole field on Alcedo is associated with a recently extinct geyser and the third is located on a rhyolite vent. A diversity of colors was observed in the substrates at all of the fumarole fields and some may be the result of microbial activity. Collection sites were chosen on the basis of temperature and the variations in the substrate in order to obtain samples from a variety of environments. Temperatures at sample sites range from 25.0 to 178.5° C, and pH from 0 to 6. The material collected varies between sites and includes crystalline sulfur deposits, clay, sandy and rocky soils, and microbial mats. Substrate material is characterized by powder x-ray diffractometry and scanning electron microscopy and gases collected from five of the fumarole fields are being analyzed to test for chemical controls on the microbial populations. Genomic DNA is being extracted from all of the samples. Primers for Bacteria and Archaea are used for PCR amplification of the 16S rRNA gene. To date, 22 of 37 processed samples have amplifiable DNA. Microbial diversity of samples possessing amplifiable DNA is being assessed by denaturing gradient gel electrophoresis (DGGE). These results may reveal the presence of novel organisms and will provide insights into how vent age, insularity, temperature, pH, and geochemistry influence the microbial populations in extreme environments in the Galapagos Islands.

Perspective: researching the transition from non-living to the first microorganisms: methods and experiments are major challenges.

PubMed

Trevors, J T

2010-06-01

Methods to research the origin of microbial life are limited. However, microorganisms were the first organisms on the Earth capable of cell growth and division, and interactions with their environment, other microbial cells, and eventually with diverse eukaryotic organisms. The origin of microbial life and the supporting scientific evidence are both an enigma and a scientific priority. Numerous hypotheses have been proposed, scenarios imagined, speculations presented in papers, insights shared, and assumptions made without supporting experimentation, which have led to limited progress in understanding the origin of microbial life. The use of the human imagination to envision the origin of life events, without supporting experimentation, observation and independently replicated experiments required for science, is a significant constraint. The challenge remains how to better understand the origin of microbial life using observations and experimental methods as opposed to speculation, assumptions, scenarios, envisioning events and un-testable hypotheses. This is not an easy challenge as experimental design and plausible hypothesis testing are difficult. Since past approaches have been inconclusive in providing evidence for the origin of microbial life mechanisms and the manner in which genetic instructions was encoded into DNA/RNA, it is reasonable and logical to propose that progress will be made when testable, plausible hypotheses and methods are used in the origin of microbial life research, and the experimental observations are, or are not reproduced in independent laboratories. These perspectives will be discussed in this article as well as the possibility that a pre-biotic film preceded a microbial biofilm as a possible micro-location for the origin of microbial cells capable of growth and division. 2010 Elsevier B.V. All rights reserved.

Palaeobiology: Born and Gone in Global Warming.

PubMed

Motani, Ryosuke

2016-06-06

Why ichthyosaurs - marine Mesozoic reptiles - disappeared before the dinosaur extinction has remained a mystery. New research suggests they may have gone extinct stepwise, during one of the most extreme greenhouse periods in the history of complex life-forms. Copyright © 2016 Elsevier Ltd. All rights reserved.

Diversity and survivability of microbial community in ancient permafrost sediment of northeast Siberia

NASA Astrophysics Data System (ADS)

Liang, R.; Lau, M.; Vishnivetskaya, T. A.; Lloyd, K. G.; Pfiffner, S. M.; Rivkina, E.; Onstott, T. C.

2017-12-01

The prevalence of microorganisms in frozen permafrost has been well documented in ancient sediment up to several million years old. However, the long term survivability and metabolic activity of microbes over geological timespans remain underexplored. Siberian permafrost sediment was collected at various depths (1.4m, 11.8 m and 24.8m) to represent a wide range of geological time from thousands to millions of years. Extracellular (eDNA) and intracellular DNA (iDNA) was simultaneously recovered for sequencing to characterize the potentially extinct and extant microbial community. Additionally, aspartic acid racemization assay (D/L Asp) was used to infer the metabolic activity of microbes in ancient permafrost. As compared with the young sample (1.4m), DNA yield and content of aspartic acid dramatically decreased in old samples (11.8m and 24.8m). However, D/L Asp and eDNA/iDNA significantly increased with the geological age. Such findings suggested that ancient microbiomes might be subjected to racemization or even DNA/proteins degradation at subzero temperature over the wide geological time scale. Preliminary characterization of microbial community indicated that the majority of sequences in old samples were identified as bacteria and only a small fraction was identified as archaea from the iDNA pool. While the eDNA and iDNA fractions shared similar dominant taxa at phylum level, the relative abundance of Proteobacteria in eDNA library was much higher than iDNA. By contrast, the phylum affiliated with Firmicutes was more numerically abundant in the iDNA fraction. More dramatic differences were observed between eDNA and iDNA library at lower taxonomic levels. Particularly, the microbial lineages affiliated with the genera Methanoregula, Desulfosporosinus and Syntrophomonas were only detected in the iDNA library. Such taxonomic difference between the relic eDNA and iDNA suggested that numerous species become locally "extinct" whereas many other taxa might survive in ancient sediment. Ultimately, when coupling our current findings to the D/L Asp in cellular proteins and metaproteomics, a better understanding will be achieved about the microbial activity of the extant microbial community and their roles in biogeochemical cycling in ancient permafrost.

Bio-markers and the search for extinct life on Mars

NASA Technical Reports Server (NTRS)

Schwartz, D. E.; Mancinelli, R. L.

1989-01-01

In order to predict what biomarkers could be used on Mars, several biomarkers, or key signatures, of extinct life on earth are identified. Some of these biomarkers which may be applicable to Mars include reduced carbon and nitrogen compounds, CO3(2-), SO4(2-), NO3(-), Mg, Mn, Fe, and the isotopic ratios of C, N, and S. It is suggested that a fully equipped Mars rover might be able to perform analyses to measure most of these biomarkers while on the Martian surface.

Chronology of magmatic and biological events during mass extinctions

NASA Astrophysics Data System (ADS)

Schaltegger, U.; Davies, J.; Baresel, B.; Bucher, H.

2016-12-01

For mass extinctions, high-precision geochronology is key to understanding: 1) the age and duration of mass extinction intervals, derived from palaeo-biodiversity or chemical proxies in marine sections, and 2) the age and duration of the magmatism responsible for injecting volatiles into the atmosphere. Using high-precision geochronology, here we investigate the sequence of events linked to the Triassic-Jurassic boundary (TJB) and the Permian-Triassic boundary (PTB) mass extinctions. At the TJB, the model of Guex et al. (2016) invokes degassing of early magmas produced by thermal erosion of cratonic lithosphere as a trigger of climate disturbance in the late Rhaetian. We provide geochronological evidence that such early intrusives from the CAMP (Central Atlantic Magmatic Province), predate the end-Triassic extinction event (Blackburn et al. 2013) by 100 kyr (Davies et al., subm.). We propose that these early intrusions and associated explosive volcanism (currently unidentified) initiate the extinction, followed by the younger basalt eruptions of the CAMP. We also provide accurate and precise calibration of the PTB in marine sections in S. China: The PTB and the extinction event coincide within 30 kyr in deep water settings; a hiatus followed by microbial limestone deposition in shallow water settings is of <100 kyr duration. The PTB extinction interval is preceded by up to 300 kyr by the onset of partly alkaline explosive, extrusive and intrusive rocks, which are suggested as the trigger of the mass extinction, rather than the subsequent basalt flows of the Siberian Traps (Burgess and Bowring 2015). From temporal constraints, the main inferences that can be made are: The duration of extinction events is in the x10 kyr range during the initial intrusive activity of a Large Igneous Province, and is postdated by the majority of basalt flows over several 100 kyr. For modeling climate change associated with mass extinctions, volatiles released from the basalt flows may thus not be relevant. Initial igneous activity must be explosive for producing sufficient volumes of volatiles over a sufficiently long time that could generate climatic change. Baresel et al., submitted; Blackburn et al. 2013, Science; Burgess and Bowring 2015, Sci Advances; Davies et al., submitted; Guex et al., 2016, Sci. Rep.

Arsenophilic Bacterial Processes in Searles Lake: A Salt-saturated, Arsenic-rich, Alkaline Soda Lake.

NASA Astrophysics Data System (ADS)

Oremland, R. S.; Kulp, T. R.; Hoeft, S. E.; Miller, L. G.; Swizer Blum, J.; Stolz, J. F.

2005-12-01

Searles Lake, located in the Mojave Desert of California, is essentially a chemically-similar, concentrated version of Mono Lake, but having a much higher salinity (e.g., 340 vs. 90 g/L) and a greater dissolved inorganic arsenic content in its brine (e.g., 3.9 vs. 0.2 mM). The source of all this arsenic ultimately comes from hydrothermal spring inputs, thereby underscoring the importance of volcanic and fluvial processes in transporting this toxic element into these closed basin lakes. Nonetheless, the presence of microbial activities with regard to respiration of arsenate oxyanions under anaerobic conditions and the oxidation of arsenite oxyanions under aerobic conditions can be inferred from porewater profiles taken from handcores retrieved beneath Searles Lake's salt crust. Sediment slurry incubations confirmed biological arsenate respiration and arsenite oxidation, with the former processes notably enhanced by provision of the inorganic electron donor sulfide or H2. Hence, arsenic-linked chemo-autotrophy appears to be an important means of carbon fixation in this system. Subsequent efforts using 73As-arsenate as radiotracer detected dissimilatory arsenate reduction activity down the length of the core, but we were unable to detect any evidence for sulfate-reduction using 35S-sulfate. An extremely halophilic anaerobic bacterium of the order Haloanaerobiales [strain SLAS-1] was isolated from the sediments that grew via arsenate respiration using lactate or sulfide as its electron donors. These results show that, unlike sulfate-reduction, arsenic metabolism (i.e., both oxidation of arsenite and dissimilatory reduction of arsenate) is operative and even vigorous under the extreme conditions of salt-saturation and high pH. The occurrence of arsenophilic microbial processes in Searles Lake is relevant to the search for extant or extinct microbial life on Mars. It is evident from surface imagery that Mars had past episodes of volcanism, fluvial transport, and most likely brine concentration reactions (e.g., evapo- and cryo-concentration) occurring in its early Noachian/Hesperian epochs. We speculate that these processes may have created arsenic-rich, dense brines on the Martian surface or even within its underlying regolith. Whether such brines persisted long enough for prokaryotic life to evolve in them, and if so, was such life capable of adapting to and exploiting arsenic redox reactions for the purpose of generating metabolic energy remain tantalizing, but still hypothetical questions.

Extinction debt from climate change for frogs in the wet tropics

PubMed Central

Brook, Barry W.; Hoskin, Conrad J.; Pressey, Robert L.; VanDerWal, Jeremy; Williams, Stephen E.

2016-01-01

The effect of twenty-first-century climate change on biodiversity is commonly forecast based on modelled shifts in species ranges, linked to habitat suitability. These projections have been coupled with species–area relationships (SAR) to infer extinction rates indirectly as a result of the loss of climatically suitable areas and associated habitat. This approach does not model population dynamics explicitly, and so accepts that extinctions might occur after substantial (but unknown) delays—an extinction debt. Here we explicitly couple bioclimatic envelope models of climate and habitat suitability with generic life-history models for 24 species of frogs found in the Australian Wet Tropics (AWT). We show that (i) as many as four species of frogs face imminent extinction by 2080, due primarily to climate change; (ii) three frogs face delayed extinctions; and (iii) this extinction debt will take at least a century to be realized in full. Furthermore, we find congruence between forecast rates of extinction using SARs, and demographic models with an extinction lag of 120 years. We conclude that SAR approaches can provide useful advice to conservation on climate change impacts, provided there is a good understanding of the time lags over which delayed extinctions are likely to occur. PMID:27729484

Biosignatures in chimney structures and sediment from the Loki's Castle low-temperature hydrothermal vent field at the Arctic Mid-Ocean Ridge.

PubMed

Jaeschke, Andrea; Eickmann, Benjamin; Lang, Susan Q; Bernasconi, Stefano M; Strauss, Harald; Früh-Green, Gretchen L

2014-05-01

We investigated microbial life preserved in a hydrothermally inactive silica–barite chimney in comparison with an active barite chimney and sediment from the Loki's Castle low-temperature venting area at the Arctic Mid-Ocean Ridge (AMOR) using lipid biomarkers. Carbon and sulfur isotopes were used to constrain possible metabolic pathways. Multiple sulfur (dδ34S, Δ33S) isotopes on barite over a cross section of the extinct chimney range between 21.1 and 22.5 % in δ34S, and between 0.020 and 0.034 % in Δ33S, indicating direct precipitation from seawater. Biomarker distributions within two discrete zones of this silica–barite chimney indicate a considerable difference in abundance and diversity of microorganisms from the chimney exterior to the interior. Lipids in the active and inactive chimney barite and sediment were dominated by a range of 13C-depleted unsaturated and branched fatty acids with δ13C values between -39.7 and -26.7 %, indicating the presence of sulfur-oxidizing and sulfate-reducing bacteria. The majority of lipids (99.5 %) in the extinct chimney interior that experienced high temperatures were of archaeal origin. Unusual glycerol monoalkyl glycerol tetraethers (GMGT) with 0–4 rings were the dominant compounds suggesting the presence of mainly (hyper-) thermophilic archaea. Isoprenoid hydrocarbons with δ13C values as low as -46 % also indicated the presence of methanogens and possibly methanotrophs.

Physical Properties of Near-Earth Objects: Optical and Infrared Astronomical Observations

DTIC Science & Technology

2003-04-30

caused the extinction of over 75% of the Earth’s living organisms, including the dinosaurs (e.g., Grieve & Shoemaker 1994). Many mammals then were...bluer wavelengths. This is the same reason why the sky appears blue during the day. 25 Spacewatch also utilized an extinction curve, but for an...Ironically, these objects that may have provided much of the materials needed for life on Earth may also upon occasion have caused the extinction of

The composition of the gut microbiota throughout life, with an emphasis on early life

PubMed Central

Rodríguez, Juan Miguel; Murphy, Kiera; Stanton, Catherine; Ross, R. Paul; Kober, Olivia I.; Juge, Nathalie; Avershina, Ekaterina; Rudi, Knut; Narbad, Arjan; Jenmalm, Maria C.; Marchesi, Julian R.; Collado, Maria Carmen

2015-01-01

The intestinal microbiota has become a relevant aspect of human health. Microbial colonization runs in parallel with immune system maturation and plays a role in intestinal physiology and regulation. Increasing evidence on early microbial contact suggest that human intestinal microbiota is seeded before birth. Maternal microbiota forms the first microbial inoculum, and from birth, the microbial diversity increases and converges toward an adult-like microbiota by the end of the first 3–5 years of life. Perinatal factors such as mode of delivery, diet, genetics, and intestinal mucin glycosylation all contribute to influence microbial colonization. Once established, the composition of the gut microbiota is relatively stable throughout adult life, but can be altered as a result of bacterial infections, antibiotic treatment, lifestyle, surgical, and a long-term change in diet. Shifts in this complex microbial system have been reported to increase the risk of disease. Therefore, an adequate establishment of microbiota and its maintenance throughout life would reduce the risk of disease in early and late life. This review discusses recent studies on the early colonization and factors influencing this process which impact on health. PMID:25651996

Connectivity, non-random extinction and ecosystem function in experimental metacommunities.

PubMed

Staddon, Philip; Lindo, Zoë; Crittenden, Peter D; Gilbert, Francis; Gonzalez, Andrew

2010-05-01

The spatial insurance hypothesis indicates that connectivity is an important attribute of natural ecosystems that sustains both biodiversity and ecosystem function. We tested the hypothesis by measuring the impact of manipulating connectivity in experimental metacommunties of a natural and diverse microecosystem. Isolation led to the extinction of large-bodied apex predators, subsequently followed by increases in prey species abundance. This trophic cascade was associated with significantly altered carbon and nitrogen fluxes in fragmented treatments. The ecosystem impacts were characteristic of a function debt because they persisted for several generations after the initial loss of connectivity. Local extinctions and disruption of ecosystem processes were mitigated, and even reversed, by the presence of corridors in the connected metacommunities, although these beneficial effects were unexpectedly delayed. We hypothesized that corridors maintained grazer movement between fragments, which enhanced microbial activity, and decomposition in comparison to isolated fragments. Our results indicate that knowledge of habitat connectivity and spatial processes is essential to understand the magnitude and timing of ecosystem perturbation in fragmented landscapes.

Insights of the dental calculi microbiome of pre-Columbian inhabitants from Puerto Rico

PubMed Central

Narganes-Storde, Yvonne; Toranzos, Gary A.; Cano, Raul J.

2017-01-01

Background The study of ancient microorganisms in mineralized dental plaque or calculi is providing insights into microbial evolution, as well as lifestyles and disease states of extinct cultures; yet, little is still known about the oral microbial community structure and function of pre-Columbian Caribbean cultures. In the present study, we investigated the dental calculi microbiome and predicted function of one of these cultures, known as the Saladoid. The Saladoids were horticulturalists that emphasized root-crop production. Fruits, as well as small marine and terrestrial animals were also part of the Saladoid diet. Methods Dental calculi samples were recovered from the archaeological site of Sorcé, in the municipal island of Vieques, Puerto Rico, characterized using 16S rRNA gene high-throughput sequencing, and compared to the microbiome of previously characterized coprolites of the same culture, as well modern plaque, saliva and stool microbiomes available from the Human Microbiome Project. Results Actinobacteria, Proteobacteria and Firmicutes comprised the majority of the Saladoid dental calculi microbiome. The Saladoid dental calculi microbiome was distinct when compared to those of modern saliva and dental plaque, but showed the presence of common inhabitants of modern oral cavities including Streptococcus sp., Veillonella dispar and Rothia mucilaginosa. Cell motility, signal transduction and biosynthesis of other secondary metabolites may be unique features of the Saladoid microbiome. Discussion Results suggest that the Saladoid dental calculi microbiome structure and function may possibly reflect a horticulturalist lifestyle and distinct dietary habits. Results also open the opportunity to further elucidate oral disease states in extinct Caribbean cultures and extinct indigenous cultures with similar lifestyles. PMID:28480145

Insights of the dental calculi microbiome of pre-Columbian inhabitants from Puerto Rico.

PubMed

Santiago-Rodriguez, Tasha M; Narganes-Storde, Yvonne; Chanlatte-Baik, Luis; Toranzos, Gary A; Cano, Raul J

2017-01-01

The study of ancient microorganisms in mineralized dental plaque or calculi is providing insights into microbial evolution, as well as lifestyles and disease states of extinct cultures; yet, little is still known about the oral microbial community structure and function of pre-Columbian Caribbean cultures. In the present study, we investigated the dental calculi microbiome and predicted function of one of these cultures, known as the Saladoid. The Saladoids were horticulturalists that emphasized root-crop production. Fruits, as well as small marine and terrestrial animals were also part of the Saladoid diet. Dental calculi samples were recovered from the archaeological site of Sorcé, in the municipal island of Vieques, Puerto Rico, characterized using 16S rRNA gene high-throughput sequencing, and compared to the microbiome of previously characterized coprolites of the same culture, as well modern plaque, saliva and stool microbiomes available from the Human Microbiome Project. Actinobacteria, Proteobacteria and Firmicutes comprised the majority of the Saladoid dental calculi microbiome. The Saladoid dental calculi microbiome was distinct when compared to those of modern saliva and dental plaque, but showed the presence of common inhabitants of modern oral cavities including Streptococcus sp., Veillonella dispar and Rothia mucilaginosa . Cell motility, signal transduction and biosynthesis of other secondary metabolites may be unique features of the Saladoid microbiome. Results suggest that the Saladoid dental calculi microbiome structure and function may possibly reflect a horticulturalist lifestyle and distinct dietary habits. Results also open the opportunity to further elucidate oral disease states in extinct Caribbean cultures and extinct indigenous cultures with similar lifestyles.

Seeking a paleontological signature for mass extinctions caused by flood basalt eruptions

NASA Astrophysics Data System (ADS)

Payne, J.; Bush, A. M.; Chang, E. T.; Heim, N. A.; Knope, M. L.; Pruss, S. B.

2016-12-01

Flood basalt eruptions coincide with numerous extinction events in the fossil record. Increasingly precise absolute age determinations for both the timing of eruption and of species extinctions have strengthened the case for flood basalt eruptions as the single most important trigger for major mass extinction events in the fossil record. However, the extent to which flood basalt eruptions cause a pattern of biotic loss distinctive from extinctions triggered by other geological or biological processes remains an open question. In the absence of diagnostic mapping between geological triggers and biological losses, establishing the identities of causal agents for mass extinctions will continue to depend primarily on evidence for temporal coincidence. Here we use a synoptic database of marine animal genera spanning the Phanerozoic, including times of first and last occurrence, body size, motility, life position, feeding mode, and respiratory physiology to assess whether extinction events temporally associated with flood basalt eruptions exhibit a diagnostic pattern of extinction selectivity. We further ask whether any events not associated with known large igneous provinces nevertheless display extinction patterns suggestive of such a cause. Finally, we ask whether extinction events associated with other primary causes, such as glaciation or bolide impact, are distinguishable from events apparently triggered by flood basalt eruptions on the basis of extinction selectivity patterns

Infrared Extinction Performance of Randomly Oriented Microbial-Clustered Agglomerate Materials.

PubMed

Li, Le; Hu, Yihua; Gu, Youlin; Zhao, Xinying; Xu, Shilong; Yu, Lei; Zheng, Zhi Ming; Wang, Peng

2017-11-01

In this study, the spatial structure of randomly distributed clusters of fungi An0429 spores was simulated using a cluster aggregation (CCA) model, and the single scattering parameters of fungi An0429 spores were calculated using the discrete dipole approximation (DDA) method. The transmittance of 10.6 µm infrared (IR) light in the aggregated fungi An0429 spores swarm is simulated by using the Monte Carlo method. Several parameters that affect the transmittance of 10.6 µm IR light, such as the number and radius of original fungi An0429 spores, porosity of aggregated fungi An0429 spores, and density of aggregated fungi An0429 spores of the formation aerosol area were discussed. Finally, the transmittances of microbial materials with different qualities were measured in the dynamic test platform. The simulation results showed that the parameters analyzed were closely connected with the extinction performance of fungi An0429 spores. By controlling the value of the influencing factors, the transmittance could be lower than a certain threshold to meet the requirement of attenuation in application. In addition, the experimental results showed that the Monte Carlo method could well reflect the attenuation law of IR light in fungi An0429 spore agglomerates swarms.

Postretrieval Extinction in Adolescence Prevents Return of Juvenile Fear

ERIC Educational Resources Information Center

Jones, Carolyn E.; Monfils, Marie-H.

2016-01-01

Traumatic experiences early in life can contribute to the development of mood and anxiety disorders that manifest during adolescence and young adulthood. In young rats exposed to acute fear or stress, alterations in neural development can lead to enduring behavioral abnormalities. Here, we used a modified extinction intervention…

Biophysical processes supporting the diversity of microbial life in soil

PubMed Central

Tecon, Robin

2017-01-01

Abstract Soil, the living terrestrial skin of the Earth, plays a central role in supporting life and is home to an unimaginable diversity of microorganisms. This review explores key drivers for microbial life in soils under different climates and land-use practices at scales ranging from soil pores to landscapes. We delineate special features of soil as a microbial habitat (focusing on bacteria) and the consequences for microbial communities. This review covers recent modeling advances that link soil physical processes with microbial life (termed biophysical processes). Readers are introduced to concepts governing water organization in soil pores and associated transport properties and microbial dispersion ranges often determined by the spatial organization of a highly dynamic soil aqueous phase. The narrow hydrological windows of wetting and aqueous phase connectedness are crucial for resource distribution and longer range transport of microorganisms. Feedbacks between microbial activity and their immediate environment are responsible for emergence and stabilization of soil structure—the scaffolding for soil ecological functioning. We synthesize insights from historical and contemporary studies to provide an outlook for the challenges and opportunities for developing a quantitative ecological framework to delineate and predict the microbial component of soil functioning. PMID:28961933

Amino acid racemization on Mars: implications for the preservation of biomolecules from an extinct martian biota

NASA Technical Reports Server (NTRS)

Bada, J. L.; McDonald, G. D.; Miller, S. L. (Principal Investigator)

1995-01-01

Using kinetic data, we have estimated the racemization half-lives and times for total racemization of amino acids under conditions relevant to the surface of Mars. Amino acids from an extinct martian biota maintained in a dry, cold (<250 K) environment would not have racemized significantly over the lifetime of the planet. Racemization would have taken place in environments where liquid water was present even for time periods of only a few million years following biotic extinction. The best preservation of both amino acid homochirality and nucleic acid genetic information associated with extinct martian life would be in the polar regions.

Fear conditioning and extinction across development: Evidence from human studies and animal models☆

PubMed Central

Shechner, Tomer; Hong, Melanie; Britton, Jennifer C.; Pine, Daniel S.; Fox, Nathan A.

2015-01-01

The ability to differentiate danger and safety through associative processes emerges early in life. Understanding the mechanisms underlying associative learning of threat and safety can clarify the processes that shape development of normative fears and pathological anxiety. Considerable research has used fear conditioning and extinction paradigms to delineate underlying mechanisms in animals and human adults; however, little is known about these mechanisms in children and adolescents. The current paper summarizes the empirical data on the development of fear conditioning and extinction. It reviews methodological considerations and future directions for research on fear conditioning and extinction in pediatric populations. PMID:24746848

Expected time-invariant effects of biological traits on mammal species duration.

PubMed

Smits, Peter D

2015-10-20

Determining which biological traits influence differences in extinction risk is vital for understanding the differential diversification of life and for making predictions about species' vulnerability to anthropogenic impacts. Here I present a hierarchical Bayesian survival model of North American Cenozoic mammal species durations in relation to species-level ecological factors, time of origination, and phylogenetic relationships. I find support for the survival of the unspecialized as a time-invariant generalization of trait-based extinction risk. Furthermore, I find that phylogenetic and temporal effects are both substantial factors associated with differences in species durations. Finally, I find that the estimated effects of these factors are partially incongruous with how these factors are correlated with extinction risk of the extant species. These findings parallel previous observations that background extinction is a poor predictor of mass extinction events and suggest that attention should be focused on mass extinctions to gain insight into modern species loss.

The end-Permian mass extinction: A complex, multicausal extinction

NASA Technical Reports Server (NTRS)

Erwin, D. H.

1994-01-01

The end-Permian mass extinction was the most extensive in the history of life and remains one of the most complex. Understanding its causes is particularly important because it anchors the putative 26-m.y. pattern of periodic extinction. However, there is no good evidence for an impact and this extinction appears to be more complex than others, involving at least three phases. The first began with the onset of a marine regression during the Late Permian and resulting elimination of most marine basins, reduction in habitat area, and increased climatic instability; the first pulse of tetrapod extinctions occurred in South Africa at this time. The second phase involved increased regression in many areas (although apparently not in South China) and heightened climatic instability and environmental degradation. Release of gas hydrates, oxidation of marine carbon, and the eruption of the Siberian flood basalts occurred during this phase. The final phase of the extinction episode began with the earliest Triassic marine regression and destruction of nearshore continental habitats. Some evidence suggests oceanic anoxia may have developed during the final phase of the extinction, although it appears to have been insufficient to the sole cause of the extinction.

Morphological biosignatures and the search for life on Mars.

PubMed

Cady, Sherry L; Farmer, Jack D; Grotzinger, John P; Schopf, J William; Steele, Andrew

2003-01-01

This report provides a rationale for the advances in instrumentation and understanding needed to assess claims of ancient and extraterrestrial life made on the basis of morphological biosignatures. Morphological biosignatures consist of bona fide microbial fossils as well as microbially influenced sedimentary structures. To be recognized as evidence of life, microbial fossils must contain chemical and structural attributes uniquely indicative of microbial cells or cellular or extracellular processes. When combined with various research strategies, high-resolution instruments can reveal such attributes and elucidate how morphological fossils form and become altered, thereby improving the ability to recognize them in the geological record on Earth or other planets. Also, before fossilized microbially influenced sedimentary structures can provide evidence of life, criteria to distinguish their biogenic from non-biogenic attributes must be established. This topic can be advanced by developing process-based models. A database of images and spectroscopic data that distinguish the suite of bona fide morphological biosignatures from their abiotic mimics will avoid detection of false-positives for life. The use of high-resolution imaging and spectroscopic instruments, in conjunction with an improved knowledge base of the attributes that demonstrate life, will maximize our ability to recognize and assess the biogenicity of extraterrestrial and ancient terrestrial life.

Life Support Systems Microbial Challenges

NASA Technical Reports Server (NTRS)

Roman, Monserrate C.

2009-01-01

This viewgraph presentation reviews the current microbial challenges of environmental control and life support systems. The contents include: 1) Environmental Control and Life Support Systems (ECLSS) What is it?; 2) A Look Inside the International Space Station (ISS); 3) The Complexity of a Water Recycling System; 4) ISS Microbiology Acceptability Limits; 5) Overview of Current Microbial Challenges; 6) In a Perfect World What we Would like to Have; and 7) The Future.

Photosynthesis and early Earth.

PubMed

Shih, Patrick M

2015-10-05

Life has been built on the evolution and innovation of microbial metabolisms. Even with our scant understanding of the full diversity of microbial life, it is clear that microbes have become integral components of the biogeochemical cycles that drive our planet. The antiquity of life further suggests that various microbial metabolisms have been core and essential to global elemental cycling for a majority of Earth's history. Copyright © 2015 Elsevier Ltd. All rights reserved.

Extinction debt from climate change for frogs in the wet tropics.

PubMed

Fordham, Damien A; Brook, Barry W; Hoskin, Conrad J; Pressey, Robert L; VanDerWal, Jeremy; Williams, Stephen E

2016-10-01

The effect of twenty-first-century climate change on biodiversity is commonly forecast based on modelled shifts in species ranges, linked to habitat suitability. These projections have been coupled with species-area relationships (SAR) to infer extinction rates indirectly as a result of the loss of climatically suitable areas and associated habitat. This approach does not model population dynamics explicitly, and so accepts that extinctions might occur after substantial (but unknown) delays-an extinction debt. Here we explicitly couple bioclimatic envelope models of climate and habitat suitability with generic life-history models for 24 species of frogs found in the Australian Wet Tropics (AWT). We show that (i) as many as four species of frogs face imminent extinction by 2080, due primarily to climate change; (ii) three frogs face delayed extinctions; and (iii) this extinction debt will take at least a century to be realized in full. Furthermore, we find congruence between forecast rates of extinction using SARs, and demographic models with an extinction lag of 120 years. We conclude that SAR approaches can provide useful advice to conservation on climate change impacts, provided there is a good understanding of the time lags over which delayed extinctions are likely to occur. © 2016 The Author(s).

The evolution of diversity in ancient ecosystems: a review

PubMed Central

Morris, S. Conway

1998-01-01

On a perfect planet, such as might be acceptable to a physicist, one might predict that from its origin the diversity of life would grow exponentially until the carrying capacity, however defined, was reached. The fossil record of the Earth, however, tells a very different story. One of the most striking aspects of this record is the apparent evolutionary longueur, marked by the Precambrian record of prokaryotes and primitive eukaryotes, although our estimates of microbial diversity may be seriously incomplete. Subsequently there were various dramatic increases in diversity, including the Cambrian 'explosion' and the radiation of Palaeozoic-style faunas in the Ordovician. The causes of these events are far from resolved. It has also long been appreciated that the history of diversity has been punctuated by important extinctions. The subtleties and nuances of extinction as well as the survival of particular clades have to date, however, received rather too little attention, and there is still a tendency towards blanket assertions rather than a dissection of these extraordinary events. In addition, some but perhaps not all mass extinctions are characterized by long lag-times of recovery, which may reflect the slowing waning of extrinsic forcing factors or alternatively the incoherence associated with biological reassembly of stable ecosystems. The intervening periods between the identified mass extinctions may be less stable and benign than popularly thought, and in particular the frequency of extraterrestrial impacts leads to predictions of recurrent disturbance on timescales significantly shorter than the intervals separating the largest extinction events. Even at times of quietude it is far from clear whether biological communities enjoy stability and interlocked stasis or are dynamically reconstituted at regular intervals. Finally, can we yet rely on the present depictions of the rise and falls in the levels of ancient diversity? Existing data is almost entirely based on Linnean taxa, and the application of phylogenetic systematics to this problem is still in its infancy. Not only that, but even more intriguingly the pronounced divergence in estimates of origination times of groups as diverse as angiosperms, diatoms and mammals in terms of the fossil record as against molecular data point to the possibilities of protracted intervals of geological time with a cryptic diversity. If this is correct, and there are alternative explanations, then some of the mystery of adaptive radiations may be dispelled, in as much as the assembly of key features in the stem groups could be placed in a gradualistic framework of local adaptive response punctuated by intervals of opportunity.

Differences in sensitivity to the fungal pathogen Batrachochytrium dendrobatidis among amphibian populations

Treesearch

Paul W. Bradley; Stephanie S. Gervasi; Jessica Hua; Rickey D. Cothran; Rick A. Relyea; Deanna H. Olson; Andrew R. Blaustein

2015-01-01

Contributing to the worldwide biodiversity crisis are emerging infectious diseases, which can lead to extirpations and extinctions of hosts. For example, the infectious fungal pathogen Batrachochytrium dendrobatidis (Bd) is associated with worldwide amphibian population declines and extinctions. Sensitivity to Bd varies with species, season, and life stage. However,...

Where The Wild Seafloor Scientists Are: Using Interactive Picture Books To Educate Children About Sub-seafloor Science

NASA Astrophysics Data System (ADS)

Kurtz, K.

2015-12-01

Sub-seafloor scientific research has the power to spark the imaginations of elementary age children with its mysterious nature, cutting-edge research, and its connections to kid friendly science topics, such as volcanoes, the extinction of dinosaurs and the search for extraterrestrial life. These factors have been utilized to create two interactive eBooks for elementary students and teachers, integrating high quality science information, highly engaging and age-appropriate illustrations, and rhyming text. One book introduces children to the research and discoveries of the JOIDES Resolution research vessel. The second focuses on the discoveries of microbial life in the sub-seafloor. The eBooks present information as traditional, linear, illustrated children's books, but the eBook format allows the book to be available online for free to anyone and allows teachers to project the book on a classroom screen so all students can easily see the illustrations. The iPad versions also provide an interactive, learner-led educational experience, where cognitively appropriate videos, photos and other forms of information can be accessed with the tap of a finger to answer reader questions and enrich their learning experience. These projects provide an example and model of the products that can result from high level and meaningful partnerships between scientists, educators, artists and writers.

The role of extinction in evolution

NASA Technical Reports Server (NTRS)

Raup, D. M.

1994-01-01

The extinction of species is not normally considered an important element of neodarwinian theory, in contrast to the opposite phenomenon, speciation. This is surprising in view of the special importance Darwin attached to extinction, and because the number of species extinctions in the history of life is almost the same as the number of originations; present-day biodiversity is the result of a trivial surplus of originations, cumulated over millions of years. For an evolutionary biologist to ignore extinction is probably as foolhardy as for a demographer to ignore mortality. The past decade has seen a resurgence of interest in extinction, yet research on the topic is still at a reconnaissance level, and our present understanding of its role in evolution is weak. Despite uncertainties, extinction probably contains three important elements. (i) For geographically widespread species, extinction is likely only if the killing stress is one so rare as to be beyond the experience of the species, and thus outside the reach of natural selection. (ii) The largest mass extinctions produce major restructuring of the biosphere wherein some successful groups are eliminated, allowing previously minor groups to expand and diversify. (iii) Except for a few cases, there is little evidence that extinction is selective in the positive sense argued by Darwin. It has generally been impossible to predict, before the fact, which species will be victims of an extinction event.

Contrasting effects of climate change in continental vs. oceanic environments on population persistence and microevolution of Atlantic salmon.

PubMed

Piou, Cyril; Prévost, Etienne

2013-03-01

Facing climate change (CC), species are prone to multiple modifications in their environment that can lead to extinction, migration or adaptation. Identifying the role and interplay of different potential stressors becomes a key question. Anadromous fishes will be exposed to both river and oceanic habitat changes. For Atlantic salmon, the river water temperature, river flow and oceanic growth conditions appear as three main stressing factors. They could act on population dynamics or as selective forces on life-history pathways. Using an individual-based demo-genetic model, we assessed the effects of these factors (1) to compare risks of extinction resulting from CC in river and ocean, and (2) to assess CC effects on life-history pathways including the evolution of underlying genetic control of phenotypic plasticity. We focused on Atlantic salmon populations from Southern Europe for a time horizon of three decades. We showed that CC in river alone should not lead to extinction of Southern European salmon populations. In contrast, the reduced oceanic growth appeared as a significant threat for population persistence. An increase in river flow amplitude increased the risk of local extinction in synergy with the oceanic effects, but river temperature rise reduced this risk. In terms of life-history modifications, the reduced oceanic growth increased the age of return of individuals through plastic and genetic responses. The river temperature rise increased the proportion of sexually mature parr, but the genetic evolution of the maturation threshold lowered the maturation rate of male parr. This was identified as a case of environmentally driven plastic response that masked an underlying evolutionary response of plasticity going in the opposite direction. We concluded that to counteract oceanic effects, river flow management represented the sole potential force to reduce the extinction probability of Atlantic salmon populations in Southern Europe, although this might not impede changes in migration life history. © 2012 Blackwell Publishing Ltd.

Life history trade-off moderates model predictions of diversity loss from climate change

PubMed Central

2017-01-01

Climate change can trigger species range shifts, local extinctions and changes in diversity. Species interactions and dispersal capacity are important mediators of community responses to climate change. The interaction between multispecies competition and variation in dispersal capacity has recently been shown to exacerbate the effects of climate change on diversity and to increase predictions of extinction risk dramatically. Dispersal capacity, however, is part of a species’ overall ecological strategy and are likely to trade off with other aspects of its life history that influence population growth and persistence. In plants, a well-known example is the trade-off between seed mass and seed number. The presence of such a trade-off might buffer the diversity loss predicted by models with random but neutral (i.e. not impacting fitness otherwise) differences in dispersal capacity. Using a trait-based metacommunity model along a warming climatic gradient the effect of three different dispersal scenarios on model predictions of diversity change were compared. Adding random variation in species dispersal capacity caused extinctions by the introduction of strong fitness differences due an inherent property of the dispersal kernel. Simulations including a fitness-equalising trade-off based on empirical relationships between seed mass (here affecting dispersal distance, establishment probability, and seedling biomass) and seed number (fecundity) maintained higher initial species diversity and predicted lower extinction risk and diversity loss during climate change than simulations with variable dispersal capacity. Large seeded species persisted during climate change, but developed lags behind their climate niche that may cause extinction debts. Small seeded species were more extinction-prone during climate change but tracked their niches through dispersal and colonisation, despite competitive resistance from residents. Life history trade-offs involved in coexistence mechanisms may increase community resilience to future climate change and are useful guides for model development. PMID:28520770

Fear conditioning and extinction across development: evidence from human studies and animal models.

PubMed

Shechner, Tomer; Hong, Melanie; Britton, Jennifer C; Pine, Daniel S; Fox, Nathan A

2014-07-01

The ability to differentiate danger and safety through associative processes emerges early in life. Understanding the mechanisms underlying associative learning of threat and safety can clarify the processes that shape development of normative fears and pathological anxiety. Considerable research has used fear conditioning and extinction paradigms to delineate underlying mechanisms in animals and human adults; however, little is known about these mechanisms in children and adolescents. The current paper summarizes the empirical data on the development of fear conditioning and extinction. It reviews methodological considerations and future directions for research on fear conditioning and extinction in pediatric populations. Copyright © 2014 Elsevier B.V. All rights reserved.

Ontogenetic and life history trait changes associated with convergent ecological specializations in extinct ungulate mammals

PubMed Central

Gomes Rodrigues, Helder; Billet, Guillaume

2017-01-01

Investigating life history traits in mammals is crucial to understand their survival in changing environments. However, these parameters are hard to estimate in a macroevolutionary context. Here we show that the use of dental ontogenetic parameters can provide clues to better understand the adaptive nature of phenotypic traits in extinct species such as South American notoungulates. This recently extinct order of mammals evolved in a context of important geological, climatic, and environmental variations. Interestingly, notoungulates were mostly herbivorous and acquired high-crowned teeth very early in their evolutionary history. We focused on the variations in crown height, dental eruption pattern, and associated body mass of 69 notoungulate taxa, placed in their phylogenetic and geological contexts. We showed that notoungulates evolved higher crowns several times between 45 and 20 Ma, independently of the variation in body mass. Interestingly, the independent acquisitions of ever-growing teeth were systematically accompanied by eruption of molars faster than permanent premolars. These repeated associations of dental innovations have never been documented for other mammals and raise questions on their significance and causal relationships. We suggest that these correlated changes could originate from ontogenetic adjustments favored by structural constraints, and may indicate accelerated life histories. Complementarily, these more durable and efficient dentitions could be selected to cope with important ingestions of abrasive particles in the context of intensified volcanism and increasing aridity. This study demonstrates that assessing both life history and ecological traits allows a better knowledge of the specializations of extinct mammals that evolved under strong environmental constraints. PMID:28096389

Variability in life-history and ecological traits is a buffer against extinction in mammals.

PubMed

González-Suárez, Manuela; Revilla, Eloy

2013-02-01

Anthropogenic degradation of the world's ecosystems is leading to a widespread and accelerating loss of biodiversity. However, not all species respond equally to existing threats, raising the question: what makes a species more vulnerable to extinction? We propose that higher intraspecific variability may reduce the risk of extinction, as different individuals and populations within a species may respond differently to occurring threats. Supporting this prediction, our results show that mammalian species with more variable adult body masses, litter sizes, sexual maturity ages and population densities are less vulnerable to extinction. Our findings reveal the role of local variation among populations, particularly of large mammals, as a buffering mechanism against extinction, and emphasise the importance of considering trait variation in comparative analyses and conservation management. © 2012 Blackwell Publishing Ltd/CNRS.

Community living long before man: fossil and living microbial mats and early life

NASA Technical Reports Server (NTRS)

Margulis, L.; Lopez Baluja, L.; Awramik, S. M.; Sagan, D.

1986-01-01

Microbial mats are layered communities of bacteria that form cohesive structures, some of which are preserved in sedimentary rocks as stromatolites. Certain rocks, approximately three and a half thousand million years old and representing the oldest known fossils, are interpreted to derive from microbial mats and to contain fossils of microorganisms. Modern microbial mats (such as the one described here from Matanzas, Cuba) and their fossil counterparts are of great interest in the interpretation of early life on Earth. Since examination of microbial mats and stromatolites increases our understanding of long-term stability and change, within the global environment, such structures should be protected wherever possible as natural science preserves. Furthermore, since they have existed virtually from the time of life's origin, microbial mats have developed exemplary mechanisms of local community persistence and may even play roles in the larger global environment that we do not understand.

Possibilities for the detection of microbial life on extrasolar planets.

PubMed

Knacke, Roger F

2003-01-01

We consider possibilities for the remote detection of microbial life on extrasolar planets. The Darwin/Terrestrial Planet Finder (TPF) telescope concepts for observations of terrestrial planets focus on indirect searches for life through the detection of atmospheric gases related to life processes. Direct detection of extraterrestrial life may also be possible through well-designed searches for microbial life forms. Satellites in Earth orbit routinely monitor colonies of terrestrial algae in oceans and lakes by analysis of reflected ocean light in the visible region of the spectrum. These remote sensing techniques suggest strategies for extrasolar searches for signatures of chlorophylls and related photosynthetic compounds associated with life. However, identification of such life-related compounds on extrasolar planets would require observations through strong, interfering absorptions and scattering radiances from the remote atmospheres and landmasses. Techniques for removal of interfering radiances have been extensively developed for remote sensing from Earth orbit. Comparable techniques would have to be developed for extrasolar planet observations also, but doing so would be challenging for a remote planet. Darwin/TPF coronagraph concepts operating in the visible seem to be best suited for searches for extrasolar microbial life forms with instruments that can be projected for the 2010-2020 decades, although resolution and signal-to-noise ratio constraints severely limit detection possibilities on terrestrial-type planets. The generation of telescopes with large apertures and extremely high spatial resolutions that will follow Darwin/TPF could offer striking possibilities for the direct detection of extrasolar microbial life.

Inhabited or Uninhabited? Pitfalls in the Interpretation of Possible Chemical Signatures of Extraterrestrial Life.

PubMed

Fox, Stefan; Strasdeit, Henry

2017-01-01

The "Rare Earth" hypothesis-put forward by Ward and Brownlee in their 2000 book of the same title-states that prokaryote-type organisms may be common in the universe but animals and higher plants are exceedingly rare. If this idea is correct, the search for extraterrestrial life is essentially the search for microorganisms. Various indicators may be used to detect extant or extinct microbial life beyond Earth. Among them are chemical biosignatures, such as biomolecules and stable isotope ratios. The present minireview focuses on the major problems associated with the identification of chemical biosignatures. Two main types of misinterpretation are distinguished, namely false positive and false negative results. The former can be caused by terrestrial biogenic contaminants or by abiotic products. Terrestrial contamination is a common problem in space missions that search for biosignatures on other planets and moons. Abiotic organics can lead to false positive results if erroneously interpreted as biomolecules, but also to false negatives, for example when an abiotic source obscures a less productive biological one. In principle, all types of putative chemical biosignatures are prone to misinterpretation. Some, however, are more reliable ("stronger") than others. These include: (i) homochiral polymers of defined length and sequence, comparable to proteins and polynucleotides; (ii) enantiopure compounds; (iii) the existence of only a subset of molecules when abiotic syntheses would produce a continuous range of molecules; the proteinogenic amino acids constitute such a subset. These considerations are particularly important for life detection missions to solar system bodies such as Mars, Europa, and Enceladus.

Inhabited or Uninhabited? Pitfalls in the Interpretation of Possible Chemical Signatures of Extraterrestrial Life

PubMed Central

Fox, Stefan; Strasdeit, Henry

2017-01-01

The “Rare Earth” hypothesis—put forward by Ward and Brownlee in their 2000 book of the same title—states that prokaryote-type organisms may be common in the universe but animals and higher plants are exceedingly rare. If this idea is correct, the search for extraterrestrial life is essentially the search for microorganisms. Various indicators may be used to detect extant or extinct microbial life beyond Earth. Among them are chemical biosignatures, such as biomolecules and stable isotope ratios. The present minireview focuses on the major problems associated with the identification of chemical biosignatures. Two main types of misinterpretation are distinguished, namely false positive and false negative results. The former can be caused by terrestrial biogenic contaminants or by abiotic products. Terrestrial contamination is a common problem in space missions that search for biosignatures on other planets and moons. Abiotic organics can lead to false positive results if erroneously interpreted as biomolecules, but also to false negatives, for example when an abiotic source obscures a less productive biological one. In principle, all types of putative chemical biosignatures are prone to misinterpretation. Some, however, are more reliable (“stronger”) than others. These include: (i) homochiral polymers of defined length and sequence, comparable to proteins and polynucleotides; (ii) enantiopure compounds; (iii) the existence of only a subset of molecules when abiotic syntheses would produce a continuous range of molecules; the proteinogenic amino acids constitute such a subset. These considerations are particularly important for life detection missions to solar system bodies such as Mars, Europa, and Enceladus. PMID:28970819

Limits to biodiversity cycles from a unified model of mass-extinction events

NASA Astrophysics Data System (ADS)

Feulner, Georg

2011-04-01

Episodes of species mass extinction dramatically affected the evolution of life on Earth, but their causes remain a source of debate. Even more controversy surrounds the hypothesis of periodicity in the fossil record, with conflicting views still being published in the scientific literature, often even based on the same state-of-the-art datasets. From an empirical point of view, limitations of the currently available data on extinctions and possible causes remain an important issue. From a theoretical point of view, it is likely that a focus on single extinction causes and strong periodic forcings has strongly contributed to this controversy. Here I show that if there is a periodic extinction signal at all, it is much more likely to result from a combination of a comparatively weak periodic cause and various random factors. Tests of this unified model of mass extinctions on the available data show that the model is formally better than a model with random extinction causes only. However, the contribution of the periodic component is small compared to factors such as impacts or volcanic eruptions.

Critically evaluating best management practices for preventing freshwater turtle extinctions.

PubMed

Spencer, R-J; Van Dyke, J U; Thompson, Michael B

2017-12-01

Ex situ conservation tools, such as captive breeding for reintroduction, are considered a last resort to recover threatened or endangered species, but they may also help reduce anthropogenic threats where it is difficult or impossible to address them directly. Headstarting, or captive rearing of eggs or neonate animals for subsequent release into the wild, is controversial because it treats only a symptom of a larger conservation problem; however, it may provide a mechanism to address multiple threats, particularly near population centers. We conducted a population viability analysis of Australia's most widespread freshwater turtle, Chelodina longicollis, to determine the effect of adult roadkill (death by collision with motor vehicles), which is increasing, and reduced recruitment through nest predation from introduced European red foxes (Vulpes vulpes). We also modeled management scenarios to test the effectiveness of headstarting, fox management, and measures to reduce mortality on roads. Only scenarios with headstarting from source populations eliminated all risks of extinction and allowed population growth. Small increases in adult mortality (2%) had the greatest effect on population growth and extinction risk. Where threats simultaneously affected other life-history stages (e.g., recruitment), eliminating harvest pressures on adult females alone did not eliminate the risk of population extinction. In our models, one source population could supply enough hatchlings annually to supplement 25 other similar-sized populations such that extinction was avoided. Based on our results, we believe headstarting should be a primary tool for managing freshwater turtles for which threats affect multiple life-history stages. We advocate the creation of source populations for managing freshwater turtles that are greatly threatened at multiple life-history stages, such as depredation of eggs by invasive species and adult mortality via roadkill. © 2017 Society for Conservation Biology.

Microbialites and global environmental change across the Permian-Triassic boundary: a synthesis.

PubMed

Kershaw, S; Crasquin, S; Li, Y; Collin, P-Y; Forel, M-B; Mu, X; Baud, A; Wang, Y; Xie, S; Maurer, F; Guo, L

2012-01-01

Permian-Triassic boundary microbialites (PTBMs) are thin (0.05-15 m) carbonates formed after the end-Permian mass extinction. They comprise Renalcis-group calcimicrobes, microbially mediated micrite, presumed inorganic micrite, calcite cement (some may be microbially influenced) and shelly faunas. PTBMs are abundant in low-latitude shallow-marine carbonate shelves in central Tethyan continents but are rare in higher latitudes, likely inhibited by clastic supply on Pangaea margins. PTBMs occupied broadly similar environments to Late Permian reefs in Tethys, but extended into deeper waters. Late Permian reefs are also rich in microbes (and cements), so post-extinction seawater carbonate saturation was likely similar to the Late Permian. However, PTBMs lack widespread abundant inorganic carbonate cement fans, so a previous interpretation that anoxic bicarbonate-rich water upwelled to rapidly increase carbonate saturation of shallow seawater, post-extinction, is problematic. Preliminary pyrite framboid evidence shows anoxia in PTBM facies, but interbedded shelly faunas indicate oxygenated water, perhaps there was short-term pulsing of normally saturated anoxic water from the oxygen-minimum zone to surface waters. In Tethys, PTBMs show geographic variations: (i) in south China, PTBMs are mostly thrombolites in open shelf settings, largely recrystallised, with remnant structure of Renalcis-group calcimicrobes; (ii) in south Turkey, in shallow waters, stromatolites and thrombolites, lacking calcimicrobes, are interbedded, likely depth-controlled; and (iii) in the Middle East, especially Iran, stromatolites and thrombolites (calcimicrobes uncommon) occur in different sites on open shelves, where controls are unclear. Thus, PTBMs were under more complex control than previously portrayed, with local facies control playing a significant role in their structure and composition. © 2011 Blackwell Publishing Ltd.

Founder takes all: density-dependent processes structure biodiversity.

PubMed

Waters, Jonathan M; Fraser, Ceridwen I; Hewitt, Godfrey M

2013-02-01

Density-dependent processes play a key role in the spatial structuring of biodiversity. Specifically, interrelated demographic processes, such as gene surfing, high-density blocking, and competitive exclusion, can generate striking geographic contrasts in the distributions of genes and species. Here, we propose that well-studied evolutionary and ecological biogeographic patterns of postglacial recolonization, progressive island colonization, microbial sectoring, and even the 'Out of Africa' pattern of human expansion, are fundamentally similar, underpinned by a 'founder takes all' density-dependent principle. Additionally, we hypothesize that older historic constraints of density-dependent processes are seen today in the dramatic biogeographic shifts that occur in response to human-mediated extinction events, whereby surviving lineages rapidly expand their ranges to replace extinct sister taxa. Copyright © 2012 Elsevier Ltd. All rights reserved.

Mammoths, Mastodons, and Elephants

NASA Astrophysics Data System (ADS)

Haynes, Gary

1993-05-01

The diminishing population of African and Asian elephants can be compared to the extinction of other elephant-like species, such as mammoths and mastodonts, which occurred more than ten thousand years ago. The purpose of this book is to use the ecology and behavior of modern elephants to create models for reconstructing the life and death of extinct mammoths and mastodonts. The source of the models is a long-term and continuing study of elephants in Zimbabwe, Africa. These models are clearly described with respect to the anatomical, behavioral, and ecological similarities between past and present proboscideans. The implications of these similarities on the life and death of mammoths and mastodonts is explored in detail. The importance of this book is primarily its unifying perspective on living and extinct proboscideans: the fossil record is closely examined and compared to the natural history of surviving elephants. Dr. Haynes's studies of the places where African elephants die (so-called elephant burial grounds) are unique.

The Chthonomonas calidirosea Genome Is Highly Conserved across Geographic Locations and Distinct Chemical and Microbial Environments in New Zealand's Taupō Volcanic Zone.

PubMed

Lee, Kevin C; Stott, Matthew B; Dunfield, Peter F; Huttenhower, Curtis; McDonald, Ian R; Morgan, Xochitl C

2016-06-15

Chthonomonas calidirosea T49(T) is a low-abundance, carbohydrate-scavenging, and thermophilic soil bacterium with a seemingly disorganized genome. We hypothesized that the C. calidirosea genome would be highly responsive to local selection pressure, resulting in the divergence of its genomic content, genome organization, and carbohydrate utilization phenotype across environments. We tested this hypothesis by sequencing the genomes of four C. calidirosea isolates obtained from four separate geothermal fields in the Taupō Volcanic Zone, New Zealand. For each isolation site, we measured physicochemical attributes and defined the associated microbial community by 16S rRNA gene sequencing. Despite their ecological and geographical isolation, the genome sequences showed low divergence (maximum, 1.17%). Isolate-specific variations included single-nucleotide polymorphisms (SNPs), restriction-modification systems, and mobile elements but few major deletions and no major rearrangements. The 50-fold variation in C. calidirosea relative abundance among the four sites correlated with site environmental characteristics but not with differences in genomic content. Conversely, the carbohydrate utilization profiles of the C. calidirosea isolates corresponded to the inferred isolate phylogenies, which only partially paralleled the geographical relationships among the sample sites. Genomic sequence conservation does not entirely parallel geographic distance, suggesting that stochastic dispersal and localized extinction, which allow for rapid population homogenization with little restriction by geographical barriers, are possible mechanisms of C. calidirosea distribution. This dispersal and extinction mechanism is likely not limited to C. calidirosea but may shape the populations and genomes of many other low-abundance free-living taxa. This study compares the genomic sequence variations and metabolisms of four strains of Chthonomonas calidirosea, a rare thermophilic bacterium from the phylum Armatimonadetes It additionally compares the microbial communities and chemistry of each of the geographically distinct sites from which the four C. calidirosea strains were isolated. C. calidirosea was previously reported to possess a highly disorganized genome, but it was unclear whether this reflected rapid evolution. Here, we show that each isolation site has a distinct chemistry and microbial community, but despite this, the C. calidirosea genome is highly conserved across all isolation sites. Furthermore, genomic sequence differences only partially paralleled geographic distance, suggesting that C. calidirosea genotypes are not primarily determined by adaptive evolution. Instead, the presence of C. calidirosea may be driven by stochastic dispersal and localized extinction. This ecological mechanism may apply to many other low-abundance taxa. Copyright © 2016 Lee et al.

The Chthonomonas calidirosea Genome Is Highly Conserved across Geographic Locations and Distinct Chemical and Microbial Environments in New Zealand's Taupō Volcanic Zone

PubMed Central

Lee, Kevin C.; Stott, Matthew B.; Dunfield, Peter F.; Huttenhower, Curtis; McDonald, Ian R.

2016-01-01

ABSTRACT Chthonomonas calidirosea T49T is a low-abundance, carbohydrate-scavenging, and thermophilic soil bacterium with a seemingly disorganized genome. We hypothesized that the C. calidirosea genome would be highly responsive to local selection pressure, resulting in the divergence of its genomic content, genome organization, and carbohydrate utilization phenotype across environments. We tested this hypothesis by sequencing the genomes of four C. calidirosea isolates obtained from four separate geothermal fields in the Taupō Volcanic Zone, New Zealand. For each isolation site, we measured physicochemical attributes and defined the associated microbial community by 16S rRNA gene sequencing. Despite their ecological and geographical isolation, the genome sequences showed low divergence (maximum, 1.17%). Isolate-specific variations included single-nucleotide polymorphisms (SNPs), restriction-modification systems, and mobile elements but few major deletions and no major rearrangements. The 50-fold variation in C. calidirosea relative abundance among the four sites correlated with site environmental characteristics but not with differences in genomic content. Conversely, the carbohydrate utilization profiles of the C. calidirosea isolates corresponded to the inferred isolate phylogenies, which only partially paralleled the geographical relationships among the sample sites. Genomic sequence conservation does not entirely parallel geographic distance, suggesting that stochastic dispersal and localized extinction, which allow for rapid population homogenization with little restriction by geographical barriers, are possible mechanisms of C. calidirosea distribution. This dispersal and extinction mechanism is likely not limited to C. calidirosea but may shape the populations and genomes of many other low-abundance free-living taxa. IMPORTANCE This study compares the genomic sequence variations and metabolisms of four strains of Chthonomonas calidirosea, a rare thermophilic bacterium from the phylum Armatimonadetes. It additionally compares the microbial communities and chemistry of each of the geographically distinct sites from which the four C. calidirosea strains were isolated. C. calidirosea was previously reported to possess a highly disorganized genome, but it was unclear whether this reflected rapid evolution. Here, we show that each isolation site has a distinct chemistry and microbial community, but despite this, the C. calidirosea genome is highly conserved across all isolation sites. Furthermore, genomic sequence differences only partially paralleled geographic distance, suggesting that C. calidirosea genotypes are not primarily determined by adaptive evolution. Instead, the presence of C. calidirosea may be driven by stochastic dispersal and localized extinction. This ecological mechanism may apply to many other low-abundance taxa. PMID:27060125

Astrobiology, Mars Exploration and Lassen Volcanic National Park

NASA Technical Reports Server (NTRS)

Des Marais, David J.

2015-01-01

The search for evidence of life beyond Earth illustrates how the charters of NASA and the National Park Service share common ground. The mission of NPS is to preserve unimpaired the natural and cultural resources of the National Park System for the enjoyment, education and inspiration of this and future generations. NASA's Astrobiology program seeks to understand the origins, evolution and distribution of life in the universe, and it abides by the principles of planetary stewardship, public outreach, and education. We cannot subject planetary exploration destinations to Earthly biological contamination both for ethical reasons and to preserve their scientific value for astrobiology. We respond to the public's interest in the mysteries of life and the cosmos by honoring their desire to participate in the process of discovery. We involve youth in order to motivate career choices in science and technology and to perpetuate space exploration. The search for evidence of past life on Mars illustrates how the missions of NASA and NPS can become synergistic. Volcanic activity occurs on all rocky planets in our Solar System and beyond, and it frequently interacts with water to create hydrothermal systems. On Earth these systems are oases for microbial life. The Mars Exploration Rover Spirit has found evidence of extinct hydrothermal system in Gusev crater, Mars. Lassen Volcanic National Park provides a pristine laboratory for investigating how microorganisms can both thrive and leave evidence of their former presence in hydrothermal systems. NASA scientists, NPS interpretation personnel and teachers can collaborate on field-oriented programs that enhance Mars mission planning, engage students and the public in science and technology, and emphasize the ethics of responsible exploration.

Origin of microbial life: Nano- and molecular events, thermodynamics/entropy, quantum mechanisms and genetic instructions.

PubMed

Trevors, J T

2011-03-01

Currently, there are no agreed upon mechanisms and supporting evidence for the origin of the first microbial cells on the Earth. However, some hypotheses have been proposed with minimal supporting evidence and experimentation/observations. The approach taken in this article is that life originated at the nano- and molecular levels of biological organization, using quantum mechanic principles that became manifested as classical microbial cell(s), allowing the origin of microbial life on the Earth with a core or minimal, organic, genetic code containing the correct instructions for cell(s) for growth and division, in a micron dimension environment, with a local entropy range conducive to life (present about 4 billion years ago), and obeying the laws of thermodynamics. An integrated approach that explores all encompassing factors necessary for the origin of life, may bring forth plausible hypotheses (and mechanisms) with much needed supporting experimentation and observations for an origin of life theory. Copyright © 2010 Elsevier B.V. All rights reserved.

Enhanced recycling of organic matter and Os-isotopic evidence for multiple magmatic or meteoritic inputs to the Late Permian Panthalassic Ocean, Opal Creek, Canada

NASA Astrophysics Data System (ADS)

Georgiev, Svetoslav V.; Stein, Holly J.; Hannah, Judith L.; Henderson, Charles M.; Algeo, Thomas J.

2015-02-01

The geochemical record for the Permian-Triassic boundary in northern latitudes is essential to evaluation of global changes associated with the most profound extinction of life on Earth. We present inorganic and organic geochemical data, and Re-Os isotope systematics in a critical stratigraphic interval of pre- and post-extinction Upper Permian-Lower Triassic sediments from Opal Creek, western Canada (paleolatitude of ∼30°N). We document significant and long-lived changes in Panthalassa seawater chemistry that were initiated during the first of four magmatic or meteoritic inputs to Late Permian seawater, evidenced by notable decreases of Os isotopic ratios upsection. Geochemical signals indicate establishment of anoxic bottom waters shortly after regional transgression reinitiated sedimentation in the Late Permian. Euxinic signals are most prominent in the Upper Permian sediments with low organic carbon and high sulfur contents, and gradually wane in the Lower Triassic. The observed features may have been generated in a strongly euxinic ocean in which high bacterioplankton productivity sustained prolific microbial sulfate reduction in the sediment and/or water column, providing hydrogen sulfide to form pyrite. This scenario requires nearly complete anaerobic decomposition of predominantly labile marine organic matter (OM) without the necessity for a complete collapse of primary marine productivity. Similar geochemical variations could have been achieved by widespread oxidation of methane by sulfate reducers after a methanogenic burst in the Late Permian. Both scenarios could have provided similar kill mechanisms for the latest Permian mass extinction. Despite the moderate thermal maturity of the section, OM in all studied samples is dominantly terrestrial and/or continentally derived, recycled and refractory ancient OM. We argue that, as such, the quantity of the OM in the section mainly reflects changes in terrestrial vegetation and/or weathering, and not in marine productivity. At Opal Creek, a pyrite layer and <20-cm-thick siltstones that are lean in OM mark dramatic and long-lived inorganic geochemical and stable isotope changes. Initial Os isotope ratios decline markedly toward values of ∼0.35 in the pyrite interval, indicating a mantle-sourced or meteoritic trigger for the intensification and expansion of latest Permian anoxia. Subsequent and stronger magmatic or meteoritic pulses recorded by low initial Os isotopes followed the main extinction.

Estimates of the magnitudes of major marine mass extinctions in earth history

PubMed Central

2016-01-01

Procedures introduced here make it possible, first, to show that background (piecemeal) extinction is recorded throughout geologic stages and substages (not all extinction has occurred suddenly at the ends of such intervals); second, to separate out background extinction from mass extinction for a major crisis in earth history; and third, to correct for clustering of extinctions when using the rarefaction method to estimate the percentage of species lost in a mass extinction. Also presented here is a method for estimating the magnitude of the Signor–Lipps effect, which is the incorrect assignment of extinctions that occurred during a crisis to an interval preceding the crisis because of the incompleteness of the fossil record. Estimates for the magnitudes of mass extinctions presented here are in most cases lower than those previously published. They indicate that only ∼81% of marine species died out in the great terminal Permian crisis, whereas levels of 90–96% have frequently been quoted in the literature. Calculations of the latter numbers were incorrectly based on combined data for the Middle and Late Permian mass extinctions. About 90 orders and more than 220 families of marine animals survived the terminal Permian crisis, and they embodied an enormous amount of morphological, physiological, and ecological diversity. Life did not nearly disappear at the end of the Permian, as has often been claimed. PMID:27698119

Estimates of the magnitudes of major marine mass extinctions in earth history

NASA Astrophysics Data System (ADS)

Stanley, Steven M.

2016-10-01

Procedures introduced here make it possible, first, to show that background (piecemeal) extinction is recorded throughout geologic stages and substages (not all extinction has occurred suddenly at the ends of such intervals); second, to separate out background extinction from mass extinction for a major crisis in earth history; and third, to correct for clustering of extinctions when using the rarefaction method to estimate the percentage of species lost in a mass extinction. Also presented here is a method for estimating the magnitude of the Signor-Lipps effect, which is the incorrect assignment of extinctions that occurred during a crisis to an interval preceding the crisis because of the incompleteness of the fossil record. Estimates for the magnitudes of mass extinctions presented here are in most cases lower than those previously published. They indicate that only ˜81% of marine species died out in the great terminal Permian crisis, whereas levels of 90-96% have frequently been quoted in the literature. Calculations of the latter numbers were incorrectly based on combined data for the Middle and Late Permian mass extinctions. About 90 orders and more than 220 families of marine animals survived the terminal Permian crisis, and they embodied an enormous amount of morphological, physiological, and ecological diversity. Life did not nearly disappear at the end of the Permian, as has often been claimed.

Sonic hedgehog signaling regulates amygdalar neurogenesis and extinction of fear memory.

PubMed

Hung, Hui-Chi; Hsiao, Ya-Hsin; Gean, Po-Wu

2015-10-01

It is now recognized that neurogenesis occurs throughout life predominantly in the subgranular zone (SGZ) of the hippocampus and the subventricular zone (SVZ) of the lateral ventricle. In the present study, we investigated the relationship between neurogenesis in the amygdala and extinction of fear memory. Mice received 15 tone-footshock pairings. Twenty-four hours after training, the mice were given 15 tone-alone trials (extinction training) once per day for 7 days. Two hours before extinction training, the mice were injected intraperitoneally with 5-bromo-3-deoxyuridine (BrdU). BrdU-positive and NeuN-positive cells were analyzed 52 days after the training. A group of mice that received tone-footshock pairings but no extinction training served as controls (FC+No-Ext). The number of BrdU(+)/NeuN(+) cells was significantly higher in the extinction (FC+Ext) than in the FC+No-Ext mice. Proliferation inhibitor methylazoxymethanol acetate (MAM) or DNA synthesis inhibitor cytosine arabinoside (Ara-C) reduced neurogenesis and retarded extinction. Silencing Sonic hedgehog (Shh) gene with short hairpin interfering RNA (shRNA) by means of a retrovirus expression system to knockdown Shh specifically in the mitotic neurons reduced neurogenesis and retarded extinction. By contrast, over-expression of Shh increased neurogenesis and facilitated extinction. These results suggest that amygdala neurogenesis and Shh signaling are involved in the extinction of fear memory. Copyright © 2015 Elsevier B.V. and ECNP. All rights reserved.

Estimates of the magnitudes of major marine mass extinctions in earth history.

PubMed

Stanley, Steven M

2016-10-18

Procedures introduced here make it possible, first, to show that background (piecemeal) extinction is recorded throughout geologic stages and substages (not all extinction has occurred suddenly at the ends of such intervals); second, to separate out background extinction from mass extinction for a major crisis in earth history; and third, to correct for clustering of extinctions when using the rarefaction method to estimate the percentage of species lost in a mass extinction. Also presented here is a method for estimating the magnitude of the Signor-Lipps effect, which is the incorrect assignment of extinctions that occurred during a crisis to an interval preceding the crisis because of the incompleteness of the fossil record. Estimates for the magnitudes of mass extinctions presented here are in most cases lower than those previously published. They indicate that only ∼81% of marine species died out in the great terminal Permian crisis, whereas levels of 90-96% have frequently been quoted in the literature. Calculations of the latter numbers were incorrectly based on combined data for the Middle and Late Permian mass extinctions. About 90 orders and more than 220 families of marine animals survived the terminal Permian crisis, and they embodied an enormous amount of morphological, physiological, and ecological diversity. Life did not nearly disappear at the end of the Permian, as has often been claimed.

Geomicrobiological perspective on the pattern and causes of the 5-million-year Permo/Triassic biotic crisis

NASA Astrophysics Data System (ADS)

Xie, Shucheng; Wang, Yongbiao

2011-03-01

The pattern and causes of Permo/Triassic biotic crisis were mainly documented by faunal and terrestrial plant records. We reviewed herein the geomicrobiological perspective on this issue based on the reported cyanobacterial record. Two episodic cyanobacterial blooms were observed to couple with carbon isotope excursions and faunal mass extinction at Meishan section, suggestive of the presence of at least two episodic biotic crises across the Permian-Triassic boundary (PTB). The two episodes of cyanobacterial blooms, carbon isotope excursions and faunal mass extinction were, respectively, identified in several sections of the world, inferring the presence of two global changes across the PTB. Close associations among the three records (cyanobacterial bloom, shift in carbon isotope composition, and faunal extinction) were subsequently observed in three intervals in the Early Triassic, the protracted recovery period as previously thought, inferring the occurrence of more episodes of global changes. Spatiotemporal association of cyanobacterial blooms with volcanic materials in South China, and probably in South-east Asia, infers their causal relationship. Volcanism is believed to trigger the biotic crisis in several ways and to cause the close association among microbial blooms, the carbon isotope excursions and faunal mass extinctions in four intervals from the latest Permian to the Early Triassic. The major episodes of the well-known Siberian flood eruption are proposed to be responsible for the extinctions in the Early Triassic, but their synchronicity with the end-Permian extinction awaits more precise dating data to confirm. Geomicrobial records are thus suggestive of a long-term episodic biotic crisis (at least four episodes) lasting from the latest Permian to the end of the Early Triassic, induced by the global volcanic eruptions and sea level changes during Pangea formation.

Biomarkers as tracers for life on early earth and Mars

NASA Technical Reports Server (NTRS)

Simoneit, B. R.; Summons, R. E.; Jahnke, L. L.

1998-01-01

Biomarkers in geological samples are products derived from biochemical (natural product) precursors by reductive and oxidative processes (e.g., cholestanes from cholesterol). Generally, lipids, pigments and biomembranes are preserved best over longer geological times and labile compounds such as amino acids, sugars, etc. are useful biomarkers for recent times. Thus, the detailed characterization of biomarker compositions permits the assessment of the major contributing species of extinct and/or extant life. In the case of the early Earth, work has progressed to elucidate molecular structure and carbon isotropic signals preserved in ancient sedimentary rocks. In addition, the combination of bacterial biochemistry with the organic geochemistry of contemporary and ancient hydrothermal ecosystems permits the modeling of the nature, behavior and preservation potential of primitive microbial communities. This approach uses combined molecular and isotopic analyses to characterize lipids produced by cultured bacteria (representative of ancient strains) and to test a variety of culture conditions which affect their biosynthesis. On considering Mars, the biomarkers from lipids and biopolymers would be expected to be preserved best if life flourished there during its early history (3.5-4 x 10(9) yr ago). Both oxidized and reduced products would be expected. This is based on the inferred occurrence of hydrothermal activity during that time with the concomitant preservation of biochemically-derived organic matter. Both known biomarkers (i.e., as elucidated for early terrestrial samples and for primitive terrestrial microbiota) and novel, potentially unknown compounds should be characterized.

Prior indigenous technological species

NASA Astrophysics Data System (ADS)

Wright, Jason T.

2018-01-01

One of the primary open questions of astrobiology is whether there is extant or extinct life elsewhere the solar system. Implicit in much of this work is that we are looking for microbial or, at best, unintelligent life, even though technological artefacts might be much easier to find. Search for Extraterrestrial Intelligence (SETI) work on searches for alien artefacts in the solar system typically presumes that such artefacts would be of extrasolar origin, even though life is known to have existed in the solar system, on Earth, for eons. But if a prior technological, perhaps spacefaring, species ever arose in the solar system, it might have produced artefacts or other technosignatures that have survived to present day, meaning solar system artefact SETI provides a potential path to resolving astrobiology's question. Here, I discuss the origins and possible locations for technosignatures of such a prior indigenous technological species, which might have arisen on ancient Earth or another body, such as a pre-greenhouse Venus or a wet Mars. In the case of Venus, the arrival of its global greenhouse and potential resurfacing might have erased all evidence of its existence on the Venusian surface. In the case of Earth, erosion and, ultimately, plate tectonics may have erased most such evidence if the species lived Gyr ago. Remaining indigenous technosignatures might be expected to be extremely old, limiting the places they might still be found to beneath the surfaces of Mars and the Moon, or in the outer solar system.

Identification of morphological biosignatures in Martian analogue field specimens using in situ planetary instrumentation.

PubMed

Pullan, Derek; Westall, Frances; Hofmann, Beda A; Parnell, John; Cockell, Charles S; Edwards, Howell G M; Villar, Susana E Jorge; Schröder, Christian; Cressey, Gordon; Marinangeli, Lucia; Richter, Lutz; Klingelhöfer, Göstar

2008-02-01

We have investigated how morphological biosignatures (i.e., features related to life) might be identified with an array of viable instruments within the framework of robotic planetary surface operations at Mars. This is the first time such an integrated lab-based study has been conducted that incorporates space-qualified instrumentation designed for combined in situ imaging, analysis, and geotechnics (sampling). Specimens were selected on the basis of feature morphology, scale, and analogy to Mars rocks. Two types of morphological criteria were considered: potential signatures of extinct life (fossilized microbial filaments) and of extant life (crypto-chasmoendolithic microorganisms). The materials originated from a variety of topical martian analogue localities on Earth, including impact craters, high-latitude deserts, and hydrothermal deposits. Our in situ payload included a stereo camera, microscope, Mössbauer spectrometer, and sampling device (all space-qualified units from Beagle 2), and an array of commercial instruments, including a multi-spectral imager, an X-ray spectrometer (calibrated to the Beagle 2 instrument), a micro-Raman spectrometer, and a bespoke (custom-designed) X-ray diffractometer. All experiments were conducted within the engineering constraints of in situ operations to generate realistic data and address the practical challenges of measurement. Our results demonstrate the importance of an integrated approach for this type of work. Each technique made a proportionate contribution to the overall effectiveness of our "pseudopayload" for biogenic assessment of samples yet highlighted a number of limitations of current space instrument technology for in situ astrobiology.

Suspected microbial-induced sedimentary structures (MISS) in Furongian (Upper Cambrian; Jiangshanian, Sunwaptan) strata of the Upper Mississippi Valley

USGS Publications Warehouse

Eoff, Jennifer D.

2014-01-01

The Furongian (Upper Cambrian; Jiangshanian and Sunwaptan) Tunnel City Group (Lone Rock Formation and Mazomanie Formation), exposed in Wisconsin and Minnesota, represents a shallow-marine clastic environment during a time of exceptionally high sea level. Lithofacies from shoreface to transitional-offshore settings document deposition in a wave- and storm-dominated sea. Flooding of the cratonic interior was associated with formation of a condensed section and the extensive development of microbial mats. Biolamination, mat fragments, wrinkle structures, and syneresis cracks are preserved in various sandstone facies of the Lone Rock Formation, as is evidence for the cohesive behavior of sand. These microbial-induced sedimentary structures (MISS) provide unique signals of biological–physical processes that physical structures alone cannot mimic. The MISS are associated with a trilobite extinction event in the Steptoean–Sunwaptan boundary interval. This may support recent claims that Phanerozoic microbial mats were opportunistic disaster forms that flourished during periods of faunal turnover. Further investigation of stratigraphic, taphonomic, and other potential biases, however, is needed to fully test this hypothesis.

Evolution and Extinction Dynamics in Rugged Fitness Landscapes

NASA Astrophysics Data System (ADS)

Sibani, Paolo; Brandt, Michael; Alstrøm, Preben

After an introductory section summarizing the paleontological data and some of their theoretical descriptions, we describe the "reset" model and its (in part analytically soluble) mean field version, which have been briefly introduced in Letters.1,2 Macroevolution is considered as a problem of stochastic dynamics in a system with many competing agents. Evolutionary events (speciations and extinctions) are triggered by fitness records found by random exploration of the agents' fitness landscapes. As a consequence, the average fitness in the system increases logarithmically with time, while the rate of extinction steadily decreases. This non-stationary dynamics is studied by numerical simulations and, in a simpler mean field version, analytically. We also consider the effect of externally added "mass" extinctions. The predictions for various quantities of paleontological interest (life-time distribution, distribution of event sizes and behavior of the rate of extinction) are robust and in good agreement with available data.

Climate warming drives local extinction: Evidence from observation and experimentation.

PubMed

Panetta, Anne Marie; Stanton, Maureen L; Harte, John

2018-02-01

Despite increasing concern about elevated extinction risk as global temperatures rise, it is difficult to confirm causal links between climate change and extinction. By coupling 25 years of in situ climate manipulation with experimental seed introductions and both historical and current plant surveys, we identify causal, mechanistic links between climate change and the local extinction of a widespread mountain plant ( Androsace septentrionalis ). Climate warming causes precipitous declines in population size by reducing fecundity and survival across multiple life stages. Climate warming also purges belowground seed banks, limiting the potential for the future recovery of at-risk populations under ameliorated conditions. Bolstered by previous reports of plant community shifts in this experiment and in other habitats, our findings not only support the hypothesis that climate change can drive local extinction but also foreshadow potentially widespread species losses in subalpine meadows as climate warming continues.

Climate warming drives local extinction: Evidence from observation and experimentation

PubMed Central

Panetta, Anne Marie; Stanton, Maureen L.; Harte, John

2018-01-01

Despite increasing concern about elevated extinction risk as global temperatures rise, it is difficult to confirm causal links between climate change and extinction. By coupling 25 years of in situ climate manipulation with experimental seed introductions and both historical and current plant surveys, we identify causal, mechanistic links between climate change and the local extinction of a widespread mountain plant (Androsace septentrionalis). Climate warming causes precipitous declines in population size by reducing fecundity and survival across multiple life stages. Climate warming also purges belowground seed banks, limiting the potential for the future recovery of at-risk populations under ameliorated conditions. Bolstered by previous reports of plant community shifts in this experiment and in other habitats, our findings not only support the hypothesis that climate change can drive local extinction but also foreshadow potentially widespread species losses in subalpine meadows as climate warming continues. PMID:29507884

Trace fossils of microbial colonization on Mars: Criteria for search and for sample return

NASA Technical Reports Server (NTRS)

Friedmann, E. I.

1988-01-01

The recent discovery of microbial trace-fossil formation in the frigid Ross Desert of Antarctica suggests that early primitive life on Mars may have left behind similar signatures. These trace fossils are apparent as chemical or physical changes in rock (or sediment) structure (or chemistry) caused by the activity of organisms. Life on Mars, if it ever existed, almost certainly did not evolve above the level of microorganisms, and this should be considered in search for fossil life. For the reasons detailed here, microbial trace fossils seem to be a better and more realistic target for search than would be true microbial fossils (remnants of cellular structures).

Similarities between several major extinctions and preservation of life - biomolecules to geomolecules: an interdisciplinary approach

NASA Astrophysics Data System (ADS)

Grice, Kliti; Melendez, Ines; Tulipani, Svenja

2015-04-01

WA Organic and Isotope Geochemistry Centre, The Institute for Geoscience Research, Department of Chemistry, Curtin University, GPO Box U1987 Perth, WA 6845, Australia Photic zone euxinia in ancient seas has proven signficant for elucidating biogeochemical changes that occurred during three of the five Phanerozoic mass extinctions, viz. the Permian/Triassic [1], Triassic/Jurassic [2] and Late Givetian (Devonian) [3] events, including the conditions associated with exceptional fossil preservation [4,5]. The series of events preceding, during and post the Triassic/Jurassic event, is remarkably similar to that reported for the Permian/Triassic extinction, the largest of the Phanerozoic Era. For the Late Givetian event, the first forests evolved and reef-building communities and associated fauna in tropical, marine settings were largely affected [6]. Sedimentary rocks on the margins of the Devonian reef slope in the Canning Basin, WA, contain novel biomarker, isotopic and palynological evidence for the existence of a persistently stratified water-column (comprising a freshwater lens overlying a more saline hypolimnion), with prevailing anoxia and PZE [7]. Also from the Canning Basin, the exceptional preservation of a suite of biomarkers in a Devonian invertebrate fossil within a carbonate concretion supports rapid encasement of the crustacean (identified by % of C27 steroids) enhanced by sulfate reducing bacteria under PZE conditions. PZE plays a critical role in fossil (including soft tissue) and biomarker preservation. In the same sample, the oldest occurrence of intact sterols shows that they have been preserved for ca. 380 Ma [5]. The exceptional preservation of this biomass is attributed to microbially induced carbonate encapsulation, preventing full decomposition and transformation, thus extending the record of sterol occurrences in the geosphere by 250 Ma. A suite of ca. 50 diagenetic transformation products of sterols is also reported, showing the unique coexistence of biomolecules and geomolecules in the same sample, previously assumed unfeasible. The coexistence of steroids in a diagenetic continuum, ranging from stenols to triaromatic steroids, is attributed to microbially mediated eogenetic processes. Under exceptional conditions concretions preserve biomolecules at extraordinary levels, providing a new opportunity to study the distributions of biomolecules in deep time and thereby improving our understanding of the evolution of life where fossils are rarely preserved. References [1] Grice K., Cao C., Love G.D., Bottcher M.E., Twitchett R,, Grosjean E., Summons R.E., Turgeon S., Dunning W.J. & Jin Y., 2005. Photic zone euxinia during the Permian-Triassic superanoxic event. Science. 307, 706-709. [2] Jaraula C.M.B, Grice K., Twitchett R.,J., Böttcher M.E., Le Metayer P., Dastidar A.G. & Opazo L.F., 2013. Elevated pCO2 leading to Late triassic extinction, persistent photic zone euxinia, and rising sea levels. Geology 41, 955-958. [3] Tulipani S., Grice K., Greenwood P.F, Haines P., Sauer P., Schimmelmann A., Summons R.E., Foster C.B., Böttcher M.E., Playton, T. & Schwark L., 2014a. Changes in palaeoenvironmental conditions in Late Devonian Reef systems from the Canning Basin, WA: A biomarker and stable isotope approach. Gondwana Research, in press. [4] Melendez I., Grice K., Trinajstic K., Ladjavardi M., Thompson K. & Greenwood P.F., 2013a. Biomarkers reveal the role of photic zone euxinia in exceptional fossil preservation: An organic geochemical perspective. Geology 41, 123-126. [5] Melendez I., Grice K. & Schwark L., 2013b. Exceptional preservation of palaeozoic steroids in a diagenetic continuum. Nature Scientific Reports. 3. [6] Grice K., Lu H., Atahan P., Hallmann, C., Asif M., Greenwood P.F., Tulipani S., Maslen E., Williford W.H. & Dodson J. 2009. New insights into the origin of perlyene in geological samples Geochimica et Cosmochimica Acta, 73, 6531-6543. [7] Tulipani S., Grice K., Greenwood P.F., Schwark L., Summons R.E., Böttcher M.E. & Foster C.B., 2014b. Molecular proxies as indicators of freshwater incursion-driven salinity stratification. Geochemistry, Geophysics, Geosystems, accepted.

Preservation of Reduced Carbon on Mars: Implications for Understanding Habitability

NASA Technical Reports Server (NTRS)

Conrad, Pamela; Fogel, Marilyn; Steele, Andrew; Summons, Roger E.

2007-01-01

Upcoming Mars missions (e.g., Mars Science Laboratory, ExoMars, Astrobiology Field Laboratory, and Mars Sample Return) will search for evidence of extant and fossil microbial habitats and the potential for future habitation. Understanding the distribution and composition of reduced carbon (or organic carbon) is critical for unraveling the Martian carbon cycle, potential for life, and possible biosignature record. Reduced carbon may be produced from biological, geochemical, or interstellar processes; however, evidence for reduced carbon on Mars is lacking with the exception of parts per billion of atmospheric methane. In contrast, abundant atmospheric carbon dioxide may reflect surface oxidation of reduced carbon and accumulation over geological timescales. This suggests that there is an undetected or lost pool of reduced carbon - a pool that may host molecular biosignatures, a characteristic of extant or extinct habitability. In this presentation, we will evaluate factors influencing the preservation potential for organic molecules in rocks on Earth and Martian. We,draw examples from organic molecules in sulfates, basalts, and ancient shales from Mars-analog settings to show how the distribution of organics and their structural patterns will aid Mars habitability studies.

Postnatal development of neurotransmitter systems and their relevance to extinction of conditioned fear.

PubMed

Kim, Jee Hyun; Perry, Christina J; Ganella, Despina E; Madsen, Heather B

2017-02-01

Remembering and forgetting are fundamental features of an organism. Extinction is a type of forgetting where there is a decrease in the significance and/or the meaning of an associative memory when elements of that memory no longer predict one another. The neural mechanisms underlying extinction of fear memories have been extensively studied in the laboratory because extinction processes are clinically relevant to exposure therapies that treat anxiety disorders. However, only in the last decade have we begun to unveil the similarities and differences in plasticity underlying extinction across development. So far it is clear that extinction is a developmentally dissociated process in behavior and in pharmacology, however there are many large gaps in the literature in understanding how the developmental trajectory of different neurotransmitters contribute to changes in the nature of extinction across development. We attempt to address these gaps in the present review. Major neurotransmitter systems including the glutamatergic and GABAergic systems, the monoamines, the endogenous opioid and cannabinoid systems, acetylcholines, and neuropeptides such as oxytocin have all been identified to play some role in extinction of fear memories and have been covered in this review. We hope to facilitate more research into mechanisms of extinction at different stages of life, especially noting that mental disorders are increasingly classified as neurodevelopmental disorders. Copyright © 2016 Elsevier Inc. All rights reserved.

Revisiting the origin and diversification of vascular plants through a comprehensive Bayesian analysis of the fossil record.

PubMed

Silvestro, Daniele; Cascales-Miñana, Borja; Bacon, Christine D; Antonelli, Alexandre

2015-07-01

Plants have a long evolutionary history, during which mass extinction events dramatically affected Earth's ecosystems and its biodiversity. The fossil record can shed light on the diversification dynamics of plant life and reveal how changes in the origination-extinction balance have contributed to shaping the current flora. We use a novel Bayesian approach to estimate origination and extinction rates in plants throughout their history. We focus on the effect of the 'Big Five' mass extinctions and on estimating the timing of origin of vascular plants, seed plants and angiosperms. Our analyses show that plant diversification is characterized by several shifts in origination and extinction rates, often matching the most important geological boundaries. The estimated origin of major plant clades predates the oldest macrofossils when considering the uncertainties associated with the fossil record and the preservation process. Our findings show that the commonly recognized mass extinctions have affected each plant group differently and that phases of high extinction often coincided with major floral turnovers. For instance, after the Cretaceous-Paleogene boundary we infer negligible shifts in diversification of nonflowering seed plants, but find significantly decreased extinction in spore-bearing plants and increased origination rates in angiosperms, contributing to their current ecological and evolutionary dominance. © 2015 The Authors. New Phytologist © 2015 New Phytologist Trust.

The extinct animal show: the paleoimagery tradition and computer generated imagery in factual television programs.

PubMed

Campbell, Vincent

2009-03-01

Extinct animals have always been popular subjects for the media, in both fiction, and factual output. In recent years, a distinctive new type of factual television program has emerged in which computer generated imagery is used extensively to bring extinct animals back to life. Such has been the commercial audience success of these programs that they have generated some public and academic debates about their relative status as science, documentary, and entertainment, as well as about their reflection of trends in factual television production, and the aesthetic tensions in the application of new media technologies. Such discussions ignore a crucial contextual feature of computer generated extinct animal programs, namely the established tradition of paleoimagery. This paper examines a selection of extinct animal shows in terms of the dominant frames of the paleoimagery genre. The paper suggests that such an examination has two consequences. First, it allows for a more context-sensitive evaluation of extinct animal programs, acknowledging rather than ignoring relevant representational traditions. Second, it allows for an appraisal and evaluation of public and critical reception of extinct animal programs above and beyond the traditional debates about tensions between science, documentary, entertainment, and public understanding.

Early-life exposure to fibroblast growth factor-2 facilitates context-dependent long-term memory in developing rats.

PubMed

Graham, Bronwyn M; Richardson, Rick

2010-06-01

Fibroblast growth factor-2 (FGF2) is a potent neurotrophic factor that is involved in brain development and the formation of long-term memory. It has recently been shown that acute FGF2, administered at the time of learning, enhances long-term memory for contextual fear conditioning as well as extinction of conditioned fear in developing rats. As other research has shown that administering FGF2 on the first day of life leads to long-term morphological changes in the hippocampus, in the present study we investigated whether early life exposure to FGF2 affects contextual fear conditioning, and renewal following extinction, later in life. Experiment 1 demonstrated that a single injection of FGF2 on Postnatal Day (PND) 1 did not lead to any detectable changes in contextual fear conditioning in PND 16 or PND 23 rats. Experiments 2 and 3 demonstrated that 5 days of injections of FGF2 (from PND 1-5) facilitated contextual fear conditioning in PND 16 and PND 23 rats. Experiment 4 demonstrated that the observed facilitation of memory was not due to FGF2 increasing rats' sensitivity to foot shock. Experiment 5 showed that early life exposure to FGF2 did not affect learning about a discrete conditioned stimulus, but did allow PND 16 rats to use contextual information in more complex ways, leading to context-dependent extinction of conditioned fear. These results further implicate FGF2 as a critical signal involved in the development of learning and memory.

Strangelove Ocean and Deposition of Unusual Shallow-Water Carbonates After the End-Permian Mass Extinction

NASA Technical Reports Server (NTRS)

Rampino, Michael R.; Caldeira, Ken

2003-01-01

The severe mass extinction of marine and terrestrial organisms at the end of the Permian Period (approx. 251 Ma) was accompanied by a rapid negative excursion of approx. 3 to 4 per mil in the carbon-isotope ratio of the global surface oceans and atmosphere that persisted for some 500,000 into the Early Triassic. Simulations with an ocean-atmosphere/carbon-cycle model suggest that the isotope excursion can be explained by collapse of ocean primary productivity (a Strangelove Ocean) and changes in the delivery and cycling of carbon in the ocean and on land. Model results also suggest that perturbations of the global carbon cycle resulting from the extinctions led to short-term fluctuations in atmospheric pCO2 and ocean carbonate deposition, and to a long-term (>1 Ma) decrease in sedimentary burial of organic carbon in the Triassic. Deposition of calcium carbonate is a major sink of river-derived ocean alkalinity and for CO2 from the ocean/atmosphere system. The end of the Permian was marked by extinction of most calcium carbonate secreting organisms. Therefore, the reduction of carbonate accumulation made the oceans vulnerable to a build-up of alkalinity and related fluctuations in atmospheric CO2. Our model results suggest that an increase in ocean carbonate-ion concentration should cause increased carbonate accumulation rates in shallow-water settings. After the end-Permian extinctions, early Triassic shallow-water sediments show an abundance of abiogenic and microbial carbonates that removed CaCO3 from the ocean and may have prevented a full 'ocean-alkalinity crisis' from developing.

Microbial Fossils from Terrestrial Subsurface Hydrothermal Environments: Examples and Implications for Mars

NASA Technical Reports Server (NTRS)

Hofmann, Beda A.; Farmer, Jack; Chang, Sherwood (Technical Monitor)

1997-01-01

The recognition of biological signatures in ancient epithermal deposits has special relevance for studies of early blaspheme evolution and in exploring for past life on Mars. Recently, proposals for the existence of an extensive subsurface blaspheme on Earth, dominated by chemoautotrophic microbial life, has gained prominence. However, reports of fossilized microbial remains, or biosedimentary structures (e.g. stromatolites) from the deposits of ancient subsurface systems, are rare. Microbial preservation is favoured where high population densities co-exist with rapid mineral precipitation. Near-surface epithetical systems with strong gradients in temperature and redox are good candidates for the abundant growth and fossilization of microorganisms, and are also favorable environments for the precipitation of ore minerals. Therefore, we might expect microbial remain, to be particularly well preserved in various kinds of hydrothermal and diagenetic mineral precipitates that formed below the upper temperature limit for life (approx. 120 C).

Revisiting life strategy concepts in environmental microbial ecology.

PubMed

Ho, Adrian; Di Lonardo, D Paolo; Bodelier, Paul L E

2017-03-01

Microorganisms are physiologically diverse, possessing disparate genomic features and mechanisms for adaptation (functional traits), which reflect on their associated life strategies and determine at least to some extent their prevalence and distribution in the environment. Unlike animals and plants, there is an unprecedented diversity and intractable metabolic versatility among bacteria, making classification or grouping these microorganisms based on their functional traits as has been done in animal and plant ecology challenging. Nevertheless, based on representative pure cultures, microbial traits distinguishing different life strategies had been proposed, and had been the focus of previous reviews. In the environment, however, the vast majority of naturally occurring microorganisms have yet to be isolated, restricting the association of life strategies to broad phylogenetic groups and/or physiological characteristics. Here, we reviewed the literature to determine how microbial life strategy concepts (i.e. copio- and oligotrophic strategists, and competitor-stress tolerator-ruderals framework) are applied in complex microbial communities. Because of the scarcity of direct empirical evidence elucidating the associated life strategies in complex communities, we rely heavily on observational studies determining the response of microorganisms to (a)biotic cues (e.g. resource availability) to infer microbial life strategies. Although our focus is on the life strategies of bacteria, parallels were drawn from the fungal community. Our literature search showed inconsistency in the community response of proposed copiotrophic- and oligotrophic-associated microorganisms (phyla level) to changing environmental conditions. This suggests that tracking microorganisms at finer phylogenetic and taxonomic resolution (e.g. family level or lower) may be more effective to capture changes in community response and/or that edaphic factors exert a stronger effect in community response. We discuss the limitations and provide recommendations for future research applying microbial life strategies in environmental studies. © FEMS 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

A Field-Based Biomimicry Exercise Helps Students Discover Connections among Biodiversity, Form and Function, and Species Conservation during Earth's Sixth Extinction

ERIC Educational Resources Information Center

Soja, Constance M.

2014-01-01

In a first-year seminar on mass extinctions, a field-based, paleontology-focused exercise promotes active learning about Earth's biodiversity, form and function, and the biomimicry potential of ancient and modern life. Students study Devonian fossils at a local quarry and gain foundational experience in describing anatomy and relating form to…

The fossil record of evolution: Analysis of extinction

NASA Technical Reports Server (NTRS)

Raup, D. M.

1986-01-01

There is increasing evidence that events in space have had direct effects on Earth history and on the history of life on Earth. Nowhere is this more evident than in mass extinction. The biosphere has undergone repeated devastation caused by relatively short-lived environmental stress, with species kill rates up to 80 and 95%. For five of the mass extinctions, geochemical or other evidence was reported suggesting large body impact as the cause of the environmental stress producing the extinctions. It was argued on statistical ground that the major extinction events are uniformly periodic in geological time. If it is true that large body impact is a principal cause of mass extinctions and if the periodicity is real, than a cosmic driving mechanism is inescapable. Paleontological data sets were developed which detail the ranges in geological time of about 4,000 families and 25,000 genera of fossil marine organisms. Analyses to date have concentrated on the most recent 250 million years. Associated with these studies are analyses of other aspects of Earth history which may have signatures indicative of extraterrestrial effects.

Influence of Feeding and Body Mass on IUCN Extinction Threat of Extant Marine and Terrestrial Mammals

NASA Astrophysics Data System (ADS)

Lam, G.; Wang, I. M.; Heim, N.; Payne, J.

2016-12-01

Extinction is a fundamental phenomenon that has been occurring for millions of years and is critical to the development of new organisms and niches. However, the current extinction rate is now one hundred to a thousand times the past background extinction rate due to human influences and rapidly changing environments. Research on geographic range and life history has been performed in extinction analyses, but rarely any on feeding type and trophic level. We compiled data from the IUCN Red List Database, Paleobiology database and diets from Pauly et al. (1998) to explore the possible correlation between various aspects of ecology and extinction threat. By doing so, we can better understand where to focus our conservation efforts, and what type of approach will reap the best results. We discovered that terrestrial carnivores are slightly less at risk than herbivores and omnivores, and that the feeding and tiering of marine mammals have minimal effect on their IUCN threat level. Body mass is the most influential factor on risk level, with larger adult body masses being most at risk.

The fossil record of evolution: Data on diversification and extinction

NASA Technical Reports Server (NTRS)

Sepkoski, J. J., Jr.

1991-01-01

Understanding of the evolution of complex life, and of the roles that changing terrestrial and extraterrestrial environments played in life's history, is dependent upon synthetic knowledge of the fossil record. Paleontologists have been describing fossils for more that two centuries. However, much of this information is dispersed in monographs and journal articles published throughout the world. Over the past several years, this literature was surveyed, and a data base on times of origination and extinction of fossil genera was compiled. The data base, which now holds approximately 32,000 genera, covers all taxonomic groups of marine animals, incorporates the most recent taxonomic assignments, and uses a detailed global time framework that can resolve originations and extinctions to intervals averaging three million years in duration. These data can be used to compile patterns of global biodiversity, measure rates of taxic evolution, and test hypotheses concerning adaptive radiations, mass extinctions, etc. Thus far, considerable effort was devoted to using the data to test the hypothesis of periodicity of mass extinction. Rates of extinction measured from the data base have also been used to calibrate models of evolutionary radiations in marine environments. It was observed that new groups, or clades of animals (i.e., orders and classes) tend to reach appreciable diversity first in nearshore environments and then to radiate in more offshore environments; during decline, these clades may disappear from the nearshore while persisting in offshore, deep water habitats. These observations have led to suggestions that there is something special about stressful or perturbed environments that promotes the evolution of novel kinds of animals that can rapidly replace their predecessors. The numerical model that is being investigated to study this phenomenon treats environments along onshore-offshore gradients as if they were discrete habitats. Other aspects of this investigation are presented.

Early life programming of innate fear and fear learning in adult female rats.

PubMed

Stevenson, Carl W; Meredith, John P; Spicer, Clare H; Mason, Rob; Marsden, Charles A

2009-03-02

The early rearing environment can impact on emotional reactivity and learning later in life. In this study the effects of neonatal maternal separation (MS) on innate fear and fear learning were assessed in the adult female rat. Pups were subjected to MS (360 min), brief handling (H; 15 min), or animal facility rearing (AFR) on post-natal days 2-14. In the first experiment, innate fear was tested in the open field. No differences between the early rearing groups were observed in unconditioned fear. In the second experiment, separate cohorts were used in a 3-day fear learning paradigm which tested the acquisition (Day 1), expression and extinction (both Day 2) of conditioning to an auditory cue; extinction recall was determined as well (Day 3). Contextual fear conditioning was also assessed prior to cue presentations on Days 2 and 3. Whereas MS attenuated the acquisition and expression of fear conditioning to the cue, H potentiated extinction learning. Cue-induced fear was reduced on Day 3, compared to Day 2, indicating that the recall of extinction learning was evident; however, no early rearing group differences in extinction recall were observed. Similarly, while contextual fear was decreased on Day 3, compared to Day 2, there were no differences between the early rearing groups on either day tested. The present findings of altered cue-conditioned fear learning, in the absence of innate fear changes, lend further support for the important role of the early rearing environment in mediating cognition in adulthood.

Life-history correlates of extinction risk and recovery potential.

PubMed

Hutchings, Jeffrey A; Myers, Ransom A; García, Verónica B; Lucifora, Luis O; Kuparinen, Anna

2012-06-01

Extinction risk is inversely associated with maximum per capita population growth rate (r(max)). However, this parameter is not known for most threatened species, underscoring the value in identifying correlates of r(max) that, in the absence of demographic data, would indirectly allow one to identify species and populations at elevated risk of extinction and their associated recovery potential. We undertook a comparative life-history analysis of 199 species from three taxonomic classes: Chondrichthyes (e.g., sharks; n = 82), Actinopterygii (teleost or bony fishes; n = 47), and Mammalia (n = 70, including 16 marine species). Median r(max) was highest for (and similar between) terrestrial mammals (0.71) and teleosts (0.43), significantly lower among chondrichthyans (0.26), and lower still in marine mammals (0.07). Age at maturity was the primary (and negative) correlate of r(max). In contrast, although body size was negatively correlated with r(max) in chondrichthyans and mammals, evidence of an association in teleosts was equivocal, and fecundity was not related to r(max) in fishes, despite recurring assertions to the contrary. Our analyses suggest that age at maturity can serve as a universal predictor of extinction risk in fishes and mammals when r(max) itself is unknown. Moreover, in contrast to what is generally expected, the recovery potential of teleost fishes does not differ from that of terrestrial mammals. Our findings are supportive of the application of extinction-risk criteria that are based on generation time and that are independent of taxonomic affinity.

Lunar and Planetary Science XXXV: Astrobiology: Analogs and Applications to the Search for Life

NASA Technical Reports Server (NTRS)

2004-01-01

The session "Astrobiology: Analogs and Applications to the Search for Life" included the folowing reports:The Search for Life on Mars Using Macroscopically Visible Microbial Mats (Stromatolites) in 3.5/3.3 Ga Cherts from the Pilbara in Australia and Barberton in South Africa as Analogues; Life in a Mars Analog: Microbial Activity Associated with Carbonate Cemented Lava Breccias from NW Spitsbergen; Groundwater-fed Iron-rich Microbial Mats in a Freshwater Creek: Growth Cycles and Fossilization Potential of Microbial Features; Episodic Fossilization of Microorganisms on an Annual Timescale in an Anthropogenically Modified Natural Environment: Geochemical Controls and Implications for Astrobiology; Proterozoic Microfossils and Their Implications for Recognizing Life on Mars; Microbial Alteration of Volcanic Glass in Modern and Ancient Oceanic Crust as a Proxy for Studies of Extraterrestrial Material ; Olivine Alteration on Earth and Mars; Searching for an Acidic Aquifer in the R!o Tinto Basin. First Geobiology Results of MARTE Project; In-Field Testing of Life Detection Instruments and Protocols in a Mars Analogue Arctic Environment; Habitability of the Shallow Subsurface on Mars: Clues from the Meteorites; Mars Analog Rio Tinto Experiment (MARTE): 2003 Drilling Campaign to Search for a Subsurface Biosphere at Rio Tinto Spain; Characterization of the Organic Matter in an Archean Chert (Warrawoona, Australia); and The Solfatara Crater, Italy: Characterization of Hydrothermal Deposits, Biosignatures and Their Astrobiological Implication.

Using Interactive eBooks To Educate Children About Sub-seafloor Science

NASA Astrophysics Data System (ADS)

Kurtz, K.

2016-02-01

Sub-seafloor scientific research has the power to spark the imaginations of elementary age children with its mysterious nature, cutting-edge research, and its connections to kid friendly science topics, such as volcanoes, the extinction of dinosaurs and the search for extraterrestrial life. These factors have been utilized to create two interactive eBooks for elementary students and teachers, integrating high quality science information, highly engaging and age-appropriate illustrations, and rhyming text. The first eBook introduces children to the research and discoveries of the JOIDES Resolution research vessel. The creators were able to build-on the knowledge gained in creating the first eBook to create a second eBook that focuses on the discoveries of microbial life in the sub-seafloor. The eBooks present information as traditional, linear, illustrated children's books, but the eBook format allows the book to be available online for free to anyone and allows teachers to project the book on a classroom screen so all students can easily see the illustrations. The iPad versions also provide an interactive, learner-led educational experience, where cognitively appropriate videos, photos and other forms of information can be accessed with the tap of a finger to answer reader questions and enrich their learning experience. These projects provide an example and model of the products that can result from high level and meaningful partnerships between scientists, educators, artists and writers.

Early Triassic environmental dynamics and microbial development during the Smithian-Spathian transition (Lower Weber Canyon, Utah, USA)

NASA Astrophysics Data System (ADS)

Grosjean, Anne-Sabine; Vennin, Emmanuelle; Olivier, Nicolas; Caravaca, Gwénaël; Thomazo, Christophe; Fara, Emmanuel; Escarguel, Gilles; Bylund, Kevin G.; Jenks, James F.; Stephen, Daniel A.; Brayard, Arnaud

2018-01-01

The Early Triassic biotic recovery following the end-Permian mass extinction is well documented in the Smithian-Spathian Thaynes Group of the western USA basin. This sedimentary succession is commonly interpreted as recording harsh conditions of various shallow marine environments where microbial structures flourished. However, recent studies questioned the relevance of the classical view of long-lasting deleterious post-crisis conditions and suggested a rapid diversification of some marine ecosystems during the Early Triassic. Using field and microfacies analyses, we investigate a well-preserved Early Triassic marine sedimentary succession in Lower Weber Canyon (Utah, USA). The identification of microbial structures and their depositional settings provide insights on factors controlling their morphologies and distribution. The Lower Weber Canyon sediments record the vertical evolution of depositional environments from a middle Smithian microbial and dolosiliciclastic peritidal system to a late Smithian-early Spathian bioclastic, muddy mid ramp. The microbial deposits are interpreted as Microbially Induced Sedimentary Structures (MISS) that developed either (1) in a subtidal mid ramp where microbial wrinkles and chips are associated with megaripples characterizing hydrodynamic conditions of lower flow regime, or (2) in protected areas of inter- to subtidal inner ramp where they formed laminae and domal structures. Integrated with other published data, our investigations highlight that the distribution of these microbial structures was influenced by the combined effects of bathymetry, hydrodynamic conditions, lithology of the substrat physico-chemical characteristics of the depositional environment and by the regional relative sea-level fluctuations. Thus, we suggest that local environmental factors and basin dynamics primarily controlled the modalities of microbial development and preservation during the Early Triassic in the western USA basin.

Mass extinctions: Persistent problems and new directions

NASA Technical Reports Server (NTRS)

Jablonski, D.

1994-01-01

Few contest that mass extinctions have punctuated the history of life, or that those events were so pervasive environmentally, taxonomically, and geographically that physical forcing factors were probably involved. However, consensus remains elusive on the nature of those factors, and on how a given perturbation - impact, volcanism, sea-level change, or ocean anoxic event - could actually generate the observed intensity and selectivity of biotic losses. At least two basic problems underlie these long-standing disagreements: difficulties in resolving the fine details of taxon ranges and abundances immediately prior to and after an extinction boundary and the scarcity of simple, unitary cause-and-effect relations in complex biological systems.

Timing and pacing of the Late Devonian mass extinction event regulated by eccentricity and obliquity.

PubMed

De Vleeschouwer, David; Da Silva, Anne-Christine; Sinnesael, Matthias; Chen, Daizhao; Day, James E; Whalen, Michael T; Guo, Zenghui; Claeys, Philippe

2017-12-22

The Late Devonian envelops one of Earth's big five mass extinction events at the Frasnian-Famennian boundary (374 Ma). Environmental change across the extinction severely affected Devonian reef-builders, besides many other forms of marine life. Yet, cause-and-effect chains leading to the extinction remain poorly constrained as Late Devonian stratigraphy is poorly resolved, compared to younger cataclysmic intervals. In this study we present a global orbitally calibrated chronology across this momentous interval, applying cyclostratigraphic techniques. Our timescale stipulates that 600 kyr separate the lower and upper Kellwasser positive δ 13 C excursions. The latter excursion is paced by obliquity and is therein similar to Mesozoic intervals of environmental upheaval, like the Cretaceous Ocean-Anoxic-Event-2 (OAE-2). This obliquity signature implies coincidence with a minimum of the 2.4 Myr eccentricity cycle, during which obliquity prevails over precession, and highlights the decisive role of astronomically forced "Milankovitch" climate change in timing and pacing the Late Devonian mass extinction.

Post-retrieval extinction in adolescence prevents return of juvenile fear

PubMed Central

Jones, Carolyn E.

2016-01-01

Traumatic experiences early in life can contribute to the development of mood and anxiety disorders that manifest during adolescence and young adulthood. In young rats exposed to acute fear or stress, alterations in neural development can lead to enduring behavioral abnormalities. Here, we used a modified extinction intervention (retrieval+extinction) during late adolescence (post-natal day 45 [p45]), in rats, to target auditory Pavlovian fear associations acquired as juveniles (p17 and p25). The effects of adolescent intervention were examined by assessing freezing as adults during both fear reacquisition and social transmission of fear from a cagemate. Rats underwent testing or training at three time points across development: juvenile (p17 or p25), adolescent (p45), and adult (p100). Retrieval+extinction during late adolescence prevented social reinstatement and recovery over time of fears initially acquired as juveniles (p17 and p25, respectively). Adolescence was the only time point tested here where retrieval+extinction prevented fear recall of associations acquired 20+ days earlier. PMID:27634147

Theory of invasion extinction dynamics in minimal food webs

NASA Astrophysics Data System (ADS)

Haerter, Jan O.; Mitarai, Namiko; Sneppen, Kim

2018-02-01

When food webs are exposed to species invasion, secondary extinction cascades may be set off. Although much work has gone into characterizing the structure of food webs, systematic predictions on their evolutionary dynamics are still scarce. Here we present a theoretical framework that predicts extinctions in terms of an alternating sequence of two basic processes: resource depletion by or competitive exclusion between consumers. We first propose a conceptual invasion extinction model (IEM) involving random fitness coefficients. We bolster this IEM by an analytical, recursive procedure for calculating idealized extinction cascades after any species addition and simulate the long-time evolution. Our procedure describes minimal food webs where each species interacts with only a single resource through the generalized Lotka-Volterra equations. For such food webs ex- tinction cascades are determined uniquely and the system always relaxes to a stable steady state. The dynamics and scale invariant species life time resemble the behavior of the IEM, and correctly predict an upper limit for trophic levels as observed in the field.

Theory of invasion extinction dynamics in minimal food webs.

PubMed

Haerter, Jan O; Mitarai, Namiko; Sneppen, Kim

2018-02-01

When food webs are exposed to species invasion, secondary extinction cascades may be set off. Although much work has gone into characterizing the structure of food webs, systematic predictions on their evolutionary dynamics are still scarce. Here we present a theoretical framework that predicts extinctions in terms of an alternating sequence of two basic processes: resource depletion by or competitive exclusion between consumers. We first propose a conceptual invasion extinction model (IEM) involving random fitness coefficients. We bolster this IEM by an analytical, recursive procedure for calculating idealized extinction cascades after any species addition and simulate the long-time evolution. Our procedure describes minimal food webs where each species interacts with only a single resource through the generalized Lotka-Volterra equations. For such food webs ex- tinction cascades are determined uniquely and the system always relaxes to a stable steady state. The dynamics and scale invariant species life time resemble the behavior of the IEM, and correctly predict an upper limit for trophic levels as observed in the field.

Phosphorus as a potential guide in the search for extinct life on Mars.

PubMed

Weckwerth, G; Schidlowski, M

1995-03-01

In contrast to the search for extant organisms, the quest for fossil remains of life on Mars need not be guided by the presence of water and organic compounds on the present surface. An appropriate tracer might be the element phosphorus which is a common constituent of living systems. Utilizing terrestrial analogues, it should preferentially exist in the form of sedimentary calcium phosphate (phosphorites), which would have readily resisted changing conditions on Mars. Moreover, higher ratios of P/Th in phosphorites in comparison to calcium phosphates from magmatic rocks give us the possibility to distinguish them from inorganically formed phosphorus deposits at or close to the Martian surface. Identification of anomalous phosphorus enrichments by remote sensing or in situ analysis could be promising approaches for selecting areas preferentially composed of rocks with remains of extinct life.

Impact-driven ocean acidification as a mechanism of the Cretaceous-Palaeogene mass extinction

NASA Astrophysics Data System (ADS)

Ohno, S.; Kadono, T.; Kurosawa, K.; Hamura, T.; Sakaiya, T.; Shigemori, K.; Hironaka, Y.; Sano, T.; Watari, T.; Otani, K.; Matsui, T.; Sugita, S.

2014-12-01

The Cretaceous-Paleogene (K-Pg) mass extinction event at 66 Ma triggered by a meteorite impact is one of the most drastic events in the history of life on the Earth. Many hypotheses have been proposed as killing mechanisms induced by the impact, including global darkness due to high concentrations of atmospheric silicate dust particles, global wildfires, greenhouse warming due to CO2 release, and global acid rain. However, the actual mechanism of extinction remains highly controversial. One of the most important clues for understanding the extinction mechanism is the marine plankton record, which indicates that plankton foraminifera, living in the near-surface ocean, suffered very severe extinction in contrast to the high survival ratio of benthic foraminifera. No proposed extinction mechanism can account for this globally observed marine extinction pattern. Here, we show that SO3-rich impact vapor was released in the K-Pg impact and resulted in the occurrence of global acid rain and sudden severe ocean acidification at the end of the Cretaceous, based on the new results of impact experiments at velocities much higher than previous works (> 10 km/s) and theoretical calculations on aerosol coagulation processes. Sudden severe ocean acidification can account for many of the features of various geologic records at the K?Pg boundary, including severe extinction of plankton foraminifera. This extinction mechanism requires impact degassing of SO3-rich vapor, which is not necessarily found at impact sites other than Chicxulub, suggesting that the degree of mass extinction was controlled greatly by target lithology.

Fear of cultural extinction and psychopathology among Mandaean refugees: an exploratory path analysis.

PubMed

Nickerson, Angela; Bryant, Richard A; Brooks, Robert; Steel, Zachary; Silove, Derrick

2009-01-01

The Mandaeans are a small religious community originating from Iraq and Iran who are facing the possibility of cultural extinction within the next few generations. This study aimed to examine the relationships between life experiences, psychopathology and fear of cultural extinction in Mandaean refugees. A survey was conducted of 315 adult Iraqi Mandaean refugees living in Australia. Past traumatic experiences and current resettlement difficulties were assessed. Mental health outcomes were also examined, including measures of posttraumatic stress disorder (PTSD) and depression. Fear of cultural extinction was measured by items developed in consultation with the Mandaean community. A path analysis was employed to investigate the relationship between trauma, living difficulties, PTSD, depression, and fear of cultural extinction. Results indicated that trauma and living difficulties impacted indirectly on fear of cultural extinction, while PTSD (and not depression) directly predicted levels of anxiety about the Mandaean culture ceasing to exist. The current findings indicate that past trauma and symptoms of posttraumatic stress contribute to fear of cultural extinction. Exposure to human rights violations enacted on the basis of religion has significant mental health consequences that extend beyond PTSD. The relationship between perception of threat, PTSD, and fear of cultural extinction is considered in the context of cognitive models of traumatic stress. Government immigration policy must prioritize the reunification of small, endangered groups to sustain cultural traditions. Treatment interventions implemented with cultural groups facing extinction should take into consideration anxiety about loss of culture.

Predicting primate local extinctions within "real-world" forest fragments: a pan-neotropical analysis.

PubMed

Benchimol, Maíra; Peres, Carlos A

2014-03-01

Understanding the main drivers of species extinction in human-modified landscapes has gained paramount importance in proposing sound conservation strategies. Primates play a crucial role in maintaining the integrity of forest ecosystem functions and represent the best studied order of tropical terrestrial vertebrates, yet primate species diverge widely in their responses to forest habitat disturbance and fragmentation. Here, we present a robust quantitative review on the synergistic effects of habitat fragmentation on Neotropical forest primates to pinpoint the drivers of species extinction across a wide range of forest patches from Mexico to Argentina. Presence-absence data on 19 primate functional groups were compiled from 705 forest patches and 55 adjacent continuous forest sites, which were nested within 61 landscapes investigated by 96 studies. Forest patches were defined in terms of their size, surrounding matrix and level of hunting pressure on primates, and each functional group was classified according to seven life-history traits. Generalized linear mixed models showed that patch size, forest cover, level of hunting pressure, home range size and trophic status were the main predictors of species persistence within forest isolates for all functional groups pooled together. However, patterns of local extinction varied greatly across taxa, with Alouatta and Callicebus moloch showing the highest occupancy rates even within tiny forest patches, whereas Brachyteles and Leontopithecus occupied fewer than 50% of sites, even in relatively large forest tracts. Our results uncover the main predictors of platyrrhine primate species extinction, highlighting the importance of considering the history of anthropogenic disturbances, the structure of landscapes, and species life-history attributes in predicting primate persistence in Neotropical forest patches. We suggest that large-scale conservation planning of fragmented forest landscapes should prioritize and set-aside large, well-connected and strictly protected forest reserves to maximize species persistence across the entire spectrum of primate life-history. © 2013 Wiley Periodicals, Inc.

The effects of early-life adversity on fear memories in adolescent rats and their persistence into adulthood.

PubMed

Chocyk, Agnieszka; Przyborowska, Aleksandra; Makuch, Wioletta; Majcher-Maślanka, Iwona; Dudys, Dorota; Wędzony, Krzysztof

2014-05-01

Adolescence is a developmental period characterized by extensive morphological and functional remodeling of the brain. The processes of brain maturation during this period may unmask malfunctions that originate earlier in life as a consequence of early-life stress (ELS). This is associated with the emergence of many psychopathologies during adolescence, particularly affective spectrum disorders. In the present study, we applied a maternal separation (MS) procedure (3h/day, on postnatal days 1-14) as a model of ELS to examine its effects on the acquisition, expression and extinction of fear memories in adolescent rats. Additionally, we studied the persistence of these memories into adulthood. We found that MS decreased the expression of both contextual (CFC) and auditory (AFC) fear conditioning in adolescent rats. Besides, MS had no impact on the acquisition of extinction learning. During the recall of extinction MS animals both, those previously subjected and not subjected to the extinction session, exhibited equally low levels of freezing. In adulthood, the MS animals (conditioned during adolescence) still displayed impairments in the expression of AFC (only in males) and CFC. Furthermore, the MS procedure had also an impact on the expression of CFC (but not AFC) after retraining in adulthood. Our findings imply that ELS may permanently affect fear learning and memory. The results also support the hypothesis that, depending on individual predispositions and further experiences, ELS may either lead to a resilience or a vulnerability to early- and late-onsets psychopathologies. Copyright © 2014 Elsevier B.V. All rights reserved.

Acute stress impairs the retrieval of extinction memory in humans

PubMed Central

Raio, Candace M.; Brignoni-Perez, Edith; Goldman, Rachel; Phelps, Elizabeth A.

2014-01-01

Extinction training is a form of inhibitory learning that allows an organism to associate a previously aversive cue with a new, safe outcome. Extinction does not erase a fear association, but instead creates a competing association that may or may not be retrieved when a cue is subsequently encountered. Characterizing the conditions under which extinction learning is expressed is important to enhancing the treatment of anxiety disorders that rely on extinction-based exposure therapy as a primary treatment technique. The ventromedial prefrontal cortex, which plays an important role in the expression of extinction memory, has been shown to be functionally impaired after stress exposure. Further, recent research in rodents found that exposure to stress led to deficits in extinction retrieval, although this has yet to be tested in humans. To explore how stress might influence extinction retrieval in humans, participants underwent a differential aversive learning paradigm, in which one image was probabilistically paired with an aversive shock while the other image denoted safety. Extinction training directly followed, at which point reinforcement was omitted. A day later, participants returned to the lab and either completed an acute stress manipulation (i.e., cold pressor), or a control task, before undergoing an extinction retrieval test. Skin conductance responses and salivary cortisol concentrations were measured throughout each session as indices of fear arousal and neuroendocrine stress responses, respectively. The efficacy of our stress induction was established by observing significant increases in cortisol for the stress condition only. We examined extinction retrieval by comparing conditioned responses during the last trial of extinction (day 1) with that of the first trial of re-extinction (day 2). Groups did not differ on initial fear acquisition or extinction, however, one day later participants in the stress group (n = 27) demonstrated significantly less extinction retrieval (i.e., greater fear recovery) than those in the control group (n = 25). Our results suggest that acute stress impairs extinction memory retrieval and offers insight into why treatment strategies used in the clinic may be challenging to recruit in daily life where stress is pervasive. PMID:24508065

A scale of greatness and causal classification of mass extinctions: Implications for mechanisms

PubMed Central

Şengör, A. M. Celâl; Atayman, Saniye; Özeren, Sinan

2008-01-01

A quantitative scale for measuring greatness, G, of mass extinctions is proposed on the basis of rate of biodiversity diminution expressed as the product of the loss of biodiversity, called magnitude (M), and the inverse of time in which that loss occurs, designated as intensity (I). On this scale, the catastrophic Cretaceous–Tertiary (K-T) extinction appears as the greatest since the Ordovician and the only one with a probable extraterrestrial cause. The end-Permian extinction was less great but with a large magnitude (M) and smaller intensity (I); only some of its individual episodes involved some semblance of catastrophe. Other extinctions during the Phanerozoic, with the possible exception of the end-Silurian diversity plunge, were parts of a forced oscillatory phenomenon and seem caused by marine- and land-habitat destruction during continental assemblies that led to elimination of shelves and (after the Devonian) rain forests and enlargement of deserts. Glaciations and orogenies that shortened and thickened the continental crust only exacerbated these effects. During the Mesozoic and Cainozoic, the evolution of life was linearly progressive, interrupted catastrophically only at the K-T boundary. The end-Triassic extinction was more like the Paleozoic extinctions in nature and probably also in its cause. By contrast, the current extinction resembles none of the earlier ones and may end up being the greatest of all. PMID:18779562

The rediscovered Hula painted frog is a living fossil.

PubMed

Biton, Rebecca; Geffen, Eli; Vences, Miguel; Cohen, Orly; Bailon, Salvador; Rabinovich, Rivka; Malka, Yoram; Oron, Talya; Boistel, Renaud; Brumfeld, Vlad; Gafny, Sarig

2013-01-01

Amphibian declines are seen as an indicator of the onset of a sixth mass extinction of life on earth. Because of a combination of factors such as habitat destruction, emerging pathogens and pollutants, over 156 amphibian species have not been seen for several decades, and 34 of these were listed as extinct by 2004. Here we report the rediscovery of the Hula painted frog, the first amphibian to have been declared extinct. We provide evidence that not only has this species survived undetected in its type locality for almost 60 years but also that it is a surviving member of an otherwise extinct genus of alytid frogs, Latonia, known only as fossils from Oligocene to Pleistocene in Europe. The survival of this living fossil is a striking example of resilience to severe habitat degradation during the past century by an amphibian.

End-Permian Mass Extinction in the Oceans: An Ancient Analog for the Twenty-First Century?

NASA Astrophysics Data System (ADS)

Payne, Jonathan L.; Clapham, Matthew E.

2012-05-01

The greatest loss of biodiversity in the history of animal life occurred at the end of the Permian Period (˜252 million years ago). This biotic catastrophe coincided with an interval of widespread ocean anoxia and the eruption of one of Earth's largest continental flood basalt provinces, the Siberian Traps. Volatile release from basaltic magma and sedimentary strata during emplacement of the Siberian Traps can account for most end-Permian paleontological and geochemical observations. Climate change and, perhaps, destruction of the ozone layer can explain extinctions on land, whereas changes in ocean oxygen levels, CO2, pH, and temperature can account for extinction selectivity across marine animals. These emerging insights from geology, geochemistry, and paleobiology suggest that the end-Permian extinction may serve as an important ancient analog for twenty-first century oceans.

Growth patterns of the Cambrian microbialite: Phototropism and speciation of Epiphyton

NASA Astrophysics Data System (ADS)

Woo, J.; Chough, S. K.

2010-07-01

Microbes started constructing shallow marine stromatolitic bioherms in the Archean, but they transferred their role as a major buildup maker to metazoans in Phanerozoic. Microbial buildups often recovered their predominance in the carbonate platform when reefal metazoan communities collapsed. Epiphyton, an extinct taxon of calcified microbe that possessed branching filamentous trichomes, was an important reef builder in the shallow marine carbonate platform during Middle Cambrian, aftermath of an extinction of archaeocyath sponges which were major reef-building sessile organisms in the Early Cambrian. Here we present direct evidence of phototropism of Epiphyton, found from fossilized behavior in micro- and macro-structures of meter-scale microbial bioherms of the Zhangxia Formation (Middle Cambrian), North China Platform, Shandong Province, China. The bioherms consist of stacked growth layers with the inner and outer divisions divided by distinct boundary. The inner division of growth layers of the Epiphyton bioherm is dominated by dense uniform bush-shaped Epiphyton thalli, whereas the curved outer division has layered texture normal to the surface, comprised of elongated and chambered thalli. It suggests that photosynthetic Epiphyton reacted actively to the spatial changes in intensity of sunlight, controlled by angle of illumination on the curved growth surface of the bioherm. The inner and the outer divisions comprise different morpho-types of Epiphyton. The spatial distributions of different morpho-types in variously illuminated divisions of Epiphyton might have caused further speciation of Epiphyton.

An allometric approach to quantify the extinction vulnerability of birds and mammals.

PubMed

Hilbers, J P; Schipper, A M; Hendriks, A J; Verones, F; Pereira, H M; Huijbregts, M A J

2016-03-01

Methods to quantify the vulnerability of species to extinction are typically limited by the availability of species-specific input data pertaining to life-history characteristics and population dynamics. This lack of data hampers global biodiversity assessments and conservation planning. Here, we developed a new framework that systematically quantifies extinction risk based on allometric relationships between various wildlife demographic parameters and body size. These allometric relationships have a solid theoretical and ecological foundation. Extinction risk indicators included are (1) the probability of extinction, (2) the mean time to extinction, and (3) the critical patch size. We applied our framework to assess the global extinction vulnerability of terrestrial carnivorous and non-carnivorous birds and mammals. Irrespective of the indicator used, large-bodied species were found to be more vulnerable to extinction than their smaller counterparts. The patterns with body size were confirmed for all species groups by a comparison with IUCN data on the proportion of extant threatened species: the models correctly predicted a multimodal distribution with body size for carnivorous birds and a monotonic distribution for mammals and non-carnivorous birds. Carnivorous mammals were found to have higher extinction risks than non-carnivores, while birds were more prone to extinction than mammals. These results are explained by the allometric relationships, predicting the vulnerable species groups to have lower intrinsic population growth rates, smaller population sizes, lower carrying capacities, or larger dispersal distances, which, in turn, increase the importance of losses due to environmental stochastic effects and dispersal activities. Our study is the first to integrate population viability analysis and allometry into a novel, process-based framework that is able to quantify extinction risk of a large number of species without requiring data-intensive, species-specific information. The framework facilitates the estimation of extinction vulnerabilities of data-deficient species. It may be applied to forecast extinction vulnerability in response to a changing environment, by incorporating quantitative relationships between wildlife demographic parameters and environmental drivers like habitat alteration, climate change, or hunting.

Mass extinctions drove increased global faunal cosmopolitanism on the supercontinent Pangaea.

PubMed

Button, David J; Lloyd, Graeme T; Ezcurra, Martín D; Butler, Richard J

2017-10-10

Mass extinctions have profoundly impacted the evolution of life through not only reducing taxonomic diversity but also reshaping ecosystems and biogeographic patterns. In particular, they are considered to have driven increased biogeographic cosmopolitanism, but quantitative tests of this hypothesis are rare and have not explicitly incorporated information on evolutionary relationships. Here we quantify faunal cosmopolitanism using a phylogenetic network approach for 891 terrestrial vertebrate species spanning the late Permian through Early Jurassic. This key interval witnessed the Permian-Triassic and Triassic-Jurassic mass extinctions, the onset of fragmentation of the supercontinent Pangaea, and the origins of dinosaurs and many modern vertebrate groups. Our results recover significant increases in global faunal cosmopolitanism following both mass extinctions, driven mainly by new, widespread taxa, leading to homogenous 'disaster faunas'. Cosmopolitanism subsequently declines in post-recovery communities. These shared patterns in both biotic crises suggest that mass extinctions have predictable influences on animal distribution and may shed light on biodiversity loss in extant ecosystems.Mass extinctions are thought to produce 'disaster faunas', communities dominated by a small number of widespread species. Here, Button et al. develop a phylogenetic network approach to test this hypothesis and find that mass extinctions did increase faunal cosmopolitanism across Pangaea during the late Palaeozoic and early Mesozoic.

Atmospheres and evolution. [of microbial life on earth

NASA Technical Reports Server (NTRS)

Margulis, L.; Lovelock, J. E.

1981-01-01

Studies concerning the regulation of the earth atmosphere and the relation of atmospheric changes to the evolution of microbial life are reviewed. The improbable nature of the composition of the earth atmosphere in light of the atmospheric compositions of Mars and Venus and equilibrium considerations is pointed out, and evidence for the existence of microbial (procaryotic) life on earth as far back as 3.5 billion years ago is presented. The emergence of eucaryotic life in the Phanerozoic due to evolving symbioses between different procaryotic species is discussed with examples given of present-day symbiotic relationships between bacteria and eucaryotes. The idea that atmospheric gases are kept in balance mainly by the actions of bacterial cells is then considered, and it is argued that species diversity is necessary for the maintenance and origin of life on earth in its present form.

Functional consortium for denitrifying sulfide removal process.

PubMed

Chen, Chuan; Ren, Nanqi; Wang, Aijie; Liu, Lihong; Lee, Duu-Jong

2010-03-01

Denitrifying sulfide removal (DSR) process simultaneously converts sulfide, nitrate, and chemical oxygen demand from industrial wastewaters to elemental sulfur, nitrogen gas, and carbon dioxide, respectively. This investigation utilizes a dilution-to-extinction approach at 10(-2) to 10(-6) dilutions to elucidate the correlation between the composition of the microbial community and the DSR performance. In the original suspension and in 10(-2) dilution, the strains Stenotrophomonas sp., Thauera sp., and Azoarcus sp. are the heterotrophic denitrifiers and the strains Paracoccus sp. and Pseudomonas sp. are the sulfide-oxidizing denitrifers. The 10(-4) dilution is identified as the functional consortium for the present DSR system, which comprises two functional strains, Stenotrophomonas sp. strain Paracoccus sp. At 10(-6) dilution, all DSR performance was lost. The functions of the constituent cells in the DSR granules were discussed based on data obtained using the dilution-to-extinction approach.

The perils and promises of microbial abundance: novel natures and model ecosystems, from artisanal cheese to alien seas.

PubMed

Paxson, Heather; Helmreich, Stefan

2014-04-01

Microbial life has been much in the news. From outbreaks of Escherichia coli to discussions of the benefits of raw and fermented foods to recent reports of life forms capable of living in extreme environments, the modest microbe has become a figure for thinking through the presents and possible futures of nature, writ large as well as small. Noting that dominant representations of microbial life have shifted from an idiom of peril to one of promise, we argue that microbes--especially when thriving as microbial communities--are being upheld as model ecosystems in a prescriptive sense, as tokens of how organisms and human ecological relations with them could, should, or might be. We do so in reference to two case studies: the regulatory politics of artisanal cheese and the speculative research of astrobiology. To think of and with microbial communities as model ecosystems offers a corrective to the scientific determinisms we detect in some recent calls to attend to the materiality of scientific objects.

Climate modelling of mass-extinction events: a review

NASA Astrophysics Data System (ADS)

Feulner, Georg

2009-07-01

Despite tremendous interest in the topic and decades of research, the origins of the major losses of biodiversity in the history of life on Earth remain elusive. A variety of possible causes for these mass-extinction events have been investigated, including impacts of asteroids or comets, large-scale volcanic eruptions, effects from changes in the distribution of continents caused by plate tectonics, and biological factors, to name but a few. Many of these suggested drivers involve or indeed require changes of Earth's climate, which then affect the biosphere of our planet, causing a global reduction in the diversity of biological species. It can be argued, therefore, that a detailed understanding of these climatic variations and their effects on ecosystems are prerequisites for a solution to the enigma of biological extinctions. Apart from investigations of the paleoclimate data of the time periods of mass extinctions, climate-modelling experiments should be able to shed some light on these dramatic events. Somewhat surprisingly, however, only a few comprehensive modelling studies of the climate changes associated with extinction events have been undertaken. These studies will be reviewed in this paper. Furthermore, the role of modelling in extinction research in general and suggestions for future research are discussed.

Periodicity in extinction and the problem of catastrophism in the history of life

NASA Technical Reports Server (NTRS)

Sepkoski, J. J. Jr; Sepkoski JJ, J. r. (Principal Investigator)

1989-01-01

The hypothesis that extinction events have recurred periodically over the last quarter billion years is greatly strengthened by new data on the stratigraphic ranges of marine animal genera. In the interval from the Permian to Recent, these data encompass some 13,000 generic extinctions, providing a more sensitive indicator of species-level extinctions than previously used familial data. Extinction time series computed from the generic data display nine strong peaks that are nearly uniformly spaced at 26 Ma intervals over the last 270 Ma. Most of these peaks correspond to extinction events recognized in more detailed, if limited, biostratigraphic studies. These new data weaken or negate most arguments against periodicity, which have involved criticisms of the taxonomic data base, sampling intervals, chronometric time scales, and statistical methods used in previous analyses. The criticisms are reviewed in some detail and various new calculations and simulations, including one assessing the effects of paraphyletic taxa, are presented. Although the new data strengthen the case for periodicity, they offer little new insight into the deriving mechanism behind the pattern. However, they do suggest that many of the periodic events may not have been catastrophic, occurring instead over several stratigraphic stages or substages.

Planets and Life

NASA Astrophysics Data System (ADS)

Sullivan, Woodruff T., III; Baross, John

2007-09-01

Foreword; Preface; Contributors; Prologue; Part I. History: 1. History of astrobiological ideas W. T. Sullivan and D. Carney; 2. From exobiology to astrobiology S. J. Dick; Part II. The Physical Stage: 3. Formation of Earth-like habitable planets D. E. Brownlee and M. Kress; 4. Planetary atmospheres and life D. Catling and J. F. Kasting; Part III. The Origin of Life on Earth: 5. Does 'life' have a definition? C.E. Cleland and C. F. Chyba; 6. Origin of life: crucial issues R. Shapiro; 7. Origin of proteins and nucleic acids A. Ricardo and S. A. Benner; 8. The roots of metabolism G.D. Cody and J. H. Scott; 9. Origin of cellular life D. W. Deamer; Part IV. Life on Earth: 10. Evolution: a defining feature of life J. A. Baross; 11. Evolution of metabolism and early microbial communities J. A. Leigh, D. A. Stahl and J. T. Staley; 12. The earliest records of life on Earth R. Buick; 13. The origin and diversification of eukaryotes M. L. Sogin, D. J. Patterson and A. McArthur; 14. Limits of carbon life on Earth and elsewhere J. A. Baross, J. Huber and M. Schrenk; 15. Life in ice J. W. Deming and H. Eicken; 16. The evolution and diversification of life S. Awramik and K. J. McNamara; 17. Mass extinctions P. D. Ward; Part V. Potentially Habitable Worlds: 18. Mars B. M. Jakosky, F. Westall and A. Brack; 19. Europa C. F. Chyba and C. B. Phillips; 20. Titan J. I. Lunine and B. Rizk; 21. Extrasolar planets P. Butler; Part VI. Searching for Extraterrestrial Life: 22. How to search for life on other worlds C. P. McKay; 23. Instruments and strategies for detecting extraterrestrial life P. G. Conrad; 24. Societial and ethical concerns M. S. Race; 25. Planetary protection J. D. Rummel; 26. Searching for extraterrestrial intelligence J. C. Tarter; 27. Alien biochemistries P. D. Ward and S. A. Benner; Part VII. Future of the Field: 28. Disciplinary and educational opportunities L. Wells, J. Armstrong and J. Huber; Epilogue C. F. Chyba; Appendixes: A. Units and usages; B. Planetary properties; C. The geological time scale S. Awramik and K. J. McNamara; D. Astrobiological destinations on planet Earth J. Harnmeijer; E. Micro*scope web tool D. J. Patterson and M. L. Sogin; Index.

Intelligibility in microbial complex systems: Wittgenstein and the score of life.

PubMed

Baquero, Fernando; Moya, Andrés

2012-01-01

Knowledge in microbiology is reaching an extreme level of diversification and complexity, which paradoxically results in a strong reduction in the intelligibility of microbial life. In our days, the "score of life" metaphor is more accurate to express the complexity of living systems than the classic "book of life." Music and life can be represented at lower hierarchical levels by music scores and genomic sequences, and such representations have a generational influence in the reproduction of music and life. If music can be considered as a representation of life, such representation remains as unthinkable as life itself. The analysis of scores and genomic sequences might provide mechanistic, phylogenetic, and evolutionary insights into music and life, but not about their real dynamics and nature, which is still maintained unthinkable, as was proposed by Wittgenstein. As complex systems, life or music is composed by thinkable and only showable parts, and a strategy of half-thinking, half-seeing is needed to expand knowledge. Complex models for complex systems, based on experiences on trans-hierarchical integrations, should be developed in order to provide a mixture of legibility and imageability of biological processes, which should lead to higher levels of intelligibility of microbial life.

Cambrian Series 3 carbonate platform of Korea dominated by microbial-sponge reefs

NASA Astrophysics Data System (ADS)

Hong, Jongsun; Lee, Jeong-Hyun; Choh, Suk-Joo; Lee, Dong-Jin

2016-07-01

Metazoans have been considered as negligible components of Cambrian Series 3 and Furongian microbial-dominated reefs, in contrast to their presence in earlier Terreneuvian-Cambrian Series 2 microbial-archaeocyath reefs. However, recent discoveries of sponges in Cambrian Series 3-Furongian reefs of Australia, China, Iran, USA, and Korea have raised question regarding their contribution in terms of carbonate platform development, which have never been assessed. This study examines Cambrian Series 3 deposits of the Daegi Formation, Korea to elucidate this question. The 100-m-thick middle part of the Daegi Formation is dominated by boundstone facies, which occupies 45% of the study interval, as well as bioclastic wackestone to packstone, bioclastic grainstone, and ooid packstone to grainstone facies. The Daegi reefs are primarily thrombolitic in composition, with 90% (n = 26/29) of the reefs containing an average of 9% sponges in aerial percentage calculated from thin sections. Lithistid sponges composed of peloidal fabrics, some desma spicules, and spicule networks commonly occupy the interstitial space in microbial clusters, are encrusted by mesoclots and Epiphyton, and are surrounded by micrite. Subordinate non-lithistid demosponges occur within clusters of microbial elements. The middle Daegi Formation can be largely subdivided into shoal environment dominated by grainstone to packstone facies and shallow subtidal platform interior environment located behind shoal with wackestone to packstone facies. The microbial-sponge reefs mainly developed around platform interior as patch reefs. The current study indicates that metazoans in the form of lithistid and non-lithistid demosponges are nearly ubiquitously incorporated in Daegi reefs and contributed greatly to the formation of microbial-sponge reefs as well as carbonate platform during the time. Study of these microbial-sponge reefs and their distribution within the carbonate platform may help us to understand how carbonate sedimentary environments responded to the extinction of archaeocyaths.

Microconchids from microbialite ecosystem immediately after end-Permian mass extinction: ecologic selectivity and implications for microbialite ecosystem structure

NASA Astrophysics Data System (ADS)

Yang, H.; Chen, Z.; Wang, Y. B.; Ou, W.; Liao, W.; Mei, X.

2013-12-01

The Permian-Triassic (P-Tr) carbonate successions are often characterized by the presence of microbialite buildups worldwide. The widespread microbialites are believed as indication of microbial proliferation immediately after the P-Tr mass extinction. The death of animals representing the primary consumer trophic structure of marine ecosystem in the P-Tr crisis allows the bloom of microbes as an important primary producer in marine trophic food web structure. Thus, the PTB microbialite builders have been regarded as disaster taxa of the P-Tr ecologic crisis. Microbialite ecosystems were suitable for most organisms to inhabit. However, increasing evidence show that microbialite dwellers are also considerably abundant and diverse, including mainly foraminifers Earlandia sp. and Rectocornuspira sp., lingulid brachiopods, ostrocods, gastropods, and microconchids. In particular, ostracods are extremely abundant in this special ecosystem. Microconchid-like calcareous tubes are also considerably abundant. Here, we have sampled systematically a PTB microbialite deposit from the Dajiang section, southern Guizhou Province, southwest China and have extracted abundant isolated specimens of calcareous worm tubes. Quantitative analysis enables to investigate stratigraphic and facies preferences of microconchids in the PTB microbialites. Our preliminary result indicates that three microconchid species Microconchus sp., Helicoconchus elongates and Microconchus aberrans inhabited in microbialite ecosystem. Most microconchilds occurred in the upper part of the microbialite buildup and the grainstone-packstone microfacies. Very few microconchilds were found in the rocks bearing well-developed microbialite structures. Their stratigraphic and environmental preferences indicate proliferation of those metazoan organisms is coupled with ebb of the microbialite development. They also proliferated in some local niches in which microbial activities were not very active even if those microconchids occur in the PTB microbialite buildups. In addition, the combination of previously published data and present studies indicates that the PTB microbialite ecosystem contained much higher biodiversity than previously expected. The PTB microbialite ecosystems provided habitable niches for some particular fossil groups to survive the P-Tr mass extinction.

Extinction and reinstatement to cocaine-associated cues in male and female juvenile rats and the role of D1 dopamine receptor.

PubMed

Brenhouse, Heather C; Thompson, Britta S; Sonntag, Kai C; Andersen, Susan L

2015-08-01

Extinction of behaviors in response to drug-associated cues and prevention of reinstatement are integral for addiction treatment, and can reverse or ameliorate the harmful consequences of drug use. The mechanisms controlling extinction and reinstatement involve prefrontal cortical dopamine receptors, which change in expression and activity during the juvenile and adolescent transitions until they mature in adulthood. Little is known about the role that PFC D1 dopamine receptors play in extinction of drug-paired associations early in life. We used extinction of place preferences for cocaine in juvenile male and female rats following genetic, cell-specific overexpression of D1 on glutamatergic cells in the PFC. All subjects needed to demonstrate cocaine preferences for inclusion in the extinction studies. Here, male juveniles with a preference to 10 mg/kg cocaine took longer to extinguish preferences compared to both male adults and female juveniles. Female juveniles extinguished more rapidly than male juveniles at 20 mg/kg cocaine. Overexpression of D1 in juvenile males significantly facilitated extinction relative to juvenile male controls, whereas D1 prolonged expression of extinction in adults overexpressing D1 and adolescents who naturally have elevated D1 expression. These data suggest that an immature D1 profile in juveniles prevented the learning of new associations, and D1 overexpression may provide sufficient activity to facilitate extinction learning. D1 overexpression reduced reinstatement to a priming dose of cocaine in juvenile males. Together, these data show D1 expression may re-program motivational circuitry to facilitate extinction learning during juvenility that is normally unavailable to juveniles and that sex differences exist. Copyright © 2015 Elsevier Ltd. All rights reserved.

Extinction and reinstatement to cocaine-associated cues in male and female juvenile rats and the role of D1 dopamine receptor

PubMed Central

Brenhouse, Heather C.; Thompson, Britta S.; Sonntag, Kai C.; Andersen, Susan L.

2015-01-01

Extinction of behaviors in response to drug-associated cues and prevention of reinstatement are integral for addiction treatment, and can reverse or ameliorate the harmful consequences of drug use. The mechanisms controlling extinction and reinstatement involve prefrontal cortical dopamine receptors, which change in expression and activity during the juvenile and adolescent transitions until they mature in adulthood. Little is known about the role that PFC D1 dopamine receptors play in extinction of drug-paired associations early in life. We used extinction of place preferences for cocaine in juvenile male and female rats following genetic, cell-specific overexpression of D1 on glutamatergic cells in the PFC. All subjects needed to demonstrate cocaine preferences for inclusion in the extinction studies. Here, male juveniles with a preference to 10 mg/kg cocaine took longer to extinguish preferences compared to both male adults and female juveniles. Female juveniles extinguished more rapidly than male juveniles at 20 mg/kg cocaine. Overexpression of D1 in juvenile males significantly facilitated extinction relative to juvenile male controls, whereas D1 prolonged expression of extinction in adults overexpressing D1 and adolescents who naturally have elevated D1 expression. These data suggest that an immature D1 profile in juveniles prevented the learning of new associations, and D1 overexpression may provide sufficient activity to facilitate extinction learning. D1 overexpression reduced reinstatement to a priming dose of cocaine in juvenile males. Together, these data show D1 expression may re-program motivational circuitry to facilitate extinction learning during juvenility that is normally unavailable to juveniles and that sex differences exist. PMID:25749358

Microbial fuel cells applied to the metabolically based detection of extraterrestrial life.

PubMed

Abrevaya, Ximena C; Mauas, Pablo J D; Cortón, Eduardo

2010-12-01

Since the 1970s, when the Viking spacecrafts carried out experiments to detect microbial metabolism on the surface of Mars, the search for nonspecific methods to detect life in situ has been one of the goals of astrobiology. It is usually required that a methodology detect life independently from its composition or form and that the chosen biological signature point to a feature common to all living systems, such as the presence of metabolism. In this paper, we evaluate the use of microbial fuel cells (MFCs) for the detection of microbial life in situ. MFCs are electrochemical devices originally developed as power electrical sources and can be described as fuel cells in which the anode is submerged in a medium that contains microorganisms. These microorganisms, as part of their metabolic process, oxidize organic material, releasing electrons that contribute to the electric current, which is therefore proportional to metabolic and other redox processes. We show that power and current density values measured in MFCs that use microorganism cultures or soil samples in the anode are much larger than those obtained with a medium free of microorganisms or sterilized soil samples, respectively. In particular, we found that this is true for extremophiles, which have been proposed as potential inhabitants of extraterrestrial environments. Therefore, our results show that MFCs have the potential to be used for in situ detection of microbial life.

Microbial Fuel Cells Applied to the Metabolically Based Detection of Extraterrestrial Life

NASA Astrophysics Data System (ADS)

Abrevaya, Ximena C.; Mauas, Pablo J. D.; Cortón, Eduardo

2010-12-01

Since the 1970s, when the Viking spacecrafts carried out experiments to detect microbial metabolism on the surface of Mars, the search for nonspecific methods to detect life in situ has been one of the goals of astrobiology. It is usually required that a methodology detect life independently from its composition or form and that the chosen biological signature point to a feature common to all living systems, such as the presence of metabolism. In this paper, we evaluate the use of microbial fuel cells (MFCs) for the detection of microbial life in situ. MFCs are electrochemical devices originally developed as power electrical sources and can be described as fuel cells in which the anode is submerged in a medium that contains microorganisms. These microorganisms, as part of their metabolic process, oxidize organic material, releasing electrons that contribute to the electric current, which is therefore proportional to metabolic and other redox processes. We show that power and current density values measured in MFCs that use microorganism cultures or soil samples in the anode are much larger than those obtained with a medium free of microorganisms or sterilized soil samples, respectively. In particular, we found that this is true for extremophiles, which have been proposed as potential inhabitants of extraterrestrial environments. Therefore, our results show that MFCs have the potential to be used for in situ detection of microbial life.

Identifying Fossil Bacteria in Martian Materials

NASA Technical Reports Server (NTRS)

Westall, F.; McKay, D. S.; Gibson, E. K., Jr.

1999-01-01

Within the next decade, robotic missions are going to Mars with the search for evidence for extant and extinct life as at least one of the mission objectives. Moreover, the first Martian samples will be returned to Earth in 2008. It is therefore imperative that we can be certain that we can identify life in Martian rocks. In this paper we will not be discussing extant life but will concentrate on fossil life.

Are we alone? Lessons from the evolution of life on earth.

PubMed

Via, S

2001-12-01

The understanding of life on Earth that we have obtained from the science of evolutionary biology offers clues to the qustion of what life might be like if found elsewhere. After presenting the basics of the evolutionary process, I discuss the factors that determine the outcome of evolution, the role of key innovations and extinction in evolution, and whether the evolution of human life is inevitable.

Endangered species: review of law triggered by tellico impasse.

PubMed

Holden, C

1977-06-24

To condense the evolution of life on Earth . . . suppose the whole history of the planet is contained within a single year. The conditions suitable for life do not develop until late June. The oldest known fossils are living creatures around mid-October, and life is abundant . . . by the end of that month. In mid-December, dinosaurs and other reptiles dominate the scene. Mammals . . . appear in large numbers only a little before Christmas. On New Year's Eve, at about five minutes to midnight, man emerges. . . . The period since 1600 A.D., when man-induced extinction began to increase rapidly, amounts to three seconds, and the quarter century just begun, when the disappearance of species may be on the scale of all the mass extinctions of the past put together, will take another sixth of a second-a twinkling of an eye in evolutionary time.

Mass extinctions in the deep sea

NASA Technical Reports Server (NTRS)

Thomas, E.

1988-01-01

The character of mass extinctions can be assessed by studying extinction patterns of organisms, the fabric of the extinction, and assessing the environmental niche and mode of life of survivors. Deep-sea benthic foraminifera have been listed as little affected by the Cretaceous-Tertiary (K-T) mass extinction, but very few quantitative data are available. New data on deep-sea Late Maestrichtian-Eocene benthic foraminifera from Maud Rise (Antractica) indicate that about 10 percent of the species living at depths of 2000 to 2500 m had last appearances within 1 my of the Cretaceous-Tertiary (K-T) boundary, versus about 25 percent of species at 1000 to 1500 m. Many survivors from the Cretaceous became extinct in a period of global deep-sea benthic foraminiferal extinction at the end of the Paleocene, a time otherwise marked by very few extinctions. Preliminary conclusions suggest that the deep oceanic environment is essentially decoupled from the shallow marine and terrestrial environment, and that even major disturbances of one of these will not greatly affect the other. This gives deep-sea benthic faunas a good opportunity to recolonize shallow environments from greater depths and vice versa after massive extinctions. The decoupling means that data on deep-sea benthic boundary was caused by the environmental effects of asteriod impact or excessive volcanism. The benthic foraminiferal data strongly suggest, however, that the environmental results were strongest at the Earth's surface, and that there was no major disturbance of the deep ocean; this pattern might result both from excessive volcanism and from an impact on land.

A Field-Based Aquatic Life Benchmark for Conductivity in Central Appalachian Streams (Final Report)

EPA Science Inventory

EPA announced the availability of the final report, A Field-Based Aquatic Life Benchmark for Conductivity in Central Appalachian Streams. This report describes a method to characterize the relationship between the extirpation (the effective extinction) of invertebrate g...

Immunological Insights into the Life and Times of the Extinct Tasmanian Tiger (Thylacinus cynocephalus).

PubMed

Old, Julie M

2015-01-01

The thylacine (Thylacinus cynocephalus) was Australia's largest marsupial carnivore until its extinction within the last century. There remains considerable interest and debate regarding the biology of this species. Studies of thylacine biology are now limited to preserved specimens, and parts thereof, as well as written historical accounts of its biology. This study describes the development of the immune tissues of a pouch young thylacine, one of only eleven in existence, and the only specimen to be histologically sectioned. The appearance of the immune tissue of the developing pouch young thylacine is compared to the immune tissues of extant marsupials, providing insights into the immunity, biology and ecology of the extinct thylacine.

The fossil record of the sixth extinction.

PubMed

Plotnick, Roy E; Smith, Felisa A; Lyons, S Kathleen

2016-05-01

Comparing the magnitude of the current biodiversity crisis with those in the fossil record is difficult without an understanding of differential preservation. Integrating data from palaeontological databases with information on IUCN status, ecology and life history characteristics of contemporary mammals, we demonstrate that only a small and biased fraction of threatened species (< 9%) have a fossil record, compared with 20% of non-threatened species. We find strong taphonomic biases related to body size and geographic range. Modern species with a fossil record tend to be large and widespread and were described in the 19(th) century. The expected magnitude of the current extinction based only on species with a fossil record is about half of that of one based on all modern species; values for genera are similar. The record of ancient extinctions may be similarly biased, with many species having originated and gone extinct without leaving a tangible record. © 2016 John Wiley & Sons Ltd/CNRS.

Mass extinction caused by large bolide impacts

NASA Technical Reports Server (NTRS)

Alvarez, Luis W.

1987-01-01

A history and development status assessment is presented for the hypothesis that the great extinction of living species 65 million years ago, at the boundary between the Tertiary and Cretaceous geological ages, was due to the collision of a meteoroid, asteroid, or comet with the earth. The initial, deeply suggestive indication of the extraterrestial origin of the extinction-initiating mechanism was the detection of an exceptionally high concentration of iridium at the stratigraphic position of the extinction. Detailed computer modeling of the atmospheric effect of such a bolide impact has shown that the earth would have first grown intensely cold during a period of darkness due to particulate debris clouds in the upper atmosphere, followed by an enormous increase in global temperatures as the debris cleared, created by the persistence of greenhouse-effect gases; this heating would have been especially lethal to numerous forms of life.

Structure and dating errors in the geologic time scale and periodicity in mass extinctions

NASA Technical Reports Server (NTRS)

Stothers, Richard B.

1989-01-01

Structure in the geologic time scale reflects a partly paleontological origin. As a result, ages of Cenozoic and Mesozoic stage boundaries exhibit a weak 28-Myr periodicity that is similar to the strong 26-Myr periodicity detected in mass extinctions of marine life by Raup and Sepkoski. Radiometric dating errors in the geologic time scale, to which the mass extinctions are stratigraphically tied, do not necessarily lessen the likelihood of a significant periodicity in mass extinctions, but do spread the acceptable values of the period over the range 25-27 Myr for the Harland et al. time scale or 25-30 Myr for the DNAG time scale. If the Odin time scale is adopted, acceptable periods fall between 24 and 33 Myr, but are not robust against dating errors. Some indirect evidence from independently-dated flood-basalt volcanic horizons tends to favor the Odin time scale.

Extinction phase transitions in a model of ecological and evolutionary dynamics

NASA Astrophysics Data System (ADS)

Barghathi, Hatem; Tackkett, Skye; Vojta, Thomas

2017-07-01

We study the non-equilibrium phase transition between survival and extinction of spatially extended biological populations using an agent-based model. We especially focus on the effects of global temporal fluctuations of the environmental conditions, i.e., temporal disorder. Using large-scale Monte-Carlo simulations of up to 3 × 107 organisms and 105 generations, we find the extinction transition in time-independent environments to be in the well-known directed percolation universality class. In contrast, temporal disorder leads to a highly unusual extinction transition characterized by logarithmically slow population decay and enormous fluctuations even for large populations. The simulations provide strong evidence for this transition to be of exotic infinite-noise type, as recently predicted by a renormalization group theory. The transition is accompanied by temporal Griffiths phases featuring a power-law dependence of the life time on the population size.

Discriminative detection and enumeration of microbial life in marine subsurface sediments.

PubMed

Morono, Yuki; Terada, Takeshi; Masui, Noriaki; Inagaki, Fumio

2009-05-01

Detection and enumeration of microbial life in natural environments provide fundamental information about the extent of the biosphere on Earth. However, it has long been difficult to evaluate the abundance of microbial cells in sedimentary habitats because non-specific binding of fluorescent dye and/or auto-fluorescence from sediment particles strongly hampers the recognition of cell-derived signals. Here, we show a highly efficient and discriminative detection and enumeration technique for microbial cells in sediments using hydrofluoric acid (HF) treatment and automated fluorescent image analysis. Washing of sediment slurries with HF significantly reduced non-biological fluorescent signals such as amorphous silica and enhanced the efficiency of cell detachment from the particles. We found that cell-derived SYBR Green I signals can be distinguished from non-biological backgrounds by dividing green fluorescence (band-pass filter: 528/38 nm (center-wavelength/bandwidth)) by red (617/73 nm) per image. A newly developed automated microscope system could take a wide range of high-resolution image in a short time, and subsequently enumerate the accurate number of cell-derived signals by the calculation of green to red fluorescence signals per image. Using our technique, we evaluated the microbial population in deep marine sediments offshore Peru and Japan down to 365 m below the seafloor, which provided objective digital images as evidence for the quantification of the prevailing microbial life. Our method is hence useful to explore the extent of sub-seafloor life in the future scientific drilling, and moreover widely applicable in the study of microbial ecology.

Highly Sensitive Tunable Diode Laser Spectrometers for In Situ Planetary Exploration

NASA Technical Reports Server (NTRS)

Vasudev, Ram; Mansour, Kamjou; Webster, Christopher R.

2013-01-01

This paper describes highly sensitive tunable diode laser spectrometers suitable for in situ planetary exploration. The technology developed at JPL is based on wavelength modulated cavity enhanced absorption spectroscopy. It is capable of sensitively detecting chemical signatures of life through the abundance of biogenic molecules and their isotopic composition, and chemicals such as water necessary for habitats of life. The technology would be suitable for searching for biomarkers, extinct life, potential habitats of extant life, and signatures of ancient climates on Mars; and for detecting biomarkers, prebiotic chemicals and habitats of life in the outer Solar System. It would be useful for prospecting for water on the Moon and asteroids, and characterizing its isotopic composition. Deployment on the Moon could provide ground truth to the recent remote measurements and help to uncover precious records of the early bombardment history of the inner Solar System buried at the shadowed poles, and elucidate the mechanism for the generation of near-surface water in the illuminated regions. The technology would also be useful for detecting other volatile molecules in planetary atmospheres and subsurface reservoirs, isotopic characterization of planetary materials, and searching for signatures of extinct life preserved in solid matrices.

Sexual selection affects local extinction and turnover in bird communities

USGS Publications Warehouse

Doherty, P.F.; Sorci, G.; Royle, J. Andrew; Hines, J.E.; Nichols, J.D.; Boulinier, T.

2003-01-01

Predicting extinction risks has become a central goal for conservation and evolutionary biologists interested in population and community dynamics. Several factors have been put forward to explain risks of extinction, including ecological and life history characteristics of individuals. For instance, factors that affect the balance between natality and mortality can have profound effects on population persistence. Sexual selection has been identified as one such factor. Populations under strong sexual selection experience a number of costs ranging from increased predation and parasitism to enhanced sensitivity to environmental and demographic stochasticity. These findings have led to the prediction that local extinction rates should be higher for species/populations with intense sexual selection. We tested this prediction by analyzing the dynamics of natural bird communities at a continental scale over a period of 21 years (1975-1996), using relevant statistical tools. In agreement with the theoretical prediction, we found that sexual selection increased risks of local extinction (dichromatic birds had on average a 23% higher local extinction rate than monochromatic species). However, despite higher local extinction probabilities, the number of dichromatic species did not decrease over the period considered in this study. This pattern was caused by higher local turnover rates of dichromatic species, resulting in relatively stable communities for both groups of species. Our results suggest that these communities function as metacommunities, with frequent local extinctions followed by colonization. Anthropogenic factors impeding dispersal might therefore have a significant impact on the global persistence of sexually selected species.

Extraterrestrial Life in the Microbial Age

NASA Astrophysics Data System (ADS)

Gronstal, Aaron L.

Humankind has long been fascinated with the potential for alien civilizations within the Solar System and beyond (e.g., Crowe and Dowd 2013; Sullivan 2013). Despite the early optimism for life beyond Earth, humankind has yet to make first contact with an alien race. Historical discourse on the topic of alien life can provide some useful input into questions about how the people of Earth today might respond to contact with alien life (e.g., Dick 2013). However, this discourse is primarily devoted to understanding humankind's response to intelligent life. We must recognize that the search for life's potential beyond Earth has dramatically changed since the dawn of the Space Age. We now know that advanced civilizations are not common on planets in our solar system. The search for life on nearby worlds is now limited to non-intelligent, microbial life. Any chance we have of contacting intelligent life lies in receiving transmissions from distant worlds, and contact with such cultures would be greatly limited by the vast expanse of space. This chapter discusses the need for more attention paid to the possible social, economic, and legal ramifications that the discovery of non-intelligent, alien microbial life might bring.

Intelligibility in microbial complex systems: Wittgenstein and the score of life

PubMed Central

Baquero, Fernando; Moya, Andrés

2012-01-01

Knowledge in microbiology is reaching an extreme level of diversification and complexity, which paradoxically results in a strong reduction in the intelligibility of microbial life. In our days, the “score of life” metaphor is more accurate to express the complexity of living systems than the classic “book of life.” Music and life can be represented at lower hierarchical levels by music scores and genomic sequences, and such representations have a generational influence in the reproduction of music and life. If music can be considered as a representation of life, such representation remains as unthinkable as life itself. The analysis of scores and genomic sequences might provide mechanistic, phylogenetic, and evolutionary insights into music and life, but not about their real dynamics and nature, which is still maintained unthinkable, as was proposed by Wittgenstein. As complex systems, life or music is composed by thinkable and only showable parts, and a strategy of half-thinking, half-seeing is needed to expand knowledge. Complex models for complex systems, based on experiences on trans-hierarchical integrations, should be developed in order to provide a mixture of legibility and imageability of biological processes, which should lead to higher levels of intelligibility of microbial life. PMID:22919679

RESULTS OF A DATING ATTEMPT -CHEMICAL AND PHYSICAL MEASUREMENTS RELEVANT TO THE CASE OF THE CRETACEOUS TERTIARY EXTINCTIONS

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

Asaro, Frank; Michel, Helen V.; Alvarez, Luis W.

1980-09-01

In Gubbio, Italy, a l em layer of clay between extensive limestone formations marks the boundary between the Cretaceous and Tertiary Periods. This clay layer was known to have been deposited about 65 million years ago when many life forms became extinct, but the length of time associated with the deposition was not known. In an attempt to measure this time with normally deposited meteoritic material as a clock, extensive measurements of iridium abundances (and those of many other elements) were made on the Gubbio rocks. Neutron activation analysis was the principal tool used in these studies. About 50 elementsmore » are searched for in materials like the earth's crust, about 40 are detected and about 30 are measured with useful precision. We were not able to determine exactly how long the clay deposition took. Instead the laboratory studies on the chemical and physical nature of the Cretaceous-Tertiary boundary led to the theory that an asteroid collision with the earth was responsible for the extinction of many forms of life including the dinosaurs.« less

Arguing over Life and Death

ERIC Educational Resources Information Center

Nageotte, Nichole; Buck, Gayle; Kirk, Holly

2018-01-01

Imagine saving just one of the 23,000 species threatened with extinction. Students studying endangered species in a general life science course faced the decision of which species to save as a summative assignment in a unit on scientific explanation and argumentation. They used the claim, evidence, and reasoning (CER) framework in which students…

Enterprise Risk Management: The Way Ahead for DRDC within the DND Enterprise

DTIC Science & Technology

2010-03-01

Taleb Distributions, the Hurst Exponent (to deal with long time events), Life Extinction Events, Zero-Infinity Dilemmas (which characterize the...Time dependent Hurst exponent in financial time series”, Physica A 344 (2004) 267-271 35. Yoav Ben-Shlomo and Diana Koh, “A Life Course Approach to

Farewell to life on land - thoracic strength as a new indicator to determine paleoecology in secondary aquatic mammals.

PubMed

Ando, Konami; Fujiwara, Shin-Ichi

2016-12-01

Habitat shifts from land to water have occurred independently in several mammal lineages. However, because we do not know completely about the relationship between skeletal morphology and function, both reliable life reconstructions of each extinct taxon and the timing of those shifts in locomotor strategies are yet to be fully understood. We estimated the strengths of rib cages against vertical compression in 26 extant and four extinct mammal specimens including cetartiodactyls, paenungulates, and carnivorans, representing 11 terrestrial, six semi-aquatic, and nine obligate aquatic taxa. Our analyses of extant taxa showed that strengths were high among terrestrial/semi-aquatic mammals, whose rib cages are subjected to vertical compression during the support on land, whereas strengths were low among obligate aquatic mammals, whose rib cages are not subjected to antigravity force in the water. We therefore propose rib strength as a new index to estimate the ability of an animal to be supported on land while being supported by either the forelimbs or thoracic region. According to our analyses of extinct taxa, this ability to be supported on land was rejected for a basal cetacean (Cetartiodactyla: Ambulocetus) and two desmostylians (Paenungulata: Paleoparadoxia and Neoparadoxia). However, this ability was not rejected for one desmostylian species (Desmostylus). Further study of the ribs of extant/extinct semi-aquatic taxa may help in understanding the ecological shifts in these groups. © 2016 Anatomical Society.

Non-Equilibrium Thermodynamic Chemistry and the Composition of the Atmosphere of Mars

NASA Technical Reports Server (NTRS)

Levine, J. S.; Summers, M. E.

2003-01-01

A high priority objective of the Mars Exploration Program is to Determine if life exists today (MEPAG Goal I, Objective A). The measurement of gases of biogenic origin may be an approach to detect the presence of microbial life on the surface or subsurface of Mars. Chemical thermodynamic calculations indicate that on both Earth and Mars, certain gases should exist in extremely low concentrations, if at all. Microbial metabolic activity is an important non-equilibrium chemistry process on Earth, and if microbial life exists on Mars, may be an important nonequilibrium chemistry process on Mars. The non-equilibrium chemistry of the atmosphere of Mars is discussed in this paper.

Lava Cave Microbial Communities Within Mats and Secondary Mineral Deposits: Implications for Life Detection on Other Planets

PubMed Central

Melim, L.A.; Spilde, M.N.; Hathaway, J.J.M.; Garcia, M.G.; Moya, M.; Stone, F.D.; Boston, P.J.; Dapkevicius, M.L.N.E.; Riquelme, C.

2011-01-01

Abstract Lava caves contain a wealth of yellow, white, pink, tan, and gold-colored microbial mats; but in addition to these clearly biological mats, there are many secondary mineral deposits that are nonbiological in appearance. Secondary mineral deposits examined include an amorphous copper-silicate deposit (Hawai‘i) that is blue-green in color and contains reticulated and fuzzy filament morphologies. In the Azores, lava tubes contain iron-oxide formations, a soft ooze-like coating, and pink hexagons on basaltic glass, while gold-colored deposits are found in lava caves in New Mexico and Hawai‘i. A combination of scanning electron microscopy (SEM) and molecular techniques was used to analyze these communities. Molecular analyses of the microbial mats and secondary mineral deposits revealed a community that contains 14 phyla of bacteria across three locations: the Azores, New Mexico, and Hawai‘i. Similarities exist between bacterial phyla found in microbial mats and secondary minerals, but marked differences also occur, such as the lack of Actinobacteria in two-thirds of the secondary mineral deposits. The discovery that such deposits contain abundant life can help guide our detection of life on extraterrestrial bodies. Key Words: Biosignatures—Astrobiology—Bacteria—Caves—Life detection—Microbial mats. Astrobiology 11, 601–618. PMID:21879833

Thermal Transgressions and Phanerozoic Extinctions

NASA Astrophysics Data System (ADS)

Worsley, T. R.; Kidder, D. L.

2007-12-01

A number of significant Phanerozoic extinctions are associated with marine transgressions that were probably driven by rapid ocean warming. The conditions associated with what we call thermal transgressions are extremely stressful to life on Earth. The Earth system setting associated with end-Permian extinction exemplifies an end-member case of our model. The conditions favoring extreme warmth and sea-level increases driven by thermal expansion are also conducive to changes in ocean circulation that foster widespread anoxia and sulfidic subsurface ocean waters. Equable climates are characterized by reduced wind shear and weak surface ocean circulation. Late Permian and Early Triassic thermohaline circulation differs considerably from today's world, with minimal polar sinking and intensified mid-latitude sinking that delivers sulfate from shallow evaporative areas to deeper water where it is reduced to sulfide. Reduced nutrient input to oceans from land at many of the extinction intervals results from diminished silicate weathering and weakened delivery of iron via eolian dust. The falloff in iron-bearing dust leads to minimal nitrate production, weakening food webs and rendering faunas and floras more susceptible to extinction when stressed. Factors such as heat, anoxia, ocean acidification, hypercapnia, and hydrogen sulfide poisoning would significantly affect these biotas. Intervals of tectonic quiescence set up preconditions favoring extinctions. Reductions in chemical silicate weathering lead to carbon dioxide buildup, oxygen drawdown, nutrient depletion, wind and ocean current abatement, long-term global warming, and ocean acidification. The effects of extinction triggers such as large igneous provinces, bolide impacts, and episodes of sudden methane release are more potent against the backdrop of our proposed preconditions. Extinctions that have characteristics we call for in the thermal transgressions include the Early Cambrian Sinsk event, as well as extinction events at the Frasnian-Famennian, end-Devonian, end Permian, Early Toarcian, Cenomanian-Turonian, and end Cretaceous. The Late Paleocene and end Triassic extinctions are still under evaluation. The extinctions associated with the glacio-eustatic sea-level change in the Late Ordovician are not consistent with the conditions of our model.

Microbial spoilage of portuguese chouriço along shelf life period

PubMed Central

de Jesus da Silva Matos, Teresa; Bruno-Soares, Arminda; Azevedo, António Amaral

2013-01-01

Microbial flora of portuguese chouriço (Alentejano (A) and Ribatejano (R)) with abnormal sensorial characteristics along shelf life was studied. Mesophilic anaerobic bacteria, enterococci, mesophilic sporeformers, coliforms, coagulase-positive staphylococci, sulphite reducing clostridia, Clostridium perfringens, moulds and yeasts were the most representative in both types of chouriço. PMID:24159290

Increasing strawberry shelf-life with carvacrol and methyl cinnamate antimicrobial vapors released from edible films (abstract)

USDA-ARS?s Scientific Manuscript database

Shelf life of strawberries (Fragaria x ananassa) is limited by decay caused by microbial growth that negatively impacts their color, texture and weight. Plant natural volatile compounds, such as terpenoids and esters, have been reported to be effective against microbial pathogen growth. The advantag...

Microbial ecology of the cryosphere: sea ice and glacial habitats.

PubMed

Boetius, Antje; Anesio, Alexandre M; Deming, Jody W; Mikucki, Jill A; Rapp, Josephine Z

2015-11-01

The Earth's cryosphere comprises those regions that are cold enough for water to turn into ice. Recent findings show that the icy realms of polar oceans, glaciers and ice sheets are inhabited by microorganisms of all three domains of life, and that temperatures below 0 °C are an integral force in the diversification of microbial life. Cold-adapted microorganisms maintain key ecological functions in icy habitats: where sunlight penetrates the ice, photoautotrophy is the basis for complex food webs, whereas in dark subglacial habitats, chemoautotrophy reigns. This Review summarizes current knowledge of the microbial ecology of frozen waters, including the diversity of niches, the composition of microbial communities at these sites and their biogeochemical activities.

Relationships of Cetacea (Artiodactyla) among mammals: increased taxon sampling alters interpretations of key fossils and character evolution.

PubMed

Spaulding, Michelle; O'Leary, Maureen A; Gatesy, John

2009-09-23

Integration of diverse data (molecules, fossils) provides the most robust test of the phylogeny of cetaceans. Positioning key fossils is critical for reconstructing the character change from life on land to life in the water. We reexamine relationships of critical extinct taxa that impact our understanding of the origin of Cetacea. We do this in the context of the largest total evidence analysis of morphological and molecular information for Artiodactyla (661 phenotypic characters and 46,587 molecular characters, coded for 33 extant and 48 extinct taxa). We score morphological data for Carnivoramorpha, Creodonta, Lipotyphla, and the raoellid artiodactylan Indohyus and concentrate on determining which fossils are positioned along stem lineages to major artiodactylan crown clades. Shortest trees place Cetacea within Artiodactyla and close to Indohyus, with Mesonychia outside of Artiodactyla. The relationships of Mesonychia and Indohyus are highly unstable, however--in trees only two steps longer than minimum length, Mesonychia falls inside Artiodactyla and displaces Indohyus from a position close to Cetacea. Trees based only on data that fossilize continue to show the classic arrangement of relationships within Artiodactyla with Cetacea grouping outside the clade, a signal incongruent with the molecular data that dominate the total evidence result. Integration of new fossil material of Indohyus impacts placement of another extinct clade Mesonychia, pushing it much farther down the tree. The phylogenetic position of Indohyus suggests that the cetacean stem lineage included herbivorous and carnivorous aquatic species. We also conclude that extinct members of Cetancodonta (whales+hippopotamids) shared a derived ability to hear underwater sounds, even though several cetancodontans lack a pachyostotic auditory bulla. We revise the taxonomy of living and extinct artiodactylans and propose explicit node and stem-based definitions for the ingroup.

Does the seed bank contribute to the build-up of a genetic extinction debt in the grassland perennial Campanula rotundifolia?

PubMed

Plue, Jan; Vandepitte, Katrien; Honnay, Olivier; Cousins, Sara A O

2017-09-01

Habitat fragmentation threatens global biodiversity. Many plant species persist in habitat fragments via persistent life cycle stages such as seed banks, generating a species extinction debt. Here, seed banks are hypothesized to cause a temporal delay in the expected loss of genetic variation, which can be referred to as a genetic extinction debt, as a possible mechanism behind species extinction debts. Fragmented grassland populations of Campanula rotundifolia were examined for evidence of a genetic extinction debt, investigating if the seed bank contributed to the extinction debt build-up. The genetic make-up of 15 above- and below-ground populations was analysed in relation to historical and current levels of habitat fragmentation, both separately and combined. Genetic diversity was highest in above-ground populations, though below-ground populations contained 8 % of unique alleles that were absent above-ground. Above-ground genetic diversity and composition were related to historical patch size and connectivity, but not current patch characteristics, suggesting the presence of a genetic extinction debt in the above-ground populations. No such relationships were found for the below-ground populations. Genetic diversity measures still showed a response to historical but not present landscape characteristics when combining genetic diversity of the above- and below-ground populations. The fragmented C. rotundifolia populations exhibited a genetic extinction debt. However, the role of the seed banks in the build-up of this extinction debt is probably small, since the limited, unique genetic diversity of the seed bank alone seems unable to counter the detrimental effects of habitat fragmentation on the population genetic structure of C. rotundifolia. © The Author 2017. Published by Oxford University Press on behalf of the Annals of Botany Company. All rights reserved. For Permissions, please email: journals.permissions@oup.com

Cave speleothems as repositories of microbial biosignatures

NASA Astrophysics Data System (ADS)

Miller, Ana Z.; Jurado, Valme; Pereira, Manuel F. C.; Fernández, Octavio; Calaforra, José M.; Dionísio, Amélia; Saiz-Jimenez, Cesareo

2015-04-01

The need to better understand the biodiversity, origins of life on Earth and on other planets, and the wide applications of the microbe-mineral interactions have led to a rapid expansion of interest in subsurface environments. Recently reported results indicated signs of an early wet Mars and rather recent volcanic activity which suggest that Mars's subsurface can house organic molecules or traces of microbial life, making the search for microbial life on Earth's subsurface even more compelling. Caves on Earth are windows into the subsurface that harbor a wide variety of mineral-utilizing microorganisms, which may contribute to the formation of biominerals and unusual microstructures recognized as biosignatures. These environments contain a wide variety of redox interfaces and stable physicochemical conditions, which enhance secondary mineral precipitation and microbial growth under limited organic nutrient inputs. Enigmatic microorganisms and unusual mineral features have been found associated with secondary mineral deposits or speleothems in limestone caves and lava tubes. In this study, Field Emission Scanning Electron Microscopy (FESEM) and Energy Dispersive X-ray spectroscopy (EDS) analyses were conducted on cave speleothem samples to assess microbe-mineral interactions, evaluate biogenicity, as well as to describe unusual mineral formations and microbial features. Microbial mats, extracellular polymeric substances, tubular empty sheaths, mineralized cells, filamentous fabrics, as well as "cell-sized" etch pits or microborings produced by bacterial cells were observed on minerals. These features evidence microbe-mineral interactions and may represent mineralogical signatures of life. We can thus consider that caves on Earth are plausible repositories of terrestrial biosignatures where we can look for microbial signatures. Acknowledgments: AZM acknowledges the support from the Marie Curie Intra-European Fellowship within the 7th European Community Framework Programme (PIEF-GA-2012-328689- DECAVE). The authors acknowledge the Spanish Ministry of Economy and Competitiveness (project CGL2013-41674-P) for financial support.

Global climate change driven by soot at the K-Pg boundary as the cause of the mass extinction

NASA Astrophysics Data System (ADS)

Kaiho, Kunio; Oshima, Naga; Adachi, Kouji; Adachi, Yukimasa; Mizukami, Takuya; Fujibayashi, Megumu; Saito, Ryosuke

2016-07-01

The mass extinction of life 66 million years ago at the Cretaceous/Paleogene boundary, marked by the extinctions of dinosaurs and shallow marine organisms, is important because it led to the macroevolution of mammals and appearance of humans. The current hypothesis for the extinction is that an asteroid impact in present-day Mexico formed condensed aerosols in the stratosphere, which caused the cessation of photosynthesis and global near-freezing conditions. Here, we show that the stratospheric aerosols did not induce darkness that resulted in milder cooling than previously thought. We propose a new hypothesis that latitude-dependent climate changes caused by massive stratospheric soot explain the known mortality and survival on land and in oceans at the Cretaceous/Paleogene boundary. The stratospheric soot was ejected from the oil-rich area by the asteroid impact and was spread globally. The soot aerosols caused sufficiently colder climates at mid-high latitudes and drought with milder cooling at low latitudes on land, in addition to causing limited cessation of photosynthesis in global oceans within a few months to two years after the impact, followed by surface-water cooling in global oceans in a few years. The rapid climate change induced terrestrial extinctions followed by marine extinctions over several years.

Global climate change driven by soot at the K-Pg boundary as the cause of the mass extinction

PubMed Central

Kaiho, Kunio; Oshima, Naga; Adachi, Kouji; Adachi, Yukimasa; Mizukami, Takuya; Fujibayashi, Megumu; Saito, Ryosuke

2016-01-01

The mass extinction of life 66 million years ago at the Cretaceous/Paleogene boundary, marked by the extinctions of dinosaurs and shallow marine organisms, is important because it led to the macroevolution of mammals and appearance of humans. The current hypothesis for the extinction is that an asteroid impact in present-day Mexico formed condensed aerosols in the stratosphere, which caused the cessation of photosynthesis and global near-freezing conditions. Here, we show that the stratospheric aerosols did not induce darkness that resulted in milder cooling than previously thought. We propose a new hypothesis that latitude-dependent climate changes caused by massive stratospheric soot explain the known mortality and survival on land and in oceans at the Cretaceous/Paleogene boundary. The stratospheric soot was ejected from the oil-rich area by the asteroid impact and was spread globally. The soot aerosols caused sufficiently colder climates at mid–high latitudes and drought with milder cooling at low latitudes on land, in addition to causing limited cessation of photosynthesis in global oceans within a few months to two years after the impact, followed by surface-water cooling in global oceans in a few years. The rapid climate change induced terrestrial extinctions followed by marine extinctions over several years. PMID:27414998

Elevated Extinction Rates as a Trigger for Diversification Rate Shifts: Early Amniotes as a Case Study

PubMed Central

Brocklehurst, Neil; Ruta, Marcello; Müller, Johannes; Fröbisch, Jörg

2015-01-01

Tree shape analyses are frequently used to infer the location of shifts in diversification rate within the Tree of Life. Many studies have supported a causal relationship between shifts and temporally coincident events such as the evolution of “key innovations”. However, the evidence for such relationships is circumstantial. We investigated patterns of diversification during the early evolution of Amniota from the Carboniferous to the Triassic, subjecting a new supertree to analyses of tree balance in order to infer the timing and location of diversification shifts. We investigated how uneven origination and extinction rates drive diversification shifts, and use two case studies (herbivory and an aquatic lifestyle) to examine whether shifts tend to be contemporaneous with evolutionary novelties. Shifts within amniotes tend to occur during periods of elevated extinction, with mass extinctions coinciding with numerous and larger shifts. Diversification shifts occurring in clades that possess evolutionary innovations do not coincide temporally with the appearance of those innovations, but are instead deferred to periods of high extinction rate. We suggest such innovations did not cause increases in the rate of cladogenesis, but allowed clades to survive extinction events. We highlight the importance of examining general patterns of diversification before interpreting specific shifts. PMID:26592209

Global climate change driven by soot at the K-Pg boundary as the cause of the mass extinction.

PubMed

Kaiho, Kunio; Oshima, Naga; Adachi, Kouji; Adachi, Yukimasa; Mizukami, Takuya; Fujibayashi, Megumu; Saito, Ryosuke

2016-07-14

The mass extinction of life 66 million years ago at the Cretaceous/Paleogene boundary, marked by the extinctions of dinosaurs and shallow marine organisms, is important because it led to the macroevolution of mammals and appearance of humans. The current hypothesis for the extinction is that an asteroid impact in present-day Mexico formed condensed aerosols in the stratosphere, which caused the cessation of photosynthesis and global near-freezing conditions. Here, we show that the stratospheric aerosols did not induce darkness that resulted in milder cooling than previously thought. We propose a new hypothesis that latitude-dependent climate changes caused by massive stratospheric soot explain the known mortality and survival on land and in oceans at the Cretaceous/Paleogene boundary. The stratospheric soot was ejected from the oil-rich area by the asteroid impact and was spread globally. The soot aerosols caused sufficiently colder climates at mid-high latitudes and drought with milder cooling at low latitudes on land, in addition to causing limited cessation of photosynthesis in global oceans within a few months to two years after the impact, followed by surface-water cooling in global oceans in a few years. The rapid climate change induced terrestrial extinctions followed by marine extinctions over several years.

Immunological Insights into the Life and Times of the Extinct Tasmanian Tiger (Thylacinus cynocephalus)

PubMed Central

Old, Julie M.

2015-01-01

The thylacine (Thylacinus cynocephalus) was Australia’s largest marsupial carnivore until its extinction within the last century. There remains considerable interest and debate regarding the biology of this species. Studies of thylacine biology are now limited to preserved specimens, and parts thereof, as well as written historical accounts of its biology. This study describes the development of the immune tissues of a pouch young thylacine, one of only eleven in existence, and the only specimen to be histologically sectioned. The appearance of the immune tissue of the developing pouch young thylacine is compared to the immune tissues of extant marsupials, providing insights into the immunity, biology and ecology of the extinct thylacine. PMID:26655868

Cretaceous extinctions - Evidence for wildfires and search for meteoritic material

NASA Technical Reports Server (NTRS)

Wolbach, W. S.; Lewis, R. S.; Anders, E.

1985-01-01

The results of analyses of the contents of deposits in the Cretaceous-Ternary (K-T) transition at three sites worldwide are discussed. The study was undertaken to examine the composition of the object which may have struck the earth, causing widespread biotic extinction. The data indicate that most of the parent body was destroyed on impact, a condition which would also hold true for comets, suggesting that comets were not a source of prebiotic life. A four-orders-of-magnitude excess of carbon in the K-T layer is considered in terms of its source, which is suspected to be deposits from wildfires. The consequent extinctions of species are regarded as possibly making the current nuclear winter scenarios too optimistic.

Exogenous prenatal corticosterone exposure mimics the effects of prenatal stress on adult brain stress response systems and fear extinction behavior.

PubMed

Bingham, Brian C; Sheela Rani, C S; Frazer, Alan; Strong, Randy; Morilak, David A

2013-11-01

Exposure to early-life stress is a risk factor for the development of cognitive and emotional disorders later in life. We previously demonstrated that prenatal stress (PNS) in rats results in long-term, stable changes in central stress-response systems and impairs the ability to extinguish conditioned fear responding, a component of post-traumatic stress disorder (PTSD). Maternal corticosterone (CORT), released during prenatal stress, is a possible mediator of these effects. The purpose of the present study was to investigate whether fetal exposure to CORT at levels induced by PNS is sufficient to alter the development of adult stress neurobiology and fear extinction behavior. Pregnant dams were subject to either PNS (60 min immobilization/day from ED 14-21) or a daily injection of CORT (10mg/kg), which approximated both fetal and maternal plasma CORT levels elicited during PNS. Control dams were given injections of oil vehicle. Male offspring were allowed to grow to adulthood undisturbed, at which point they were sacrificed and the medial prefrontal cortex (mPFC), hippocampus, hypothalamus, and a section of the rostral pons containing the locus coeruleus (LC) were dissected. PNS and prenatal CORT treatment decreased glucocorticoid receptor protein levels in the mPFC, hippocampus, and hypothalamus when compared to control offspring. Both treatments also decreased tyrosine hydroxylase levels in the LC. Finally, the effect of prenatal CORT exposure on fear extinction behavior was examined following chronic stress. Prenatal CORT impaired both acquisition and recall of cue-conditioned fear extinction. This effect was additive to the impairment induced by previous chronic stress. Thus, these data suggest that fetal exposure to high levels of maternal CORT is responsible for many of the lasting neurobiological consequences of PNS as they relate to the processes underlying extinction of learned fear. The data further suggest that adverse prenatal environments constitute a risk factor for PTSD-like symptomatology, especially when combined with chronic stressors later in life. Copyright © 2013 Elsevier Ltd. All rights reserved.

Ecological extinction and evolution in the brave new ocean

PubMed Central

Jackson, Jeremy B. C.

2008-01-01

The great mass extinctions of the fossil record were a major creative force that provided entirely new kinds of opportunities for the subsequent explosive evolution and diversification of surviving clades. Today, the synergistic effects of human impacts are laying the groundwork for a comparably great Anthropocene mass extinction in the oceans with unknown ecological and evolutionary consequences. Synergistic effects of habitat destruction, overfishing, introduced species, warming, acidification, toxins, and massive runoff of nutrients are transforming once complex ecosystems like coral reefs and kelp forests into monotonous level bottoms, transforming clear and productive coastal seas into anoxic dead zones, and transforming complex food webs topped by big animals into simplified, microbially dominated ecosystems with boom and bust cycles of toxic dinoflagellate blooms, jellyfish, and disease. Rates of change are increasingly fast and nonlinear with sudden phase shifts to novel alternative community states. We can only guess at the kinds of organisms that will benefit from this mayhem that is radically altering the selective seascape far beyond the consequences of fishing or warming alone. The prospects are especially bleak for animals and plants compared with metabolically flexible microbes and algae. Halting and ultimately reversing these trends will require rapid and fundamental changes in fisheries, agricultural practice, and the emissions of greenhouse gases on a global scale. PMID:18695220

Colloquium paper: ecological extinction and evolution in the brave new ocean.

PubMed

Jackson, Jeremy B C

2008-08-12

The great mass extinctions of the fossil record were a major creative force that provided entirely new kinds of opportunities for the subsequent explosive evolution and diversification of surviving clades. Today, the synergistic effects of human impacts are laying the groundwork for a comparably great Anthropocene mass extinction in the oceans with unknown ecological and evolutionary consequences. Synergistic effects of habitat destruction, overfishing, introduced species, warming, acidification, toxins, and massive runoff of nutrients are transforming once complex ecosystems like coral reefs and kelp forests into monotonous level bottoms, transforming clear and productive coastal seas into anoxic dead zones, and transforming complex food webs topped by big animals into simplified, microbially dominated ecosystems with boom and bust cycles of toxic dinoflagellate blooms, jellyfish, and disease. Rates of change are increasingly fast and nonlinear with sudden phase shifts to novel alternative community states. We can only guess at the kinds of organisms that will benefit from this mayhem that is radically altering the selective seascape far beyond the consequences of fishing or warming alone. The prospects are especially bleak for animals and plants compared with metabolically flexible microbes and algae. Halting and ultimately reversing these trends will require rapid and fundamental changes in fisheries, agricultural practice, and the emissions of greenhouse gases on a global scale.

Extinction risk is most acute for the world’s largest and smallest vertebrates

PubMed Central

Ripple, William J.; Wolf, Christopher; Newsome, Thomas M.; Hoffmann, Michael; Wirsing, Aaron J.; McCauley, Douglas J.

2017-01-01

Extinction risk in vertebrates has been linked to large body size, but this putative relationship has only been explored for select taxa, with variable results. Using a newly assembled and taxonomically expansive database, we analyzed the relationships between extinction risk and body mass (27,647 species) and between extinction risk and range size (21,294 species) for vertebrates across six main classes. We found that the probability of being threatened was positively and significantly related to body mass for birds, cartilaginous fishes, and mammals. Bimodal relationships were evident for amphibians, reptiles, and bony fishes. Most importantly, a bimodal relationship was found across all vertebrates such that extinction risk changes around a body mass breakpoint of 0.035 kg, indicating that the lightest and heaviest vertebrates have elevated extinction risk. We also found range size to be an important predictor of the probability of being threatened, with strong negative relationships across nearly all taxa. A review of the drivers of extinction risk revealed that the heaviest vertebrates are most threatened by direct killing by humans. By contrast, the lightest vertebrates are most threatened by habitat loss and modification stemming especially from pollution, agricultural cropping, and logging. Our results offer insight into halting the ongoing wave of vertebrate extinctions by revealing the vulnerability of large and small taxa, and identifying size-specific threats. Moreover, they indicate that, without intervention, anthropogenic activities will soon precipitate a double truncation of the size distribution of the world’s vertebrates, fundamentally reordering the structure of life on our planet. PMID:28923917

Extinction risk is most acute for the world's largest and smallest vertebrates.

PubMed

Ripple, William J; Wolf, Christopher; Newsome, Thomas M; Hoffmann, Michael; Wirsing, Aaron J; McCauley, Douglas J

2017-10-03

Extinction risk in vertebrates has been linked to large body size, but this putative relationship has only been explored for select taxa, with variable results. Using a newly assembled and taxonomically expansive database, we analyzed the relationships between extinction risk and body mass (27,647 species) and between extinction risk and range size (21,294 species) for vertebrates across six main classes. We found that the probability of being threatened was positively and significantly related to body mass for birds, cartilaginous fishes, and mammals. Bimodal relationships were evident for amphibians, reptiles, and bony fishes. Most importantly, a bimodal relationship was found across all vertebrates such that extinction risk changes around a body mass breakpoint of 0.035 kg, indicating that the lightest and heaviest vertebrates have elevated extinction risk. We also found range size to be an important predictor of the probability of being threatened, with strong negative relationships across nearly all taxa. A review of the drivers of extinction risk revealed that the heaviest vertebrates are most threatened by direct killing by humans. By contrast, the lightest vertebrates are most threatened by habitat loss and modification stemming especially from pollution, agricultural cropping, and logging. Our results offer insight into halting the ongoing wave of vertebrate extinctions by revealing the vulnerability of large and small taxa, and identifying size-specific threats. Moreover, they indicate that, without intervention, anthropogenic activities will soon precipitate a double truncation of the size distribution of the world's vertebrates, fundamentally reordering the structure of life on our planet.

Endangered Species: Real Life in Two Dimensions

ERIC Educational Resources Information Center

Henderson, Lynette K.

2012-01-01

The focus of "Endangered Species: Real Life in Two Dimensions" is to create awareness about a critical environmental issue. There is a special urgency to this project because large numbers of animal species are currently endangered or on the brink of extinction. In addition to being enlightened about this important topic through research, students…

Individual-Based Model of Microbial Life on Hydrated Rough Soil Surfaces

PubMed Central

Kim, Minsu; Or, Dani

2016-01-01

Microbial life in soil is perceived as one of the most interesting ecological systems, with microbial communities exhibiting remarkable adaptability to vast dynamic environmental conditions. At the same time, it is a notoriously challenging system to understand due to its complexity including physical, chemical, and biological factors in synchrony. This study presents a spatially-resolved model of microbial dynamics on idealised rough soil surfaces represented as patches with different (roughness) properties that preserve the salient hydration physics of real surfaces. Cell level microbial interactions are considered within an individual-based formulation including dispersion and various forms of trophic dependencies (competition, mutualism). The model provides new insights into mechanisms affecting microbial community dynamics and gives rise to spontaneous formation of microbial community spatial patterns. The framework is capable of representing many interacting species and provides diversity metrics reflecting surface conditions and their evolution over time. A key feature of the model is its spatial scalability that permits representation of microbial processes from cell-level (micro-metric scales) to soil representative volumes at sub-metre scales. Several illustrative examples of microbial trophic interactions and population dynamics highlight the potential of the proposed modelling framework to quantitatively study soil microbial processes. The model is highly applicable in a wide range spanning from quantifying spatial organisation of multiple species under various hydration conditions to predicting microbial diversity residing in different soils. PMID:26807803

Modelling the sensitivity of life history traits to climate change in a temporary pool crustacean.

PubMed

Pinceel, Tom; Vanschoenwinkel, Bram; Brendonck, Luc; Buschke, Falko

2016-07-11

Temporary pool inhabitants face altered inundation regimes under climate change. While their exposure to these changes has received considerable attention, few studies have investigated their sensitivity or adaptability. Here, we use zooplankton as a model to explore how decreasing hydroperiods affect extinction risks and assess whether changes in life history traits could promote persistence. For this, we construct a three-stage matrix population model parameterised with realistic life-history values for the fairy shrimp Branchipodopsis wolfi from pools with varying hydroperiods. Our results suggest that extinction risks increase drastically once the median hydroperiod drops below a critical threshold. Although changes in life-history parameters could potentially compensate for this risk, the relative importance of each trait for population growth depends on the median hydroperiod. For example, survival of dormant eggs seemed to be most important when hydroperiods were short while the survival of freshly laid eggs and adult individuals were more important in longer-lived pools. Overall, this study demonstrates that zooplankton species are sensitive to climate change and that the adaptive capacity of organisms from temporary pools with dissimilar hydrology hinges on selection of different life history traits.

A Rare Glimpse of Paleoarchean Life: Geobiology of an Exceptionally Preserved Microbial Mat Facies from the 3.4 Ga Strelley Pool Formation, Western Australia.

PubMed

Duda, Jan-Peter; Van Kranendonk, Martin J; Thiel, Volker; Ionescu, Danny; Strauss, Harald; Schäfer, Nadine; Reitner, Joachim

2016-01-01

Paleoarchean rocks from the Pilbara Craton of Western Australia provide a variety of clues to the existence of early life on Earth, such as stromatolites, putative microfossils and geochemical signatures of microbial activity. However, some of these features have also been explained by non-biological processes. Further lines of evidence are therefore required to convincingly argue for the presence of microbial life. Here we describe a new type of microbial mat facies from the 3.4 Ga Strelley Pool Formation, which directly overlies well known stromatolitic carbonates from the same formation. This microbial mat facies consists of laminated, very fine-grained black cherts with discontinuous white quartz layers and lenses, and contains small domical stromatolites and wind-blown crescentic ripples. Light- and cathodoluminescence microscopy, Raman spectroscopy, and time of flight-secondary ion mass spectrometry (ToF-SIMS) reveal a spatial association of carbonates, organic material, and highly abundant framboidal pyrite within the black cherts. Nano secondary ion mass spectrometry (NanoSIMS) confirmed the presence of distinct spheroidal carbonate bodies up to several tens of μm that are surrounded by organic material and pyrite. These aggregates are interpreted as biogenic. Comparison with Phanerozoic analogues indicates that the facies represents microbial mats formed in a shallow marine environment. Carbonate precipitation and silicification by hydrothermal fluids occurred during sedimentation and earliest diagenesis. The deciphered environment, as well as the δ13C signature of bulk organic matter (-35.3‰), are in accord with the presence of photoautotrophs. At the same time, highly abundant framboidal pyrite exhibits a sulfur isotopic signature (δ34S = +3.05‰; Δ33S = 0.268‰; and Δ36S = -0.282‰) that is consistent with microbial sulfate reduction. Taken together, our results strongly support a microbial mat origin of the black chert facies, thus providing another line of evidence for life in the 3.4 Ga Strelley Pool Formation.

A Rare Glimpse of Paleoarchean Life: Geobiology of an Exceptionally Preserved Microbial Mat Facies from the 3.4 Ga Strelley Pool Formation, Western Australia

PubMed Central

Duda, Jan-Peter; Van Kranendonk, Martin J.; Thiel, Volker; Ionescu, Danny; Strauss, Harald; Schäfer, Nadine; Reitner, Joachim

2016-01-01

Paleoarchean rocks from the Pilbara Craton of Western Australia provide a variety of clues to the existence of early life on Earth, such as stromatolites, putative microfossils and geochemical signatures of microbial activity. However, some of these features have also been explained by non-biological processes. Further lines of evidence are therefore required to convincingly argue for the presence of microbial life. Here we describe a new type of microbial mat facies from the 3.4 Ga Strelley Pool Formation, which directly overlies well known stromatolitic carbonates from the same formation. This microbial mat facies consists of laminated, very fine-grained black cherts with discontinuous white quartz layers and lenses, and contains small domical stromatolites and wind-blown crescentic ripples. Light- and cathodoluminescence microscopy, Raman spectroscopy, and time of flight—secondary ion mass spectrometry (ToF-SIMS) reveal a spatial association of carbonates, organic material, and highly abundant framboidal pyrite within the black cherts. Nano secondary ion mass spectrometry (NanoSIMS) confirmed the presence of distinct spheroidal carbonate bodies up to several tens of μm that are surrounded by organic material and pyrite. These aggregates are interpreted as biogenic. Comparison with Phanerozoic analogues indicates that the facies represents microbial mats formed in a shallow marine environment. Carbonate precipitation and silicification by hydrothermal fluids occurred during sedimentation and earliest diagenesis. The deciphered environment, as well as the δ13C signature of bulk organic matter (-35.3‰), are in accord with the presence of photoautotrophs. At the same time, highly abundant framboidal pyrite exhibits a sulfur isotopic signature (δ34S = +3.05‰; Δ33S = 0.268‰; and Δ36S = -0.282‰) that is consistent with microbial sulfate reduction. Taken together, our results strongly support a microbial mat origin of the black chert facies, thus providing another line of evidence for life in the 3.4 Ga Strelley Pool Formation. PMID:26807732

How Will We React to the Discovery of Extraterrestrial Life?

PubMed

Kwon, Jung Yul; Bercovici, Hannah L; Cunningham, Katja; Varnum, Michael E W

2017-01-01

How will humanity react to the discovery of extraterrestrial life? Speculation on this topic abounds, but empirical research is practically non-existent. We report the results of three empirical studies assessing psychological reactions to the discovery of extraterrestrial life using the Linguistic Inquiry and Word Count (LIWC) text analysis software. We examined language use in media coverage of past discovery announcements of this nature, with a focus on extraterrestrial microbial life (Pilot Study). A large online sample ( N = 501) was asked to write about their own and humanity's reaction to a hypothetical announcement of such a discovery (Study 1), and an independent, large online sample ( N = 256) was asked to read and respond to a newspaper story about the claim that fossilized extraterrestrial microbial life had been found in a meteorite of Martian origin (Study 2). Across these studies, we found that reactions were significantly more positive than negative, and more reward vs. risk oriented. A mini-meta-analysis revealed large overall effect sizes (positive vs. negative affect language: g = 0.98; reward vs. risk language: g = 0.81). We also found that people's forecasts of their own reactions showed a greater positivity bias than their forecasts of humanity's reactions (Study 1), and that responses to reading an actual announcement of the discovery of extraterrestrial microbial life showed a greater positivity bias than responses to reading an actual announcement of the creation of man-made synthetic life (Study 2). Taken together, this work suggests that our reactions to a future confirmed discovery of microbial extraterrestrial life are likely to be fairly positive.

How Will We React to the Discovery of Extraterrestrial Life?

PubMed Central

Kwon, Jung Yul; Bercovici, Hannah L.; Cunningham, Katja; Varnum, Michael E. W.

2018-01-01

How will humanity react to the discovery of extraterrestrial life? Speculation on this topic abounds, but empirical research is practically non-existent. We report the results of three empirical studies assessing psychological reactions to the discovery of extraterrestrial life using the Linguistic Inquiry and Word Count (LIWC) text analysis software. We examined language use in media coverage of past discovery announcements of this nature, with a focus on extraterrestrial microbial life (Pilot Study). A large online sample (N = 501) was asked to write about their own and humanity’s reaction to a hypothetical announcement of such a discovery (Study 1), and an independent, large online sample (N = 256) was asked to read and respond to a newspaper story about the claim that fossilized extraterrestrial microbial life had been found in a meteorite of Martian origin (Study 2). Across these studies, we found that reactions were significantly more positive than negative, and more reward vs. risk oriented. A mini-meta-analysis revealed large overall effect sizes (positive vs. negative affect language: g = 0.98; reward vs. risk language: g = 0.81). We also found that people’s forecasts of their own reactions showed a greater positivity bias than their forecasts of humanity’s reactions (Study 1), and that responses to reading an actual announcement of the discovery of extraterrestrial microbial life showed a greater positivity bias than responses to reading an actual announcement of the creation of man-made synthetic life (Study 2). Taken together, this work suggests that our reactions to a future confirmed discovery of microbial extraterrestrial life are likely to be fairly positive. PMID:29367849

Diagnosing the dangerous demography of manta rays using life history theory.

PubMed

Dulvy, Nicholas K; Pardo, Sebastián A; Simpfendorfer, Colin A; Carlson, John K

2014-01-01

Background. The directed harvest and global trade in the gill plates of mantas, and devil rays, has led to increased fishing pressure and steep population declines in some locations. The slow life history, particularly of the manta rays, is cited as a key reason why such species have little capacity to withstand directed fisheries. Here, we place their life history and demography within the context of other sharks and rays. Methods. Despite the limited availability of data, we use life history theory and comparative analysis to estimate the intrinsic risk of extinction (as indexed by the maximum intrinsic rate of population increase r max) for a typical generic manta ray using a variant of the classic Euler-Lotka demographic model. This model requires only three traits to calculate the maximum intrinsic population growth rate r max: von Bertalanffy growth rate, annual pup production and age at maturity. To account for the uncertainty in life history parameters, we created plausible parameter ranges and propagate these uncertainties through the model to calculate a distribution of the plausible range of r max values. Results. The maximum population growth rate r max of manta ray is most sensitive to the length of the reproductive cycle, and the median r max of 0.116 year(-1) 95th percentile [0.089-0.139] is one of the lowest known of the 106 sharks and rays for which we have comparable demographic information. Discussion. In common with other unprotected, unmanaged, high-value large-bodied sharks and rays the combination of very low population growth rates of manta rays, combined with the high value of their gill rakers and the international nature of trade, is highly likely to lead to rapid depletion and potential local extinction unless a rapid conservation management response occurs worldwide. Furthermore, we show that it is possible to derive important insights into the demography extinction risk of data-poor species using well-established life history theory.

Diagnosing the dangerous demography of manta rays using life history theory

PubMed Central

Pardo, Sebastián A.; Simpfendorfer, Colin A.; Carlson, John K.

2014-01-01

Background. The directed harvest and global trade in the gill plates of mantas, and devil rays, has led to increased fishing pressure and steep population declines in some locations. The slow life history, particularly of the manta rays, is cited as a key reason why such species have little capacity to withstand directed fisheries. Here, we place their life history and demography within the context of other sharks and rays. Methods. Despite the limited availability of data, we use life history theory and comparative analysis to estimate the intrinsic risk of extinction (as indexed by the maximum intrinsic rate of population increase rmax) for a typical generic manta ray using a variant of the classic Euler–Lotka demographic model. This model requires only three traits to calculate the maximum intrinsic population growth rate rmax: von Bertalanffy growth rate, annual pup production and age at maturity. To account for the uncertainty in life history parameters, we created plausible parameter ranges and propagate these uncertainties through the model to calculate a distribution of the plausible range of rmax values. Results. The maximum population growth rate rmax of manta ray is most sensitive to the length of the reproductive cycle, and the median rmax of 0.116 year−1 95th percentile [0.089–0.139] is one of the lowest known of the 106 sharks and rays for which we have comparable demographic information. Discussion. In common with other unprotected, unmanaged, high-value large-bodied sharks and rays the combination of very low population growth rates of manta rays, combined with the high value of their gill rakers and the international nature of trade, is highly likely to lead to rapid depletion and potential local extinction unless a rapid conservation management response occurs worldwide. Furthermore, we show that it is possible to derive important insights into the demography extinction risk of data-poor species using well-established life history theory. PMID:24918029

Mass Extinctions of Pangea (Jean Baptiste Lamarck Medal Lecture)

NASA Astrophysics Data System (ADS)

Wignall, Paul B.

2017-04-01

The 80 million years of Earth history from middle of the Permian to the early Jurassic were some of the worst life ever experienced. The interval includes two mass extinctions that bracket the Triassic period and several lesser crises. It was to be nearly another 120 million years before another major crisis was to strike (this time it was the famous one that removed the dinosaurs). So what was so bad about the 80 million years and why was it so good afterwards? My talk will try to provide at least some of the answers. There are plenty of clues. Notably, the interval coincides with the presence of the Pangea supercontinent and all the extinctions coincided with the eruption of large igneous provinces (LIPs). Indeed, every LIP of this interval coincides with an extinction crisis, a perfect correlation that completely breaks down afterwards. However, getting from correlation to causation is far from straight forward. There are many unknowns - how much gas was released by the volcanism, how quickly and what type of gases were they? These are all questions under investigation. Most of the extinctions of Pangean time coincide with rapid global warming and extensive marine anoxia suggesting that greenhouse gas emissions linked to volcanism were an important extinction driver. For the most severe crises (Permo-Triassic and end-Triassic) losses occurred throughout the food chain all the way down to the primary producers of the oceans and across all habitats including terrestrial ecosystems. At the other end of the spectrum of disaster, the lesser extinctions (Toarcian, Smithian/Spathian) only affected marine invertebrates. The full panoply of catastrophe was played out during the Permo-Triassic mass extinction and has received the most attention. The record in South China shows that there were two phases of extinction. These straddle the boundary and show selective losses initially for shallow-water organisms that were susceptible to high temperatures and then for deeper-water dwellers that succumbed to expanding deep-water anoxia. The contemporary plant losses show a similar duration for extinction losses ( 60 kyr) but the ultimate cause of these extinctions is less clear. It is unlikely to have been directly attributable to greenhouse gases because warm and wet conditions on land are a good thing. A greenhouse is a good place for plants after all. Ozone destruction by halogen emissions followed by intense UV-B radiation is a more promising extinction agent. A key factor in the extinction vulnerability of Pangean life may lie in the subdued nature of carbon cycling in a supercontinent configuration. Feedback mechanisms such as enhanced silicate weathering in warmer, more humid conditions would be less effective because of the vast arid interiors. The burial of carbon in shelf seas would also be minimal because the area of shallow waters around the periphery of the supercontinent was at a Phanerozoic minimum. Once initiated, warmer temperatures would have led to increased rate of organic remineralisation. This may have been responsible the absence of terrestrial organic carbon burial during the most severe crises, further decreasing the ability to drawdown atmospheric carbon. This combination of causes would have produced a planet that was only weakly responsive to sudden influxes of greenhouse gases into the atmosphere. It was a bad time to endure LIP eruptions.

The Next Generation MOD: A Microchip Amino Acid Analyzer for Detecting Extraterrestrial Life

NASA Technical Reports Server (NTRS)

Mathies, R. A.; Hutt, L. D.; Bada, J. L.; Glavin, D.; Grunthaner, F. J.; Grunthaner, P. J.

2000-01-01

The MOD (Mars Organic Detector) instrument which has selected for the definition phase of the BEDS package on the 2005 Mars Explorer Program spacecraft is designed to simply detect the presence of amino acids in Martian surface samples at a sensitivity of a few parts per billion (ppb). An additional important aspect of amino acid analyses of Martian samples is identifying and quantifying which compounds are present, and also distinguishing those produced abiotically from those synthesized by either extinct or extant life. Amino acid homochirality provides an unambiguous way of distinguishing between abiotic vs. biotic origins. Proteins made up of mixed D- and L-amino acids would not likely have been efficient catalysts in early organisms because they could not fold into bioactive configurations such as the a-helix. However, enzymes made up of all D-amino acids function just as well as those made up of only L-amino acids, but the two enzymes use the opposite stereoisomeric substrates. There are no biochemical reasons why L-amino acids would be favored over Damino acids. On Earth, the use of only L-amino acids in proteins by life is probably simply a matter of chance. We assume that if proteins and enzymes were a component of extinct or extant life on Mars, then amino acid homochirality would have been a requirement. However, the possibility that Martian life was (or is) based on D-amino acids would be equal to that based on L-amino acids. The detection of a nonracemic mixture of amino acids in a Martian sample would be strong evidence for the presence of an extinct or extant biota on Mars. The finding of an excess of D-amino acids would provide irrefutable evidence of unique Martian life that could not have been derived from seeding the planet with terrestrial life (or the seeding of the Earth with Martian life). In contrast, the presence of racemic amino acids, along with non-protein amino acids such as alpha-aminoisobutyric acid and isovaline, would be indicative of an abiotic origin, although we have to consider the possibility that the racemic amino acids were generated from the racemization of biotically produced amino acids.

Observation to Theory in Deep Subsurface Microbiology Research: Can We Piece It Together?

NASA Astrophysics Data System (ADS)

Colwell, F. S.; Thurber, A. R.

2016-12-01

Three decades of observations of microbes in deep environments have led to startling discoveries of life in the subsurface. Now, a few theoretical frameworks exist that help to define Stygian life. Temperature, redox gradients, productivity (e.g., in the overlying ocean), and microbial power requirements are thought to determine the distribution of microbes in the subsurface. Still, we struggle to comprehend the spatial and temporal spectra of Earth processes that define how deep microbe communities survive. Stommel diagrams, originally used to guide oceanographic sampling, may be useful in depicting the subsurface where microbial communities are impacted by co-occurring spatial and temporal phenomena that range across exponential scales. Spatially, the geological settings that influence the activity and distribution of microbes range from individual molecules or minerals all the way up to the planetary-scale where geological formations, occupying up to 105 km3, dictate the bio- and functional geography of microbial communities. Temporally, life in the subsurface may respond in time units familiar to humans (e.g., seconds to days) or to events that unfold over hundred millennial time periods. While surface community dynamics are underpinned by solar and lunar cycles, these cycles only fractionally dictate survival underground where phenomena like tectonic activity, isostatic rebound, and radioactive decay are plausible drivers of microbial life. Geological or planetary processes that occur on thousand or million year cycles could be uniquely important to microbial viability in the subsurface. Such an approach aims at a holistic comprehension of the interaction of Earth system dynamics with microbial ecology.

Towards a rapid and comprehensive microbial detection and identification system for life support and planetary protection applications

NASA Astrophysics Data System (ADS)

Lasseur, Christophe

Long term manned missions of our Russian colleagues have demonstrated the risks associated with microbial contamination. These risks concern both crew health via the metabolic consumables contamination (water, air,.) but and also the hardware degradation. In parallel to these life support issues, planetary protection experts have agreed to place clear specifications of the microbial quality of future hardware landing on extraterrestrial planets as well as elaborate the requirements of contamination for manned missions on surface. For these activities, it is necessary to have a better understanding of microbial activity, to create culture collections and to develop on-line detection tools. . In this respect, over the last 6 years , ESA has supported active scientific research on the choice of critical genes and functions, including those linked to horizontal gene pool of bacteria and its dissemination. In parallel, ESA and European industries have been developing an automated instrument for rapid microbial detection on air and surface samples. Within this paper, we first present the life support and planetary protection requirements, and the state of the art of the instrument development. Preliminary results at breadboard level, including a mock-up view of the final instrument are also presented. Finally, the remaining steps required to reach a functional instrument for planetary hardware integration and life support flight hardware are also presented.

Ultramafic Terranes and Associated Springs as Analogs for Mars and Early Earth

NASA Technical Reports Server (NTRS)

Blake, David; Schulte, Mitch; Cullings, Ken; DeVincezi, D. (Technical Monitor)

2002-01-01

Putative extinct or extant Martian organisms, like their terrestrial counterparts, must adopt metabolic strategies based on the environments in which they live. In order for organisms to derive metabolic energy from the natural environment (Martian or terrestrial), a state of thermodynamic disequilibrium must exist. The most widespread environment of chemical disequilibrium on present-day Earth results from the interaction of mafic rocks of the ocean crust with liquid water. Such environments were even more pervasive and important on the Archean Earth due to increased geothermal heat flow and the absence of widespread continental crust formation. The composition of the lower crust and upper mantle of the Earth is essentially the-same as that of Mars, and the early histories of these two planets are similar. It follows that a knowledge of the mineralogy, water-rock chemistry and microbial ecology of Earth's oceanic crust could be of great value in devising a search strategy for evidence of past or present life on Mars. In some tectonic regimes, cross-sections of lower oceanic crust and upper mantle are exposed on land as so-called "ophiolite suites." Such is the case in the state of California (USA) as a result of its location adjacent to active plate margins. These mafic and ultramafic rocks contain numerous springs that offer an easily accessible field laboratory for studying water/rock interactions and the microbial communities that are supported by the resulting geochemical energy. A preliminary screen of Archaean biodiversity was conducted in a cold spring located in a presently serpentinizing ultramafic terrane. PCR and phylogenetic analysis of partial 16s rRNA, sequences were performed on water and sediment samples. Archaea of recent phylogenetic origin were detected with sequences nearly identical to those of organisms living in ultra-high pH lakes of Africa.

Probing Metabolic Activity of Deep Subseafloor Life with NanoSIMS

NASA Astrophysics Data System (ADS)

Morono, Y.; Terada, T.; Itoh, M.; Inagaki, F.

2014-12-01

There are very few natural environments where life is absent in the Earth's surface biosphere. However, uninhabitable region is expected to be exist in the deep subsurface biosphere, of which extent and constraining factor(s) have still remained largly unknown. Scientific ocean drilling have revealed that microbial communities in sediments are generally phylogenetically distinct from known spieces isolated from the Earth's surface biosphere, and hence metabolic functions of the deep subseafloor life remain unknown. In addition, activity of subseafloor microbial cells are thought to be extraordinally slow, as indicated by limited supply of neutrient and energy substrates. To understand the limits of the Earth's subseafloor biosphere and metabolic functions of microbial populations, detection and quantification of the deeply buried microbial cells in geological habitats are fundamentary important. Using newly developed cell separation techniques as well as an discriminative cell detection system, the current quantification limit of sedimentary microbial cells approaches to 102 cells/cm3. These techniques allow not only to assess very small microbial population close to the subsurface biotic fringe, but also to separate and sort the target cells using flow cytometric cell sorter. Once the deep subseafloor microbial cells are detached from mineral grains and sorted, it opens new windows to subsequent molecular ecological and element/isotopic analyses. With a combined use of nano-scale secondary ion masspectrometry (NanoSIMS) and stable isotope-probing techniques, it is possible to detect and measure activity of substrate incorporation into biomass, even for extremely slow metabolic processes such as uncharacteriszed deep subseafloor life. For example, it was evidenced by NanoSIMS that at least over 80% of microbial cells at ~200 meters-deep, 460,000-year-old sedimentary habitat are indeed live, which substrate incooporation was found to be low (10-15 gC/cell/day) even under the lab incubation condition. Also microbial activity in ultraoligotrophic biosphere samples such as the South Pacific Gyre (i.e., IODP Expeditions 329) will be shown. Our results demonstrates metabolic potential of microbes that have been survived for geological timescale in extremely starved condition.

A Unified Theory of Impact Crises and Mass Extinctions: Quantitative Tests

NASA Technical Reports Server (NTRS)

Rampino, Michael R.; Haggerty, Bruce M.; Pagano, Thomas C.

1997-01-01

Several quantitative tests of a general hypothesis linking impacts of large asteroids and comets with mass extinctions of life are possible based on astronomical data, impact dynamics, and geological information. The waiting of large-body impacts on the Earth derive from the flux of Earth-crossing asteroids and comets, and the estimated size of impacts capable of causing large-scale environmental disasters, predict that impacts of objects greater than or equal to 5 km in diameter (greater than or equal to 10 (exp 7) Mt TNT equivalent) could be sufficient to explain the record of approximately 25 extinction pulses in the last 540 Myr, with the 5 recorded major mass extinctions related to impacts of the largest objects of greater than or equal to 10 km in diameter (greater than or equal to 10(exp 8) Mt Events). Smaller impacts (approximately 10 (exp 6) Mt), with significant regional environmental effects, could be responsible for the lesser boundaries in the geologic record.

The Mean Life Squared Relationship for Abundances of Extinct Radioactivities

NASA Technical Reports Server (NTRS)

Lodders, K.; Cameron, A. G. W.

2004-01-01

We discovered that the abundances of now extinct radioactivities (relative to stable reference isotopes) in meteorites vary as a function of their mean lifetimes squared. This relationship applies to chondrites, achondrites, and irons but to calcium-aluminum inclusions (CAIs). Certain meteorites contain excesses in isotopic abundances from the decay of radioactive isotopes with half-lives much less than the age of the solar system. These short-lived radioactivities are now extinct, but they were alive when meteorites assembled in the early solar system. The origin of these radioactivities and the processes which control their abundances in the solar nebula are still not well understood. Some clues may come from our finding that the meteoritic abundances of now extinct radioactivities (relative to stable reference isotopes) vary as a function of their mean lifetimes squared. This relationship applies to chondrites, achondrites, and irons, but not to CAIs. This points to at least two different processes establishing the abundances of short-lived isotopes found in the meteoritic record.

Extinction risk and conservation of the world’s sharks and rays

PubMed Central

Dulvy, Nicholas K; Fowler, Sarah L; Musick, John A; Cavanagh, Rachel D; Kyne, Peter M; Harrison, Lucy R; Carlson, John K; Davidson, Lindsay NK; Fordham, Sonja V; Francis, Malcolm P; Pollock, Caroline M; Simpfendorfer, Colin A; Burgess, George H; Carpenter, Kent E; Compagno, Leonard JV; Ebert, David A; Gibson, Claudine; Heupel, Michelle R; Livingstone, Suzanne R; Sanciangco, Jonnell C; Stevens, John D; Valenti, Sarah; White, William T

2014-01-01

The rapid expansion of human activities threatens ocean-wide biodiversity. Numerous marine animal populations have declined, yet it remains unclear whether these trends are symptomatic of a chronic accumulation of global marine extinction risk. We present the first systematic analysis of threat for a globally distributed lineage of 1,041 chondrichthyan fishes—sharks, rays, and chimaeras. We estimate that one-quarter are threatened according to IUCN Red List criteria due to overfishing (targeted and incidental). Large-bodied, shallow-water species are at greatest risk and five out of the seven most threatened families are rays. Overall chondrichthyan extinction risk is substantially higher than for most other vertebrates, and only one-third of species are considered safe. Population depletion has occurred throughout the world’s ice-free waters, but is particularly prevalent in the Indo-Pacific Biodiversity Triangle and Mediterranean Sea. Improved management of fisheries and trade is urgently needed to avoid extinctions and promote population recovery. DOI: http://dx.doi.org/10.7554/eLife.00590.001 PMID:24448405

Mid Pleistocene foraminiferal mass extinction coupled with phytoplankton evolution

PubMed Central

Kender, Sev; McClymont, Erin L.; Elmore, Aurora C.; Emanuele, Dario; Leng, Melanie J.; Elderfield, Henry

2016-01-01

Understanding the interaction between climate and biotic evolution is crucial for deciphering the sensitivity of life. An enigmatic mass extinction occurred in the deep oceans during the Mid Pleistocene, with a loss of over 100 species (20%) of sea floor calcareous foraminifera. An evolutionarily conservative group, benthic foraminifera often comprise >50% of eukaryote biomass on the deep-ocean floor. Here we test extinction hypotheses (temperature, corrosiveness and productivity) in the Tasman Sea, using geochemistry and micropalaeontology, and find evidence from several globally distributed sites that the extinction was caused by a change in phytoplankton food source. Coccolithophore evolution may have enhanced the seasonal ‘bloom' nature of primary productivity and fundamentally shifted it towards a more intra-annually variable state at ∼0.8 Ma. Our results highlight intra-annual variability as a potential new consideration for Mid Pleistocene global biogeochemical climate models, and imply that deep-sea biota may be sensitive to future changes in productivity. PMID:27311937

Extinction risk and conservation of the world's sharks and rays.

PubMed

Dulvy, Nicholas K; Fowler, Sarah L; Musick, John A; Cavanagh, Rachel D; Kyne, Peter M; Harrison, Lucy R; Carlson, John K; Davidson, Lindsay Nk; Fordham, Sonja V; Francis, Malcolm P; Pollock, Caroline M; Simpfendorfer, Colin A; Burgess, George H; Carpenter, Kent E; Compagno, Leonard Jv; Ebert, David A; Gibson, Claudine; Heupel, Michelle R; Livingstone, Suzanne R; Sanciangco, Jonnell C; Stevens, John D; Valenti, Sarah; White, William T

2014-01-01

The rapid expansion of human activities threatens ocean-wide biodiversity. Numerous marine animal populations have declined, yet it remains unclear whether these trends are symptomatic of a chronic accumulation of global marine extinction risk. We present the first systematic analysis of threat for a globally distributed lineage of 1,041 chondrichthyan fishes-sharks, rays, and chimaeras. We estimate that one-quarter are threatened according to IUCN Red List criteria due to overfishing (targeted and incidental). Large-bodied, shallow-water species are at greatest risk and five out of the seven most threatened families are rays. Overall chondrichthyan extinction risk is substantially higher than for most other vertebrates, and only one-third of species are considered safe. Population depletion has occurred throughout the world's ice-free waters, but is particularly prevalent in the Indo-Pacific Biodiversity Triangle and Mediterranean Sea. Improved management of fisheries and trade is urgently needed to avoid extinctions and promote population recovery. DOI: http://dx.doi.org/10.7554/eLife.00590.001.

Quantifying variation in speciation and extinction rates with clade data.

PubMed

Paradis, Emmanuel; Tedesco, Pablo A; Hugueny, Bernard

2013-12-01

High-level phylogenies are very common in evolutionary analyses, although they are often treated as incomplete data. Here, we provide statistical tools to analyze what we name "clade data," which are the ages of clades together with their numbers of species. We develop a general approach for the statistical modeling of variation in speciation and extinction rates, including temporal variation, unknown variation, and linear and nonlinear modeling. We show how this approach can be generalized to a wide range of situations, including testing the effects of life-history traits and environmental variables on diversification rates. We report the results of an extensive simulation study to assess the performance of some statistical tests presented here as well as of the estimators of speciation and extinction rates. These latter results suggest the possibility to estimate correctly extinction rate in the absence of fossils. An example with data on fish is presented. © 2013 The Author(s). Evolution © 2013 The Society for the Study of Evolution.

Marine Microbial Mats and the Search for Evidence of Life in Deep Time and Space

NASA Technical Reports Server (NTRS)

Des Marais, David J.

2011-01-01

Cyanobacterial mats in extensive seawater evaporation ponds at Guerrero Negro, Baja California, Mexico, have been excellent subjects for microbial ecology research. The studies reviewed here have documented the steep and rapidly changing environmental gradients experienced by mat microorganisms and the very high rates of biogeochemical processes that they maintained. Recent genetic studies have revealed an enormous diversity of bacteria as well as the spatial distribution of Bacteria, Archaea and Eukarya. These findings, together with emerging insights into the intimate interactions between these diverse populations, have contributed substantially to our understanding of the origins, environmental impacts, and biosignatures of photosynthetic microbial mats. The biosignatures (preservable cells, sedimentary fabrics, organic compounds, minerals, stable isotope patterns, etc.) potentially can serve as indicators of past life on early Earth. They also can inform our search for evidence of any life on Mars. Mars exploration has revealed evidence of evaporite deposits and thermal spring deposits; similar deposits on Earth once hosted ancient microbial mat ecosystems.

On microbial contaminants, micropseudofossils, and the oldest records of life

USGS Publications Warehouse

Cloud, P.; Morrison, K.

1979-01-01

Microbial contaminants may be introduced on outcrop as well as en route to or in the laboratory. Micropseudofossils may be natural or man-made. It is possible to recognize such misleading objects and important that they are not allowed to dilute the growing record of authentic pre-Phanerozoic life. Filamentous microbial contaminants from minute cracks in samples of ancient carbonate rocks from Brazil (perhaps 1 Ga old) and South Africa (???2.3 Ga old) are similar to occurrences previously described as fossils. Published records of supposedly Archean microbial life also include microcontaminants and laboratory artifacts. Although microstructures from sedimentary rocks of the Swaziland system could be fossils, they are not demonstrably so. The oldest structurally preserved fossils yet known seem to be the filaments described by Lois Nagy from stromatolitic limestone in the ???2.3 Ga old Malmani Dolomite of South Africa. It will be difficult to establish unequivocal older records in the absence of definitive ultrastructural or micro-chemical evidence. ?? 1979.

Human life support during interplanetary travel and domicile. VI - Generic modular flow schematic for hybrid physical/chemical-biological life support systems

NASA Technical Reports Server (NTRS)

Ganapathi, Gani B.; Seshan, P. K.; Ferrall, Joseph; Rohatgi, Naresh

1992-01-01

An extension is proposed for the NASA Space Exploration Initiative's Generic Modular Flow Schematics for physical/chemical life support systems which involves the addition of biological processes. The new system architecture includes plant, microbial, and animal habitat, as well as the human habitat subsystem. Major Feedstock Production and Food Preparation and Packaging components have also been incorporated. Inedible plant, aquaculture, microbial, and animal solids are processed for recycling.

The 1.06 micrometer wideband laser modulator: Fabrication and life testing

NASA Technical Reports Server (NTRS)

Teague, J. R.

1975-01-01

The design, fabrication, testing and delivery of an optical modulator which will operate with a mode-locked Nd:YAG laser at 1.06 micrometers were performed. The system transfers data at a nominal rate of 400 Mbps. This wideband laser modulator can transmit either Pulse Gated Binary Modulation (PGBM) or Pulse Polarization Binary Modulation (PPBM) formats. The laser beam enters the modulator and passes through both crystals; approximately 1% of the transmitted beam is split from the main beam and analyzed for the AEC signal; the remaining part of the beam exits the modulator. The delivered modulator when initially aligned and integrated with laser and electronics performed very well. The optical transmission was 69.5%. The static extinction ratio was 69:1. A 1000 hour life test was conducted with the delivered modulator. A 63 bit pseudorandom code signal was used as a driver input. At the conclusion of the life test the modulator optical transmission was 71.5% and the static extinction ratio 65:1.

DEEP BIOSPHERE. Exploring deep microbial life in coal-bearing sediment down to ~2.5 km below the ocean floor.

PubMed

Inagaki, F; Hinrichs, K-U; Kubo, Y; Bowles, M W; Heuer, V B; Hong, W-L; Hoshino, T; Ijiri, A; Imachi, H; Ito, M; Kaneko, M; Lever, M A; Lin, Y-S; Methé, B A; Morita, S; Morono, Y; Tanikawa, W; Bihan, M; Bowden, S A; Elvert, M; Glombitza, C; Gross, D; Harrington, G J; Hori, T; Li, K; Limmer, D; Liu, C-H; Murayama, M; Ohkouchi, N; Ono, S; Park, Y-S; Phillips, S C; Prieto-Mollar, X; Purkey, M; Riedinger, N; Sanada, Y; Sauvage, J; Snyder, G; Susilawati, R; Takano, Y; Tasumi, E; Terada, T; Tomaru, H; Trembath-Reichert, E; Wang, D T; Yamada, Y

2015-07-24

Microbial life inhabits deeply buried marine sediments, but the extent of this vast ecosystem remains poorly constrained. Here we provide evidence for the existence of microbial communities in ~40° to 60°C sediment associated with lignite coal beds at ~1.5 to 2.5 km below the seafloor in the Pacific Ocean off Japan. Microbial methanogenesis was indicated by the isotopic compositions of methane and carbon dioxide, biomarkers, cultivation data, and gas compositions. Concentrations of indigenous microbial cells below 1.5 km ranged from <10 to ~10(4) cells cm(-3). Peak concentrations occurred in lignite layers, where communities differed markedly from shallower subseafloor communities and instead resembled organotrophic communities in forest soils. This suggests that terrigenous sediments retain indigenous community members tens of millions of years after burial in the seabed. Copyright © 2015, American Association for the Advancement of Science.

Gene expression in the deep biosphere.

PubMed

Orsi, William D; Edgcomb, Virginia P; Christman, Glenn D; Biddle, Jennifer F

2013-07-11

Scientific ocean drilling has revealed a deep biosphere of widespread microbial life in sub-seafloor sediment. Microbial metabolism in the marine subsurface probably has an important role in global biogeochemical cycles, but deep biosphere activities are not well understood. Here we describe and analyse the first sub-seafloor metatranscriptomes from anaerobic Peru Margin sediment up to 159 metres below the sea floor, represented by over 1 billion complementary DNA (cDNA) sequence reads. Anaerobic metabolism of amino acids, carbohydrates and lipids seem to be the dominant metabolic processes, and profiles of dissimilatory sulfite reductase (dsr) transcripts are consistent with pore-water sulphate concentration profiles. Moreover, transcripts involved in cell division increase as a function of microbial cell concentration, indicating that increases in sub-seafloor microbial abundance are a function of cell division across all three domains of life. These data support calculations and models of sub-seafloor microbial metabolism and represent the first holistic picture of deep biosphere activities.

Conservation status of freshwater gastropods of Canada and the United States

USGS Publications Warehouse

Johnson, Paul D.; Bogan, Arthur E.; Brown, Kenneth M.; Burkhead, Noel M.; Cordeiro, James R.; Garner, Jeffrey T.; Hartfield, Paul D.; Lepitzki, Dwayne A.; Mackie, Gerry L.; Pip, Eva; Tarpley, Thomas A.; Tiemann, Jeremy S.; Whelan, Nathan V.; Strong, Ellen E.

2013-01-01

This is the first American Fisheries Society conservation assessment of freshwater gastropods (snails) from Canada and the United States by the Gastropod Subcommittee (Endangered Species Committee). This review covers 703 species representing 16 families and 93 genera, of which 67 species are considered extinct, or possibly extinct, 278 are endangered, 102 are threatened, 73 are vulnerable, 157 are currently stable, and 26 species have uncertain taxonomic status. Of the entire fauna, 74% of gastropods are imperiled (vulnerable, threatened, endangered) or extinct, which exceeds imperilment levels in fishes (39%) and crayfishes (48%) but is similar to that of mussels (72%). Comparison of modern to background extinction rates reveals that gastropods have the highest modern extinction rate yet observed, 9,539 times greater than background rates. Gastropods are highly susceptible to habitat loss and degradation, particularly narrow endemics restricted to a single spring or short stream reaches. Compilation of this review was hampered by a paucity of current distributional information and taxonomic uncertainties. Although research on several fronts including basic biology, physiology, conservation strategies, life history, and ecology are needed, systematics and curation of museum collections and databases coupled with comprehensive status surveys (geographic limits, threat identification) are priorities.

The microbial environment and its influence on asthma prevention in early life.

PubMed

von Mutius, Erika

2016-03-01

There is accumulating evidence to suggest that the environmental microbiome plays a significant role in asthma development. The very low prevalence of asthma in populations highly exposed to microbial environments (farm children and Amish populations) highlights its preventive potential. This microbial diversity might be necessary to instruct a well-adapted immune response and regulated inflammatory responses to other inhaled and ingested environmental elements, such as allergens, particles, and viruses. Like the internal gut microbiome, which is increasingly recognized as an important instructor of immune maturation, the external environmental microbiome might shape immune responses on the skin, airway mucosal surfaces, and potentially also the gut early in life. The diversity of the external microbial world will ensure that of the many maladapted pathways leading to asthma development, most, if not all, will be counterbalanced. Likewise, important contributors to asthma, such as allergen sensitization and allergic manifestations early in life, are being suppressed. Thus the facets of innate immunity targeted by microbes and their compounds and metabolites might be the master switch to asthma and allergy protection, which has been found in environments rich in microbial exposures. Copyright © 2015 American Academy of Allergy, Asthma & Immunology. Published by Elsevier Inc. All rights reserved.

Early microbial contact, the breast milk microbiome and child health.

PubMed

Rautava, S

2016-02-01

The significance of contact with microbes in early life for subsequent health has been the subject of intense research during the last 2 decades. Disturbances in the establishment of the indigenous intestinal microbiome caused by cesarean section delivery or antibiotic exposure in early life have been linked to the risk of immune-mediated and inflammatory conditions such as atopic disorders, inflammatory bowel disease and obesity later in life. Distinct microbial populations have recently been discovered at maternal sites including the amniotic cavity and breast milk, as well as meconium, which have previously been thought to be sterile. Our understanding of the impact of fetal microbial contact on health outcomes is still rudimentary. Breast milk is known to modulate immune and metabolic programming. The breast milk microbiome is hypothesized to guide infant gut colonization and is affected by maternal health status and mode of delivery. Immunomodulatory factors in breast milk interact with the maternal and infant gut microbiome and may mediate some of the health benefits associated with breastfeeding. The intimate connection between the mother and the fetus or the infant is a potential target for microbial therapeutic interventions aiming to support healthy microbial contact and protect against disease.

Meteorite Impacts and Planetary Habitability: The Good, the Bad, and the Ugly

NASA Astrophysics Data System (ADS)

Osinski, G. R.

2012-12-01

It is now widely accepted that meteorite impacts negatively affect life on a planet, as evidenced by the deleterious effects associated with the formation of the Chicxulub impact structure, Mexico, 65 Myr. ago and its link to the Cretaceous-Paleogene mass extinction event. This impact event had a profound affect on the evolution of life on Earth by ending the age of the dinosaurs and paving the way for mammals to ascend to dominance. In terms of the origin of life, despite the controversy over when exactly life appeared on Earth, it is likely that it did so during one of the harshest, most inhospitable times in Earth history: the Late Heavy Bombardment Period ~4.0-3.8 Ga. During this time, asteroid and comet impacts were ~10-20 times as frequent as they are at the present day. This may seem counterintuitive until one considers that these cataclysmic, initially destructive impact events may also have had beneficial effects with respect to life. This contribution will present a synthesis of information concerning the role that meteorite impacts may have played in the origin and evolution of life on Earth and, by analogy, with other planetary bodies throughout the Universe. It will hopefully be demonstrated that impact events do not just frustrate life, but that impact craters, once formed, may represent protected niches where life can survive and evolve and, potentially, where life may have originated. It is proposed that the geological, biological, and environmental changes known to be caused by an impact allow for the formulation of key cross-cutting hypotheses concerning the potential deleterious and beneficial effects of meteorite impact events. Most notably, it is proposed that impact events produce new, unique habitats for life and, therefore, can have an overall positive effect on planetary habitability. Habitats include: 1) impact-generated hydrothermal systems, which could provide habitats for thermophilic and hyperthermophilic microorganisms, 2) impact-processed crystalline rocks, which have increased porosity and translucence compared to unshocked materials, improving microbial colonization, 3) impact glasses, which, similar to volcanic glasses, provide an excellent readily available source of bioessential elements, and 4) impact crater lakes, which form protected sedimentary basins with various niches and that increase the preservation potential of fossils and organic material.

The Search for Life on Mars Using Macroscopically Visible Microbial Mats (Stromatolites) in 3.5 3.3 Ga Cherts from the Pilbara in Australia and Barberton in South Africa as Analogues

NASA Astrophysics Data System (ADS)

Westall, F.; Hofmann, B.; Brack, A.

2004-03-01

Microbial mats from early terrestrial environments can be macroscopically visible and represent excellent analogues in the search for life on Mars. Tests using the Beagle 2 camera show that they can be observed by in situ instrumentation.

Ecology and exploration of the rare biosphere.

PubMed

Lynch, Michael D J; Neufeld, Josh D

2015-04-01

The profound influence of microorganisms on human life and global biogeochemical cycles underlines the value of studying the biogeography of microorganisms, exploring microbial genomes and expanding our understanding of most microbial species on Earth: that is, those present at low relative abundance. The detection and subsequent analysis of low-abundance microbial populations—the 'rare biosphere'—have demonstrated the persistence, population dynamics, dispersion and predation of these microbial species. We discuss the ecology of rare microbial populations, and highlight molecular and computational methods for targeting taxonomic 'blind spots' within the rare biosphere of complex microbial communities.

Dinasour extinction and volcanic activity

NASA Astrophysics Data System (ADS)

Gledhill, J. A.

There is at present some controversy about the reason for the mass extinction of dinosaurs and other forms of life at the end of the Cretaceous. A suggestion by Alvarez et al. [1980] that this was due to the collision of the earth with a meteorite 10 km or so in diameter has excited considerable interest [Silver and Schultz, 1982] and also some criticism [Stanley, 1984]. A recent publication [Wood, 1984] describing the catastrophic effects of a relatively minor lava flow in Iceland suggests that intense volcanic activity could have played a large part in the extinctions. In this letter it is pointed out that the Deccan lava flows in India took place in the appropriate time and may well have been of sufficient magnitude to be a major factor in the Cretaceous-Tertiary (C-T) boundary catastrophe.

Research and Application of Marine Microbial Enzymes: Status and Prospects

PubMed Central

Zhang, Chen; Kim, Se-Kwon

2010-01-01

Over billions of years, the ocean has been regarded as the origin of life on Earth. The ocean includes the largest range of habitats, hosting the most life-forms. Competition amongst microorganisms for space and nutrients in the marine environment is a powerful selective force, which has led to evolution. The evolution prompted the marine microorganisms to generate multifarious enzyme systems to adapt to the complicated marine environments. Therefore, marine microbial enzymes can offer novel biocatalysts with extraordinary properties. This review deals with the research and development work investigating the occurrence and bioprocessing of marine microbial enzymes. PMID:20631875

Body size and extinction risk in terrestrial mammals above the species level.

PubMed

Tomiya, Susumu

2013-12-01

Mammalian body mass strongly correlates with life history and population properties at the scale of mouse to elephant. Large body size is thus often associated with elevated extinction risk. I examined the North American fossil record (28-1 million years ago) of 276 terrestrial genera to uncover the relationship between body size and extinction probability above the species level. Phylogenetic comparative analysis revealed no correlation between sampling-adjusted durations and body masses ranging 7 orders of magnitude, an observation that was corroborated by survival analysis. Most of the ecological and temporal groups within the data set showed the same lack of relationship. Size-biased generic extinctions do not constitute a general feature of the Holarctic mammalian faunas in the Neogene. Rather, accelerated loss of large mammals occurred during intervals that experienced combinations of regional aridification and increased biomic heterogeneity within continents. The latter phenomenon is consistent with the macroecological prediction that large geographic ranges are critical to the survival of large mammals in evolutionary time. The frequent lack of size selectivity in generic extinctions can be reconciled with size-biased species loss if extinctions of large and small mammals at the species level are often driven by ecological perturbations of different spatial and temporal scales, while those at the genus level are more synchronized in time as a result of fundamental, multiscale environmental shifts.

Extraterrestrial Impact Episodes and Archaean to Early Proterozoic (3.8 2.4 Ga) Habitats of Life

NASA Astrophysics Data System (ADS)

Glikson, Andrew

The terrestrial record is punctuated by major clustered asteroid and comet impacts, which affected the appearance, episodic extinction, radiation, and reemergence of biogenic habitats. Here I examine manifest and potential extraterrestrial impact effects on the onset and evolution of Archaean to early Proterozoic (3.8- 2.4-Ga) habitats, with reference to the Pilbara (Western Australia) and Kaapvaal (eastern Transvaal) Cratons. The range of extraterrestrial connections of microbial habitats includes cometary contribution of volatiles and amino acids, sterilization by intense asteroid and comet bombardment, supernova and solar flares, and impacttriggered volcanic and hydrothermal activity, tectonic modifications, and tsunami effects. Whereas cometary dusting of planetary atmosphere may contribute littlemodi fied extraterrestrial organic components, large impact effects result in both incineration of organic molecules and shock synthesis of new components. From projected impact incidence, ~1.3% of craters >100 km and ~3.8% of craters >250 km have to date been identified for post-3.8-Ga events, due to the mm-scale of impact spherules and the difficulty in their identification in the field - only the tip of the iceberg is observed regarding the effects of large impacts on the Precambrian biosphere, to date no direct or genetic relations between impacts and the onset or extinction of early Precambrian habitats can be confirmed. However, potential relations include (1) ~3.5-3.43 Ga - intermittent appearance of stromatolite-like structures of possible biogenic origin on felsic volcanic shoals representing intervals between mafic volcanic episodes in rapidly subsiding basins, a period during which asteroid impacts are recorded; (2) ~3.26-3.225 Ga - impact-triggered crustal transformation from mafic-ultramafic volcanic environments to rifted troughs dominated by felsic volcanics and turbidites, marked by a major magmatic peak, resulting in extensive hydrothermal activity and development of sulphate-reducing microbes around anoxic submarine fumarole ("black smoker") environments; (3) ~2.63-2.47 Ga - impact-triggered tsunami effects in oxygenated carbonate-dominated epicontinental and intracratonic environments (Hamersley and Transvaal basins); (4) in at least three instances onset of ferruginous sedimentation closely following major impact events, possibly signifying hydrothermal Fe-enrichment related to impact-triggered volcanic activity. Due to limitations on the phylogenic speciation of Precambrian stromatolite and bacterial populations, major impact-extinction-radiation relations are identified only from the late Proterozoic, beginning with the ~0.

Metabolic Activity and Biosignatures of Microbes in the Lower Ocean Crust of Atlantis Bank, IODP Expedition 360

NASA Astrophysics Data System (ADS)

Wee, S. Y.; Edgcomb, V. P.; Burgaud, G.; Klein, F.; Schubotz, F.; Yvon-Lewis, S. A.; Sylvan, J. B.

2017-12-01

International Ocean Discovery Program (IODP) Expedition 360 represents the first leg of a multi-phase drilling program, SloMo, aimed at investigating the nature of the lower crust and Moho at slow spreading ridges. The goal of Expedition 360 was to recover a representative transect of the lower oceanic crust formed at Atlantis Bank, an oceanic core complex on the SW Indian Ridge. Recovered cores were primarily gabbro and olivine gabbro, which may potentially host serpentinization reactions and associated microbial life. Our goal was to sample this subseafloor environment and determine quantity, diversity and metabolic capabilities of any resident microbial life. Hole U1473A was drilled during Expedition 360 down to 790 m below seafloor and samples for detection of microbial communities and microbial biosignatures were collected throughout. We present here quantification of microbial biomass via fluorescence microscopy, preliminary analysis of nutrient addition experiments, data from sequencing of microbial 16S rRNA genes, analysis of microbial lipids, and data from Raman spectra of subsurface isolates. We initiated and sampled 12 nutrient addition experiments from 71-745 mbsf by adding sampled rocks to artificial seawater with no additions, added ammonium, added ammonium plus phosphate, and added organic acids. In nearly all of the experiment bottles, methane was detected when samples were collected at six months and again after one year of incubation. Phosphate in the incubations was drawn down, indicating active microbial metabolism, and archaeal lipids from in situ samples indicate the presence of methanogens, corroborating the likelihood of methanogens as the source of detected methane in the nutrient addition incubations. Altogether, the interdisciplinary approach used here provides a peek into life in the subseafloor upper ocean crust.

Microbial Ecosystems from the Deepest Regions of the Terrestrial Deep Biosphere

NASA Astrophysics Data System (ADS)

Moser, D. P.

2011-12-01

Although recent discoveries from four continents support the existence of microbial ecosystems across vast regions of our planet's inner space, very little is known about the abundance, distribution, diversity, or ultimate depth limit of subsurface microbial life. These deep lithospheric inhabitants must contend with a variety of potential challenges including high temperature, pressure and salinity, extreme isolation, and low energy flux. Interestingly, although deep microbial ecosystems are assumed to be energy and nutrient limited, it is often difficult to identify any one limiting substrate and the energy for deep life is often present in relative abundance (e.g. as geologically-produced hydrogen or other reduced gases). Recently, the concept of radiation-supported deep microbial ecosystems has gained traction in the literature. In particular, one bacterium, a Firmicute denoted Candidatus Desulforudis audaxviator, has been shown to be prominent, and in cases dominate, in deep fracture fluids from across the Witwatersrand basin of South Africa, where it appears to persist by utilizing H2 and SO42- derived from radiochemical reactions in U-rich host rock. Until recently, these mines were thought to define the geographic limit of this genus and species; however, our recent North American detection of D. audaxviator in radioactive subsurface water resulting from underground nuclear tests both supports earlier assertions concerning the radiochemical lifestyle of D. audaxviator and greatly expands its range. Results such as these suggest that novel modes of life operating without inputs from the photosphere are possible, and thus may have implications for the likelihood of detecting life off the Earth (e.g. in the Martian subsurface). In addition to underground nuclear detonation cavities, this talk will consider insights gained from ongoing microbial ecology assessments from several to date unexplored deep ecosystems accessed via deep mines in the Black Hills (USA) and Canadian Shield (Canada) and exploratory boreholes in the Southern Great Basin (USA). The tantalizing possibility that several of these new potential habitats have exceeded some limit for life will be also be explored.

Extension of echinococcal spinal infestation extra- and intradurally after a decade of extinction.

PubMed

Samadian, M; Alavi, E; Sharifi, G; Rezaee, O; Faramarzi, F

2010-12-01

Simultaneous intradural, extradural, vertebral and paravetebral invasion of hydatid cyst, pathologic fracture, and multiple vertebral involvement are all rare encountered conditions in echinococcal infestation. A 48-year-old man who had experienced a falling down trauma, 10 years ago, and at that time, because of L1 burst fracture, undergone on Harrington rod placement, admitted in our ward for newly started urinary retention and mild paresis of lower extremities. With imaging analysis and during surgery, we discovered the extension of echinococcal spinal infestation extra- and intradurally after a decade of extinction. We performed a double stage circumferential reconstruction and adjuvant long term chemotherapy. We closely monitor our patient neurologically and radiologically and believe that aggressive surgical treatment and sustained cyclical albendazole therapy can increase the quality of life and life expectancy.

Turtles: Freshwater

USGS Publications Warehouse

Gibbons, J. Whitfield; Lovich, Jeffrey E.; Bowden, R.M.

2017-01-01

With their iconic shells, turtles are morphologically distinct in being the only extant or extinct vertebrate animals to have their shoulders and hips inside their rib cages. By the time an asteroid hit the earth 65.5 million years ago, causing the extinction of dinosaurs, turtles were already an ancient lineage that was 70% through their evolutionary history to date. The remarkable evolutionary success of turtles over 220 million years is due to a combination of both conservative and effective life history traits and an essentially unchanging morphology that withstood the test of time. However, the life history traits of many species make them particularly susceptible to overharvest and habitat destruction in the modern world, and a majority of the world’s species face serious conservation challenges with several extinctions documented in modern times. The global plight of turtles is underscored by the fact that the percentage of imperiled species exceeds that of even the critically endangered primates.Freshwater turtles, with over 260 recognized species, have become a focus on a worldwide scale for many conservation issues. This article is a synthesis of a diverse body of information on the general biology of freshwater turtles, with particular emphasis on the extensive research on ecology, life history, and behavior that has been accomplished in the last half century. Much of the research has been applicable to the aforementioned conservation challenges. The studies presented include a combination of laboratory and field experiments and observational studies on this intriguing group of animals.

Endospore abundance, microbial growth and necromass turnover in deep sub-seafloor sediment.

PubMed

Lomstein, Bente Aa; Langerhuus, Alice T; D'Hondt, Steven; Jørgensen, Bo B; Spivack, Arthur J

2012-03-18

Two decades of scientific ocean drilling have demonstrated widespread microbial life in deep sub-seafloor sediment, and surprisingly high microbial-cell numbers. Despite the ubiquity of life in the deep biosphere, the large community sizes and the low energy fluxes in this vast buried ecosystem are not yet understood. It is not known whether organisms of the deep biosphere are specifically adapted to extremely low energy fluxes or whether most of the observed cells are in a dormant, spore-like state. Here we apply a new approach--the D:L-amino-acid model--to quantify the distributions and turnover times of living microbial biomass, endospores and microbial necromass, as well as to determine their role in the sub-seafloor carbon budget. The approach combines sensitive analyses of unique bacterial markers (muramic acid and D-amino acids) and the bacterial endospore marker, dipicolinic acid, with racemization dynamics of stereo-isomeric amino acids. Endospores are as abundant as vegetative cells and microbial activity is extremely low, leading to microbial biomass turnover times of hundreds to thousands of years. We infer from model calculations that biomass production is sustained by organic carbon deposited from the surface photosynthetic world millions of years ago and that microbial necromass is recycled over timescales of hundreds of thousands of years.

Dental development and life history in living African and Asian apes.

PubMed

Kelley, Jay; Schwartz, Gary T

2010-01-19

Life-history inference is an important aim of paleoprimatology, but life histories cannot be discerned directly from the fossil record. Among extant primates, the timing of many life-history attributes is correlated with the age at emergence of the first permanent molar (M1), which can therefore serve as a means to directly compare the life histories of fossil and extant species. To date, M1 emergence ages exist for only a small fraction of extant primate species and consist primarily of data from captive individuals, which may show accelerated dental eruption compared with free-living individuals. Data on M1 emergence ages in wild great apes exist for only a single chimpanzee individual, with data for gorillas and orangutans being anecdotal. This paucity of information limits our ability to make life-history inferences using the M1 emergence ages of extinct ape and hominin species. Here we report reliable ages at M1 emergence for the orangutan, Pongo pygmaeus (4.6 y), and the gorilla, Gorilla gorilla (3.8 y), obtained from the dental histology of wild-shot individuals in museum collections. These ages and the one reported age at M1 emergence in a free-living chimpanzee of approximately 4.0 y are highly concordant with the comparative life histories of these great apes. They are also consistent with the average age at M1 emergence in relation to the timing of life-history events in modern humans, thus confirming the utility of M1 emergence ages for life-history inference and providing a basis for making reliable life-history inferences for extinct apes and hominins.

Effects of roost specialization on extinction risk in bats.

PubMed

Sagot, Maria; Chaverri, Gloriana

2015-12-01

Understanding causes and consequences of ecological specialization is of major concern in conservation. Specialist species are particularly vulnerable to human activities. If their food or habitats are depleted or lost, they may not be able to exploit alternative resources, and population losses may result. We examined International Union for Conservation of Nature (IUCN) Red List bat data and the number of roosts used per species (accounting for phylogenetic independence) to determine whether roost specialization is correlated with extinction risk. We found a significant correlation between the IUCN Red List category and the number of roost types used. Species that use fewer roost types had a higher risk of extinction. We found that caves and similar structures were the most widely used roost types, particularly by species under some level of risk of extinction. Many critically endangered, endangered, or vulnerable species used natural roosts exclusively, whereas less threatened species used natural and human-made roosts. Our results suggest that roost loss, particularly in species that rely on a single roost type, may be linked to extinction risk. Our focus on a single life history trait prevented us from determining how important this variable is for extinction risk relative to other variables, but we have taken a first step toward prioritizing conservation actions. Our results also suggest that roost specialization may exacerbate population declines due to other risk factors, such as hunting pressure or habitat loss, and thus that management actions to preserve species under risk of extinction should prioritize protection of roosting sites. © 2015 Society for Conservation Biology.

A communal catalogue reveals Earth’s multiscale microbial diversity

DOE PAGES

Thompson, Luke R.; Sanders, Jon G.; McDonald, Daniel; ...

2017-11-01

Our growing awareness of the importance and diversity of the microbial world contrasts starkly with our limited understanding of its fundamental structure. Despite remarkable advances in DNA sequence generation, a lack of standardized protocols and common analytical framework impede useful comparison between studies, hindering development of global inferences about microbial life on Earth. Here, we show that with coordinated protocols, exact microbial 16S rRNA gene sequences can be followed across scores of individual studies, revealing patterns of diversity, community structure, and life history strategy at a planetary scale. Using 27,751 crowdsourced environmental samples comprising more than 2.2 billion reads, wemore » find sharp divides between host-associated and free-living communities. We show that the distribution of taxonomic and sequence diversity follows consistent trends across samples types and along gradients of environmental parameters, highlighting some of the global evolutionary patterns and ecological principles that underpin Earth’s microbiome. Here, this dataset provides the most complete environmental survey of our microbial world to date, and serves as a growing reference to provide immediate global context to future microbial surveys.« less

A communal catalogue reveals Earth’s multiscale microbial diversity

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

Thompson, Luke R.; Sanders, Jon G.; McDonald, Daniel

Our growing awareness of the importance and diversity of the microbial world contrasts starkly with our limited understanding of its fundamental structure. Despite remarkable advances in DNA sequence generation, a lack of standardized protocols and common analytical framework impede useful comparison between studies, hindering development of global inferences about microbial life on Earth. Here, we show that with coordinated protocols, exact microbial 16S rRNA gene sequences can be followed across scores of individual studies, revealing patterns of diversity, community structure, and life history strategy at a planetary scale. Using 27,751 crowdsourced environmental samples comprising more than 2.2 billion reads, wemore » find sharp divides between host-associated and free-living communities. We show that the distribution of taxonomic and sequence diversity follows consistent trends across samples types and along gradients of environmental parameters, highlighting some of the global evolutionary patterns and ecological principles that underpin Earth’s microbiome. Here, this dataset provides the most complete environmental survey of our microbial world to date, and serves as a growing reference to provide immediate global context to future microbial surveys.« less

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

Toner, Brandy M.; Rouxel, Olivier J.; Santelli, Cara M.

Hydrothermal sulfide chimneys located along the global system of oceanic spreading centers are habitats for microbial life during active venting. Hydrothermally extinct, or inactive, sulfide deposits also host microbial communities at globally distributed sites. The main goal of this study is to describe Fe transformation pathways, through precipitation and oxidation-reduction (redox) reactions, and examine transformation products for signatures of biological activity using Fe mineralogy and stable isotope approaches. The study includes active and inactive sulfides from the East Pacific Rise 9°50'N vent field. First, the mineralogy of Fe(III)-bearing precipitates is investigated using microprobe X-ray absorption spectroscopy (μXAS) and X-ray diffractionmore » (μXRD). Second, laser-ablation (LA) and micro-drilling (MD) are used to obtain spatially-resolved Fe stable isotope analysis by multicollector-inductively coupled plasma-mass spectrometry (MC-ICP-MS). Eight Fe-bearing minerals representing three mineralogical classes are present in the samples: oxyhydroxides, secondary phyllosilicates, and sulfides. For Fe oxyhydroxides within chimney walls and layers of Si-rich material, enrichments in both heavy and light Fe isotopes relative to pyrite are observed, yielding a range of δ 57Fe values up to 6‰. Overall, several pathways for Fe transformation are observed. Pathway 1 is characterized by precipitation of primary sulfide minerals from Fe(II)aq-rich fluids in zones of mixing between vent fluids and seawater. Pathway 2 is also consistent with zones of mixing but involves precipitation of sulfide minerals from Fe(II)aq generated by Fe(III) reduction. Pathway 3 is direct oxidation of Fe(II) aq from hydrothermal fluids to form Fe(III) precipitates. Finally, Pathway 4 involves oxidative alteration of pre-existing sulfide minerals to form Fe(III). The Fe mineralogy and isotope data do not support or refute a unique biological role in sulfide alteration. The findings reveal a dynamic range of Fe transformation pathways consistent with a continuum of micro-environments having variable redox conditions. Lastly, these micro-environments likely support redox cycling of Fe and S and are consistent with culture-dependent and -independent assessments of microbial physiology and genetic diversity of hydrothermal sulfide deposits.« less

Iron Transformation Pathways and Redox Micro-Environments in Seafloor Sulfide-Mineral Deposits: Spatially Resolved Fe XAS and δ(57/54)Fe Observations.

PubMed

Toner, Brandy M; Rouxel, Olivier J; Santelli, Cara M; Bach, Wolfgang; Edwards, Katrina J

2016-01-01

Hydrothermal sulfide chimneys located along the global system of oceanic spreading centers are habitats for microbial life during active venting. Hydrothermally extinct, or inactive, sulfide deposits also host microbial communities at globally distributed sites. The main goal of this study is to describe Fe transformation pathways, through precipitation and oxidation-reduction (redox) reactions, and examine transformation products for signatures of biological activity using Fe mineralogy and stable isotope approaches. The study includes active and inactive sulfides from the East Pacific Rise 9°50'N vent field. First, the mineralogy of Fe(III)-bearing precipitates is investigated using microprobe X-ray absorption spectroscopy (μXAS) and X-ray diffraction (μXRD). Second, laser-ablation (LA) and micro-drilling (MD) are used to obtain spatially-resolved Fe stable isotope analysis by multicollector-inductively coupled plasma-mass spectrometry (MC-ICP-MS). Eight Fe-bearing minerals representing three mineralogical classes are present in the samples: oxyhydroxides, secondary phyllosilicates, and sulfides. For Fe oxyhydroxides within chimney walls and layers of Si-rich material, enrichments in both heavy and light Fe isotopes relative to pyrite are observed, yielding a range of δ(57)Fe values up to 6‰. Overall, several pathways for Fe transformation are observed. Pathway 1 is characterized by precipitation of primary sulfide minerals from Fe(II)aq-rich fluids in zones of mixing between vent fluids and seawater. Pathway 2 is also consistent with zones of mixing but involves precipitation of sulfide minerals from Fe(II)aq generated by Fe(III) reduction. Pathway 3 is direct oxidation of Fe(II) aq from hydrothermal fluids to form Fe(III) precipitates. Finally, Pathway 4 involves oxidative alteration of pre-existing sulfide minerals to form Fe(III). The Fe mineralogy and isotope data do not support or refute a unique biological role in sulfide alteration. The findings reveal a dynamic range of Fe transformation pathways consistent with a continuum of micro-environments having variable redox conditions. These micro-environments likely support redox cycling of Fe and S and are consistent with culture-dependent and -independent assessments of microbial physiology and genetic diversity of hydrothermal sulfide deposits.

Establishment of Normal Gut Microbiota Is Compromised under Excessive Hygiene Conditions

PubMed Central

Schmidt, Bettina; Mulder, Imke E.; Musk, Corran C.; Aminov, Rustam I.; Lewis, Marie; Stokes, Christopher R.; Bailey, Mick; Prosser, James I.; Gill, Bhupinder P.; Pluske, John R.; Kelly, Denise

2011-01-01

Background Early gut colonization events are purported to have a major impact on the incidence of infectious, inflammatory and autoimmune diseases in later life. Hence, factors which influence this process may have important implications for both human and animal health. Previously, we demonstrated strong influences of early-life environment on gut microbiota composition in adult pigs. Here, we sought to further investigate the impact of limiting microbial exposure during early life on the development of the pig gut microbiota. Methodology/Principal Findings Outdoor- and indoor-reared animals, exposed to the microbiota in their natural rearing environment for the first two days of life, were transferred to an isolator facility and adult gut microbial diversity was analyzed by 16S rRNA gene sequencing. From a total of 2,196 high-quality 16S rRNA gene sequences, 440 phylotypes were identified in the outdoor group and 431 phylotypes in the indoor group. The majority of clones were assigned to the four phyla Firmicutes (67.5% of all sequences), Proteobacteria (17.7%), Bacteroidetes (13.5%) and to a lesser extent, Actinobacteria (0.1%). Although the initial maternal and environmental microbial inoculum of isolator-reared animals was identical to that of their naturally-reared littermates, the microbial succession and stabilization events reported previously in naturally-reared outdoor animals did not occur. In contrast, the gut microbiota of isolator-reared animals remained highly diverse containing a large number of distinct phylotypes. Conclusions/Significance The results documented here indicate that establishment and development of the normal gut microbiota requires continuous microbial exposure during the early stages of life and this process is compromised under conditions of excessive hygiene. PMID:22164261

Robotic Astrobiology: Searching for Life with Rovers

NASA Astrophysics Data System (ADS)

Cabrol, N. A.; Wettergreen, D. S.; Team, L.

2006-05-01

The Life In The Atacama (LITA) project has developed and field tested a long-range, solar-powered, automated rover platform (Zoe) and a science payload assembled to search for microbial life in the Atacama desert. Life is hardly detectable over most of the extent of the driest desert on Earth. Its geological, climatic, and biological evolution provides a unique training ground for designing and testing exploration strategies and life detection methods for the robotic search for life on Mars. LITA opens the path to a new generation of rover missions that will transition from the current study of habitability (MER) to the upcoming search for, and study of, habitats and life on Mars. Zoe's science payload reflects this transition by combining complementary elements, some directed towards the remote sensing of the environment (geology, morphology, mineralogy, weather/climate) for the detection of conditions favorable to microbial habitats and oases along survey traverses, others directed toward the in situ detection of life' signatures (biological and physical, such as biological constructs and patterns). New exploration strategies specifically adapted to the search for microbial life were designed and successfully tested in the Atacama between 2003-2005. They required the development and implementation in the field of new technological capabilities, including navigation beyond the horizon, obstacle avoidance, and "science-on-the-fly" (automated detection of targets of science value), and that of new rover planning tools in the remote science operation center.

The Intestinal Microbiome in Early Life: Health and Disease

PubMed Central

Arrieta, Marie-Claire; Stiemsma, Leah T.; Amenyogbe, Nelly; Brown, Eric M.; Finlay, Brett

2014-01-01

Human microbial colonization begins at birth and continues to develop and modulate in species abundance for about 3 years, until the microbiota becomes adult-like. During the same time period, children experience significant developmental changes that influence their health status as well as their immune system. An ever-expanding number of articles associate several diseases with early-life imbalances of the gut microbiota, also referred to as gut microbial dysbiosis. Whether early-life dysbiosis precedes and plays a role in disease pathogenesis, or simply originates from the disease process itself is a question that is beginning to be answered in a few diseases, including IBD, obesity, and asthma. This review describes the gut microbiome structure and function during the formative first years of life, as well as the environmental factors that determine its composition. It also aims to discuss the recent advances in understanding the role of the early-life gut microbiota in the development of immune-mediated, metabolic, and neurological diseases. A greater understanding of how the early-life gut microbiota impacts our immune development could potentially lead to novel microbial-derived therapies that target disease prevention at an early age. PMID:25250028

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.

Population cycles and species diversity in dynamic Kill-the-Winner model of microbial ecosystems

NASA Astrophysics Data System (ADS)

Maslov, Sergei; Sneppen, Kim

2017-01-01

Determinants of species diversity in microbial ecosystems remain poorly understood. Bacteriophages are believed to increase the diversity by the virtue of Kill-the-Winner infection bias preventing the fastest growing organism from taking over the community. Phage-bacterial ecosystems are traditionally described in terms of the static equilibrium state of Lotka-Volterra equations in which bacterial growth is exactly balanced by losses due to phage predation. Here we consider a more dynamic scenario in which phage infections give rise to abrupt and severe collapses of bacterial populations whenever they become sufficiently large. As a consequence, each bacterial population in our model follows cyclic dynamics of exponential growth interrupted by sudden declines. The total population of all species fluctuates around the carrying capacity of the environment, making these cycles cryptic. While a subset of the slowest growing species in our model is always driven towards extinction, in general the overall ecosystem diversity remains high. The number of surviving species is inversely proportional to the variation in their growth rates but increases with the frequency and severity of phage-induced collapses. Thus counter-intuitively we predict that microbial communities exposed to more violent perturbations should have higher diversity.

Population cycles and species diversity in dynamic Kill-the-Winner model of microbial ecosystems

PubMed Central

Maslov, Sergei; Sneppen, Kim

2017-01-01

Determinants of species diversity in microbial ecosystems remain poorly understood. Bacteriophages are believed to increase the diversity by the virtue of Kill-the-Winner infection bias preventing the fastest growing organism from taking over the community. Phage-bacterial ecosystems are traditionally described in terms of the static equilibrium state of Lotka-Volterra equations in which bacterial growth is exactly balanced by losses due to phage predation. Here we consider a more dynamic scenario in which phage infections give rise to abrupt and severe collapses of bacterial populations whenever they become sufficiently large. As a consequence, each bacterial population in our model follows cyclic dynamics of exponential growth interrupted by sudden declines. The total population of all species fluctuates around the carrying capacity of the environment, making these cycles cryptic. While a subset of the slowest growing species in our model is always driven towards extinction, in general the overall ecosystem diversity remains high. The number of surviving species is inversely proportional to the variation in their growth rates but increases with the frequency and severity of phage-induced collapses. Thus counter-intuitively we predict that microbial communities exposed to more violent perturbations should have higher diversity. PMID:28051127

On the Necessary Relation between Moral Development and Worldview

ERIC Educational Resources Information Center

Frisancho, Susana; Delgado, Guillermo Enrique

2016-01-01

In this article we elaborate on the relationship between morality, moral development, moral education and capitalism. Based on Narvaez's (EJ1111256) correct critique of the Western way of life, which is destroying the environment and may one day lead to extinction of life on Earth, we argue that this critique should not be stripped of its…

Antimicrobial properties of natural substances in irradiated fresh poultry

NASA Astrophysics Data System (ADS)

Mahrour, A.; Lacroix, M.; Nketsa-Tabiri, J.; Calderon, N.; Gagnon, M.

1998-06-01

This study was undertaken to determine if a combined treatment (marinating in natural plant extracts or vacuum) with irradiation could have a synergetic effect, in order to reduce the dose required for complete elimination of Salmonella on fresh poultry. The effect of these combined treatments on the shelf-life extension was also evaluated. The fresh chicken legs were irradiated at 0, 3 and 5 kGy. The poultry underwent microbial analysis(mesophilic and Salmonella detection). For each treatment, the total microbial count decreased with increase of irradiation dose. The marinating treatment have a synergistic effect with irradiation treatment to reduce the total microbial count and controlling the proliferation during storage at 4°C. Irradiation of fresh chicken pieces with a dose of 3 kGy appears to be able to extend the microbial shelf-life by a factor of 2. When the chicken is marinating and irradiated at 3 kGy or when irradiated at 5 kGy without marinating, the microbial shelf-life is extended by a factor of 7 to 8. No Salmonella was found during all the experiment in the chicken in air and marinated. However, a presence of Salmonella was found in samples irradiated at 5 kGy under vacuum, in unirradiated samples and samples irradiated at 3kGy in air and under vacuum.

Development of an autofluorescence spectral database for the identification and classification of microbial extremophiles

NASA Astrophysics Data System (ADS)

Davis, Justin; Howard, Hillari; Hoover, Richard B.; Sabanayagam, Chandran R.

2010-09-01

Extremophiles are microorganisms that have adapted to severe conditions that were once considered devoid of life. The extreme settings in which these organisms flourish on Earth resemble many extraterrestrial environments. Identification and classification of extremophiles in situ (without the requirement for excessive handling and processing) can provide a basis for designing remotely operated instruments for extraterrestrial life exploration. An important consideration when designing such experiments is to prevent contamination of the environments. We are developing a reference spectral database of autofluorescence from microbial extremophiles using long-UV excitation (408 nm). Aromatic compounds are essential components of living systems, and biological molecules such as aromatic amino acids, nucleotides, porphyrins and vitamins can also exhibit fluorescence under long-UV excitation conditions. Autofluorescence spectra were obtained from a light microscope that additionally allowed observations of microbial geometry and motility. It was observed that all extremophiles studied displayed an autofluorescence peak at around 470 nm, followed by a long decay that was species specific. The autofluorescence database can potentially be used as a reference to identify and classify past or present microbial life in our solar system.

Development of an Autofluorescence Spectral Database for the Identification and Classification of Microbial Extremophiles

NASA Technical Reports Server (NTRS)

Sabanayagam, Chandran; Howard, Hillari; Hoover, Richard B.

2010-01-01

Extremophiles are microorganisms that have adapted to severe conditions that were once considered devoid of life. The extreme settings in which these organisms flourish on earth resemble many extraterrestrial environments. Identification and classification of extremophiles in situ (without the requirement for excessive handling and processing) can provide a basis for designing remotely operated instruments for extraterrestrial life exploration. An important consideration when designing such experiments is to prevent contamination of the environments. We are developing a reference spectral database of autofluorescence from microbial extremophiles using long-UV excitation (405 nm). Aromatic compounds are essential components of living systems, and biological molecules such as aromatic amino acids, nucleotides, porphyrins and vitamins can also exhibit fluorescence under long-UV excitation conditions. Autofluorescence spectra were obtained from a confocal microscope that additionally allowed observations of microbial geometry and motility. It was observed that all extremophiles studied displayed an autofluorescence peak at around 470 nm, followed by a long decay that was species specific. The autofluorescence database can potentially be used as a reference to identify and classify past or present microbial life in our solar system.

Manipulating rumen microbiome and fermentation through interventions during early life: a review

PubMed Central

Yáñez-Ruiz, David R.; Abecia, Leticia; Newbold, Charles J.

2015-01-01

The nutritional manipulations of the rumen microbiome to enhance productivity and health are rather limited by the resilience of the ecosystem once established in the mature rumen. Based on recent studies, it has been suggested that the microbial colonization that occurs soon after birth opens a possibility of manipulation with potential to produce lasting effects into adult life. This paper presents the state-of-the-art in relation to early life nutritional interventions by addressing three areas: the development of the rumen as an organ in regards to the nutrition of the new-born, the main factors that determine the microbial population that first colonizes and establishes in the rumen, and the key immunity players that contribute to shaping the commensal microbiota in the early stage of life to understand host-microbiome specificity. The development of the rumen epithelium and muscularization are differently affected by the nature of the diet and special care should be taken with regards to transition from liquid (milk) to solid feed. The rumen is quickly colonized by all type of microorganisms straight after birth and the colonization pattern may be influenced by several factors such as presence/absence of adult animals, the first solid diet provided, and the inclusion of compounds that prevent/facilitate the establishment of some microorganisms or the direct inoculation of specific strains. The results presented show how early life events may be related to the microbial community structure and/or the rumen activity in the animals post-weaning. This would create differences in adaptive capacity due to different early life experiences and leads to the idea of microbial programming. However, many elements need to be further studied such as: the most sensitive window of time for interventions, the best means to test long term effectiveness, the role of key microbial groups and host-immune regulations. PMID:26528276

Relationships of Cetacea (Artiodactyla) Among Mammals: Increased Taxon Sampling Alters Interpretations of Key Fossils and Character Evolution

PubMed Central

Spaulding, Michelle; O'Leary, Maureen A.; Gatesy, John

2009-01-01

Background Integration of diverse data (molecules, fossils) provides the most robust test of the phylogeny of cetaceans. Positioning key fossils is critical for reconstructing the character change from life on land to life in the water. Methodology/Principal Findings We reexamine relationships of critical extinct taxa that impact our understanding of the origin of Cetacea. We do this in the context of the largest total evidence analysis of morphological and molecular information for Artiodactyla (661 phenotypic characters and 46,587 molecular characters, coded for 33 extant and 48 extinct taxa). We score morphological data for Carnivoramorpha, †Creodonta, Lipotyphla, and the †raoellid artiodactylan †Indohyus and concentrate on determining which fossils are positioned along stem lineages to major artiodactylan crown clades. Shortest trees place Cetacea within Artiodactyla and close to †Indohyus, with †Mesonychia outside of Artiodactyla. The relationships of †Mesonychia and †Indohyus are highly unstable, however - in trees only two steps longer than minimum length, †Mesonychia falls inside Artiodactyla and displaces †Indohyus from a position close to Cetacea. Trees based only on data that fossilize continue to show the classic arrangement of relationships within Artiodactyla with Cetacea grouping outside the clade, a signal incongruent with the molecular data that dominate the total evidence result. Conclusions/Significance Integration of new fossil material of †Indohyus impacts placement of another extinct clade †Mesonychia, pushing it much farther down the tree. The phylogenetic position of †Indohyus suggests that the cetacean stem lineage included herbivorous and carnivorous aquatic species. We also conclude that extinct members of Cetancodonta (whales + hippopotamids) shared a derived ability to hear underwater sounds, even though several cetancodontans lack a pachyostotic auditory bulla. We revise the taxonomy of living and extinct artiodactylans and propose explicit node and stem-based definitions for the ingroup. PMID:19774069

Amino acid chiral recognition using X-ray diffraction of thin films

NASA Technical Reports Server (NTRS)

Dragoi, D.; Kulleck, J.; Kanik, I.; Beegle, L. W.

2003-01-01

The astrobiological search for life, both extinct and extant, on other solar system bodies will take place via several planned lander missions to Mars, Europa and Titan. The detection and identification of organic molecules that have been associated with life is a major technical achievement. Terrestrial life utilizes organic molecules, such as amino acids, as its basic building block. Detection of an entometeric excess of L over D forms of amino acids would be a powerful sign that life had existed on Mars at one time.

Microbial survival in deep space environment.

NASA Technical Reports Server (NTRS)

Silverman, G. J.

1971-01-01

Review of the knowledge available on the extent to which microorganisms (mainly microbial spores, vegetative cells, and fungi) are capable of surviving the environment of deep space, based on recent simulation experiments of deep space. A description of the experimental procedures used is followed by a discussion of deep space ecology, the behavior of microorganisms in ultrahigh vacuum, and factors influencing microbial survival. It is concluded that, so far, simulation experiments have proved far less lethal to microorganisms than to other forms of life. There are, however, wide gaps in the knowledge available, and no accurate predictions can as yet be made on the degree of lethality that might be incurred by a microbial population on a given mission. Therefore, sterilization of spacecraft surfaces is deemed necessary if induced panspermia (i.e., interplanetary life propagation) is to be avoided.

In situ Detection of Microbial Life in the Deep Biosphere in Igneous Ocean Crust.

PubMed

Salas, Everett C; Bhartia, Rohit; Anderson, Louise; Hug, William F; Reid, Ray D; Iturrino, Gerardo; Edwards, Katrina J

2015-01-01

The deep biosphere is a major frontier to science. Recent studies have shown the presence and activity of cells in deep marine sediments and in the continental deep biosphere. Volcanic lavas in the deep ocean subsurface, through which substantial fluid flow occurs, present another potentially massive deep biosphere. We present results from the deployment of a novel in situ logging tool designed to detect microbial life harbored in a deep, native, borehole environment within igneous oceanic crust, using deep ultraviolet native fluorescence spectroscopy. Results demonstrate the predominance of microbial-like signatures within the borehole environment, with densities in the range of 10(5) cells/mL. Based on transport and flux models, we estimate that such a concentration of microbial cells could not be supported by transport through the crust, suggesting in situ growth of these communities.

Biodiversity loss decreases parasite diversity: theory and patterns

USGS Publications Warehouse

Lafferty, Kevin D.

2012-01-01

Past models have suggested host–parasite coextinction could lead to linear, or concave down relationships between free-living species richness and parasite richness. I explored several models for the relationship between parasite richness and biodiversity loss. Life cycle complexity, low generality of parasites and sensitivity of hosts reduced the robustness of parasite species to the loss of free-living species diversity. Food-web complexity and the ordering of extinctions altered these relationships in unpredictable ways. Each disassembly of a food web resulted in a unique relationship between parasite richness and the richness of free-living species, because the extinction trajectory of parasites was sensitive to the order of extinctions of free-living species. However, the average of many disassemblies tended to approximate an analytical model. Parasites of specialist hosts and hosts higher on food chains were more likely to go extinct in food-web models. Furthermore, correlated extinctions between hosts and parasites (e.g. if parasites share a host with a specialist predator) led to steeper declines in parasite richness with biodiversity loss. In empirical food webs with random removals of free-living species, the relationship between free-living species richness and parasite richness was, on average, quasi-linear, suggesting biodiversity loss reduces parasite diversity more than previously thought.

Toward Understanding, Managing, and Protecting Microbial Ecosystems

PubMed Central

Bodelier, Paul L. E.

2011-01-01

Microbial communities are at the very basis of life on earth, catalyzing biogeochemical reactions driving global nutrient cycles. However, unlike for plants and animals, microbial diversity is not on the biodiversity–conservation agenda. The latter, however, would imply that microbial diversity is not under any threat by anthropogenic disturbance or climate change. This maybe a misconception caused by the rudimentary knowledge we have concerning microbial diversity and its role in ecosystem functioning. This perspective paper identifies major areas with knowledge gaps within the field of environmental microbiology that preclude a comprehension of microbial ecosystems on the level we have for plants and animals. Opportunities and challenges are pointed out to open the microbial black box and to go from descriptive to predictive microbial ecology. PMID:21747797

Periodic cometary showers: Real or imaginary?

NASA Technical Reports Server (NTRS)

Grieve, R. A. F.; Sharpton, V. L.; Goodacre, A. K.; Garvin, J. B.

1985-01-01

Since the initial reports in 1980, a considerable body of chemical and physical evidence has been accumulated to indicate that a major impact event occurred on earth 65 million years ago. The effects of this event were global in extent and have been suggested as the cause of the sudden demise or mass extinction of a large percentage of life, including the dinosaurs, at the end of the geologic time period known as the Cretaceous. Recent statistical analyses of extinctions in the marine faunal record for the last 250 million years have suggested that mass extinctions may occur with a periodicity of every 26 to 30 million years. Following these results, other workers have attempted to demonstrate that these extinction events, like that at the end of the Cretaceous, are temporally correlated with large impact events. A recent scenario suggests that they are the result of periodic showers of comets produced by either the passage of the solar system through the galactic plane or by perturbations of the cometary cloud in the outer solar system by a, as yet unseen, solar companion. This hypothesized solar companion has been given the name Nemesis.

Chemotactic preferences govern competition and pattern formation in simulated two-strain microbial communities.

PubMed

Centler, Florian; Thullner, Martin

2015-01-01

Substrate competition is a common mode of microbial interaction in natural environments. While growth properties play an important and well-studied role in competition, we here focus on the influence of motility. In a simulated two-strain community populating a homogeneous two-dimensional environment, strains competed for a common substrate and only differed in their chemotactic preference, either responding more sensitively to a chemoattractant excreted by themselves or responding more sensitively to substrate. Starting from homogeneous distributions, three possible behaviors were observed depending on the competitors' chemotactic preferences: (i) distributions remained homogeneous, (ii) patterns formed but dissolved at a later time point, resulting in a shifted community composition, and (iii) patterns emerged and led to the extinction of one strain. When patterns formed, the more aggregating strain populated the core of microbial aggregates where starving conditions prevailed, while the less aggregating strain populated the more productive zones at the fringe or outside aggregates, leading to a competitive advantage of the less aggregating strain. The presence of a competitor was found to modulate a strain's behavior, either suppressing or promoting aggregate formation. This observation provides a potential mechanism by which an aggregated lifestyle might evolve even if it is initially disadvantageous. Adverse effects can be avoided as a competitor hinders aggregate formation by a strain which has just acquired this ability. The presented results highlight both, the importance of microbial motility for competition and pattern formation, and the importance of the temporal evolution, or history, of microbial communities when trying to explain an observed distribution.

Planetary protection issues and future Mars missions

NASA Technical Reports Server (NTRS)

Devincenzi, D. L.; Klein, H. P.; Bagby, J. R.

1991-01-01

A primary scientific theme for the Space Exploration Initiative (SEI) is the search for life, extant or extinct, on Mars. Because of this, concerns have arisen about Planetary Protection (PP), the prevention of biological cross-contamination between Earth and other planets during solar system exploration missions. A recent workshop assessed the necessity for, and impact of, PP requirements on the unmanned and human missions to Mars comprising the SEI. The following ground-rules were adopted: (1) Information needed for assessing PP issues must be obtained during the unmanned precursor mission phase prior to human landings. (2) Returned Mars samples will be considered biologically hazardous until proven otherwise. (3) Deposition of microbes on Mars and exposure of the crew to martian materials are inevitable when humans land. And (4) Human landings are unlikely until it is demonstrated that there is no harmful effect of martian materials on terrestrial life forms. These ground-rules dictated the development of a conservative PP strategy for precursor missions. Key features of the proposed strategy include: to prevent forward-contamination, all orbiters will follow Mars Observer PP procedures for assembly, trajectory, and lifetime. All landers will follow Viking PP procedures for assembly, microbial load reduction, and bio-shield. And, to prevent back-contamination, all sample return missions will have PP requirements which include fail-safe sample sealing, breaking contact chain with the martian surface, and containment and quarantine analysis in Earth-based laboratory. In addition to deliberating on scientific and technical issues, the workshop made several recommendations for dealing with forward and back-contamination concerns from non-scicntific perspectives.

Microbial Community Dynamics from Permafrost Across the Pleistocene-Holocene Boundary and Response to Abrupt Climate Change

NASA Astrophysics Data System (ADS)

Hammad, A.; Mahony, M.; Froese, D. G.; Lanoil, B. D.

2014-12-01

Earth is currently undergoing rapid warming similar to that observed about 10,000 years ago at the end of the Pleistocene. We know a considerable amount about the adaptations and extinctions of mammals and plants at the Pleistocene/Holocene (P/H) boundary, but relatively little about changes at the microbial level. Due to permafrost soils' freezing anoxic conditions, they act as microbial diversity archives allowing us to determine how microbial communities adapted to the abrupt warming at the end of P. Since microbial community composition only helps differentiate viable and extant microorganisms in frozen permafrost, microbial activity in thawing permafrost must be investigated to provide a clear understanding of microbial response to climate change. Current increased temperatures will result in warming and potential thaw of permafrost and release of stored organic carbon, freeing it for microbial utilization; turning permafrost into a carbon source. Studying permafrost viable microbial communities' diversity and activity will provide a better understanding of how these microorganisms respond to soil edaphic variability due to climate change across the P/H boundary, providing insight into the changes that the soil community is currently undergoing in this modern era of rapid climate change. Modern soil, H and P permafrost cores were collected from Lucky Lady II site outside Dawson City, Yukon. 16S rRNA high throughput sequencing of permafrost DNA showed the same trends for total and viable community richness and diversity with both decreasing with permafrost depth and only the richness increasing in mid and early P. The modern, H and P soils had 50.9, 33.9, and 27.3% unique viable species and only 14% of the total number of viable species were shared by all soils. Gas flux measurements of thawed permafrost showed metabolic activity in modern and permafrost soils, aerobic CH­­4 consumption in modern, some H and P soils, and anaerobic CH­­4 production in one H sample. Soil chemistry analysis showed that older permafrost, P, had higher pH, lower total nitrogen, ammonium, and organic carbon than younger permafrost, H.

Models for the rise of the dinosaurs.

PubMed

Benton, Michael J; Forth, Jonathan; Langer, Max C

2014-01-20

Dinosaurs arose in the early Triassic in the aftermath of the greatest mass extinction ever and became hugely successful in the Mesozoic. Their initial diversification is a classic example of a large-scale macroevolutionary change. Diversifications at such deep-time scales can now be dissected, modelled and tested. New fossils suggest that dinosaurs originated early in the Middle Triassic, during the recovery of life from the devastating Permo-Triassic mass extinction. Improvements in stratigraphic dating and a new suite of morphometric and comparative evolutionary numerical methods now allow a forensic dissection of one of the greatest turnovers in the history of life. Such studies mark a move from the narrative to the analytical in macroevolutionary research, and they allow us to begin to answer the proposal of George Gaylord Simpson, to explore adaptive radiations using numerical methods. Copyright © 2014 The Authors. Published by Elsevier Inc. All rights reserved.

Allee effect in the selection for prime-numbered cycles in periodical cicadas.

PubMed

Tanaka, Yumi; Yoshimura, Jin; Simon, Chris; Cooley, John R; Tainaka, Kei-ichi

2009-06-02

Periodical cicadas are well known for their prime-numbered life cycles (17 and 13 years) and their mass periodical emergences. The origination and persistence of prime-numbered cycles are explained by the hybridization hypothesis on the basis of their lower likelihood of hybridization with other cycles. Recently, we showed by using an integer-based numerical model that prime-numbered cycles are indeed selected for among 10- to 20-year cycles. Here, we develop a real-number-based model to investigate the factors affecting the selection of prime-numbered cycles. We include an Allee effect in our model, such that a critical population size is set as an extinction threshold. We compare the real-number models with and without the Allee effect. The results show that in the presence of an Allee effect, prime-numbered life cycles are most likely to persist and to be selected under a wide range of extinction thresholds.

Introduction pathway and climate trump ecology and life history as predictors of establishment success in alien frogs and toads

PubMed Central

Rago, Alfredo; While, Geoffrey M; Uller, Tobias

2012-01-01

A major goal for ecology and evolution is to understand how abiotic and biotic factors shape patterns of biological diversity. Here, we show that variation in establishment success of nonnative frogs and toads is primarily explained by variation in introduction pathways and climatic similarity between the native range and introduction locality, with minor contributions from phylogeny, species ecology, and life history. This finding contrasts with recent evidence that particular species characteristics promote evolutionary range expansion and reduce the probability of extinction in native populations of amphibians, emphasizing how different mechanisms may shape species distributions on different temporal and spatial scales. We suggest that contemporary changes in the distribution of amphibians will be primarily determined by human-mediated extinctions and movement of species within climatic envelopes, and less by species-typical traits. PMID:22957152

Extinct Life on Mars: Looking for Traces of Viruses Instead of Bacteria

NASA Astrophysics Data System (ADS)

Ksanfomality, Leonid

The finds in the ALH 84001 meteorite were reported as a sign of traces and fossils of ancient Martian primitive life. Despite many experiments, the issue has not been settled. A study of geochemical data suggests that simple inorganic processes sometimes offer a more plausible explanation of the suspicious structures found in the ALH 84001 meteorite that had been discussed by many authors. A photo of certain micro structures got in the paper of N. Yushkin (Fig. 1) proves the point. (Figure: The inorganic structures in granites.) It is known that viruses possess an ability to survive under very severe external conditions. The Martian biogenic activity (if any) could leave its virus' sign. Thus it could make a sense to look for viruses or even DNA traces both in the body of the ALH 84001 meteorite and on Mars in future space missions instead of traces of the extinct bacteria.

Integrity of the DNA and Cellular Ultrastructure of Cryptoendolithic Fungi in Space or Mars Conditions: A 1.5-Year Study at the International Space Station.

PubMed

Onofri, Silvano; Selbmann, Laura; Pacelli, Claudia; de Vera, Jean Pierre; Horneck, Gerda; Hallsworth, John E; Zucconi, Laura

2018-06-19

The black fungi Cryomyces antarcticus and Cryomyces minteri are highly melanized and are resilient to cold, ultra-violet, ionizing radiation and other extreme conditions. These microorganisms were isolated from cryptoendolithic microbial communities in the McMurdo Dry Valleys (Antarctica) and studied in Low Earth Orbit (LEO), using the EXPOSE-E facility on the International Space Station (ISS). Previously, it was demonstrated that C. antarcticus and C. minteri survive the hostile conditions of space (vacuum, temperature fluctuations, and the full spectrum of extraterrestrial solar electromagnetic radiation), as well as Mars conditions that were simulated in space for a 1.5-year period. Here, we qualitatively and quantitatively characterize damage to DNA and cellular ultrastructure in desiccated cells of these two species, within the frame of the same experiment. The DNA and cells of C. antarcticus exhibited a higher resistance than those of C. minteri . This is presumably attributable to the thicker (melanized) cell wall of the former. Generally, DNA was readily detected (by PCR) regardless of exposure conditions or fungal species, but the C. minteri DNA had been more-extensively mutated. We discuss the implications for using DNA, when properly shielded, as a biosignature of recently extinct or extant life.

Losing history: how extinctions prune features from the tree of life.

PubMed

Davies, T Jonathan

2015-02-19

Biodiversity provides many valuable services to humanity; however, rapid expansion of the human population has placed increasing pressure on natural systems, and it has been suggested that we may be entering a sixth mass extinction. There is an urgent need, therefore, to prioritize conservation efforts if we are to maintain the provisioning of such service in the future. Phylogenetic diversity (PD), the summed branch lengths that connect species on the tree-of-life, might provide a valuable metric for conservation prioritization because it has been argued to capture feature diversity. Frequently, PD is estimated in millions of years, and therefore implicitly assumes an evolutionary model in which features diverge gradually over time. Here, I explore the expected loss of feature diversity when this assumption is violated. If evolution tends to slow down over time, as might be the case following adaptive radiations, losses of feature diversity might be relatively small. However, if evolution occurs in rapid bursts, following a punctuated model, impacts of extinctions might be much greater. PD captures many important properties, but if we use it as a proxy for feature diversity, we first need to ensure that we have the correct evolutionary model. © 2015 The Author(s) Published by the Royal Society. All rights reserved.

Ozone control of biological activity during Earth's history, including the KT catastrophe

NASA Technical Reports Server (NTRS)

Sheldon, W. R.

1994-01-01

There have been brief periods since the beginning of the Cambrian some 600 m.y. ago when mass extinctions destroyed a significant fraction of living species. The most widely studied of these events is the catastrophe at the KT boundary that ended the long dominance of the dinosaurs. In addition to mass extinctions, there is another profound discontinuity in the history of Earth's biota, the explosion of life at the end of the Precambrian era which is an episode that is not explained well at all. For some 3 b.y. before the Cambrian, life had been present on Earth, but maintained a low level of activity which is an aspect of the biota that is puzzling, especially during the last two-thirds of that period. During the last 2 b.y. before the Cambrian, conditions at the Earth's surface were suitable for a burgeoning of the biota, according to most criteria: the oceans neither boiled nor were fozen solid during this time, and the atmosphere contained sufficient O for the development of animals. The purpose of this paper is to suggest that mass extinctions and the lackluster behavior of the Precambrian biota share a common cause: an inadequate amount of ozone in the atmosphere.

Potential Research and Development Synergies between Life support and Planetary protection

NASA Astrophysics Data System (ADS)

Lasseur, Ch.; Kminek, G.; Mergeay, M.

Long term manned missions of our Russian colleagues have demonstrated the risks associated with microbial contamination These risks concern both crew health via the metabolic consumables contamination water air but and also the hardware degradation Over the last six years ESA and IBMP have developed a collaboration to elaborate and document these microbial contamination issues The collaboration involved the mutual exchanges of knowledge as well as microbial samples and leads up to the microbial survey of the Russian module of the ISS Based on these results and in addition to an external expert report commissioned by ESA the agency initiated the development of a rapid and automated microbial detection and identification tool for use in future space missions In parallel to these developments and via several international meetings planetary protection experts have agreed to place clear specification of the microbial quality of future hardware landing on virgin planets as well as elaborate the preliminary requirements of contamination for manned missions on surface For these activities its is necessary to have a better understanding of microbial activity to create culture collection and to develop on-line detection tools Within this paper we present more deeply the life support activities related to microbial issues we identify some potential synergies with Planetary protection developments and we propose some pathway for collaboration between these two communities

Life cycle of soil sggregates: from root residue to microbial and physical hotspots

NASA Astrophysics Data System (ADS)

Ghezzehei, T. A.; Or, D.

2017-12-01

Soil aggregation is a physical state of soil in which clumps of primary soil particles are held together by biological and/or chemical cementing agents. Aggregations plays important role in storage and movement of water and essential gases, nutrient cycling, and ultimately supporting microbial and plant life. It is also one of the most dynamic and sensitive soil qualities, which readily responds to disturbances such as cultivation, fire, drought, flooding, and changes in vegetation. Soil aggregation that is primarily controlled by organic matter generally exhibits hierarchical organization of soil constituents into stable units that range in size from a few microns to centimeters. However, this conceptual model of soil aggregation as the key unifying mechanism remains poorly quantified and is rarely included in predictive soil models. Here we provide a biophysical framework for quantitative and predictive modeling of soil aggregation and its attendant soil characteristics. The framework treats aggregates as hotspots of biological, chemical and physical processes centered around roots and root residue. We keep track of the life cycle of an individual aggregate from it genesis in the rhizosphere, fueled by rhizodeposition and mediated by vigorous microbial activity, until its disappearance when the root-derived resources are depleted. The framework synthesizes current understanding of microbial life in porous media; water holding and soil binding capacity of biopolymers; and environmental controls on soil organic matter dynamics. The framework paves a way for integration of processes that are presently modeled as disparate or poorly coupled processes, including storage and protection of carbon, microbial activity, greenhouse gas fluxes, movement and storage of water, resistance of soils against erosion.

Endolithic microbial habitats as refuges for life in polyextreme environment of the Atacama Desert.

PubMed

Wierzchos, Jacek; Casero, M Cristina; Artieda, Octavio; Ascaso, Carmen

2018-01-22

The extremely harsh conditions of hyperarid deserts are a true challenge for microbial life. Microorganisms thriving in such polyextreme environments are fascinating as they can tell us more about life, its strategies and its boundaries than other groups of organisms. The Atacama Desert (North Chile) holds two world records of extreme environmental characteristics: the lowest rainfall and greatest surface ultraviolet radiation and total solar irradiance ever measured on Earth. Despite these limiting conditions for life, we recently identified several remarkable examples of endolithic habitats colonized by phototrophic and heterotrophic microorganisms in the hyperarid core of the Atacama Desert. Copyright © 2018 Elsevier Ltd. All rights reserved.

The role of early life nutrition in the establishment of gastrointestinal microbial composition and function

PubMed Central

Davis, Erin C.; Wang, Mei; Donovan, Sharon M.

2017-01-01

ABSTRACT The development of the human infant intestinal microbiota is a sequential process that begins in utero and continues during the first 2 to 3 years of life. Microbial composition and diversity are shaped by host genetics and multiple environmental factors, of which diet is a principal contributor. An understanding of this process is of clinical importance as the microbiota acquired in early life influence gastrointestinal, immune and neural development, and reduced microbial diversity or dysbiosis during infancy is associated with disorders in infancy and later childhood. The goal of this article was to review the published literature that used culture-independent methods to describe the development of the gastrointestinal microbiota in breast- and formula-fed human infants as well as the impact of prebiotic and probiotic addition to infant formula, and the addition of solid foods. PMID:28068209

Earth's Earliest Ecosystems in the C: The Use of Microbial Mats to Demonstrate General Principles of Scientific Inquiry and Microbial Ecology

NASA Technical Reports Server (NTRS)

Bebout, Brad M.; Bucaria, Robin

2006-01-01

Microbial mats are living examples of the most ancient biological communities on Earth. As Earth's earliest ecosystems, they are centrally important to understanding the history of life on our planet and are useful models for the search for life elsewhere. As relatively compact (but complete) ecosystems, microbial mats are also extremely useful for educational activities. Mats may be used to demonstrate a wide variety of concepts in general and microbial ecology, including the biogeochemical cycling of elements, photosynthesis and respiration, and the origin of the Earth's present oxygen containing atmosphere. Microbial mats can be found in a number of common environments accessible to teachers, and laboratory microbial mats can be constructed using materials purchased from biological supply houses. With funding from NASA's Exobiology program, we have developed curriculum and web-based activities centered on the use of microbial mats as tools for demonstrating general principles in ecology, and the scientific process. Our web site (http://microbes.arc.nasa.gov) includes reference materials, lesson plans, and a "Web Lab", featuring living mats maintained in a mini-aquarium. The site also provides information as to how research on microbial mats supports NASA's goals, and various NASA missions. A photo gallery contains images of mats, microscopic views of the organisms that form them, and our own research activities. An animated educational video on the web site uses computer graphic and video microscopy to take students on a journey into a microbial mat. These activities are targeted to a middle school audience and are aligned with the National Science Standards.

Extinct 244Pu in ancient zircons.

PubMed

Turner, Grenville; Harrison, T Mark; Holland, Greg; Mojzsis, Stephen J; Gilmour, Jamie

2004-10-01

We have found evidence, in the form of fissiogenic xenon isotopes, for in situ decay of 244Pu in individual 4.1- to 4.2-billion-year-old zircons from the Jack Hills region of Western Australia. Because of its short half-life, 82 million years, 244Pu was extinct within 600 million years of Earth's formation. Detrital zircons are the only known relics to have survived from this period, and a study of their Pu geochemistry will allow us to date ancient metamorphic events and determine the terrestrial Pu/U ratio for comparison with the solar ratio.

Dental development and life history in living African and Asian apes

PubMed Central

Kelley, Jay; Schwartz, Gary T.

2009-01-01

Life-history inference is an important aim of paleoprimatology, but life histories cannot be discerned directly from the fossil record. Among extant primates, the timing of many life-history attributes is correlated with the age at emergence of the first permanent molar (M1), which can therefore serve as a means to directly compare the life histories of fossil and extant species. To date, M1 emergence ages exist for only a small fraction of extant primate species and consist primarily of data from captive individuals, which may show accelerated dental eruption compared with free-living individuals. Data on M1 emergence ages in wild great apes exist for only a single chimpanzee individual, with data for gorillas and orangutans being anecdotal. This paucity of information limits our ability to make life-history inferences using the M1 emergence ages of extinct ape and hominin species. Here we report reliable ages at M1 emergence for the orangutan, Pongo pygmaeus (4.6 y), and the gorilla, Gorilla gorilla (3.8 y), obtained from the dental histology of wild-shot individuals in museum collections. These ages and the one reported age at M1 emergence in a free-living chimpanzee of approximately 4.0 y are highly concordant with the comparative life histories of these great apes. They are also consistent with the average age at M1 emergence in relation to the timing of life-history events in modern humans, thus confirming the utility of M1 emergence ages for life-history inference and providing a basis for making reliable life-history inferences for extinct apes and hominins. PMID:20080537

The role of extreme events in evolution

NASA Astrophysics Data System (ADS)

Combes, Claude

2008-09-01

Evolutionists have often had a marked tendency to think that, in the course of time, planetary events were not very different from those occurring during a human life. However, when a 'non-human' timescale is used, the history of our planet appears profoundly and frequently disturbed by extreme events. These events, even not always instantaneous, impose - because of their amplitude - a severe sorting, not between individuals of a species, but between species, or even between phyla. In the face of an extreme event, intraspecific diversity counts little: it is the interspecific diversity that makes the difference. As shown by mass extinctions, extreme events open ecological niches and redistribute the cards of life, giving survivors opportunities to radiate. The capacity to cope with extreme ecological conditions favours certain species in ecosystems, not certain individuals in populations. This is not a macroevolutionary process in terms of acquiring new adaptations, but a macroevolutionary process in terms of sorting entire sections of life. The most important is perhaps that the current 'mediatisation' of a limited number of mass extinctions dissimulates less important extinctions caused by less extreme and more localized events that were possibly responsible for many changes in the composition and structure of communities throughout the evolution. The term of 'pre-adaptation' has been neglected, because it gives an impression of finalism, but it expresses well that, when an unexpected event occurs, a particular species has or has not the 'right genes' to continue to sustain viable populations. The role of extreme events in modifying the course of evolution should not be underestimated.

An astrophysical view of Earth-based metabolic biosignature gases.

PubMed

Seager, Sara; Schrenk, Matthew; Bains, William

2012-01-01

Microbial life on Earth uses a wide range of chemical and energetic resources from diverse habitats. An outcome of this microbial diversity is an extensive and varied list of metabolic byproducts. We review key points of Earth-based microbial metabolism that are useful to the astrophysical search for biosignature gases on exoplanets, including a list of primary and secondary metabolism gas byproducts. Beyond the canonical, unique-to-life biosignature gases on Earth (O(2), O(3), and N(2)O), the list of metabolic byproducts includes gases that might be associated with biosignature gases in appropriate exoplanetary environments. This review aims to serve as a starting point for future astrophysical biosignature gas research.

Uniformitarianism and its Discontents: Microbial Evolution and Co-evolution of Life and Earth

NASA Astrophysics Data System (ADS)

Wing, B. A.

2016-12-01

For the first ≈4 billion years of Earth history, life was microscopic. There are ≈5x1030 bacteria and archaea on Earth today. Mean turnover times of natural microbial populations are days to millennia (10-2 to 103 years). Assuming that a similar-sized microbial biosphere has been maintained since ≈4 billion years ago, the number of microbes that have ever lived on Earth is awesome: >1037 to 1042. In broad brush, these numbers represent the individual microbial evolution experiments run by Nature. They are many, many orders of magnitude greater than the number of stars in the universe. Despite this numerical hurdle, the geological record is read with the assumption that microbes in the geological past were doing exactly what microbes do today. In this presentation, I will discuss evolutionary impacts on a critical microbial phentypic trait - sulfur isotope fractionation - that has played a critical role in our interpretations of the the evolution of the Earth system. The discussion will range from microbial evolution experiments to models of metabolic evolution, with an eye toward understanding the evolutionary weaknesses and strengths in our uniformiatrian world view.

A unified theory of impact crises and mass extinctions: quantitative tests.

PubMed

Rampino, M R; Haggerty, B M; Pagano, T C

1997-05-30

Several quantitative tests of a general hypothesis linking impacts of large asteroids and comets with mass extinctions of life are possible based on astronomical data, impact dynamics, and geological information. The waiting times of large-body impacts on the Earth derived from the flux of Earth-crossing asteroids and comets, and the estimated size of impacts capable of causing, large-scale environmental disasters, predict the impacts of objects > or = 5 km in diameter (> or = 10(7) Mt TNT equivalent) could be sufficient to explain the record of approximately 25 extinction pulses in the last 540 Myr, with the 5 recorded major mass extinctions related to impacts of the largest objects of > or = 10 km in diameter (> or = 10(8) Mt events). Smaller impacts (approximately 10(6) Mt), with significant regional environmental effects, could be responsible for the lesser boundaries in the geologic record. Tests of the "kill curve" relationship for impact-induced extinctions based on new data on extinction intensities, and several well-dated large impact craters, also suggest that major mass extinctions require large impacts, and that a step in the kill curve may exist at impacts that produce craters of approximately 100 km diameter, smaller impacts being capable of only relatively weak extinction pulses. Single impact craters less than approximately 60 km in diameter should not be associated with detectable global extinction pulses (although they may explain stage and zone boundaries marked by lesser faunal turnover), but multiple impacts in that size range may produce significant stepped extinction pulses. Statistical tests of the last occurrences of species at mass-extinction boundaries are generally consistent with predictions for abrupt or stepped extinctions, and several boundaries are known to show "catastrophic" signatures of environmental disasters and biomass crash, impoverished postextinction fauna and flora dominated by stress-tolerant and opportunistic species, and gradual ecological recovery and radiation of new taxa. Isotopic and other geochemical signatures are also generally consistent with the expected after-effects of catastrophic impacts. Seven of the recognized extinction pulses seem to be associated with concurrent (in some cases multiple) stratigraphic impact markers (e.g., layers with high iridium, shocked minerals, microtektites), and/or large, dated impact craters. Other less well-studied crisis intervals show elevated iridium, but well below that of the K/T spike, which might be explained by low-Ir impactors, ejecta blowoff, or sedimentary reworking and dilution of impact signatures. The best explanation for a possible periodic component of approximately 30 Myr in mass extinctions and clusters of impacts is the pulselike modulation of the comet flux associated with the solar system's periodic passage through the plane of the Milky Way Galaxy. The quantitative agreement between paleontologic and astronomical data suggests an important underlying unification of the processes involved.

In situ Detection of Microbial Life in the Deep Biosphere in Igneous Ocean Crust

PubMed Central

Salas, Everett C.; Bhartia, Rohit; Anderson, Louise; Hug, William F.; Reid, Ray D.; Iturrino, Gerardo; Edwards, Katrina J.

2015-01-01

The deep biosphere is a major frontier to science. Recent studies have shown the presence and activity of cells in deep marine sediments and in the continental deep biosphere. Volcanic lavas in the deep ocean subsurface, through which substantial fluid flow occurs, present another potentially massive deep biosphere. We present results from the deployment of a novel in situ logging tool designed to detect microbial life harbored in a deep, native, borehole environment within igneous oceanic crust, using deep ultraviolet native fluorescence spectroscopy. Results demonstrate the predominance of microbial-like signatures within the borehole environment, with densities in the range of 105 cells/mL. Based on transport and flux models, we estimate that such a concentration of microbial cells could not be supported by transport through the crust, suggesting in situ growth of these communities. PMID:26617595

Dispositional cognitive reappraisal modulates the neural correlates of fear acquisition and extinction.

PubMed

Hermann, Andrea; Keck, Tanja; Stark, Rudolf

2014-09-01

Adverse learning experiences play a significant role in the etiology of anxiety disorders. However, not all individuals experiencing negative events develop heightened anxiety. This is possibly due to individual differences in the regulation of negative emotions associated with these negative events. Cognitive reappraisal is defined as reinterpreting an emotion-eliciting situation in a way that changes its emotional impact. A more frequent use of cognitive reappraisal in daily life has been shown to be more adaptive. However, no study to date examined the association of dispositional cognitive reappraisal with emotional learning, in order to elucidate individual differences in negative emotional responses towards aversive events. The goal of this functional magnetic resonance imaging (fMRI) study was to investigate the association of dispositional cognitive reappraisal with subjective, electrodermal and neural correlates of fear acquisition and extinction. Data of 41 healthy individuals, who participated in a socially relevant differential conditioning paradigm (acquisition and extinction learning: day 1, extinction recall: day 2), were acquired. Dispositional cognitive reappraisal was negatively associated with right insula, and hippocampus activation during acquisition. Furthermore, the reduction of self-reported conditioned fear during extinction learning as well as reduced insula and enhanced rostral anterior cingulate cortex activation during extinction learning was related to cognitive reappraisal. In addition, reduced recovery of conditioned arousal, reduced anterior cingulate and dorsomedial prefrontal cortex activation and enhanced ventromedial prefrontal cortex activation during extinction recall was observed in individuals with higher cognitive reappraisal scores. The results indicate that dispositional cognitive reappraisal modulates subjective and neural correlates of fear conditioning, probably leading to reduced acquisition and stronger extinction learning and recall. These results point to the important role of dispositional cognitive reappraisal in the development and modification of conditioned emotional responses and might further improve our understanding of anxiety disorders. Copyright © 2014 Elsevier Inc. All rights reserved.

The universe: a cryogenic habitat for microbial life.

PubMed

Wickramasinghe, Chandra

2004-04-01

Panspermia, an ancient idea, posits that microbial life is ubiquitous in the Universe. After several decades of almost irrational rejection, panspermia is at last coming to be regarded as a serious contender for the beginnings of life on our planet. Astronomical data is shown to be consistent with the widespread distribution of complex organic molecules and dust particles that may have a biological provenance. A minuscule (10(-21)) survival rate of freeze-dried bacteria in space is all that is needed to ensure the continual re-cycling of cosmic microbial life in the galaxy. Evidence that terrestrial life may have come from elsewhere in the solar system has accumulated over the past decade. Mars is seen by some as a possible source of terrestrial life, but some hundreds of billions of comets that enveloped the entire solar system, are a far more likely primordial reservoir of life. Comets would then have seeded Earth, Mars, and indeed all other habitable planetary bodies in the inner regions of the solar system. The implications of this point of view, which was developed in conjunction with the late Sir Fred Hoyle since the 1970s, are now becoming amenable to direct empirical test by studies of pristine organic material in the stratosphere. The ancient theory of panspermia may be on the verge of vindication, in which case the entire universe would be a grand crucible of cryomicrobiology.

The Universe: a Cryogenic Habitat for Microbial Life

NASA Astrophysics Data System (ADS)

Wickramasinghe, Chandra

Panspermia, an ancient idea, posits that microbial life is ubiquitous in the Universe. After several decades of almost irrational rejection, panspermia is at last coming to be regarded as a serious contender for the beginnings of life on our planet. Astronomical data is shown to be consistent with the widespread distribution of complex organic molecules and dust particles that may have a biological provenance. A minuscule (10-21) survival rate of freeze-dried bacteria in space is all that is needed to ensure the continual recycling of cosmic microbial life in the galaxy. Evidence that terrestrial life may have come from elsewhere in the solar system has accumulated over the past decade. Mars is seen by some as a possible source of terrestrial life, but some hundreds of billions of comets that enveloped the entire solar system, are a far more likely primordial reservoir of life. Comets would then have seeded Earth, Mars, and indeed all other habitable planetary bodies in the inner regions of the solar system. The implications of this point of view, which was developed in conjunction with the late Sir Fred Hoyle since the 1970's, are now becoming amenable to direct empirical test by studies of pristine organic material in the stratosphere. The ancient theory of panspermia may be on the verge of vindication, in which case the entire universe would be a grand crucible of cryomicrobiology.

Can soil microbial diversity influence plant metabolites and life history traits of a rhizophagous insect? A demonstration in oilseed rape.

PubMed

Lachaise, Tom; Ourry, Morgane; Lebreton, Lionel; Guillerm-Erckelboudt, Anne-Yvonne; Linglin, Juliette; Paty, Chrystelle; Chaminade, Valérie; Marnet, Nathalie; Aubert, Julie; Poinsot, Denis; Cortesero, Anne-Marie; Mougel, Christophe

2017-12-01

Interactions between plants and phytophagous insects play an important part in shaping the biochemical composition of plants. Reciprocally plant metabolites can influence major life history traits in these insects and largely contribute to their fitness. Plant rhizospheric microorganisms are an important biotic factor modulating plant metabolites and adaptation to stress. While plant-insects or plant-microorganisms interactions and their consequences on the plant metabolite signature are well-documented, the impact of soil microbial communities on plant defenses against phytophagous insects remains poorly known. In this study, we used oilseed rape (Brassica napus) and the cabbage root fly (Delia radicum) as biological models to tackle this question. Even though D. radicum is a belowground herbivore as a larva, its adult life history traits depend on aboveground signals. We therefore tested whether soil microbial diversity influenced emergence rate and fitness but also fly oviposition behavior, and tried to link possible effects to modifications in leaf and root metabolites. Through a removal-recolonization experiment, 3 soil microbial modalities ("high," "medium," "low") were established and assessed through amplicon sequencing of 16S and 18S ribosomal RNA genes. The "medium" modality in the rhizosphere significantly improved insect development traits. Plant-microorganism interactions were marginally associated to modulations of root metabolites profiles, which could partly explain these results. We highlighted the potential role of plant-microbial interaction in plant defenses against Delia radicum. Rhizospheric microbial communities must be taken into account when analyzing plant defenses against herbivores, being either below or aboveground. © 2017 Institute of Zoology, Chinese Academy of Sciences.

Genome-resolved metaproteomic characterization of preterm infant gut microbiota development reveals species-specific metabolic shifts and variabilities during early life

DOE PAGES

Xiong, Weili; Brown, Christopher T.; Morowitz, Michael J.; ...

2017-07-10

Establishment of the human gut microbiota begins at birth. This early-life microbiota development can impact host physiology during infancy and even across an entire life span. But, the functional stability and population structure of the gut microbiota during initial colonization remain poorly understood. Metaproteomics is an emerging technology for the large-scale characterization of metabolic functions in complex microbial communities (gut microbiota). We applied a metagenome-informed metaproteomic approach to study the temporal and inter-individual differences of metabolic functions during microbial colonization of preterm human infants’ gut. By analyzing 30 individual fecal samples, we identified up to 12,568 protein groups for eachmore » of four infants, including both human and microbial proteins. With genome-resolved matched metagenomics, proteins were confidently identified at the species/strain level. The maximum percentage of the proteome detected for the abundant organisms was ~45%. A time-dependent increase in the relative abundance of microbial versus human proteins suggested increasing microbial colonization during the first few weeks of early life. We observed remarkable variations and temporal shifts in the relative protein abundances of each organism in these preterm gut communities. Given the dissimilarity of the communities, only 81 microbial EggNOG orthologous groups and 57 human proteins were observed across all samples. These conserved microbial proteins were involved in carbohydrate, energy, amino acid and nucleotide metabolism while conserved human proteins were related to immune response and mucosal maturation. We also identified seven proteome clusters for the communities and showed infant gut proteome profiles were unstable across time and not individual-specific. By applying a gut-specific metabolic module (GMM) analysis, we found that gut communities varied primarily in the contribution of nutrient (carbohydrates, lipids, and amino acids) utilization and short-chain fatty acid production. Overall, this study reports species-specific proteome profiles and metabolic functions of human gut microbiota during early colonization. In particular, our work contributes to reveal microbiota-associated shifts and variations in the metabolism of three major nutrient sources and short-chain fatty acid during colonization of preterm infant gut.« less

Genome-resolved metaproteomic characterization of preterm infant gut microbiota development reveals species-specific metabolic shifts and variabilities during early life

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

Xiong, Weili; Brown, Christopher T.; Morowitz, Michael J.

Establishment of the human gut microbiota begins at birth. This early-life microbiota development can impact host physiology during infancy and even across an entire life span. But, the functional stability and population structure of the gut microbiota during initial colonization remain poorly understood. Metaproteomics is an emerging technology for the large-scale characterization of metabolic functions in complex microbial communities (gut microbiota). We applied a metagenome-informed metaproteomic approach to study the temporal and inter-individual differences of metabolic functions during microbial colonization of preterm human infants’ gut. By analyzing 30 individual fecal samples, we identified up to 12,568 protein groups for eachmore » of four infants, including both human and microbial proteins. With genome-resolved matched metagenomics, proteins were confidently identified at the species/strain level. The maximum percentage of the proteome detected for the abundant organisms was ~45%. A time-dependent increase in the relative abundance of microbial versus human proteins suggested increasing microbial colonization during the first few weeks of early life. We observed remarkable variations and temporal shifts in the relative protein abundances of each organism in these preterm gut communities. Given the dissimilarity of the communities, only 81 microbial EggNOG orthologous groups and 57 human proteins were observed across all samples. These conserved microbial proteins were involved in carbohydrate, energy, amino acid and nucleotide metabolism while conserved human proteins were related to immune response and mucosal maturation. We also identified seven proteome clusters for the communities and showed infant gut proteome profiles were unstable across time and not individual-specific. By applying a gut-specific metabolic module (GMM) analysis, we found that gut communities varied primarily in the contribution of nutrient (carbohydrates, lipids, and amino acids) utilization and short-chain fatty acid production. Overall, this study reports species-specific proteome profiles and metabolic functions of human gut microbiota during early colonization. In particular, our work contributes to reveal microbiota-associated shifts and variations in the metabolism of three major nutrient sources and short-chain fatty acid during colonization of preterm infant gut.« less

Genome-resolved metaproteomic characterization of preterm infant gut microbiota development reveals species-specific metabolic shifts and variabilities during early life.

PubMed

Xiong, Weili; Brown, Christopher T; Morowitz, Michael J; Banfield, Jillian F; Hettich, Robert L

2017-07-10

Establishment of the human gut microbiota begins at birth. This early-life microbiota development can impact host physiology during infancy and even across an entire life span. However, the functional stability and population structure of the gut microbiota during initial colonization remain poorly understood. Metaproteomics is an emerging technology for the large-scale characterization of metabolic functions in complex microbial communities (gut microbiota). We applied a metagenome-informed metaproteomic approach to study the temporal and inter-individual differences of metabolic functions during microbial colonization of preterm human infants' gut. By analyzing 30 individual fecal samples, we identified up to 12,568 protein groups for each of four infants, including both human and microbial proteins. With genome-resolved matched metagenomics, proteins were confidently identified at the species/strain level. The maximum percentage of the proteome detected for the abundant organisms was ~45%. A time-dependent increase in the relative abundance of microbial versus human proteins suggested increasing microbial colonization during the first few weeks of early life. We observed remarkable variations and temporal shifts in the relative protein abundances of each organism in these preterm gut communities. Given the dissimilarity of the communities, only 81 microbial EggNOG orthologous groups and 57 human proteins were observed across all samples. These conserved microbial proteins were involved in carbohydrate, energy, amino acid and nucleotide metabolism while conserved human proteins were related to immune response and mucosal maturation. We identified seven proteome clusters for the communities and showed infant gut proteome profiles were unstable across time and not individual-specific. Applying a gut-specific metabolic module (GMM) analysis, we found that gut communities varied primarily in the contribution of nutrient (carbohydrates, lipids, and amino acids) utilization and short-chain fatty acid production. Overall, this study reports species-specific proteome profiles and metabolic functions of human gut microbiota during early colonization. In particular, our work contributes to reveal microbiota-associated shifts and variations in the metabolism of three major nutrient sources and short-chain fatty acid during colonization of preterm infant gut.

Microbial trace fossils in Antarctica and the search for evidence of early life on Mars

NASA Technical Reports Server (NTRS)

Friedmann, E. Imre; Friedmann, Roseli O.

1989-01-01

It is possible to hypothesize that, if microbial life evolved on early Mars, fossil remnants of these organisms may be preserved on the surface. However, the cooling and drying of Mars probably resembled a cold desert and such an environment is not suitable for the process of fossilization. The frigid Ross Desert of Antarctica is probably the closest terrestrial analog to conditions that may have prevailed on the surface of the cooling and drying Mars. In this desert, cryptoendolithic microbial communities live in the airspaces of porous rocks, the last habitable niche in a hostile outside environment. The organisms produce characteristic chemical and physical changes in the rock substrate. Environmental changes (deterioration of conditions) may result in the death of the community. Although no cellular structures are fossilized, the conspicuous changes in the rock substrate are preserved as trace fossils. Likewise, microbial trace fossils (without cellular structures) may also be preserved on Mars: Discontinuities in structure or chemistry of the rock that are independent of physical or chemical gradients may be of biological origin. Ross Desert trace fossils can be used as a model for planning search strategies and for instrument design to find evidence of past Martian life.

Preparation and Application of LDPE/ZnO Nanocomposites for Extending Shelf Life of Fresh Strawberries

PubMed Central

Mohammadizadeh, Mehri

2015-01-01

Summary Strawberries have a very short post-harvest life mostly due to their relatively high water content, intense metabolic activity and susceptibility to microbial rot. Antimicrobial low-density polyethylene nanocomposite films containing ZnO nanoparticles at different mass fractions were prepared by melt mixing and followed by compression moulding using a hot press machine. Fresh strawberries were packed in nanocomposite films and stored at 4 °C. Their microbial stability, ascorbic acid content and titratable acidity were evaluated after 0, 4, 8, 12 and 16 days of storage. Microbial growth rate was significantly reduced up to 16 days as a result of the use of nanocomposite packaging material containing ZnO nanoparticles. By increasing the ZnO nanoparticle mass fraction to 5%, the antimicrobial activity of the film increased. All packages containing the ZnO nanoparticles kept the microbial load of fresh strawberries below the level that affects shelf life (5 log CFU/g) up to 16 days. The lowest degradation of ascorbic acid content (6.55 mg per 100 g), and loss of acidity (0.68%) were observed in packages containing 3% of ZnO nanoparticles with 10% polyethylene-grafted maleic anhydride. PMID:27904384

Preparation and Application of LDPE/ZnO Nanocomposites for Extending Shelf Life of Fresh Strawberries.

PubMed

Emamifar, Aryou; Mohammadizadeh, Mehri

2015-12-01

Strawberries have a very short post-harvest life mostly due to their relatively high water content, intense metabolic activity and susceptibility to microbial rot. Antimicrobial low-density polyethylene nanocomposite films containing ZnO nanoparticles at different mass fractions were prepared by melt mixing and followed by compression moulding using a hot press machine. Fresh strawberries were packed in nanocomposite films and stored at 4 °C. Their microbial stability, ascorbic acid content and titratable acidity were evaluated after 0, 4, 8, 12 and 16 days of storage. Microbial growth rate was significantly reduced up to 16 days as a result of the use of nanocomposite packaging material containing ZnO nanoparticles. By increasing the ZnO nanoparticle mass fraction to 5%, the antimicrobial activity of the film increased. All packages containing the ZnO nanoparticles kept the microbial load of fresh strawberries below the level that affects shelf life (5 log CFU/g) up to 16 days. The lowest degradation of ascorbic acid content (6.55 mg per 100 g), and loss of acidity (0.68%) were observed in packages containing 3% of ZnO nanoparticles with 10% polyethylene-grafted maleic anhydride.

Lava cave microbial communities within mats and secondary mineral deposits: implications for life detection on other planets.

PubMed

Northup, D E; Melim, L A; Spilde, M N; Hathaway, J J M; Garcia, M G; Moya, M; Stone, F D; Boston, P J; Dapkevicius, M L N E; Riquelme, C

2011-09-01

Lava caves contain a wealth of yellow, white, pink, tan, and gold-colored microbial mats; but in addition to these clearly biological mats, there are many secondary mineral deposits that are nonbiological in appearance. Secondary mineral deposits examined include an amorphous copper-silicate deposit (Hawai'i) that is blue-green in color and contains reticulated and fuzzy filament morphologies. In the Azores, lava tubes contain iron-oxide formations, a soft ooze-like coating, and pink hexagons on basaltic glass, while gold-colored deposits are found in lava caves in New Mexico and Hawai'i. A combination of scanning electron microscopy (SEM) and molecular techniques was used to analyze these communities. Molecular analyses of the microbial mats and secondary mineral deposits revealed a community that contains 14 phyla of bacteria across three locations: the Azores, New Mexico, and Hawai'i. Similarities exist between bacterial phyla found in microbial mats and secondary minerals, but marked differences also occur, such as the lack of Actinobacteria in two-thirds of the secondary mineral deposits. The discovery that such deposits contain abundant life can help guide our detection of life on extraterrestrial bodies.

Lessons from Red Data Books: Plant Vulnerability Increases with Floral Complexity

PubMed Central

Stefanaki, Anastasia; Kantsa, Aphrodite; Tscheulin, Thomas; Charitonidou, Martha; Petanidou, Theodora

2015-01-01

The architectural complexity of flower structures (hereafter referred to as floral complexity) may be linked to pollination by specialized pollinators that can increase the probability of successful seed set. As plant—pollinator systems become fragile, a loss of such specialized pollinators could presumably result in an increased likelihood of pollination failure. This is an issue likely to be particularly evident in plants that are currently rare. Using a novel index describing floral complexity we explored whether this aspect of the structure of flowers could be used to predict vulnerability of plant species to extinction. To do this we defined plant vulnerability using the Red Data Book of Rare and Threatened Plants of Greece, a Mediterranean biodiversity hotspot. We also tested whether other intrinsic (e.g. life form, asexual reproduction) or extrinsic (e.g. habitat, altitude, range-restrictedness) factors could affect plant vulnerability. We found that plants with high floral complexity scores were significantly more likely to be vulnerable to extinction. Among all the floral complexity components only floral symmetry was found to have a significant effect, with radial-flower plants appearing to be less vulnerable. Life form was also a predictor of vulnerability, with woody perennial plants having significantly lower risk of extinction. Among the extrinsic factors, both habitat and maximum range were significantly associated with plant vulnerability (coastal plants and narrow-ranged plants are more likely to face higher risk). Although extrinsic and in particular anthropogenic factors determine plant extinction risk, intrinsic traits can indicate a plant’s proneness to vulnerability. This raises the potential threat of declining global pollinator diversity interacting with floral complexity to increase the vulnerability of individual plant species. There is potential scope for using plant—pollinator specializations to identify plant species particularly at risk and so target conservation efforts towards them. PMID:26390402

The Likelihood of Extinction of Iconic and Dominant Herbivores and Detritivores of Coral Reefs: The Parrotfishes and Surgeonfishes

PubMed Central

Comeros-Raynal, Mia T.; Choat, John Howard; Polidoro, Beth A.; Clements, Kendall D.; Abesamis, Rene; Craig, Matthew T.; Lazuardi, Muhammad Erdi; McIlwain, Jennifer; Muljadi, Andreas; Myers, Robert F.; Nañola, Cleto L.; Pardede, Shinta; Rocha, Luiz A.; Russell, Barry; Sanciangco, Jonnell C.; Stockwell, Brian; Harwell, Heather; Carpenter, Kent E.

2012-01-01

Parrotfishes and surgeonfishes perform important functional roles in the dynamics of coral reef systems. This is a consequence of their varied feeding behaviors ranging from targeted consumption of living plant material (primarily surgeonfishes) to feeding on detrital aggregates that are either scraped from the reef surface or excavated from the deeper reef substratum (primarily parrotfishes). Increased fishing pressure and widespread habitat destruction have led to population declines for several species of these two groups. Species-specific data on global distribution, population status, life history characteristics, and major threats were compiled for each of the 179 known species of parrotfishes and surgeonfishes to determine the likelihood of extinction of each species under the Categories and Criteria of the IUCN Red List of Threatened Species. Due in part to the extensive distributions of most species and the life history traits exhibited in these two families, only three (1.7%) of the species are listed at an elevated risk of global extinction. The majority of the parrotfishes and surgeonfishes (86%) are listed as Least Concern, 10% are listed as Data Deficient and 1% are listed as Near Threatened. The risk of localized extinction, however, is higher in some areas, particularly in the Coral Triangle region. The relatively low proportion of species globally listed in threatened Categories is highly encouraging, and some conservation successes are attributed to concentrated conservation efforts. However, with the growing realization of man's profound impact on the planet, conservation actions such as improved marine reserve networks, more stringent fishing regulations, and continued monitoring of the population status at the species and community levels are imperative for the prevention of species loss in these groups of important and iconic coral reef fishes. PMID:22808066

Lessons from Red Data Books: Plant Vulnerability Increases with Floral Complexity.

PubMed

Stefanaki, Anastasia; Kantsa, Aphrodite; Tscheulin, Thomas; Charitonidou, Martha; Petanidou, Theodora

2015-01-01

The architectural complexity of flower structures (hereafter referred to as floral complexity) may be linked to pollination by specialized pollinators that can increase the probability of successful seed set. As plant-pollinator systems become fragile, a loss of such specialized pollinators could presumably result in an increased likelihood of pollination failure. This is an issue likely to be particularly evident in plants that are currently rare. Using a novel index describing floral complexity we explored whether this aspect of the structure of flowers could be used to predict vulnerability of plant species to extinction. To do this we defined plant vulnerability using the Red Data Book of Rare and Threatened Plants of Greece, a Mediterranean biodiversity hotspot. We also tested whether other intrinsic (e.g. life form, asexual reproduction) or extrinsic (e.g. habitat, altitude, range-restrictedness) factors could affect plant vulnerability. We found that plants with high floral complexity scores were significantly more likely to be vulnerable to extinction. Among all the floral complexity components only floral symmetry was found to have a significant effect, with radial-flower plants appearing to be less vulnerable. Life form was also a predictor of vulnerability, with woody perennial plants having significantly lower risk of extinction. Among the extrinsic factors, both habitat and maximum range were significantly associated with plant vulnerability (coastal plants and narrow-ranged plants are more likely to face higher risk). Although extrinsic and in particular anthropogenic factors determine plant extinction risk, intrinsic traits can indicate a plant's proneness to vulnerability. This raises the potential threat of declining global pollinator diversity interacting with floral complexity to increase the vulnerability of individual plant species. There is potential scope for using plant-pollinator specializations to identify plant species particularly at risk and so target conservation efforts towards them.

The likelihood of extinction of iconic and dominant herbivores and detritivores of coral reefs: the parrotfishes and surgeonfishes.

PubMed

Comeros-Raynal, Mia T; Choat, John Howard; Polidoro, Beth A; Clements, Kendall D; Abesamis, Rene; Craig, Matthew T; Lazuardi, Muhammad Erdi; McIlwain, Jennifer; Muljadi, Andreas; Myers, Robert F; Nañola, Cleto L; Pardede, Shinta; Rocha, Luiz A; Russell, Barry; Sanciangco, Jonnell C; Stockwell, Brian; Harwell, Heather; Carpenter, Kent E

2012-01-01

Parrotfishes and surgeonfishes perform important functional roles in the dynamics of coral reef systems. This is a consequence of their varied feeding behaviors ranging from targeted consumption of living plant material (primarily surgeonfishes) to feeding on detrital aggregates that are either scraped from the reef surface or excavated from the deeper reef substratum (primarily parrotfishes). Increased fishing pressure and widespread habitat destruction have led to population declines for several species of these two groups. Species-specific data on global distribution, population status, life history characteristics, and major threats were compiled for each of the 179 known species of parrotfishes and surgeonfishes to determine the likelihood of extinction of each species under the Categories and Criteria of the IUCN Red List of Threatened Species. Due in part to the extensive distributions of most species and the life history traits exhibited in these two families, only three (1.7%) of the species are listed at an elevated risk of global extinction. The majority of the parrotfishes and surgeonfishes (86%) are listed as Least Concern, 10% are listed as Data Deficient and 1% are listed as Near Threatened. The risk of localized extinction, however, is higher in some areas, particularly in the Coral Triangle region. The relatively low proportion of species globally listed in threatened Categories is highly encouraging, and some conservation successes are attributed to concentrated conservation efforts. However, with the growing realization of man's profound impact on the planet, conservation actions such as improved marine reserve networks, more stringent fishing regulations, and continued monitoring of the population status at the species and community levels are imperative for the prevention of species loss in these groups of important and iconic coral reef fishes.

Detecting Molecular Signatures of Life on Mars: the Life Marker Chip (lmc) Instrument

NASA Astrophysics Data System (ADS)

Derveni, Mariliza

In recent years, the rise of interest in planetary exploration and the emergence of Astrobiology as a promising field of research have lead to a number of programmes aiming to develop sensitive instruments for the detection of the molecular signatures of life in extreme environments. An antibody assay-based life detection instrument, the Life Marker Chip (LMC), is currently under development by a UK-lead international consortium for the European Space Agency's (ESA) ExoMars rover. This forms part of the joint ESA/NASA Mars exploration programme with the ExoMars Rover currently scheduled for launch in 2018. The organic molecules targeted for Life detection by the LMC are based on an assumption of "Earth-like" Life on Mars -extinct and/or extant. The molecular targets for the LMC have been chosen to represent markers of extinct Life, extant Life, abiotic chemistry (e.g. of meteoritic origin) and mission-borne Earth contamination. The LMC incorporates integrated liquid sample extraction and processing for dry Martian samples, which will be collected from up to 2m below the surface of Mars, where organic molecules, if present, are expected to be better preserved. The core technology of the LMC is a combination of optical evanescent waveguides, micro-fluidics, immuno-microarrays with fluorescent labels and CCD detector readout. Phage display recombinant antibody technology has been employed in order to acquire antibodies against a number of the LMC target molecules. The LMC hardware is currently in a breadboard phase of development. The recombinant antibody development for LMC targets is an on-going project, and testing of Earth-analogue Martian samples has been initiated

Counting the DEAD: Did the Dinosaurs and Their Contemporaries Die Out with a Bang or a Whimper?

ERIC Educational Resources Information Center

Monastersky, Richard

1992-01-01

Researchers who study the fossil record are seeking to determine whether the impact made by a comet or meteor really did decimate up to half of the life on this planet at the end of the Cretaceous period. Questions whether the extinction of plant and animal life was abrupt, started before the impact, or was a gradual change. (KR)

Effect of gamma irradiation and storage time on microbial growth and physicochemical characteristics of pumpkin (Cucurbita Moschata Duchesne ex Poiret) puree.

PubMed

Gliemmo, María F; Latorre, María E; Narvaiz, Patricia; Campos, Carmen A; Gerschenson, Lía N

2014-01-01

The effect of gamma irradiation (0-2 kGy) and storage time (0-28 days) on microbial growth and physicochemical characteristics of a packed pumpkin puree was studied. For that purpose, a factorial design was applied. The puree contained potassium sorbate, glucose and vanillin was stored at 25°C . Gamma irradiation diminished and storage time increased microbial growth. A synergistic effect between both variables on microbial growth was observed. Storage time decreased pH and color of purees. Sorbate content decreased with storage time and gamma irradiation. Mathematical models of microbial growth generated by the factorial design allowed estimating that a puree absorbing 1.63 kGy would have a shelf-life of 4 days. In order to improve this time, some changes in the applied hurdles were assayed. These included a thermal treatment before irradiation, a reduction of irradiation dose to 0.75 kGy and a decrease in storage temperature at 20°C . As a result, the shelf-life of purees increased to 28 days.

Microbial biofilm formation and its consequences for the CELSS program

NASA Technical Reports Server (NTRS)

Mitchell, R.

1994-01-01

A major goal of the Controlled Ecology Life Support System (CELSS) program is to provide reliable and efficient life support systems for long-duration space flights. A principal focus of the program is on the growth of higher plants in growth chambers. These crops should be grown without the risk of damage from microbial contamination. While it is unlikely that plant pathogens will pose a risk, there are serious hazards associated with microorganisms carried in the nutrient delivery systems and in the atmosphere of the growth chamber. Our experience in surface microbiology showed that colonization of surfaces with microorganisms is extremely rapid even when the inoculum is small. After initial colonization extensive biofilms accumulate on moist surfaces. These microbial films metabolize actively and slough off continuously to the air and water. During plant growth in the CELSS program, microbial biofilms have the potential to foul sensors and to plug nutrient delivery systems. In addition both metabolic products of microbial growth and degradation products of materials being considered for use as nutrient reservoirs and for delivery are likely sources of chemicals known to adversly affect plant growth.

Recent Advances in the Recombinant Biosynthesis of Polyphenols

PubMed Central

Chouhan, Sonam; Sharma, Kanika; Zha, Jian; Guleria, Sanjay; Koffas, Mattheos A. G.

2017-01-01

Plants are the source of various natural compounds with pharmaceutical and nutraceutical importance which have shown numerous health benefits with relatively fewer side effects. However, extraction of these compounds from native producers cannot meet the ever-increasing demands of the growing population due to, among other things, the limited production of the active compound(s). Their production depends upon the metabolic demands of the plant and is also subjected to environmental conditions, abundance of crop species and seasonal variations. Moreover, their extraction from plants requires complex downstream processing and can also lead to the extinction of many useful plant varieties. Microbial engineering is one of the alternative approaches which can meet the global demand for natural products in an eco-friendly manner. Metabolic engineering of microbes or pathway reconstruction using synthetic biology tools and novel enzymes lead to the generation of a diversity of compounds (like flavonoids, stilbenes, anthocyanins etc.) and their natural and non-natural derivatives. Strain and pathway optimization, pathway regulation and tolerance engineering have produced microbial cell factories into which the metabolic pathway of plants can be introduced for the production of compounds of interest on an industrial scale in an economical and eco-friendly way. While microbial production of phytochemicals needs to further increase product titer if it is ever to become a commercial success. The present review covers the advancements made for the improvement of microbial cell factories in order to increase the product titer of recombinant polyphenolic compounds. PMID:29201020

The Modern Synthesis in the Light of Microbial Genomics.

PubMed

Booth, Austin; Mariscal, Carlos; Doolittle, W Ford

2016-09-08

We review the theoretical implications of findings in genomics for evolutionary biology since the Modern Synthesis. We examine the ways in which microbial genomics has influenced our understanding of the last universal common ancestor, the tree of life, species, lineages, and evolutionary transitions. We conclude by advocating a piecemeal toolkit approach to evolutionary biology, in lieu of any grand unified theory updated to include microbial genomics.

The dark side of the mushroom spring microbial mat: Life in the shadow of chlorophototrophs. I. Microbial diversity based on 16S rRNA gene amplicons and metagenomics

USDA-ARS?s Scientific Manuscript database

Microbial-mat communities in the effluent channels of Octopus and Mushroom Springs within the Lower Geyser Basin at Yellowstone National Park have been studied for nearly 50 years. The emphasis has mostly focused on the chlorophototrophic bacterial organisms of the phyla Cyanobacteria and Chloroflex...

Microbial Life in the Deep Subsurface: Deep, Hot and Radioactive

NASA Technical Reports Server (NTRS)

DeStefano, Andrea L.; Ford, Jill C.; Winsor, Seana K.; Allen, Carlton C.; Miller, Judith; McNamara, Karen M.; Gibson, Everett K., Jr.

2000-01-01

Recent studies, motivated in part by the search for extraterrestrial life, continue to expand the recognized limits of Earth's biosphere. This work explored evidence for life a high-temperature, radioactive environment in the deep subsurface.

Microbial Life in Soil - Linking Biophysical Models with Observations

NASA Astrophysics Data System (ADS)

Or, Dani; Tecon, Robin; Ebrahimi, Ali; Kleyer, Hannah; Ilie, Olga; Wang, Gang

2015-04-01

Microbial life in soil occurs within fragmented aquatic habitats formed in complex pore spaces where motility is restricted to short hydration windows (e.g., following rainfall). The limited range of self-dispersion and physical confinement promote spatial association among trophically interdepended microbial species. Competition and preferences for different nutrient resources and byproducts and their diffusion require high level of spatial organization to sustain the functioning of multispecies communities. We report mechanistic modeling studies of competing multispecies microbial communities grown on hydrated surfaces and within artificial soil aggregates (represented by 3-D pore network). Results show how trophic dependencies and cell-level interactions within patchy diffusion fields promote spatial self-organization of motile microbial cells. The spontaneously forming patterns of segregated, yet coexisting species were robust to spatial heterogeneities and to temporal perturbations (hydration dynamics), and respond primarily to the type of trophic dependencies. Such spatially self-organized consortia may reflect ecological templates that optimize substrate utilization and could form the basic architecture for more permanent surface-attached microbial colonies. Hydration dynamics affect structure and spatial arrangement of aerobic and anaerobic microbial communities and their biogeochemical functions. Experiments with well-characterized artificial soil microbial assemblies grown on porous surfaces provide access to community dynamics during wetting and drying cycles detected through genetic fingerprinting. Experiments for visual observations of spatial associations of tagged bacterial species with known trophic dependencies on model porous surfaces are underway. Biophysical modeling provide a means for predicting hydration-mediated critical separation distances for activation of spatial self-organization. The study provides new modeling and observational tools that enable new mechanistic insights into how differences in substrate affinities among microbial species and soil micro-hydrological conditions may give rise to a remarkable spatial and functional order in an extremely heterogeneous soil microbial world

Microbial Life in Soil - Linking Biophysical Models with Observations

NASA Astrophysics Data System (ADS)

Or, D.; Tecon, R.; Ebrahimi, A.; Kleyer, H.; Ilie, O.; Wang, G.

2014-12-01

Microbial life in soil occurs within fragmented aquatic habitats in complex pore spaces where motility is restricted to short hydration windows (e.g., following rainfall). The limited range of self-dispersion and physical confinement promote spatial association among trophically interdepended microbial species. Competition and preferences for different nutrient resources and byproducts and their diffusion require high level of spatial organization to sustain the functioning of multispecies communities. We report mechanistic modeling studies of competing multispecies microbial communities grown on hydrated surfaces and within artificial soil aggregates (represented by 3-D pore network). Results show how trophic dependencies and cell-level interactions within patchy diffusion fields promote spatial self-organization of motile microbial cells. The spontaneously forming patterns of segregated, yet coexisting species were robust to spatial heterogeneities and to temporal perturbations (hydration dynamics), and respond primarily to the type of trophic dependencies. Such spatially self-organized consortia may reflect ecological templates that optimize substrate utilization and could form the basic architecture for more permanent surface-attached microbial colonies. Hydration dynamics affect structure and spatial arrangement of aerobic and anaerobic microbial communities and their biogeochemical functions. Experiments with well-characterized artificial soil microbial assemblies grown on porous surfaces provide access to community dynamics during wetting and drying cycles detected through genetic fingerprinting. Experiments for visual observations of spatial associations of tagged bacterial species with known trophic dependencies on model porous surfaces are underway. Biophysical modeling provide a means for predicting hydration-mediated critical separation distances for activation of spatial self-organization. The study provides new modeling and observational tools that enable new mechanistic insights into how differences in substrate affinities among microbial species and soil micro-hydrological conditions may give rise to a remarkable spatial and functional order in an extremely heterogeneous soil microbial world.

Having older siblings is associated with gut microbiota development during early childhood.

PubMed

Laursen, Martin Frederik; Zachariassen, Gitte; Bahl, Martin Iain; Bergström, Anders; Høst, Arne; Michaelsen, Kim F; Licht, Tine Rask

2015-08-01

Evidence suggests that early life infections, presence of older siblings and furred pets in the household affect the risk of developing allergic diseases through altered microbial exposure. Recently, low gut microbial diversity during infancy has also been linked with later development of allergies. We investigated whether presence of older siblings, furred pets and early life infections affected gut microbial communities at 9 and 18 months of age and whether these differences were associated with the cumulative prevalence of atopic symptoms of eczema and asthmatic bronchitis at 3 years of age. Bacterial compositions and diversity indices were determined in fecal samples collected from 114 infants in the SKOT I cohort at age 9 and 18 months by 16S rRNA gene sequencing. These were compared to the presence of older siblings, furred pets and early life infections and the cumulative prevalence of diagnosed asthmatic bronchitis and self-reported eczema at 3 years of age. The number of older siblings correlated positively with bacterial diversity (p = 0.030), diversity of the phyla Firmicutes (p = 0.013) and Bacteroidetes (p = 0.004) and bacterial richness (p = 0.006) at 18 months. Further, having older siblings was associated with increased relative abundance of several bacterial taxa at both 9 and 18 months of age. Compared to the effect of having siblings, presence of household furred pets and early life infections had less pronounced effects on the gut microbiota. Gut microbiota characteristics were not significantly associated with cumulative occurrence of eczema and asthmatic bronchitis during the first 3 years of life. Presence of older siblings is associated with increased gut microbial diversity and richness during early childhood, which could contribute to the substantiation of the hygiene hypothesis. However, no associations were found between gut microbiota and atopic symptoms of eczema and asthmatic bronchitis during early childhood and thus further studies are required to elucidate whether sibling-associated gut microbial changes influence development of allergies later in childhood.

Biofilm on the tracheoesophageal voice prosthesis: considerations for oral decontamination.

PubMed

Somogyi-Ganss, Eszter; Chambers, Mark S; Lewin, Jan S; Tarrand, Jeffrey J; Hutcheson, Katherine A

2017-01-01

The tracheoesophageal puncture (TEP) restores verbal communication after total laryngectomy using a one-way valved voice prosthesis (VP). Microbial colonization can shorten VP device life. Our aims were to investigate patterns of prosthetic and oral colonization, and record changes in VP device life after targeted decontamination. We conducted a retrospective review of TEP clinic patients who underwent microbial analysis of the VP between 01/2003 and 07/2013. Two subgroups were analyzed: (1) patients with microbial analysis of the VP and the mouth were analyzed to identify patterns of common contamination, and (2) patients who were prescribed targeted oral decontamination on the basis of the microbial analysis of the VP were analyzed to evaluate effects on device life. Among 42 patients, 3 patients had only fungal, 5 only bacterial, and 33 had polyspecies fungal and bacterial colonization. In the TEP-oral microflora subgroup (n = 15), 7 had common microorganisms in the mouth and on the VP. Among the decontamination subgroup (n = 23), 6 patients received broad spectrum rinse, 16 antifungal agents and 13 antibiotics, or a combination thereof. After targeted decontamination, the median device life of prostheses improved from 7.89 to 10.82 weeks (p = 0.260). The majority of patients with a suboptimal VP device life in this pilot had polyspecies bacterial and fungal colonization. VPs rarely had fungal contamination alone (3 %), and non-albicans fungal species were more common than expected. For these reasons, we are exploring the use of targeted decontamination regimens that were associated with 1.4-fold improvement in VP duration.

Microbial exposure in infancy and subsequent appearance of type 1 diabetes mellitus-associated autoantibodies: a cohort study.

PubMed

Virtanen, Suvi M; Takkinen, Hanna-Mari; Nwaru, Bright I; Kaila, Minna; Ahonen, Suvi; Nevalainen, Jaakko; Niinistö, Sari; Siljander, Heli; Simell, Olli; Ilonen, Jorma; Hyöty, Heikki; Veijola, Riitta; Knip, Mikael

2014-08-01

The role of microbial exposure during early life in the development of type 1 diabetes mellitus is unclear. To investigate whether animal contact and other microbial exposures during infancy are associated with the development of preclinical and clinical type 1 diabetes. A birth cohort of children with HLA antigen-DQB1-conferred susceptibility to type 1 diabetes was examined. Participants included 3143 consecutively born children at 2 hospitals in Finland between 1996 and 2004. The following exposures during the first year of life were assessed: indoor and outdoor dogs and cats, farm animals, farming, visit to a stable, day care, and exposure to antibiotics during the first week of life. Clinical and preclinical type 1 diabetes were used as outcomes. The latter was defined as repeated positivity for islet-cell antibodies plus for at least 1 of 3 other diabetes-associated autoantibodies analyzed and/or clinical type 1 diabetes. The autoantibodies were analyzed at 3- to 12-month intervals since the birth of the child. Children exposed to an indoor dog, compared with otherwise similar children without an indoor dog exposure, had a reduced odds of developing preclinical type 1 diabetes (adjusted odds ratio [OR], 0.47; 95% CI, 0.28-0.80; P = .005) and clinical type 1 diabetes (adjusted OR, 0.40; 95% CI, 0.14-1.14; P = .08). All of the other microbial exposures studied were not associated with preclinical or clinical diabetes: the odds ratios ranged from 0.74 to 1.58. Among the 9 early microbial exposures studied, only the indoor dog exposure during the first year of life was inversely associated with the development of preclinical type 1 diabetes. This finding needs to be confirmed in other populations.

Immune indexes of larks from desert and temperate regions show weak associations with life history but stronger links to environmental variation in microbial abundance.

PubMed

Horrocks, Nicholas P C; Hegemann, Arne; Matson, Kevin D; Hine, Kathryn; Jaquier, Sophie; Shobrak, Mohammed; Williams, Joseph B; Tinbergen, Joost M; Tieleman, B Irene

2012-01-01

Immune defense may vary as a result of trade-offs with other life-history traits or in parallel with variation in antigen levels in the environment. We studied lark species (Alaudidae) in the Arabian Desert and temperate Netherlands to test opposing predictions from these two hypotheses. Based on their slower pace of life, the trade-off hypothesis predicts relatively stronger immune defenses in desert larks compared with temperate larks. However, as predicted by the antigen exposure hypothesis, reduced microbial abundances in deserts should result in desert-living larks having relatively weaker immune defenses. We quantified host-independent and host-dependent microbial abundances of culturable microbes in ambient air and from the surfaces of birds. We measured components of immunity by quantifying concentrations of the acute-phase protein haptoglobin, natural antibody-mediated agglutination titers, complement-mediated lysis titers, and the microbicidal ability of whole blood. Desert-living larks were exposed to significantly lower concentrations of airborne microbes than temperate larks, and densities of some bird-associated microbes were also lower in desert species. Haptoglobin concentrations and lysis titers were also significantly lower in desert-living larks, but other immune indexes did not differ. Thus, contrary to the trade-off hypothesis, we found little evidence that a slow pace of life predicted increased immunological investment. In contrast, and in support of the antigen exposure hypothesis, associations between microbial exposure and some immune indexes were apparent. Measures of antigen exposure, including assessment of host-independent and host-dependent microbial assemblages, can provide novel insights into the mechanisms underlying immunological variation.

Imperfect asymmetry of life: earth microbial communities prefer D-lactate but can use L-lactate also.

PubMed

Moazeni, Faegheh; Zhang, Gaosen; Sun, Henry J

2010-05-01

Asymmetrical utilization of chiral compounds has been sought on Mars as evidence for biological activity. This method was recently validated in glucose. Earth organisms utilize D-glucose, not L-glucose, a perfect asymmetry. In this study, we tested the method in lactate and found utilization of both enantiomers. Soil-, sediment-, and lake-borne microbial communities prefer D-lactate but can consume L-lactate if given extra time to acclimate. This situation is termed imperfect asymmetry. Future life-detection mission investigators need to be aware of imperfect asymmetry so as not to miss relatively subtle signs of life.

Subsurface microbial habitats on Mars

NASA Technical Reports Server (NTRS)

Boston, P. J.; Mckay, C. P.

1991-01-01

We developed scenarios for shallow and deep subsurface cryptic niches for microbial life on Mars. Such habitats could have considerably prolonged the persistence of life on Mars as surface conditions became increasingly inhospitable. The scenarios rely on geothermal hot spots existing below the near or deep subsurface of Mars. Recent advances in the comparatively new field of deep subsurface microbiology have revealed previously unsuspected rich aerobic and anaerobic microbal communities far below the surface of the Earth. Such habitats, protected from the grim surface conditions on Mars, could receive warmth from below and maintain water in its liquid state. In addition, geothermally or volcanically reduced gases percolating from below through a microbiologically active zone could provide the reducing power needed for a closed or semi-closed microbial ecosystem to thrive.

The ecology and biogeochemistry of stream biofilms.

PubMed

Battin, Tom J; Besemer, Katharina; Bengtsson, Mia M; Romani, Anna M; Packmann, Aaron I

2016-04-01

Streams and rivers form dense networks, shape the Earth's surface and, in their sediments, provide an immensely large surface area for microbial growth. Biofilms dominate microbial life in streams and rivers, drive crucial ecosystem processes and contribute substantially to global biogeochemical fluxes. In turn, water flow and related deliveries of nutrients and organic matter to biofilms constitute major constraints on microbial life. In this Review, we describe the ecology and biogeochemistry of stream biofilms and highlight the influence of physical and ecological processes on their structure and function. Recent advances in the study of biofilm ecology may pave the way towards a mechanistic understanding of the effects of climate and environmental change on stream biofilms and the biogeochemistry of stream ecosystems.

Man and his spaceships

PubMed Central

Siefert, Janet L.

2012-01-01

The resiliency and adaptive ability of microbial life in real time on Earth relies heavily upon horizontal gene transfer. Based on that knowledge, how likely is earth based microbial life to colonize extraterrestrial targets such as Mars? To address this question, we consider manned and unmanned space exploration, the resident microbiota that is likely to inhabit those vehicles, the adaptive potential of that microbiota in an extraterrestrial setting especially with regards to mobile genetic elements, and the likelihood that Mars like environments could initiate and sustain colonization. PMID:23481263

Man and his spaceships: Vehicles for extraterrestrial colonization?

PubMed

Siefert, Janet L

2012-11-01

The resiliency and adaptive ability of microbial life in real time on Earth relies heavily upon horizontal gene transfer. Based on that knowledge, how likely is earth based microbial life to colonize extraterrestrial targets such as Mars? To address this question, we consider manned and unmanned space exploration, the resident microbiota that is likely to inhabit those vehicles, the adaptive potential of that microbiota in an extraterrestrial setting especially with regards to mobile genetic elements, and the likelihood that Mars like environments could initiate and sustain colonization.

Extremes of Survival Achieved by the Radiophile Deinococcus Radiodurans: A Model for Microbial Life on Mars

NASA Technical Reports Server (NTRS)

Daly, M.; Sridhar, R.; Richmond, R.

1999-01-01

Deinococcus radiodurans is an extremophile in more than one defined way. First it is extreme in its resistance to freeze drying. Second it is probably uniquely extreme on Earth in its resistance to ionizing radiation. The polyextremophilic capacity of D. radiodurans will be considered. The selection pressures on Mars will then be considered in relation to D. radiodurans in order to support a hypothesis that if microbial life exists on Mars, then it likely includes polyextremophiles.

A methodology for a quantitative interpretation of DGGE with the help of mathematical modelling: application in biohydrogen production.

PubMed

Tapia, Estela; Donoso-Bravo, Andres; Cabrol, Léa; Alves, Madalena; Pereira, Alcina; Rapaport, Alain; Ruiz-Filippi, Gonzalo

2014-01-01

Molecular biology techniques provide valuable insights in the investigation of microbial dynamics and evolution. Denaturing gradient gel electrophoresis (DGGE) analysis is one of the most popular methods which have been used in bioprocess assessment. Most of the anaerobic digestion models consider several microbial populations as state variables. However, the difficulty of measuring individual species concentrations may cause inaccurate model predictions. The integration of microbial data and ecosystem modelling is currently a challenging issue for improved system control. A novel procedure that combines common experimental measurements, DGGE, and image analysis is presented in this study in order to provide a preliminary estimation of the actual concentration of the dominant bacterial ribotypes in a bioreactor, for further use as a variable in mathematical modelling of the bioprocess. This approach was applied during the start-up of a continuous anaerobic bioreactor for hydrogen production. The experimental concentration data were used for determining the kinetic parameters of each species, by using a multi-species chemostat-model. The model was able to reproduce the global trend of substrate and biomass concentrations during the reactor start-up, and predicted in an acceptable way the evolution of each ribotype concentration, depicting properly specific ribotype selection and extinction.

Microbial communities inhabiting hypersaline microbial mats from the Abu Dhabi sabkha

NASA Astrophysics Data System (ADS)

Andrade, Luiza; Dutton, Kirsten; Paul, Andreas; van der Land, Cees; Sherry, Angela; Lokier, Stephen; Head, Ian

2017-04-01

Microbial mats are organo-sedimentary structures that are typically found in areas with extreme environmental conditions. Since these ecosystems are considered to be representative of the oldest forms of life on Earth, the study of microbial mats can inform our understanding of the development of life early in the history of our planet. In this study, we used hypersaline microbial mats from the Abu Dhabi sabkha (coastal salt flats). Cores of microbial mats (ca. 90 mm depth) were collected within an intertidal region. The cores were sliced into layers 2-3 mm thick and genomic DNA was extracted from each layer. A fragment of the 16S rRNA encoding gene was amplified in all DNA extracts, using barcoded primers, and the amplicons sequenced with the Ion Torrent platform to investigate the composition of the microbial communities down the depth of the cores. Preliminary results revealed a high proportion of Archaea (15.5-40.8% abundance) in all layers, with Halobacteria appearing to be more significant in the first 40 mm (0.4-10.3% of the total microbial community). Members of the Deltaproteobacteria were dominant in almost all layers of the microbial mat (≤ 48.6% relative abundance); however this dominance was not reflected in the first 8 mm, where the abundance was less than 2%. Chloroflexi and Anaerolinea, representing 93% of bacterial abundance, dominated the first 8 mm depth and decreased at greater depth (≤ 3% relative abundance). Cyanobacteria were found only in the top 10 mm, with unexpected low abundance (≤ 3% of the total number of reads). These results show a vertical zonation of microbial communities and processes in the microbial mats. Further analyses are underway to investigate if these patterns are repeated at other sites along a transect of the sabkha, and to relate the microbial composition to the physical-chemical conditions of the sites.

Microbial Dark Matter Investigations: How Microbial Studies Transform Biological Knowledge and Empirically Sketch a Logic of Scientific Discovery

PubMed Central

Bernard, Guillaume; Pathmanathan, Jananan S; Lannes, Romain; Lopez, Philippe; Bapteste, Eric

2018-01-01

Abstract Microbes are the oldest and most widespread, phylogenetically and metabolically diverse life forms on Earth. However, they have been discovered only 334 years ago, and their diversity started to become seriously investigated even later. For these reasons, microbial studies that unveil novel microbial lineages and processes affecting or involving microbes deeply (and repeatedly) transform knowledge in biology. Considering the quantitative prevalence of taxonomically and functionally unassigned sequences in environmental genomics data sets, and that of uncultured microbes on the planet, we propose that unraveling the microbial dark matter should be identified as a central priority for biologists. Based on former empirical findings of microbial studies, we sketch a logic of discovery with the potential to further highlight the microbial unknowns. PMID:29420719

Evolution Under Environmental Stress at Macro- and Microscales

PubMed Central

Nevo, Eviatar

2011-01-01

Environmental stress has played a major role in the evolution of living organisms (Hoffman AA, Parsons PA. 1991. Evolutionary genetics and environmental stress. Oxford: Oxford University Press; Parsons PA. 2005. Environments and evolution: interactions between stress, resource inadequacy, and energetic efficiency. Biol Rev Camb Philos Soc. 80:589–610). This is reflected by the massive and background extinctions in evolutionary time (Nevo E. 1995a. Evolution and extinction. Encyclopedia of Environmental Biology. New York: Academic Press, Inc. 1:717–745). The interaction between organism and environment is central in evolution. Extinction ensues when organisms fail to change and adapt to the constantly altering abiotic and biotic stressful environmental changes as documented in the fossil record. Extreme environmental stress causes extinction but also leads to evolutionary change and the origination of new species adapted to new environments. I will discuss a few of these global, regional, and local stresses based primarily on my own research programs. These examples will include the 1) global regional and local experiment of subterranean mammals; 2) regional experiment of fungal life in the Dead Sea; 3) evolution of wild cereals; 4) “Evolution Canyon”; 5) human brain evolution, and 6) global warming. PMID:21979157

Evolution under environmental stress at macro- and microscales.

PubMed

Nevo, Eviatar

2011-01-01

Environmental stress has played a major role in the evolution of living organisms (Hoffman AA, Parsons PA. 1991. Evolutionary genetics and environmental stress. Oxford: Oxford University Press; Parsons PA. 2005. Environments and evolution: interactions between stress, resource inadequacy, and energetic efficiency. Biol Rev Camb Philos Soc. 80:589-610). This is reflected by the massive and background extinctions in evolutionary time (Nevo E. 1995a. Evolution and extinction. Encyclopedia of Environmental Biology. New York: Academic Press, Inc. 1:717-745). The interaction between organism and environment is central in evolution. Extinction ensues when organisms fail to change and adapt to the constantly altering abiotic and biotic stressful environmental changes as documented in the fossil record. Extreme environmental stress causes extinction but also leads to evolutionary change and the origination of new species adapted to new environments. I will discuss a few of these global, regional, and local stresses based primarily on my own research programs. These examples will include the 1) global regional and local experiment of subterranean mammals; 2) regional experiment of fungal life in the Dead Sea; 3) evolution of wild cereals; 4) "Evolution Canyon"; 5) human brain evolution, and 6) global warming.

Life and extinction of megafauna in the ice-age Arctic

PubMed Central

Mann, Daniel H.; Groves, Pamela; Reanier, Richard E.; Gaglioti, Benjamin V.; Kunz, Michael L.; Shapiro, Beth

2015-01-01

Understanding the population dynamics of megafauna that inhabited the mammoth steppe provides insights into the causes of extinctions during both the terminal Pleistocene and today. Our study area is Alaska's North Slope, a place where humans were rare when these extinctions occurred. After developing a statistical approach to remove the age artifacts caused by radiocarbon calibration from a large series of dated megafaunal bones, we compare the temporal patterns of bone abundance with climate records. Megafaunal abundance tracked ice age climate, peaking during transitions from cold to warm periods. These results suggest that a defining characteristic of the mammoth steppe was its temporal instability and imply that regional extinctions followed by population reestablishment from distant refugia were characteristic features of ice-age biogeography at high latitudes. It follows that long-distance dispersal was crucial for the long-term persistence of megafaunal species living in the Arctic. Such dispersal was only possible when their rapidly shifting range lands were geographically interconnected. The end of the last ice age was fatally unique because the geographic ranges of arctic megafauna became permanently fragmented after stable, interglacial climate engendered the spread of peatlands at the same time that rising sea level severed former dispersal routes. PMID:26578776

Provincialization of terrestrial faunas following the end-Permian mass extinction.

PubMed

Sidor, Christian A; Vilhena, Daril A; Angielczyk, Kenneth D; Huttenlocker, Adam K; Nesbitt, Sterling J; Peecook, Brandon R; Steyer, J Sébastien; Smith, Roger M H; Tsuji, Linda A

2013-05-14

In addition to their devastating effects on global biodiversity, mass extinctions have had a long-term influence on the history of life by eliminating dominant lineages that suppressed ecological change. Here, we test whether the end-Permian mass extinction (252.3 Ma) affected the distribution of tetrapod faunas within the southern hemisphere and apply quantitative methods to analyze four components of biogeographic structure: connectedness, clustering, range size, and endemism. For all four components, we detected increased provincialism between our Permian and Triassic datasets. In southern Pangea, a more homogeneous and broadly distributed fauna in the Late Permian (Wuchiapingian, ∼257 Ma) was replaced by a provincial and biogeographically fragmented fauna by Middle Triassic times (Anisian, ∼242 Ma). Importantly in the Triassic, lower latitude basins in Tanzania and Zambia included dinosaur predecessors and other archosaurs unknown elsewhere. The recognition of heterogeneous tetrapod communities in the Triassic implies that the end-Permian mass extinction afforded ecologically marginalized lineages the ecospace to diversify, and that biotic controls (i.e., evolutionary incumbency) were fundamentally reset. Archosaurs, which began diversifying in the Early Triassic, were likely beneficiaries of this ecological release and remained dominant for much of the later Mesozoic.

Provincialization of terrestrial faunas following the end-Permian mass extinction

PubMed Central

Sidor, Christian A.; Vilhena, Daril A.; Angielczyk, Kenneth D.; Huttenlocker, Adam K.; Nesbitt, Sterling J.; Peecook, Brandon R.; Steyer, J. Sébastien; Smith, Roger M. H.; Tsuji, Linda A.

2013-01-01

In addition to their devastating effects on global biodiversity, mass extinctions have had a long-term influence on the history of life by eliminating dominant lineages that suppressed ecological change. Here, we test whether the end-Permian mass extinction (252.3 Ma) affected the distribution of tetrapod faunas within the southern hemisphere and apply quantitative methods to analyze four components of biogeographic structure: connectedness, clustering, range size, and endemism. For all four components, we detected increased provincialism between our Permian and Triassic datasets. In southern Pangea, a more homogeneous and broadly distributed fauna in the Late Permian (Wuchiapingian, ∼257 Ma) was replaced by a provincial and biogeographically fragmented fauna by Middle Triassic times (Anisian, ∼242 Ma). Importantly in the Triassic, lower latitude basins in Tanzania and Zambia included dinosaur predecessors and other archosaurs unknown elsewhere. The recognition of heterogeneous tetrapod communities in the Triassic implies that the end-Permian mass extinction afforded ecologically marginalized lineages the ecospace to diversify, and that biotic controls (i.e., evolutionary incumbency) were fundamentally reset. Archosaurs, which began diversifying in the Early Triassic, were likely beneficiaries of this ecological release and remained dominant for much of the later Mesozoic. PMID:23630295

Postnatal Day 2 to 11 Constitutes a 5-HT-Sensitive Period Impacting Adult mPFC Function

PubMed Central

Rebello, Tahilia J.; Yu, Qinghui; Goodfellow, Nathalie M.; Caffrey Cagliostro, Martha K.; Teissier, Anne; Morelli, Emanuela; Demireva, Elena Y.; Chemiakine, Alexei; Rosoklija, Gorazd B.; Dwork, Andrew J.; Lambe, Evelyn K.; Ansorge, Mark S.

2014-01-01

Early-life serotonin [5-hydroxytryptamine (5-HT)] signaling modulates brain development, which impacts adult behavior, but 5-HT-sensitive periods, neural substrates, and behavioral consequences remain poorly understood. Here we identify the period ranging from postnatal day 2 (P2) to P11 as 5-HT sensitive, with 5-HT transporter (5-HTT) blockade increasing anxiety- and depression-like behavior, and impairing fear extinction learning and memory in adult mice. Concomitantly, P2–P11 5-HTT blockade causes dendritic hypotrophy and reduced excitability of infralimbic (IL) cortex pyramidal neurons that normally promote fear extinction. By contrast, the neighboring prelimbic (PL) pyramidal neurons, which normally inhibit fear extinction, become more excitable. Excitotoxic IL but not PL lesions in adult control mice reproduce the anxiety-related phenotypes. These findings suggest that increased 5-HT signaling during P2–P11 alters adult mPFC function to increase anxiety and impair fear extinction, and imply a differential role for IL and PL neurons in regulating affective behaviors. Together, our results support a developmental mechanism for the etiology and pathophysiology of affective disorders and fear-related behaviors. PMID:25209278

Following a New Path Along the Search for Life in the Solar System

NASA Astrophysics Data System (ADS)

Colonna, Thomas E.; Thomas, Desencia E.

2000-05-01

Imagined by several generations of science fiction authors as smooth-talking aliens envious of our blue-water world, extraterrestrial life on Earth's planetary siblings may take the form of bacteria or other microbial life.

Impact of an asteroid or comet in the ocean and extinction of terrestrial life

NASA Technical Reports Server (NTRS)

Ahrens, T. J.; Okeefe, J. D.

1982-01-01

Finite difference calculations describing the impact mechanics associated with a 10 to 30 km diameter silicate or water object impacting a 5 km deep ocean overlying a silicate solid planet demonstrate that from 12 to 15% of the bolide energy resides in the water. It is speculated that minimal global tsunami run-up heights on the continents would be 300-400 meters, and that such waves would inundate all low altitude continental areas, and strip and silt-over virtually all vegetation. As a result the terrestrial animal food chain would be seriously perturbed. This could in turn cause extinction of large terrestrial animals.

SIZE DISTRIBUTIONS OF ELEMENTAL CARBON IN ATMOSPHERIC AEROSOLS

EPA Science Inventory

Environmental problems caused by atmospheric aerosols are well documented in the specialized literature. Studies reporting on the role of dense clouds of soil particles in past mass extinctions of life on Earth and, more recently (Turco et al., 1983), on calculations of potential...

Microbial competition between Bacillus subtilis and Staphylococcus aureus monitored by imaging mass spectrometry

PubMed Central

Gonzalez, David J.; Haste, Nina M.; Hollands, Andrew; Fleming, Tinya C.; Hamby, Matthew; Pogliano, Kit; Nizet, Victor

2011-01-01

Microbial competition exists in the general environment, such as soil or aquatic habitats, upon or within unicellular or multicellular eukaryotic life forms. The molecular actions that govern microbial competition, leading to niche establishment and microbial monopolization, remain undetermined. The emerging technology of imaging mass spectrometry (IMS) enabled the observation that there is directionality in the metabolic output of the organism Bacillus subtilis when co-cultured with Staphylococcus aureus. The directionally released antibiotic alters S. aureus virulence factor production and colonization. Therefore, IMS provides insight into the largely hidden nature of competitive microbial encounters and niche establishment, and provides a paradigm for future antibiotic discovery. PMID:21719540

Insights into recent and ancient trends in the co-evolution of Earth and life as revealed by microbial genomics

NASA Astrophysics Data System (ADS)

Anderson, R. E.; Huber, J. A.; Parsons, C.; Stüeken, E.

2017-12-01

Since the origin of life over 4 billion years ago, life has fundamentally altered the habitability of Earth. Similarly, the environment molds the evolutionary trajectory of life itself through natural selection. Microbial genomes retain a "memory" of the co-evolution of life and Earth and can be analyzed to better understand trends and events in both the recent and distant past. To examine evolutionary trends in the more recent past, we have used metagenomics analyses to investigate which environmental factors play the strongest role in driving the evolution of microbes in deep-sea hydrothermal vents, which are thought to have been important habitats in the earliest stages of life's evolution. We have shown that microbial populations in a deep, basalt-hosted system appear to be under stronger purifying selection than populations inhabiting a cooler serpentinizing system less than 20 km away, suggesting that environmental context and geochemistry have an important impact on evolutionary rates and trends. We also found evidence that viruses play an important role in driving evolution in these habitats. Changing environmental conditions may also effect long-term evolutionary trends in Earth's distant past, as revealed by comparative genomics. By reconciling phylogenetic trees for microbial species with trees of metabolic genes, we can determine approximately when crucial metabolic genes began to spread across the tree of life through horizontal gene transfer. Using these methods, we conducted an analysis of the relative timing of the spread of genes related to the nitrogen cycle. Our results indicate that the rate of horizontal gene transfer for important genes related to denitrification increased after the Great Oxidation Event, concurrent with geochemical evidence for increasing availability of nitrate, suggesting that the oxygenation of the atmosphere and surface ocean may have been an important determining factor for the spread of denitrification genes across the tree of life. In contrast, genes related to nitrogen fixation display much more consistent rates of horizontal gene transfer throughout Earth's history. Studies that couple genomics approaches with geochemistry have the potential to reveal insights into the co-evolution of life and Earth both in the recent and distant past.

Unconventional food regeneration in space - Opportunities for microbial food production

NASA Technical Reports Server (NTRS)

Petersen, Gene R.; Schubert, Wayne W.; Seshan, P. K.; Dunlop, Eric H.

1987-01-01

The possible role of microbial species in regenerating food is considered, and three areas where microbial systems can be used in controlled ecological life support systems are discussed. Microbial species can serve as the biological portion of hybrid chemical/biological schemes for primary food products, as a means more fully to utilize waste materials from agronomical food production, and as a source of nutritional supplements to conventional plant foods. Work accomplished in each of these areas is described. The role of microgravity fermenters in this technology is addressed.

Impact of mechanical shear on Listeria monocytogenes survival on surfaces

USDA-ARS?s Scientific Manuscript database

Microbial inactivation using high temperatures is well known process and has contributed significantly toward food safety and shelf life extension for the food industry. Mechanical high pressure (hydrostatic) treatment is also gaining interest in food processing applications for achieving microbial...

Possible role of gamma ray bursts on life extinction in the universe.

PubMed

Piran, Tsvi; Jimenez, Raul

2014-12-05

As a copious source of gamma rays, a nearby galactic gamma ray burst (GRB) can be a threat to life. Using recent determinations of the rate of GRBs, their luminosity function, and properties of their host galaxies, we estimate the probability that a life-threatening (lethal) GRB would take place. Amongst the different kinds of GRBs, long ones are most dangerous. There is a very good chance (but no certainty) that at least one lethal GRB took place during the past 5 gigayears close enough to Earth as to significantly damage life. There is a 50% chance that such a lethal GRB took place during the last 500×10^{6}  years, causing one of the major mass extinction events. Assuming that a similar level of radiation would be lethal to life on other exoplanets hosting life, we explore the potential effects of GRBs to life elsewhere in the Galaxy and the Universe. We find that the probability of a lethal GRB is much larger in the inner Milky Way (95% within a radius of 4 kpc from the galactic center), making it inhospitable to life. Only at the outskirts of the Milky Way, at more than 10 kpc from the galactic center, does this probability drop below 50%. When considering the Universe as a whole, the safest environments for life (similar to the one on Earth) are the lowest density regions in the outskirts of large galaxies, and life can exist in only ≈10% of galaxies. Remarkably, a cosmological constant is essential for such systems to exist. Furthermore, because of both the higher GRB rate and galaxies being smaller, life as it exists on Earth could not take place at z>0.5. Early life forms must have been much more resilient to radiation.

Impact Crises, Mass Extinctions, and Galactic Dynamics: A Unified Theory

NASA Technical Reports Server (NTRS)

Rampino, M.R.

1997-01-01

A general hypothesis linking mass extinctions of life with impacts of large asteroids and comets is based on astronomical data, impact dynamics, and geological information. The waiting times of large-body impacts on the Earth, derived from the flux of Earth-crossing asteroids and comets, and the estimated size of impacts capable of causing large-scale environmental disasters predict that impacts of objects (sup 3)5 km in diameter ((sup 3)10(exp 7) Mt TNT equivalent) could be sufficient to explain the record of about 25 extinction pulses in the last 540 m.y., with the five recorded major mass extinctions related to the impacts of the largest objects of (sup 3)10 km in diameter ( (sup 3)10(exp 8) Mt events). Smaller impacts (about 10(exp 6)-10(exp 7) Mt), with significant regional and even global environmental effects, could be responsible for the lesser boundaries in the geologic record. Tests of the "kill curve" relationship for impact-induced extinctions based on new data on extinction intensities and several well-dated large impact craters suggest that major mass extinctions require large impacts, and that a step in the kill curve may exist at impacts that produce craters of -100 km diameter, with smaller impacts capable of only relatively weak extinction pulses. Single impact craters < about 60 km in diameter should not be associated with global extinction pulses detectable in the Sepkoski database (although they may explain stage and zone boundaries marked by lesser faunal turnover), but multiple impacts in that size range may produce significant stepped extinction pulses. Statistical tests of the last occurrences of species at mass-extinction boundaries are generally consistent with predictions for abrupt or stepped extinctions, and several boundaries are known to show "catastrophic" signatures of environmental disasters and biomass crash, impoverished postextinction fauna and flora dominated by stress-tolerant and opportunistic species, and gradual ecological recovery and radiation of new taxa. Isotopic and other geochemical signatures are also generally consistent with the expected after-effects of catastrophic impacts. Seven of the recognized extinction pulses are associated with concurrent (in some cases multiple) stratigraphic impact markers (e.g., layers with high Ir, shocked minerals, microtektites), and/or large, dated impact craters. Other less-well-studied crisis intervals show elevated Ir, still well below that of the K/T spike, which might be explained by low-Ir impactors, ejecta blowoff, or the sedimentary reworking and dilution of impact signatures. The best explanation for a possible periodic component of about 30 m.y. in mass extinctions and clusters of impacts is the modulation of the comet flux associated with the solar system's periodic passage through the plane of the Milky Way Galaxy. The quantitative agreement among paleontological, geological, and astronomical data suggests an important underlying unification of the processes involved.

Diversity of the gut microbiota and eczema in early life.

PubMed

Forno, Erick; Onderdonk, Andrew B; McCracken, John; Litonjua, Augusto A; Laskey, Daniel; Delaney, Mary L; Dubois, Andrea M; Gold, Diane R; Ryan, Louise M; Weiss, Scott T; Celedón, Juan C

2008-09-22

A modest number of prospective studies of the composition of the intestinal microbiota and eczema in early life have yielded conflicting results. To examine the relationship between the bacterial diversity of the gut and the development of eczema in early life by methods other than stool culture. Fecal samples were collected from 21 infants at 1 and 4 months of life. Nine infants were diagnosed with eczema by the age of 6 months (cases) and 12 infants were not (controls). After conducting denaturating gradient gel electrophoresis (DGGE) of stool samples, we compared the microbial diversity of cases and controls using the number of electrophoretic bands and the Shannon index of diversity (H') as indicators. Control subjects had significantly greater fecal microbial diversity than children with eczema at ages 1 (mean H' for controls = 0.75 vs. 0.53 for cases, P = 0.01) and 4 months (mean H' for controls = 0.92 vs. 0.59 for cases, P = 0.02). The increase in diversity from 1 to 4 months of age was significant in controls (P = 0.04) but not in children who developed eczema by 6 months of age (P = 0.32). Our findings suggest that reduced microbial diversity is associated with the development of eczema in early life.

Methyl-compound use and slow growth characterize microbial life in 2-km-deep subseafloor coal and shale beds.

PubMed

Trembath-Reichert, Elizabeth; Morono, Yuki; Ijiri, Akira; Hoshino, Tatsuhiko; Dawson, Katherine S; Inagaki, Fumio; Orphan, Victoria J

2017-10-31

The past decade of scientific ocean drilling has revealed seemingly ubiquitous, slow-growing microbial life within a range of deep biosphere habitats. Integrated Ocean Drilling Program Expedition 337 expanded these studies by successfully coring Miocene-aged coal beds 2 km below the seafloor hypothesized to be "hot spots" for microbial life. To characterize the activity of coal-associated microorganisms from this site, a series of stable isotope probing (SIP) experiments were conducted using intact pieces of coal and overlying shale incubated at in situ temperatures (45 °C). The 30-month SIP incubations were amended with deuterated water as a passive tracer for growth and different combinations of 13 C- or 15 N-labeled methanol, methylamine, and ammonium added at low (micromolar) concentrations to investigate methylotrophy in the deep subseafloor biosphere. Although the cell densities were low (50-2,000 cells per cubic centimeter), bulk geochemical measurements and single-cell-targeted nanometer-scale secondary ion mass spectrometry demonstrated active metabolism of methylated substrates by the thermally adapted microbial assemblage, with differing substrate utilization profiles between coal and shale incubations. The conversion of labeled methylamine and methanol was predominantly through heterotrophic processes, with only minor stimulation of methanogenesis. These findings were consistent with in situ and incubation 16S rRNA gene surveys. Microbial growth estimates in the incubations ranged from several months to over 100 y, representing some of the slowest direct measurements of environmental microbial biosynthesis rates. Collectively, these data highlight a small, but viable, deep coal bed biosphere characterized by extremely slow-growing heterotrophs that can utilize a diverse range of carbon and nitrogen substrates.

Microbial astronauts: assembling microbial communities for advanced life support systems.

PubMed

Roberts, M S; Garland, J L; Mills, A L

2004-02-01

Extension of human habitation into space requires that humans carry with them many of the microorganisms with which they coexist on Earth. The ubiquity of microorganisms in close association with all living things and biogeochemical processes on Earth predicates that they must also play a critical role in maintaining the viability of human life in space. Even though bacterial populations exist as locally adapted ecotypes, the abundance of individuals in microbial species is so large that dispersal is unlikely to be limited by geographical barriers on Earth (i.e., for most environments "everything is everywhere" given enough time). This will not be true for microbial communities in space where local species richness will be relatively low because of sterilization protocols prior to launch and physical barriers between Earth and spacecraft after launch. Although community diversity will be sufficient to sustain ecosystem function at the onset, richness and evenness may decline over time such that biological systems either lose functional potential (e.g., bioreactors may fail to reduce BOD or nitrogen load) or become susceptible to invasion by human-associated microorganisms (pathogens) over time. Research at the John F. Kennedy Space Center has evaluated fundamental properties of microbial diversity and community assembly in prototype bioregenerative systems for NASA Advanced Life Support. Successional trends related to increased niche specialization, including an apparent increase in the proportion of nonculturable types of organisms, have been consistently observed. In addition, the stability of the microbial communities, as defined by their resistance to invasion by human-associated microorganisms, has been correlated to their diversity. Overall, these results reflect the significant challenges ahead for the assembly of stable, functional communities using gnotobiotic approaches, and the need to better define the basic biological principles that define ecosystem processes in the space environment. Copyright 2004 Springer-Verlag

Microbial exposure early in life regulates airway inflammation in mice after infection with Streptococcus pneumoniae with enhancement of local resistance.

PubMed

Yasuda, Yasuki; Matsumura, Yoko; Kasahara, Kazuki; Ouji, Noriko; Sugiura, Shigeki; Mikasa, Keiichi; Kita, Eiji

2010-01-01

The immunological explanation for the "hygiene hypothesis" has been proposed to be induction of T helper 1 (Th1) responses by microbial products. However, the protective results of hygiene hypothesis-linked microbial exposures are currently shown to be unlikely to result from a Th1-skewed response. Until now, effect of microbial exposure early in life on airway innate resistance remained unclear. We examined the role of early life exposure to microbes in airway innate resistance to a respiratory pathogen. Specific pathogen-free weanling mice were nasally exposed to the mixture of microbial extracts or PBS (control) every other day for 28 days and intratracheally infected with Streptococcus pneumoniae 10 days after the last exposure. Exposure to microbial extracts facilitated colonization of aerobic gram-positive bacteria, anaerobic microorganisms, and Lactobacillus in the airway, compared with control exposure. In pneumococcal pneumonia, the exposure prolonged mouse survival days by suppressing bacterial growth and by retarding pneumococcal blood invasion, despite significantly low levels of leukocyte recruitment in the lung. Enhancement of airway resistance was associated with a significant decrease in production of leukocyte chemokine (KC) and TNFalpha, and suppression of matrix metalloproteinase (MMP-9) expression/activation with enhancement of tissue inhibitor of MMP (TIMP-3) activation. The exposure increased production of IFN-gamma, IL-4, and monocyte chemoattractant-1 following infection. Furthermore, expression of Toll-like receptor 2, 4, and 9 was promoted by the exposure but no longer upregulated upon pneumococcal infection. Thus, we suggest that hygiene hypothesis is more important in regulating the PMN-dominant inflammatory response than in inducing a Th1-dominant response.

Microbial astronauts: assembling microbial communities for advanced life support systems

NASA Technical Reports Server (NTRS)

Roberts, M. S.; Garland, J. L.; Mills, A. L.

2004-01-01

Extension of human habitation into space requires that humans carry with them many of the microorganisms with which they coexist on Earth. The ubiquity of microorganisms in close association with all living things and biogeochemical processes on Earth predicates that they must also play a critical role in maintaining the viability of human life in space. Even though bacterial populations exist as locally adapted ecotypes, the abundance of individuals in microbial species is so large that dispersal is unlikely to be limited by geographical barriers on Earth (i.e., for most environments "everything is everywhere" given enough time). This will not be true for microbial communities in space where local species richness will be relatively low because of sterilization protocols prior to launch and physical barriers between Earth and spacecraft after launch. Although community diversity will be sufficient to sustain ecosystem function at the onset, richness and evenness may decline over time such that biological systems either lose functional potential (e.g., bioreactors may fail to reduce BOD or nitrogen load) or become susceptible to invasion by human-associated microorganisms (pathogens) over time. Research at the John F. Kennedy Space Center has evaluated fundamental properties of microbial diversity and community assembly in prototype bioregenerative systems for NASA Advanced Life Support. Successional trends related to increased niche specialization, including an apparent increase in the proportion of nonculturable types of organisms, have been consistently observed. In addition, the stability of the microbial communities, as defined by their resistance to invasion by human-associated microorganisms, has been correlated to their diversity. Overall, these results reflect the significant challenges ahead for the assembly of stable, functional communities using gnotobiotic approaches, and the need to better define the basic biological principles that define ecosystem processes in the space environment. Copyright 2004 Springer-Verlag.

Methyl-compound use and slow growth characterize microbial life in 2-km-deep subseafloor coal and shale beds

PubMed Central

Trembath-Reichert, Elizabeth; Morono, Yuki; Ijiri, Akira; Hoshino, Tatsuhiko; Dawson, Katherine S.; Inagaki, Fumio

2017-01-01

The past decade of scientific ocean drilling has revealed seemingly ubiquitous, slow-growing microbial life within a range of deep biosphere habitats. Integrated Ocean Drilling Program Expedition 337 expanded these studies by successfully coring Miocene-aged coal beds 2 km below the seafloor hypothesized to be “hot spots” for microbial life. To characterize the activity of coal-associated microorganisms from this site, a series of stable isotope probing (SIP) experiments were conducted using intact pieces of coal and overlying shale incubated at in situ temperatures (45 °C). The 30-month SIP incubations were amended with deuterated water as a passive tracer for growth and different combinations of 13C- or 15N-labeled methanol, methylamine, and ammonium added at low (micromolar) concentrations to investigate methylotrophy in the deep subseafloor biosphere. Although the cell densities were low (50–2,000 cells per cubic centimeter), bulk geochemical measurements and single-cell–targeted nanometer-scale secondary ion mass spectrometry demonstrated active metabolism of methylated substrates by the thermally adapted microbial assemblage, with differing substrate utilization profiles between coal and shale incubations. The conversion of labeled methylamine and methanol was predominantly through heterotrophic processes, with only minor stimulation of methanogenesis. These findings were consistent with in situ and incubation 16S rRNA gene surveys. Microbial growth estimates in the incubations ranged from several months to over 100 y, representing some of the slowest direct measurements of environmental microbial biosynthesis rates. Collectively, these data highlight a small, but viable, deep coal bed biosphere characterized by extremely slow-growing heterotrophs that can utilize a diverse range of carbon and nitrogen substrates. PMID:29078310

Evidence for Microbial Activity in ~3.5 Ga Pillow Basalts From the Barberton Greenstone Belt, South Africa

NASA Astrophysics Data System (ADS)

Muehlenbachs, K.; Banerjee, N. R.; Furnes, H.; Staudigel, H.; de Wit, M.

2004-05-01

We have discovered biosignatures in the formerly glassy rims of pillow lavas from the Mesoarchean Barberton Greenstone Belt (BGB) in South Africa. Over the last decade, bioalteration of basaltic glass in pillow lavas and volcaniclastic rocks has been well documented from in-situ oceanic crust and well-preserved Phanerozoic ophiolites. Much of the debate regarding the biogenicity of purported microfossils of early life centers on the interpretation of the host rocks' protoliths. To date, most protoliths have been interpreted to be of sedimentary origin. Some workers have proposed alternate origins for these substrates, including hydrothermal and even volcanic derivation, to cast doubt on their putative biogenicity. Hence studies documenting evidence for early life have proven to be controversial. Here we document evidence for microbial activity in ~3.5 Ga subaqueous volcanic rocks that represent a new, unambiguous geological setting in the search for early life on Earth. The BGB magmatic sequence is dominated by mafic to ultramafic pillow lavas, sheet flows, and intrusions interpreted to represent 3480- to 3220-million-year-old oceanic crust and island arc assemblages. The BGB pillow lavas are exceptionally well-preserved and represent unequivocal evidence that these rocks were erupted in a subaqueous environment. The formerly glassy rims of the BGB pillow lavas contain micron-sized, microbially generated, tubular structures consisting of titanite. These structures are interpreted to have formed during microbial etching of the originally glassy pillow rims and were subsequently mineralized by titanite during greenschist facies seafloor hydrothermal alteration. Overlapping metamorphic and magmatic dates from the pillow lavas suggest this process occurred soon after eruption of the pillow lavas on the seafloor. X-ray mapping has revealed the presence of carbon along the margins of the tubular structures. Disseminated carbonates within the microbially altered BGB pillow rims have C-isotope values depleted by as much as -16 per mil, which is consistent with microbial oxidation of organic matter. In contrast, the crystalline pillow interiors exhibit C-isotope values bracketed between Archean marine carbonate (~0 per mil) and mantle CO2 (-5 to -7 per mil). On the basis of the observed textural and geochemical signatures we propose that the glassy rims of the BGB pillow lavas hosted microbial life almost 3.5 billion years ago. Remnants of Archean oceanic crust may therefore be one of the most promising places to search for vestiges of early life on Earth.

Nuclear magnetic biosignatures in the carbonaceous matter of ancient cherts: comparison with carbonaceous meteorites.

PubMed

Gourier, Didier; Delpoux, Olivier; Binet, Laurent; Vezin, Hervé

2013-10-01

The search for organic biosignatures is motivated by the hope of understanding the conditions of emergence of life on Earth and the perspective of finding traces of extinct life in martian sediments. Paramagnetic radicals, which exist naturally in amorphous carbonaceous matter fossilized in Precambrian cherts, were used as local structural probes and studied by electron paramagnetic resonance (EPR) spectroscopy. The nuclear magnetic resonance transitions of elements inside and around these radicals were detected by monitoring the nuclear modulations of electron spin echo in pulsed EPR. We found that the carbonaceous matter of fossilized microorganisms with age up to 3.5 billion years gives specific nuclear magnetic signatures of hydrogen (¹H), carbon (¹³C), and phosphorus (³¹P) nuclei. We observed that these potential biosignatures of extinct life are found neither in the carbonaceous matter of carbonaceous meteorites (4.56 billion years), the most ancient objects of the Solar System, nor in any carbonaceous matter resulting from carbonization of organic and bioorganic precursors. These results indicate that these nuclear signatures are sensitive to thermal episodes and can be used for Archean cherts with metamorphism not higher than the greenschist facies.

Biodiversity

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

Wilson, E.O.; Peter, F.M.

1988-01-01

In tropical forests, on coral reefs, and in other threatened habitats, countless plant, animal, and microbial species face possible extinction - their names unknown, their numbers uncounted, their value unreckoned. Although popular attention has focused on the plight of more visible and widely known species like the whooping crane or the African elephant, most-experts agree that the loss of less-obvious organisms could be much more devastating. This is the subject of the volume. It calls attention to a most urgent global problem: the rapidly accelerating loss of plant and animal species to increasing human-population pressure and the demands of economicmore » development. The book explores biodiversity from a wide variety of viewpoints.« less

The Cuatro Ciénegas Basin in Coahuila, Mexico: An Astrobiological Precambrian Park

PubMed Central

Siefert, Janet L.; Escalante, Ana E.; Elser, James J.; Eguiarte, Luis E.

2012-01-01

Abstract The Cuatro Ciénegas Basin (CCB) is a rare oasis in the Chihuahuan Desert in the state of Coahuila, Mexico. It has a biological endemism similar to that of the Galapagos Islands, and its spring-fed ecosystems have very low nutrient content (nitrogen or phosphorous) and are dominated by diverse microbialites. Thus, it has proven to be a distinctive opportunity for the field of astrobiology, as the CCB can be seen as a proxy for an earlier time in Earth's history, in particular the late Precambrian, the biological frontier when prokaryotic life yielded at least partial dominance to eukaryotes and multicellular life. It is a kind of ecological time machine that provides abundant opportunities for collaborative investigations by geochemists, geologists, ecologists, and population biologists in the study of the evolutionary processes that structured Earth-based life, especially in the microbial realm. The CCB is an object of investigation for the identification of biosignatures of past and present biota that can be used in our search for extraterrestrial life. In this review, we summarize CCB research efforts that began with microbial ecology and population biology projects and have since been expanded into broader efforts that involve biogeochemistry, comparative genomics, and assessments of biosignatures. We also propose that, in the future, the CCB is sanctioned as a “Precambrian Park” for astrobiology. Key Words: Microbial mats—Stromatolites—Early Earth—Extremophilic microorganisms—Microbial ecology. Astrobiology 12, 641–647. PMID:22920514

Subseafloor fluid mixing and fossilized microbial life in a Cretaceous 'Lost City'-type hydrothermal system at the Iberian Margin

NASA Astrophysics Data System (ADS)

Klein, F.; Humphris, S. E.; Guo, W.; Schubotz, F.; Schwarzenbach, E. M.; Orsi, W.

2015-12-01

Subseafloor mixing of reduced hydrothermal fluids with seawater is believed to provide the energy and substrates needed to support autotrophic microorganisms in the hydrated oceanic mantle (serpentinite). Despite the potentially significant implications for the distribution of microbial life on Earth and other water-bearing planetary bodies, our understanding of such environments remains elusive. In the present study we examined fossilized microbial communities and fluid mixing processes in the subseafloor of a Cretaceous 'Lost City'-type hydrothermal system at the passive Iberia Margin (ODP Leg 149, Hole 897D). Brucite and calcite co-precipitated from mixed fluids ca. 65m below the Cretaceous palaeo-seafloor at temperatures of 32±4°C within steep chemical gradients (fO2, pH, CH4, SO4, ΣCO2, etc) between weathered, carbonate-rich serpentinite breccia and serpentinite. Mixing of oxidized seawater and strongly reducing hydrothermal fluid at moderate temperatures created conditions capable of supporting microbial activity within the oceanic basement. Dense microbial colonies are fossilized in brucite-calcite veins that are strongly enriched in organic carbon but depleted in 13C. We detected a combination of bacterial diether lipid biomarkers, archaeol and archaeal tetraethers analogous to those found in brucite-carbonate chimneys at the active Lost City hydrothermal field. The exposure of mantle rocks to seawater during the breakup of Pangaea fueled chemolithoautotrophic microbial communities at the Iberia Margin during the Cretaceous, possibly before the onset of seafloor spreading in the Atlantic. 'Lost City'-type serpentinization systems have been discovered at mid-ocean ridges, in forearc settings of subduction zones and at continental margins. It appears that, wherever they occur, they can support microbial life, even in deep subseafloor environments as demonstrated in the present study. Because equivalent systems have likely existed throughout most of Earth's history, fluid mixing may have provided the substrates and energy to support a unique subseafloor community of microorganisms over geological timescales.

Subseafloor fluid mixing and fossilized microbial life in a Cretaceous 'Lost City'-type hydrothermal system at the Iberian Margin

NASA Astrophysics Data System (ADS)

Klein, F.; Humphris, S. E.; Guo, W.; Schubotz, F.; Schwarzenbach, E. M.; Orsi, W.

2014-12-01

Subseafloor mixing of reduced hydrothermal fluids with seawater is believed to provide the energy and substrates needed to support autotrophic microorganisms in the hydrated oceanic mantle (serpentinite). Despite the potentially significant implications for the distribution of microbial life on Earth and other water-bearing planetary bodies, our understanding of such environments remains elusive. In the present study we examined fossilized microbial communities and fluid mixing processes in the subseafloor of a Cretaceous 'Lost City'-type hydrothermal system at the passive Iberia Margin (ODP Leg 149, Hole 897D). Brucite and calcite co-precipitated from mixed fluids ca. 65m below the Cretaceous palaeo-seafloor at temperatures of 32±4°C within steep chemical gradients (fO2, pH, CH4, SO4, ΣCO2, etc) between weathered, carbonate-rich serpentinite breccia and serpentinite. Mixing of oxidized seawater and strongly reducing hydrothermal fluid at moderate temperatures created conditions capable of supporting microbial activity within the oceanic basement. Dense microbial colonies are fossilized in brucite-calcite veins that are strongly enriched in organic carbon but depleted in 13C. We detected a combination of bacterial diether lipid biomarkers, archaeol and archaeal tetraethers analogous to those found in brucite-carbonate chimneys at the active Lost City hydrothermal field. The exposure of mantle rocks to seawater during the breakup of Pangaea fueled chemolithoautotrophic microbial communities at the Iberia Margin during the Cretaceous, possibly before the onset of seafloor spreading in the Atlantic. 'Lost City'-type serpentinization systems have been discovered at mid-ocean ridges, in forearc settings of subduction zones and at continental margins. It appears that, wherever they occur, they can support microbial life, even in deep subseafloor environments as demonstrated in the present study. Because equivalent systems have likely existed throughout most of Earth's history, fluid mixing may have provided the substrates and energy to support a unique subseafloor community of microorganisms over geological timescales.

Forum on Microbial Threats

DTIC Science & Technology

2012-01-01

extreme environments such as the human gut , deep sea hydrothermal vents, and the windswept terrain of Antarctica – teem with microbial life that interact......Recent studies on the human microbiome have begun to reveal the complexity of these interactions within the human body and the effects of the

Life in Oligotropic Desert Environments: Contrasting Taxonomic and Functional Diversity of Two Microbial Mats with Metagenomics

NASA Astrophysics Data System (ADS)

Bonilla-Rosso, G.; Peimbert, M.; Olmedo, G.; Alcaraz, L. D.; Eguiarte, L. E.; Souza, V.

2010-04-01

The metagenomic analysis of two microbial mats from the oligotrophic waters in the Cuatrociéngas basin reveals large differences both at taxonomic and functional level. These are explained in terms of environmental stability and nutrient availability.

Deep-biosphere methane production stimulated by geofluids in the Nankai accretionary complex

PubMed Central

Kubo, Yusuke; Hoshino, Tatsuhiko; Sakai, Sanae; Arnold, Gail L.; Case, David H.; Lever, Mark A.; Morita, Sumito; Nakamura, Ko-ichi

2018-01-01

Microbial life inhabiting subseafloor sediments plays an important role in Earth’s carbon cycle. However, the impact of geodynamic processes on the distributions and carbon-cycling activities of subseafloor life remains poorly constrained. We explore a submarine mud volcano of the Nankai accretionary complex by drilling down to 200 m below the summit. Stable isotopic compositions of water and carbon compounds, including clumped methane isotopologues, suggest that ~90% of methane is microbially produced at 16° to 30°C and 300 to 900 m below seafloor, corresponding to the basin bottom, where fluids in the accretionary prism are supplied via megasplay faults. Radiotracer experiments showed that relatively small microbial populations in deep mud volcano sediments (102 to 103 cells cm−3) include highly active hydrogenotrophic methanogens and acetogens. Our findings indicate that subduction-associated fluid migration has stimulated microbial activity in the mud reservoir and that mud volcanoes may contribute more substantially to the methane budget than previously estimated. PMID:29928689

Palaeontology: Dinosaurs, Boneheads and Recovery from Extinction.

PubMed

Benton, Michael J

2016-10-10

The Triassic was a time of turmoil, as life recovered from near-annihilation. Archosauromorph reptiles flourished and diversified as they filled empty ecological niches, and some of them presaged later dinosaurian inventions, such as thickened skull roofs. Copyright © 2016 Elsevier Ltd. All rights reserved.

Selection of Portable Spectrometers for Planetary Exploration: A Comparison of 532 nm and 785 nm Raman Spectroscopy of Reduced Carbon in Archean Cherts

PubMed Central

Hutchinson, Ian B.; Ingley, Richard; Marshall, Craig P.; Olcott Marshall, Alison; Edwards, Howell G.M.

2015-01-01

Abstract Knowledge and understanding of the martian environment has advanced greatly over the past two decades, beginning with NASA's return to the surface of Mars with the Pathfinder mission and its rover Sojourner in 1997 and continuing today with data being returned by the Curiosity rover. Reduced carbon, however, is yet to be detected on the martian surface, despite its abundance in meteorites originating from the planet. If carbon is detected on Mars, it could be a remnant of extinct life, although an abiotic source is much more likely. If the latter is the case, environmental carbonaceous material would still provide a source of carbon that could be utilized by microbial life for biochemical synthesis and could therefore act as a marker for potential habitats, indicating regions that should be investigated further. For this reason, the detection and characterization of reduced or organic carbon is a top priority for both the ESA/Roscosmos ExoMars rover, currently due for launch in 2018, and for NASA's Mars 2020 mission. Here, we present a Raman spectroscopic study of Archean chert Mars analog samples from the Pilbara Craton, Western Australia. Raman spectra were acquired with a flight-representative 532 nm instrument and a 785 nm instrument with similar operating parameters. Reduced carbon was successfully detected with both instruments; however, its Raman bands were detected more readily with 785 nm excitation, and the corresponding spectra exhibited superior signal-to-noise ratios and reduced background levels. Key Words: Raman spectroscopy—Archean—Organic matter—Planetary science—Mars. Astrobiology 15, 420–429. PMID:26060980

Controlling Brochothrix thermosphacta as a spoilage risk using in-package atmospheric cold plasma.

PubMed

Patange, Apurva; Boehm, Daniela; Bueno-Ferrer, Carmen; Cullen, P J; Bourke, Paula

2017-09-01

Brochothrix thermosphacta is the predominant spoilage microorganism in meat and its control in processing environments is important to maintain meat product quality. Atmospheric cold plasma is of interest for control of pathogenic and spoilage microorganisms in foods. This study ascertained the potential of dielectric barrier discharge atmospheric cold plasma (DBD-ACP) for control of B. thermosphacta, taking microbial and food environment factors into consideration, and investigated the shelf-life of lamb chop after in-package plasma treatment in modified atmosphere. Community profiling was used to assess the treatment effects on the lamb microflora. ACP treatment (80 kV) for 30s inactivated B. thermosphacta populations below detection levels in PBS, while 5 min treatment achieved a 2 Log cycle reduction using a complex meat model medium and attached cells. The antimicrobial efficacy of plasma was reduced but still apparent on lamb chop surface-inoculated with high concentrations of B. thermosphacta. Lamb chop treated under modified atmosphere exhibited reduced microbial growth over the product shelf-life and community profiling showed no evident changes to the microbial populations after the treatment. The overall results indicated potential of ACP to enhance microbial control leading to meat storage life extension through adjusting the modality of treatment. Copyright © 2017 Elsevier Ltd. All rights reserved.

State-of-the-art Instruments for Detecting Extraterrestrial Life

NASA Technical Reports Server (NTRS)

Bada, Jeffrey L.

2003-01-01

In the coming decades, state-of-the-art spacecraft-based instruments that can detect key components associated with life as we know it on Earth will directly search for extinct or extant extraterrestrial life in our solar system. Advances in our analytical and detection capabilities, especially those based on microscale technologies, will be important in enhancing the abilities of these instruments. Remote sensing investigations of the atmospheres of extrasolar planets could provide evidence of photosynthetic-based life outside our solar system, although less advanced life will remain undetectable by these methods. Finding evidence of extraterrestrial life would have profound consequences both with respect to our understanding of chemical and biological evolution, and whether the biochemistry on Earth is unique in the universe.

New approaches to the study of Antarctic lithobiontic microorganisms and their inorganic traces, and their application in the detection of life in Martian rocks.

PubMed

Ascaso, C; Wierzchos, J

2002-12-01

Microbial life in the harsh conditions of Antarctica's cold desert may be considered an analogue of potential life on early Mars. In order to explore the development and survival of this epilithic and endolithic form of microbial life, our most sophisticated, state-of-the-art visualization technologies have to be used to their full potential. The study of any ecosystem requires a knowledge of its components and the processes that take place within it. If we are to understand the structure and function of each component of the microecosystems that inhabit lithic substrates, we need to be able to quantify and identify the microorganisms present in each lithobiontic ecological niche and to accurately characterize the mineralogical features of these hidden microhabitats. Once we have established the techniques that will allow us to observe and identify these microorganisms and mineral substrates in situ, and have confirmed the presence of water, the following questions can be addressed: How are the microorganisms organized in the fissures or cavities? Which microorganisms are present and how many are there? Additional questions that logically follow include: What are the existing water relationships in the microhabitat and what effects do the microorganisms have on the mineral composition? Mechanical and chemical changes in minerals and mineralization of microbial cells can give rise to physical and/or chemical traces (biomarkers) and to microbial fossil formation. In this report, we describe the detection of chains of magnetite within the Martian meteorite ALH84001, as an example of the potential use of SEM-BSE in the search for plausible traces of life on early Mars.

Microbial ecology of the closed artificial ecosystem MELiSSA (Micro-Ecological Life Support System Alternative): reinventing and compartmentalizing the Earth's food and oxygen regeneration system for long-haul space exploration missions.

PubMed

Hendrickx, Larissa; De Wever, Heleen; Hermans, Veronik; Mastroleo, Felice; Morin, Nicolas; Wilmotte, Annick; Janssen, Paul; Mergeay, Max

2006-01-01

MELiSSA is a bioregenerative life support system designed by the European Space Agency (ESA) for the complete recycling of gas, liquid and solid wastes during long distance space exploration. The system uses the combined activity of different living organisms: microbial cultures in bioreactors, a plant compartment and a human crew. In this minireview, the development of a short-cut ecological system for the biotransformation of organic waste is discussed from a microorganism's perspective. The artificial ecological model--still in full development--that is inspired by Earth's own geomicrobiological ecosystem serves as an ideal study object on microbial ecology and will become an indispensable travel companion in manned space exploration.

Life history and dynamics of a platypus (Ornithorhynchus anatinus) population: four decades of mark-recapture surveys

PubMed Central

Bino, Gilad; Grant, Tom R.; Kingsford, Richard T.

2015-01-01

Knowledge of the life-history and population dynamics of Australia’s iconic and evolutionarily distinct platypus (Ornithorhynchus anatinus) remains poor. We marked-recaptured 812 unique platypuses (total 1,622 captures), over four decades (1973–2014) in the Shoalhaven River, Australia. Strong sex-age differences were observed in life-history, including morphology and longevity. Apparent survival of adult females (Φ = 0.76) were higher than adult males (Φ = 0.57), as in juveniles: females Φ = 0.27, males Φ = 0.13. Females were highly likely to remain in the same pool (adult: P = 0.85, juvenile: P = 0.88), while residency rates were lower for males (adult: P = 0.74, juvenile: P = 0.46). We combined survival, movement and life-histories to develop population viability models and test the impact of a range of life-history parameters. While using estimated apparent survival produced unviable populations (mean population growth rate r = −0.23, extinction within 20 years), considering residency rates to adjust survival estimates, indicated more stable populations (r = 0.004, p = 0.04 of 100-year extinction). Further sensitivity analyses highlighted adult female survival and overall success of dispersal as most affecting viability. Findings provide robust life-history and viability estimates for a difficult study species. These could support developing large-scale population dynamics models required to underpin a much needed national risk assessment for the platypus, already declining in parts of its current distribution. PMID:26536832

Life history and dynamics of a platypus (Ornithorhynchus anatinus) population: four decades of mark-recapture surveys.

PubMed

Bino, Gilad; Grant, Tom R; Kingsford, Richard T

2015-11-05

Knowledge of the life-history and population dynamics of Australia's iconic and evolutionarily distinct platypus (Ornithorhynchus anatinus) remains poor. We marked-recaptured 812 unique platypuses (total 1,622 captures), over four decades (1973-2014) in the Shoalhaven River, Australia. Strong sex-age differences were observed in life-history, including morphology and longevity. Apparent survival of adult females (Φ = 0.76) were higher than adult males (Φ = 0.57), as in juveniles: females Φ = 0.27, males Φ = 0.13. Females were highly likely to remain in the same pool (adult: P = 0.85, juvenile: P = 0.88), while residency rates were lower for males (adult: P = 0.74, juvenile: P = 0.46). We combined survival, movement and life-histories to develop population viability models and test the impact of a range of life-history parameters. While using estimated apparent survival produced unviable populations (mean population growth rate r = -0.23, extinction within 20 years), considering residency rates to adjust survival estimates, indicated more stable populations (r = 0.004, p = 0.04 of 100-year extinction). Further sensitivity analyses highlighted adult female survival and overall success of dispersal as most affecting viability. Findings provide robust life-history and viability estimates for a difficult study species. These could support developing large-scale population dynamics models required to underpin a much needed national risk assessment for the platypus, already declining in parts of its current distribution.

Big cat, small cat: reconstructing body size evolution in living and extinct Felidae.

PubMed

Cuff, A R; Randau, M; Head, J; Hutchinson, J R; Pierce, S E; Goswami, A

2015-08-01

The evolution of body mass is a fundamental topic in evolutionary biology, because it is closely linked to manifold life history and ecological traits and is readily estimable for many extinct taxa. In this study, we examine patterns of body mass evolution in Felidae (Placentalia, Carnivora) to assess the effects of phylogeny, mode of evolution, and the relationship between body mass and prey choice in this charismatic mammalian clade. Our data set includes 39 extant and 26 extinct taxa, with published body mass data supplemented by estimates based on condylobasal length. These data were run through 'SURFACE' and 'bayou' to test for patterns of body mass evolution and convergence between taxa. Body masses of felids are significantly different among prey choice groupings (small, mixed and large). We find that body mass evolution in cats is strongly influenced by phylogeny, but different patterns emerged depending on inclusion of extinct taxa and assumptions about branch lengths. A single Ornstein-Uhlenbeck optimum best explains the distribution of body masses when first-occurrence data were used for the fossil taxa. However, when mean occurrence dates or last known occurrence dates were used, two selective optima for felid body mass were recovered in most analyses: a small optimum around 5 kg and a large one around 100 kg. Across living and extinct cats, we infer repeated evolutionary convergences towards both of these optima, but, likely due to biased extinction of large taxa, our results shift to supporting a Brownian motion model when only extant taxa are included in analyses. © 2015 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2015 European Society For Evolutionary Biology.

Epistemological issues in the study of microbial life: alternative terran biospheres?

PubMed

Cleland, Carol E

2007-12-01

The assumption that all life on Earth today shares the same basic molecular architecture and biochemistry is part of the paradigm of modern biology. This paper argues that there is little theoretical or empirical support for this widely held assumption. Scientists know that life could have been at least modestly different at the molecular level and it is clear that alternative molecular building blocks for life were available on the early Earth. If the emergence of life is, like other natural phenomena, highly probable given the right chemical and physical conditions then it seems likely that the early Earth hosted multiple origins of life, some of which produced chemical variations on life as we know it. While these points are often conceded, it is nevertheless maintained that any primitive alternatives to familiar life would have been eliminated long ago, either amalgamated into a single form of life through lateral gene transfer (LGT) or alternatively out-competed by our putatively more evolutionarily robust form of life. Besides, the argument continues, if such life forms still existed, we surely would have encountered telling signs of them by now. These arguments do not hold up well under close scrutiny. They reflect a host of assumptions that are grounded in our experience with large multicellular organisms and, most importantly, do not apply to microbial forms of life, which cannot be easily studied without the aid of sophisticated technologies. Significantly, the most powerful molecular biology techniques available-polymerase chain reaction (PCR) amplification of rRNA genes augmented by metagenomic analysis-could not detect such microbes if they existed. Given the profound philosophical and scientific importance that such a discovery would represent, a dedicated search for 'shadow microbes' (heretofore unrecognized 'alien' forms of terran microbial life) seems in order. The best place to start such a search is with puzzling (anomalous) phenomena, such as desert varnish, that resist classification as 'biological' or 'nonbiological'.

Utilizing novel diversity estimators to quantify multiple dimensions of microbial biodiversity across domains

PubMed Central

2013-01-01

Background Microbial ecologists often employ methods from classical community ecology to analyze microbial community diversity. However, these methods have limitations because microbial communities differ from macro-organismal communities in key ways. This study sought to quantify microbial diversity using methods that are better suited for data spanning multiple domains of life and dimensions of diversity. Diversity profiles are one novel, promising way to analyze microbial datasets. Diversity profiles encompass many other indices, provide effective numbers of diversity (mathematical generalizations of previous indices that better convey the magnitude of differences in diversity), and can incorporate taxa similarity information. To explore whether these profiles change interpretations of microbial datasets, diversity profiles were calculated for four microbial datasets from different environments spanning all domains of life as well as viruses. Both similarity-based profiles that incorporated phylogenetic relatedness and naïve (not similarity-based) profiles were calculated. Simulated datasets were used to examine the robustness of diversity profiles to varying phylogenetic topology and community composition. Results Diversity profiles provided insights into microbial datasets that were not detectable with classical univariate diversity metrics. For all datasets analyzed, there were key distinctions between calculations that incorporated phylogenetic diversity as a measure of taxa similarity and naïve calculations. The profiles also provided information about the effects of rare species on diversity calculations. Additionally, diversity profiles were used to examine thousands of simulated microbial communities, showing that similarity-based and naïve diversity profiles only agreed approximately 50% of the time in their classification of which sample was most diverse. This is a strong argument for incorporating similarity information and calculating diversity with a range of emphases on rare and abundant species when quantifying microbial community diversity. Conclusions For many datasets, diversity profiles provided a different view of microbial community diversity compared to analyses that did not take into account taxa similarity information, effective diversity, or multiple diversity metrics. These findings are a valuable contribution to data analysis methodology in microbial ecology. PMID:24238386

The life sulfuric: microbial ecology of sulfur cycling in marine sediments

PubMed Central

Wasmund, Kenneth; Mußmann, Marc

2017-01-01

Summary Almost the entire seafloor is covered with sediments that can be more than 10 000 m thick and represent a vast microbial ecosystem that is a major component of Earth's element and energy cycles. Notably, a significant proportion of microbial life in marine sediments can exploit energy conserved during transformations of sulfur compounds among different redox states. Sulfur cycling, which is primarily driven by sulfate reduction, is tightly interwoven with other important element cycles (carbon, nitrogen, iron, manganese) and therefore has profound implications for both cellular‐ and ecosystem‐level processes. Sulfur‐transforming microorganisms have evolved diverse genetic, metabolic, and in some cases, peculiar phenotypic features to fill an array of ecological niches in marine sediments. Here, we review recent and selected findings on the microbial guilds that are involved in the transformation of different sulfur compounds in marine sediments and emphasise how these are interlinked and have a major influence on ecology and biogeochemistry in the seafloor. Extraordinary discoveries have increased our knowledge on microbial sulfur cycling, mainly in sulfate‐rich surface sediments, yet many questions remain regarding how sulfur redox processes may sustain the deep‐subsurface biosphere and the impact of organic sulfur compounds on the marine sulfur cycle. PMID:28419734

Gut microbes in correlation with mood: case study in a closed experimental human life support system.

PubMed

Li, L; Su, Q; Xie, B; Duan, L; Zhao, W; Hu, D; Wu, R; Liu, H

2016-08-01

Gut microbial community, which may influence our mood, can be shaped by modulating the gut ecosystem through dietary strategies. Understanding the gut-brain correlationship in healthy people is important for maintenance of mental health and prevention of mental illnesses. A case study on the correlation between gut microbial alternation and mood swing of healthy adults was conducted in a closed human life support system during a 105-day experiment. Gut microbial community structures were analyzed using high-throughput sequencing every 2 weeks. A profile of mood states questionnaire was used to record the mood swings. Correlation between gut microbes and mood were identified with partial least squares discrimination analysis. Microbial community structures in the three healthy adults were strongly correlated with mood states. Bacterial genera Roseburia, Phascolarctobacterium, Lachnospira, and Prevotella had potential positive correlation with positive mood, while genera Faecalibacterium, Bifidobacterium, Bacteroides, Parabacteroides, and Anaerostipes were correlated with negative mood. Among which, Faecalibacterium spp. had the highest abundance, and showed a significant negative correlation with mood. Our results indicated that the composition of microbial community could play a role in emotional change in mentally physically healthy adults. © 2016 John Wiley & Sons Ltd.

Life in the "plastisphere": microbial communities on plastic marine debris.

PubMed

Zettler, Erik R; Mincer, Tracy J; Amaral-Zettler, Linda A

2013-07-02

Plastics are the most abundant form of marine debris, with global production rising and documented impacts in some marine environments, but the influence of plastic on open ocean ecosystems is poorly understood, particularly for microbial communities. Plastic marine debris (PMD) collected at multiple locations in the North Atlantic was analyzed with scanning electron microscopy (SEM) and next-generation sequencing to characterize the attached microbial communities. We unveiled a diverse microbial community of heterotrophs, autotrophs, predators, and symbionts, a community we refer to as the "Plastisphere". Pits visualized in the PMD surface conformed to bacterial shapes suggesting active hydrolysis of the hydrocarbon polymer. Small-subunit rRNA gene surveys identified several hydrocarbon-degrading bacteria, supporting the possibility that microbes play a role in degrading PMD. Some Plastisphere members may be opportunistic pathogens (the authors, unpublished data) such as specific members of the genus Vibrio that dominated one of our plastic samples. Plastisphere communities are distinct from surrounding surface water, implying that plastic serves as a novel ecological habitat in the open ocean. Plastic has a longer half-life than most natural floating marine substrates, and a hydrophobic surface that promotes microbial colonization and biofilm formation, differing from autochthonous substrates in the upper layers of the ocean.

Workshop to develop deep-life continental scientific drilling projects

DOE PAGES

Kieft, T. L.; Onstott, T. C.; Ahonen, L.; ...

2015-05-29

The International Continental Scientific Drilling Program (ICDP) has long espoused studies of deep subsurface life, and has targeted fundamental questions regarding subsurface life, including the following: "(1) What is the extent and diversity of deep microbial life and what are the factors limiting it? (2) What are the types of metabolism/carbon/energy sources and the rates of subsurface activity? (3) How is deep microbial life adapted to subsurface conditions? (4) How do subsurface microbial communities affect energy resources? And (5) how does the deep biosphere interact with the geosphere and atmosphere?" (Horsfield et al., 2014) Many ICDP-sponsored drilling projects have includedmore » a deep-life component; however, to date, not one project has been driven by deep-life goals, in part because geomicrobiologists have been slow to initiate deep biosphere-driven ICDP projects. Therefore, the Deep Carbon Observatory (DCO) recently partnered with the ICDP to sponsor a workshop with the specific aim of gathering potential proponents for deep-life-driven ICDP projects and ideas for candidate drilling sites. Twenty-two participants from nine countries proposed projects and sites that included compressional and extensional tectonic environments, evaporites, hydrocarbon-rich shales, flood basalts, Precambrian shield rocks, subglacial and subpermafrost environments, active volcano–tectonic systems, megafan deltas, and serpentinizing ultramafic environments. The criteria and requirements for successful ICDP applications were presented. Deep-life-specific technical requirements were discussed and it was concluded that, while these procedures require adequate planning, they are entirely compatible with the sampling needs of other disciplines. As a result of this workshop, one drilling workshop proposal on the Basin and Range Physiographic Province (BRPP) has been submitted to the ICDP, and several other drilling project proponents plan to submit proposals for ICDP-sponsored drilling workshops in 2016.« less

The limits of extremophilic life expanded under extraterrestrial environment-simulated experiments

NASA Astrophysics Data System (ADS)

Lage, C.; Dalmaso, G.; Teixeira, L.; Bendia, A.; Rosado, A.

2012-09-01

Astrobiology is a brand new area of science that seeks to understand the origin and dynamics of life in the universe. Several hypotheses to explain life in the cosmic context have been developed throughout human history, but only now technology has allowed many of them to be tested. Laboratory experiments have been able to show how chemical elements essential to life, carbon, nitrogen, oxygen and hydrogen combine in biologically important compounds. Interestingly, these compounds are found universally. As these compounds were combined to the point of originating cells and complex organisms is still a challenge to be unveiled by science. However, our 4.5 billion years-old solar system was born within a 10-billion years-old universe. Thus, simple cells like microorganisms may have had time to form in planets older than ours or other suitable molecular places in the universe. One hypothesis to explain the origin of life on Earth is called panspermia, which predicts that microbial life could have been formed in the universe billions of years ago, traveling between planets, and inseminating units of life that could have become more complex in habitable planets like ours. A project designed to test the viability of extremophile microorganisms exposed to simulated extraterrestrial environments is ongoing at the Carlos Chagas Filho Institute of Biophysics to test whether microbial life could withstand those inhospitable environments. Ultra-resistant (known or novel ones) microorganisms collected from terrestrial extreme environments, extremophiles, have been exposed to intense radiation sources simulating solar radiation (at synchrotron accelerators), capable of emitting in a few hours radiation equivalent of million years accumulated doses. The results obtained in these experiments reveal the interesting possibility of the existence of microbial life beyond Earth.

Mini-Review: Probing the limits of extremophilic life in extraterrestrial environment-simulated experiments

NASA Astrophysics Data System (ADS)

Lage, Claudia A. S.; Dalmaso, Gabriel Z. L.; Teixeira, Lia C. R. S.; Bendia, Amanda G.; Paulino-Lima, Ivan G.; Galante, Douglas; Janot-Pacheco, Eduardo; Abrevaya, Ximena C.; Azúa-Bustos, Armando; Pelizzari, Vivian H.; Rosado, Alexandre S.

2012-10-01

Astrobiology is a relatively recent scientific field that seeks to understand the origin and dynamics of life in the Universe. Several hypotheses have been proposed to explain life in the cosmic context throughout human history, but only now, technology has allowed many of them to be tested. Laboratory experiments have been able to show how chemical elements essential to life, such as carbon, nitrogen, oxygen and hydrogen combine in biologically important compounds. Interestingly, these compounds are ubiquitous. How these compounds were combined to the point of originating cells and complex organisms is still to be unveiled by science. However, our 4.5 billion years old Solar system appeared in a 10 billion years old Universe. Thus, simple cells such as micro-organisms may have had time to form in planets older than ours or in other suitable places in the Universe. One hypothesis related to the appearance of life on Earth is called panspermia, which predicts that microbial life could have been formed in the Universe billions of years ago, travelling between planets, and inseminating units of life that could have become more complex in habitable planets such as Earth. A project designed to test the viability of extremophile micro-organisms exposed to simulated extraterrestrial environments is in progress at the Carlos Chagas Filho Institute of Biophysics (UFRJ, Brazil) to test whether microbial life could withstand inhospitable environments. Radiation-resistant (known or novel ones) micro-organisms collected from extreme terrestrial environments have been exposed (at synchrotron accelerators) to intense radiation sources simulating Solar radiation, capable of emitting radiation in a few hours equivalent to many years of accumulated doses. The results obtained in these experiments reveal an interesting possibility of the existence of microbial life beyond Earth.

One Step Closer to Mars with Aquaponics: Cultivating Citizen Science in K12 Schools

NASA Technical Reports Server (NTRS)

Kolattukudy, Maria; Puranik, Niyati; Sane, Nishant; Bisht, Kritika; Saffat, Nabeeha; Gupta, Anika; McHugh, Anne; Detweiler, Angela; Bebout, Brad; Everroad, R. Craig

2017-01-01

The Microbial Ecology and Biogeochemistry Research Laboratory at NASA Ames Research Center focuses primarily on the nutrient cycling and diversity of complex microbial communities. NASA is interested in the composition and functioning of microbial mat communities as these processes fundamentally shape the form and function of these analogs for the earliest forms of life on Earth (3.6 billion years ago), and likely will on other planets as well. Aquaponics systems are supported by microbial communities who perform many complex ecosystem services, including cycling nitrogen. Microbes are integral to the stability and productivity of aquaponics systems, which are analogous to microbial communities in food production systems that are essential for building efficient life support systems for long-distance space travel. Students at Meadow Park Middle School created 10 parallel aquaponics systems and took temporal microbial samples to characterize whether any macro-ecology variables impacted or changed the microbial diversity of these systems. Students additionally created a website so that other classrooms can pursue similar projects in their own schools (https://go.nasa.gov/2uJhxmF). Our lab at NASA Ames has sequenced water samples from each of the 10 tanks at 3 timepoints using a MinION sequencer. MPMS students will be involved in the analysis of the bioinformatics data generated through this collaboration. Our ongoing collaboration aims to collect and analyze data in the classroom setting that has utility for research scientists, while involving students as collaborators in the research process.

Using Omics to Study Microbial Water Quality

EPA Science Inventory

Water is one of the most important resources of all natural ecosystems. Not only is water important to life, but it is also a habitat for a large diversity of microbial forms, in many cases carrying critical geochemical functions. In other instances, water is implicated in outbre...

Using Omics to Study Microbial Water Quality - abstract

EPA Science Inventory

Water is one of the most important resources of all natural ecosystems. Not only is water important to life, but it is also a habitat for a large diversity of microbial forms, in many cases carrying critical geochemical functions. In other instances, water is implicated in outbre...

Speciations and Extinctions in a Self-Organizing Critical Model of Tree-Like Evolution

NASA Astrophysics Data System (ADS)

Kramer, M.; Vandewalle, N.; Ausloos, M.

1996-04-01

We study analytically a simple model of a self-organized critical evolution. The model considers both extinction and speciation events leading to the growth of phylogenetic-like trees. Through a mean-field like theory, we study the evolution of the local configurations for the tree leaves. The fitness threshold, below which life activity takes place through avalanches of all sizes is calculated. The transition between speciating (evolving) and dead trees is obtained and is in agreement with numerical simulations. Moreover, this theoretical work suggests that the structure of the tree is strongly dependent on the extinction strength. Nous étudions analytiquement un modèle simple d'évolution auto-organisée critique. Le modèle considère des extinctions et des spéciations conduisant à une croissance d'arbre phylogénétiques. Nous étudions ici par une théorie de champ moyen l'évolution des configurations des extrémités de l'arbre. Le seuil critique de “fitness” en-dessous duquel des explosions d'activité biologique de toutes tailles se produisent est calculé. La transition entre arbres croissants et arbres éteints est également obtenue en accord avec les simulations. En outre, ce travail théorique suggère que la structure des arbres générés dépend fortement du paramètre d'extinctions.

Hierarchical spatial structure of stream fish colonization and extinction

USGS Publications Warehouse

Hitt, N.P.; Roberts, J.H.

2012-01-01

Spatial variation in extinction and colonization is expected to influence community composition over time. In stream fish communities, local species richness (alpha diversity) and species turnover (beta diversity) are thought to be regulated by high extinction rates in headwater streams and high colonization rates in downstream areas. We evaluated the spatiotemporal structure of fish communities in streams originally surveyed by Burton and Odum 1945 (Ecology 26: 182-194) in Virginia, USA and explored the effects of species traits on extinction and colonization dynamics. We documented dramatic changes in fish community structure at both the site and stream scales. Of the 34 fish species observed, 20 (59%) were present in both time periods, but 11 (32%) colonized the study area and three (9%) were extirpated over time. Within streams, alpha diversity increased in two of three streams but beta diversity decreased dramatically in all streams due to fish community homogenization caused by colonization of common species and extirpation of rare species. Among streams, however, fish communities differentiated over time. Regression trees indicated that reproductive life-history traits such as spawning mound construction, associations with mound-building species, and high fecundity were important predictors of species persistence or colonization. Conversely, native fishes not associated with mound-building exhibited the highest rates of extirpation from streams. Our results demonstrate that stream fish colonization and extinction dynamics exhibit hierarchical spatial structure and suggest that mound-building fishes serve as keystone species for colonization of headwater streams.

Living on the edge: Vulnerability of coral-dependent fishes in the Gulf.

PubMed

Buchanan, Jack R; Krupp, Friedhelm; Burt, John A; Feary, David A; Ralph, Gina M; Carpenter, Kent E

2016-04-30

In the Gulf, multiple human impacts and recurrent bleaching events have resulted in serious declines of coral assemblages, particularly in near-shore areas. However, the degree to which the extinction risk of coral-dependent fishes is impacted by these coral declines has been uncertain. Using primary literature and expert knowledge, coral-dependent fishes of the Gulf were identified and species-specific data on the regional distribution, population status, life history characteristics, and major threats were compiled to determine their likelihood of extinction under the IUCN Red List of Threatened Species' Categories and Criteria. Due to the limited area and degraded and fragmented nature of coral assemblages in the Gulf, all coral-dependent fishes (where data was sufficient to assess) were listed at elevated risk of extinction. Cross-boundary collaboration among Gulf States is necessary for effective management and protection of coral assemblages and their associated communities within this globally important region. Copyright © 2015 Elsevier Ltd. All rights reserved.

Spectral interferometric microscopy reveals absorption by individual optical nanoantennas from extinction phase

PubMed Central

Gennaro, Sylvain D.; Sonnefraud, Yannick; Verellen, Niels; Van Dorpe, Pol; Moshchalkov, Victor V.; Maier, Stefan A.; Oulton, Rupert F.

2014-01-01

Optical antennas transform light from freely propagating waves into highly localized excitations that interact strongly with matter. Unlike their radio frequency counterparts, optical antennas are nanoscopic and high frequency, making amplitude and phase measurements challenging and leaving some information hidden. Here we report a novel spectral interferometric microscopy technique to expose the amplitude and phase response of individual optical antennas across an octave of the visible to near-infrared spectrum. Although it is a far-field technique, we show that knowledge of the extinction phase allows quantitative estimation of nanoantenna absorption, which is a near-field quantity. To verify our method we characterize gold ring-disk dimers exhibiting Fano interference. Our results reveal that Fano interference only cancels a bright mode’s scattering, leaving residual extinction dominated by absorption. Spectral interference microscopy has the potential for real-time and single-shot phase and amplitude investigations of isolated quantum and classical antennas with applications across the physical and life sciences. PMID:24781663

Easy to remember, difficult to forget: the development of fear regulation

PubMed Central

Johnson, D.C.; Casey, B.J.

2014-01-01

Fear extinction learning is a highly adaptive process that involves the integrity of frontolimbic circuitry. Its disruption has been associated with emotional dysregulation in stress and anxiety disorders. In this article we consider how age, genetics and experiences shape our capacity to regulate fear in cross-species studies. Evidence for adolescent-specific diminished fear extinction learning is presented in the context of immature frontolimbic circuitry. We also present evidence for less neural plasticity in fear regulation as a function of early life stress and by genotype, focusing on the common brain derived neurotrophin factor (BDNF) Val66Met polymorphism. Finally, we discuss this work in the context of exposure-based behavioral therapies for the treatment of anxiety and stress disorders that are based on principles of fear extinction. We conclude by speculating on how such therapies may be optimized for the individual based on the patient’s age, genetic profile and personal history to move from standard treatment of care to personalized and precision medicine. PMID:25238998

Prefrontal dopamine regulates fear reinstatement through the downregulation of extinction circuits

PubMed Central

Hitora-Imamura, Natsuko; Miura, Yuki; Teshirogi, Chie; Ikegaya, Yuji; Matsuki, Norio; Nomura, Hiroshi

2015-01-01

Prevention of relapses is a major challenge in treating anxiety disorders. Fear reinstatement can cause relapse in spite of successful fear reduction through extinction-based exposure therapy. By utilising a contextual fear-conditioning task in mice, we found that reinstatement was accompanied by decreased c-Fos expression in the infralimbic cortex (IL) with reduction of synaptic input and enhanced c-Fos expression in the medial subdivision of the central nucleus of the amygdala (CeM). Moreover, we found that IL dopamine plays a key role in reinstatement. A reinstatement-inducing reminder shock induced c-Fos expression in the IL-projecting dopaminergic neurons in the ventral tegmental area, and the blocking of IL D1 signalling prevented reduction of synaptic input, CeM c-Fos expression, and fear reinstatement. These findings demonstrate that a dopamine-dependent inactivation of extinction circuits underlies fear reinstatement and may explain the comorbidity of substance use disorders and anxiety disorders. DOI: http://dx.doi.org/10.7554/eLife.08274.001 PMID:26226637

Isotopic evidence for an anomalously low oceanic sulfate concentration following end-Permian mass extinction

NASA Astrophysics Data System (ADS)

Luo, Genming; Kump, Lee R.; Wang, Yongbiao; Tong, Jinnan; Arthur, Michael A.; Yang, Hao; Huang, Junhua; Yin, Hongfu; Xie, Shucheng

2010-11-01

The cataclysmic end-Permian mass extinction was immediately followed by a global expansion of microbial ecosystems, as demonstrated by widespread microbialite sequences (disaster facies) in shallow water settings. Here we present high-resolution carbonate carbon ( δ13C carb) and carbonate-associated sulfate-sulfur isotope ( δ34S CAS) records from the microbialite in the Cili Permian-Triassic (P-Tr) section in South China. A stepwise decline in δ13C carb begins in the underlying skeletal limestone, predating the main oceanic mass extinction and the first appearance of microbialite, and reaches its nadir in the upper part of the microbialite layer. The corresponding δ34S CAS, in the range of 17.4‰ to 27.4‰, is relatively stable in the underlying skeletal limestone, and increases gradually from 2 m below the microbialite rising to a peak at the base of the microbialite. Two episodes of positive and negative shifts occurred within the microbialite layer, and exhibit a remarkable co-variance of sulfur and carbon isotope composition. The large amplitude of the variation in δ34S CAS, as high as 7‰ per 100 kiloyears, suggests a small oceanic sulfate reservoir size at this time. Furthermore, the δ13C carb and δ34S CAS records co-vary without phase lag throughout the microbialite interval, implying a marine-driven C cycle in an anoxic ocean with anomalously low oceanic sulfate concentrations. On the basis of a non-steady-state box model, we argue that the oceanic sulfate concentration may have fallen to less than 15%, perhaps as low as 3%, of that in the modern oceans. Low oceanic sulfate concentration likely was the consequence of evaporite deposition and widespread anoxic/sulfidic conditions prior to the main mass extinction. By promoting methanogenesis and a build-up of atmospheric CH 4 and CO 2, low oceanic sulfate may have intensified global warming, exacerbating the inimical environmental conditions of the latest Permian.

Panel Discussion: Life in the Cosmos

NASA Technical Reports Server (NTRS)

Hoover, Richard B.

2009-01-01

Water appears to be essential to all life on Earth. For this reason, "Follow the Water" has been adopted as a mantra for the search for Life in the Cosmos. Expeditions have helped to establish the limits and biodiversity of life in the most extreme environments on Earth. Microbial extremophiles inhabit acidic streams; hypersaline and hyperalkaline lakes and pools; the cold deep sea floor, permafrost, rocks, glaciers, and perennially ice-covered lakes of the polar environments; geysers, volcanic fumaroles, hydrothermal vents and hot rocks deep within the Earth's crust. The ESA Venus Express Spacecraft entered Venusian Orbit in 2006 and continues to produce exciting results. The Visible and Infrared Thermal Imaging Spectrometer (VIRTIS) instrument made the first detection of hydroxyl in the atmosphere of Venus, indicating it is much more similar to Earth and Mars than previously thought. Huge hurricane-like vortices have been found above the poles of the planet and as yet unidentified UV absorbers that form mysterious dark bands in the upper atmosphere. At 70 km and below, water vapor and sulfur dioxide combine to form sulfuric acid droplets that create a haze above the cloud tops. Thermophilic acidophiles, such as have recently been discovered on Earth, could possibly survive in the hot sulfuric acid droplets that exist in the upper atmosphere of Venus. In order to understand how to search for life elsewhere in the Solar System, over 40 VIRTIS images of Earth from Venus have been obtained to search for evidence of life on Earth. The signatures of water and molecular Oxygen were detected in the Earth s atmosphere, but the atmosphere of Venus also exhibits these signatures. The water and water ice are far more abundant on comet, the polar caps and permafrost of Mars and the icy moons of Jupiter and Saturn. These "frozen worlds" of our Solar System, are much more promising regimes where extant or extinct microbial life may exist. The ESA Mars Advanced Radar for Subsurface and Ionospheric Sounding (MARSIS) probe has found that both the North and South Polar Caps of Mars are approximately 3.5 km thick and are composed almost entirely of water ice. In winter, a thin dry ice layer covers the caps, but it sublimates directly to CO2 in the spring. The ESA Mars Express Orbiter images reveal Rupes Tenuis to be a vast snow-laden region on the southern edge of the Martian North Polar Cap. The Mars Exploration Rover Spirit found alkaline volcanic rocks in the Gusev Crater and the Phoenix Mars Lander has shown that the soil of Mars is much more alkaline than previously expected. The Phoenix Mars Lander has also made direct observations of frozen and liquid water on Mars. It is known that microorganisms from Alaska, Siberia and Antarctica can remain alive frozen in permafrost or ice for long periods of time. These discoveries increase the possibility that the Labeled Release Experiment may have discovered life on Mars during the Viking Mission and provide strong impetus for the return of life detection experiments to Mars. Changes in the spin rate of Saturn's moon Titan indicate that it may also harbor a 300 km thick liquid water ocean beneath its icy crust. The NASA/ESA/Italian Space Agency Cassini Spacecraft has imaged geysers containing water vapor, methane, carbon dioxide and organics erupting from the "tiger stripe" regions near the South Pole of Saturn's moon Enceladus. The high temperatures observed, the water vapor and large number of ice particles expelled suggest that a liquid water lake may exist beneath the "tiger stripe" ice cracks of Enceladus. The NASA Deep Impact probe found the surface temperature of comet 9P/Temple 1 at 1.5 AY was slightly above the ice/water phase change temperature (273 K). This suggests melting of water ice near the comet surface. A spectrometer the spacecraft detected a mixture of clay and carbonate minerals (that form in the presence of liquid water) streaming off the comet after the collision with the pactor. The study of chemical and mineral biomarkers, chiral amino acids and possible indigenous microfossils in SNC and carbonaceous meteorites continues. These results suggest that comets should be considered prime targets in the search for Life in the Cosmos. The ESA Rosetta mission is on track to rendezvous with comet 67P/Churyumov-Gerasimenko. The recent space observations combined with new information about the ability of microbial extremophiles to thrive in polar environments suggest that life may be far more widely distributed in the Cosmos than previously thought possible. The Panelists will review recent discoveries and provide their own insights about Life in the Cosmos -- followed by a question and answer session with the audience.

Seeing Ourselves in the Global Picture: Guideposts for a Sustainable Future.

ERIC Educational Resources Information Center

Nickerson, Mike

1992-01-01

Activities are sustainable when they use materials in cycles, use reliable energy sources, and derive from human potential. Nonsustainable activities require nonrenewable resources, cause environmental degradation, require quantities of resources not available to all, and lead to extinction of other life forms. (SK)

Climate Change Impacts on the Tree of Life: Changes in Phylogenetic Diversity Illustrated for Acropora Corals

PubMed Central

Faith, Daniel P.; Richards, Zoe T.

2012-01-01

The possible loss of whole branches from the tree of life is a dramatic, but under-studied, biological implication of climate change. The tree of life represents an evolutionary heritage providing both present and future benefits to humanity, often in unanticipated ways. Losses in this evolutionary (evo) life-support system represent losses in “evosystem” services, and are quantified using the phylogenetic diversity (PD) measure. High species-level biodiversity losses may or may not correspond to high PD losses. If climate change impacts are clumped on the phylogeny, then loss of deeper phylogenetic branches can mean disproportionately large PD loss for a given degree of species loss. Over time, successive species extinctions within a clade each may imply only a moderate loss of PD, until the last species within that clade goes extinct, and PD drops precipitously. Emerging methods of “phylogenetic risk analysis” address such phylogenetic tipping points by adjusting conservation priorities to better reflect risk of such worst-case losses. We have further developed and explored this approach for one of the most threatened taxonomic groups, corals. Based on a phylogenetic tree for the corals genus Acropora, we identify cases where worst-case PD losses may be avoided by designing risk-averse conservation priorities. We also propose spatial heterogeneity measures changes to assess possible changes in the geographic distribution of corals PD. PMID:24832524

Iron Transformation Pathways and Redox Micro-Environments in Seafloor Sulfide-Mineral Deposits: Spatially Resolved Fe XAS and δ57/54Fe Observations

PubMed Central

Toner, Brandy M.; Rouxel, Olivier J.; Santelli, Cara M.; Bach, Wolfgang; Edwards, Katrina J.

2016-01-01

Hydrothermal sulfide chimneys located along the global system of oceanic spreading centers are habitats for microbial life during active venting. Hydrothermally extinct, or inactive, sulfide deposits also host microbial communities at globally distributed sites. The main goal of this study is to describe Fe transformation pathways, through precipitation and oxidation-reduction (redox) reactions, and examine transformation products for signatures of biological activity using Fe mineralogy and stable isotope approaches. The study includes active and inactive sulfides from the East Pacific Rise 9°50′N vent field. First, the mineralogy of Fe(III)-bearing precipitates is investigated using microprobe X-ray absorption spectroscopy (μXAS) and X-ray diffraction (μXRD). Second, laser-ablation (LA) and micro-drilling (MD) are used to obtain spatially-resolved Fe stable isotope analysis by multicollector-inductively coupled plasma-mass spectrometry (MC-ICP-MS). Eight Fe-bearing minerals representing three mineralogical classes are present in the samples: oxyhydroxides, secondary phyllosilicates, and sulfides. For Fe oxyhydroxides within chimney walls and layers of Si-rich material, enrichments in both heavy and light Fe isotopes relative to pyrite are observed, yielding a range of δ57Fe values up to 6‰. Overall, several pathways for Fe transformation are observed. Pathway 1 is characterized by precipitation of primary sulfide minerals from Fe(II)aq-rich fluids in zones of mixing between vent fluids and seawater. Pathway 2 is also consistent with zones of mixing but involves precipitation of sulfide minerals from Fe(II)aq generated by Fe(III) reduction. Pathway 3 is direct oxidation of Fe(II) aq from hydrothermal fluids to form Fe(III) precipitates. Finally, Pathway 4 involves oxidative alteration of pre-existing sulfide minerals to form Fe(III). The Fe mineralogy and isotope data do not support or refute a unique biological role in sulfide alteration. The findings reveal a dynamic range of Fe transformation pathways consistent with a continuum of micro-environments having variable redox conditions. These micro-environments likely support redox cycling of Fe and S and are consistent with culture-dependent and -independent assessments of microbial physiology and genetic diversity of hydrothermal sulfide deposits. PMID:27242685

Iron transformation pathways and redox micro-environments in seafloor sulfide-mineral deposits: Spatially resolved Fe XAS and δ 57/54Fe observations

DOE PAGES

Toner, Brandy M.; Rouxel, Olivier J.; Santelli, Cara M.; ...

2016-05-10

Hydrothermal sulfide chimneys located along the global system of oceanic spreading centers are habitats for microbial life during active venting. Hydrothermally extinct, or inactive, sulfide deposits also host microbial communities at globally distributed sites. The main goal of this study is to describe Fe transformation pathways, through precipitation and oxidation-reduction (redox) reactions, and examine transformation products for signatures of biological activity using Fe mineralogy and stable isotope approaches. The study includes active and inactive sulfides from the East Pacific Rise 9°50'N vent field. First, the mineralogy of Fe(III)-bearing precipitates is investigated using microprobe X-ray absorption spectroscopy (μXAS) and X-ray diffractionmore » (μXRD). Second, laser-ablation (LA) and micro-drilling (MD) are used to obtain spatially-resolved Fe stable isotope analysis by multicollector-inductively coupled plasma-mass spectrometry (MC-ICP-MS). Eight Fe-bearing minerals representing three mineralogical classes are present in the samples: oxyhydroxides, secondary phyllosilicates, and sulfides. For Fe oxyhydroxides within chimney walls and layers of Si-rich material, enrichments in both heavy and light Fe isotopes relative to pyrite are observed, yielding a range of δ 57Fe values up to 6‰. Overall, several pathways for Fe transformation are observed. Pathway 1 is characterized by precipitation of primary sulfide minerals from Fe(II)aq-rich fluids in zones of mixing between vent fluids and seawater. Pathway 2 is also consistent with zones of mixing but involves precipitation of sulfide minerals from Fe(II)aq generated by Fe(III) reduction. Pathway 3 is direct oxidation of Fe(II) aq from hydrothermal fluids to form Fe(III) precipitates. Finally, Pathway 4 involves oxidative alteration of pre-existing sulfide minerals to form Fe(III). The Fe mineralogy and isotope data do not support or refute a unique biological role in sulfide alteration. The findings reveal a dynamic range of Fe transformation pathways consistent with a continuum of micro-environments having variable redox conditions. Lastly, these micro-environments likely support redox cycling of Fe and S and are consistent with culture-dependent and -independent assessments of microbial physiology and genetic diversity of hydrothermal sulfide deposits.« less

Proceedings of the NASA Microbiology Workshop

NASA Technical Reports Server (NTRS)

Roman, M. C.; Jan, D. L.

2012-01-01

Long-term spaceflight is characterized by extraordinary challenges to maintain the life-supporting instrumentation free from microbial contamination and the crew healthy. The methodology currently employed for microbial monitoring in space stations or short spaceflights within the orbit of Earth have been instrumental in safeguarding the success of the missions, but suffers certain shortcomings that are critical for long spaceflights. This workshop addressed current practices and methodologies for microbial monitoring in space systems, and identified and discussed promising alternative methodologies and cutting-edge technologies for pursuit in the microbial monitoring that hold promise for supporting future NASA long-duration space missions.

Magnetic Fe, Si, Al-Rich Impact Spherules from the P-T Boundary Layer at Graphite Peak, Antarctica

NASA Technical Reports Server (NTRS)

Petaev, M. I.; Jacobsen, S. B.; Basu, A. R.; Becker, L.

2004-01-01

The geological boundary between Triassic and Permian strata coincides with the greatest life extinction in the Earth's history. Although the cause of the extinction is still the subject of intense debates, recent discoveries in the P-T boundary layer of shocked quartz grains, fullerenes with the extraterrestrial noble gases, Fe metal nuggets, and chondritic meteorite fragments all point to a powerful collision of Earth with a celestial body in the late Permian. Here we report the discovery of magnetic Fe, Si, Al-rich impact spherules which accompany the chondritic meteorite fragments in some samples from the P-T boundary layer at Graphite Peak, Antarctica.

Microbial consortia in Oman oil fields: a possible use in enhanced oil recovery.

PubMed

Al-Bahry, Saif N; Elshafie, Abdulkader E; Al-Wahaibi, Yahya M; Al-Bemani, Ali S; Joshi, Sanket J; Al-Maaini, Ratiba A; Al-Alawi, Wafa J; Sugai, Yuichi; Al-Mandhari, Mussalam

2013-01-01

Microbial enhanced oil recovery (MEOR) is one of the most economical and efficient methods for extending the life of production wells in a declining reservoir. Microbial consortia from Wafra oil wells and Suwaihat production water, Al-Wusta region, Oman were screened. Microbial consortia in brine samples were identified using denaturing gradient gel electrophoresis and 16S rRNA gene sequences. The detected microbial consortia of Wafra oil wells were completely different from microbial consortia of Suwaihat formation water. A total of 33 genera and 58 species were identified in Wafra oil wells and Suwaihat production water. All of the identified microbial genera were first reported in Oman, with Caminicella sporogenes for the first time reported from oil fields. Most of the identified microorganisms were found to be anaerobic, thermophilic, and halophilic, and produced biogases, biosolvants, and biosurfactants as by-products, which may be good candidates for MEOR.

Biogeochemical Processes in Microbial Ecosystems

NASA Technical Reports Server (NTRS)

DesMarais, David J.

2001-01-01

The hierarchical organization of microbial ecosystems determines process rates that shape Earth's environment, create the biomarker sedimentary and atmospheric signatures of life, and define the stage upon which major evolutionary events occurred. In order to understand how microorganisms have shaped the global environment of Earth and, potentially, other worlds, we must develop an experimental paradigm that links biogeochemical processes with ever-changing temporal and spatial distributions of microbial populations and their metabolic properties. Additional information is contained in the original extended abstract.

[Special mechanisms for reducing life span of cells and organisms, initiated by some weak external signals].

PubMed

Bychkovskaia, I B; Fedortseva, R F

2014-01-01

The study presents the results of many-years research conducted using biological objects of different organization level. It demonstrates special species-nonspecific form of weak external signals negative effect to cells life expectancy reduction caused by program damage of cells populations. This effect is detected after weak radiation, radio-chemical and thermal influences. It leads to faster extinction of postmitotic populations which can be a reason for life expectancy reduction of multicellular organisms. A possibility of such effect inheritance in the asexual and sexual reproduction is shown. Epigenetic mechanisms of this phenomenon are assumed.

Psychrophilic and Psychrotolerant Microbial Extremophiles in Polar Environments

NASA Technical Reports Server (NTRS)

Hoover, Richard B.; Pikuta, Elena V.

2010-01-01

The microbial extremophiles that inhabit the polar regions of our planet are of tremendous significance. The psychrophilic and psychrotolerant microorganisms, which inhabit all of the cold environments on Earth have important applications to Bioremediation, Medicine, Pharmaceuticals, and many other areas of Biotechnology. Until recently, most of the research on polar microorganisms was confined to studies of polar diatoms, yeast, fungi and cyanobacteria. However, within the past three decades, extensive studies have been conducted to understand the bacteria and archaea that inhabit the Arctic and Antarctic sea-ice, glaciers, ice sheets, permafrost and the cryptoendolithic, cryoconite and ice-bubble environments. These investigations have resulted in the discovery of many new genera and species of anaerobic and aerobic microbial extremophiles. Exotic enzymes, cold-shock proteins and pigments produced by some of the extremophiles from polar environments have the potential to be of great benefit to Mankind. Knowledge about microbial life in the polar regions is crucial to understanding the limitations and biodiversity of life on Earth and may provide valuable clues to the Origin of Life on Earth. The discovery of viable microorganisms in ancient ice from the Fox Tunnel, Alaska and the deep Vostok Ice has shown that microorganisms can remain alive while cryopreserved in ancient ice. The psychrophilic lithoautotrophic homoacetogen isolated from the deep anoxic trough of Lake Untersee is an ideal candidate for life that might inhabit comets or the polar caps of Mars. The spontaneous release of gas from within the Anuchin Glacier above Lake Untersee may provide clues to the ice geysers that erupt from the tiger stripe regions of Saturn s moon Enceladus. The methane productivity in the lower regimes of Lake Untersee may also provide insights into possible mechanisms for the recently discovered methane releases on Mars. Since most of the other water bearing bodies of our Solar system are frozen worlds, microbial extremophiles from the Polar Regions of Earth are of great importance to Astrobiology in understanding where and how to search for evidence of life elsewhere in the Cosmos.

Mathematical Modeling of Extinction of Inhomogeneous Populations

PubMed Central

Karev, G.P.; Kareva, I.

2016-01-01

Mathematical models of population extinction have a variety of applications in such areas as ecology, paleontology and conservation biology. Here we propose and investigate two types of sub-exponential models of population extinction. Unlike the more traditional exponential models, the life duration of sub-exponential models is finite. In the first model, the population is assumed to be composed clones that are independent from each other. In the second model, we assume that the size of the population as a whole decreases according to the sub-exponential equation. We then investigate the “unobserved heterogeneity”, i.e. the underlying inhomogeneous population model, and calculate the distribution of frequencies of clones for both models. We show that the dynamics of frequencies in the first model is governed by the principle of minimum of Tsallis information loss. In the second model, the notion of “internal population time” is proposed; with respect to the internal time, the dynamics of frequencies is governed by the principle of minimum of Shannon information loss. The results of this analysis show that the principle of minimum of information loss is the underlying law for the evolution of a broad class of models of population extinction. Finally, we propose a possible application of this modeling framework to mechanisms underlying time perception. PMID:27090117

High molecular weight dissolved organic matter enrichment selects for methylotrophs in dilution to extinction cultures

PubMed Central

Sosa, Oscar A; Gifford, Scott M; Repeta, Daniel J; DeLong, Edward F

2015-01-01

The role of bacterioplankton in the cycling of marine dissolved organic matter (DOM) is central to the carbon and energy balance in the ocean, yet there are few model organisms available to investigate the genes, metabolic pathways, and biochemical mechanisms involved in the degradation of this globally important carbon pool. To obtain microbial isolates capable of degrading semi-labile DOM for growth, we conducted dilution to extinction cultivation experiments using seawater enriched with high molecular weight (HMW) DOM. In total, 93 isolates were obtained. Amendments using HMW DOM to increase the dissolved organic carbon concentration 4x (280 μM) or 10x (700 μM) the ocean surface water concentrations yielded positive growth in 4–6% of replicate dilutions, whereas <1% scored positive for growth in non-DOM-amended controls. The majority (71%) of isolates displayed a distinct increase in cell yields when grown in increasing concentrations of HMW DOM. Whole-genome sequencing was used to screen the culture collection for purity and to determine the phylogenetic identity of the isolates. Eleven percent of the isolates belonged to the gammaproteobacteria including Alteromonadales (the SAR92 clade) and Vibrio. Surprisingly, 85% of isolates belonged to the methylotrophic OM43 clade of betaproteobacteria, bacteria thought to metabolically specialize in degrading C1 compounds. Growth of these isolates on methanol confirmed their methylotrophic phenotype. Our results indicate that dilution to extinction cultivation enriched with natural sources of organic substrates has a potential to reveal the previously unsuspected relationships between naturally occurring organic nutrients and the microorganisms that consume them. PMID:25978545

APPLICATION OF ELASTICITY ANALYSES AND PERTURBATION SIMULATIONS IN DETERMINING STRESSOR IMPACTS ON POPULATION GROWTH RATE AND EXTINCTION RISK

EPA Science Inventory

Population structure and life history strategies are determinants of how populations respond to stressor-induced impairments in individual-level responses, but a consistent and holistic analysis has not been reported. Effects on population growth rate were modeled using five theo...

Jurassic Park Insects

ERIC Educational Resources Information Center

Graff, Robert

2009-01-01

This lesson begins with a discussion on prehistoric times and how most life forms have either become extinct or have evolved into something people see in the environment today. Most of the conversation revolves around dinosaurs or animals on the endangered species list, such as the panda or polar bear. The author directed the conversation to…

Genome-Based Microbial Taxonomy Coming of Age.

PubMed

Hugenholtz, Philip; Skarshewski, Adam; Parks, Donovan H

2016-06-01

Reconstructing the complete evolutionary history of extant life on our planet will be one of the most fundamental accomplishments of scientific endeavor, akin to the completion of the periodic table, which revolutionized chemistry. The road to this goal is via comparative genomics because genomes are our most comprehensive and objective evolutionary documents. The genomes of plant and animal species have been systematically targeted over the past decade to provide coverage of the tree of life. However, multicellular organisms only emerged in the last 550 million years of more than three billion years of biological evolution and thus comprise a small fraction of total biological diversity. The bulk of biodiversity, both past and present, is microbial. We have only scratched the surface in our understanding of the microbial world, as most microorganisms cannot be readily grown in the laboratory and remain unknown to science. Ground-breaking, culture-independent molecular techniques developed over the past 30 years have opened the door to this so-called microbial dark matter with an accelerating momentum driven by exponential increases in sequencing capacity. We are on the verge of obtaining representative genomes across all life for the first time. However, historical use of morphology, biochemical properties, behavioral traits, and single-marker genes to infer organismal relationships mean that the existing highly incomplete tree is riddled with taxonomic errors. Concerted efforts are now needed to synthesize and integrate the burgeoning genomic data resources into a coherent universal tree of life and genome-based taxonomy. Copyright © 2016 Cold Spring Harbor Laboratory Press; all rights reserved.

Astrobiology and Microbial Diversity Websites at MBL

NASA Astrophysics Data System (ADS)

Bahr, M.; Bordenstein, S. R.

2006-12-01

The NASA Astrobiology Institute (NAI) mission is to study the origin, evolution and future of life in the Universe. The MBL Astrobiology team explores the evolution and interaction of genomes of diverse organisms that play significant roles in environmental biology over evolutionary time scales. Communication about our research includes the personal contact of teacher workshops, and the development of web-based resources. Microbial Life Educational Resources (MLER) provides an expanding internet resource about the ecology, diversity and evolution for students, K-12 teachers, university faculty, and the general public. MLER includes websites, PowerPoint presentations, teaching activities, data sets, and other useful materials for creating or enhancing courses related to astrobiology. Our second site, micro*scope (http://microscope.mbl.edu), has images of microbes, classification schemes, descriptions of organisms, talks and other educational resources to improve awareness of the biodiversity of our microbial partners.

Chapter 4. Susceptibility of sharks, rays and chimaeras to global extinction.

PubMed

Field, Iain C; Meekan, Mark G; Buckworth, Rik C; Bradshaw, Corey J A

2009-01-01

Marine biodiversity worldwide is under increasing threat, primarily as a result of over-harvesting, pollution and climate change. Chondrichthyan fishes (sharks, rays and chimaeras) have a perceived higher intrinsic risk of extinction compared to other fish. Direct fishing mortality has driven many declines, even though some smaller fisheries persist without associated declines. Mixed-species fisheries are of particular concern, as is illegal, unreported and unregulated (IUU) fishing. The lack of specific management and reporting mechanisms for the latter means that many chondrichthyans might already be susceptible to extinction from stochastic processes entirely unrelated to fishing pressure itself. Chondrichthyans might also suffer relatively more than other marine taxa from the effects of fishing and habitat loss and degradation given coastal habitat use for specific life stages. The effects of invasive species and pollution are as yet too poorly understood to predict their long-term role in affecting chondrichthyan population sizes. The spatial distribution of threatened chondrichthyan species under World Conservation Union (IUCN) Red List criteria are clustered mainly in (1) south-eastern South America; (2) western Europe and the Mediterranean; (3) western Africa; (4) South China Sea and Southeast Asia and (5) south-eastern Australia. To determine which ecological and life history traits predispose chondrichthyans to being IUCN Red-Listed, and to examine the role of particular human activities in exacerbating threat risk, we correlated extant marine species' Red List categorisation with available ecological (habitat type, temperature preference), life history (body length, range size) and human-relationship (whether commercially or game-fished, considered dangerous to humans) variables. Threat risk correlations were constructed using generalised linear mixed-effect models to account for phylogenetic relatedness. We also contrasted results for chondrichthyans to marine teleosts to test explicitly whether the former group is intrinsically more susceptible to extinction than fishes in general. Around 52% of chondrichthyans have been Red-Listed compared to only 8% of all marine teleosts; however, listed teleosts were in general placed more frequently into the higher-risk categories relative to chondrichthyans. IUCN threat risk in both taxa was positively correlated with body size and negatively correlated albeit weakly, with geographic range size. Even after accounting for the positive influence of size, Red-Listed teleosts were still more likely than chondrichthyans to be classified as threatened. We suggest that while sharks might not have necessarily experienced the same magnitude of deterministic decline as Red-Listed teleosts, their larger size and lower fecundity (not included in the analysis) predispose chondrichthyans to a higher risk of extinction overall. Removal of these large predators can elicit trophic cascades and destabilise the relative abundance of smaller species. Predator depletions can lead to permanent shifts in marine communities and alternate equilibrium states. Climate change might influence the phenology and physiology of some species, with the most probable response being changes in the timing of migrations and shifts in distribution. The synergistic effects among harvesting, habitat changes and climate-induced forcings are greatest for coastal chondrichthyans with specific habitat requirements and these are currently the most likely candidates for extinction. Management of shark populations must take into account the rate at which drivers of decline affect specific species. Only through the detailed collection of data describing demographic rates, habitat affinities, trophic linkages and geographic ranges, and how environmental stressors modify these, can extinction risk be more precisely estimated and reduced. The estimation of minimum viable population sizes, below which rapid extinction is more likely due to stochastic processes, is an important component of this endeavour and should accompany many of the current approaches used in shark management worldwide.

Solving the problems with chirality as a biomarker for alien life

NASA Astrophysics Data System (ADS)

Levin, Gilbert V.

2010-09-01

The basis for chiral biomarkers that have been increasingly proposed to obtain evidence for life is reviewed. Specific problems in accepting them and other biomarkers as proof of life are cited. A new chiral method is offered to overcome these difficulties, a method that can make an unambiguous determination of extant microbial life.

The deep, hot biosphere.

PubMed

Gold, T

1992-07-01

There are strong indications that microbial life is widespread at depth in the crust of the Earth, just as such life has been identified in numerous ocean vents. This life is not dependent on solar energy and photosynthesis for its primary energy supply, and it is essentially independent of the surface circumstances. Its energy supply comes from chemical sources, due to fluids that migrate upward from deeper levels in the Earth. In mass and volume it may be comparable with all surface life. Such microbial life may account for the presence of biological molecules in all carbonaceous materials in the outer crust, and the inference that these materials must have derived from biological deposits accumulated at the surface is therefore not necessarily valid. Subsurface life may be widespread among the planetary bodies of our solar system, since many of them have equally suitable conditions below, while having totally inhospitable surfaces. One may even speculate that such life may be widely disseminated in the universe, since planetary type bodies with similar subsurface conditions may be common as solitary objects in space, as well as in other solar-type systems.

Under the sea: microbial life in volcanic oceanic crust.

PubMed

Edwards, Katrina J; Wheat, C Geoffrey; Sylvan, Jason B

2011-09-06

Exploration of the microbiology in igneous, 'hard rock' oceanic crust represents a major scientific frontier. The igneous crust harbours the largest aquifer system on Earth, most of which is hydrologically active, resulting in a substantial exchange of fluids, chemicals and microorganisms between oceanic basins and crustal reservoirs. Study of the deep-subsurface biosphere in the igneous crust is technically challenging. However, technologies have improved over the past decade, providing exciting new opportunities for the study of deep-seated marine life, including in situ and cross-disciplinary experimentation in microbiology, geochemistry and hydrogeology. In this Progress article, we describe the recent advances, available technology and remaining challenges in the study of the marine intraterrestrial microbial life that is harboured in igneous oceanic crust.

Improvement in shelf life of minimally processed cilantro leaves through integration of kinetin pretreatment and packaging interventions: Studies on microbial population dynamics, biochemical characteristics and flavour retention.

PubMed

Ranjitha, K; Shivashankara, K S; Sudhakar Rao, D V; Oberoi, Harinder Singh; Roy, T K; Bharathamma, H

2017-04-15

Effect of integrating optimized combination of pretreatment with packaging on shelf life of minimally processed cilantro leaves (MPCL) was appraised through analysis of their sensory attributes, biochemical characteristics, microbial population and flavour profile during storage. Minimally pretreated cilantro leaves pretreated with 50ppm kinetin and packed in 25μ polypropylene bags showed a shelf life of 21days. Optimized combination helped in efficiently maintaining sensory parameters, flavour profile, and retention of antioxidants in MPCL until 21days. Studies conducted on the effect of optimized combination on microbial population and flavour profile revealed that among different microorganisms, pectinolysers had a significant effect on spoilage of MPCL and their population of ⩽3.59logcfu/g was found to be acceptable. Principal component analysis of headspace volatiles revealed that (E)-2-undecenal, (E)-2-hexadecenal, (E)-2-tetradecenal & (E)-2-tetradecen-1-ol in stored samples clustered with fresh samples and therefore, could be considered as freshness indicators for MPCL. Copyright © 2016 Elsevier Ltd. All rights reserved.

Shelf-life extension of semi-dried buckwheat noodles by the combination of aqueous ozone treatment and modified atmosphere packaging.

PubMed

Bai, Yi-Peng; Guo, Xiao-Nao; Zhu, Ke-Xue; Zhou, Hui-Ming

2017-12-15

The present study investigated the combined effects of aqueous ozone treatment and modified atmosphere packaging (MAP) on prolonging the shelf-life of semi-dried buckwheat noodles [SBWN; moisture content (22.5±0.5%)] at 25°C. Firstly, the different concentrations of ozonated water were used to make SBWN. Subsequently, SBWN prepared with ozonated water were packaged under six different conditions and stored for 11days. Changes in microbial, chemical-physical, textural properties and sensorial qualities of SWBN were monitored during storage. Microbiological results indicated that adopting 2.21mg/L of ozonated water resulted in a 1.8 log 10 CFU/g reduction of the initial microbial loads in SBWN. In addition, MAP suppressed the microbial growth with a concomitant reduction in the rates of acidification and quality deteriorations of SBWN. Finally, the shelf-life of sample packed under N 2 :CO 2 =30:70 was extended to 9days, meanwhile textural and sensorial characteristics were maintained during the whole storage period. Copyright © 2017 Elsevier Ltd. All rights reserved.

Microbial ecology and host-microbiota interactions during early life stages

PubMed Central

Collado, Maria Carmen; Cernada, Maria; Baüerl, Christine; Vento, Máximo; Pérez-Martínez, Gaspar

2012-01-01

The role of human microbiota has been redefined during recent years and its physiological role is now much more important than earlier understood. Intestinal microbial colonization is essential for the maturation of immune system and for the developmental regulation of the intestinal physiology. Alterations in this process of colonization have been shown to predispose and increase the risk to disease later in life. The first contact of neonates with microbes is provided by the maternal microbiota. Moreover, mode of delivery, type of infant feeding and other perinatal factors can influence the establishment of the infant microbiota. Taken into consideration all the available information it could be concluded that the exposure to the adequate microbes early in gestation and neonatal period seems to have a relevant role in health. Maternal microbial environment affects maternal and fetal immune physiology and, of relevance, this interaction with microbes at the fetal-maternal interface could be modulated by specific microbes administered to the pregnant mother. Indeed, probiotic interventions aiming to reduce the risk of immune-mediated diseases may appear effective during early life. PMID:22743759

Homochirality as the signature of life: the SETH Cigar

NASA Technical Reports Server (NTRS)

MacDermott, A. J.; Barron, L. D.; Brack, A.; Buhse, T.; Drake, A. F.; Emery, R.; Gottarelli, G.; Greenberg, J. M.; Haberle, R.; Hegstrom, R. A.;

Homochirality as the signature of life: the SETH Cigar

NASA Astrophysics Data System (ADS)

MacDermott, A. J.; Barron, L. D.; Brack, A.; Buhse, T.; Drake, A. F.; Emery, R.; Gottarelli, G.; Greenberg, J. M.; Haberle, R.; Hegstrom, R. A.; Hobbs, K.; Kondepudi, D. K.; McKay, C.; Moorbath, S.; Raulin, F.; Sandford, M.; Schwartzman, D. W.; Thiemann, W. H.-P.; Tranter, G. E.; Zarnecki, J. C.

1996-11-01

A characteristic hallmark of life is its homochirality; all biomolecules are usually of one hand, e.g. on Earth life uses only L-amino acids for protein synthesis and not their D mirror images. It is therefore suggested that a search for extra-terrestrial life can be approached as a Search for Extra-Terrestrial Homochirality (SETH). A novel miniaturized space polarimeter, called the SETH Cigar, is described which could be used to detect optical rotation as the homochiral signature of life on other planets. Moving parts are avoided by replacing the normal rotating polarizer by multiple fixed polarizers at different angles as in the eye of the bee. It is believed that homochirality will be found in the subsurface layers on Mars as a relic of extinct life.

Deep and Ultra-deep Underground Observatory for In Situ Stress, Fluids, and Life

NASA Astrophysics Data System (ADS)

Boutt, D. F.; Wang, H.; Kieft, T. L.

2008-12-01

The question 'How deeply does life extend into the Earth?' forms a single, compelling vision for multidisciplinary science opportunities associated with physical and biological processes occurring naturally or in response to construction in the deep and ultra-deep subsurface environment of the Deep Underground Science and Engineering Laboratory (DUSEL) in the former Homestake mine. The scientific opportunity is to understand the interaction between the physical environment and microbial life, specifically, the coupling among (1) stress state and deformation; (2) flow and transport and origin of fluids; and (3) energy and nutrient sources for microbial life; and (4) microbial identity, diversity and activities. DUSEL-Homestake offers the environment in which these questions can be addressed unencumbered by competing human activities. Associated with the interaction among these variables are a number of questions that will be addressed at variety of depths and scales in the facility: What factors control the distribution of life as a function of depth and temperature? What patterns in microbial diversity, microbial activity and nutrients are found along this gradient? How do state variables (stress, strain, temperature, and pore pressure) and constitutive properties (permeability, porosity, modulus, etc.) vary with scale (space, depth, time) in a large 4D heterogeneous system: core - borehole - drift - whole mine - regional? How are fluid flow and stress coupled in a low-permeability, crystalline environment dominated by preferential flow paths? How does this interaction influence the distribution of fluids, solutes, gases, colloids, and biological resources (e.g. energy and nutritive substrates) in the deep continental subsurface? What is the interaction between geomechanics/geohydrology and microbiology (microbial abundance, diversity, distribution, and activities)? Can relationships elucidated within the mechanically and hydrologically altered subsurface habitat of the Homestake DUSEL be extrapolated to the pristine subsurface biosphere? In the absence of extensive intrusive investigations (drifts, mines, etc), can we characterize hydrogeologic and geomechanical processes in the subsurface? To what depth can we effectively characterize such processes, and what is the confidence in our interpretations? In addition to addressing these question in the 10-km3 of mine volume, the Homestake facility offers the deepest drilling platform in North America. The extant depth of 8000 feet can be doubled by drilling. An array of three or more 8,200 ft. boreholes, wire-line drilled from the 8,000 ft. level at Homestake will probe to at least 16,200 ft. below land surface, a depth at this location approaching the expected lower biosphere limit (e.g. the 120°C isotherm). Cores will be collected aseptically and then fracture patterns (e.g., orientation, aperture, etc.) will be determined and fracture fluids will be intensively sampled over time. Cores and fracture fluids will be analyzed for indigenous microbial communities, including their genetic elements, metabolic processes, and biosignatures.

Microbial biodiversity, quality and shelf life of microfiltered and pasteurized extended shelf life (ESL) milk from Germany, Austria and Switzerland.

PubMed

Schmidt, Verena S J; Kaufmann, Veronika; Kulozik, Ulrich; Scherer, Siegfried; Wenning, Mareike

2012-03-01

Information on factors limiting the shelf life of extended shelf life (ESL) milk produced by microfiltration and subsequent pasteurization is very limited. In this study, three different batches of ESL milk were analyzed at different stages of the production process and during storage at 4 °C, 8 °C and 10 °C in order to evaluate the changes in bacterial cell counts, microbial diversity and enzymatic quality. Additionally, detailed biodiversity analyses of 250 retail ESL milk packages produced by five manufacturers in Germany, Austria and Switzerland were performed at the end of shelf life. It was observed that microfiltration decreased the microbial loads by 5-6 log₁₀ units to lower than 1 CFU/mL. However, bacterial counts at the end of shelf life were extremely variable and ranged between <1 and 8 log₁₀ CFU/mL. 8% of all samples showed spoilage indicated by cell counts higher than 6 log₁₀ CFU/mL. The main spoilage groups of bacteria were Gram-negative post-process recontaminants (Acinetobacter, Chryseobacterium, Psychrobacter, Sphingomonas) and the spore formers Paenibacillus and Bacillus cereus, while other spore formers and Microbacterium spp. did not reach spoilage levels. Paenibacillus spp. and B. cereus apparently influenced enzymatic spoilage, as indicated by increased free fatty acid production, pH 4.6 soluble peptide fractions and off-flavors. In some cases, enzymatic spoilage was observed although microbial counts were well below 6 log₁₀ CFU/mL. Thirteen B. cereus isolates were characterized for their toxin profiles and psychrotolerance. Hbl, nhe, and cytK toxin genes were detected in ten, thirteen, and four isolates, respectively, whereas the ces gene was always absent. Interestingly, only three of the thirteen isolates could be allocated to psychrotolerant genotypes, as indicated by the major cold shock cspA gene signature. Generally, large discrepancies in microbial loads and biodiversity were observed at the end of shelf life, even among packages of the same production batch. We suggest that such unexpected differences may be due to very low cell counts after ESL treatment, causing stochastic variations of initial species distributions in individual packages. This would result in the development of significantly different bacterial populations during cold storage, including the occasional development of high numbers of pathogenic species such as B. cereus or Acinetobacter. Copyright © 2011 Elsevier B.V. All rights reserved.

Microbial biotechnology addressing the plastic waste disaster.

PubMed

Narancic, Tanja; O'Connor, Kevin E

2017-09-01

Oceans are a major source of biodiversity, they provide livelihood, and regulate the global ecosystem by absorbing heat and CO 2 . However, they are highly polluted with plastic waste. We are discussing here microbial biotechnology advances with the view to improve the start and the end of life of biodegradable polymers, which could contribute to the sustainable use of marine and coastal ecosystems (UN Sustainability development goal 14). © 2017 The Authors. Microbial Biotechnology published by John Wiley & Sons Ltd and Society for Applied Microbiology.

Ecogenomics: Ensemble Analysis of Gene Expression in Microbial Communities

NASA Technical Reports Server (NTRS)

Sogin, Mitchell; DesMarais, David J.; Stahl, D. A.; Pace, Norman R.

2001-01-01

The hierarchical organization of microbial ecosystems determines process rates that shape Earth's environment, create the biomarker sedimentary and atmospheric signatures of life, and define the stage upon which major evolutionary events occurred. In order to understand how microorganisms have shaped the global environment of Earth and, potentially, other worlds, we must develop an experimental paradigm that links biogeochemical processes with ever-changing temporal and spatial distributions of microbial populations and their metabolic properties. Additional information is contained in the original extended abstract.

DART Employees at Work

NASA Image and Video Library

2014-10-31

The Dust Atmospheric Recovery Technology, or DART, spacecraft is being assembled in a laboratory inside the Space Life Sciences Lab at NASA’s Kennedy Space Center in Florida. DART will characterize the dust loading and microbial diversity in the atmosphere over Florida during summer months with a special emphasis on their interactions during an African dust storm. DART will be used to collect atmospheric aerosols and suspended microbial cells over Florida and Kennedy. Results will help predict the risks of excessive microbial contamination adhering to spacecraft surfaces.

DART Employees at Work

NASA Image and Video Library

2014-10-31

A researcher at NASA’s Kennedy Space Center in Florida checks a reading on the Dust Atmospheric Recovery Technology, or DART, spacecraft inside a laboratory at the Space Life Sciences Lab. DART will characterize the dust loading and microbial diversity in the atmosphere over Florida during summer months with a special emphasis on their interactions during an African dust storm. DART will be used to collect atmospheric aerosols and suspended microbial cells over Florida and Kennedy. Results will help predict the risks of excessive microbial contamination adhering to spacecraft surfaces.

DART Employees at Work

NASA Image and Video Library

2014-10-31

Researchers at NASA’s Kennedy Space Center in Florida check readings on the Dust Atmospheric Recovery Technology, or DART, spacecraft inside a laboratory at the Space Life Sciences Lab. DART will characterize the dust loading and microbial diversity in the atmosphere over Florida during summer months with a special emphasis on their interactions during an African dust storm. DART will be used to collect atmospheric aerosols and suspended microbial cells over Florida and Kennedy. Results will help predict the risks of excessive microbial contamination adhering to spacecraft surfaces.

Microbial Quality and Shelf Life of Blueberry Purée Developed Using Cavitation Technology.

PubMed

Fan, Lihua; Martynenko, Alex; Doucette, Craig; Hughes, Timothy; Fillmore, Sherry

2018-03-01

Blueberry purée was developed using hydrodynamic cavitation technology. The product was made from entire blueberries without adding any food additives. In this study, microbial reduction following each processing stage (at the industry setting) and after product pasteurization at 86, 88, 90, 92, 94, and 96 °C was investigated. Microbial quality including total plate counts, yeast and molds, and heat-resistant molds counts was determined. Shelf life of pasteurized products stored for up to 24 weeks at room temperature were assessed for microbial quality, soluble solids (°Brix), titratable acidity (citric acid %), pH, viscosity (cP) and flow rate (cm/30 s). Our results indicated that heat-resistant molds, initially present in frozen blueberries with counts at 2.03 log CFU/200g, were totally inactivated at 94 to 96 °C with 1 to 2 min holding time. Shelf life study showed that no product spoilage was caused by bacteria, yeasts and heat-resistant molds along with non-significant changes of textural characteristics. This study provided useful information for the food industry to develop variety of fruit purée products with no wastes of fruit materials. This study provides useful information for the food industry to develop safe liquid food products using cavitation technology without wasting any raw materials. © 2018 Institute of Food Technologists®.

Gut microbial functional maturation and succession during human early life.

PubMed

Cerdó, Tomás; Ruiz, Alicia; Acuña, Inmaculada; Jáuregui, Ruy; Jehmlich, Nico; Haange, Sven-Bastian; von Bergen, Martin; Suárez, Antonio; Campoy, Cristina

2018-04-24

The evolutional trajectory of gut microbial colonization from birth has been shown to prime for health later in life. Here, we combined cultivation-independent 16S rRNA gene sequencing and metaproteomics to investigate the functional maturation of gut microbiota in faecal samples from full-term healthy infants collected at 6 and 18 months of age. Phylogenetic analysis of the metaproteomes showed that Bifidobacterium provided the highest number of distinct protein groups. Considerable divergences between taxa abundance and protein phylogeny were observed at all taxonomic ranks. Age had a profound effect on early microbiota where compositional and functional diversity of less dissimilar communities increased with time. Comparisons of the relative abundances of proteins revealed the transition of taxon-associated saccharolytic and fermentation strategies from milk and mucin-derived monosaccharide catabolism feeding acetate/propanoate synthesis to complex food-derived hexoses fuelling butanoate production. Furthermore, co-occurrence network analysis uncovered two anti-correlated modules of functional taxa. A low-connected Bifidobacteriaceae-centred guild of facultative anaerobes was succeeded by a rich club of obligate anaerobes densely interconnected around Lachnospiraceae, underpinning their pivotal roles in microbial ecosystem assemblies. Our findings establish a framework to visualize whole microbial community metabolism and ecosystem succession dynamics, proposing opportunities for microbiota-targeted health-promoting strategies early in life. © 2018 Society for Applied Microbiology and John Wiley & Sons Ltd.

Trait-based prediction of extinction risk of small-bodied freshwater fishes.

PubMed

Kopf, R Keller; Shaw, Casey; Humphries, Paul

2017-06-01

Small body size is generally correlated with r-selected life-history traits, including early maturation, short-generation times, and rapid growth rates, that result in high population turnover and a reduced risk of extinction. Unlike other classes of vertebrates, however, small freshwater fishes appear to have an equal or greater risk of extinction than large fishes. We explored whether particular traits explain the International Union for Conservation of Nature (IUCN) Red List conservation status of small-bodied freshwater fishes from 4 temperate river basins: Murray-Darling, Australia; Danube, Europe; Mississippi-Missouri, North America; and the Rio Grande, North America. Twenty-three ecological and life-history traits were collated for all 171 freshwater fishes of ≤120 mm total length. We used generalized linear mixed-effects models to assess which combination of the 23 traits best explained whether a species was threatened or not threatened. We used the best models to predict the probability of 29 unclassified species being listed as threatened. With and without controlling for phylogeny at the family level, small body size-among small-bodied species-was the most influential trait correlated with threatened species listings. The k-folds cross-validation demonstrated that body size and a random effect structure that included family predicted the threat status with an accuracy of 78% (SE 0.5). We identified 10 species likely to be threatened that are not listed as such on the IUCN Red List. Small body size is not a trait that provides universal resistance to extinction, particularly for vertebrates inhabiting environments affected by extreme habitat loss and fragmentation. We hypothesize that this is because small-bodied species have smaller home ranges, lower dispersal capabilities, and heightened ecological specialization relative to larger vertebrates. Trait data and further model development are needed to predict the IUCN conservation status of the over 11,000 unclassified freshwater fishes, especially those under threat from proposed dam construction in the world's most biodiverse river basins. © 2016 Society for Conservation Biology.

Metagenome Sequencing of Prokaryotic Microbiota Collected from Rivers in the Upper Amazon Basin.

PubMed

Santos-Júnior, Célio Dias; Kishi, Luciano Takeshi; Toyama, Danyelle; Soares-Costa, Andrea; Oliveira, Tereza Cristina Souza; de Miranda, Fernando Pellon; Henrique-Silva, Flávio

2017-01-12

Tropical freshwater environments, like rivers, are important reservoirs of microbial life. This study employed metagenomic sequencing to survey prokaryotic microbiota in the Solimões, Purus, and Urucu Rivers of the Amazon Basin in Brazil. We report a rich and diverse microbial community. Copyright © 2017 Santos-Júnior et al.

Phylogenetic perspective and the search for life on earth and elsewhere

NASA Technical Reports Server (NTRS)

Pace, Norman R.

1989-01-01

Any search for microbial life on Mars cannot rely upon cultivation of indigenous organisms. Only a minority of even terrestrial organisms that are observed in mixed, naturally-occurring microbial populations can be cultivated in the laboratory. Consequently, methods are being developed for analyzing the phylogenetic affiliations of the constituents of natural microbial populations without the need for their cultivation. This is more than an exercise in taxonomy, for the extent of phylogenetic relatedness between unknown and known organisms is some measure of the extent of their biochemical commonalities. In one approach, total DNA is isolated from natural microbial populations and 16S rRNA genes are shotgun cloned for rapid sequence determinations and phylogenetic analyses. A second approach employs oligodeoxynucleotide hybridization probes that bind to phylogenetic group-specific sequences in 16S rRNA. Since each actively growing cell contains about 104 ribosomes, the binding of the diagnostic probes to single cells can be visualized by radioactivity or fluorescence. The application of these methods and the use of in situ cultivation techniques is illustrated using submarine hydrothermal vent communities. Recommendations are made regarding planning toward future Mars missions.

Microbial Pre-exposure and Vectorial Competence of Anopheles Mosquitoes

PubMed Central

Dieme, Constentin; Rotureau, Brice; Mitri, Christian

2017-01-01

Anopheles female mosquitoes can transmit Plasmodium, the malaria parasite. During their aquatic life, wild Anopheles mosquito larvae are exposed to a huge diversity of microbes present in their breeding sites. Later, adult females often take successive blood meals that might also carry different micro-organisms, including parasites, bacteria, and viruses. Therefore, prior to Plasmodium ingestion, the mosquito biology could be modulated at different life stages by a suite of microbes present in larval breeding sites, as well as in the adult environment. In this article, we highlight several naturally relevant scenarios of Anopheles microbial pre-exposure that we assume might impact mosquito vectorial competence for the malaria parasite: (i) larval microbial exposures; (ii) protist co-infections; (iii) virus co-infections; and (iv) pathogenic bacteria co-infections. In addition, significant behavioral changes in African Anopheles vectors have been associated with increasing insecticide resistance. We discuss how these ethological modifications may also increase the repertoire of microbes to which mosquitoes could be exposed, and that might also influence their vectorial competence. Studying Plasmodium–Anopheles interactions in natural microbial environments would efficiently contribute to refining the transmission risks. PMID:29376030

Microbial Safety and Shelf Life of UV-C Treated Freshly Squeezed White Grape Juice.

PubMed

Unluturk, Sevcan; Atilgan, Mehmet R

2015-08-01

The effects of UV-C irradiation on the inactivation of Escherichia coli K-12 (ATCC 25253), a surrogate of E. coli O157:H7, and on the shelf life of freshly squeezed turbid white grape juice (FSWGJ) were investigated. FSWGJ samples were processed at 0.90 mL/s for 32 min by circulating 8 times in an annular flow UV system. The UV exposure time was 244 s per cycle. The population of E. coli K-12 was reduced by 5.34 log cycles after exposure to a total UV dosage of 9.92 J/cm(2) (1.24 J/cm(2) per cycle) at 0.90 mL/s flow rate. The microbial shelf life of UV-C treated FSWGJ was extended up to 14 d at 4 °C. UV exposure was not found to alter pH, total soluble solid, and titratable acidity of juice. There was a significant effect (P < 0.05) on turbidity, absorbance coefficient, color, and ascorbic acid content. Furthermore, all physicochemical properties were altered during refrigerated storage. The microbial shelf life of FSWGJ was doubled after UV-C treatment, whereas the quality of juice was adversely affected similarly observed in the control samples. © 2015 Institute of Food Technologists®

Application of Sequence-based Methods in Human MicrobialEcology

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

Weng, Li; Rubin, Edward M.; Bristow, James

2005-08-29

Ecologists studying microbial life in the environment have recognized the enormous complexity of microbial diversity for many years, and the development of a variety of culture-independent methods, many of them coupled with high-throughput DNA sequencing, has allowed this diversity to be explored in ever greater detail. Despite the widespread application of these new techniques to the characterization of uncultivated microbes and microbial communities in the environment, their application to human health and disease has lagged behind. Because DNA based-techniques for defining uncultured microbes allow not only cataloging of microbial diversity, but also insight into microbial functions, investigators are beginning tomore » apply these tools to the microbial communities that abound on and within us, in what has aptly been called the second Human Genome Project. In this review we discuss the sequence-based methods for microbial analysis that are currently available and their application to identify novel human pathogens, improve diagnosis of known infectious diseases, and to advance understanding of our relationship with microbial communities that normally reside in and on the human body.« less

Effects of polluting soil with cassava mill effluent on the bacteria and fungi populations of a soil cultivated with maize.

PubMed

Ogboghodo, I A; Oluwafemi, A P; Ekeh, S M

2006-05-01

The study was carried out to investigate the effects of application of cassava mill effluent on bacteria and fungi types and population in a soil grown to maize (Zea Mays L.) Microbial populations were determined before pollution of soil with cassava mill effluent, six weeks after pollution with effluent and at the end of the experiment. Results obtained showed that bacteria and fungi populations increased with time as rates of pollution increased. It was also observed that some bacteria present in the soil at the beginning of the experiment and up to the sixth week after pollution with effluent became extinct at the end of the experiment.

The United States Culture Collection Network (USCCN): Enhancing Microbial Genomics Research through Living Microbe Culture Collections

DOE PAGES

Boundy-Mills, Kyria; Hess, Matthias; Bennett, A. Rick; ...

2015-06-19

The mission of the United States Culture Collection Network (USCCN;http://usccn.org) is “to facilitate the safe and responsible utilization of microbial resources for research, education, industry, medicine, and agriculture for the betterment of human kind.” Microbial culture collections are a key component of life science research, biotechnology, and emerging global biobased economies. Here, representatives and users of several microbial culture collections from the United States and Europe gathered at the University of California, Davis, to discuss how collections of microorganisms can better serve users and stakeholders and to showcase existing resources available in public culture collections.

Reduced Gas Cycling in Microbial Mats: Implications for Early Earth

NASA Technical Reports Server (NTRS)

Hoehler, Tori M.; Bebout, Brad M.; DesMarais, David J.; DeVincenzi, Donald L. (Technical Monitor)

2000-01-01

For more than half the history of life on Earth, biological productivity was dominated by photosynthetic microbial mats. During this time, mats served as the preeminent biological influence on earth's surface and atmospheric chemistry and also as the primary crucible for microbial evolution. We find that modern analogs of these ancient mat communities generate substantial quantities of hydrogen, carbon monoxide, and methane. Escape of these gases from the biosphere would contribute strongly to atmospheric evolution and potentially to the net oxidation of earth's surface; sequestration within the biosphere carries equally important implications for the structure, function, and evolution of anaerobic microbial communities within the context of mat biology.

The United States Culture Collection Network (USCCN): Enhancing Microbial Genomics Research through Living Microbe Culture Collections

PubMed Central

Boundy-Mills, Kyria; Hess, Matthias; Bennett, A. Rick; Ryan, Matthew; Kang, Seogchan; Nobles, David; Eisen, Jonathan A.; Inderbitzin, Patrik; Sitepu, Irnayuli R.; Torok, Tamas; Brown, Daniel R.; Cho, Juliana; Wertz, John E.; Mukherjee, Supratim; Cady, Sherry L.

2015-01-01

The mission of the United States Culture Collection Network (USCCN; http://usccn.org) is “to facilitate the safe and responsible utilization of microbial resources for research, education, industry, medicine, and agriculture for the betterment of human kind.” Microbial culture collections are a key component of life science research, biotechnology, and emerging global biobased economies. Representatives and users of several microbial culture collections from the United States and Europe gathered at the University of California, Davis, to discuss how collections of microorganisms can better serve users and stakeholders and to showcase existing resources available in public culture collections. PMID:26092453

The United States Culture Collection Network (USCCN): Enhancing Microbial Genomics Research through Living Microbe Culture Collections

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

Boundy-Mills, Kyria; Hess, Matthias; Bennett, A. Rick

The mission of the United States Culture Collection Network (USCCN;http://usccn.org) is “to facilitate the safe and responsible utilization of microbial resources for research, education, industry, medicine, and agriculture for the betterment of human kind.” Microbial culture collections are a key component of life science research, biotechnology, and emerging global biobased economies. Here, representatives and users of several microbial culture collections from the United States and Europe gathered at the University of California, Davis, to discuss how collections of microorganisms can better serve users and stakeholders and to showcase existing resources available in public culture collections.

The United States Culture Collection Network (USCCN): Enhancing Microbial Genomics Research through Living Microbe Culture Collections

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

Boundy-Mills, K.; Hess, Matthias; Bennett, A. R.

The mission of the United States Culture Collection Network (USCCN; http://usccn.org) is "to facilitate the safe and responsible utilization of microbial resources for research, education, industry, medicine, and agriculture for the betterment of human kind." Microbial culture collections are a key component of life science research, biotechnology, and emerging global biobased economies. Representatives and users of several microbial culture collections from the United States and Europe gathered at the University of California, Davis, to discuss how collections of microorganisms can better serve users and stakeholders and to showcase existing resources available in public culture collections.

The life sulfuric: microbial ecology of sulfur cycling in marine sediments.

PubMed

Wasmund, Kenneth; Mußmann, Marc; Loy, Alexander

2017-08-01

Almost the entire seafloor is covered with sediments that can be more than 10 000 m thick and represent a vast microbial ecosystem that is a major component of Earth's element and energy cycles. Notably, a significant proportion of microbial life in marine sediments can exploit energy conserved during transformations of sulfur compounds among different redox states. Sulfur cycling, which is primarily driven by sulfate reduction, is tightly interwoven with other important element cycles (carbon, nitrogen, iron, manganese) and therefore has profound implications for both cellular- and ecosystem-level processes. Sulfur-transforming microorganisms have evolved diverse genetic, metabolic, and in some cases, peculiar phenotypic features to fill an array of ecological niches in marine sediments. Here, we review recent and selected findings on the microbial guilds that are involved in the transformation of different sulfur compounds in marine sediments and emphasise how these are interlinked and have a major influence on ecology and biogeochemistry in the seafloor. Extraordinary discoveries have increased our knowledge on microbial sulfur cycling, mainly in sulfate-rich surface sediments, yet many questions remain regarding how sulfur redox processes may sustain the deep-subsurface biosphere and the impact of organic sulfur compounds on the marine sulfur cycle. © 2017 The Authors. Environmental Microbiology published by Society for Applied Microbiology and John Wiley & Sons Ltd.

Physico-chemical parameters, bioactive compounds and microbial quality of thermo-sonicated carrot juice during storage.

PubMed

Martínez-Flores, Héctor E; Garnica-Romo, Ma Guadalupe; Bermúdez-Aguirre, Daniela; Pokhrel, Prashant Raj; Barbosa-Cánovas, Gustavo V

2015-04-01

Thermosonication has been successfully tested in food for microbial inactivation; however, changes in bioactive compounds and shelf-life of treated products have not been thoroughly investigated. Carrot juice was thermo-sonicated (24 kHz, 120 μm amplitude) at 50 °C, 54 °C and 58 °C for 10 min (acoustic power 2204.40, 2155.72, 2181.68 mW/mL, respectively). Quality parameters and microbial growth were evaluated after processing and during storage at 4 °C. Control and sonicated treatments at 50 °C and 54 °C had 10, 12 and 14 d of shelf-life, respectively. Samples sonicated at 58 °C had the best quality; microbial growth remained low at around 3-log for mesophiles, 4.5-log for yeasts and molds and 2-log for enterobacteria after 20 d of storage. Furthermore, thermo-sonicated juice at 58 °C retained >98% of carotenoids and 100% of ascorbic acid. Phenolic compounds increased in all stored, treated juices. Thermo-sonication is therefore a promising technology for preserving the quality of carrot juice by minimising the physicochemical changes during storage, retarding microbial growth and retaining the bioactive compounds. Copyright © 2014 Elsevier Ltd. All rights reserved.

Phylogeny and Divergence Times of Lemurs Inferred with Recent and Ancient Fossils in the Tree.

PubMed

Herrera, James P; Dávalos, Liliana M

2016-09-01

Paleontological and neontological systematics seek to answer evolutionary questions with different data sets. Phylogenies inferred for combined extant and extinct taxa provide novel insights into the evolutionary history of life. Primates have an extensive, diverse fossil record and molecular data for living and extinct taxa are rapidly becoming available. We used two models to infer the phylogeny and divergence times for living and fossil primates, the tip-dating (TD) and fossilized birth-death process (FBD). We collected new morphological data, especially on the living and extinct endemic lemurs of Madagascar. We combined the morphological data with published DNA sequences to infer near-complete (88% of lemurs) time-calibrated phylogenies. The results suggest that primates originated around the Cretaceous-Tertiary boundary, slightly earlier than indicated by the fossil record and later than previously inferred from molecular data alone. We infer novel relationships among extinct lemurs, and strong support for relationships that were previously unresolved. Dates inferred with TD were significantly older than those inferred with FBD, most likely related to an assumption of a uniform branching process in the TD compared with a birth-death process assumed in the FBD. This is the first study to combine morphological and DNA sequence data from extinct and extant primates to infer evolutionary relationships and divergence times, and our results shed new light on the tempo of lemur evolution and the efficacy of combined phylogenetic analyses. © The Author(s) 2016. Published by Oxford University Press, on behalf of the Society of Systematic Biologists. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

The Loss of Species: Mangrove Extinction Risk and Geographic Areas of Global Concern

PubMed Central

Polidoro, Beth A.; Carpenter, Kent E.; Collins, Lorna; Duke, Norman C.; Ellison, Aaron M.; Ellison, Joanna C.; Farnsworth, Elizabeth J.; Fernando, Edwino S.; Kathiresan, Kandasamy; Koedam, Nico E.; Livingstone, Suzanne R.; Miyagi, Toyohiko; Moore, Gregg E.; Ngoc Nam, Vien; Ong, Jin Eong; Primavera, Jurgenne H.; Salmo, Severino G.; Sanciangco, Jonnell C.; Sukardjo, Sukristijono; Wang, Yamin; Yong, Jean Wan Hong

2010-01-01

Mangrove species are uniquely adapted to tropical and subtropical coasts, and although relatively low in number of species, mangrove forests provide at least US $1.6 billion each year in ecosystem services and support coastal livelihoods worldwide. Globally, mangrove areas are declining rapidly as they are cleared for coastal development and aquaculture and logged for timber and fuel production. Little is known about the effects of mangrove area loss on individual mangrove species and local or regional populations. To address this gap, species-specific information on global distribution, population status, life history traits, and major threats were compiled for each of the 70 known species of mangroves. Each species' probability of extinction was assessed under the Categories and Criteria of the IUCN Red List of Threatened Species. Eleven of the 70 mangrove species (16%) are at elevated threat of extinction. Particular areas of geographical concern include the Atlantic and Pacific coasts of Central America, where as many as 40% of mangroves species present are threatened with extinction. Across the globe, mangrove species found primarily in the high intertidal and upstream estuarine zones, which often have specific freshwater requirements and patchy distributions, are the most threatened because they are often the first cleared for development of aquaculture and agriculture. The loss of mangrove species will have devastating economic and environmental consequences for coastal communities, especially in those areas with low mangrove diversity and high mangrove area or species loss. Several species at high risk of extinction may disappear well before the next decade if existing protective measures are not enforced. PMID:20386710

Subsequent biotic crises delayed marine recovery following the late Permian mass extinction event in northern Italy

PubMed Central

Danise, Silvia; Price, Gregory D.; Twitchett, Richard J.

2017-01-01

The late Permian mass extinction event was the largest biotic crisis of the Phanerozoic and has the longest recovery interval of any extinction event. It has been hypothesised that subsequent carbon isotope perturbations during the Early Triassic are associated with biotic crises that impeded benthic recovery. We test this hypothesis by undertaking the highest-resolution study yet made of the rock and fossil records of the entire Werfen Formation, Italy. Here, we show that elevated extinction rates were recorded not only in the Dienerian, as previously recognised, but also around the Smithian/Spathian boundary. Functional richness increases across the Smithian/Spathian boundary associated with elevated origination rates in the lower Spathian. The taxonomic and functional composition of benthic faunas only recorded two significant changes: (1) reduced heterogeneity in the Dienerian, and (2) and a faunal turnover across the Smithian/Spathian boundary. The elevated extinctions and compositional shifts in the Dienerian and across the Smithian/Spathian boundary are associated with a negative and positive isotope excursion, respectively, which supports the hypothesis that subsequent biotic crises are associated with carbon isotope shifts. The Spathian fauna represents a more advanced ecological state, not recognised in the previous members of the Werfen Formation, with increased habitat differentiation, a shift in the dominant modes of life, appearance of stenohaline taxa and the occupation of the erect and infaunal tiers. In addition to subsequent biotic crises delaying the recovery, therefore, persistent environmental stress limited the ecological complexity of benthic recovery prior to the Spathian. PMID:28296886

Earliest signs of life on land preserved in ca. 3.5 Ga hot spring deposits

PubMed Central

Djokic, Tara; Van Kranendonk, Martin J.; Campbell, Kathleen A.; Walter, Malcolm R.; Ward, Colin R.

2017-01-01

The ca. 3.48 Ga Dresser Formation, Pilbara Craton, Western Australia, is well known for hosting some of Earth’s earliest convincing evidence of life (stromatolites, fractionated sulfur/carbon isotopes, microfossils) within a dynamic, low-eruptive volcanic caldera affected by voluminous hydrothermal fluid circulation. However, missing from the caldera model were surface manifestations of the volcanic-hydrothermal system (hot springs, geysers) and their unequivocal link with life. Here we present new discoveries of hot spring deposits including geyserite, sinter terracettes and mineralized remnants of hot spring pools/vents, all of which preserve a suite of microbial biosignatures indicative of the earliest life on land. These include stromatolites, newly observed microbial palisade fabric and gas bubbles preserved in inferred mineralized, exopolymeric substance. These findings extend the known geological record of inhabited terrestrial hot springs on Earth by ∼3 billion years and offer an analogue in the search for potential fossil life in ancient Martian hot springs. PMID:28486437