Geomicrobiology of the ocean crust: a role for chemoautotrophic Fe-bacteria

The delicate balance of the major global biogeochemical cycles greatly depends on the transformation of Earth materials at or near its surface. The formation and degradation of rocks, minerals, and organic matter are pivotal for the balance, maintenance, and future of many of these cycles. Microorganisms also play a crucial role, determining the transformation rates, pathways, and end products of these processes. While most of Earth's crust is oceanic rather than terrestrial, few studies have been conducted on ocean crust transformations, particularly those mediated by endolithic (rock-hosted) microbial communities. The biology and geochemistry of deep-sea and sub-seafloor environments are generally more complicated to study than in terrestrial or near-coastal regimes. As a result, fewer, and more targeted, studies usually homing in on specific sites, are most common. We are studying the role of endolithic microorganisms in weathering seafloor crustal materials, including basaltic glass and sulfide minerals, both in the vicinity of seafloor hydrothermal vents and off-axis at unsedimented (young) ridge flanks. We are using molecular phylogenetic surveys and laboratory culture studies to define the size, diversity, physiology, and distribution of microorganisms in the shallow ocean crust. Our data show that an unexpected diversity of microorganisms directly participate in rock weathering at the seafloor, and imply that endolithic microbial communities contribute to rock, mineral, and carbon transformations.     

Neutrophilic Iron-Oxidizing Bacteria in the Ocean: Their Habitats,Diversity, and Roles in Mineral Deposition,Rock Alteration,and Biomass Production in the Deep-Sea

The importance of metals to life has long been appreciated. Iron (Fe) is the fourth most abundant element overall, and the second most abundant element that is redox-active in near-surface aqueous habitats, rendering it the most important environmental metal. While it has long been recognized that microorganisms participate in the global iron cycle, appreciation for the pivotal role that redox cycling of iron plays in energy conservation among diverse prokaryotes has grown substantially in the past decade. In addition, redox reactions involving Fe are linked to several other biogeochemical cycles (e.g., carbon), with significant ecological ramifications. The increasing appreciation for the role of microbes in redox transformations of Fe is reflected in a recent surge in biological and environmental studies of microorganisms that conserve energy for growth from redox cycling of Fe compounds, particularly in the deep ocean. Here we highlight some of the key habitats where microbial Fe-oxidation plays significant ecological and biogeochemical roles in the oceanic regime, and provide a synthesis of recent studies concerning this important physiological group. We also provide the first evidence that microbial Fe-oxidizing bacteria are a critical factor in the kinetics of mineral dissolution at the seafloor, by accelerating dissolution by 6–8 times over abiotic rates. We assert that these recent studies, which indicate that microbial Fe-oxidation is widespread in the deep-sea, combined with the apparent role that this group play in promoting rock and mineral weathering, indicate that a great deal more attention to these microorganisms is warranted in order to elucidate the full physiological and phylogenetic diversity and activity of the neutrophilic Fe-oxidizing bacteria in the oceans.     

Rock weathering creates oases of life in a High Arctic desert

During primary colonization of rock substrates by plants, mineral weathering is strongly accelerated under plant roots, but little is known on how it affects soil ecosystem development before plant establishment. Here we show that rock mineral weathering mediated by chemolithoautotrophic bacteria is associated to plant community formation in sites recently released by permanent glacier ice cover in the Midtre Lovénbreen glacier moraine (78°53′N), Svalbard. Increased soil fertility fosters growth of prokaryotes and plants at the boundary between sites of intense bacterial mediated chemolithotrophic iron‐sulfur oxidation and pH decrease, and the common moraine substrate where carbon and nitrogen are fixed by cyanobacteria. Microbial iron oxidizing activity determines acidity and corresponding fertility gradients, where water retention, cation exchange capacity and nutrient availability are increased. This fertilization is enabled by abundant mineral nutrients and reduced forms of iron and sulfur in pyrite minerals within a conglomerate type of moraine rock. Such an interaction between microorganisms and moraine minerals determines a peculiar, not yet described model for soil genesis and plant ecosystem formation with potential past and present analogues in other harsh environments with similar geochemical settings.     

The mineral weathering ability of Collimonas pratensis PMB3(1) involves a Malleobactin-mediated iron acquisition system

Mineral weathering by microorganisms is considered to occur through a succession of mechanisms based on acidification and chelation. While the role of acidification is established, the role of siderophores is difficult to disentangle from the effect of the acidification. We took advantage of the ability of strain Collimonas pratensis PMB3(1) to weather minerals but not to acidify depending on the carbon source to address the role of siderophores in mineral weathering. We identified a single non-ribosomal peptide synthetase (NRPS) responsible for siderophore biosynthesis in the PMB3(1) genome. By combining iron-chelating assays, targeted mutagenesis and chemical analyses (HPLC and LC-ESI-HRMS), we identified the siderophore produced as malleobactin X and how its production depends on the concentration of available iron. Comparison with the genome sequences of other collimonads evidenced that malleobactin production seems to be a relatively conserved functional trait, though some collimonads harboured other siderophore synthesis systems. We also revealed by comparing the wild-type strain and its mutant impaired in the production of malleobactin that the ability to produce this siderophore is essential to allow the dissolution of hematite under non-acidifying conditions. This study represents the first characterization of the siderophore produced by collimonads and its role in mineral weathering.     

The effect of bacteria and fungi on chemical weathering and chemical denudation fluxes in pine growth experiments

Vascular plants and associated microbial communities affect the nutrient resources of terrestrial ecosystems by impacting chemical weathering that transfers elements from primary minerals to other ecosystem pools, and chemical denudation that transports weathered elements out of the system in solution. We performed a year-long replicated flow-through column growth experiment to isolate the effects of vascular plants, ectomycorrhiza-forming fungi and associated bacteria on chemical weathering and chemical denudation. The study focused on Ca²⁺, K⁺ and Mg²⁺, for which the sole sources were biotite and anorthite mixed into silica sand. Concentrations of the cations were measured in input and output solutions, and three times during the year in plant biomass and on exchangeable cation sites of the growth medium. Weathering and denudation fluxes were estimated by mass balance, and mineral surface changes, biofilm and microbial attachments to surfaces were investigated with scanning electron microscopy. Both bacteria and fungi increased weathering fluxes compared to abiotic controls. Without a host plant denudation rates were as large as weathering rates i.e. the weathering to denudation ratio was about one. Based on whole year fluxes, ectomycorrhizal seedlings produced the greatest weathering to denudation ratios (1.5). Non-ectomycorrhizal seedlings also showed a high ratio of 1.3. Both ectomycorrhizal hyphal networks and root hairs of non-ectomycorrhizal trees, embedded in biofilm (microorganisms surrounded by extracellular polymers), transferred nutrients to the host while drainage losses were minimized. These results suggest that biofilms localize both weathering and plant nutrient uptake, isolating the root-hypha-mineral interface from bulk soil solution.     

Transmission Electron Microscopic Observation of Mercury-Bearing Bacterial Clay Minerals in a Small-Scale Gold Mine in Tanzania

Mercury is a toxic substance that is widely distributed throughout the hydrosphere, biosphere, and lithosphere. Mine waste environments and mine waters support a wide diversity of microbial life. The microbial ecology of environments where mine waters are polluted with heavy metals is poorly understood. Here, we describe the features of bacteria in mercury-contaminated gold panning ponds in a small-scale gold mine (Geita) near Lake Victoria, Tanzania using energy filtering transmission electron microscopy (EF-TEM) and scanning transmission electron microscopy equipped with energy dispersive X-ray spectroscopy (STEM-EDX). Most bacteria in the panning pond showed thick exopolysaccharides (EPSs), and many clay minerals attached onto the surface of EPSs. The clay minerals and EPSs might act as protective layers for the bacteria against toxic materials. The clay minerals were composed of smectite, halloysite, and kaolinite associated with calcite and goethite. Scanning electron microscopy equipped with energy dispersive X-ray spectroscopy indicated that the bulk soil samples contained abundant Si, Al, K, Ca, and Fe with heavy metals such as Au, Ti, and Ag. The results indicate that Hg pollution from panning ponds is caused by not only volatilization of Hg from Au-Hg amalgams, but Hg is also released into the air as dust mixed with dry fine clays, suggesting high long-term environmental risks. Mercury-resistant bacteria associated with clay minerals may have a significant effect on the weathering processes of the ore during long-term bioremediation. The clay mineral complexes on the surface of bacterial cell walls are a stimulator for Hg-resistant bacterial growth in mud ponds contaminated with the Au-Hg materials.     

Search for life on Mars.

A multi-user integrated suite of instruments designed to optimize the search for evidence of life on Mars is described. The package includes: -Surface inspection and surface environment analysis to identify the potential Mars landing sites, to inspect the surface geology and mineralogy, to search for visible surficial microbial macrofossils, to study the surface radiation budget and surface oxidation processes, to search for niches for extant life. -Subsurface sample acquisition by core drilling -Analysis of surface and subsurface minerals and organics to characterize the surface mineralogy, to analyse the surface and subsurface oxidants, to analyse the mineralogy of subsurface aliquots, to analyse the organics present in the subsurface aliquots (elemental and molecular composition, isotopes, chirality). -Macroscopic and microscopic inspection of subsurface aliquots to search for life's indicators (paleontological, biological, mineralogical) and to characterize the mineralogy of the subsurface aliquots. The study is led by ESA Manned Spaceflight and Microgravity Directorate.     

Mineral‐hosted biofilm communities in the continental deep subsurface,Deep Mine Microbial Observatory,SD, USA

Deep subsurface biofilms are estimated to host the majority of prokaryotic life on Earth, yet fundamental aspects of their ecology remain unknown. An inherent difficulty in studying subsurface biofilms is that of sample acquisition. While samples from marine and terrestrial deep subsurface fluids have revealed abundant and diverse microbial life, limited work has described the corresponding biofilms on rock fracture and pore space surfaces. The recently established Deep Mine Microbial Observatory (DeMMO) is a long‐term monitoring network at which we can explore the ecological role of biofilms in fluid‐filled fractures to depths of 1.5 km. We carried out in situ cultivation experiments with single minerals representative of DeMMO host rock to explore the ecological drivers of biodiversity and biomass in biofilm communities in the continental subsurface. Coupling cell densities to thermodynamic models of putative metabolic reactions with minerals suggests a metabolic relationship between biofilms and the minerals they colonize. Our findings indicate that minerals can significantly enhance biofilm cell densities and promote selective colonization by taxa putatively capable of extracellular electron transfer. In turn, minerals can drive significant differences in biodiversity between fluid and biofilm communities. Given our findings at DeMMO, we suggest that host rock mineralogy is an important ecological driver in deep continental biospheres.     

油藏铁还原微生物的研究进展

地下深部油藏通常为高温、高压以及高盐的极端环境,含有非常丰富的本源嗜热厌氧微生物,按代谢类群可分为发酵细菌、硫酸盐还原菌、产甲烷古菌和铁还原菌。从油田环境已经分离出90株铁还原微生物,如热袍菌目、热厌氧杆菌目、脱铁杆菌目、δ-变形菌纲脱硫单胞菌目、γ-变形菌纲希瓦氏菌属和广古菌门栖热球菌属等,这些菌株生长温度范围为4-85°C,生长盐度范围为0.1%-10.0%NaCl,还未见到文献报道油藏铁还原菌的耐压性研究。在油藏环境中存在微生物、矿物和流体(油/水)三者之间的相互作用,油藏中的粘土矿物能够作为微生物生命活动的载体,也能为微生物代谢作用提供电子受体。本文综述了油藏铁还原菌分离和表征的研究进展,简述了油藏铁还原菌的环境适用性,并展望了铁还原菌在提高原油采收率方面的应用前景。     

Minerals Affect the Specific Diversity of Forest Soil Bacterial Communities

Minerals constitute an ecological niche poorly investigated in the soil, in spite of their important role in biogeochemical cycles and plant nutrition. To evaluate the impact of minerals on the structure of the soil bacterial communities, we compared the bacterial diversity on mineral surfaces and in the surrounding soil. Three pure and calibrated minerals (apatite, plagioclase and a mix of phlogopite-quartz) were buried into the organo-mineral layer of a forest soil. After a 4-year incubation in soil conditions, mineral weathering and microbial colonization were evaluated. Apatite and plagioclase were the only two significantly weathered minerals. The analysis of the 16S rRNA gene sequences generated by the cloning-sequencing procedure revealed that bacterial diversity was higher in the surrounding soil and on the unweathered phlogopite-quartz samples compared with the other minerals. Moreover, a multivariate analysis based on the relative abundance of the main taxonomic groups in each compartments of origin demonstrated that the bacterial communities from the bulk soil differed from that colonizing the minerals. A significant correlation was obtained between the dissolution rate of the minerals and the relative abundance of Beta-proteobacteria detected. Notably, many sequences coming from bacteria colonizing the mineral surfaces, whatever the mineral, harbored high similarity with efficient mineral weathering bacteria belonging to Burkholderia and Collimonas genera, previously isolated on the same experimental site. Taken together, the present results provide new highlights concerning the bacterial communities colonizing minerals surfaces in the soil and suggests that the minerals create true ecological niches: the mineralosphere.     

Degradation of potassium rock by earthworms and responses of bacterial communities in its gut and surrounding substrates after being fed with mineral

Background

Earthworms are an ecosystem''s engineers, contributing to a wide range of nutrient cycling and geochemical processes in the ecosystem. Their activities can increase rates of silicate mineral weathering. Their intestinal microbes usually are thought to be one of the key drivers of mineral degradation mediated by earthworms,but the diversities of the intestinal microorganisms which were relevant with mineral weathering are unclear.

Methodology/Principal Findings

In this report, we show earthworms'' effect on silicate mineral weathering and the responses of bacterial communities in their gut and surrounding substrates after being fed with potassium-bearing rock powder (PBRP). Determination of water-soluble and HNO₃-extractable elements indicated some elements such as Al, Fe and Ca were significantly released from mineral upon the digestion of earthworms. The microbial communities in earthworms'' gut and the surrounding substrates were investigated by amplified ribosomal DNA restriction analysis (ARDRA) and the results showed a higher bacterial diversity in the guts of the earthworms fed with PBRP and the PBRP after being fed to earthworms. UPGMA dendrogram with unweighted UniFrac analysis, considering only taxa that are present, revealed that earthworms'' gut and their surrounding substrate shared similar microbiota. UPGMA dendrogram with weighted UniFrac, considering the relative abundance of microbial lineages, showed the two samples from surrounding substrate and the two samples from earthworms'' gut had similarity in microbial community, respectively.

Conclusions/Significance

Our results indicated earthworms can accelerate degradation of silicate mineral. Earthworms play an important role in ecosystem processe since they not only have some positive effects on soil structure, but also promote nutrient cycling of ecosystem by enhancing the weathering of minerals.     

Root-associated bacteria contribute to mineral weathering and to mineral nutrition in trees: a budgeting analysis

The principal nutrient source for forest trees derives from the weathering of soil minerals which results from water circulation and from plant and microbial activity. The main objectives of this work were to quantify the respective effects of plant- and root-associated bacteria on mineral weathering and their consequences on tree seedling growth and nutrition. That is why we carried out two column experiments with a quartz-biotite substrate. The columns were planted with or without pine seedlings and inoculated or not with three ectomycorrhizosphere bacterial strains to quantify biotite weathering and pine growth and to determine how bacteria improve pine growth. We showed that the pine roots significantly increased biotite weathering by a factor of 1.3 for magnesium and 1.7 for potassium. We also demonstrated that the inoculation of Burkholderia glathei PML1(12) significantly increased biotite weathering by a factor of 1.4 for magnesium and 1.5 for potassium in comparison with the pine alone. In addition, we observed a significant positive effect of B. glathei PMB1(7) and PML1(12) on pine growth and on root morphology (number of lateral roots and root hairs). We demonstrated that PML1(12) improved pine growth when the seedlings were supplied with a nutrient solution which did not contain the nutrients present in the biotite. No improvement of pine growth was observed when the seedlings were supplied with all the nutrients necessary for pine growth. We therefore propose that the growth-promoting effect of B. glathei PML1(12) mainly resulted from the improved plant nutrition via increased mineral weathering.     

Root-Associated Bacteria Contribute to Mineral Weathering and to Mineral Nutrition in Trees: a Budgeting Analysis

The principal nutrient source for forest trees derives from the weathering of soil minerals which results from water circulation and from plant and microbial activity. The main objectives of this work were to quantify the respective effects of plant- and root-associated bacteria on mineral weathering and their consequences on tree seedling growth and nutrition. That is why we carried out two column experiments with a quartz-biotite substrate. The columns were planted with or without pine seedlings and inoculated or not with three ectomycorrhizosphere bacterial strains to quantify biotite weathering and pine growth and to determine how bacteria improve pine growth. We showed that the pine roots significantly increased biotite weathering by a factor of 1.3 for magnesium and 1.7 for potassium. We also demonstrated that the inoculation of Burkholderia glathei PML1(12) significantly increased biotite weathering by a factor of 1.4 for magnesium and 1.5 for potassium in comparison with the pine alone. In addition, we observed a significant positive effect of B. glathei PMB1(7) and PML1(12) on pine growth and on root morphology (number of lateral roots and root hairs). We demonstrated that PML1(12) improved pine growth when the seedlings were supplied with a nutrient solution which did not contain the nutrients present in the biotite. No improvement of pine growth was observed when the seedlings were supplied with all the nutrients necessary for pine growth. We therefore propose that the growth-promoting effect of B. glathei PML1(12) mainly resulted from the improved plant nutrition via increased mineral weathering.     

Silicate Dissolution in Las Pailas Thermal Field: Implications for Microbial Weathering in Acidic Volcanic Hydrothermal Spring Systems

A longitudinal field microcosm study was conducted in the Las Pailas hot spring system, located on the SW flank of Rincon de la Vieja, Costa Rica, in order to investigate initial microbial attachment and colonization, as well as chemical (abiotic) and biological silicate weathering under hydrothermal conditions. Solution chemistry was pH = 2.42–3.96, T = 43–89.3°C, Si = 4.45–8.19 mmol L^?1, Fe = 1.50–6.95 mmol L^?1and PO^3? ₄ = below detection limits-4.9 μmol L^?1. Microcosms consisted of washed, sonicated primary silicate samples in polycarbonate vessels. The vessels were enclosed either by mesh to observe water/rock/microbial interactions or by 0.2–0.45 μm filters to observe water/rock interactions. Microcosms were incubated for periods of 6 h, 24 h, or 2 mo, fixed in the field, then analyzed in the laboratory. Scanning electron microscopy (SEM) analysis revealed that microbial attachment to mineral samples occurred in as little as 6 h. Microbial colonization and the development of minor etch pits associated with microorganisms occurred within 24 h. The most significant differences in chemical vs. biological weathering were observed after 2 mo. SEM analysis of these incubated surfaces showed that volumetric losses to mineral samples were more than one order of magnitude greater for samples that had been colonized by microorganisms and thus weathered biologically. With time, preferential colonization of anorthoclase mineral samples with Fe-oxides and apatite inclusions occurred. Subsequent weathering, therefore, may be a metabolic strategy by microorganisms to access mineral-bound PO^3? ₄, which is otherwise scarce in solution. Results from this study suggest that microorganisms may play a significant role in weathering in some hydrothermal systems.     

In situ bioremediation of contaminated aquifers and subsurface soils

Bioremediation, the use of microorganisms to detoxify and degrade hazardous wastes, is an emerging in situ treatment technology for the remediation of contaminated aquifers and subsurface soils. This technology depends upon the alteration of the physical/chemical conditions in the subsurface environment to optimize microbiological activity. As such, successful bioremediation depends not only upon an understanding of microbial degradation processes, but also upon an understanding of the complex interactions that occur between the contaminants, the subsurface environment, and the indigenous microbial populations at each site. At present, these interactions are poorly understood. Site‐specific evaluation and design therefore are essential for bioremediation. In this paper, we review microbiological, hydrological, and geochemical factors that should be considered in evaluating the appropriateness of bioremediation for hazardous waste‐contaminated aquifers and subsurface soils.     

Atomic Force Microscopy of the fungi-mineral interface: applications in mineral dissolution, weathering and biogeochemistry

The interaction between mycorrhizal fungi and minerals is of fundamental importance in affecting the geochemical carbon cycle and CO(2) concentration in the atmosphere, alongside roles in soil creation and the release of nutrients. The symbiosis between the fungi and the plant, supported by photosynthesis in the host plant, has as one of its key features the interfacial zone where mineral and fungi come into contact. At this interface, the organism exudes a complex mixture of organic acids, chelating molecules, protons, and extracellular polysaccharide. In this review, examples will be given of recent Atomic Force Microscopy experiments to monitor the colonization of phyllosilicate minerals in sterile controlled microcosm environments containing only tree seedlings, mineral chips and mycorrhizal fungi. The surface activity of the colonizing fungal hyphae is extensive and complex. In complementary experiments involving exposure of minerals surfaces to single organic acids, it has been possible to monitor dissolution at the unit cell level and to extract activation energies for specific dissolution processes, for example 49kJmol(-1) for 100mM oxalic acid acting upon a biotite sample. The link between these simpler model experiments and the whole microcosm studies is illustrated partly by observations of fungal-colonized mineral surfaces from microcosms after careful removal of the organism and biolayer. These mineral surfaces give clear indications of basal plane modification and fungal weathering.     

Specific carbonate–microbe interactions in the modern microbialites of Lake Alchichica (Mexico)

The role of microorganisms in microbialite formation remains unresolved: do they induce mineral precipitation (microbes first) or do they colonize and/or entrap abiotic mineral precipitates (minerals first)? Does this role vary from one species to another? And what is the impact of mineral precipitation on microbial ecology? To explore potential biogenic carbonate precipitation, we studied cyanobacteria–carbonate assemblages in modern hydromagnesite-dominated microbialites from the alkaline Lake Alchichica (Mexico), by coupling three-dimensional imaging of molecular fluorescence emitted by microorganisms, using confocal laser scanning microscopy, and Raman scattering/spectrometry from the associated minerals at a microscale level. Both hydromagnesite and aragonite precipitate within a complex biofilm composed of photosynthetic and other microorganisms. Morphology and pigment-content analysis of dominant photosynthetic microorganisms revealed up to six different cyanobacterial morphotypes belonging to Oscillatoriales, Chroococcales, Nostocales and Pleurocapsales, as well as several diatoms and other eukaryotic microalgae. Interestingly, one of these morphotypes, Pleurocapsa-like, appeared specifically associated with aragonite minerals, the oldest parts of actively growing Pleurocapsa-like colonies being always aragonite-encrusted. We hypothesize that actively growing cells of Pleurocapsales modify local environmental conditions favoring aragonite precipitation at the expense of hydromagnesite, which precipitates at seemingly random locations within the biofilm. Therefore, at least part of the mineral precipitation in Alchichica microbialites is most likely biogenic and the type of biominerals formed depends on the nature of the phylogenetic lineage involved. This observation may provide clues to identify lineage-specific biosignatures in fossil stromatolites from modern to Precambrian times.     

Kinetic and Thermodynamic Analysis During Dissimilatory γ-FeOOH Reduction: Formation of Green Rust 1 and Magnetite

The oldest sedimentary rocks on Earth, the 3.8‐Ga Isua Iron‐Formation in southwestern Greenland, are metamorphosed past the point where organic‐walled fossils would remain. Acid residues and thin sections of these rocks reveal ferric microstructures that have filamentous, hollow rod, and spherical shapes not characteristic of crystalline minerals. Instead, they resemble ferric‐coated remains of bacteria. Modern so‐called iron bacteria were therefore studied to enhance a search image for oxide minerals precipitated by early bacteria. Iron bacteria become coated with ferrihydrite, a metastable mineral that converts to hematite, which is stable under high temperatures. If these unusual morphotypes are mineral remains of microfossils, then life must have evolved somewhat earlier than 3.8 Ga, and may have involved the interaction of sediments and molecular oxygen in water, with iron as a catalyst. Timing is constrained by the early in fall of planetary materials that would have heated the planet's surface.

Because there are no earlier sedimentary rocks to study on Earth, it may be necessary to expand the search elsewhere in the solar system for clues to any biotic precursors or other types of early life. Evidence from Mars shows geophysical and geochemical differentiation at a very early stage, which makes it an important candidate for such a search if sedimentation is an important process in life's origins. Not only does Mars have iron oxide‐rich soils, but its oldest regions have river channels where surface water and sediment may have been carried, and seepage areas where groundwater may have discharged. Mars may have had an atmosphere and liquid water in the crucial time frame of 3.9–4.0 Ga. A study of morphologies of iron oxide minerals collected in the southern highlands during a Mars sample return mission may therefore help to fill in important gaps in the history of Earth's earliest biosphere.     

Bacterial and archaeal phylotypes associated with distinct mineralogical layers of a white smoker spire from a deep-sea hydrothermal vent site (9 degrees N, East Pacific Rise)

A diffusely venting chimney spire from the East Pacific Rise (9 degrees N) was analysed by petrographic thin sectioning and 16S rRNA gene cloning and sequencing in parallel, to correlate microbial community composition with mineralogy and inferred in situ conditions within the chimney mineral matrix. Both approaches indicated a zonation of the chimney spire into distinct microhabitats for different bacteria and archaea. The thermal gradient inferred from the mineral composition and porosity of the chimney was consistent with the distribution of bacterial and archaeal phylotypes in the chimney matrix. A novel phylogenetic lineage of euryarchaeota was found that co-occurred with clones related to cultured hyperthermophilic archaea. A few phylotypes related to mesophilic bacteria were found in the hot core of the chimney, indicating that seawater influx during retrieval and cooling of these highly porous structures can entrain microorganisms into chimney layers that are not their native habitat.     

页岩气开采与深地微生物的相互影响

页岩气是一种特殊的天然气聚集,以吸附或游离状态存在于页岩之中。页岩气资源储量丰富,约占全球天然气能源的三分之一,主要分布在中国、北美、俄罗斯等国家和地区。页岩气开采所使用的水力压裂技术会对深地微生物产生显著影响,在水力压裂的不同阶段,微生物群落组成存在明显差异。其中,产甲烷菌能够提高页岩气的产量,而产酸细菌会造成设备腐蚀,降低页岩气的回收效率。本文概述了页岩气的开采现状、开采过程以及微生物种群的变化和潜在影响,以期促进页岩气开采与深地微生物相互影响的研究,最终推动页岩气的绿色、高效开采。