Microbial Ecology, Journal Year: 2021, Volume and Issue: 82(2), P. 344 - 355
Published: Jan. 16, 2021
Language: Английский
Environmental Microbiology Reports, Journal Year: 2017, Volume and Issue: 9(4), P. 323 - 344
Published: April 17, 2017
Almost the entire seafloor is covered with sediments that can be more than 10 000 m thick and represent a vast microbial ecosystem major component of Earth's element energy cycles. Notably, significant proportion life in marine exploit conserved during transformations sulfur compounds among different redox states. Sulfur cycling, which primarily driven by sulfate reduction, tightly interwoven other important cycles (carbon, nitrogen, iron, manganese) therefore has profound implications for both cellular- ecosystem-level processes. Sulfur-transforming microorganisms have evolved diverse genetic, metabolic, some cases, peculiar phenotypic features to fill an array ecological niches sediments. Here, we review recent selected findings on guilds are involved transformation emphasise how these interlinked influence ecology biogeochemistry seafloor. Extraordinary discoveries increased our knowledge mainly sulfate-rich surface sediments, yet many questions remain regarding processes may sustain deep-subsurface biosphere impact organic cycle.
Language: Английский
Citations
362
The ISME Journal, Journal Year: 2021, Volume and Issue: 15(10), P. 2986 - 3004
Published: May 3, 2021
Abstract Ecological theory suggests that habitat disturbance differentially influences distributions of generalist and specialist species. While well-established for macroorganisms, this has rarely been explored microorganisms. Here we tested these principles in permeable (sandy) sediments, ecosystems with much spatiotemporal variation resource availability physicochemical conditions. Microbial community composition function were profiled intertidal subtidal sediments using 16S rRNA gene amplicon sequencing metagenomics, yielding 135 metagenome-assembled genomes. Community metabolic traits modestly varied sediment depth sampling date. Several taxa highly abundant prevalent all samples, including within the orders Woeseiales Flavobacteriales, classified as generalists; genome reconstructions indicate are metabolically flexible facultative anaerobes adapt to variability by different electron donors acceptors. In contrast, obligately anaerobic such sulfate reducers candidate lineage MBNT15 less overall only thrived more stable deeper sediments. We substantiated findings measuring three processes sediments; whereas generalist-associated sulfide oxidation fermentation occurred rapidly at depths, specialist-associated process reduction was restricted A manipulative experiment also confirmed generalists outcompete during simulated disturbance. Together, show become dominant dynamic environments, constrained specialists narrower niches. Thus, an ecological describing distribution patterns macroorganisms likely extends Such have broad biogeochemical ramifications.
Language: Английский
Citations
184
The Science of The Total Environment, Journal Year: 2018, Volume and Issue: 633, P. 518 - 528
Published: March 28, 2018
Language: Английский
Citations
148
The ISME Journal, Journal Year: 2019, Volume and Issue: 14(3), P. 740 - 756
Published: Dec. 11, 2019
Abstract Hadal trench bottom (>6000 m below sea level) sediments harbor higher microbial cell abundance compared with adjacent abyssal plain sediments. This is supported by the accumulation of sedimentary organic matter (OM), facilitated topography. However, distribution benthic microbes in different systems has not been well explored yet. Here, we carried out small subunit ribosomal RNA gene tag sequencing for 92 sediment subsamples seven and hadal cores collected from three regions northwest Pacific Ocean: Japan, Izu-Ogasawara, Mariana Trenches. Tag-sequencing analyses showed specific patterns several phyla associated oxygen nitrate. The community structure was distinct between sediments, following geographic locations factors represented depth. Co-occurrence network revealed six potential prokaryotic consortia that covaried across regions. Our results further support OM cycle driven currents and/or rapid burial shapes structures at sites, addition to vertical deposition surface ocean. trans -trench analysis highlights intra- inter-trench distributions assemblages geochemistry seafloor providing novel insights into ultradeep-sea ecology, one last frontiers on our planet.
Language: Английский
Citations
123
Environmental Microbiology, Journal Year: 2017, Volume and Issue: 19(4), P. 1584 - 1599
Published: Jan. 25, 2017
Summary The first interaction of water column‐derived organic matter with benthic microbial communities takes place in surface sediments which are acting as biological filters catalyzing central steps elemental cycling. Here we analyzed the bacterial diversity and community structure sediment top layers at seven sites North Sea where properties ranged from coarse‐grained highly permeable to fine‐grained impermeable. Bacterial were richer, more even significantly different bottom waters revealed by Illumina tag sequencing 16S rRNA genes. Sediment permeability had a clear influence on composition was confirmed CARD‐FISH. Sulfate‐reducing Desulfobacteraceae (2–5% total cells), Flavobacteriaceae (3–5%) abundant impermeable than acidobacterial Sva0725 dominated (11–15%). Myxobacterial Sandaracinaceae most medium (3–7%). Woeseiaceae /JTB255 Planctomycetes major groups all (4–6%, 8–22%). diverse branched throughout phylum. We propose key bacteria for degradation high molecular weight compounds recalcitrant material entering column. Benthic likely have restricted capabilities macromolecule might profit Acidobacteria low compounds.
Language: Английский
Citations
94
Nature Microbiology, Journal Year: 2019, Volume and Issue: 4(6), P. 1014 - 1023
Published: March 11, 2019
Language: Английский
Citations
88
The ISME Journal, Journal Year: 2021, Volume and Issue: 16(3), P. 750 - 763
Published: Sept. 28, 2021
Abstract The microbial community composition and biogeochemical dynamics of coastal permeable (sand) sediments differs from cohesive (mud) sediments. Tide- wave-driven hydrodynamic disturbance causes spatiotemporal variations in oxygen levels, which select for generalists disrupt redox cascades. In this work, we profiled communities sediment profiles three sites varying their exposure to disturbance. Strong geochemistry, activities, abundance, composition, capabilities were observed between the sites. Most these variations, except abundance diversity, significantly correlated with relative level each sample. line previous findings, metabolically flexible habitat (e.g., Flavobacteriaceae, Woeseaiceae, Rhodobacteraceae) dominated all samples. However, present evidence that aerobic specialists such as ammonia-oxidizing archaea (Nitrosopumilaceae) more abundant active disturbed samples, whereas bacteria capable sulfate reduction uncultured Desulfobacterales), dissimilatory nitrate ammonium (DNRA; e.g., Ignavibacteriaceae), sulfide-dependent chemolithoautotrophy Sulfurovaceae) enriched less These findings are supported by insights nine deeply sequenced metagenomes 169 derived metagenome-assembled genomes. Altogether, suggest is a critical factor controlling assembly processes Moreover, they strengthen our understanding relationships unique environments.
Language: Английский
Citations
78
Frontiers in Microbiology, Journal Year: 2019, Volume and Issue: 10
Published: March 15, 2019
Hadal ocean sediments, found at sites deeper than 6,000 m water depth, are thought to contain microbial communities distinct from those shallower depths due high hydrostatic pressures and higher abundances of organic matter. These may also differ one other as a result geographical isolation. Here we compare community composition in surficial sediments two hadal environments-the Mariana Kermadec trenches-to evaluate biogeography depths. Sediment consortia were between trenches, with relative sequence taxa previously correlated matter degradation present the Trench. In contrast, Trench, both enriched predicted break down recalcitrant material contained uncharacterized lineages. At 97% similarity level, sequence-abundant not trench-specific related abyssal habitats, indicating potential connectivity geographically isolated sediments. Despite diversity microorganisms identified using culture-independent techniques, most isolates obtained under situ piezophiles. Members these same became dominant members when native incubated static, long-term, unamended high-pressure conditions. Our results support hypothesis that there is sediment populations inhabiting trenches while showing whole specific lineages vary trench collection horizon depth. This biodiversity largely missed incubating samples within pressure vessels highlights need for revised protocols incubations.
Language: Английский
Citations
77
Chemical Engineering Journal, Journal Year: 2022, Volume and Issue: 454, P. 140193 - 140193
Published: Nov. 4, 2022
Language: Английский
Citations
39
PNAS Nexus, Journal Year: 2022, Volume and Issue: 1(5)
Published: Oct. 4, 2022
Carbon fixation is a critical process for our planet; however, its distribution across the bacterial and archaeal domains of life has not been comprehensively studied. Here, we performed an analysis 52,515 metagenome-assembled genomes discover carbon pathways in 1,007 bacteria archaea. We reveal genomic potential through reverse tricarboxylic acid cycle previously unrecognized phyla (i.e. Thermoplasmatota Elusimicrobiota) show that 3-hydroxypropionate bi-cycle not, as thought, restricted to phylum Chloroflexota. The data also substantially expand phylogenetic breadth autotrophy dicarboxylate/4-hydroxybutyrate Calvin-Benson-Bassham cycle. Finally, 3-hydroxypropionate/4-hydroxybutyrate cycle, exclusively found Archaea, was detected Bacteria. thus appears be much more widespread than known, this study lays foundation better understand role archaea global primary production how they contribute microbial sinks.
Language: Английский
Citations
38