Anaerobic methane oxidation coupled to manganese reduction by members of the Methanoperedenaceae DOI Creative Commons
Andy O Leu, Chen Cai, Simon Jon McIlroy

et al.

The ISME Journal, Journal Year: 2020, Volume and Issue: 14(4), P. 1030 - 1041

Published: Jan. 27, 2020

Abstract Anaerobic oxidation of methane (AOM) is a major biological process that reduces global emission to the atmosphere. methanotrophic archaea (ANME) mediate this through coupling different electron acceptors, or in concert with syntrophic bacterial partner. Recently, ANME belonging archaeal family Methanoperedenaceae (formerly known as ANME-2d) were shown be capable AOM coupled nitrate and iron reduction. Here, freshwater sediment bioreactor fed Mn(IV) oxides (birnessite) resulted microbial community dominated by two novel members Methanoperedenaceae, biochemical profiling system demonstrating Mn(IV)-dependent AOM. Genomic transcriptomic analyses revealed expression key genes involved several shared multiheme c-type cytochromes (MHCs) differentially expressed, indicating likely use extracellular transfer pathways. We propose names “Candidatus Methanoperedens manganicus” manganireducens” for newly described species. This study demonstrates ability couple reduction oxides, which suggests their potential role linking manganese cycling environment.

Language: Английский

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes DOI Creative Commons
Donovan H. Parks,

Michael Imelfort,

Connor T. Skennerton

et al.

Genome Research, Journal Year: 2015, Volume and Issue: 25(7), P. 1043 - 1055

Published: May 14, 2015

Donovan H. Parks1, Michael Imelfort1, Connor T. Skennerton1, Philip Hugenholtz1,2 and Gene W. Tyson1,3 1Australian Centre for Ecogenomics, School of Chemistry Molecular Biosciences, The University Queensland, St. Lucia, QLD 4072, Australia; 2Institute Bioscience, 3Advanced Water Management Centre, Australia Corresponding authors: d.parks{at}uq.edu.au, g.tyson{at}uq.edu.au

Language: Английский

Citations

9096
The microbial nitrogen-cycling network DOI
Marcel M. M. Kuypers, Hannah K. Marchant, Boran Kartal

et al.

Nature Reviews Microbiology, Journal Year: 2018, Volume and Issue: 16(5), P. 263 - 276

Published: Feb. 5, 2018

Language: Английский

Citations

3224
Lists of names of prokaryotic Candidatus taxa DOI Open Access
Aharon Oren, George M Garrity, Charles Thomas Parker

et al.

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Journal Year: 2020, Volume and Issue: 70(7), P. 3956 - 4042

Published: July 1, 2020

We here present annotated lists of names Candidatus taxa prokaryotes with ranks between subspecies and class, proposed the mid-1990s, when provisional status was first established, end 2018. Where necessary, corrected are that comply current provisions International Code Nomenclature Prokaryotes its Orthography appendix. These lists, as well updated newly published additions corrections to be periodically in Journal Systematic Evolutionary Microbiology, may serve basis for valid publication if proposals expand type material naming also include gene sequences yet-uncultivated is accepted by Committee on Systematics Prokaryotes.

Language: Английский

Citations

832
Methane metabolism in the archaeal phylum Bathyarchaeota revealed by genome-centric metagenomics DOI Open Access
Paul N. Evans, Donovan H. Parks, Grayson L. Chadwick

et al.

Science, Journal Year: 2015, Volume and Issue: 350(6259), P. 434 - 438

Published: Oct. 23, 2015

Methanogenic and methanotrophic archaea play important roles in the global flux of methane. Culture-independent approaches are providing deeper insight into diversity evolution methane-metabolizing microorganisms, but, until now, no compelling evidence has existed for methane metabolism outside phylum Euryarchaeota. We performed metagenomic sequencing a deep aquifer, recovering two near-complete genomes belonging to archaeal Bathyarchaeota (formerly known as Miscellaneous Crenarchaeotal Group). These contain divergent homologs genes necessary metabolism, including those that encode methyl-coenzyme M reductase (MCR) complex. Additional non-euryarchaeotal MCR-encoding identified range environments suggest unrecognized lineages may also contribute cycling. findings indicate arose before last common ancestor Euryarchaeota Bathyarchaeota.

Language: Английский

Citations

749
Single cell activity reveals direct electron transfer in methanotrophic consortia DOI
Shawn E. McGlynn, Grayson L. Chadwick, Christopher P. Kempes

et al.

Nature, Journal Year: 2015, Volume and Issue: 526(7574), P. 531 - 535

Published: Sept. 16, 2015

Language: Английский

Citations

613
Soil microbiomes with distinct assemblies through vertical soil profiles drive the cycling of multiple nutrients in reforested ecosystems DOI Creative Commons
Shuo Jiao, Weimin Chen, Jieli Wang

et al.

Microbiome, Journal Year: 2018, Volume and Issue: 6(1)

Published: Aug. 21, 2018

Soil microbiomes play an important role in the services and functioning of terrestrial ecosystems. However, little is known their vertical responses to restoration process contributions soil nutrient cycling subsurface profiles. Here, we investigated community assembly bacteria, archaea, fungi along (i.e., depths 0–300 cm) horizontal distance from trees 30–90 profiles a chronosequence reforestation sites that represent over 30 years restoration. In superficial layers (0–80 cm), bacterial fungal diversity decreased, whereas archaeal increased with increasing depth. As proceeded time, spatial variation communities while increased. Vertical distributions were more related properties, may be driven by gradient effect roots extending tree. Bacterial beta-diversity strongly multi-nutrient soil, respectively, playing major roles deep layers. Taken together, these results reveal new perspective on at fine scale single trees. Distinct response patterns underpinned as function during ex-arable land.

Language: Английский

Citations

558
Archaea catalyze iron-dependent anaerobic oxidation of methane DOI Open Access

Katharina F. Ettwig,

Baoli Zhu, Daan R. Speth

et al.

Proceedings of the National Academy of Sciences, Journal Year: 2016, Volume and Issue: 113(45), P. 12792 - 12796

Published: Oct. 24, 2016

Anaerobic oxidation of methane (AOM) is crucial for controlling the emission this potent greenhouse gas to atmosphere. Nitrite-, nitrate-, and sulfate-dependent well-documented, but AOM coupled reduction oxidized metals has so far been demonstrated only in environmental samples. Here, using a freshwater enrichment culture, we show that archaea order Methanosarcinales, related "Candidatus Methanoperedens nitroreducens," couple environmentally relevant forms Fe3+ Mn4+ methane. We obtained an culture these under anaerobic, nitrate-reducing conditions with continuous supply Via batch incubations [13C]methane, soluble ferric iron (Fe3+, as Fe-citrate) nanoparticulate supported methane-oxidizing activity. CO2 ferrous (Fe2+) were produced stoichiometric amounts. Our study connects previous finding iron-dependent microorganisms detected numerous habitats worldwide. Consequently, it enables better understanding interaction between biogeochemical cycles

Language: Английский

Citations

554
Major New Microbial Groups Expand Diversity and Alter our Understanding of the Tree of Life DOI Creative Commons
Cindy J. Castelle, Jillian F. Banfield

Cell, Journal Year: 2018, Volume and Issue: 172(6), P. 1181 - 1197

Published: March 1, 2018

Language: Английский

Citations

551
Methane Feedbacks to the Global Climate System in a Warmer World DOI Creative Commons
Joshua Dean, Jack J. Middelburg, Thomas Röckmann

et al.

Reviews of Geophysics, Journal Year: 2018, Volume and Issue: 56(1), P. 207 - 250

Published: Feb. 16, 2018

Abstract Methane (CH 4 ) is produced in many natural systems that are vulnerable to change under a warming climate, yet current CH budgets, as well future shifts emissions, have high uncertainties. Climate has the potential increase emissions from critical such wetlands, marine and freshwater systems, permafrost, methane hydrates, through temperature, hydrology, vegetation, landscape disturbance, sea level rise. Increased these would turn induce further climate change, resulting positive feedback. Here we synthesize biological, geochemical, physically focused feedback literature, bringing together key findings of disciplines. We discuss environment‐specific processes, including microbial, physical, geochemical interlinkages timescales on which they operate, present state knowledge feedbacks immediate distant future. The important linkages between microbial activity discussed with aim better constrain sensitivity cycle predictions. determine wetlands will form majority up 2100. Beyond this timescale, permafrost environments could become more important. Significant atmosphere dissociation hydrates not expected near Our highlight importance quantifying whether consumption can counterbalance production scenarios.

Language: Английский

Citations

534
Seafloor oxygen consumption fuelled by methane from cold seeps DOI
Antje Boëtius,

Frank Wenzhöfer

Nature Geoscience, Journal Year: 2013, Volume and Issue: 6(9), P. 725 - 734

Published: Aug. 29, 2013

Language: Английский

Citations

486