Draft Genome Sequence of
            <i>Desulfovibrio</i>
            sp. Strain CSMB_222, Isolated from Coal Seam Formation Water

McLeish, Andrew G.; Greenfield, Paul; Midgley, David J.; Paulsen, Ian T.

doi:10.1128/mra.00564-21

Cited by 2 publications

(6 citation statements)

References 23 publications

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“…Interestingly, the Australian S. aromaticivorans genome (bin 2.2) contains abundant CRISPR spacers, suggesting substantial pressure on this taxon from viral predation in the Bowen Basin, eastern Australia. Viral predation has been implicated as an important process in the overlying Surat Basin ( 14 ), and numerous other taxa from this environment have been previously demonstrated to harbor substantial CRISPR spacers arrayed against a host of viruses ( 10 , 72 ). In contrast, the lack of CRISPR sequences detected in the North American genome (bin 2.6) indicates little to no viral predation stress on this taxon in the Powder River Basin; however, these sequences may have simply not been recovered due to the lower completeness of this bin ( Table 1 ).…”

Section: Discussionmentioning

confidence: 99%

“…Over the last decade, an understanding has been formed of the range of microbes that occur in subsurface coal seams, demonstrating that they are typically characterized by a few relatively abundant taxa and a long-tailed distribution of rarer taxa ( 4 , 8 , 9 ). Coal seam microbiome studies have also revealed that the dominant organisms, such as taxa within Desulfuromonas and Desulfovibrio , are not involved in aromatic degradation but rather degrade simpler intermediates ( 8 , 10 ). Aromatic-degrading taxa, therefore probably occur within the rarer taxa.…”

Section: Introductionmentioning

confidence: 99%

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Krumholzibacteriota and Deltaproteobacteria contain rare genetic potential to liberate carbon from monoaromatic compounds in subsurface coal seams

Campbell,

Greenfield,

Barnhart

et al. 2024

mBio

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Subsurface coal seams are highly anoxic, oligotrophic environments, where the main source of carbon is “locked away” within aromatic rings. Despite these challenges, many coal seams accumulate biogenic methane, implying that the coal seam microbiome is “unlocking” this carbon source in situ . For over two decades, researchers have endeavored to understand which organisms perform these processes. This study provides the first descriptions of organisms with this genetic potential from the coal seam environment. Here, we report metagenomic insights into carbon liberation from aromatic molecules and the degradation pathways involved and describe a Krumholzibacteriota, two Syntrophorhabdus aromaticivorans , and a Syntrophaceae MAG that contain this genetic potential. This is also the first time that the Krumholzibacteriota phylum has been implicated in anaerobic dearomatization of aromatic hydrocarbons. This potential is identified here in numerous MAGs from other terrestrial and marine subsurface habitats, implicating the Krumholzibacteriota in carbon-cycling processes across a broad range of environments.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Krumholzibacteriota and Deltaproteobacteria contain rare genetic potential to liberate carbon from monoaromatic compounds in subsurface coal seams

Campbell,

Greenfield,

Barnhart

et al. 2024

mBio

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“…The copyright holder for this preprint this version posted July 18, 2023. ; https://doi.org/10.1101/2023.07. 10.548433 doi: bioRxiv preprint…”

Section: Importancementioning

confidence: 99%

“…Over the last decade, a good understanding has been formed of the range of microbes that occur in subsurface coal seams, which are typically characterised by a few relatively abundant taxa and a modest tail of rarer taxa (4,8,9). Coal seam microbiome studies have also revealed that the dominant organisms, such as taxa within Desulfuromonas and Desulfovibrio, are not involved in aromatic degradation but rather degrade simpler intermediates (8,10). Aromatic-degrading taxa therefore probably occur within the rarer taxa.…”

Section: Introductionmentioning

confidence: 99%

“…The copyright holder for this preprint this version posted July 18, 2023. ; https://doi.org/10.1101/2023.07. 10.548433 doi: bioRxiv preprint infiltration, since subsurface coal seams are overall highly anoxic environments (14). Within other anoxic hydrocarbon-degrading environments, such as oil reservoirs (15), the catabolism of aromatic substrates progresses at least in part via intermediate aromatic compounds.…”

Section: Introductionmentioning

confidence: 99%

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Krumholzibacteriota and Deltaproteobacteria contain rare genetic potential to liberate carbon from monoaromatic compounds in subsurface coal seams

Campbell

Greenfield

Barnhart

et al. 2023

Preprint

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Biogenic methane in subsurface coal seam environments is produced by diverse consortia of microbes. Although this methane is useful for global energy security, it remains unclear which microbes can liberate carbon from the coal. Most of this carbon is relatively resistant to biodegradation, as it is contained within aromatic rings. Thus, to explore for coal-degrading taxa in the subsurface, this study used coal seam metagenomes to reconstruct important metagenome-assembled genomes (MAGs) using a key genomic marker for the anaerobic degradation of monoaromatic compounds as a guide: the benzoyl-CoA reductase gene (bcrABCD). Three taxa were identified with this genetic potential. The first was a novel taxon from the Krumholzibacteriota phylum, which this study is the first to describe. This Krumholzibacteriota sp. contained a full set of genes for benzoyl-CoA dearomatisation, in addition to other genes for anaerobic catabolism of monoaromatics. Analysis of Krumholzibacteriota MAGs from other environments revealed that this genetic potential may be common within this phylum, and thus they may be important organisms for the liberation of recalcitrant carbon on a global scale. Further, two taxa from the Deltaproteobacteria class were also implicated in monoaromatic degradation; two geographically unrelatedSyntrophorhabdus aromaticivoransMAGs, and a Syntrophaceae sp. MAG. Each of these three taxa are potential rate-limiting organisms for subsurface coal-to-methane biodegradation. Their description here provides an understanding of their function within the coal seam microbiome, and will help inform future efforts in coal bed methane stimulation, anoxic bioremediation of organic pollutants, and assessments of anoxic carbon cycling and emissions.ImportanceSubsurface coal seams are highly anoxic and oligotrophic environments, where the main source of carbon is “locked away” within aromatic rings. Despite these challenges, biogenic methane accumulates within many of these coal seams, which implies that the coal seam microbiome can “unlock” this carbon sourcein situ. For over two decades, researchers have been working to understand which organisms are responsible for these processes. This study provides the first descriptions of these organisms. Here, we report metagenomic insights into the liberation of carbon from aromatic molecules typically found within coal, the degradation pathways involved, and descriptions of the Krumholzibacteriota sp.,Syntrophorhabdus aromaticivorans, and Syntrophaceae sp. that contain this genetic potential. Additionally, this is the first time that the Krumholzibacteriota phylum has been implicated in anaerobic dearomatisation of aromatic hydrocarbons. This potential is identified here in numerous taxa within the phylum from other subsurface environments, implicating Krumholzibacteriota in global-scale carbon-cycling processes.

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Draft Genome Sequence of Desulfovibrio sp. Strain CSMB_222, Isolated from Coal Seam Formation Water

Abstract: Subsurface coal seams contain microbial consortia with various taxa, each with a different role in the degradation of coal organic matter. This study presents the sequenced and annotated genome of Desulfovibrio sp. strain CSMB_222, a bacterium isolated from eastern Australian coal seams.

Cited by 2 publications

References 23 publications

Krumholzibacteriota and Deltaproteobacteria contain rare genetic potential to liberate carbon from monoaromatic compounds in subsurface coal seams

Krumholzibacteriota and Deltaproteobacteria contain rare genetic potential to liberate carbon from monoaromatic compounds in subsurface coal seams

Krumholzibacteriota and Deltaproteobacteria contain rare genetic potential to liberate carbon from monoaromatic compounds in subsurface coal seams

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