Comparative genomics and physiology of the genus Methanohalophilus , a prevalent methanogen in hydraulically fractured shale

Borton, Mikayla A.; Daly, Rebecca A.; O'Banion, Bridget; Hoyt, David W.; Marcus, Daniel N.; Welch, Susan; Hastings, Sybille S.; Meulia, Tea; Wolfe, Richard A.; Booker, Anne E.; Sharma, Shikha; Cole, David R.; Wunch, Kenneth; Moore, Joseph D.; Darrah, Thomas H.; Wilkins, Michael J.; Wrighton, Kelly C.

doi:10.1111/1462-2920.14467

Title: Comparative genomics and physiology of the genus Methanohalophilus , a prevalent methanogen in hydraulically fractured shale

Journal Article · 13 December 2018 · Environmental Microbiology

DOI: https://doi.org/10.1111/1462-2920.14467 · OSTI ID:1485703

^[1]; Daly, Rebecca A. ^[1]; O'Banion, Bridget ^[2]; Hoyt, David W. ^[3]; Marcus, Daniel N. ^[4]; Welch, Susan ^[5]; Hastings, Sybille S. ^[4]; Meulia, Tea ^[6]; Wolfe, Richard A. ^[1]; Booker, Anne E. ^[4]; Sharma, Shikha ^[7]; Cole, David R. ^[5]; Wunch, Kenneth ^[8]; Moore, Joseph D. ^[8]; Darrah, Thomas H. ^[5]; Wilkins, Michael J. ^[1]; Wrighton, Kelly C. ^[1]

Soil and Crop Sciences, Colorado State University Fort Collins CO USA
Department of Microbiology University of Tennessee Knoxville TN USA
EMSL, Pacific Northwest National Lab Richland WA USA
Depatment of Microbiology The Ohio State University Columbus OH USA
School of Earth Sciences The Ohio State University Columbus OH USA
Molecular and Cellular Imaging Center, The Ohio State University Wooster OH USA
Department of Geology and Geography West Virginia University Morgantown WV USA
DowDuPont Industrial Biosciences Wilmington DE USA

Summary About 60% of natural gas production in the United States comes from hydraulic fracturing of unconventional reservoirs, such as shales or organic‐rich micrites. This process inoculates and enriches for halotolerant microorganisms in these reservoirs over time, resulting in a saline ecosystem that includes methane producing archaea. Here, we survey the biogeography of methanogens across unconventional reservoirs, and report that members of genus Methanohalophilus are recovered from every hydraulically fractured unconventional reservoir sampled by metagenomics. We provide the first genomic sequencing of three isolate genomes, as well as two metagenome assembled genomes (MAGs). Utilizing six other previously sequenced isolate genomes and MAGs, we perform comparative analysis of the 11 genomes representing this genus. This genomic investigation revealed distinctions between surface and subsurface derived genomes that are consistent with constraints encountered in each environment. Genotypic differences were also uncovered between isolate genomes recovered from the same well, suggesting niche partitioning among closely related strains. These genomic substrate utilization predictions were then confirmed by physiological investigation. Fine‐scale microdiversity was observed in CRISPR‐Cas systems of Methanohalophilus , with genomes from geographically distinct unconventional reservoirs sharing spacers targeting the same viral population. These findings have implications for augmentation strategies resulting in enhanced biogenic methane production in hydraulically fractured unconventional reservoirs.

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Sponsoring Organization:: USDOE

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1485703

Journal Information:: Environmental Microbiology, Journal Name: Environmental Microbiology Journal Issue: 12 Vol. 20; ISSN 1462-2912

Publisher:: Wiley-BlackwellCopyright Statement

Country of Publication:: United Kingdom

Language:: English

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