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Title: ‘ Candidatus Dichloromethanomonas elyunquensis’ gen. nov., sp. nov., a dichloromethane-degrading anaerobe of the Peptococcaceae family

Taxonomic assignments of anaerobic dichloromethane (DCM)-degrading bacteria remain poorly constrained but are important for understanding the microbial diversity of organisms contributing to DCM turnover in environmental systems. Here, we describe the taxonomic classification of a novel DCM degrader in consortium RM obtained from pristine Rio Mameyes sediment. Phylogenetic analysis of full-length 16S rRNA gene sequences demonstrated that the DCM degrader was most closely related to members of the genera Dehalobacter and Syntrophobotulus, but sequence similarities did not exceed 94% and 93%, respectively. Genome-aggregate average amino acid identities against Peptococcaceae members did not exceed 66%, suggesting that the DCM degrader does not affiliate with any described genus. Phylogenetic analysis of conserved single-copy functional genes supported that the DCM degrader represents a novel clade. Growth strictly depended on the presence of DCM, which was consumed at a rate of 160 ± 3 μmol L -1 d -1. The DCM degrader attained 5.25 × 10 7 ± 1.0 × 10 7 cells per μmol DCM consumed. Fluorescence in situ hybridization revealed rod-shaped cells 4 ± 0.8 μm long and 0.4 ± 0.1 μm wide. Furthermore, based on the unique phylogenetic, genomic, and physiological characteristics, we propose that the DCM degrader represents a newmore » genus and species, ‘Candidatus Dichloromethanomonas elyunquensis’.« less
Authors:
ORCiD logo [1] ;  [1] ;  [2] ;  [3] ;  [4] ;  [5] ; ORCiD logo [6]
  1. Univ. of Tennessee and Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). Joint Inst. for Biological Sciences (JIBS); Univ. of Tennessee, Knoxville, TN (United States). Dept. of Microbiology, Center for Environmental Biotechnology
  2. Georgia Inst. of Technology, Atlanta, GA (United States). School of Civil and Environmental Engineering
  3. Univ. of Tennessee, Knoxville, TN (United States). Center for Environmental Biotechnology
  4. Georgia Inst. of Technology, Atlanta, GA (United States). School of Civil and Environmental Engineering, School of Biology
  5. Corporate Remediation Group, Newark, DE (United States)
  6. Univ. of Tennessee and Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). Joint Inst. for Biological Sciences (JIBS); Univ. of Tennessee, Knoxville, TN (United States). Dept. of Microbiology, Center for Environmental Biotechnology, Dept. of Civil and Environmental Engineering
Publication Date:
Grant/Contract Number:
AC05-00OR22725
Type:
Accepted Manuscript
Journal Name:
Systematic and Applied Microbiology
Additional Journal Information:
Journal Volume: 40; Journal Issue: 3; Journal ID: ISSN 0723-2020
Publisher:
Elsevier
Research Org:
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Sponsoring Org:
USDOE
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; 96 KNOWLEDGE MANAGEMENT AND PRESERVATION; anaerobic dichloromethane degradation; candidatus dichloromethanomonas elyunquensis; peptococcaceae; metagenome binning
OSTI Identifier:
1399390

Kleindienst, Sara, Higgins, Steven A., Tsementzi, Despina, Chen, Gao, Konstantinidis, Konstantinos T., Mack, E. Erin, and Löffler, Frank E.. ‘ Candidatus Dichloromethanomonas elyunquensis’ gen. nov., sp. nov., a dichloromethane-degrading anaerobe of the Peptococcaceae family. United States: N. p., Web. doi:10.1016/j.syapm.2016.12.001.
Kleindienst, Sara, Higgins, Steven A., Tsementzi, Despina, Chen, Gao, Konstantinidis, Konstantinos T., Mack, E. Erin, & Löffler, Frank E.. ‘ Candidatus Dichloromethanomonas elyunquensis’ gen. nov., sp. nov., a dichloromethane-degrading anaerobe of the Peptococcaceae family. United States. doi:10.1016/j.syapm.2016.12.001.
Kleindienst, Sara, Higgins, Steven A., Tsementzi, Despina, Chen, Gao, Konstantinidis, Konstantinos T., Mack, E. Erin, and Löffler, Frank E.. 2016. "‘ Candidatus Dichloromethanomonas elyunquensis’ gen. nov., sp. nov., a dichloromethane-degrading anaerobe of the Peptococcaceae family". United States. doi:10.1016/j.syapm.2016.12.001. https://www.osti.gov/servlets/purl/1399390.
@article{osti_1399390,
title = {‘ Candidatus Dichloromethanomonas elyunquensis’ gen. nov., sp. nov., a dichloromethane-degrading anaerobe of the Peptococcaceae family},
author = {Kleindienst, Sara and Higgins, Steven A. and Tsementzi, Despina and Chen, Gao and Konstantinidis, Konstantinos T. and Mack, E. Erin and Löffler, Frank E.},
abstractNote = {Taxonomic assignments of anaerobic dichloromethane (DCM)-degrading bacteria remain poorly constrained but are important for understanding the microbial diversity of organisms contributing to DCM turnover in environmental systems. Here, we describe the taxonomic classification of a novel DCM degrader in consortium RM obtained from pristine Rio Mameyes sediment. Phylogenetic analysis of full-length 16S rRNA gene sequences demonstrated that the DCM degrader was most closely related to members of the genera Dehalobacter and Syntrophobotulus, but sequence similarities did not exceed 94% and 93%, respectively. Genome-aggregate average amino acid identities against Peptococcaceae members did not exceed 66%, suggesting that the DCM degrader does not affiliate with any described genus. Phylogenetic analysis of conserved single-copy functional genes supported that the DCM degrader represents a novel clade. Growth strictly depended on the presence of DCM, which was consumed at a rate of 160 ± 3 μmol L-1 d-1. The DCM degrader attained 5.25 × 107 ± 1.0 × 107 cells per μmol DCM consumed. Fluorescence in situ hybridization revealed rod-shaped cells 4 ± 0.8 μm long and 0.4 ± 0.1 μm wide. Furthermore, based on the unique phylogenetic, genomic, and physiological characteristics, we propose that the DCM degrader represents a new genus and species, ‘Candidatus Dichloromethanomonas elyunquensis’.},
doi = {10.1016/j.syapm.2016.12.001},
journal = {Systematic and Applied Microbiology},
number = 3,
volume = 40,
place = {United States},
year = {2016},
month = {12}
}