Novel, Deep-Branching Heterotrophic Bacterial Populations Recovered from Thermal Spring Metagenomes
Thermal spring ecosystems are a valuable resource for the discovery of novel hyperthermophilic Bacteria and Archaea, and harbor deeply-branching lineages that provide insight regarding the nature of early microbial life. We characterized bacterial populations in two circumneutral (pH ~8) Yellowstone...
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Published in | Frontiers in microbiology Vol. 7; p. 304 |
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Main Authors | , , , , , , |
Format | Journal Article |
Language | English |
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15.03.2016
Frontiers Media S.A |
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Abstract | Thermal spring ecosystems are a valuable resource for the discovery of novel hyperthermophilic Bacteria and Archaea, and harbor deeply-branching lineages that provide insight regarding the nature of early microbial life. We characterized bacterial populations in two circumneutral (pH ~8) Yellowstone National Park thermal (T ~80°C) spring filamentous "streamer" communities using random metagenomic DNA sequence to investigate the metabolic potential of these novel populations. Four de novo assemblies representing three abundant, deeply-branching bacterial phylotypes were recovered. Analysis of conserved phylogenetic marker genes indicated that two of the phylotypes represent separate groups of an uncharacterized phylum (for which we propose the candidate phylum name "Pyropristinus"). The third new phylotype falls within the proposed Calescamantes phylum. Metabolic reconstructions of the "Pyropristinus" and Calescamantes populations showed that these organisms appear to be chemoorganoheterotrophs and have the genomic potential for aerobic respiration and oxidative phosphorylation via archaeal-like V-type, and bacterial F-type ATPases, respectively. A survey of similar phylotypes (>97% nt identity) within 16S rRNA gene datasets suggest that the newly described organisms are restricted to terrestrial thermal springs ranging from 70 to 90°C and pH values of ~7-9. The characterization of these lineages is important for understanding the diversity of deeply-branching bacterial phyla, and their functional role in high-temperature circumneutral "streamer" communities. |
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AbstractList | Thermal spring ecosystems are a valuable resource for the discovery of novel hyperthermophilic Bacteria and Archaea, and harbor deeply-branching lineages that provide insight regarding the nature of early microbial life. We characterized bacterial populations in two circumneutral (pH ~8) Yellowstone National Park thermal (T ~80°C) spring filamentous "streamer" communities using random metagenomic DNA sequence to investigate the metabolic potential of these novel populations. Four de novo assemblies representing three abundant, deeply-branching bacterial phylotypes were recovered. Analysis of conserved phylogenetic marker genes indicated that two of the phylotypes represent separate groups of an uncharacterized phylum (for which we propose the candidate phylum name "Pyropristinus"). The third new phylotype falls within the proposed Calescamantes phylum. Metabolic reconstructions of the "Pyropristinus" and Calescamantes populations showed that these organisms appear to be chemoorganoheterotrophs and have the genomic potential for aerobic respiration and oxidative phosphorylation via archaeal-like V-type, and bacterial F-type ATPases, respectively. A survey of similar phylotypes (>97% nt identity) within 16S rRNA gene datasets suggest that the newly described organisms are restricted to terrestrial thermal springs ranging from 70 to 90°C and pH values of ~7-9. The characterization of these lineages is important for understanding the diversity of deeply-branching bacterial phyla, and their functional role in high-temperature circumneutral "streamer" communities. Thermal spring ecosystems are a valuable resource for the discovery of novel hyperthermophilic Bacteria and Archaea, and harbor deeply-branching lineages that provide insight regarding the nature of early microbial life. We characterized bacterial populations in two circumneutral (pH ~ 8) Yellowstone National Park thermal (T ~ 80 oC) spring filamentous ‘streamer’ communities using random metagenomic DNA sequence to investigate the metabolic potential of these novel populations. Four de novo assemblies representing three abundant, deeply-branching bacterial phylotypes were recovered. Analysis of conserved phylogenetic marker genes indicated that two of the phylotypes represent separate groups of an uncharacterized phylum (for which we propose the candidate phylum name ‘Pyropristinus’). The third new phylotype falls within the proposed Calescamantes phylum. Metabolic reconstructions of the 'Pyropristinus' and Calescamantes populations showed that these organisms appear to be chemoorganoheterotrophs, and have the genomic potential for aerobic respiration and oxidative phosphorylation via archaeal-like V-type, and bacterial F-type ATPases, respectively. A survey of similar phylotypes (> 97% nt identity) within 16S rRNA gene datasets suggest that the newly described organisms are restricted to terrestrial thermal springs ranging from 70 - 90 oC and pH values of ~ 7 - 9. The characterization of these lineages is important for understanding the diversity of deeply-branching bacterial phyla, and their functional role in high-temperature circumneutral ‘streamer’ communities. Thermal spring ecosystems are a valuable resource for the discovery of novel hyperthermophilic Bacteria and Archaea , and harbor deeply-branching lineages that provide insight regarding the nature of early microbial life. We characterized bacterial populations in two circumneutral (pH ~8) Yellowstone National Park thermal ( T ~80°C) spring filamentous “streamer” communities using random metagenomic DNA sequence to investigate the metabolic potential of these novel populations. Four de novo assemblies representing three abundant, deeply-branching bacterial phylotypes were recovered. Analysis of conserved phylogenetic marker genes indicated that two of the phylotypes represent separate groups of an uncharacterized phylum (for which we propose the candidate phylum name “Pyropristinus”). The third new phylotype falls within the proposed Calescamantes phylum. Metabolic reconstructions of the “Pyropristinus” and Calescamantes populations showed that these organisms appear to be chemoorganoheterotrophs and have the genomic potential for aerobic respiration and oxidative phosphorylation via archaeal-like V-type, and bacterial F-type ATPases, respectively. A survey of similar phylotypes (>97% nt identity) within 16S rRNA gene datasets suggest that the newly described organisms are restricted to terrestrial thermal springs ranging from 70 to 90°C and pH values of ~7–9. The characterization of these lineages is important for understanding the diversity of deeply-branching bacterial phyla, and their functional role in high-temperature circumneutral “streamer” communities. |
Author | Jennings, Ryan deM Inskeep, William P Maas, Kendra R Colman, Daniel R Rusch, Douglas B Jay, Zackary J Takacs-Vesbach, Cristina D |
AuthorAffiliation | 1 Department of Biology, University of New Mexico Albuquerque, NM, USA 2 Thermal Biology Institute and Department of Land Resources and Environmental Sciences, Montana State University Bozeman, MT, USA 3 Center for Genomics and Bioinformatics, Indiana University Bloomington, IN, USA |
AuthorAffiliation_xml | – name: 2 Thermal Biology Institute and Department of Land Resources and Environmental Sciences, Montana State University Bozeman, MT, USA – name: 1 Department of Biology, University of New Mexico Albuquerque, NM, USA – name: 3 Center for Genomics and Bioinformatics, Indiana University Bloomington, IN, USA |
Author_xml | – sequence: 1 givenname: Daniel R surname: Colman fullname: Colman, Daniel R organization: Department of Biology, University of New Mexico Albuquerque, NM, USA – sequence: 2 givenname: Zackary J surname: Jay fullname: Jay, Zackary J organization: Thermal Biology Institute and Department of Land Resources and Environmental Sciences, Montana State University Bozeman, MT, USA – sequence: 3 givenname: William P surname: Inskeep fullname: Inskeep, William P organization: Thermal Biology Institute and Department of Land Resources and Environmental Sciences, Montana State University Bozeman, MT, USA – sequence: 4 givenname: Ryan deM surname: Jennings fullname: Jennings, Ryan deM organization: Thermal Biology Institute and Department of Land Resources and Environmental Sciences, Montana State University Bozeman, MT, USA – sequence: 5 givenname: Kendra R surname: Maas fullname: Maas, Kendra R organization: Department of Biology, University of New Mexico Albuquerque, NM, USA – sequence: 6 givenname: Douglas B surname: Rusch fullname: Rusch, Douglas B organization: Center for Genomics and Bioinformatics, Indiana University Bloomington, IN, USA – sequence: 7 givenname: Cristina D surname: Takacs-Vesbach fullname: Takacs-Vesbach, Cristina D organization: Department of Biology, University of New Mexico Albuquerque, NM, USA |
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Copyright | Copyright © 2016 Colman, Jay, Inskeep, Jennings, Maas, Rusch and Takacs-Vesbach. 2016 Colman, Jay, Inskeep, Jennings, Maas, Rusch and Takacs-Vesbach |
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Keywords | Yellowstone National Park Aquificales Thermotogae hot springs Calescamantes Pyropristinus hyperthermophiles |
Language | English |
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Notes | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 AC02-05CH11231 USDOE Office of Science (SC) This article was submitted to Extreme Microbiology, a section of the journal Frontiers in Microbiology Reviewed by: Tim Magnuson, Idaho State University, USA; Yiran Dong, University of Illinois, Urbana-Champaign, USA Edited by: Jesse G. Dillon, California State University, Long Beach, USA Ryan deM. Jennings, Mercer University, Macon, GA, USA Present Address: Daniel R. Colman, Thermal Biology Institute and Department of Microbiology and Immunology, Montana State University, Bozeman, MT, USA Kendra R. Maas, Biotechnology-Bioservices Center, University of Connecticut, Storrs, CT, USA |
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Title | Novel, Deep-Branching Heterotrophic Bacterial Populations Recovered from Thermal Spring Metagenomes |
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