GAL08, an Uncultivated Group of Acidobacteria, Is a Dominant Bacterial Clade in a Neutral Hot Spring
Abstract
GAL08 are bacteria belonging to an uncultivated phylogenetic cluster within the phylum Acidobacteria . We detected a natural population of the GAL08 clade in sediment from a pH-neutral hot spring located in British Columbia, Canada. To shed light on the abundance and genomic potential of this clade, we collected and analyzed hot spring sediment samples over a temperature range of 24.2–79.8°C. Illumina sequencing of 16S rRNA gene amplicons and qPCR using a primer set developed specifically to detect the GAL08 16S rRNA gene revealed that absolute and relative abundances of GAL08 peaked at 65°C along three temperature gradients. Analysis of sediment collected over multiple years and locations revealed that the GAL08 group was consistently a dominant clade, comprising up to 29.2% of the microbial community based on relative read abundance and up to 4.7 × 10 5 16S rRNA gene copy numbers per gram of sediment based on qPCR. Using a medium quality threshold, 25 single amplified genomes (SAGs) representing these bacteria were generated from samples taken at 65 and 77°C, and seven metagenome-assembled genomes (MAGs) were reconstructed from samples collected at 45–77°C. Based on average nucleotide identity (ANI), these SAGs and MAGs represented three separate species, with an estimatedmore »
- Authors:
- Publication Date:
- Research Org.:
- USDOE Joint Genome Institute (JGI), Berkeley, CA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC); Natural Sciences and Engineering Research Council of Canada (NSERC)
- OSTI Identifier:
- 1839315
- Alternate Identifier(s):
- OSTI ID: 1904151
- Grant/Contract Number:
- AC02-05CH11231; 2019-06265
- Resource Type:
- Published Article
- Journal Name:
- Frontiers in Microbiology
- Additional Journal Information:
- Journal Name: Frontiers in Microbiology Journal Volume: 12; Journal ID: ISSN 1664-302X
- Publisher:
- Frontiers Media SA
- Country of Publication:
- Switzerland
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Microbiology; Acidobacteria; Acidobacteriota; uncultivated bacterium; GAL08; hot spring; thermophile; single-cell genomics
Citation Formats
Ruhl, Ilona A., Sheremet, Andriy, Furgason, Chantel C., Krause, Susanne, Bowers, Robert M., Jarett, Jessica K., Tran, Triet M., Grasby, Stephen E., Woyke, Tanja, and Dunfield, Peter F. GAL08, an Uncultivated Group of Acidobacteria, Is a Dominant Bacterial Clade in a Neutral Hot Spring. Switzerland: N. p., 2022.
Web. doi:10.3389/fmicb.2021.787651.
Ruhl, Ilona A., Sheremet, Andriy, Furgason, Chantel C., Krause, Susanne, Bowers, Robert M., Jarett, Jessica K., Tran, Triet M., Grasby, Stephen E., Woyke, Tanja, & Dunfield, Peter F. GAL08, an Uncultivated Group of Acidobacteria, Is a Dominant Bacterial Clade in a Neutral Hot Spring. Switzerland. https://doi.org/10.3389/fmicb.2021.787651
Ruhl, Ilona A., Sheremet, Andriy, Furgason, Chantel C., Krause, Susanne, Bowers, Robert M., Jarett, Jessica K., Tran, Triet M., Grasby, Stephen E., Woyke, Tanja, and Dunfield, Peter F. Tue .
"GAL08, an Uncultivated Group of Acidobacteria, Is a Dominant Bacterial Clade in a Neutral Hot Spring". Switzerland. https://doi.org/10.3389/fmicb.2021.787651.
@article{osti_1839315,
title = {GAL08, an Uncultivated Group of Acidobacteria, Is a Dominant Bacterial Clade in a Neutral Hot Spring},
author = {Ruhl, Ilona A. and Sheremet, Andriy and Furgason, Chantel C. and Krause, Susanne and Bowers, Robert M. and Jarett, Jessica K. and Tran, Triet M. and Grasby, Stephen E. and Woyke, Tanja and Dunfield, Peter F.},
abstractNote = {GAL08 are bacteria belonging to an uncultivated phylogenetic cluster within the phylum Acidobacteria . We detected a natural population of the GAL08 clade in sediment from a pH-neutral hot spring located in British Columbia, Canada. To shed light on the abundance and genomic potential of this clade, we collected and analyzed hot spring sediment samples over a temperature range of 24.2–79.8°C. Illumina sequencing of 16S rRNA gene amplicons and qPCR using a primer set developed specifically to detect the GAL08 16S rRNA gene revealed that absolute and relative abundances of GAL08 peaked at 65°C along three temperature gradients. Analysis of sediment collected over multiple years and locations revealed that the GAL08 group was consistently a dominant clade, comprising up to 29.2% of the microbial community based on relative read abundance and up to 4.7 × 10 5 16S rRNA gene copy numbers per gram of sediment based on qPCR. Using a medium quality threshold, 25 single amplified genomes (SAGs) representing these bacteria were generated from samples taken at 65 and 77°C, and seven metagenome-assembled genomes (MAGs) were reconstructed from samples collected at 45–77°C. Based on average nucleotide identity (ANI), these SAGs and MAGs represented three separate species, with an estimated average genome size of 3.17 Mb and GC content of 62.8%. Phylogenetic trees constructed from 16S rRNA gene sequences and a set of 56 concatenated phylogenetic marker genes both placed the three GAL08 bacteria as a distinct subgroup of the phylum Acidobacteria , representing a candidate order ( Ca. Frugalibacteriales) within the class Blastocatellia. Metabolic reconstructions from genome data predicted a heterotrophic metabolism, with potential capability for aerobic respiration, as well as incomplete denitrification and fermentation. In laboratory cultivation efforts, GAL08 counts based on qPCR declined rapidly under atmospheric levels of oxygen but increased slightly at 1% (v/v) O 2 , suggesting a microaerophilic lifestyle.},
doi = {10.3389/fmicb.2021.787651},
journal = {Frontiers in Microbiology},
number = ,
volume = 12,
place = {Switzerland},
year = {Tue Jan 11 00:00:00 EST 2022},
month = {Tue Jan 11 00:00:00 EST 2022}
}
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