The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria

Rienzi, Sara C. Di; Sharon, Itai; Wrighton, Kelly; Koren, Omry; Hug, Laura; Thomas, Brian C.; Goodrich, Julia K.; Bell, Jordana T.; Spector, Timothy D.; Banfield, Jillian F.; Ley, Ruth E.

doi:10.7554/elife.01102

Elife

2013

DOI: 10.7554/elife.01102

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The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria

Sara C. Di Rienzi

¹

,

Itai Sharon

²

,

Kelly Wrighton

³

et al.

Abstract: Cyanobacteria were responsible for the oxygenation of the ancient atmosphere; however, the evolution of this phylum is enigmatic, as relatives have not been characterized. Here we use whole genome reconstruction of human fecal and subsurface aquifer metagenomic samples to obtain complete genomes for members of a new candidate phylum sibling to Cyanobacteria, for which we propose the designation ‘Melainabacteria’. Metabolic analysis suggests that the ancestors to both lineages were non-photosynthetic, anaerobic… Show more

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Cited by 439 publications

(449 citation statements)

References 86 publications

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“…3), consistent with previous findings (Di Rienzi et al 2013). All subunits of photosystems I and II are absent from the Melainabacteria genomes sequenced in this study.…”

Section: Resultssupporting

confidence: 93%

“…The most conspicuous difference between the Melainabacteria and Oxyphotobacteria is the absence of chlorophyll biosynthesis genes in the former ( fig. 3 ), consistent with previous findings ( Di Rienzi et al 2013 ). All subunits of photosystems I and II are absent from the Melainabacteria genomes sequenced in this study.…”

Section: Resultssupporting

confidence: 93%

“…Members of this group have small streamlined genomes ranging in size from 1.8 to 2.3 Mb, with the exception of ACD20, which is 2.7 Mb after binning refinement ( Albertsen et al 2013 ). The Gastranaerophilales genomes recovered from the koala and human feces in the present study support the assertion ( Di Rienzi et al 2013 ) that this lineage comprises obligate fermenters missing the genes necessary for aerobic and anaerobic respiration as well as the tricarboxylic acid (TCA) cycle ( fig. 2 and supplementary table S5 , Supplementary Material online).…”

Section: Resultssupporting

confidence: 88%

“…1 A ) was supported in all analyses with >80% confidence consistent with the genome-based analysis of Di Rienzi et al . (2013).…”

Section: Resultssupporting

confidence: 86%

“…The node defining the Melainabacteria in the concatenated gene alignment tree (node 2, fig. 1 A ) was supported in all analyses with >80% confidence consistent with the genome-based analysis of Di Rienzi et al . (2013) .…”

Section: Resultssupporting

confidence: 86%

See 4 more Smart Citations

An Expanded Genomic Representation of the Phylum Cyanobacteria

Soo

¹

,

Skennerton

²

,

Sekiguchi

³

et al. 2014

Genome Biology and Evolution

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Exaggerated anticipatory anxiety is common in social anxiety disorder (SAD). Neuroimaging studies have revealed altered neural activity in response to social stimuli in SAD, but fewer studies have examined neural activity during anticipation of feared social stimuli in SAD. The current study examined the time course and magnitude of activity in threat processing brain regions during speech anticipation in socially anxious individuals and healthy controls (HC). Method Participants (SAD n = 58; HC n = 16) underwent functional magnetic resonance imaging (fMRI) during which they completed a 90s control anticipation task and 90s speech anticipation task.

show abstract

“…3), consistent with previous findings (Di Rienzi et al 2013). All subunits of photosystems I and II are absent from the Melainabacteria genomes sequenced in this study.…”

Section: Resultssupporting

confidence: 93%

“…The most conspicuous difference between the Melainabacteria and Oxyphotobacteria is the absence of chlorophyll biosynthesis genes in the former ( fig. 3 ), consistent with previous findings ( Di Rienzi et al 2013 ). All subunits of photosystems I and II are absent from the Melainabacteria genomes sequenced in this study.…”

Section: Resultssupporting

confidence: 93%

“…Members of this group have small streamlined genomes ranging in size from 1.8 to 2.3 Mb, with the exception of ACD20, which is 2.7 Mb after binning refinement ( Albertsen et al 2013 ). The Gastranaerophilales genomes recovered from the koala and human feces in the present study support the assertion ( Di Rienzi et al 2013 ) that this lineage comprises obligate fermenters missing the genes necessary for aerobic and anaerobic respiration as well as the tricarboxylic acid (TCA) cycle ( fig. 2 and supplementary table S5 , Supplementary Material online).…”

Section: Resultssupporting

confidence: 88%

“…1 A ) was supported in all analyses with >80% confidence consistent with the genome-based analysis of Di Rienzi et al . (2013).…”

Section: Resultssupporting

confidence: 86%

“…The node defining the Melainabacteria in the concatenated gene alignment tree (node 2, fig. 1 A ) was supported in all analyses with >80% confidence consistent with the genome-based analysis of Di Rienzi et al . (2013) .…”

Section: Resultssupporting

confidence: 86%

See 3 more Smart Citations

An Expanded Genomic Representation of the Phylum Cyanobacteria

Soo

¹

,

Skennerton

²

,

Sekiguchi

³

et al. 2014

Genome Biology and Evolution

Get access via publisher Add to dashboard Cite

Exaggerated anticipatory anxiety is common in social anxiety disorder (SAD). Neuroimaging studies have revealed altered neural activity in response to social stimuli in SAD, but fewer studies have examined neural activity during anticipation of feared social stimuli in SAD. The current study examined the time course and magnitude of activity in threat processing brain regions during speech anticipation in socially anxious individuals and healthy controls (HC). Method Participants (SAD n = 58; HC n = 16) underwent functional magnetic resonance imaging (fMRI) during which they completed a 90s control anticipation task and 90s speech anticipation task.

show abstract

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