Lineages of acidophilic archaea revealed by community genomic analysis

Brett J. Baker; Gene W. Tyson; Richard I. Webb; Judith Flanagan; Philip Hugenholtz; Eric E. Allen; Jillian F. Banfield

doi:10.1126/science.1132690

Lineages of acidophilic archaea revealed by community genomic analysis

Brett J. Baker, Gene W. Tyson, Richard I. Webb, Judith Flanagan, Philip Hugenholtz, Eric E. Allen, Jillian F. Banfield

Research output: Contribution to journal › Article › Research › peer-review

186 Citations (Scopus)

Abstract

Novel, low-abundance microbial species can be easily overlooked in standard polymerase chain reaction (PCR)-based surveys. We used community genomic data obtained without PCR or cultivation to reconstruct DNA fragments bearing unusual 165 ribosomal RNA (rRNA) and protein-coding genes from organisms belonging to novel archaeal lineages. The organisms are minor components of all biofilms growing in pH 0.5 to 1.5 solutions within the Richmond Mine, California. Probes specific for 165 rRNA showed that the fraction less than 0.45 micrometers in diameter is dominated by these organisms. Transmission electron microscope images revealed that the cells are pleomorphic with unusual folded membrane protrusions and have apparent volumes of <0.006 cubic micrometer.

Original language	English
Pages (from-to)	1933-1935
Number of pages	3
Journal	Science
Volume	314
Issue number	5807
DOIs	https://doi.org/10.1126/science.1132690
Publication status	Published - Dec 2006
Externally published	Yes

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title = "Lineages of acidophilic archaea revealed by community genomic analysis",

abstract = "Novel, low-abundance microbial species can be easily overlooked in standard polymerase chain reaction (PCR)-based surveys. We used community genomic data obtained without PCR or cultivation to reconstruct DNA fragments bearing unusual 165 ribosomal RNA (rRNA) and protein-coding genes from organisms belonging to novel archaeal lineages. The organisms are minor components of all biofilms growing in pH 0.5 to 1.5 solutions within the Richmond Mine, California. Probes specific for 165 rRNA showed that the fraction less than 0.45 micrometers in diameter is dominated by these organisms. Transmission electron microscope images revealed that the cells are pleomorphic with unusual folded membrane protrusions and have apparent volumes of <0.006 cubic micrometer.",

author = "Baker, \{Brett J.\} and Tyson, \{Gene W.\} and Webb, \{Richard I.\} and Judith Flanagan and Philip Hugenholtz and Allen, \{Eric E.\} and Banfield, \{Jillian F.\}",

year = "2006",

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doi = "10.1126/science.1132690",

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pages = "1933--1935",

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AU - Baker, Brett J.

AU - Tyson, Gene W.

AU - Webb, Richard I.

AU - Flanagan, Judith

AU - Hugenholtz, Philip

AU - Allen, Eric E.

AU - Banfield, Jillian F.

PY - 2006/12

Y1 - 2006/12

N2 - Novel, low-abundance microbial species can be easily overlooked in standard polymerase chain reaction (PCR)-based surveys. We used community genomic data obtained without PCR or cultivation to reconstruct DNA fragments bearing unusual 165 ribosomal RNA (rRNA) and protein-coding genes from organisms belonging to novel archaeal lineages. The organisms are minor components of all biofilms growing in pH 0.5 to 1.5 solutions within the Richmond Mine, California. Probes specific for 165 rRNA showed that the fraction less than 0.45 micrometers in diameter is dominated by these organisms. Transmission electron microscope images revealed that the cells are pleomorphic with unusual folded membrane protrusions and have apparent volumes of <0.006 cubic micrometer.

AB - Novel, low-abundance microbial species can be easily overlooked in standard polymerase chain reaction (PCR)-based surveys. We used community genomic data obtained without PCR or cultivation to reconstruct DNA fragments bearing unusual 165 ribosomal RNA (rRNA) and protein-coding genes from organisms belonging to novel archaeal lineages. The organisms are minor components of all biofilms growing in pH 0.5 to 1.5 solutions within the Richmond Mine, California. Probes specific for 165 rRNA showed that the fraction less than 0.45 micrometers in diameter is dominated by these organisms. Transmission electron microscope images revealed that the cells are pleomorphic with unusual folded membrane protrusions and have apparent volumes of <0.006 cubic micrometer.

UR - https://www.scopus.com/pages/publications/33845898858

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SN - 0036-8075

VL - 314

SP - 1933

EP - 1935

JO - Science

JF - Science

IS - 5807

ER -

Lineages of acidophilic archaea revealed by community genomic analysis

Abstract

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