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High proportions of bacteria and archaea across most biomes remain uncultured

The ISME Journal, 2019-12, Vol.13 (12), p.3126-3130 [Peer Reviewed Journal]

2019. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2019 ;ISSN: 1751-7362 ;EISSN: 1751-7370 ;DOI: 10.1038/s41396-019-0484-y ;PMID: 31388130

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  • Title:
    High proportions of bacteria and archaea across most biomes remain uncultured
  • Author: Steen, Andrew D ; Crits-Christoph, Alexander ; Carini, Paul ; DeAngelis, Kristen M ; Fierer, Noah ; Lloyd, Karen G ; Cameron Thrash, J
  • Subjects: Archaea ; Archaea - genetics ; Bacteria ; Bacteria - genetics ; Brief Communication ; Ecosystem ; Gene sequencing ; Phylogeny ; RNA, Ribosomal, 16S ; rRNA 16S ; Similarity
  • Is Part Of: The ISME Journal, 2019-12, Vol.13 (12), p.3126-3130
  • Description: A recent paper by Martiny argues that "high proportions" of bacteria in diverse Earth environments have been cultured. Here we reanalyze a portion of the data in that paper, and argue that the conclusion is based on several technical errors, most notably a calculation of sequence similarity that does not account for sequence gaps, and the reliance on 16S rRNA gene amplicons that are known to be biased towards cultured organisms. We further argue that the paper is also based on a conceptual error: namely, that sequence similarity cannot be used to infer "culturability" because one cannot infer physiology from 16S rRNA gene sequences. Combined with other recent, more reliable studies, the evidence supports the conclusion that most bacterial and archaeal taxa remain uncultured.
  • Publisher: England: Nature Publishing Group
  • Language: English
  • Identifier: ISSN: 1751-7362
    EISSN: 1751-7370
    DOI: 10.1038/s41396-019-0484-y
    PMID: 31388130
  • Source: MEDLINE
    PubMed Central
    ProQuest Central
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