Diversity at low abundance: phenomen of the rare bacterial biosphere

M.Yu. Skopina, A.A. Vasileva, E.V. Pershina, A.V. Pinevich

Результат исследований: Научные публикации в периодических изданияхОбзор литературы

8 Цитирования (Scopus)

Выдержка

Abstract—Rare bacterial biosphere (RBB) is a large and probably predominant sector of bacterial diversity, which is specifically represented by small populations. Although some RBB components have been characterized phenotypically (actualistic objects), it has been mainly described as a set of virtual objects, i.e., of the 16S rRNA gene sequences from environmental DNA samples, which are grouped into phylotypes (operational taxonomic units, OTUs). The upper OTU threshold for RBB is presently not standardized. It is usually ~1% of the sum of OTU sequences in the metagenome library, or five sequences per OTU in absolute values. The analyzed RBB objects include (1) virtual and actualistic objects; (2) autochthonous and allochthonous forms; (3) vegetative and differentiated cells; (4) dead bacteria and free DNA; and (5) artifacts and informational gaps. The RBB phenomenon has not been sufficiently explained. According to some concepts, the RBB objects are rare due to restrictive action of unfavorable environmenta
Язык оригиналане определен
Страницы (с-по)272-282
ЖурналMicrobiology
Том85
Номер выпуска3
DOI
СостояниеОпубликовано - 2016

Цитировать

Skopina, M.Yu. ; Vasileva, A.A. ; Pershina, E.V. ; Pinevich, A.V. / Diversity at low abundance: phenomen of the rare bacterial biosphere. В: Microbiology. 2016 ; Том 85, № 3. стр. 272-282.
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abstract = "Abstract—Rare bacterial biosphere (RBB) is a large and probably predominant sector of bacterial diversity, which is specifically represented by small populations. Although some RBB components have been characterized phenotypically (actualistic objects), it has been mainly described as a set of virtual objects, i.e., of the 16S rRNA gene sequences from environmental DNA samples, which are grouped into phylotypes (operational taxonomic units, OTUs). The upper OTU threshold for RBB is presently not standardized. It is usually ~1{\%} of the sum of OTU sequences in the metagenome library, or five sequences per OTU in absolute values. The analyzed RBB objects include (1) virtual and actualistic objects; (2) autochthonous and allochthonous forms; (3) vegetative and differentiated cells; (4) dead bacteria and free DNA; and (5) artifacts and informational gaps. The RBB phenomenon has not been sufficiently explained. According to some concepts, the RBB objects are rare due to restrictive action of unfavorable environmenta",
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Diversity at low abundance: phenomen of the rare bacterial biosphere. / Skopina, M.Yu.; Vasileva, A.A.; Pershina, E.V.; Pinevich, A.V.

В: Microbiology, Том 85, № 3, 2016, стр. 272-282.

Результат исследований: Научные публикации в периодических изданияхОбзор литературы

TY - JOUR

T1 - Diversity at low abundance: phenomen of the rare bacterial biosphere

AU - Skopina, M.Yu.

AU - Vasileva, A.A.

AU - Pershina, E.V.

AU - Pinevich, A.V.

PY - 2016

Y1 - 2016

N2 - Abstract—Rare bacterial biosphere (RBB) is a large and probably predominant sector of bacterial diversity, which is specifically represented by small populations. Although some RBB components have been characterized phenotypically (actualistic objects), it has been mainly described as a set of virtual objects, i.e., of the 16S rRNA gene sequences from environmental DNA samples, which are grouped into phylotypes (operational taxonomic units, OTUs). The upper OTU threshold for RBB is presently not standardized. It is usually ~1% of the sum of OTU sequences in the metagenome library, or five sequences per OTU in absolute values. The analyzed RBB objects include (1) virtual and actualistic objects; (2) autochthonous and allochthonous forms; (3) vegetative and differentiated cells; (4) dead bacteria and free DNA; and (5) artifacts and informational gaps. The RBB phenomenon has not been sufficiently explained. According to some concepts, the RBB objects are rare due to restrictive action of unfavorable environmenta

AB - Abstract—Rare bacterial biosphere (RBB) is a large and probably predominant sector of bacterial diversity, which is specifically represented by small populations. Although some RBB components have been characterized phenotypically (actualistic objects), it has been mainly described as a set of virtual objects, i.e., of the 16S rRNA gene sequences from environmental DNA samples, which are grouped into phylotypes (operational taxonomic units, OTUs). The upper OTU threshold for RBB is presently not standardized. It is usually ~1% of the sum of OTU sequences in the metagenome library, or five sequences per OTU in absolute values. The analyzed RBB objects include (1) virtual and actualistic objects; (2) autochthonous and allochthonous forms; (3) vegetative and differentiated cells; (4) dead bacteria and free DNA; and (5) artifacts and informational gaps. The RBB phenomenon has not been sufficiently explained. According to some concepts, the RBB objects are rare due to restrictive action of unfavorable environmenta

KW - bacterial diversity

KW - the rare bacterial biosphere

KW - environmental DNA

KW - high-throughput 16S rRNA gene sequencing

KW - metagenomics

KW - phylotype

KW - operational taxonomic unit

KW - endemic

U2 - 10.1134/S0026261716030139

DO - 10.1134/S0026261716030139

M3 - Обзор литературы

VL - 85

SP - 272

EP - 282

JO - МИКРОБИОЛОГИЯ

JF - МИКРОБИОЛОГИЯ

SN - 0026-3656

IS - 3

ER -