The effect of 16S rRNA region choice on bacterial community metabarcoding results

Standard

The effect of 16S rRNA region choice on bacterial community metabarcoding results. / Букин, Юрий; Галачьянц, Юрий; Морозов, Игорь Владимирович и др.

в: Scientific Data, Том 6, 190007, 05.02.2019, стр. 190007.

Результаты исследований: Научные публикации в периодических изданиях › статья › Рецензирование

Harvard

Букин, Ю, Галачьянц, Ю, Морозов, ИВ, Букин, С, Захаренко, А & Земская, Т 2019, 'The effect of 16S rRNA region choice on bacterial community metabarcoding results', Scientific Data, Том. 6, 190007, стр. 190007. https://doi.org/10.1038/sdata.2019.7

APA

Букин, Ю., Галачьянц, Ю., Морозов, И. В., Букин, С., Захаренко, А., & Земская, Т. (2019). The effect of 16S rRNA region choice on bacterial community metabarcoding results. Scientific Data, 6, 190007. [190007]. https://doi.org/10.1038/sdata.2019.7

Vancouver

Букин Ю, Галачьянц Ю, Морозов ИВ, Букин С, Захаренко А, Земская Т. The effect of 16S rRNA region choice on bacterial community metabarcoding results. Scientific Data. 2019 февр. 5;6:190007. 190007. doi: 10.1038/sdata.2019.7

Author

Букин, Юрий ; Галачьянц, Юрий ; Морозов, Игорь Владимирович и др. / The effect of 16S rRNA region choice on bacterial community metabarcoding results. в: Scientific Data. 2019 ; Том 6. стр. 190007.

BibTeX

@article{62d0156266bd45b196cc04f6956e5e24,

title = "The effect of 16S rRNA region choice on bacterial community metabarcoding results",

abstract = "In this work, we compare the resolution of V2-V3 and V3-V4 16S rRNA regions for the purposes of estimating microbial community diversity using paired-end Illumina MiSeq reads, and show that the fragment, including V2 and V3 regions, has higher resolution for lower-rank taxa (genera and species). It allows for a more precise distance-based clustering of reads into species-level OTUs. Statistically convergent estimates of the diversity of major species (defined as those that together are covered by 95% of reads) can be achieved at the sample sizes of 10000 to 15000 reads. The relative error of the Shannon index estimate for this condition is lower than 4%.",

keywords = "Bacteria/genetics, Computational Biology/methods, DNA Barcoding, Taxonomic/methods, High-Throughput Nucleotide Sequencing, Lakes, Metagenomics/methods, Microbiota/genetics, RNA, Ribosomal, 16S/genetics, Russia, Sequence Analysis, DNA, Water Microbiology",

author = "Юрий Букин and Юрий Галачьянц and Морозов, {Игорь Владимирович} and Сергей Букин and А. Захаренко and Тамара Земская",

year = "2019",

month = feb,

day = "5",

doi = "10.1038/sdata.2019.7",

language = "English",

volume = "6",

pages = "190007",

journal = "Scientific Data",

issn = "2052-4463",

publisher = "Nature Publishing Group",

}

RIS

TY - JOUR

T1 - The effect of 16S rRNA region choice on bacterial community metabarcoding results

AU - Букин, Юрий

AU - Галачьянц, Юрий

AU - Морозов, Игорь Владимирович

AU - Букин, Сергей

AU - Захаренко, А.

AU - Земская, Тамара

PY - 2019/2/5

Y1 - 2019/2/5

N2 - In this work, we compare the resolution of V2-V3 and V3-V4 16S rRNA regions for the purposes of estimating microbial community diversity using paired-end Illumina MiSeq reads, and show that the fragment, including V2 and V3 regions, has higher resolution for lower-rank taxa (genera and species). It allows for a more precise distance-based clustering of reads into species-level OTUs. Statistically convergent estimates of the diversity of major species (defined as those that together are covered by 95% of reads) can be achieved at the sample sizes of 10000 to 15000 reads. The relative error of the Shannon index estimate for this condition is lower than 4%.

AB - In this work, we compare the resolution of V2-V3 and V3-V4 16S rRNA regions for the purposes of estimating microbial community diversity using paired-end Illumina MiSeq reads, and show that the fragment, including V2 and V3 regions, has higher resolution for lower-rank taxa (genera and species). It allows for a more precise distance-based clustering of reads into species-level OTUs. Statistically convergent estimates of the diversity of major species (defined as those that together are covered by 95% of reads) can be achieved at the sample sizes of 10000 to 15000 reads. The relative error of the Shannon index estimate for this condition is lower than 4%.

KW - Bacteria/genetics

KW - Computational Biology/methods

KW - DNA Barcoding, Taxonomic/methods

KW - High-Throughput Nucleotide Sequencing

KW - Lakes

KW - Metagenomics/methods

KW - Microbiota/genetics

KW - RNA, Ribosomal, 16S/genetics

KW - Russia

KW - Sequence Analysis, DNA

KW - Water Microbiology

UR - http://www.scopus.com/inward/record.url?scp=85061060066&partnerID=8YFLogxK

U2 - 10.1038/sdata.2019.7

DO - 10.1038/sdata.2019.7

M3 - Article

C2 - 30720800

VL - 6

SP - 190007

JO - Scientific Data

JF - Scientific Data

SN - 2052-4463

M1 - 190007

ER -

ID: 25311878