Work

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

Year: 2019

Type: data-paper

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%.

Source: Scientific Data

DOI: 10.1038/sdata.2019.7

Authors: Yu. S. Bukin, Yu. P. Galachyants, I. V. Morozov, S. V. Bukin, A. S. Zakharenko, T. I. Zemskaya

Institutions: Siberian Branch of the Russian Academy of Sciences, Limnological Institute, Institute of Chemical Biology and Fundamental Medicine

Language: English

Topic: Microbial Community Ecology and Physiology

Subfield: Ecology

Field: Environmental Science

Domain: Physical Sciences

Open Access status: gold

Estimated APC paid: $1,690

Funders: Russian Foundation for Basic Research, Siberian Branch, Russian Academy of Sciences, Irkutsk Scientific Center, Siberian Branch, Russian Academy of Sciences