Open AccessConstruction & assessment of a unified curated reference database for improving the taxonomic classification of bacteria using 16S rRNA sequence data
Author(s) -
Shikha Agnihotry,
Aditya Narayan Sarangi,
Rakesh Aggarwal
Publication year - 2020
Publication title -
indian journal of medical research
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.578
H-Index - 87
ISSN - 0971-5916
DOI - 10.4103/ijmr.ijmr_220_18
Subject(s) - 16s ribosomal rna , sequence (biology) , biology , computational biology , database , bacteria , computer science , paleontology , genetics
For bacterial community analysis, 16S rRNA sequences are subjected to taxonomic classification through comparison with one of the three commonly used databases [Greengenes, SILVA and Ribosomal Database Project (RDP)]. It was hypothesized that a unified database containing fully annotated, non-redundant sequences from all the three databases, might provide better taxonomic classification during analysis of 16S rRNA sequence data. Hence, a unified 16S rRNA database was constructed and its performance was assessed by using it with four different taxonomic assignment methods, and for data from various hypervariable regions (HVRs) of 16S rRNA gene.