Calum J Walsh, Meghana Srinivas, Timothy P Stinear, Douwe van Sinderen, Paul D Cotter, John G Kenny
{"title":"GROND: a quality-checked and publicly available database of full-length 16S-ITS-23S rRNA operon sequences.","authors":"Calum J Walsh, Meghana Srinivas, Timothy P Stinear, Douwe van Sinderen, Paul D Cotter, John G Kenny","doi":"10.1099/mgen.0.001255","DOIUrl":null,"url":null,"abstract":"<p><p>Sequence comparison of 16S rRNA PCR amplicons is an established approach to taxonomically identify bacterial isolates and profile complex microbial communities. One potential application of recent advances in long-read sequencing technologies is to sequence entire rRNA operons and capture significantly more phylogenetic information compared to sequencing of the 16S rRNA (or regions thereof) alone, with the potential to increase the proportion of amplicons that can be reliably classified to lower taxonomic ranks. Here we describe <i>GROND</i> (<i>G</i>enome-derived <i>R</i>ibosomal <i>O</i>pero<i>n D</i>atabase), a publicly available database of quality-checked 16S-ITS-23S rRNA operons, accompanied by multiple taxonomic classifications. <i>GROND</i> will aid researchers in analysis of their data and act as a standardised database to allow comparison of results between studies.</p>","PeriodicalId":18487,"journal":{"name":"Microbial Genomics","volume":"10 6","pages":""},"PeriodicalIF":4.0000,"publicationDate":"2024-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11261877/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Microbial Genomics","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1099/mgen.0.001255","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"GENETICS & HEREDITY","Score":null,"Total":0}
引用次数: 0
Abstract
Sequence comparison of 16S rRNA PCR amplicons is an established approach to taxonomically identify bacterial isolates and profile complex microbial communities. One potential application of recent advances in long-read sequencing technologies is to sequence entire rRNA operons and capture significantly more phylogenetic information compared to sequencing of the 16S rRNA (or regions thereof) alone, with the potential to increase the proportion of amplicons that can be reliably classified to lower taxonomic ranks. Here we describe GROND (Genome-derived Ribosomal Operon Database), a publicly available database of quality-checked 16S-ITS-23S rRNA operons, accompanied by multiple taxonomic classifications. GROND will aid researchers in analysis of their data and act as a standardised database to allow comparison of results between studies.
期刊介绍：
Microbial Genomics (MGen) is a fully open access, mandatory open data and peer-reviewed journal publishing high-profile original research on archaea, bacteria, microbial eukaryotes and viruses.
求助内容：
应助结果提醒方式：
京公网安备 11010802042870号
