A database for ITS2 sequences from nematodes.
Amplicon
Database
ITS2
Sequencing
Journal
BMC genetics
ISSN: 1471-2156
Titre abrégé: BMC Genet
Pays: England
ID NLM: 100966978
Informations de publication
Date de publication:
10 07 2020
10 07 2020
Historique:
received:
29
10
2019
accepted:
29
06
2020
entrez:
12
7
2020
pubmed:
12
7
2020
medline:
30
3
2021
Statut:
epublish
Résumé
Marker gene surveys have a wide variety of applications in species identification, population genetics, and molecular epidemiology. As these methods expand to new types of organisms and additional markers beyond 16S and 18S rRNA genes, comprehensive databases are a critical requirement for proper analysis of these data. Here we present an ITS2 rDNA database for marker gene surveys of both free-living and parasitic nematode populations and the software used to build the database. This is currently the most complete and up-to-date ITS2 database for nematodes and is able to reproduce previous analysis that used a smaller database. This database is an important resource for researchers working on nematodes and also provides a tool to create ITS2 databases for any given taxonomy.
Sections du résumé
BACKGROUND
Marker gene surveys have a wide variety of applications in species identification, population genetics, and molecular epidemiology. As these methods expand to new types of organisms and additional markers beyond 16S and 18S rRNA genes, comprehensive databases are a critical requirement for proper analysis of these data.
RESULTS
Here we present an ITS2 rDNA database for marker gene surveys of both free-living and parasitic nematode populations and the software used to build the database. This is currently the most complete and up-to-date ITS2 database for nematodes and is able to reproduce previous analysis that used a smaller database.
CONCLUSIONS
This database is an important resource for researchers working on nematodes and also provides a tool to create ITS2 databases for any given taxonomy.
Identifiants
pubmed: 32650716
doi: 10.1186/s12863-020-00880-0
pii: 10.1186/s12863-020-00880-0
pmc: PMC7350610
doi:
Substances chimiques
DNA, Ribosomal Spacer
0
Genetic Markers
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
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