The default cyanobacterial linked genome: an interactive platform based on cyanobacterial linkage networks to assist functional genomics.
DUF
co-occurrence
cyanobacteria
functional genomics
gene linkage
synteny
Journal
FEBS letters
ISSN: 1873-3468
Titre abrégé: FEBS Lett
Pays: England
ID NLM: 0155157
Informations de publication
Date de publication:
06 2020
06 2020
Historique:
received:
22
12
2019
revised:
14
02
2020
accepted:
12
03
2020
pubmed:
2
4
2020
medline:
17
4
2021
entrez:
2
4
2020
Statut:
ppublish
Résumé
A database of cyanobacterial linked genomes that can be accessed through an interactive platform (https://dfgm.ua.es/genetica/investigacion/cyanobacterial_genetics/Resources.html) was generated on the bases of conservation of gene neighborhood across 124 cyanobacterial species. It allows flexible generation of gene networks at different threshold values. The default cyanobacterial linked genome, whose global properties are analyzed here, connects most of the cyanobacterial core genes. The potential of the web tool is discussed in relation to other bioinformatics approaches based on guilty-by-association principles, with selected examples of networks illustrating its usefulness for genes found exclusively in cyanobacteria or in cyanobacteria and chloroplasts. We believe that this tool will provide useful predictions that are readily testable in Synechococcus elongatus PCC7942 and other model organisms performing oxygenic photosynthesis.
Identifiants
pubmed: 32233038
doi: 10.1002/1873-3468.13775
doi:
Substances chimiques
Oxygen
S88TT14065
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
1661-1674Informations de copyright
© 2020 Federation of European Biochemical Societies.
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