Optical mapping of the Fusarium oxysporum f. sp. melongenae genome.
Fusarium oxysporum f. sp. melongenae
bionano
eggplant
genome sequencing
optical mapping
Journal
Journal of basic microbiology
ISSN: 1521-4028
Titre abrégé: J Basic Microbiol
Pays: Germany
ID NLM: 8503885
Informations de publication
Date de publication:
May 2022
May 2022
Historique:
revised:
21
01
2022
received:
30
11
2021
accepted:
12
02
2022
pubmed:
17
2
2022
medline:
4
5
2022
entrez:
16
2
2022
Statut:
ppublish
Résumé
Optical mapping approaches are widely preferred and applied in different branches of genomic studies because of their accuracy, low cost, and high efficiency. In the current study, a sequence orientation of the Fusarium oxysporum f. sp. melongenae (FOMG) genome that is deposited in GenBank National Center for Biotechnology Information under accession number MPIL00000000 was used as the reference genome, which we checked with Bionano Genomics optical mapping approaches. The optical mapping produced 103 contigs, the longest of which was 3.05 Mb. The N50 value of optical map contigs is 0.85 Mb. The sequences of the FOMG reference genome and optical map mainly match each other. Results obtained in the current study indicate that optical mapping can be used to construct complete and gapless assemblies of the FOMG genome. It also can be applied to validate a previous genome assembly.
Identifiants
pubmed: 35170765
doi: 10.1002/jobm.202100627
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
604-610Subventions
Organisme : The Scientific and Technological Research Council of Turkey (TUBITAK)
ID : COST-114O866
Informations de copyright
© 2022 Wiley-VCH GmbH.
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