Optical mapping of the Fusarium oxysporum f. sp. melongenae genome


ATEŞ D., Altinok H. H., TANYOLAÇ M. B.

JOURNAL OF BASIC MICROBIOLOGY, vol.62, no.5, pp.604-610, 2022 (SCI-Expanded) identifier identifier identifier

  • Publication Type: Article / Article
  • Volume: 62 Issue: 5
  • Publication Date: 2022
  • Doi Number: 10.1002/jobm.202100627
  • Journal Name: JOURNAL OF BASIC MICROBIOLOGY
  • Journal Indexes: Science Citation Index Expanded (SCI-EXPANDED), Scopus, BIOSIS, CAB Abstracts, EMBASE, Environment Index, MEDLINE, Veterinary Science Database
  • Page Numbers: pp.604-610
  • Keywords: bionano, eggplant, Fusarium oxysporum f, sp, melongenae, genome sequencing, optical mapping, EGGPLANT, TURKEY, DNA
  • Erciyes University Affiliated: Yes

Abstract

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.