Fungal Genomic Resources for Strain Identification and Diversity Analysis of 1900 Fungal Species

Mir Asif Iquebal, Sarika Jaiswal, Vineet Kumar Mishra, Rahul Singh Jasrotia, Ulavappa B. Angadi, Bhim Pratap Singh, Ajit Kumar Passari, Purbajyoti Deka, Ratna Prabha, Dhananjaya P. Singh, Vijai Kumar Gupta, Rukam Singh Tomar, Harinder Singh Oberoi, Anil Rai, Dinesh Kumar*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

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Abstract

Identification and diversity analysis of fungi is greatly challenging. Though internal transcribed spacer (ITS), region-based DNA fingerprinting works as a “gold standard” for most of the fungal species group, it cannot differentiate between all the groups and cryptic species. Therefore, it is of paramount importance to find an alternative approach for strain differentiation. Availability of whole genome sequence data of nearly 2000 fungal species are a promising solution to such requirement. We present whole genome sequence-based world’s largest microsatellite database, FungSatDB having >19M loci obtained from >1900 fungal species/strains using >4000 assemblies across globe. Genotyping efficacy of FungSatDB has been evaluated by both in-silico and in-vitro PCR. By in silico PCR, 66 strains of 8 countries representing four continents were successfully differentiated. Genotyping efficacy was also evaluated by in vitro PCR in four fungal species. This approach overcomes limitation of ITS in species, strain signature, and diversity analysis. It can accelerate fungal genomic research endeavors in agriculture, industrial, and environmental management.
Original languageEnglish
Article number288
JournalJournal of Fungi
Volume7
Issue number4
Early online date12 Apr 2021
DOIs
Publication statusFirst published - 12 Apr 2021

Keywords

  • Database
  • FungSatDB
  • Fungus
  • Genotyping
  • Microsatellite
  • Simple sequence repeats (SSRs)

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