Pangenome Analysis of the Soilborne Fungal Phytopathogen Rhizoctonia solani and Development of a Comprehensive Web Resource: RsolaniDB

Abhinav Kaushik, Daniel P. Roberts, Abhinay Ramaprasad, Sara Mfarrej, Mridul Nair, Dilip K. Lakshman, Arnab Pain

Research output: Contribution to journalArticlepeer-review

9 Scopus citations

Abstract

Rhizoctonia solani is a collective group of genetically and pathologically diverse basidiomycetous fungi that damage economically important crops. Its isolates are classified into 13 Anastomosis Groups (AGs) and subgroups having distinctive morphology and host ranges. The genetic factors driving the unique features of R. solani pathology are not well characterized due to the limited availability of its annotated genomes. Therefore, we performed genome sequencing, assembly, annotation and functional analysis of 12 R. solani isolates covering 7 AGs and select subgroups (AG1-IA; AG1-IB; AG1-IC; AG2-2IIIB; AG3-PT, isolates Rhs 1AP and the hypovirulent Rhs1A1; AG3-TB; AG4-HG-I, isolates Rs23 and R118-11; AG5; AG6; and AG8), in which six genomes are reported for the first time. Using a pangenome comparative analysis of 12 R. solani isolates and 15 other Basidiomycetes, we defined the unique and shared secretomes, CAZymes, and effectors across the AGs. We have also elucidated the R. solani-derived factors potentially involved in determining AG-specific host preference, and the attributes distinguishing them from other Basidiomycetes. Finally, we present the largest repertoire of R. solani genomes and their annotated components as a comprehensive database, viz. RsolaniDB, with tools for large-scale data mining, functional enrichment and sequence analysis not available with other state-of-the-art platforms
Original languageEnglish (US)
JournalFrontiers in Microbiology
Volume13
DOIs
StatePublished - Mar 25 2022

Bibliographical note

KAUST Repository Item: Exported on 2022-12-12
Acknowledged KAUST grant number(s): BAS/1/1020-01-01
Acknowledgements: We thank the members of the Bioscience Core Laboratory (BCL) in KAUST for producing the raw DNA and RNA sequence datasets and Adnan (Ed) Ismaiel, USDA-ARS, SASL, for DNA extraction and fungal culture maintenance. We also thank Drs. Ian Misner and Nadim Alkharouf (Towson University, Towson, MD) for helping during the initial set-up phase of the project. We also thank Arindam Chakraborty and his team members from KAUST for their technical IT support in setting up RsolaniDB database server

ASJC Scopus subject areas

  • Microbiology (medical)
  • Microbiology

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