Genome analysis provides insight about pathogenesis of Indian strains of Rhizoctonia solani in rice
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The Rhizoctonia solani species complex is comprised of strains belonging to different anastomosis groups and causes diseases in several economically important crops, including rice. However, individuals within same anastomosis group exhibit distinct morphological and pathological differences on the same host. In this study, we have sequenced the genome of two aggressive Indian strains (BRS11 and BRS13) belonging to AG1-IA anastomosis group and compared them with the available genome of R. solani AG1-IA. We identified several SNPs and Indels in both of these genomes, in comparison to the AG1-IA genome. Furthermore, we observed expansion and emergence of orthogroups in these Indian strains and identified those potentially associated with pathogenesis. Amongst them, transposable elements, cell wall degrading enzymes, transcription factors, and oxalate decarboxylase were noteworthy. The current study unravels genetic variations and identifies genes that might account for pathogenicity variations amongst R. solani strains.
KeywordsRice sheath blight PHI-base Effectors Variants Necrotrophy Genome sequencing
SG acknowledges SPM fellowship from CSIR (Council of Scientific and Industrial Research, Govt. of India) while KT and PK acknowledge the SRF and Post-Doctoral Research fellowship from DBT (Department of Biotechnology, Govt of India) respectively. We are thankful to Dr. G.S. Laha, IIRR (Indian Institute of Rice Research, Hyderabad, India) and ITCC (Indian Type Culture Collection, New Delhi, India) for providing some of the R. solani strains used in this study. We also acknowledge Nucleome Informatics Pvt. Ltd. (Hyderabad) for assistance in genome sequencing. Further, the assistance of confocal microscopy, sequencing, plant growth and central instrumentation facilities at National Institute of Plant Genome Research (NIPGR) is acknowledged.
SG performed the isolation and characterization of Indian strains. NM and SG carried out genome analysis. SG and PK performed wet lab experiments and compiled the manuscript. SG, PK, NM, KT, and GJ drafted the manuscript. GJ planned and supervised the experiments.
This work was supported by DBT, Government of India (BT/PR11532/AGIII/103/885/2014) as well as core research grant from NIPGR. The funders had no role in study design, data collection and analysis, decision to publish the manuscript.
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