TY  - JOUR
N1  - The copyright of this article belongs to The American Phytopathology
ID  - open3179
UR  - https://apsjournals.apsnet.org/doi/10.1094/PHYTO-08-22-0304-SC?url_ver=Z39.88-2003&rfr_id=ori:rid:crossref.org&rfr_dat=cr_pub%20%200pubmed
IS  - 6
A1  - Kaur, Amandeep
A1  - Rana, Rekha
A1  - Bansal, Kanika
A1  - Patel, Hitendra K.
A1  - Sonti, Ramesh V.
A1  - Patil, Prabhu B
Y1  - 2023/06//
N2  - Xanthomonas oryzae pv. oryzae (Xoo) is a major rice pathogen, and its genome harbors extensive inter-strain and inter-lineage variations. The emergence of highly virulent pathotypes of Xoo that can overcome major resistance (R) genes deployed in rice breeding programs is a grave threat to rice cultivation. The present study reports on a long-read Oxford nanopore-based complete genomic investigation of Xoo isolates from 11 pathotypes that are reported based on their reaction toward 10 R genes. The investigation revealed remarkable variation in the genome structure in the strains belonging to different pathotypes. Furthermore, transcription activator-like effector (TALE) proteins secreted by the type III secretion system display marked variation in content, genomic location, classes, and DNA-binding domain. We also found the association of tal genes in the vicinity of regions with genome structural variations. Furthermore, in silico analysis of the genome-wide rice targets of TALEs allowed us to understand the emergence of pathotypes compatible with major R genes. Long-read, cost-effective sequencing technologies such as nanopore can be a game changer in the surveillance of major and emerging pathotypes. The resource and findings will be invaluable in the management of Xoo and in appropriate deployment of R genes in rice breeding programs.


PB  - The American Phytopathology
JF  - Phytopathology
VL  - 113
KW  - Oxford Nanopore; Xanthomonas oryzae pv. oryzae; pathotype; resistance (R) genes; transcription activator-like effectors
SN  - 0031-949X 
TI  - Insights into the Diversity of Transcription Activator-Like Effectors in Indian Pathotype Strains of Xanthomonas oryzae pv. oryzae 
SP  - 953
EP  - 959
ER  -