Candidate effectors for leaf rust resistance gene Lr28 identified through transcriptome and in-silico analysis

Frontiers in Microbiology

Microbiology

Jyoti Chaudhary¹  Pushpendra Kumar Gupta¹  Harindra Singh Balyan¹  Neelu Jain²  Siddanna Savadi³  Pramod Prasad⁴  Subodh Kumar⁴  Charu Lata⁴  Om Prakash Gangwar⁴  Subhash Chander Bhardwaj⁴  Rajni Kant Thakur⁴  Sneha Adhikari⁵ 

[1] Department of Genetics and Plant Breeding, Chaudhary Charan Singh University, Meerut, India;Division of Genetics, ICAR-Indian Agricultural Research Institute (IARI), New Delhi, India;ICAR-Directorate of Cashew Research, Puttur, India;ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla, India;ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla, India;Division of Genetics, ICAR-Indian Agricultural Research Institute (IARI), New Delhi, India;

关键词: wheat;    leaf rust;    Puccinia;    pathogenicity;    Avr genes;    qRT-PCR;   

DOI  :  10.3389/fmicb.2023.1143703

 received in 2023-01-13, accepted in 2023-07-31,  发布年份 2023

来源: Frontiers

【 摘 要 】

Puccinia spp. causing rust diseases in wheat and other cereals secrete several specialized effector proteins into host cells. Characterization of these proteins and their interaction with host’s R proteins could greatly help to limit crop losses due to diseases. Prediction of effector proteins by combining the transcriptome analysis and multiple in-silico approaches is gaining importance in revealing the pathogenic mechanism. The present study involved identification of 13 Puccinia triticina (Pt) coding sequences (CDSs), through transcriptome analysis, that were differentially expressed during wheat-leaf rust interaction; and prediction of their effector like features using different in-silico tools. NCBI-BLAST and pathogen-host interaction BLAST (PHI-BLAST) tools were used to annotate and classify these sequences based on their most closely matched counterpart in both the databases. Homology between CDSs and the annotated sequences in the NCBI database ranged from 79 to 94% and with putative effectors of other plant pathogens in PHI-BLAST from 24.46 to 54.35%. Nine of the 13 CDSs had effector-like features according to EffectorP 3.0 (≥0.546 probability of these sequences to be effector). The qRT-PCR expression analysis revealed that the relative expression of all CDSs in compatible interaction (HD2329) was maximum at 11 days post inoculation (dpi) and that in incompatible interactions (HD2329 + Lr28) was maximum at 3 dpi in seven and 9 dpi in five CDSs. These results suggest that six CDSs (>0.8 effector probability as per EffectorP 3.0) could be considered as putative Pt effectors. The molecular docking and MD simulation analysis of these six CDSs suggested that candidate Lr28 protein binds more strongly to candidate effector c14094_g1_i1 to form more stable complex than the remaining five. Further functional characterization of these six candidate effectors should prove useful for a better understanding of wheat-leaf rust interaction. In turn, this should facilitate effector-based leaf rust resistance breeding in wheat.

【 授权许可】

Unknown   
Copyright © 2023 Prasad, Jain, Chaudhary, Thakur, Savadi, Bhardwaj, Gangwar, Lata, Adhikari, Kumar, Balyan and Gupta.