Comparative Temporal Transcriptome Profiling of Wheat near Isogenic Line Carrying Lr 57 under Compatible and Incompatible Interactions

• Published in: Frontiers in plant science Vol. 7; p. 1943
• Main Authors: Yadav, Inderjit S, Sharma, Amandeep, Kaur, Satinder, Nahar, Natasha, Bhardwaj, Subhash C, Sharma, Tilak R, Chhuneja, Parveen
• Format: Journal Article
• Language: English
• Published: Switzerland 2016
• Subjects: differential gene expression; R-genes; transcriptomics; pathways; wheat; Lr57; RNAseq; leaf rust
• ISSN: 1664-462X

Leaf rust caused by ( ) is one of the most important diseases of bread wheat globally. Recent advances in sequencing technologies have provided opportunities to analyse the complete transcriptomes of the host as well as pathogen for studying differential gene expression during infection. Pathogen induced differential gene expression was characterized in a near isogenic line carrying leaf rust resistance gene and susceptible recipient genotype WL711. RNA samples were collected at five different time points 0, 12, 24, 48, and 72 h post inoculation (HPI) with Pt 77-5. A total of 3020 transcripts were differentially expressed with 1458 and 2692 transcripts in WL711 and WL711+ , respectively. The highest number of differentially expressed transcripts was detected at 12 HPI. Functional categorization using Blast2GO classified the genes into biological processes, molecular function and cellular components. WL711+ showed much higher number of differentially expressed nucleotide binding and leucine rich repeat genes and expressed more protein kinases and pathogenesis related proteins such as chitinases, glucanases and other PR proteins as compared to susceptible genotype. Pathway annotation with KEGG categorized genes into 13 major classes with carbohydrate metabolism being the most prominent followed by amino acid, secondary metabolites, and nucleotide metabolism. Gene co-expression network analysis identified four and eight clusters of highly correlated genes in WL711 and WL711+ , respectively. Comparative analysis of the differentially expressed transcripts led to the identification of some transcripts which were specifically expressed only in WL711+ . It was apparent from the whole transcriptome sequencing that the resistance gene directed the expression of different genes involved in building the resistance response in the host to combat invading pathogen. The RNAseq data and differentially expressed transcripts identified in present study is a genomic resource which can be used for further studying the host pathogen interaction for and wheat transcriptome in general.