1st International and 10th National Iranian Conference on Bioinformatics
Home Accepted Papers
Transcriptomic analysis of walnut/ Ophiognomonia leptostyla interaction using RNA-seq
Paper ID : 1107-ICB10
Authors:
Fatemeh Khelghatibana *1, Mohammad Javan nikkhah2, Naser Safaie3, Ahmad Sobhani4, Ehsan Sari5
1Plant Pathology department, Iranian Research Institute of Plant Protection, Tehran, Iran
2Department of Plant Protection, College of Agriculture and Natural Resources, University of Tehran, Karaj, Iran
3Department of Plant Pathology, Faculty of Agriculture, Tarbiat Modares University, Tehran, Iran
4Agricultural Biotechnology Research Institute of Iran - Isfahan Branch, Agricultural Research, Education and Extension Organization (AREEO), P.O. Box: 85135-487, Isfahan, Iran.
5Wheat Genomics and Pathology ,Durum Wheat Breeding and Genetic Team, Crop Development Centre University of Saskatchewan, Saskatoon, Canada
Abstract:
Anthracnose disease caused by Ophiognomonia leptostyla, is one of the most important and widespread fungal disease on walnut species including Persian walnut [1]. Knowledge of molecular defense responses, could help to develop pathogen-tolerant walnut varieties. In this study RNA-seq was used to profile the transcriptome of O. leptostylia -inoculated and mock-inoculated leaf samples of Persian walnut (cv. Chandler) at three time points: 48(T1), 96(T2) and 144(T3) hours post inoculation. Short reads were generated as 100 PE on Illumina Novaseq 6000 platform. HISAT2 and StringTie were used for mapping and transcript assembly respectively [2;3]. Transcripts were annotated by sequence alignment similarity search BLASTX to protein database UniProt, TAIR10 and NCBI nr (e-value<1e-5). Geneontology enrichment was carried out based on annotation results using Wego software. In sum 30961, 41283 and 41283 genes were characterized in T1, T2 and T3 samples respectively. In contrast to T2 and T3 samples, GO terms in T1 were rather of biological process than molecular function or cellular components. That means the plant host responses to infection increased over 96hpi and 144hpi. Differential gene expression identified 892 and 1255 and 3174 DEGs in T1, T2 and T3 samples respectively (FDR < 0.001 LogFC=2) compared with healthy control. Overall in T1 sample the number of DEGs with decrease in expression were more than DEGs with increase, in contrast to T2 and T3 samples. Further analysis revealed a long list of diverse plant defense related genes identified among DEGs including different transcription factors like WRKY, ERFs, NAK, PR proteins, Zinc finger and proteins and NBS-LRR proteins, serine threonine kinases, ABC transporter and a proteins involve in hormone signal transduction. These are involved in hormone signal transduction, MAPKs signaling and phenylpropanoid biosynthesis pathways and constitute a complex defense network in the response of walnut cv. Chandler against to O. leptostyla infection.
Keywords:
Juglans regia; Ophiognomonia leptostyla; plant pathogen interaction, RNA-seq; DEGs; plant defense responses; cv Chandler
Status : Paper Accepted (Poster Presentation)