Genomics and the pathogenic protein networks of Phomopsis longicolla

Authors: Li, Shuxian

Submitted to: Meeting Abstract
Publication Type: Abstract Only
Publication Acceptance Date: 11/30/2018
Publication Date: N/A
Citation: N/A

Interpretive Summary:

Technical Abstract: The fungal pathogen Phomopsis longicolla T. W. Hobbs (syn. Diaporthe longicolla) is the primary cause of Phomopsis seed decay in soybean. This disease has resulted in significant reduction of seed quality in most soybean production areas worldwide. To facilitate investigation of the genomic basis of pathogenicity and the mechanism of disease development, the genome of an isolate, MSPL10-6, from Mississippi, USA was sequenced, de novo assembled, and analyzed. The genome of MSPL 10-6 was estimated to be approximately 62 Mb in size with an overall G+C content of 48.6 %. Of 16,597 predicted genes, 9,866 genes (59.45%) had significant matches to genes in the NCBI nr database, while 18.01% of them did not link to any gene ontology classification, and 9.64% of genes did not significantly match any known genes. Analysis of the 1,221 putative genes that encoded carbohydrate-activated enzymes (CAZys) indicated that 715 genes belong to three classes of CAZy that have a direct role in degrading plant cell walls. Approximately 12.7% of the P. longicolla genome consists of repetitive elements. There were 510 potentially horizontally transferred genes in the genome. In addition, analysis of the protein-protein interactions (PPI) using the interlog method identified 215,255 unique PPIs among 3,868 proteins. A total of 1,414 pathogenicity related genes in P. longicolla were identified from the pathogen host interaction (PHI) database. Information obtained from this study enhances our knowledge about this seed-borne pathogen and will facilitate further in-depth research on the genomic basis and pathogenicity mechanism of P. longicolla and aids in development of improved strategies for efficient management of Phomopsis seed decay in soybean.