Identification of differentially expressed genes in tolerant and susceptible potato cultivars in response to Spongospora subterranea f. sp. subterranea tuber infection

Lekota, Moleboheng; Muzhinji, Norman; Van der Waals, Jacqueline Elise

Identification of differentially expressed genes in tolerant and susceptible potato cultivars in response to Spongospora subterranea f. sp. subterranea tuber infection

dc.contributor.author	Lekota, Moleboheng
dc.contributor.author	Muzhinji, Norman
dc.contributor.author	Van der Waals, Jacqueline Elise
dc.contributor.email	jacquie.vdwaals@up.ac.za	en_ZA
dc.date.accessioned	2019-09-11T09:41:33Z
dc.date.issued	2019-08
dc.description	Figure S1. Relative expression levels of selected potato defence genes in tolerant and susceptible potato cultivars. Expression levels of StTOSB, StSN2, StUDP, StSN1, StPRF, StLOX, StWRKY6, StMRNA, StDEF and StNBS were measured in Innovator (tolerant) and Vanderplank (susceptible) cultivars inoculated and uninoculated with Spongospora subterranea f. sp. subterranea. Amplification of StEFα‐1 and β‐tubulin gene expression was used to normalize the expression value in each sample. The relative expression values were determined against the average values of the uninoculated control samples. Data represent fold change of gene expression at 7 weeks after emergence and at 15 weeks after emergence. The average of three replicates is shown and different letters show significant differences (Student's t‐test: P < 0.05) between the two cultivars.	en_ZA
dc.description	Figure S2. Mean powdery scab disease severity and disease index of two potato cultivars evaluated for Spongospora subterranea f. sp. subterranea tuber infection. Values are log 10 transformed means of the three biological replicates for each cultivar. Bars represent the standard error.	en_ZA
dc.description	Table S1. List of differentially expressed genes in tolerant potato cultivar Innovator, inoculated with Spongospora subterranea f. sp. subterranea.	en_ZA
dc.description	Table S2. List of differentially expressed genes in susceptible potato cultivar Vanderplank, inoculated with Spongospora subterranea f. sp. subterranea.	en_ZA
dc.description	Table S3. List of genes up‐regulated in tolerant and susceptible potato cultivars inoculated/uninoculated with Spongospora subterranea f. sp. subterranea.	en_ZA
dc.description	Table S4. List of genes down‐regulated in tolerant and susceptible potato cultivars inoculated/uninoculated with Spongospora subterranea f. sp. subterranea.	en_ZA
dc.description.abstract	Powdery scab caused by Spongospora subterranea f. sp. subterranea (Sss) has recently become one of the most devastating potato diseases of economic importance in South Africa. The use of resistant cultivars has long been considered the most effective and sustainable strategy to manage the pathogen. However, little is known about the molecular mechanisms underlying resistance of potato tubers to Sss. Using RNA‐sequencing (RNA‐seq), 2058 differentially expressed genes (DEGs) were identified from two potato cultivars (tolerant and susceptible) in response to Sss infection. Analysis of the expression patterns of 10 selected defence‐response genes was carried out at two different stages of tuber growth using RT‐qPCR to validate the RNA‐seq data. Several defence‐related genes showed contrasting expression patterns between the tolerant and susceptible cultivars, including marker genes involved in the salicylic acid hormonal response pathway (StMRNA, StUDP and StWRKY6). Induction of six defence‐related genes (StWRKY6, StTOSB, StSN2, StLOX, StUDP and StSN1) persisted until harvest of the tubers, while three other genes (StNBS, StMRNA and StPRF) were highly up‐regulated during the initial stages of disease development. The results of this preliminary study suggest that the tolerant potato cultivar employs quantitative resistance and salicylic acid pathway hormonal responses against tuber infection by Sss. The identified genes have the potential to be used in the development of molecular markers for selection of powdery scab resistant potato lines in marker‐assisted breeding programmes.	en_ZA
dc.description.department	Plant Production and Soil Science	en_ZA
dc.description.embargo	2020-08-01
dc.description.librarian	hj2019	en_ZA
dc.description.sponsorship	The Schlumberger foundation and the National Research Foundation (NRF).	en_ZA
dc.description.uri	https://onlinelibrary.wiley.com/journal/13653059	en_ZA
dc.identifier.citation	Lekota, M., Muzhinji, N. & Van der Waals, J.E. 2019, 'Identification of differentially expressed genes in tolerant and susceptible potato cultivars in response to Spongospora subterranea f. sp. subterranea tuber infection', Plant Pathology, vol. 68, no. 6, pp. 1196-1206.	en_ZA
dc.identifier.issn	0032-0862 (print)
dc.identifier.issn	1365-3059 (online)
dc.identifier.other	10.1111/ppa.13029
dc.identifier.uri	http://hdl.handle.net/2263/71332
dc.language.iso	en	en_ZA
dc.publisher	Wiley	en_ZA
dc.rights	© 2019 British Society for Plant Pathology. This is the pre-peer reviewed version of the following article : 'Identification of differentially expressed genes in tolerant and susceptible potato cultivars in response to Spongospora subterranea f. sp. subterranea tuber infection', Plant Pathology, vol. 68, no. 6, pp. 1196-1206, 2019, doi : 10.1111/ppa.13029. The definite version is available at : https://onlinelibrary.wiley.com/journal/13653059.	en_ZA
dc.subject	Spongospora subterranea f. sp. subterranea (Sss)	en_ZA
dc.subject	Differential gene expression	en_ZA
dc.subject	Potato (Solanum tuberosum)	en_ZA
dc.subject	Powdery scab	en_ZA
dc.subject	RNA-sequencing (RNA‐seq)	en_ZA
dc.subject	Reverse transcription quantitative polymerase chain reaction (RT-qPCR)	en_ZA
dc.subject	Powdery scab resistance	en_ZA
dc.subject	Late blight	en_ZA
dc.subject	Disease	en_ZA
dc.subject	Roots	en_ZA
dc.title	Identification of differentially expressed genes in tolerant and susceptible potato cultivars in response to Spongospora subterranea f. sp. subterranea tuber infection	en_ZA
dc.type	Postprint Article	en_ZA