Transcriptome analysis of woodland strawberry ( Fragaria vesca ) response to the infection by Strawberry vein banding vi
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Transcriptome analysis of woodland strawberry (Fragaria vesca) response to the infection by Strawberry vein banding virus (SVBV) Jing Chen†, Hanping Zhang†, Mingfeng Feng, Dengpan Zuo, Yahui Hu and Tong Jiang*
Abstract Background: Woodland strawberry (Fragaria vesca) infected with Strawberry vein banding virus (SVBV) exhibits chlorotic symptoms along the leaf veins. However, little is known about the molecular mechanism of strawberry disease caused by SVBV. Methods: We performed the next-generation sequencing (RNA-Seq) study to identify gene expression changes induced by SVBV in woodland strawberry using mock-inoculated plants as a control. Results: Using RNA-Seq, we have identified 36,850 unigenes, of which 517 were differentially expressed in the virus-infected plants (DEGs). The unigenes were annotated and classified with Gene Ontology (GO), Clusters of Orthologous Group (COG) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses. The KEGG pathway analysis of these genes suggested that strawberry disease caused by SVBV may affect multiple processes including pigment metabolism, photosynthesis and plant-pathogen interactions. Conclusions: Our research provides comprehensive transcriptome information regarding SVBV infection in strawberry. Keywords: Woodland strawberry (Fragaria vesca), Strawberry vein banding virus, Transcriptome analysis, Pathogenic mechanism
Background Strawberry vein banding virus (SVBV) is one of the major viruses infecting strawberries. It has been reported worldwide, from North America to Australia to Belgium to Japan [1, 2]. In China, SVBV has been found in Henan, Hebei, Jilin and Zhejiang provinces causing serious loss of strawberry production [3]. Woodland strawberry infected with SVBV shows such characteristic symptoms as yellowing along the major leaf veins, shorter stolons, reduced plant growth and smaller fruit, as well as significant reduction in berry yield and quality. SVBV is transmitted either by grafting or by aphids in a semi-persistent manner [4]. SVBV is a member of the genus Caulimovirus, and has a circular dsDNA genome with one single stranded * Correspondence: [email protected] † Equal contributors School of Plant Protection, Anhui Agricultural University, Hefei 230036, People’s Republic of China
discontinuity on each DNA strand. The full-length of SVBV genome is ~8 kilobase pairs-long and encodes seven proteins [5]. Investigation of the pathogenic mechanism of SVBV in strawberry is important for better design of the disease control strategies. Woodland strawberry (family Rosaceae) is an important experimental plant for studying the mechanisms of virus-plant interactions and a facile model for investigating gene expression changes in response to pathogen infections [6, 7]. Because such response involves multiple physiological and metabolic processes, genomewide expression profiling is a method of choice for studying these processes at the transcriptional level. Next generation sequencing techniques, such as RNA-Seq, have provided a
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