Dataset Information

First report of cherry virus A infecting Prunus mume in South Korea.

ABSTRACT: We report the detection of cherry virus A (CVA) in a Prunus mume sample using Illumina HiSeq 2500 paired-end RNA sequencing. CVA isolate OC shared highest sequence identity with CVA isolate J, which was recently identified in P. armeniaca in Japan. To the best of our knowledge, this is the first report of CVA infecting P. mume in Korea and the first complete genome sequence of CVA isolated from P. mume in the world.

SUBMITTER: Lim S

PROVIDER: S-EPMC5510625 | biostudies-literature | 2017 Jun

REPOSITORIES: biostudies-literature

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First report of cherry virus A infecting Prunus mume in South Korea.

Lim Seungmo S Igori Davaajargal D Baek Dasom D Cho In-Sook IS Choi Gug-Seoun GS Moon Jae Sun JS

Virusdisease 20170519 2

We report the detection of cherry virus A (CVA) in a Prunus mume sample using Illumina HiSeq 2500 paired-end RNA sequencing. CVA isolate OC shared highest sequence identity with CVA isolate J, which was recently identified in P. armeniaca in Japan. To the best of our knowledge, this is the first report of CVA infecting P. mume in Korea and the first complete genome sequence of CVA isolated from P. mume in the world. ...[more]

PMID: 28770251

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Project description:Bud dormancy is a critical developmental process for perennial plant survival, and also an important physiological phase that affects the next seasonM-bM-^@M-^Ys growth of temperate fruit trees. Bud dormancy is regulated by multiple genetic factors, and affected by various environmental factors, tree age and vigor. To understand molecular mechanism of bud dormancy in Japanese apricot (Prunus mume Sieb. et Zucc.), we constructed a custom oligo DNA microarray covering the Japanese apricot dormant bud ESTs referring to peach (P. persica) genome sequence. Because endodormancy release is a chilling temperature-dependent physiological event, genes showing chilling-mediated differential expression patterns are candidates to control endodormancy release. Using the microarray constructed in this study, we monitored gene expression changes of dormant vegetative buds of Japanese apricot during prolonged artificial chilling exposure. In addition, we analyzed seasonal gene expression changes. M-bM-^@M-^XNankoM-bM-^@M-^Y vegetative buds collected in November, and those exposed to chilling for 40 or 60 days were used as microarray samples. Among the 58539 different unigene probes, 2345 and 1059 genes were identified as being more than two-fold up-regulated and down-regulated, respectively, following chilling exposure for 60 days (P value < 0.05). The down-regulated genes included P. mume DORMANCY-ASSOCIATED MADS-box genes, which supported the previous quantitative RT-PCR and EST analyses showing that these genes are repressed by prolonged chilling treatments. The genes encoding lipoxygenase were remarkably up-regulated by prolonged chilling. Cluster analysis suggested that the expression of the genes showing expression changes by artificial chilling exposure were coordinately regulated by seasonal changes. Our parametric analysis of gene set enrichment suggested that genes related to jasmonic acid (JA) and oxylipin biosynthesis and metabolic processes were significantly up-regulated by prolonged chilling, whereas genes related to circadian rhythm were significantly down-regulated. The results obtained from the microarray analyses were verified by quantitative RT-PCR analysis of selected genes. Taken together, this study raised the possibility that the microarray platform constructed in this study is applicable for deeper understanding of molecular network related to agronomically important bud phisiologies including dormancy release. In this study, we used chilling exposed bud samples (0, 40, 60 days starting at November) and seasonal monthly bud samples (June to March). For the samples in dataset 1 (three different time points during chilling treatment), three technical replicates (60K M-CM-^W 3 per sample) with three biological replicates were averaged, whereas three technical replicates were averaged for the samples in dataset 2 (10 different seasonal time points)

Dataset Information

First report of cherry virus A infecting Prunus mume in South Korea.

Publications

First report of cherry virus A infecting <i>Prunus mume</i> in South Korea.

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