In silico analysis of MeJA-induced comparative transcriptomes in Brassica oleraceae L. var. capitata

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Title
In silico analysis of MeJA-induced comparative transcriptomes in Brassica oleraceae L. var. capitata
Author(s)
O R Lee; Dae Soo Kim
Bibliographic Citation
Journal of Plant Biotechnology, vol. 43, no. 2, pp. 189-203
Publication Year
2016
Abstract
Brassica oleraceae var capitata is a member of the Brassicaceae family and is widely used as an horticultural crop. In the present study, transcriptome analysis of B. oleraceae L. var capitata was done for the first time using eight-week old seedlings treated with 50 μM MeJA, versus mock-Treated samples. The complete transcripts for both samples were obtained using the GS-FLX sequencer. Overall, we obtained 275,570 and 266,457 reads from seedlings treated with or without 50 μM MeJA, respectively. All the obtained reads were annotated using biological databases and functionally classified using gene ontology (GO), the Kyoto Encyclopedia of Genes and Genomics (KEGG). By using GO analyses, putative transcripts were examined in terms of biotic and abiotic stresses, cellular component organization, biogenesis, and secondary metabolic processes. The KEGG pathways for most of the transcripts were involved in carbohydrate metabolism, energy metabolism, and secondary metabolite synthesis. In order to double the sequenced data, we randomly chose two putative genes involved in terpene biosynthetic pathways and studied their transcript patterns under MeJA treatment. This study will provide us a platform to further characterize the genes in B. oleracea var capitata.
Keyword
Brassica oleraceaESTGene ontologyKEGG pathwayMethyl jasmonate
ISSN
1229-2818
Publisher
South Korea
DOI
http://dx.doi.org/10.5010/JPB.2016.43.2.189
Type
Article
Appears in Collections:
Division of Research on National Challenges > Environmental diseases research center > 1. Journal Articles
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