Gene ontology based characterization of Expressed Sequence Tags (ESTs) of Brassica rapa cv. Osome.

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dc.contributor.authorPark, Jong-In
dc.contributor.authorAhmed, Nasar Uddin
dc.contributor.authorJung, Hee-Jeong
dc.contributor.authorLee, In-Ho
dc.contributor.authorCho, Yong-Gu
dc.contributor.authorLim, Yong-Pyo
dc.contributor.authorKang, Kwon-Kyoo
dc.contributor.authorNou, Ill-Sup
dc.date.accessioned2013-07-31T10:07:34Z
dc.date.available2013-07-31T10:07:34Z
dc.date.issued2013-07
dc.description.abstractChinese cabbage (Brassica rapa) is widely recognized for its economic importance and contribution to human nutrition but abiotic and biotic stresses are main obstacle for its quality, nutritional status and production. In this study, 3,429 Express Sequence Tag (EST) sequences were generated from B. rapa cv. Osome cDNA library and the unique transcripts were classified functionally using a gene ontology (GO) hierarchy, Kyoto encyclopedia of genes and genomes (KEGG). KEGG orthology and the structural domain data were obtained from the biological database for stress related genes (SRG). EST datasets provided a wide outlook of functional characterization of B. rapa cv. Osome. In silico analysis revealed % 83 of ESTs to be well annotated towards reeds one dimensional concept. Clustering of ESTs returned 333 contigs and 2,446 singlets, giving a total of 3,284 putative unigene sequences. This dataset contained 1,017 EST sequences functionally annotated to stress responses and from which expression of randomly selected SRGs were analyzed against cold, salt, drought, ABA, water and PEG stresses. Most of the SRGs showed differentially expression against these stresses. Thus, the EST dataset is very important for discovering the potential genes related to stress resistance in chinese cabbage, and can be of useful resources for genetic engineering of Brassica sp.en_US
dc.identifier.citationArasan Senthil Kumar Thamil, Park Jong-In, Ahmed Nasar Uddin, Jung Hee-Jeong, Lee In-Ho, Cho Yong-Gu, Lim Yong-Pyo, Kang Kwon-Kyoo, Nou Ill-Sup. Gene ontology based characterization of Expressed Sequence Tags (ESTs) of Brassica rapa cv. Osome. Indian Journal of Experimental Biology. 2013 Jul; 51(7): 522-530.en_US
dc.identifier.urihttps://imsear.searo.who.int/handle/123456789/147623
dc.language.isoenen_US
dc.source.urihttps://nopr.niscair.res.in/handle/123456789/19393en_US
dc.subjectBrassica rapa cv. Osomeen_US
dc.subjectESTsen_US
dc.subjectGene ontologyen_US
dc.subjectStress related genesen_US
dc.subject.meshBrassica --drug effects
dc.subject.meshBrassica --genetics
dc.subject.meshBrassica --growth & development
dc.subject.meshDatabases, Genetic
dc.subject.meshExpressed Sequence Tags --metabolism
dc.subject.meshGene Expression Profiling
dc.subject.meshGene Library
dc.subject.meshGene Regulatory Networks
dc.subject.meshGenes, Plant --genetics
dc.subject.meshGenome, Plant
dc.subject.meshHumans
dc.subject.meshMolecular Sequence Annotation
dc.subject.meshOligonucleotide Array Sequence Analysis
dc.subject.meshRNA, Messenger --genetics
dc.subject.meshReal-Time Polymerase Chain Reaction
dc.subject.meshReverse Transcriptase Polymerase Chain Reaction
dc.subject.meshSignal Transduction
dc.subject.meshSodium Chloride --pharmacology
dc.subject.meshStress, Physiological --genetics
dc.titleGene ontology based characterization of Expressed Sequence Tags (ESTs) of Brassica rapa cv. Osome.en_US
dc.typeArticleen_US
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