Genome-wide analysis of the distribution of AP2/ERF transcriptionfactors reveals duplication and CBFs genes elucidate their potentialfunction in Brassica oleracea

Collection with item attached
2014
Item details URL
http://open-repository.kisti.re.kr/cube/handle/open_repository/479497.do
DOI
10.1186/1471-2164-15-422
Title
Genome-wide analysis of the distribution of AP2/ERF transcriptionfactors reveals duplication and CBFs genes elucidate their potentialfunction in Brassica oleracea
Description
This research was supported by Golden Seed Project (Center forHorticultural Seed Development, No. 213003-04-1-CG100), Ministry ofAgriculture, Food and Rural Affairs (MAFRA), Ministry of Oceans andFisheries (MOF), Rural Development Administration (RDA) and Korea ForestService (KFS).
abstract
Background: Cabbage (Brassica oleracea) is one of the most important leaf vegetables grown worldwide. The entire cabbage genome sequence and more than fifty thousand proteins have been obtained to date. However a high degree of sequence similarity and conserved genome structure remain between cabbage and Arabidopsis; therefore, Arabidopsis is a viable reference species for comparative genomics studies. Transcription factors (TFs) are important regulators involved in plant development and physiological processes and the AP2/ERF protein family contains transcriptional factors that play a crucial role in plant growth and development, as well as response to biotic and abiotic stress conditions in plants. However, no detailed expression profile of AP2/ERF-like genes is available for B. oleracea.
Results: In the present study, 226 AP2/ERF TFs were identified from B. oleracea based on the available genome sequence. Based on sequence similarity, the AP2/ERF superfamily was classified into five groups (DREB, ERF, AP2, RAV and Soloist) and 15 subgroups. The identification, classification, phylogenetic construction, conserved motifs, chromosome distribution, functional annotation, expression patterns and interaction network were then predicted and analyzed. AP2/ERF transcription factor expression levels exhibited differences in response to varying abiotic stresses based on expressed sequence tags (ESTs). BoCBF1a, 1b, 2, 3 and 4, which were highly conserved in Arabidopsis and B. rapa CBF/DREB genes families were well characterized. Expression analysis enabled elucidation of the molecular and genetic level expression patterns of cold tolerance (CT) and susceptible lines (CS) of cabbage and indicated that all BoCBF genes responded to abiotic stresses.
Conclusions: Comprehensive analysis of the physiological functions and biological roles of AP2/ERF superfamily genes and BoCBF family genes in B. oleracea is required to fully elucidate AP2/ERF, which will provide rich resources and
provenance
Made available in Cube on 2018-09-28T13:01:06Z (GMT). No. of bitstreams: 0
language
English
author
Thamilarasan, Senthil Kumar
Park, Jong-In
Jung, Hee-Jeong
Nou, Ill-Sup
accessioned
2018-09-28T13:01:06Z
available
2018-09-28T13:01:06Z
issued
2014
citation
BMC GENOMICS(15)
issn
1471-2164
uri
http://open-repository.kisti.re.kr/cube/handle/open_repository/479497.do
Funder
범부처사업
Funding Program
Goldenseed프로젝트(농식품부,산림청,해수부)
Project ID
1545007921
Jurisdiction
Rep.of Korea
Project Name
원예작물의 유전체 활용 및 육종소재 발굴 시스템 구축
rights
openAccess
subject
Brassica oleracea AP2/ERF
Classification
Gene expression
Abioticstresses
BoCBF genes
type
article


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