Analysis of Brassica rapa ESTs: gene discovery and expression patterns of AP2/ERF family genes View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2009-08-23

AUTHORS

Jing Zhuang, Ai-Sheng Xiong, Ri-He Peng, Feng Gao, Bo Zhu, Jian Zhang, Xiao-Yan Fu, Xiao-Feng Jin, Jian-Min Chen, Zhen Zhang, Yu-Shan Qiao, Quan-Hong Yao

ABSTRACT

Chinese cabbage (Brassica rapa subsp. pekinensis) is among the most important vegetables and is widely cultivated in world. Genes in the AP2/ERF family encode transcriptional regulators that serve a variety of functions in the plants. Expressed sequence tags (ESTs) are created by partially sequencing randomly isolated gene transcripts and have proved valuable in molecular biology. Starting from the database with 142 947 ESTs of B. rapa, 62 putative AP2/ERF family genes were identified by in silico cloning using the conserved AP2/ERF domain amino acid sequence of Arabidopsis thaliana as a probe. Based on the number of AP2/ERF domains and functions of the genes, the AP2/ERF transcription factors from B. rapa were classified into four subfamilies (DREB, ERF, AP2 and RAV). Using large-scale available EST information as a source of expression data for digital expression profiling, differentially detected genes were identified among diverse plant tissues. Roots contained the largest number of transcripts of the AP2/ERF family genes, followed by leaves and seeds. Only a few of the 62 AP2/ERF family genes were detected in all tissues: most were detected only in some tissues but not in others. The maximum detected was that of BraERF-B2-5, and it was recorded from seed tissue. More... »

PAGES

2485-2492

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/s11033-009-9763-4

DOI

http://dx.doi.org/10.1007/s11033-009-9763-4

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PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/19701799


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76 large-scale available EST information
77 leaves
78 molecular biology
79 number
80 patterns
81 plant tissues
82 plants
83 probe
84 profiling
85 putative AP2/ERF family genes
86 rapa
87 rapa ESTs
88 regulator
89 roots
90 seed tissues
91 seeds
92 sequence
93 sequence tags
94 silico cloning
95 source
96 subfamilies
97 tags
98 thaliana
99 tissue
100 transcription factors
101 transcriptional regulators
102 transcripts
103 variety
104 variety of functions
105 vegetables
106 world
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