Genome-wide identification of transcription factors and transcription-factor binding sites in oleaginous microalgae Nannochloropsis

doi:10.1038/srep05454

QIBEBT-IR > 单细胞中心组群

	Genome-wide identification of transcription factors and transcription-factor binding sites in oleaginous microalgae Nannochloropsis
	Hu, Jianqiang 1,2; Wang, Dongmei1 ; Li, Jing1,2 ; Jing, Gongchao1 ; Ning, Kang 1; Xu, Jian1
	2014-06-26
发表期刊	SCIENTIFIC REPORTS
卷号	4
摘要	Nannochloropsis spp. are a group of oleaginous microalgae that harbor an expanded array of lipid-synthesis related genes, yet how they are transcriptionally regulated remains unknown. Here a phylogenomic approach was employed to identify and functionally annotate the transcriptional factors (TFs) and TF binding-sites (TFBSs) in N. oceanica IMET1. Among 36 microalgae and higher plants genomes, a two-fold reduction in the number of TF families plus a seven-fold decrease of average family-size in Nannochloropsis, Rhodophyta and Chlorophyta were observed. The degree of similarity in TF-family profiles is indicative of the phylogenetic relationship among the species, suggesting co-evolution of TF-family profiles and species. Furthermore, comparative analysis of six Nannochloropsis genomes revealed 68 "most-conserved" TFBS motifs, with 11 of which predicted to be related to lipid accumulation or photosynthesis. Mapping the IMET1 TFs and TFBS motifs to the reference plant TF-"TFBS motif" relationships in TRANSFAC enabled the prediction of 78 TF-"TFBS motif" interaction pairs, which consisted of 34 TFs (with 11 TFs potentially involved in the TAG biosynthesis pathway), 30 TFBS motifs and 2,368 regulatory connections between TFs and target genes. Our results form the basis of further experiments to validate and engineer the regulatory network of Nannochloropsis spp. for enhanced biofuel production.
文章类型	Article
WOS标题词	Science & Technology
DOI	10.1038/srep05454
关键词[WOS]	REGULATORY ELEMENTS ; CHLAMYDOMONAS-REINHARDTII ; ESCHERICHIA-COLI ; GENE-REGULATION ; ARABIDOPSIS ; DATABASE ; DISCOVERY ; EVOLUTION ; SEQUENCE ; PREDICTION
收录类别	SCI
语种	英语
WOS研究方向	Science & Technology - Other Topics
WOS类目	Multidisciplinary Sciences
WOS记录号	WOS:000337892000003
引用统计
文献类型	期刊论文
条目标识符	http://ir.qibebt.ac.cn/handle/337004/6304
专题	单细胞中心组群
作者单位	1.Chinese Acad Sci, Qingdao Inst BioEnergy & Bioproc Technol, Single Cell Ctr, CAS Key Lab Biofuels & Shandong Key Lab Energy Ge, Qingdao 266101, Shandong, Peoples R China 2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
推荐引用方式 GB/T 7714	Hu, Jianqiang,Wang, Dongmei,Li, Jing,et al. Genome-wide identification of transcription factors and transcription-factor binding sites in oleaginous microalgae Nannochloropsis[J]. SCIENTIFIC REPORTS,2014,4.
APA	Hu, Jianqiang,Wang, Dongmei,Li, Jing,Jing, Gongchao,Ning, Kang,&Xu, Jian.(2014).Genome-wide identification of transcription factors and transcription-factor binding sites in oleaginous microalgae Nannochloropsis.SCIENTIFIC REPORTS,4.
MLA	Hu, Jianqiang,et al."Genome-wide identification of transcription factors and transcription-factor binding sites in oleaginous microalgae Nannochloropsis".SCIENTIFIC REPORTS 4(2014).