干旱区生态环境知识资源中心(Arid): Identification of genome-wide targets and DNA recognition sequence of the Arabidopsis HMG-box protein AtHMGB15 during cold stress response

Arid

DOI	10.1016/j.bbagrm.2020.194644
	Identification of genome-wide targets and DNA recognition sequence of the Arabidopsis HMG-box protein AtHMGB15 during cold stress response
	Mallik, Rwitie; Prasad, Priti; Kundu, Anindya; Sachdev, Sonal; Biswas, Ruby; Dutta, Arkajyoti; Roy, Adrita; Mukhopadhyay, Jayanta; Bag, Sumit K.; Chaudhuri, Shubho
通讯作者	Chaudhuri, S (corresponding author), Bose Inst, Div Plant Biol, P1-12 CIT Scheme VII M, Kolkata 700054, India.
来源期刊	BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS
ISSN	1874-9399
EISSN	1876-4320
出版年	2020
卷号	1863 期号:12
英文摘要	AtHMGB15 belongs to a group of ARID-HMG proteins which are plant specific. The presence of two known DNA binding domains: AT rich interacting domain (ARID) and High Mobility Group (HMG)-box, in one polypeptide, makes this protein intriguing. Although proteins containing individual HMG and ARID domains have been characterized, not much is known about the role of ARID-HMG proteins. Promoter analysis of AtHMGB15 showed the presence of various stress responsive cis regulatory elements along with MADS-box containing transcription factors. Our result shows that the expression of AtHMGB15 increased significantly upon application of cold stress. Using ChIP-chip approach, we have identified 6128 and 4689 significantly enriched loci having AtHMGB15 occupancy under control and cold stressed condition respectively. GO analysis shows genes belonging to abiotic stress response, cold response and root development were AtHMGB15 targets during cold stress. DNA binding and footprinting assays further identified A(A/C)-ATA-(A/T)(A/T) as AtHMGB15 binding motif. The enriched probe distribution in both control and cold condition shows a bias of AtHMGB15 binding towards the transcribed (gene body) region. Further, the expression of cold stress responsive genes decreased in athmgbl5 knockout plants compared to wild-type. Taken together, binding enrichment of AtHMGB15 to the promoter and upstream to stress loci suggest an unexplored role of the protein in stress induced transcription regulation.
英文关键词	Arabidopsis thaliana ARID-HMG AtHMGB15 ChIP-chip Cold stress DNaseI footprinting
类型	Article
语种	英语
收录类别	SCI-E
WOS记录号	WOS:000597962000003
WOS类目	Biochemistry & Molecular Biology ; Biophysics
WOS研究方向	Biochemistry & Molecular Biology ; Biophysics
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/369234
作者单位	[Mallik, Rwitie; Kundu, Anindya; Sachdev, Sonal; Biswas, Ruby; Roy, Adrita; Chaudhuri, Shubho] Bose Inst, Div Plant Biol, P1-12 CIT Scheme VII M, Kolkata 700054, India; [Prasad, Priti; Bag, Sumit K.] Acad Sci & Innovat Res AcSIR, CSIR NBRI Campus, Lucknow, Uttar Pradesh, India; [Prasad, Priti; Bag, Sumit K.] CSIR, Computat Biol Lab, Natl Bot Res Inst CSIR NBIR, Rana Pratap Marg, Lucknow 226001, Uttar Pradesh, India; [Dutta, Arkajyoti; Mukhopadhyay, Jayanta] Bose Inst, Dept Chem, P1-12 CIT Scheme VII M, Kolkata 700054, India
推荐引用方式 GB/T 7714	Mallik, Rwitie,Prasad, Priti,Kundu, Anindya,et al. Identification of genome-wide targets and DNA recognition sequence of the Arabidopsis HMG-box protein AtHMGB15 during cold stress response[J],2020,1863(12).
APA	Mallik, Rwitie.,Prasad, Priti.,Kundu, Anindya.,Sachdev, Sonal.,Biswas, Ruby.,...&Chaudhuri, Shubho.(2020).Identification of genome-wide targets and DNA recognition sequence of the Arabidopsis HMG-box protein AtHMGB15 during cold stress response.BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS,1863(12).
MLA	Mallik, Rwitie,et al."Identification of genome-wide targets and DNA recognition sequence of the Arabidopsis HMG-box protein AtHMGB15 during cold stress response".BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS 1863.12(2020).