干旱区生态环境知识资源中心(Arid): RNA-Seq Data Analysis Unveils Potential Conserved Micro-RNAs in Agave deserti

Arid

DOI	10.2174/1570164617999200529122637
	RNA-Seq Data Analysis Unveils Potential Conserved Micro-RNAs in Agave deserti
	Jabbar, Basit; Anicet, Batcho Agossa; Sarwar, Muhammad Bilal; Rashid, Bushra; Hassan, Sameera; Husnain, Tayyab
通讯作者	Rashid, B (corresponding author), Univ Punjab, Fac Life Sci, Ctr Excellence Mol Biol, POB 53700, Lahore 53700, Pakistan.
来源期刊	CURRENT PROTEOMICS
ISSN	1570-1646
EISSN	1875-6247
出版年	2021
卷号	18 期号:2 页码:248-263
英文摘要	Aims: Exploring molecular mechanism of abiotic stress tolerance in plants is needed to overcome the deterioration of yield and quality of crop plants to meet the food security challenges of the growing population. Background: MicroRNAs (miRNAs) are small non-coding RNA molecules that regulate target gene expression for modulating plant growth, development, and response to different stresses. Agave belonging to CAM plants' has remarkable tolerance to extreme conditions of drought and heat; however, molecular mechanisms underlying this excellence are yet to explore. Objective: This study applies comparative genomics approach on available Transcriptome (R-NA-Seq) data of Agave deserti to identify potential miRNAs, and miRNA targets. Methods: Transcriptome datasets consisting of 128,869 Agave contigs was processed to create local database, for nucleotide homology analysis with 6,028 non-redundant plant miRNAs as query sequences. Protein coding sequences were removed, and potential pre-miRNA sequences were tested for stability analysis based on a variety of factors, including but not limited to %G+C content and minimum free energy (-Delta G), as a filter to remove pseudo pre-miRNAs. Results: This study identified 30 unique miRNAs of Agave deserti harboring 14 different categories of precursors. Phylogenetic analysis revealed evolutionary relationship between newly identified pre-miRNAs with corresponding pre-miRNA homologues. Target genes of miRNAs were predicted subsequently, and possible functions were defined by functional annotation analysis. Conclusion: The results of this study will pave the way for further research, exploring the molecular mechanisms in Agave deserti and the role of miRNAs in gene regulation under abiotic stresses.
英文关键词	Micro-RNA Agave deserti gene homology minimum free energy precursors target gene
类型	Article
语种	英语
收录类别	SCI-E
WOS记录号	WOS:000652350800016
WOS关键词	IDENTIFICATION ; TRANSCRIPTOME
WOS类目	Biochemical Research Methods ; Biochemistry & Molecular Biology
WOS研究方向	Biochemistry & Molecular Biology
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/349920
作者单位	[Jabbar, Basit; Anicet, Batcho Agossa; Sarwar, Muhammad Bilal; Rashid, Bushra; Hassan, Sameera; Husnain, Tayyab] Univ Punjab, Fac Life Sci, Ctr Excellence Mol Biol, POB 53700, Lahore 53700, Pakistan
推荐引用方式 GB/T 7714	Jabbar, Basit,Anicet, Batcho Agossa,Sarwar, Muhammad Bilal,et al. RNA-Seq Data Analysis Unveils Potential Conserved Micro-RNAs in Agave deserti[J],2021,18(2):248-263.
APA	Jabbar, Basit,Anicet, Batcho Agossa,Sarwar, Muhammad Bilal,Rashid, Bushra,Hassan, Sameera,&Husnain, Tayyab.(2021).RNA-Seq Data Analysis Unveils Potential Conserved Micro-RNAs in Agave deserti.CURRENT PROTEOMICS,18(2),248-263.
MLA	Jabbar, Basit,et al."RNA-Seq Data Analysis Unveils Potential Conserved Micro-RNAs in Agave deserti".CURRENT PROTEOMICS 18.2(2021):248-263.