NDLI: Bioinformatic identification of microRNAs and their target genes from Solanum tuberosum expressed sequence tags

Content Provider	Springer Nature Link
Author	Guo, Qiang Xiang, AnLing Yang, Qing Yang, ZhiMin
Copyright Year	2007
Abstract	MicroRNAs (miRNAs) are a class of non-coding RNAs that regulate gene post-transcriptional expression in plants and animals. Low levels of some miRNAs and time-and tissue-specific expression patterns lead to the difficulty for experimental identification of miRNAs. Here we present a bioinformatic approach for expressed sequence tags (ESTs) prediction of novel miRNAs as well as their targets in Solanum tuberosum. We blasted the databases of S. tuberosum ESTs to search for potential miRNAs, using previously known miRNA sequences from Arabidopsis, rice and other plant species. By analyzing parameters of plant precursors, including secondary structure, stem length and conservation of miRNAs, and following a variety of filtering criteria, a total of 22 potential miRNAs were detected. Using the newly identified miRNA sequences, we were able to further blast the S. tuberosum mRNA database and detected 75 potential targets of miRNAs in S. tuberosum. According to the mRNA annotations provided by the National Center for Biotechnology Information (NCBI) ( http://www.ncbi.nlm.nih.gov/ ), most of the miRNA target genes were predicted to encode transcription factors that regulate cell growth and development, signaling, and metabolism.
Starting Page	2380
Ending Page	2389
Page Count	10
File Format	PDF
ISSN	10016538
Journal	Chinese Science Bulletin
Volume Number	52
Issue Number	17
e-ISSN	18619541
Language	English
Publisher	Science in China Press
Publisher Date	2007-01-01
Publisher Place	Beijing
Access Restriction	Subscribed
Subject Keyword	microRNA bioinformatic prediction Solanum tuberosum target gene Science Physics Chemistry/Food Science Life Sciences Geosciences Engineering
Content Type	Text
Resource Type	Article
Subject	Multidisciplinary

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