Genome-wide profiling of miRNAs and other small non-coding RNAs in the Verticillium dahliae-inoculated cotton roots.

PloS One
Zujun YinFafu Shen

Abstract

MicroRNAs (miRNAs) and small interfering RNAs (siRNAs) are short (19-25 nucleotides) non-coding RNA molecules that have large-scale regulatory effects on development and stress responses in plants. Verticillium wilt is a vascular disease in plants caused by the fungal pathogen Verticillium dahliae. The objective of this study is to investigate the transcriptional profile of miRNAs and other small non-coding RNAs in Verticillium-inoculated cotton roots. Four small RNA libraries were constructed from mocked and infected roots of two cotton cultured species which are with different Verticillium wilt tolerance ('Hai-7124', Gossypium barbadense L., a Verticillium-tolerant cultivar, and 'Yi-11', Gossypium hirsutum L. a Verticillium-sensitive cultivar). The length distribution of obtained small RNAs was significantly different between libraries. There were a total of 215 miRNA families identified in the two cotton species. Of them 14 were novel miRNAs. There were >65 families with different expression between libraries. We also identified two trans-acting siRNAs and thousands of endogenous siRNA candidates, and hundred of them exhibited altered expression after inoculation of Verticillium. Interesting, many siRNAs were found with a pe...Continue Reading

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Citations

Jun 1, 2014·Functional & Integrative Genomics·Qiuling HeBaohong Zhang
Jun 15, 2014·Applied Microbiology and Biotechnology·Xiumei LuoAnping Sui
Feb 6, 2013·Journal of Experimental Botany·Xiyan YangXianlong Zhang
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Aug 7, 2018·Frontiers in Plant Science·Eleanor J Brant, Hikmet Budak
Sep 11, 2020·Molecular Biology Reports·Charu KulshresthaJebi Sudan

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Datasets Mentioned

BETA
GSE28236

Methods Mentioned

BETA
Solexa sequencing
electrophoresis

Software Mentioned

inft
Solexa
SOAP
mock
BLAST
MIREAP
Gb

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