Genome-Wide Investigation of MicroRNAs and Their Targets in Response to Freezing Stress in Medicago sativa L., Based on High-Throughput Sequencing

G3 : Genes - Genomes - Genetics
Yongjun ShuChanghong Guo

Abstract

Winter damage, especially in northern climates, is a major limitation of the utilization of perennial forages such as alfalfa. Therefore, improving freezing tolerance is imperative in alfalfa genetic breeding. However, freezing tolerance is a complex trait that is determined by many genes. To understand the complex regulation mechanisms of freezing tolerance in alfalfa, we performed small RNA sequencing analysis under cold (4°) and freezing (-8°) stress. The sequencing results revealed that 173 known, and 24 novel miRNAs were expressed, and that the expression of 35 miRNAs was affected by cold and/or freezing stress. Meanwhile, 105 target genes cleaved by these miRNAs were characterized by degradome sequencing. These targets were associated with biological regulation, cellular processes, metabolic processes, and response to stress. Interestingly, most of them were characterized as transcription factors (TFs), including auxin response factors, SBP, NAC, AP2/ERF, and GRF, which play important roles in plant abiotic responses. In addition, important miRNAs and mRNAs involved in nodulation were also identified, for example, the relationship between miR169 and the TF CCAAT (also named as NF-YA/HAP2), which suggested that nodulation ...Continue Reading

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Citations

Feb 2, 2017·Frontiers in Plant Science·Yan LiWen-Ming Wang
Apr 28, 2017·Frontiers in Plant Science·Abdul F A SamadIsmanizan Ismail
Oct 13, 2020·Genome Biology and Evolution·Carlos De la RosaJosé L Reyes
Nov 14, 2020·International Journal of Molecular Sciences·Mohammad AslamAbidur Rahman
Dec 21, 2021·Plant Signaling & Behavior·Chenmin HuoRuiju Wang

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Datasets Mentioned

BETA
SRP064230

Methods Mentioned

BETA
degradome sequencing
RNA-seq
reverse transcription PCR
PCR
environmental stress

Software Mentioned

Bowtie
MIREAP
psRNATarget
RNAfold
TopHat
BLASTX
edgeR
R
package
iAssembler

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