Genome-wide identification and expression profiling of HD-ZIP gene family in Medicago truncatula

Zhe Li; Zhengquan Gao; Ruihua Li; Yan Xu; Yingzhen Kong; Gongke Zhou; Chunxiao Meng; Ruibo Hu

doi:10.1016/j.ygeno.2020.03.008

Genome-wide identification and expression profiling of HD-ZIP gene family in Medicago truncatula

Genomics. 2020 Sep;112(5):3624-3635. doi: 10.1016/j.ygeno.2020.03.008. Epub 2020 Mar 10.

Authors

Zhe Li¹, Zhengquan Gao², Ruihua Li³, Yan Xu³, Yingzhen Kong⁴, Gongke Zhou³, Chunxiao Meng⁵, Ruibo Hu⁶

Affiliations

¹ College of Life Sciences, Shandong University of Technology, Zibo 255049, PR China; Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, PR China.
² College of Life Sciences, Shandong University of Technology, Zibo 255049, PR China.
³ Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, PR China.
⁴ Agronomy college, Qingdao Agricultural University, Qingdao 266109, PR China.
⁵ College of Life Sciences, Shandong University of Technology, Zibo 255049, PR China. Electronic address: mengchunxiao@126.com.
⁶ Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, PR China. Electronic address: hurb@qibebt.ac.cn.

PMID: 32165267
DOI: 10.1016/j.ygeno.2020.03.008

Abstract

The homeodomain-leucine zipper (HD-ZIP) transcription factors are important regulators in various developmental processes and responses to environmental stimuli. Currently, little information is available for HD-ZIP gene family in Medicago truncatula. Here we perform a genome-wide analysis of HD-ZIP gene family in M. truncatula. Totally 52 M. truncatula HD-ZIPs (MtHDZs) were identified and classified into four distinctive subfamilies (I to IV). Members clustered in the same subfamily shared similar gene structure and protein motifs. Fifty-one MtHDZs were non-evenly distributed on eight chromosomes. Segmental duplication and purifying selection mainly contributed to the expansion and retention of M. truncatula HD-ZIP gene family. Expression profiling using the publicly available microarray data revealed that MtHDZ genes exhibited distinctive tissue-specific patterns and divergent responses to drought and salt stresses. In addition, the expression profile between each paralogous pair diverged differentially. Our results identified potential targets for the genetic improvement of abiotic stress tolerance in Medicago.

Keywords: Abiotic stress; HD-ZIP gene family; Medicago truncatula; Paralogous pair.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Chromosome Mapping
Chromosomes, Plant
Droughts
Gene Expression Profiling*
Genes, Plant*
Medicago truncatula / genetics*
Phylogeny
Plant Proteins / genetics*
Promoter Regions, Genetic
Stress, Physiological / genetics
Transcription Factors / genetics*

Substances

Plant Proteins
Transcription Factors