Crops ›› 2025, Vol. 41 ›› Issue (2): 66-73.doi: 10.16035/j.issn.1001-7283.2025.02.009

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Identification and Bioinformatics Analysis of the Typical Thioredoxin (TRX) Gene Family in Barley

Chen Hu(), Gao Yuan, Sun Jiameng, Yu Peng, Xiao Hongwu, Zhang Haitao()   

  1. College of Agronomy, Anhui Agricultural University, Hefei 230036, Anhui, China
  • Received:2024-01-15 Revised:2024-03-19 Online:2025-04-15 Published:2025-04-16

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Abstract:

The chromosome location, physical and chemical properties, gene structure, conserved domain and promoter were predicted and analyzed by online tools such as TBtools, ExPASy, BUSCA, MEME and PlantCARE at the genome-wide level of cultivated barley MOREX. Using the published RNA-seq data, the expression patterns of typical TRX gene family members in different periods and different tissues of barley and their expression profiles under drought stress were analyzed. The results showed that there were 15 members in the typical TRX gene family of barley, which were unevenly distributed on six chromosomes (except 6H chromosome). Promoter cis-acting elements predicted that the typical TRX gene family of barley played a role in growth and development, hormonal regulation, and abiotic stress. The 15 typical TRX genes were expressed in different tissues such as seeds, roots, stems, leaves and flowers, and at different periods.

Key words: Barley (Hordeum vulgare L.), TRX gene family, System evolution, Expression analysis, Bioinformatics

Fig.1

Location of typical TRX genes in barley on chromosomes"

Table 1

Basic information of typical HvTRX genes identified in barley"

基因名称
Gene name		 基因ID
Gene ID		 位置
Position		 氨基酸数
Number of
amino acids		 理论等电点
Theoretical
pI		 分子质量
Molecular
weight		 总平均亲水性
Grand average
hydropathicity		 亚细胞定位
Subcellular
localization
HvTRX1 HORVU.MOREX.r3.1HG0026030 1H 131 5.15 14.48 -0.270 细胞质
HvTRX2 HORVU.MOREX.r3.1HG0070830 1H 143 4.54 15.98 -0.331 细胞核
HvTRX3 HORVU.MOREX.r3.1HG0076510 1H 122 5.12 13.17 0.319 细胞核
HvTRX4 HORVU.MOREX.r3.2HG0149410 2H 118 5.09 12.75 0.089 细胞质
HvTRX5 HORVU.MOREX.r3.2HG0168580 2H 184 8.89 20.26 -0.224 线粒体
HvTRX6 HORVU.MOREX.r3.2HG0183850 2H 240 9.56 25.72 -0.343 叶绿体
HvTRX7 HORVU.MOREX.r3.2HG0194850 2H 577 4.78 63.54 -0.228 细胞质
HvTRX8 HORVU.MOREX.r3.2HG0210290 2H 172 6.74 18.71 -0.058 叶绿体
HvTRX9 HORVU.MOREX.r3.3HG0325100 3H 162 8.40 17.86 -0.200 叶绿体
HvTRX10 HORVU.MOREX.r3.4HG0341820 4H 186 6.32 20.62 -0.308 叶绿体
HvTRX11 HORVU.MOREX.r3.5HG0451950 5H 175 8.52 19.28 0.031 线粒体
HvTRX12 HORVU.MOREX.r3.5HG0479110 5H 319 5.93 35.58 -0.504 细胞核
HvTRX13 HORVU.MOREX.r3.5HG0520730 5H 131 5.89 14.47 -0.065 细胞核
HvTRX14 HORVU.MOREX.r3.7HG0738080 7H 176 9.48 19.35 -0.199 线粒体
HvTRX15 HORVU.MOREX.r3.7HG0749460 7H 173 8.55 18.44 -0.106 叶绿体

Fig.2

Phylogenetic relationship (a), conserved motif (b), and gene structure (c) of typical HvTRX genes family in barley (a) The different letters represent the seven subtypes of typical HvTRX. (b) The different colors represent 10 different conserved motifs. (c) The yellow and green rectangles represent coding sequences (CDS) and non coding sequences (UTR), respectively, while the black lines represent introns. The length of CDS, UTR and introns of each typical HvTRX gene were displayed proportionally."

Fig.3

Cis-elements analysis of the typical HvTRX gene promoters in barley"

Fig.4

Phylogenetic tree of typical TRX proteins using the Maximum Likelihood method , and indicate the proteins of barley, rice and Arabidopsis, respectively."

Fig.5

The collinearity of typical TRX genes among barley, rice and Arabidopsis Gray lines indicate all collinearity blocks within barley and other crop genomes and the duplicated TRX gene pairs are highlighted by black lines. The numerals represent the chromosome numbers of the genomes of the above three crops."

Fig.6

Expression patterns of typical TRX genes in barley in different tissues"

Fig.7

The expression heat map of typical HvTRX genes in leaves (a) and roots (b) of barley under drought stress CK1, D1: control and drought treatment of drought-tolerant materials; CK2, D2: control and drought treatment of drought-sensitive materials; CK: control; WD: water shortage treatment."

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