Bioinformatics Analysis of GATA Family of Pennisetum glaucum

doi:10.11733/j.issn.1007-0435.2025.02.007

Acta Agrestia Sinica ›› 2025, Vol. 33 ›› Issue (2): 391-400.DOI: 10.11733/j.issn.1007-0435.2025.02.007

Bioinformatics Analysis of GATA Family of Pennisetum glaucum

LUO Li-xuan¹, ZHOU Tao¹, XU Qian¹, LU Rui¹, LIU Ning-fang¹, HU Long-xing^1,2

1. Department of Pratacultural Science, College of Agronomy, Hunan Agricultural University, Changsha, Hunan Province 410128, China;
2. Academician Workstation of Agricultural High-tech Industrial Area of the Yellow River Delta, National Center of Technology Innovation for Comprehensive Utilization of Saline-Alkali Land, Dongying, Shandong Province 257300, China

Received:2024-05-20 Revised:2024-06-26 Published:2025-03-01

美洲狼尾草GATA转录因子家族生物信息学分析

罗李旋¹, 周涛¹, 徐倩¹, 卢蕊¹, 刘宁芳¹, 胡龙兴^1,2

1. 湖南农业大学农学院草业科学系, 湖南长沙 410128;
2. 黄三角农高区院士工作站, 国家盐碱地综合利用技术创新中心, 山东东营 257300

通讯作者: 胡龙兴,E-mail:grass@hunau.edu.cn
作者简介:罗李旋（2001-）,女,广西柳州人,硕士研究生,主要从事狼尾草种质资源与品种选育研究工作
基金资助:
黄三角国家农高区省级科技创新发展专项资金（2022SZX13）资助

Abstract

Abstract: GATA transcription factors play an important role in plant growth and development as well as stress resistance.In this study, a total of 29 GATA gene family members were identified from the genomic data of Pennisetum glaucum L.. Chromosomal localization analysis showed that 29 PgGATA genes were unevenly distributed on 7 chromosomes. According to the sequence characteristics and domain characteristics, they were divided into four subfamilies. There were obvious differences among members of different subfamilies, while the differences among members within the family were relatively small. Conserved motif prediction showed that GATA domains were regularly distributed in each subfamily. Prediction of cis-acting elements revealed a large number of elements related to plant growth, development, and stress in the upstream regulatory sequence of the GATA genes in P. glaucum. The expression analysis of PgGATA gene family showed that most PgGATAs were highly expressed in tillering tissues, leaves and stems, and some PgGATA gene family members were significantly expressed in high temperature, drought and salt stress treatments. This study provided a theoretical basis and guidance for further study on the function and regulation mechanism of GATA transcription factors in P. glaucum.

Key words: Pennisetum glaucumL., GATA transcription factor, Bioinformatics Analysis, Abiotic stress

摘要： GATA转录因子在植物生长发育和抗逆等过程中起着重要作用。本研究从美洲狼尾草（Pennisetum glaucum L.）基因组数据中共鉴定出29个GATA基因家族成员,染色体定位分析显示29个PgGATA基因不均匀地分布在7条染色体上。根据序列特征和结构域特点将其分为4个亚族,不同亚族成员之间呈现出明显的差异,而在家族内部成员之间的差异则相对较小。保守基序预测表明GATA结构域在各个亚家族中规律分布。顺式作用元件预测结果显示,美洲狼尾草GATA基因上游调控序列中存在大量与植物生长发育和逆境胁迫相关的顺式元件。PgGATA基因家族的表达分析发现多数PgGATAs成员在分蘖组织、叶片以及茎秆中的表达量较高,部分PgGATAs基因家族成员在高温、干旱以及盐胁迫处理中明显表达。本研究为进一步研究美洲狼尾草GATA转录因子的功能及调控机制提供了理论依据和指导。

关键词: 美洲狼尾草, GATA转录因子, 生物信息学分析, 非生物胁迫

CLC Number:

S543.9

LUO Li-xuan, ZHOU Tao, XU Qian, LU Rui, LIU Ning-fang, HU Long-xing. Bioinformatics Analysis of GATA Family of Pennisetum glaucum[J]. Acta Agrestia Sinica, 2025, 33(2): 391-400.

罗李旋, 周涛, 徐倩, 卢蕊, 刘宁芳, 胡龙兴. 美洲狼尾草GATA转录因子家族生物信息学分析[J]. 草地学报, 2025, 33(2): 391-400.

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References

[1] 赵楠,赵飞,李玉花.锌指蛋白结构及功能研究进展[J].生物技术通讯,2009,20(1):131-134
[2] 王娟,兰海燕. GATA转录因子对植物发育和胁迫响应调控的研究进展[J].植物生理学报,2016,52(12):1785-1794
[3] EVANS T,REITMAN M,FELSENFELD G. An erythrocyte-specific DNA-binding factor recognizes a regulatory sequence common to all chicken globin genes[J]. Proceedings of the National Academy of Sciences of the United States of America,1988,85(16):5976-5980
[4] 史莹华,许梓荣. GATA转录因子研究进展[J].生物学通报,2005,40(3):1-2
[5] DAVIERWALA A P,RAMAKRISHNA W,CHOWDARI V, et al. Potential of (GATA) n microsatellites from rice for inter-and intra-specific variability studies[J]. BMC Evolutionary Biology,2001(1):7
[6] DANIEL-VEDELE F,CABOCHE M. A tobacco cDNA clone encoding a GATA-1 zinc finger protein homologous to regulators of nitrogen metabolism in fungi[J]. Molecular and General Genetics,1993,240(3):365-373
[7] REYES J C,MURO-PASTOR M I,FLORENCIO F J. The GATA family of transcription factors in Arabidopsis and rice[J]. Plant Physiology,2004,134(4):1718-1732
[8] 敖涛,廖晓佳,徐伟,等.蓖麻GATA基因家族的鉴定和特征分析[J].植物分类与资源学报,2015,37(4):453-462
[9] 袁岐.番茄GATA转录因子的全基因组挖掘及抗逆相关基因筛选[D].哈尔滨:东北农业大学,2018:1
[10] LIU P P,KOIZUKA N,MARTIN R C,et al. The BME3(Blue Micropylar End 3) GATA zinc finger transcription factor is a positive regulator of Arabidopsis seed germination[J]. The Plant Journal,2005,44(6):960-971
[11] RICHTER R,BEHRINGER C,ZOURELIDOU M,et al. Convergence of auxin and gibberellin signaling on the regulation of the GATA transcription factors GNC and GNL in Arabidopsis thaliana[J]. Proceedings of the National Academy of Sciences of the United States of America,2013,110(32):13192-13197
[12] RICHTER R,BEHRINGER C,MÜLLER I K,et al. The GATA-type transcription factors GNC and GNL/CGA1 repress gibberellin signaling downstream from DELLA proteins and PHYTOCHROME-INTERACTING FACTORS[J]. Genes&Development,2010,24(18):2093-2104
[13] BEHRINGER C,BASTAKIS E,RANFTL Q L,et al. Functional diversification within the family of B-GATA transcription factors through the leucine-leucine-methionine domain[J]. Plant Physiology,2014,166(1):293-305
[14] HUDSON D,GUEVARA D R,HAND A J,et al. Rice cytokinin GATA transcription Factor1 regulates chloroplast development and plant architecture[J]. Plant Physiology,2013,162(1):132-144
[15] KLERMUND C,RANFTL Q L,DIENER J,et al. LLM-Domain B-GATA transcription factors promote stomatal development downstream of light signaling pathways in Arabidopsis thaliana hypocotyls[J]. The Plant Cell,2016,28(3):646-660
[16] SHIKATA M,MATSUDA Y,ANDO K,et al. Characterization of Arabidopsis ZIM, a member of a novel plant-specific GATA factor gene family[J]. Journal of Experimental Botany,2004,55(397):631-639
[17] LIU H,LI T,WANG Y M,et al. TaZIM-A1 negatively regulates flowering time in common wheat (Triticum aestivum L.)[J]. Journal of Integrative Plant Biology,2019,61(3):359-376
[18] BHARDWAJ A R,JOSHI G,KUKREJA B, et al. Global insights into high temperature and drought stress regulated genes by RNA-Seq in economically important oilseed crop Brassica juncea.[J]. BMC Plant Biology,2015,15(1):9
[19] ZHU H,ZHAI H,HE S Z,et al. A novel sweetpotato GATA transcription factor, IbGATA24, interacting with IbCOP9-5a positively regulates drought and salt tolerance[J]. Environmental and Experimental Botany,2022,194:104735
[20] 史军娜,刘美芹,师静,等.沙冬青GATA型锌指蛋白基因序列及表达分析[J].北京林业大学学报,2011,33(3):21-25
[21] 沈超.杨树PdGATA19和PdGATA13在干旱和低氮胁迫下的功能研究[D].北京:北京林业大学,2021:81-82
[22] 陈小玉. SlGATA17转录因子调控番茄耐旱性功能及应答机制研究[D].哈尔滨:东北农业大学,2020:51
[23] 陈志彤,何水林,黄毅斌.狼尾草属牧草研究进展[J].草地学报,2010,18(5):740-748.
[24] 罗富成,陈振昆.南方之宝-象草[J].云南农业,1996(11):18-19
[25] 周洋,丁成龙,赵丹,等.温度对杂交狼尾草及其母本种子萌发的影响[J].安徽农业科学,2008,36(23):9935-9936,9964
[26] 范欲航,许悦,祝诗词,等.美洲狼尾草组织培养再生体系的建立[J].草地学报,2023(1):89-95
[27] 杜秉仁.优良饲草作物-御谷[J].农业科学实验,1986(9):23
[28] 郜玉田,张雪艳.即粮即草产量高的御谷[J].农村科技,1995(6):10-11
[29] 伯顿,何国良.珍珠粟的植物学、栽培和利用[J].热带作物译丛,1966(2):65-68
[30] 丁成龙,白淑娟,顾洪如,等.珍珠粟在畜禽饲料中的应用研究进展[J].畜牧兽医杂志,2000,19(6):14-16
[31] 刘大林,孙启鑫,邵将,等.不同生育期狼尾草属牧草对土壤镉胁迫的生理响应[J].草地学报,2016,24(4):854-858
[32] 韦柳婵.多花黑麦草和美洲狼尾草对铜、锌处理的生理响应及对污染水体的净化作用[D].南京:南京农业大学,2004:44-46
[33] POTTER S C,LUCIANI A,EDDY S R,et al. HMMER web server:2018 update[J]. Nucleic Acids Research,2018,46:W200-W204
[34] MARCHLER-BAUER A,BRYANT S H. CD-Search:protein domain annotations on the fly[J].Nucleic Acids Research,2004,32:W327-W331
[35] KUMAR S,STECHER G,TAMURA K. MEGA7:Molecular evolutionary genetics analysis version 7.0 for bigger datasets[J]. Molecular Biology and Evolution,2016,33(7):1870-1874
[36] CHEN C J,CHEN H,ZHANG Y,et al. TBtools:an integrative toolkit developed for interactive analyses of big biological data[J]. Molecular Plant,2020,13(8):1194-1202
[37] BAILEY T L,BODEN M,BUSKE F A,et al. MEME SUITE:Tools for motif discovery and searching[J]. Nucleic Acids Research,2009,37:202-208
[38] SUN M,YAN H D,ZHANG A L,et al. Milletdb:a multi-omics database to accelerate the research of functional genomics and molecular breeding of millets[J]. Plant Biotechnology Journal,2023,21(11):2348-2357
[39] 骆鹰,王有成,王伟平,等.水稻GATA基因家族生物信息学分析[J].分子植物育种,2018,16(17):5514-5522
[40] 王伟杰,雷亚柯,张建航,等.花生GATA基因家族鉴定和表达分析[J].山西农业大学学报(自然科学版),2024(2):10-22
[41] 严明雄,彭伟业,李魏,等.二穗短柄草BdGATA2基因的表达及其功能分析[J].分子植物育种,2024,22(9):2916-2922
[42] ZHANG C,HUANG Y,XIAO Z,et al. A GATA transcription factor from soybean (Glycine max) regulates chlorophyll biosynthesis and suppresses growth in the transgenic Arabidopsis thaliana[J]. Plants,2020,9(8):1036
[43] 易雨憧,廖文海,孙进,等.杨梅全基因组的GATA转录因子鉴定、功能及进化分析[J].福建农林大学学报(自然科学版),2022,51(5):644-653
[44] 袁岐,张春利,赵婷婷,等.植物中GATA转录因子的研究进展[J].分子植物育种,2017,15(5):1702-1707
[45] 于元平,蒋宇佳,孙向一,等.假俭草WRKY家族基因鉴定及其响应干旱胁迫表达分析[J].草地学报,2024,32(5):1378-1391
[46] JIANG K N,YUNG V,CHIBA T,et al. Longitudinal patterning in roots:a GATA2-auxin interaction underlies and maintains the root transition domain[J]. Planta,2018,247(5):831-843
[47] 甘晓燕,巩檑,张丽,等. StGATA12对马铃薯(Solanum tuberosum)生长发育的影响[J].分子植物育种,2020,18(9):2886-2892
[48] 王崇,王连军,雷剑,等.甘薯IbGATA16基因的克隆与表达分析[J].热带作物学报,2023(12):2477-2484
[49] 刘江,刘刚,曾益春,等.桑树GATA基因家族的全基因组鉴定与分析[J].西南农业学报,2022,35(12):2724-2731

Bioinformatics Analysis of GATA Family of Pennisetum glaucum

美洲狼尾草GATA转录因子家族生物信息学分析

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