华北农学报 ›› 2024, Vol. 39 ›› Issue (6): 47-54. doi: 10.7668/hbnxb.20195203

所属专题: 西瓜 生物技术 蔬菜专题

• 作物遗传育种·种质资源·生物技术 • 上一篇    下一篇

西瓜SHMT基因家族鉴定及表达模式分析

粟柴静, 张卫华, 宋嘉欣, 李明轩, 邓满, 池明, 吴颖   

  1. 天津农学院 园艺园林学院,天津 300384
  • 收稿日期:2024-06-11 出版日期:2024-12-28
  • 通讯作者:
    吴 颖(1971—),女,吉林长春人,教授,博士,硕士生导师,主要从事植物资源与分子生物学研究。
  • 作者简介:

    粟柴静(1999—),女,贵州福泉人,在读硕士,主要从事园艺植物抗逆分子机制研究。

  • 基金资助:
    天津市高等学校学科领军人才项目; 天津市创新类领军人才引进专项

Genome-wide Identification and Expression Analysis of SHMT Gene Family in Watermelon

SU Chaijing, ZHANG Weihua, SONG Jiaxin, LI Mingxuan, DENG Man, CHI Ming, WU Ying   

  1. College of Horticulture and Landscape,Tianjin Agricultural University,Tianjin 300384,China
  • Received:2024-06-11 Published:2024-12-28

摘要:

丝氨酸羟甲基转移酶(SHMT)作为参与基础代谢的一类重要酶,在植物细胞代谢、光呼吸和防御活动中起重要作用。为了解西瓜中SHMT基因家族生物信息学功能,探究其在非生物胁迫下基因表达特性,进而为西瓜SHMT基因家族的功能开发以及选育西瓜抗逆基因提供基础。采用生物信息学方法鉴定西瓜SHMT家族成员,进一步利用RT-qPCR技术分析ClSHMTs在不同组织和非生物胁迫下的表达模式。结果显示,在西瓜全基因组中,共鉴定到8个ClSHMTs基因家族成员,该家族成员随机分布在6条染色体上,依次命名为ClSHMT1~ClSHMT8。每个基因家族成员的理化性质,如氨基酸数目、分子量、等电点等存在一定的差异。其编码的氨基酸个数为471~585,分子量为51.87~65.00 ku,等电点为6.57~8.52,均为亲水性蛋白;亚细胞定位预测主要分布于线粒体上。基因结构和蛋白保守基序分析显示,ClSHMTs结构由4~15个外显子以及3~14个内含子组成,且均含有SHMT保守结构域。进一步与黄瓜、小麦等6个物种进行系统进化分析可知,50个SHMTs分3个亚族,Group Ⅰ~Ⅲ。启动子顺式作用元件分析显示,ClSHMTs启动子上均含有大量光响应、植物激素、逆境胁迫等元件。表达模式分析显示,6个ClSHMTs在西瓜不同组织中均有表达,其中,ClSHMT1ClSHMT4ClSHMT5ClSHMT8在叶中表达量显著高于其他组织;在低温、干旱和盐胁迫下,ClSHMTs表达丰度各异,但集中为上调表达。综上,本研究对西瓜SHMT基因家族进行系统性分析和下一步ClSHMTs的生物功能开发提供了基础。

关键词: 西瓜, SHMT基因家族, 全基因组鉴定, 非生物胁迫, 表达分析

Abstract:

Serine hydroxymethyltransferase(SHMT),as an important enzyme involved in basic metabolism,plays an important role in plant cell metabolism,photorespiration and defense activities.To understand the bioinformatics function of the SHMT gene family in watermelon,explore its gene expression characteristics under abiotic stress,and provide a basis for the functional development of watermelon SHMT and the breeding of watermelon stress-resistance genes.Bioinformatics methods were used to identify SHMT family,and RT-qPCR was used to analyze the expression patterns of ClSHMTs in different tissues and abiotic stresses.The results showed that 8 ClSHMTs gene family members were identified in the whole genome of watermelon,which were unevenly distributed on 6 chromosomes and named ClSHMT1ClSHMT8 in turn.There were some differences in the physical and chemical properties of each gene family member,such as the number of amino acids,molecular weight,isoelectric point.The protein contained 471—585 amino acids,with molecular weight of 51.87—65.00 ku and isoelectric point of 6.57—8.52,all of which were hydrophilic proteins.The subcellular localization prediction was mainly distributed on mitochondria.Gene structure and protein conserved motifs analysis showed that the ClSHMTs structure consisted of 4—15 exons and 3—14 introns,and all ClSHMTs contained conserved SHMT domains.Furtherly,phylogenetic analysis with 6 species such as cucumber and wheat showed that 50 SHMTs were divided into 3 sub-families,Group Ⅰ—Ⅲ.Promoter of ClSHMTs contained cis-acting elements related to light response,plant hormone response and stress response.The expression pattern analysis showed that 6 ClSHMTs were expressed in different tissues of watermelon,and the expression levels of ClSHMT1,ClSHMT4,ClSHMT5,ClSHMT8 in leaves were significantly higher than those in other tissues.Under low temperature,drought and salt stress,the expression abundance of ClSHMTs varies,but the expression was mainly up-regulated.In conclusion,this study systematically analyzed the SHMT gene family in watermelon,and will provide a reference for the further study of the biological functions of ClSHMTs.

Key words: Watermelon, SHMT gene family, Genome-wide identification, Abiotic stress, Expression analysis

引用本文

粟柴静, 张卫华, 宋嘉欣, 李明轩, 邓满, 池明, 吴颖. 西瓜SHMT基因家族鉴定及表达模式分析[J]. 华北农学报, 2024, 39(6): 47-54. doi: 10.7668/hbnxb.20195203.

SU Chaijing, ZHANG Weihua, SONG Jiaxin, LI Mingxuan, DENG Man, CHI Ming, WU Ying. Genome-wide Identification and Expression Analysis of SHMT Gene Family in Watermelon[J]. Acta Agriculturae Boreali-Sinica, 2024, 39(6): 47-54. doi: 10.7668/hbnxb.20195203.