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作物学报 ›› 2025, Vol. 51 ›› Issue (11): 2944-2957.doi: 10.3724/SP.J.1006.2025.54062

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

25种不同植物RAV家族的鉴定与马铃薯RAV基因分析

李万1,*(), 常紫锐1, 卢瑶2, 沈日敏2, 赵永平1,*(), 白小东2,*()   

  1. 1 商洛学院生物医药与食品工程学院, 陕西商洛 726000
    2 山西农业大学马铃薯遗传改良与种质创新山西省重点实验室, 山西太原030031
  • 收稿日期:2025-05-17 接受日期:2025-08-13 出版日期:2025-11-12 网络出版日期:2025-08-22
  • 通讯作者: *李万, E-mail: 599092122@qq.com; 赵永平, E-mail: zhaoyp2008@sina.com; 白小东, E-mail: bxd5561@126.com
  • 基金资助:
    陕西省自然科学基础研究计划资助项目(2025JC-YBMS-245);马铃薯遗传改良与种质创新山西省重点实验室项目(202304010921003-K06)

Identification of RAV family in 25 different plant species and expression analysis of RAV genes in potato

LI Wan1,*(), CHANG Zi-Rui1, LU Yao2, SHEN Ri-Min2, ZHAO Yong-Ping1,*(), BAI Xiao-Dong2,*()   

  1. 1 School of Biomedicine and Food Engineering, Shangluo University, Shangluo 726000, Shaanxi, China
    2 Key Laboratory of Potato Genetic Improvement and Germplasm Innovation in Shanxi Province, Shanxi Agricultural University, Taiyuan 030031, Shanxi, China
  • Received:2025-05-17 Accepted:2025-08-13 Published:2025-11-12 Published online:2025-08-22
  • Contact: *E-mail: 599092122@qq.com; E-mail: zhaoyp2008@sina.com; E-mail: bxd5561@126.com
  • Supported by:
    Natural Science Basic Research Program of Shaanxi(2025JC-YBMS-245);Key Laboratory of Potato Genetic Improvement and Germplasm Innovation in Shanxi Province(202304010921003-K06)

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摘要：

植物容易受到温度、高盐、干旱等各种环境因素的影响, 导致发育不良、降低产量。RAV家族是植物特有的, 与植物生长发育及生物和非生物胁迫抗性密切相关。本研究利用生物信息学方法和多个数据库, 对从藻类到被子植物的25种植物的RAV蛋白(RAVs)进行了鉴定和分析。结果表明, 裸子植物和被子植物中存在较多的RAVs, 苔藓植物和石松植物中存在少量的RAVs, 藻类植物中未发现RAVs。系统发育分析显示, RAVs被分为3个主要分支, Clade I包括从苔藓植物到被子植物的RAVs, 但单子叶植物除外。Clade II只含双子叶植物的RAVs。Clade III由单子叶植物和地钱的RAVs组成。此外, 通过对马铃薯RAVs的进一步分析表明, RAV家族成员数量虽然较少, 但在马铃薯响应非生物胁迫过程中具有重要作用, 也存在显著的功能分化。本研究结果详细鉴定和分析了25种植物中RAVs的性质和特征, 为进一步研究RAVs的功能提供了参考。

关键词: RAV家族, 转录因子, 生物信息学, 马铃薯, 非生物胁迫

Abstract:

Plants are susceptible to various environmental factors such as extreme temperatures, high salinity, and drought, which can hinder their development and significantly reduce crop yields. The RAV (Related to ABI3/VP1) gene family is unique to plants and is closely associated with growth, development, and responses to both biotic and abiotic stresses. In this study, RAV genes/proteins (RAVs) from 25 plant species, ranging from Chlorophyta to Angiosperms, were identified and analyzed using bioinformatics tools and multiple databases. The results revealed that RAVs are more abundant in Gymnosperms and Angiosperms, present in smaller numbers in Bryophytes and Lycophytes, and absent in Chlorophyta. Phylogenetic analysis classified the RAVs into three main clades: Clade I included RAVs from Bryophytes to Angiosperms (excluding Monocots); Clade II contained only RAVs from Eudicots; Clade III comprised RAVs from Monocots and Marchantia polymorpha. Further analysis of RAVs in potato showed that although the number of RAV family members was limited, they exhibited significant functional divergence and played important roles in responses to abiotic stress. Overall, this study provides a comprehensive identification and characterization of RAVs across 25 plant species, offering a valuable reference for future functional studies of the RAV gene family.

Key words: RAV family, transcription factors, bioinformatics, Solanum tuberosum, abiotic stresses

表1

25种植物中RAVs的数量、基因复制事件及分类"

植物门类
Plant lineage		 物种
Species		 RAVs蛋白数量
Numbers of
RAV protein		 片段复制
Segmental duplication		 串联复制
Tandem
duplication		 Clade I Clade II Clade III
藻类
Chlorophyta		 衣藻
Chlamydomonas reinhardtii (Cr)		 0 0 0 0 0 0
胶球藻
Coccomyxa subellipsoidea (Co)		 0 0 0 0 0 0
杜氏盐藻
Dunaliella salina (Ds)		 0 0 0 0 0 0
微胞藻
Micromonas pusilla (Mi)		 0 0 0 0 0 0
鞭毛藻
Ostreococcus lucimarinus (Ol)		 0 0 0 0 0 0
团藻Volvox carteri (Vc) 0 0 0 0 0 0
苔藓类
Bryophyta		 地钱
Marchantia polymorpha (Mp)		 1 0 0 0 0 1
小立碗藓
Physcomitrella patens (Ph)		 2 0 0 2 0 0
假泥炭藓Sphagnum fallax (Sf) 2 0 0 2 0 0
石松类
Lycophyte		 卷柏
Selaginella moellendorffii (Sm)		 2 0 0 2 0 0
裸子植物
Gymnospermae		 云杉Picea abies (Pa) 16 0 0 16 0 0
被子植物
Angiosperm
 无油樟
Amborella		 无油樟
Amborella trichopoda (Ar)		 1 0 0 1 0 0
双子叶植物
Eudicots		 拟南芥
Arabidopsis thaliana (At)		 6 3 0 2 4 0
芸薹Brassica rapa (Br) 14 18 1 7 7 0
黄瓜Cucumis sativus (Cs) 4 0 0 3 1 0
荠菜Capsella rubella (Cb) 5 2 0 2 3 0
大豆Glycine max (Gm) 5 6 0 1 4 0
棉花Gossypium raimondii (Gr) 10 4 2 7 3 0
番茄
Solanum lycopersicum (Sl)		 3 1 0 1 2 0
马铃薯Solanum tuberosum (St) 2 0 0 0 2 0
单子叶植物
Monocots		 二穗短柄草
Brachypodium distachyon (Bd)		 4 2 1 0 0 4
大麦Hordeum vulgare (Hv) 8 0 1 0 0 8
水稻Oryza sativa (Os) 4 3 1 0 0 4
小麦Triticum aestivum (Ta) 5 0 0 0 0 5
玉米Zea mays (Zm) 3 2 0 0 0 3

图1

RAVs进化树(A)、基因结构(B)、结构域(C)和基序分析(D) 图A中, 通过不同颜色区分3个亚组和不同的植物种类。图B中, 红框代表CDS, 黑色线条表示内含子, 蓝框表示上游/下游的非编码区。图C中, 不同结构域用不同的颜色表示。"

图2

97个RAVs的进化树 3 个亚组和不同的植物种类通过不同颜色区分。分支节点处的不同颜色圆圈表示不同的根值范围。"

图3

25种植物RAVs的假设进化模型 A图中, 不同植物物种用不同颜色进行区分, 饼图中绿色和黄色区域的数字分别表示对应物种中RAV蛋白的片段复制和串联复制事件的数量。B图中的数字表示相应的RAV蛋白、基因复制事件、串联复制或片段复制事件数量。"

图4

97个RAVs的GO注释信息 不同类型的基因注释用不同的颜色表示。"

图5

StRAV1和StRAV2的序列比对(A)及三级结构预测(B)"

图6

马铃薯RAVs的CAEs预测及在不同胁迫和组织中的表达模式分析 A: CAEs预测; 绿色和红色方框分别表示不含和包含该CAE, 数字表示相应CAE的数量。B: StRAV1和StRAV2在不同胁迫处理下的表达模式; 纵坐标(倍数)表示某胁迫下的基因表达量与对照组该基因表达量的比值。C: StRAV1和StRAV2在不同组织中的表达模式; 图中数据(基因表达量)等于原始数据以2为底的对数值; #表示该基因在该组织中的表达量为0。"

图7

StRAV1和StRAV2在不同胁迫下的表达水平分析 定量数据由3个生物学重复和3个技术重复组成, 使用2-ΔΔCt法计算各基因的相对表达量, 使用t检验进行显著性分析。*和**分别表示与正常相比, 基因表达量在P < 0.05和P < 0.01水平上具有显著差异。"

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