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作物学报 ›› 2022, Vol. 48 ›› Issue (7): 1683-1696.doi: 10.3724/SP.J.1006.2022.14126

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

甘薯解偶联蛋白基因家族鉴定与表达分析

陈璐(), 周淑倩, 李永新, 陈刚, 陆国权, 杨虎清()   

  1. 浙江农林大学食品与健康学院, 浙江杭州 311300
  • 收稿日期:2021-07-15 接受日期:2021-10-19 出版日期:2022-07-12 网络出版日期:2021-11-01
  • 通讯作者: 杨虎清
  • 作者简介:E-mail: 13097686588@yeah.net
  • 基金资助:
    国家自然科学基金项目(31871857);财政部和农业农村部国家现代农业产业技术体系建设专项(CARS-10-B19);浙江省自然科学基金项目(LQ20C200002)

Identification and expression analysis of uncoupling protein gene family in sweetpotato

CHEN Lu(), ZHOU Shu-Qian, LI Yong-Xin, CHEN Gang, LU Guo-Quan, YANG Hu-Qing()   

  1. School of Food and Health, Zhejiang A&F University, Hangzhou 311300, Zhejiang, China
  • Received:2021-07-15 Accepted:2021-10-19 Published:2022-07-12 Published online:2021-11-01
  • Contact: YANG Hu-Qing
  • Supported by:
    National Natural Science Foundation of China(31871857);China Agriculture Research System(CARS-10-B19);Natural Science Foundation of Zhejiang Province(LQ20C200002)

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摘要：

本研究旨在鉴定和分析甘薯(Ipomonea batatas (L.) Lam)解偶联蛋白(uncoupling protein, UCPs)基因家族成员, 探究其在甘薯不同组织中的表达特异性及其对低温(4℃)、高盐(NaCl)和干旱(PEG-6000)等胁迫的响应规律。结果发现, 甘薯UCP (IbUCP)含有5个家族基因, 分别将其命名为IbUCP1 (GenBank登录号为MW753000)、IbUCP2 (GenBank登录号为MW753004)、IbUCP3 (GenBank登录号为MW753001)、IbUCP4 (GenBank登录号为MW753002)和IbUCP5 (GenBank登录号为MW753003)。预测IbUCP的理论等电点为8.53~9.86, 含有261~375个的氨基酸残基; IbUCP定位于线粒体; IbUCP为亲水蛋白, 又属于线粒体载体蛋白超家族的成员, 其二级结构主要包括α-螺旋和无规则卷曲, 这与三级结构预测结果相符; IbUCP不存在跨膜螺旋结构和信号肽; IbUCP家族成员分为5个, 与三裂叶薯和牵牛花有较近的亲缘关系, 具有一定的保守性; 启动子预测发现, IbUCPs基因具有基本的转录元件以及一些信号响应元件、转录因子识别结合元件和逆境等响应顺式作用元件。表达分析显示, IbUCPs基因家族成员具有组织特异性, 其中IbUCP4在茎中表达最高, 其余IbUCPs均在块根中最高; IbUCPs基因家族成员中响应低温胁迫的有IbUCP1、IbUCP4和IbUCP5; IbUCPs基因家族对高盐胁迫均有响应; 在干旱的胁迫下, IbUCP1、IbUCP4和IbUCP5均有响应, 分别在不同的时间达到峰值。多种胁迫可调控IbUCPs的表达, 本研究为甘薯UCP基因的功能挖掘及甘薯抗逆品种筛选提供了一定的理论依据。

关键词: 甘薯, 解偶联蛋白, 生物信息学, 表达分析, 胁迫

Abstract:

The objectives of this study are to identify and analyze the uncoupling protein (UCPs) gene family members in sweetpotato (Ipopoea batatas (L.) Lam) and to investigate its expression specificity in different tissues of sweetpotato and its response to low temperature (4℃), high salinity (NaCl) and drought (PEG-6000) stresses. The results showed that the UCP (IbUCP) gene family of sweetpotato included five genes, which were named IbUCP1 (GenBank accession number: MW753000), IbUCP2 (GenBank accession number: MW753004), IbUCP3 (GenBank accession number: MW753001), IbUCP4 (GenBank accession number: MW753002), and IbUCP5 (GenBank accession number: MW753003), respectively. IbUCP contains 261-375 amino acid residues with the theoretical isoelectric point from 8.53 to 9.86. IbUCP were mainly located in mitochondria. IbUCP was a hydrophilic protein belonging to the superfamily of mitochondrial. The secondary structure of IbUCP was mainly composed of α-helix and random coils, which was consistent with the prediction of tertiary structure. IbUCP did not contain transmembrane helix structure and signal peptide. IbUCP family members were divided into five branches, which were closely related to Ipomoea triloba and Ipomoea nil, and was conserved to a certain extent. Promoter prediction revealed that IbUCPs family genes not only has basic transcription elements, but also some signal response elements, transcription factor recognition binding elements, and stress response cis-acting elements. Expression analysis showed that the IbUCPs gene family were tissue-specific. The IbUCP4 expressed the highest in stem, and the other IbUCPs genes were found expressed the highest in tuberous root. IbUCP1, IbUCP4, and IbUCP5 responded to low temperature stress.All members of the IbUCPs gene family all responded to high salinity stress. Additionally, under drought stress, IbUCP1, IbUCP4, and IbUCP5 all responded and reached the peak at different time, respectively. Various stresses can regulate the expression of IbUCPs, and this study provides a theoretical basis for the function mining of UCP gene in sweetpotato and the selection of sweetpotato stress-resistant varieties.

Key words: sweetpotato (Ipomoea batatas (L.) Lam), uncoupling protein, bioinformatics, relative expression analysis, stress

表1

本研究所用引物"

引物用途
Primer function		 引物名称
Primer name		 引物序列
Primer sequence (5′-3′)
qRT-PCR扩增
qRT-PCR amplification		 IbUCP1-F GGAAGGGCGTTATACCTGGC
IbUCP1-R TGGGATTAGCCACAGCGATT
IbUCP2-F GGAAGGGCGTTATACCTGGC
IbUCP2-R TGGGATTAGCCACAGCGATT
IbUCP3-F AAACGGCTTTTCGGGGCTAT
IbUCP3-R GGAGAGAAAGTGGCCGATCA
IbUCP4-F ACGATGAGATCAAGGAGGCG
IbUCP4-R TATCACATCCACCGGGTTCG
IbUCP5-F CGCAACTACAAAAGCGTGGT
IbUCP5-R AGCCCGTCCTTCATGATTCC
内参基因
Internal reference genes		 α-Tubulin-F CAACTACCAGCCACCAACTGT
α-Tubulin-R CAAGATCCTCACGAGCTTCAC

表2

甘薯UCP序列及理化性质分析"

基因名称 Gene name 编码氨基酸数量
Amino acids number		 分子式
Formula		 分子量
Molecular
weight		 等电点
pI		 不稳定指数
Instability index		 脂溶指数
Aliphatic
index		 总平均
亲水性
GRAVY		 亚细胞定位
Subcellular
localization
IbUCP1 308 C1485H2370N406O419S11 32,968.28 9.48 29.16 95.32 0.096 线粒体Mitochondria
IbUCP2 375 C1860H2868N476O512S15 40,571.01 8.53 38.33 93.25 0.261 线粒体Mitochondria
IbUCP3 261 C1254H2016N356O363S9 28,176.51 9.62 42.00 96.05 0.017 线粒体Mitochondria
IbUCP4 291 C1347H2182N384O396S14 30,541.32 9.82 30.88 88.80 0.087 线粒体Mitochondria
IbUCP5 319 C1511H2452N420O426S20 33,959.85 9.86 26.78 89.00 0.104 线粒体Mitochondria

图1

甘薯UCP的亲疏水性分析"

表3

甘薯UCP二级结构预测"

蛋白名称
Protein name		 α-螺旋
Alpha helix		 β-转角
Beta turn		 延伸链
Extended strand		 无规则卷曲
Random coil
IbUCP1 49.35 6.82 13.96 29.87
IbUCP2 44.53 7.73 17.33 30.40
IbUCP3 46.46 8.81 13.03 31.80
IbUCP4 47.08 6.53 10.65 35.74
IbUCP5 46.08 7.84 12.54 35.54

图2

甘薯UCP的二级结构和三级立体结构"

图3

甘薯UCP的保守结构域 "

图4

甘薯UCP家族的保守蛋白基序"

图5

甘薯UCP的跨膜结构分析 "

图6

甘薯UCP的信号肽预测 "

图7

甘薯UCP与拟南芥UCP的氨基酸序列比对 "

图8

UCP家族的系统进化树 AtPUMP1、AtUCP2、AtUCP3、AtUCP4、AtUCP5: 拟南芥PUMP1 (NP_190979.1)、UCP2 (NP_974962.1)、UCP3 (NP_172866.1)、UCP4 (BAH 56967.1)、UCP5 (NP_179836.1); FvUCP4: 野草莓UCP4 (XP_004299717.1); SpUCP1、SpUCP2-like isoform X1、SpUCP2-like isoform X2、SpUCP3、SpUCP5: 潘那利番茄UCP1 (XP_015086211.1)、UCP2-like isoform X1 (XP_015086155.1)、UCP2-like isoform X2 (XP_015086156.1)、UCP3 (XP_015074974.1)、UCP5 (XP_015058445.1); HbUCP1-like、UCP2-like、UCP3、UCP5-like: 巴西橡胶树UCP1-like (XP_021664307.1)、UCP2-like (XP_021647687.1)、UCP3 (XP_021691868.1)、UCP5-like (XP_0216 35248.1); ZjUCP1、ZjUCP2 isoform X1、ZjUCP2 isoform X2、 ZjUCP2 isoform X3、ZjUCP3、ZjUCP5: 枣UCP1 (XP_015897075.1)、UCP2 isoform X1 (XP_015873942.1)、UCP2 isoform X2 (XP_024926760.1)、UCP2 isoform X3 (XP_024926761.1)、UCP3 (XP_015895 050.1)、UCP5 (XP_015890603.1); LeUCP、LeUCP2、LeUCP3、LeUCP5: 番茄 UCP (NP_001234584.1)、UCP2 (XP_004246961.1)、UCP3 (XP_004238805.1)、UCP5 (XP_0042 50140.1); TaUCP1a: 小麦UCP1a (BAB16384.1);OsUCP1、OsUCP2、OsUCP3、OsUCP5: 水稻UCP1 (XP_015616794.1)、UCP2 (XP_015622201.1)、UCP3 (XP_015636356.1)、UCP5 (XP_01565 0890.1); StUCP、StUCP3、StUCP5-like: 马铃薯UCP (CAA72107.1)、UCP3 (XP_006355129.2)、UCP5-like (XP_006360391.1); HaUCP、HaUCP1、HaUCP3、HaUCP5: 向日葵 UCP (XP_022001748.1)、UCP1 (XP_021988906.1)、UCP3 (XP_021997212.1)、UCP5 (XP_022009806.1); InUCP1、InUCP2-like、InUCP3、InUCP5、InUCP5-like: 牵牛花UCP1 (XP_019186835.1)、UCP2-like (XP_019167977.1)、UCP3 (XP_019165923.1)、UCP5 (XP_019153217.1)、UCP5-like (XP_019 18563 7.1); ItUCP1、ItUCP2-like isoform X1、ItUCP2-like isoform X1、ItUCP2-like isoform X2、 ItUCP2-like isoform X3、ItUCP2-like isoform X4、ItUCP3、ItUCP5: 三裂叶薯UCP1 (XP_03 1102145.1)、UCP2-like isoform X1 (XP_031110514.1)、UCP2-like isoform X2 (XP_031110 515.1)、UCP2-like isoform X3 (XP_031110516.1)、UCP2-like isoform X4 (XP_031110517.1)、UCP3 (XP_0311 15656.1)、UCP5 (XP_031109433.1); IbUCP1、IbUCP2、IbUCP3、IbUCP4、IbUCP5: 甘薯UCP1 (MW753000)、UCP2 (MW753004)、UCP3 (M W753001)、UCP4 (MW753002)、UCP5 (MW753003)。"

表4

IbUCPs启动子的顺式作用元件预测分析"

顺式元件
Cis-element		 典型序列
Typical sequence		 特性
Characteristic		 基因
Gene
AE-box AGAAACAA, AGAAACTT 光响应元件的一部分
Part of a light responsive element		 IbUCP1, IbUCP2, IbUCP5
G-box CAGCAC 光响应的顺式作用元件
Cis-acting regulatory element involved in light responsiveness		 IbUCP1, IbUCP2, IbUCP3, IbUCP5
ARE AAACCA 厌氧诱导的顺式作用元件
Cis-acting regulatory element essential for the anaerobic induction		 IbUCP1, IbUCP4, IbUCP5
AuxRR-core GGTCCAT 生长素响应有关的元件
Cis-acting regulatory element involved in auxin responsiveness		 IbUCP3, IbUCP5
ERE AAATTTTA 乙烯响应
Ethylene responsive element		 IbUCP1, IbUCP3, IbUCP4, IbUCP5
CGTCA-motif, TGACG-motif ACTGC, TGACG MeJA响应
MeJA-responsiveness		 IbUCP5
TCA-element TTTTTTCTACC 水杨酸响应
Salicylic acid response element		 IbUCP3
as-1 TGACG 水杨酸响应
Salicylic acid response element		 IbUCP5
GARE-motif TATGTTG 赤霉素响应
Gibberellin-responsive element		 IbUCP4, IbUCP5
ABRE AACCCGG, ACGTG 脱落酸响应
Cis-acting element involved in the abscisic acid responsiveness		 IbUCP2, IbUCP3
MYB ACCAAC, TAACCA, CAACCA MYB 结合位点相关元件
Elements associated with MYB binding sites		 IbUCP1, IbUCP2, IbUCP3, IbUCP4, IbUCP5
顺式元件
Cis-element		 典型序列
Typical sequence		 特性
Characteristic		 基因
Gene
MRE AACCTAA MYB 结合位点相关元件
Elements associated with MYB binding sites		 IbUCP1, IbUCP4, IbUCP5
MBS CAACTG MYB 结合位点
MYB binding site		 IbUCP2, IbUCP3
W-box TTGACC WRKY转录因子结合位点
WRKY transcription factor binding site		 IbUCP1, IbUCP4, IbUCP5
CAT-box GCCACT 分生组织相关的顺势调节元件
Cis-acting regulatory element related to meristem expression		 IbUCP2, IbUCP5
circadian CTATAGAAAT 参与昼夜节律调控的顺式调控元件
Cis-acting regulatory element involved in circadian control		 IbUCP3
TC-rich repeats GTTTTCTTA 参与防御和胁迫响应的顺式调控元件
Cis-acting element involved in defense and stress responsiveness		 IbUCP1, IbUCP2
O2-site GGTGGAGTAG 参与玉米醇溶蛋白代谢调节的顺式作用调节元件
Cis-acting regulatory element involved in zein metabolism regulation		 IbUCP1
GCN4_motif TGAGTCA 参与胚乳表达的顺式调控元件
Cis-regulatory element involved in endosperm expression		 IbUCP1

图9

IbUCPs组织特异性表达分析 柱上不同小写字母表示在0.05水平差异显著。"

图10

胁迫处理后的甘薯块根和幼苗 A: 自左向右分别是甘薯块根低温处理0、1、2、3、7、14、21和28 d; B: 自左向右分别是甘薯幼苗低温处理0、1、3、6、12、24和48 h; C: 自左向右分别是甘薯幼苗高盐处理0、1、3、6、12、24和48 h; D: 自左向右别是甘薯幼苗干旱处理0、1、3、6、12、24和48 h。"

图11

IbUCPs基因家族响应非生物胁迫的表达分析 *、**和***表示同一基因不同处理间在0.05、0.01、0.001水平差异显著。"

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