小鼠耳芥PEBP基因家族全基因组鉴定及表达分析

doi:10.16288/j.yczz.21-305

遗传 ›› 2022, Vol. 44 ›› Issue (1): 80-91.doi: 10.16288/j.yczz.21-305

小鼠耳芥PEBP基因家族全基因组鉴定及表达分析

李永光^1,²(), 金玉环¹, 郭力¹, 艾昊², 李瑞宁², 黄先忠^2,³()

1. 石河子大学生命科学学院,石河子 832003
2. 安徽科技学院农学院,凤阳 233100
3. 石河子大学生命科学学院,植物基因组学实验室,石河子 832003

收稿日期:2021-08-24 修回日期:2021-11-15 出版日期:2022-01-20 发布日期:2022-01-06
通讯作者: 黄先忠 E-mail:zongheng1476408@163.com;huangxz@ahstu.edu.cn
作者简介:李永光,在读硕士研究生,专业方向：生物化学与分子生物学。E-mail: zongheng1476408@163.com
基金资助:
国家自然科学基金项目编号(U1303302);石河子大学国际科技合作项目编号(GJHZ201806);安徽科技学院学科带头人引进人才启动经费项目资助编号(NXYJ202001)

Genome-wide identification and expression analysis of the PEBP genes in Arabidopsis pumila

Yongguang Li^1,²(), Yuhuan Jin¹, Li Guo¹, Hao Ai², Ruining Li², Xianzhong Huang^2,³()

1. College of Life Sciences, Shihezi University, Shihezi 832003, China
2. College of Agriculture, Anhui Science and Technology University, Fengyang 233100, China
3. Plant Genomics Laboratory, College of Life Sciences, Shihezi University, Shihezi 832003, China

Received:2021-08-24 Revised:2021-11-15 Online:2022-01-20 Published:2022-01-06
Contact: Huang Xianzhong E-mail:zongheng1476408@163.com;huangxz@ahstu.edu.cn
Supported by:
Supported by the National Natural Science Foundation of China No(U1303302);the International Science and Technology Cooperation Project of Shihezi University No(GJHZ201806);the Talent Introduction Start-up Fund Project of Anhui Science and Technology University(NXYJ202001)

摘要/Abstract

摘要：

PEBP (phosphatidylethanolamine-binding protein)家族包含保守的磷脂酰乙醇胺结合蛋白结构域,其中FT和TFL1蛋白构成植物成花素-反成花素系统调控植物的开花时间和株型结构被广泛关注。小鼠耳芥(Arabidopsis pumila)是早春短命植物,生长在古尔班通古特沙漠南缘荒漠地带,对环境具有较好的适应性。本研究对小鼠耳芥PEBP基因家族进行全基因组鉴定,发现其基因组包含11个PEBP基因(1个MFT、2个FT、2个TSF、2个TFL1、2个CEN和2个BFT),均由4个外显子与3个内含子组成。共线性分析表明,小鼠耳芥与拟南芥(A. thaliana)、琴叶拟南芥(A. lyrata) PEBP基因间存在11对共线性关系,PEBP家族在小鼠耳芥基因组中发生了明显的扩张,并且ApPEBP基因复制类型为全基因组复制/片段复制。组织表达分析发现ApMFT在种子中高表达,ApFT和ApBFT主要在花和果荚中表达,ApTFL1在茎尖中高表达,但ApCEN在根中高表达。进一步分析了6个ApPEBP基因在4种非生物胁迫下的表达特征,发现在10% PEG6000模拟干旱胁迫下,ApPEBP基因整体上调表达,在低温(4℃)胁迫下整体下调表达。在盐胁迫(250 mmol/L NaCl)下,ApFT1/2下调表达,ApTFL1-1/2先下调表达后上调表达,而ApCEN1/2明显上调表达。高温(40℃)胁迫下,ApFT1/2和ApTFL1-1/2显著下调表达,但ApCEN1/2上调表达。综上,ApCEN1/2在盐、干旱和高温胁迫下均显著上调表达。蛋白互作网络分析表明,ApPEBP主要与开花通路中的相关蛋白及核糖体蛋白互作。推测ApPEBP基因在小鼠耳芥响应荒漠逆境调节生长发育、开花转变过程中起着重要的作用。

关键词: 短命植物, 小鼠耳芥, 开花转变, PEBP, 逆境

Abstract:

The members of the phosphatidylethanolamine-binding protein (PEBP) family harbor a conserved phosphatidylethanolamine-binding protein domain, of which the FT and TFL1 proteins constitute a plant florigen-antiflorigen system regulating flowering time and plant structure. Arabidopsis pumila is an early spring and ephemeral plant, which grows in the southern boundary of the Gulban Tonggut desert and has a good adaptability to the extreme environment. In this study, a genome-wide identification revealed that the A. pumila genome contains 11 PEBP genes (one MFT, two FT, two TSF, two TFL1, two CEN, and two BFT), all of which consist of four exons and three introns. Collinearity analysis showed that there are 11 pairs of collinearity relationships between A. pumila and A. thaliana, and A. lyrata, respectively. The PEBP gene family obviously has expanded in the A. pumila genome, with duplication of ApPEBP genes in the forms of whole genome duplication/segmental duplication. Tissue expression analysis showed that ApMFT was highly expressed in seeds; ApFT and ApBFT were mainly expressed in flowers and siliques; ApTFL1 was highly expressed in shoot apex; and ApCEN was highly expressed in roots. In addition, the expression profiles of ApPEBP genes under four abiotic stresses were also analyzed in this study. The results revealed that ApPEBP genes were generally up-regulated under drought stress (10% PEG6000) and were generally down-regulated under low temperature (4℃) stress. Under salt stress (250 mmol/L NaCl), ApFT1/2 were down-regulated, ApTFL1-1/2 were initially down-regulated and then up-regulated; and ApCEN1/2 were strikingly up-regulated. Under high temperature (40℃) stress, the expressions of ApFT1/2 and ApTFL1-1/2 were significantly down-regulated, but ApCEN1/2 were noticeably up-regulated. Collectively, ApCEN1/2 expressions were significantly up-regulated under salt, drought, and heat stresses. Protein interaction network analysis showed that A. pumila PEBP proteins interacted with proteins in flowering pathways and ribosomal proteins. These results suggested that ApPEBP genes play an important role(s) in the regulation of growth, development, and flowering transition of A. pumila in response to desert adversities.

Key words: ephemeral plant, Arabidopsis pumila, flowering transition, PEBP, adversity

李永光, 金玉环, 郭力, 艾昊, 李瑞宁, 黄先忠. 小鼠耳芥PEBP基因家族全基因组鉴定及表达分析[J]. 遗传, 2022, 44(1): 80-91.

Yongguang Li, Yuhuan Jin, Li Guo, Hao Ai, Ruining Li, Xianzhong Huang. Genome-wide identification and expression analysis of the PEBP genes in Arabidopsis pumila[J]. Hereditas(Beijing), 2022, 44(1): 80-91.

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序列	引物名称	上游引物序列(5′→3′)	下游引物序列(5′→3′)	引物用途
1	qRT-ApMFT	TGATCCTTTGGTGGTCGGAA	CAGACATATTGGCGGTTGGG	实时定量PCR
2	qRT-ApFT1	TAGTAAGCCGAGTTGTTGGAGA	AGAAGGCCTTAGATCCAAACCA
3	qRT-ApFT2	GCAGAGTTGTTGGAGACGTTC	AGGCCTTAGATCCAAGCCATT
4	qRT-ApTSF1	TAGGGTTACTTATGGCCAACGA	GTAGAAGTTCCTGAGGTCGTCT
5	qRT-ApTSF2	CTGGTTTGTGTTGGTGACTGAT	CTCGTAGCACACCATCTCATTG
6	qRT-ApTFL1-1	GGTGGTGATCTCAGATCCTTCT	GCTCACCACCTCTTTTCCAAAT
7	qRT-ApTFL1-2	TTCCTCTGTCTCCTCCAAACC	TCGTTACGATCCAGTGCAGAT
8	qRT-ApBFT1	CCTCTCTAAACCTCGCGTTG	CTAGGTGCATCAGGGTCCAT
9	qRT-ApBFT2	TCCAAGCGTGACAATGAGAG	CAACGCGAGGTTTAGAGAGG
10	qRT-ApCEN1	CTCGGCCAAACATAGGGATA	CGGTTCTGCTTGAACAACAA
11	qRT-ApCEN2	GCCTCGACCAAACATAGGAA	CGCAAATTCTCGAGTGTTGA
12	qRT-ApGAPDH	CTCCCATGTTTGTTGTTGGTGTCA	CTTCCACCTCTCCAGTCCTTCATT
13	BD-ApCEN1	CGGAATTCATGGCTAGGATTTCCTCAGAC	CGGGATCCTCAACGGCGTCTAGCTGCGGT	酵母双杂
14	AD-ApRPL5	CGGAATTCATGGCGTCTCCTTCGCTTCT	CGGGATCCTCATCTCTTTGTCTTTCCTTTTCC	酵母双杂

基因名称	基因ID	染色体号	染色体上位置(bp)	氨基酸长度(aa)	分子量(kDa)	等电点	亚细胞定位
ApBFT1	evm.model.9__7_CONTIGS_16776222.1453	Ap11	2193322-2194294	177	20.1	8.76	细胞核与细胞质
ApBFT2	evm.model.12__9_CONTIGS_14700693.579	Ap16	2804281-2805282	177	20.1	8.97	细胞核与细胞质
ApCEN1	evm.model.7__7_CONTIGS_17117682.2650	Ap7	8559887-8560979	175	19.83	7.02	细胞核与细胞质
ApCEN2	evm.model.10__7_CONTIGS_16195798.1995	Ap14	8584783-8585893	175	19.83	7.02	细胞核与细胞质
ApFT1	evm.model.11__11_CONTIGS_16209776.2341	Ap10	10023935-10026225	175	19.72	7.76	细胞核与细胞质
ApFT2	evm.model.3__5_CONTIGS_18323972.2179	Ap15	6874127-6876615	175	19.71	7.75	细胞核与细胞质
ApMFT	evm.model.1__5_CONTIGS_22361435.1653	Ap2	6368463-6370804	173	19.12	7.93	细胞核与细胞质
ApTFL1-1	evm.model.4__12_CONTIGS_18100624.1250	Ap4	8915426-8916419	177	20.16	9.59	细胞核与细胞质
ApTFL1-2	evm.model.6__5_CONTIGS_17268225.3213	Ap5	16188501-16189686	178	20.25	9.59	细胞核与细胞质
ApTSF1	evm.model.0__8_CONTIGS_29314649.4152	Ap6	9022426-9024468	175	19.67	7.75	细胞核与细胞质
ApTSF2	evm.model.0__8_CONTIGS_29314649.839	Ap12	3822734-3824876	177	19.94	8.52	细胞核与细胞质

motif	长度(aa)	氨基酸保守序列
1	39	JVTDIPGTTDASFGKEIVCYETPRPPIGIHRFVFVLFRQ
2	36	APGWRDQFNTREFAEEYBLGLPVAAVFFNCQRETAA
3	27	RSFFTLVMVDPDVPSPSBPYLREYLHW
4	26	KZVTNGHELRPSQVLNKPRVEIGGGD
5	26	DPLIVGRVIGDVLDPFTPSVTMRVTY
6	10	IEIRDGLRVI

小鼠耳芥PEBP基因家族全基因组鉴定及表达分析

Genome-wide identification and expression analysis of the PEBP genes in Arabidopsis pumila

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[1]	朱前彬, 甘志承, 李晓翠, 张英杰, 赵合明, 黄先忠. 小鼠耳芥MAPKKK基因家族全基因组鉴定及进化与表达[J]. 遗传, 2022, 44(11): 1044-1055.
[2]	李泽琴,李锦涛,邴杰,张根发. 拟南芥APX家族基因在植物生长发育与非生物逆境胁迫响应中的作用分析[J]. 遗传, 2019, 41(6): 534-547.
[3]	徐妙云, 朱佳旭, 张敏, 王磊. 植物miR169/NF-YA调控模块研究进展[J]. 遗传, 2016, 38(8): 700-706.
[4]	朱丽萍，于壮，邹翠霞，李秋莉. 植物逆境相关启动子及功能[J]. 遗传, 2010, 32(3): 229-234.
[5]	许振华，谢传晓. 植物microRNA与逆境响应研究进展[J]. 遗传, 2010, 32(10): 1018-1030.
[6]	沈亚欧，林海建，张志明，高世斌，潘光堂. 植物逆境miRNA研究进展[J]. 遗传, 2009, 31(3): 227-235.
[7]	柳展基，邵凤霞，唐桂英，单雷，毕玉平. 一个新的玉米NAC类基因(ZmNAC1)的克隆与分析[J]. 遗传, 2009, 31(2): 199-205.
[8]	林海建，张志明，沈亚欧，高世斌，潘光堂. 基因芯片研究植物逆境基因表达新进展[J]. 遗传, 2009, 31(12): 1192-1204.
[9]	王平荣，邓晓建，高晓玲，陈静，万佳，姜华，徐正君. DREB转录因子研究进展[J]. 遗传, 2006, 28(3): 369-374.
[10]	阮松林，马华升，王世恒，忻雅，钱丽华，童建新，赵杭苹，王杰. 植物蛋白质组学研究进展Ⅱ.蛋白质组技术在植物生物学研究中的应用[J]. 遗传, 2006, 28(12): 1633-1633~1648.