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

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

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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)

Abstract

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

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.

Figures/Tables 13

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Supplementary Table 1

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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

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

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