Identification of the ABC Gene Family and Expression Pattern Analysis During Flower Development in Cymbidium ensifolium

doi:10.13560/j.cnki.biotech.bull.1985.2022-0321

Abstract

Abstract:

ATP-binding cassette（ABC）transporters are membrane transporter proteins that participate in the transportation of a huge range of substrates. Plant ABC genes function in many important biological processes of growth and development and abiotic stress resistance. We used bioinformatics methods to perform genome-wide identification of ABC gene family in Cymbidium ensifolium and analyze their expression patterns during flowering development based transcriptome data and RT-qPCR. In total，there were 121 ABC genes classified into 8 subfamilies in C. ensifolium genome. All ABC proteins had at least one conserved nucleotide binding domain（NBD）. The 121 ABC genes were unevenly distributed on 19 chromosomes，and the most ABC genes located on chromosome 2 and 8. Tandem duplication was found to be the main reason for the expansion of the ABC genes. Cis-acting element prediction revealed that the promoter sequences of ABC genes contained phytohormone and abiotic stress responsive elements. The expressions of CeABCB6，CeABCB30，CeABCG3，CeABCG54 and CeABCI7 were positively correlated with the volatilization of the key aromatic components in different flowering stages of the C. ensifolium. This study lays a foundation for further understanding the function of ABC genes and provides genetic resources for the study of C. ensifolium floral fragrance.

Key words: ABC transporters, Cymbidium ensifolium, genome-wide identification, gene expression pattern, flower development, floral fragrance

CAO Ying-hui, HU Mei-juan, TONG Yan, ZHANG Yan-ping, ZHAO Kai, PENG Dong-hui, ZHOU Yu-zhen. Identification of the ABC Gene Family and Expression Pattern Analysis During Flower Development in Cymbidium ensifolium[J]. Biotechnology Bulletin, 2022, 38(11): 162-174.

Figures/Tables 12

References 32

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基因名称Gene name	上游引物Forward primer（5'-3'）	下游引物 Reverse primer（5'-3'）
CeABCB6	GGAGCTACCCTTGTTCGAGA	TGGACTCTGAGCCTTGTGAG
CeABCB30	AGGCCCTTCGTAACCTTTCA	CAAACTTACGCACGACCACA
CeABCG3	AGGGAAAGAGCAGCAGGAAT	TGGCAGCTGTCCATTCAAAC
CeABCG54	ATCAAGCACACAAGGCCAAC	AAGGTGAGGGAAAGTGGCAT
CeABCI7	TGGGGAAGGATATCAGCGAC	CCATGTGCTTGCCTCCAAAT
TUB	GCAGTTTACGGCGATGTTCA	ACTCTTCCTCGTCAGCTGTG

基因名称Gene name	上游引物Forward primer（5'-3'）	下游引物 Reverse primer（5'-3'）
CeABCB6	GGAGCTACCCTTGTTCGAGA	TGGACTCTGAGCCTTGTGAG
CeABCB30	AGGCCCTTCGTAACCTTTCA	CAAACTTACGCACGACCACA
CeABCG3	AGGGAAAGAGCAGCAGGAAT	TGGCAGCTGTCCATTCAAAC
CeABCG54	ATCAAGCACACAAGGCCAAC	AAGGTGAGGGAAAGTGGCAT
CeABCI7	TGGGGAAGGATATCAGCGAC	CCATGTGCTTGCCTCCAAAT
TUB	GCAGTTTACGGCGATGTTCA	ACTCTTCCTCGTCAGCTGTG

基因名称Gene name	基因名称Gene name	复制类型Duplication type	非同义替换率Ka	同义替换率Ks	非同义替换率/同义替换率Ka/Ks
CeABCG31	CeABCG29	片段复制	0.148 156 999	0.608 282 47	0.243 566 117
CeABCG19	CeABCG25	片段复制	0.368 169 066	NaN	NaN
CeABCB18	CeABCB16	片段复制	0.069 986 027	0.674 387 106	0.103 777 231
CeABCG10	CeABCG46	串联复制	0.017 153 167	0.023 289 543	0.736 517 994
CeABCG5	CeABCG8	串联复制	0.108 286 131	0.156 200 883	0.693 249 159
CeABCG8	CeABCG50	串联复制	0.016 788 187	0.022 178 207	0.756 967 701
CeABCG47	CeABCG1	串联复制	0.207 255 225	2.066 524 894	0.100 291 666
CeABCC4	CeABCC3	串联复制	0.212 818 781	1.459 333 628	0.145 832 849
CeABCG18	CeABCG21	串联复制	0.006 383 502	0.021 424 752	0.297 949 888
CeABCI2	CeABCI3	串联复制	0.005 878 541	NaN	NaN
CeABCC1	CeABCC5	串联复制	0.291 628 981	NaN	NaN
CeABCB12	CeABCB21	串联复制	0.024 644 867	0.050 781 874	0.485 308 334
CeABCB17	CeABCB16	串联复制	0.644 437 783	NaN	NaN
CeABCB10	CeABCB31	串联复制	0.039 511 484	0.03 561 5	1.109 405 7
CeABCG30	CeABCG39	串联复制	0.106 510 279	0.544 293 256	0.195 685 466
CeABCG24	CeABCG27	串联复制	0.040 625 407	0.058 053 477	0.699 792 83
CeABCG32	CeABCG44	串联复制	0.064 248 894	0.099 652 01	0.644 732 544

基因名称Gene name	基因名称Gene name	复制类型Duplication type	非同义替换率Ka	同义替换率Ks	非同义替换率/同义替换率Ka/Ks
CeABCG31	CeABCG29	片段复制	0.148 156 999	0.608 282 47	0.243 566 117
CeABCG19	CeABCG25	片段复制	0.368 169 066	NaN	NaN
CeABCB18	CeABCB16	片段复制	0.069 986 027	0.674 387 106	0.103 777 231
CeABCG10	CeABCG46	串联复制	0.017 153 167	0.023 289 543	0.736 517 994
CeABCG5	CeABCG8	串联复制	0.108 286 131	0.156 200 883	0.693 249 159
CeABCG8	CeABCG50	串联复制	0.016 788 187	0.022 178 207	0.756 967 701
CeABCG47	CeABCG1	串联复制	0.207 255 225	2.066 524 894	0.100 291 666
CeABCC4	CeABCC3	串联复制	0.212 818 781	1.459 333 628	0.145 832 849
CeABCG18	CeABCG21	串联复制	0.006 383 502	0.021 424 752	0.297 949 888
CeABCI2	CeABCI3	串联复制	0.005 878 541	NaN	NaN
CeABCC1	CeABCC5	串联复制	0.291 628 981	NaN	NaN
CeABCB12	CeABCB21	串联复制	0.024 644 867	0.050 781 874	0.485 308 334
CeABCB17	CeABCB16	串联复制	0.644 437 783	NaN	NaN
CeABCB10	CeABCB31	串联复制	0.039 511 484	0.03 561 5	1.109 405 7
CeABCG30	CeABCG39	串联复制	0.106 510 279	0.544 293 256	0.195 685 466
CeABCG24	CeABCG27	串联复制	0.040 625 407	0.058 053 477	0.699 792 83
CeABCG32	CeABCG44	串联复制	0.064 248 894	0.099 652 01	0.644 732 544