Acta Horticulturae Sinica ›› 2022, Vol. 49 ›› Issue (2): 352-364.doi: 10.16420/j.issn.0513-353x.2020-1013
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ZHOU Zhiming, YANG Jiabao, ZHANG Cheng, ZENG Linglu, MENG Wanqiu, SUN Li()
Received:
2021-07-01
Revised:
2021-12-23
Online:
2022-02-25
Published:
2022-02-28
Contact:
SUN Li
E-mail:sunlishz@126.com
CLC Number:
ZHOU Zhiming, YANG Jiabao, ZHANG Cheng, ZENG Linglu, MENG Wanqiu, SUN Li. Genome-wide Identification and Expression Analyses of Long-chain Acyl-CoA Synthetases Under Abiotic Stresses in Helianthus annuus[J]. Acta Horticulturae Sinica, 2022, 49(2): 352-364.
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URL: https://www.ahs.ac.cn/EN/10.16420/j.issn.0513-353x.2020-1013
基因Gene | 正向引物(5′-3′)Forward primer | 反向引物(5′-3′)Reverse primer |
---|---|---|
18S rRNA | CTACCACATCCAAGGAAGGCAG | CGACAGAAGGGACGAGTAAACC |
HaLACS1-1 | GAGCTCGAAAACGGAACGTG | ATTGCAAGCCTCCATCGCTA |
HaLACS1-2 | TTGGACCATGCCGAAGTTGA | AAGGAACTCGTTCCACGCAT |
HaLACS2 | AGAAACAGACAAACCGGGCA | ACGCCTTCTTTACAGTGCCT |
HaLACS4-1 | GGTTATGAGCATGGAGGCGT | CCACGCCAAAATTTCCGACT |
HaLACS4-2 | GGTTATGAGCATGGAGGCGT | GGTTATGAGCATGGAGGCGT |
HaLACS4-3 | CCTCCGATTGACGGTTTGGA | CTCAACTCCACAAGCTCGGA |
HaLACS4-4 | CGGTGAAAGACGGAACTCCA | CGACGCCACATGAACGGATA |
HaLACS4-5 | GAAAACAATCGTGAGCTTTGGGA | AGTTCAACGATACTTTCGCGCT |
HaLACS6 | CACTGCCGGAGAGTTCTTCA | TGCTTCCCCGTAAGTTGTCC |
HaLACS7 | TCATCTTCTTCCCTCCACCGA | ATCTGGTGACAAGCTTCAGCG |
HaLACS8 | GCAGATGGATGTTGGGGGAT | CGCCAACTTCAACTGGAACG |
HaLACS9-1 | ACTCTCGCCCTTCGGAAATC | TTTCAAATGCCCTCCCGTCT |
HaLACS9-2 | ATTGCATTGCAGGCGTGTTT | TTTCCAACTGCTGCTTCCGT |
Table 1 Primers used for qRT-PCR
基因Gene | 正向引物(5′-3′)Forward primer | 反向引物(5′-3′)Reverse primer |
---|---|---|
18S rRNA | CTACCACATCCAAGGAAGGCAG | CGACAGAAGGGACGAGTAAACC |
HaLACS1-1 | GAGCTCGAAAACGGAACGTG | ATTGCAAGCCTCCATCGCTA |
HaLACS1-2 | TTGGACCATGCCGAAGTTGA | AAGGAACTCGTTCCACGCAT |
HaLACS2 | AGAAACAGACAAACCGGGCA | ACGCCTTCTTTACAGTGCCT |
HaLACS4-1 | GGTTATGAGCATGGAGGCGT | CCACGCCAAAATTTCCGACT |
HaLACS4-2 | GGTTATGAGCATGGAGGCGT | GGTTATGAGCATGGAGGCGT |
HaLACS4-3 | CCTCCGATTGACGGTTTGGA | CTCAACTCCACAAGCTCGGA |
HaLACS4-4 | CGGTGAAAGACGGAACTCCA | CGACGCCACATGAACGGATA |
HaLACS4-5 | GAAAACAATCGTGAGCTTTGGGA | AGTTCAACGATACTTTCGCGCT |
HaLACS6 | CACTGCCGGAGAGTTCTTCA | TGCTTCCCCGTAAGTTGTCC |
HaLACS7 | TCATCTTCTTCCCTCCACCGA | ATCTGGTGACAAGCTTCAGCG |
HaLACS8 | GCAGATGGATGTTGGGGGAT | CGCCAACTTCAACTGGAACG |
HaLACS9-1 | ACTCTCGCCCTTCGGAAATC | TTTCAAATGCCCTCCCGTCT |
HaLACS9-2 | ATTGCATTGCAGGCGTGTTT | TTTCCAACTGCTGCTTCCGT |
转录本ID Transcript ID | 基因名称 Gene name | CDS/bp | 大小/aa Size | 蛋白分子量/kD Molecular weight | 等电点 pI | 拟南芥同源基因 Arabidopsis homologous gene | |
---|---|---|---|---|---|---|---|
登录号Accession No. | 名称Name | ||||||
OTG27997 | HaLACS1-1 | 1 980 | 659 | 74.4 | 5.82 | AT2G47240 | AtLACS1 |
OTF93791 | HaLACS1-2 | 1 986 | 661 | 74.8 | 7.23 | AT2G47240 | AtLACS1 |
OTG12244 | HaLACS2 | 1 980 | 659 | 73.5 | 5.70 | AT1G49430 | AtLACS2 |
OTG32156 | HaLACS4-1 | 1 986 | 661 | 73.5 | 6.07 | AT4G23850 | AtLACS4 |
OTG33063 | HaLACS4-2 | 1 995 | 664 | 74.0 | 6.69 | AT4G23850 | AtLACS4 |
OTG20245 | HaLACS4-3 | 1 980 | 659 | 73.5 | 6.50 | AT4G23850 | AtLACS4 |
OTG02621 | HaLACS4-4 | 1 974 | 657 | 73.4 | 6.69 | AT4G23850 | AtLACS4 |
OTG02629 | HaLACS4-5 | 1 983 | 660 | 73.8 | 8.49 | AT4G23850 | AtLACS4 |
OTG11238 | HaLACS6 | 2 094 | 697 | 76.3 | 7.51 | AT3G05970 | AtLACS6 |
OTG31091 | HaLACS7 | 2 097 | 698 | 77.0 | 6.58 | AT5G27600 | AtLACS7 |
OTG29824 | HaLACS8 | 2 163 | 720 | 78.6 | 7.86 | AT2G04350 | AtLACS8 |
OTG15459 | HaLACS9-1 | 2 091 | 696 | 76.2 | 6.10 | AT1G77590 | AtLACS9 |
OTG07054 | HaLACS9-2 | 2 121 | 706 | 77.4 | 6.78 | AT1G77590 | AtLACS9 |
Table 2 Detailed information of LACS genes in sunflower genome
转录本ID Transcript ID | 基因名称 Gene name | CDS/bp | 大小/aa Size | 蛋白分子量/kD Molecular weight | 等电点 pI | 拟南芥同源基因 Arabidopsis homologous gene | |
---|---|---|---|---|---|---|---|
登录号Accession No. | 名称Name | ||||||
OTG27997 | HaLACS1-1 | 1 980 | 659 | 74.4 | 5.82 | AT2G47240 | AtLACS1 |
OTF93791 | HaLACS1-2 | 1 986 | 661 | 74.8 | 7.23 | AT2G47240 | AtLACS1 |
OTG12244 | HaLACS2 | 1 980 | 659 | 73.5 | 5.70 | AT1G49430 | AtLACS2 |
OTG32156 | HaLACS4-1 | 1 986 | 661 | 73.5 | 6.07 | AT4G23850 | AtLACS4 |
OTG33063 | HaLACS4-2 | 1 995 | 664 | 74.0 | 6.69 | AT4G23850 | AtLACS4 |
OTG20245 | HaLACS4-3 | 1 980 | 659 | 73.5 | 6.50 | AT4G23850 | AtLACS4 |
OTG02621 | HaLACS4-4 | 1 974 | 657 | 73.4 | 6.69 | AT4G23850 | AtLACS4 |
OTG02629 | HaLACS4-5 | 1 983 | 660 | 73.8 | 8.49 | AT4G23850 | AtLACS4 |
OTG11238 | HaLACS6 | 2 094 | 697 | 76.3 | 7.51 | AT3G05970 | AtLACS6 |
OTG31091 | HaLACS7 | 2 097 | 698 | 77.0 | 6.58 | AT5G27600 | AtLACS7 |
OTG29824 | HaLACS8 | 2 163 | 720 | 78.6 | 7.86 | AT2G04350 | AtLACS8 |
OTG15459 | HaLACS9-1 | 2 091 | 696 | 76.2 | 6.10 | AT1G77590 | AtLACS9 |
OTG07054 | HaLACS9-2 | 2 121 | 706 | 77.4 | 6.78 | AT1G77590 | AtLACS9 |
重复基因对 Duplicated gene pairs | 非同义替 换率Ka | 同义替换率 Ks | Ka/Ks | 重复类型 Duplicated type | 选择压力 Selective pressure | 分化时间/ Mya Divergence time |
---|---|---|---|---|---|---|
HaLACS9-1/HaLACS9-2 | 0.0540 | 0.5316 | 0.1016 | 片段重复Segmental | 纯化Purifying | 17.72 |
HaLACS4-1/HaLACS4-5 | 0.0739 | 0.6713 | 0.1101 | 片段重复Segmental | 纯化Purifying | 22.38 |
HaLACS4-1/HaLACS4-4 | 0.0905 | 0.6463 | 0.1400 | 片段重复Segmental | 纯化Purifying | 21.54 |
HaLACS4-1/HaLACS4-3 | 0.1003 | 1.0273 | 0.0976 | 片段重复Segmental | 纯化Purifying | 34.24 |
HaLACS4-4/HaLACS4-5 | 0.0600 | 0.3516 | 0.1706 | 串联重复Tandem | 纯化Purifying | 11.72 |
Table 3 Gene duplication events and divergence time of the LACS genes in Helianthus annuus
重复基因对 Duplicated gene pairs | 非同义替 换率Ka | 同义替换率 Ks | Ka/Ks | 重复类型 Duplicated type | 选择压力 Selective pressure | 分化时间/ Mya Divergence time |
---|---|---|---|---|---|---|
HaLACS9-1/HaLACS9-2 | 0.0540 | 0.5316 | 0.1016 | 片段重复Segmental | 纯化Purifying | 17.72 |
HaLACS4-1/HaLACS4-5 | 0.0739 | 0.6713 | 0.1101 | 片段重复Segmental | 纯化Purifying | 22.38 |
HaLACS4-1/HaLACS4-4 | 0.0905 | 0.6463 | 0.1400 | 片段重复Segmental | 纯化Purifying | 21.54 |
HaLACS4-1/HaLACS4-3 | 0.1003 | 1.0273 | 0.0976 | 片段重复Segmental | 纯化Purifying | 34.24 |
HaLACS4-4/HaLACS4-5 | 0.0600 | 0.3516 | 0.1706 | 串联重复Tandem | 纯化Purifying | 11.72 |
Fig. 2 Phylogenetic analysis of LACS gene family in sunflower and other species The green circles indicate monocotyledonous plants,the red circle indicates a dicot plant. Ec:Escherichia coli(prokaryote);Sc:Saccharomyces cerevisiae(fungi);Pt:Phaeodac tylumtricornutum(algae);Pp:Physcomitrella patens(moss);Sm:Selaginella moellendorffii(fern);Mp:Marchantia polymorpha(moss);At:Arabidopsis thaliana;Ha:Helianthus annuus;Ls:Lactuca sativa;Eg:Elaeis guineensis;Zm:Zea mays;Os:Oryza sativa;Hs:Homo sapiens;Mm:Mus musculus.
Fig. 4 Multiple sequence alignment of the HaLACS amino acid sequences with other proteins Ec:Escherichia coli;At:Arabidopsis thaliana;Sc:Selaginella moellendorffii;Ha:Helianthus annuus.
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