Acta Agriculturae Zhejiangensis ›› 2024, Vol. 36 ›› Issue (4): 790-799.DOI: 10.3969/j.issn.1004-1524.20230502
• Horticultural Science • Previous Articles Next Articles
LI Yaping1(), JIN Fulai2, HUANG Zonggui3, ZHANG Tao4, DUAN Xiaojing1, JIANG Wu1, TAO Zhengming1,*(
), CHEN Jiadong1
Received:
2023-04-18
Online:
2024-04-25
Published:
2024-04-29
Contact:
TAO Zhengming
CLC Number:
LI Yaping, JIN Fulai, HUANG Zonggui, ZHANG Tao, DUAN Xiaojing, JIANG Wu, TAO Zhengming, CHEN Jiadong. Identification and expression pattern analysis of glycoside hydrolase GH3 gene family in Dendrobium officinale[J]. Acta Agriculturae Zhejiangensis, 2024, 36(4): 790-799.
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URL: http://www.zjnyxb.cn/EN/10.3969/j.issn.1004-1524.20230502
蛋白ID Protein ID | 基因ID Gene ID | 染色体 Chromosome | 基因长度 Length/bp | CDS序列号 CDS ID |
---|---|---|---|---|
XP_028554809.1 | LOC110095762 | NW_021319658.1 | 4 029 | XM_028698976.1 |
XP_028554802.1 | LOC110095760 | NW_021319658.1 | 13 801 | XM_028698969.1 |
XP_028549622.1 | LOC114578346 | NW_021318505.1 | 3 024 | XM_028693789.1 |
XP_028549465.1 | LOC110107249 | NW_021318505.1 | 2 586 | XM_028693632.1 |
XP_028549390.1 | LOC110107248 | NW_021318505.1 | 4 203 | XM_028693557.1 |
XP_020705298.1 | LOC110116159 | NW_021420086.1 | 6 817 | XM_020849639.2 |
XP_020697503.1 | LOC110110392 | NW_021319315.1 | 4 737 | XM_020841844.2 |
XP_020693131.1 | LOC110107269 | NW_021318505.1 | 5 362 | XM_020837472.2 |
XP_020689109.1 | LOC110104374 | NW_021319682.1 | 4 260 | XM_020833450.2 |
XP_020684254.1 | LOC110100884 | NW_021319733.1 | 5 838 | XM_020828595.2 |
XP_020683228.1 | LOC110100144 | NW_021319820.1 | 43 378 | XM_020827569.2 |
XP_020677781.1 | LOC110096263 | NW_021528311.1 | 2 964 | XM_020822122.1 |
XP_020677766.1 | LOC110096253 | NW_021528311.1 | 5 580 | XM_020822107.2 |
XP_020677074.1 | LOC110095760 | NW_021319658.1 | 13 801 | XM_020821415.2 |
Table 1 Screening results and related information of GH3 gene family proteins
蛋白ID Protein ID | 基因ID Gene ID | 染色体 Chromosome | 基因长度 Length/bp | CDS序列号 CDS ID |
---|---|---|---|---|
XP_028554809.1 | LOC110095762 | NW_021319658.1 | 4 029 | XM_028698976.1 |
XP_028554802.1 | LOC110095760 | NW_021319658.1 | 13 801 | XM_028698969.1 |
XP_028549622.1 | LOC114578346 | NW_021318505.1 | 3 024 | XM_028693789.1 |
XP_028549465.1 | LOC110107249 | NW_021318505.1 | 2 586 | XM_028693632.1 |
XP_028549390.1 | LOC110107248 | NW_021318505.1 | 4 203 | XM_028693557.1 |
XP_020705298.1 | LOC110116159 | NW_021420086.1 | 6 817 | XM_020849639.2 |
XP_020697503.1 | LOC110110392 | NW_021319315.1 | 4 737 | XM_020841844.2 |
XP_020693131.1 | LOC110107269 | NW_021318505.1 | 5 362 | XM_020837472.2 |
XP_020689109.1 | LOC110104374 | NW_021319682.1 | 4 260 | XM_020833450.2 |
XP_020684254.1 | LOC110100884 | NW_021319733.1 | 5 838 | XM_020828595.2 |
XP_020683228.1 | LOC110100144 | NW_021319820.1 | 43 378 | XM_020827569.2 |
XP_020677781.1 | LOC110096263 | NW_021528311.1 | 2 964 | XM_020822122.1 |
XP_020677766.1 | LOC110096253 | NW_021528311.1 | 5 580 | XM_020822107.2 |
XP_020677074.1 | LOC110095760 | NW_021319658.1 | 13 801 | XM_020821415.2 |
蛋白ID Protein ID | 氨基酸长度 Amino acid/aa | 分子量 Molecular weight/u | 等电点 Isoelectric point | 不稳定指数 Instability index | 脂肪指数 Aliphatic index | 总平均疏 水指数 GRAVY | 亚细胞定位 Location |
---|---|---|---|---|---|---|---|
XP_028554809.1 | 624 | 68 931.43 | 7.56 | 32.67 | 94.34 | -0.092 | 质体/细胞质Plastid/cytoplasm |
XP_028554802.1 | 569 | 62 043.3 | 6.15 | 24.64 | 92.92 | -0.009 | 质体Plastid |
XP_028549622.1 | 434 | 48 049.32 | 7.14 | 28.64 | 91.84 | -0.04 | 叶绿体Chloroplast |
XP_028549465.1 | 182 | 19 743.06 | 9.46 | 30.44 | 100.77 | 0.207 | 线粒体Mitochondrion |
XP_028549390.1 | 626 | 68 173.11 | 6.47 | 27.63 | 92.67 | -0.049 | 细胞外/质体Extracellular/plastid |
XP_020705298.1 | 629 | 69 196.69 | 6.64 | 32.68 | 94.07 | -0.01 | 质体Plastid |
XP_020697503.1 | 617 | 67 640.07 | 6.67 | 33.83 | 87.59 | -0.135 | 细胞外Extracellular |
XP_020693131.1 | 631 | 69 537.96 | 6.55 | 30.51 | 91.28 | -0.041 | 细胞质Cytoplasm |
XP_020689109.1 | 795 | 86 669.85 | 6.25 | 41.01 | 86.65 | -0.106 | 叶绿体Chloroplast |
XP_020684254.1 | 788 | 85 006.68 | 8.26 | 34.65 | 87.77 | -0.099 | 细胞外Extracellular |
XP_020683228.1 | 614 | 67 201.81 | 5.72 | 32.41 | 92.1 | -0.05 | 细胞质Cytoplasm |
XP_020677781.1 | 624 | 67 993.29 | 5.83 | 24.91 | 86.23 | -0.192 | 细胞外Extracellular |
XP_020677766.1 | 766 | 82 994.27 | 6.29 | 28.41 | 83.73 | -0.121 | 细胞外Extracellular |
XP_020677074.1 | 655 | 71 534.72 | 8.23 | 24.08 | 93.08 | -0.024 | 线粒体/叶绿体 |
Mitochondrion/chloroplast |
Table 2 Physicochemical properties and subcellular localization of GH3 gene family
蛋白ID Protein ID | 氨基酸长度 Amino acid/aa | 分子量 Molecular weight/u | 等电点 Isoelectric point | 不稳定指数 Instability index | 脂肪指数 Aliphatic index | 总平均疏 水指数 GRAVY | 亚细胞定位 Location |
---|---|---|---|---|---|---|---|
XP_028554809.1 | 624 | 68 931.43 | 7.56 | 32.67 | 94.34 | -0.092 | 质体/细胞质Plastid/cytoplasm |
XP_028554802.1 | 569 | 62 043.3 | 6.15 | 24.64 | 92.92 | -0.009 | 质体Plastid |
XP_028549622.1 | 434 | 48 049.32 | 7.14 | 28.64 | 91.84 | -0.04 | 叶绿体Chloroplast |
XP_028549465.1 | 182 | 19 743.06 | 9.46 | 30.44 | 100.77 | 0.207 | 线粒体Mitochondrion |
XP_028549390.1 | 626 | 68 173.11 | 6.47 | 27.63 | 92.67 | -0.049 | 细胞外/质体Extracellular/plastid |
XP_020705298.1 | 629 | 69 196.69 | 6.64 | 32.68 | 94.07 | -0.01 | 质体Plastid |
XP_020697503.1 | 617 | 67 640.07 | 6.67 | 33.83 | 87.59 | -0.135 | 细胞外Extracellular |
XP_020693131.1 | 631 | 69 537.96 | 6.55 | 30.51 | 91.28 | -0.041 | 细胞质Cytoplasm |
XP_020689109.1 | 795 | 86 669.85 | 6.25 | 41.01 | 86.65 | -0.106 | 叶绿体Chloroplast |
XP_020684254.1 | 788 | 85 006.68 | 8.26 | 34.65 | 87.77 | -0.099 | 细胞外Extracellular |
XP_020683228.1 | 614 | 67 201.81 | 5.72 | 32.41 | 92.1 | -0.05 | 细胞质Cytoplasm |
XP_020677781.1 | 624 | 67 993.29 | 5.83 | 24.91 | 86.23 | -0.192 | 细胞外Extracellular |
XP_020677766.1 | 766 | 82 994.27 | 6.29 | 28.41 | 83.73 | -0.121 | 细胞外Extracellular |
XP_020677074.1 | 655 | 71 534.72 | 8.23 | 24.08 | 93.08 | -0.024 | 线粒体/叶绿体 |
Mitochondrion/chloroplast |
蛋白ID Protein ID | 跨膜区 Transmembrane helices | α-螺旋 Alpha-helix (Hh)/% | 延伸链 Extended strand (Ee)/% | β-转角 Beta turn (Tt)/% | 无规卷曲 Random coil (Cc)/% |
---|---|---|---|---|---|
XP_028554809.1 | 否No | 35.74 | 15.71 | 5.77 | 42.79 |
XP_028554802.1 | 否No | 35.15 | 16.17 | 6.15 | 42.53 |
XP_028549622.1 | 否No | 32.26 | 14.75 | 6.91 | 46.08 |
XP_028549465.1 | 是Yes | 46.70 | 12.64 | 4.40 | 36.26 |
XP_028549390.1 | 是Yes | 36.58 | 15.34 | 5.75 | 42.33 |
XP_020705298.1 | 否No | 36.25 | 15.90 | 5.72 | 42.13 |
XP_020697503.1 | 是Yes | 33.39 | 15.72 | 6.16 | 44.73 |
XP_020693131.1 | 是Yes | 36.13 | 15.37 | 5.71 | 42.79 |
XP_020689109.1 | 是Yes | 27.55 | 20.25 | 5.66 | 46.54 |
XP_020684254.1 | 是Yes | 28.43 | 21.57 | 6.22 | 43.78 |
XP_020683228.1 | 否No | 35.83 | 14.98 | 5.37 | 43.81 |
XP_020677781.1 | 否No | 25.00 | 23.40 | 8.17 | 43.43 |
XP_020677766.1 | 否No | 27.68 | 21.54 | 7.05 | 43.73 |
XP_020677074.1 | 否No | 35.57 | 15.57 | 5.95 | 42.90 |
Table 3 Secondary structure prediction and transmembrane structure prediction of GH3 gene family
蛋白ID Protein ID | 跨膜区 Transmembrane helices | α-螺旋 Alpha-helix (Hh)/% | 延伸链 Extended strand (Ee)/% | β-转角 Beta turn (Tt)/% | 无规卷曲 Random coil (Cc)/% |
---|---|---|---|---|---|
XP_028554809.1 | 否No | 35.74 | 15.71 | 5.77 | 42.79 |
XP_028554802.1 | 否No | 35.15 | 16.17 | 6.15 | 42.53 |
XP_028549622.1 | 否No | 32.26 | 14.75 | 6.91 | 46.08 |
XP_028549465.1 | 是Yes | 46.70 | 12.64 | 4.40 | 36.26 |
XP_028549390.1 | 是Yes | 36.58 | 15.34 | 5.75 | 42.33 |
XP_020705298.1 | 否No | 36.25 | 15.90 | 5.72 | 42.13 |
XP_020697503.1 | 是Yes | 33.39 | 15.72 | 6.16 | 44.73 |
XP_020693131.1 | 是Yes | 36.13 | 15.37 | 5.71 | 42.79 |
XP_020689109.1 | 是Yes | 27.55 | 20.25 | 5.66 | 46.54 |
XP_020684254.1 | 是Yes | 28.43 | 21.57 | 6.22 | 43.78 |
XP_020683228.1 | 否No | 35.83 | 14.98 | 5.37 | 43.81 |
XP_020677781.1 | 否No | 25.00 | 23.40 | 8.17 | 43.43 |
XP_020677766.1 | 否No | 27.68 | 21.54 | 7.05 | 43.73 |
XP_020677074.1 | 否No | 35.57 | 15.57 | 5.95 | 42.90 |
Fig.7 Expression levels of GH3 gene in the roots and leaves of D. officinale under different phosphorus levels +PL, Stems and leaves normally supplied with phosphorus; - PL, Stems and leaves cultured under phosphorus deficiency; + PR, Roots normally supplied with phosphorus; - PR, Roots cultured under phosphorus deficiency.
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