马铃薯Shaker基因家族全基因组鉴定和分析
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摘要
钾素营养在植物的生长发育过程中具有重要作用。Shaker家族基因参与植物对低钾环境胁迫的响应过程,可帮助植物从土壤中吸收钾素。将拟南芥Shaker蛋白质序列作为源序列,在马铃薯数据库PGSC中搜索获得22个StShaker基因;通过多序列比对和保守结构域分析,最终从马铃薯基因组中鉴定出9个StShaker基因。通过分析其外显子/内含子结构、系统发育树、染色体分布、蛋白质序列等,发现StShaker基因能够分为5组,有4个保守的结构域,所有的StShaker基因在结构域I中都有一个核心的GYGD/E基序。低钾胁迫对大多数StShaker基因在转录水平上没有显著影响,StShaker可能是受转录后水平上的调控来影响马铃薯对钾离子的吸收。
Potassium nutrition plays an important role in plant growth and development. The Shaker family of genes is involved in plant response to low potassium stress, which helps plants absorb potassium from the soil. Using the Arabidopsis Shaker protein sequence as the source sequence, 22 StShaker genes are searched in the potato database PGSC. 9 StShaker genes are finally identified from the potato genome by multiple sequence alignment and conserved domain analysis. By analyzing its exon/intron structure, phylogenetic tree, chromosome distribution, protein sequence, etc., it is found that the StShaker genes can be divided into 5 groups, with 4 conserved domains. All StShaker genes have a core GYGD/E motif in domain I. Low potassium stress has no significant effect on the transcriptional level of most StShaker genes, and StShaker may be regulated by post-transcriptional levels to affect potassium uptake in potatoes.
Potassium nutrition plays an important role in plant growth and development. The Shaker family of genes is involved in plant response to low potassium stress, which helps plants absorb potassium from the soil. Using the Arabidopsis Shaker protein sequence as the source sequence, 22 StShaker genes are searched in the potato database PGSC. 9 StShaker genes are finally identified from the potato genome by multiple sequence alignment and conserved domain analysis. By analyzing its exon/intron structure, phylogenetic tree, chromosome distribution, protein sequence, etc., it is found that the StShaker genes can be divided into 5 groups, with 4 conserved domains. All StShaker genes have a core GYGD/E motif in domain I. Low potassium stress has no significant effect on the transcriptional level of most StShaker genes, and StShaker may be regulated by post-transcriptional levels to affect potassium uptake in potatoes.
引文
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[4] NIEVES-CORDONES M,GAILLARD I.Involvement of the S4-S5 Linker and the C-linker Domain Regions to Voltage-Gating in Plant Shaker Channels:Comparison With Animal HCN and Kv Channels[J].Plant Signaling & Behavior,2014,9(10).
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[6] KUMAR S,STECHER G,TAMURA K.MEGA7:Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets[J].Molecular Biology and Evolution,2016,33(7):1870-1874.
[7] LIU L L,REN H M,CHEN L Q,et al.A Protein Kinase,Calcineurin B-Like Protein-Iinteracting Protein Kinase9,Interacts with Calcium Sensor Calcineurin B-Like Protein3 and Regulates Potassium Homeostasis Under Low-Potassium Stress in Arabidopsis[J].Plant Physiol,2013,161(1):266-277.
[8] ROUX B.What Can be Deduced About the Structure of Shaker From Available Data?[J].Novartis Foundation Symposium,2002,245(2):84-108.
[9] GAMBALE F,UOZUMI N.Properties of Shaker-type Potassium Channels in Higher Plants[J].The Journal of Membrane Biology,2006,210(1):1-19.
[10] FUCHS I,STOLZLE S,IVASHIKINA N,et al.Rice K+ Uptake Channel OsAKT1 is Sensitive to Salt Stress[J].Planta,2005,221(2):212-221.
[11] GIERTH M,M?SER P,SCHROEDER J I.The Potassium Transporter AtHAK5 Functions in K+ Deprivation-Induced High-Affinity K+ Uptake and AKT1 K+ Channel Contribution to K+ Uptake Kinetics in Arabidopsis Roots[J].Plant Physiology,2005,137(3):1105-1114.
[12] SU H,GOLLDACK D,KATSUHARA M,et al.Expression and Stress-dependent Induction of Potassium Channel Transcripts in the Common Ice Plant[J].Plant Physiol,2001,125(2):604-614.
[2] MARTINEZ-CORDERO M A,MARTINEZ V,RUBIO F.High-Affinity K+ Uptake in Pepper Plants[J].Journal of Experimental Botany,2005,56(416):1553-1562.
[3] HEDRICH R.Ion Channels in Plants[J].Physiological Reviews,2012,92(4):1777-1811.
[4] NIEVES-CORDONES M,GAILLARD I.Involvement of the S4-S5 Linker and the C-linker Domain Regions to Voltage-Gating in Plant Shaker Channels:Comparison With Animal HCN and Kv Channels[J].Plant Signaling & Behavior,2014,9(10).
[5] THOMPSON J D,GIBSON T J,PLEWNIAK F,et al.The CLUSTALX Windows Interface Flexible Strategies for Multiple Sequence Alignment Aided by Quality Analysis Tools[J].Nucleic Acids Res,1997,25(24):4876-4882.
[6] KUMAR S,STECHER G,TAMURA K.MEGA7:Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets[J].Molecular Biology and Evolution,2016,33(7):1870-1874.
[7] LIU L L,REN H M,CHEN L Q,et al.A Protein Kinase,Calcineurin B-Like Protein-Iinteracting Protein Kinase9,Interacts with Calcium Sensor Calcineurin B-Like Protein3 and Regulates Potassium Homeostasis Under Low-Potassium Stress in Arabidopsis[J].Plant Physiol,2013,161(1):266-277.
[8] ROUX B.What Can be Deduced About the Structure of Shaker From Available Data?[J].Novartis Foundation Symposium,2002,245(2):84-108.
[9] GAMBALE F,UOZUMI N.Properties of Shaker-type Potassium Channels in Higher Plants[J].The Journal of Membrane Biology,2006,210(1):1-19.
[10] FUCHS I,STOLZLE S,IVASHIKINA N,et al.Rice K+ Uptake Channel OsAKT1 is Sensitive to Salt Stress[J].Planta,2005,221(2):212-221.
[11] GIERTH M,M?SER P,SCHROEDER J I.The Potassium Transporter AtHAK5 Functions in K+ Deprivation-Induced High-Affinity K+ Uptake and AKT1 K+ Channel Contribution to K+ Uptake Kinetics in Arabidopsis Roots[J].Plant Physiology,2005,137(3):1105-1114.
[12] SU H,GOLLDACK D,KATSUHARA M,et al.Expression and Stress-dependent Induction of Potassium Channel Transcripts in the Common Ice Plant[J].Plant Physiol,2001,125(2):604-614.