Genome-Wide Identification and Characterization of Calcium Metabolism Related Gene Families in Arabidopsis thaliana and Their Regulation by Bacillus amyloliquefaciens Under High Calcium Stress.
Genome-Wide Identification and Characterization of Calcium Metabolism Related Gene Families in Arabidopsis thaliana and Their Regulation by Bacillus amyloliquefaciens Under High Calcium Stress.
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拟南芥钙代谢相关基因家族的全基因组鉴定和表征及其在高钙胁迫下解淀粉芽孢杆菌的调控
DOI：
10.3389/fpls.2021.707496
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发表时间：
2021
影响因子：
5.6
通讯作者：
Li F
中科院分区：
文献类型：
--
作者：
Gong J;Shi T;Li Y;Wang H;Li F
在植物中已经发现了几个与钙信号转导有关的基因家族，包括钙调素（CaM）、钙依赖性蛋白激酶（CDPK）、钙调神经磷酸酶B样（CBL）和环核苷酸门控通道（CNGC）。在前期的研究中，我们发现解淀粉芽孢杆菌LZ 0 4（B. amyloliquefaciens LZ 04）调节拟南芥（Arabidopsis thaliana）中涉及钙胁迫的基因（A. thaliana）。在此，我们的目的是探讨钙相关基因家族在A.拟南芥对钙胁迫的反应以及B的潜在调控作用。解淀粉酶LZ 04对这些基因的影响。对102个钙相关基因家族的结构、重复、共线性和表达谱进行了研究。thaliana进行了调查。应用隐马尔可夫模型（HiddenMarkovModels，HRM）和BLASTP预测候选基因，并在SMART和NCBICDD数据库中确定候选基因的保守结构域。通过BLASTP和系统发育分析发现了基因重复和共线性。通过链特异性测序研究候选基因的转录组表达谱。利用聚类分析方法分析不同处理条件下钙相关基因家族的表达谱。结果表明，在中国对虾中共检测到102个钙相关基因家族。拟南芥基因组中CDPK基因34个，CNGC基因20个，CIPK基因18个，IQD基因22个，CBP基因10个。在102个基因中，共检测到33个重复（32.35%）和26对基因，其中48个基因（47.06%）。用B治疗。解淀粉菌LZ 04提高了A.通过调控钙相关基因家族中的某些基因来调控拟南芥对高钙胁迫的反应。功能富集分析显示，这些基因聚在第42个表达谱中，可能为B。钙胁迫下解淀粉酶反应基因在蛋白磷酸化和蛋白修饰过程中富集。通过RT-PCR验证转录组数据，结果通常证实了转录组测序结果。这些结果对高钙胁迫地区的农业改良具有一定的指导意义。
Several gene families involved in calcium signaling have been detected in plants, including calmodulin (CaM), calcium dependent protein kinases (CDPK), calcineurin B-like (CBL) and cyclic nucleotide-gated channels (CNGCs). In our previous study, we demonstrated that Bacillus amyloliquefaciens LZ04 (B. amyloliquefaciens LZ04) regulate genes involved in calcium stress in Arabidopsis thaliana (A. thaliana). Here, we aimed to explore the potential involvement of calcium-related gene families in the response of A. thaliana to calcium stress and the potential regulatory effects of B. amyloliquefaciens LZ04 on these genes. The structure, duplication, synteny, and expression profiles of 102 genes in calcium-related gene families in A. thaliana were investigated. Hidden Markov Models (HMMs) and BLASTP were used to predict candidate genes and conserved domains of the candidate genes were confirmed in SMART and NCBI CDD databases. Gene duplications and synteny were uncovered by BLASTP and phylogenetic analysis. The transcriptome expression profiles of candidate genes were investigated by strand-specific sequencing. Cluster analysis was used to find the expression profiles of calcium-related genes families under different treatment conditions. A total of 102 genes in calcium-related gene families were detected in A. thaliana genome, including 34 CDPK genes, 20 CNGC genes, 18 CIPK genes, 22 IQD genes, and 10 CBP genes. Additionally, of the 102 genes, 33 duplications (32.35%) and 26 gene pairs including 48 genes (47.06%) were detected. Treatment with B. amyloliquefaciens LZ04 enhanced the resistance of A. thaliana under high calcium stress by regulating some of the genes in the calcium-related gene families. Functional enrichment analysis revealed that the genes clustered in the 42nd expression profile which may be B. amyloliquefaciens-responsive genes under calcium stress were enriched in protein phosphorylation and protein modification process. Transcriptome data was validated by RT-PCR and the results generally corroborated the transcriptome sequencing results. These results may be useful for agricultural improvement in high calcium stress regions.
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影响因子：
7.2
作者：
D'Angelo, Cecilia;Weinl, Stefan;Kudla, Joerg
通讯作者：
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影响因子：
2.6
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影响因子：
5.6
作者：
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影响因子：
10.7
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