Identification of the CNGC Gene Family in Rice and Mining of Alleles for Application in Rice Improvement
Cyclic nucleotide-gated ion channel (CNGC) gene regulation plays important roles in plant immune and abiotic stress response. Here, we identified 16 CNGC genes in rice (Oryza sativa). Then, we analyzed their chromosomal location, physicochemical properties, subcellular localization, gene functional...
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MDPI AG
2023-12-01
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| Series: | Plants |
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| Online Access: | https://www.mdpi.com/2223-7747/12/24/4089 |
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| author | Xinchen Wang Fengcai Wu Jinguo Zhang Yaling Bao Nansheng Wang Guohui Dou Dezhuang Meng Xingmeng Wang Jianfeng Li Yingyao Shi |
| author_facet | Xinchen Wang Fengcai Wu Jinguo Zhang Yaling Bao Nansheng Wang Guohui Dou Dezhuang Meng Xingmeng Wang Jianfeng Li Yingyao Shi |
| author_sort | Xinchen Wang |
| collection | DOAJ |
| description | Cyclic nucleotide-gated ion channel (CNGC) gene regulation plays important roles in plant immune and abiotic stress response. Here, we identified 16 CNGC genes in rice (Oryza sativa). Then, we analyzed their chromosomal location, physicochemical properties, subcellular localization, gene functional interaction network, cis-acting elements, phylogenetic relationships, collinearity, expression in tissues under normal conditions and abiotic stresses, and geng-cds-haplotype (gcHap) diversity in 3010 gcHaps. As a result, <i>OsCNGC3</i> (<i>Os06g0527300</i>) was identified as a gene different from previous report, and <i>OsCNGC</i> genes were found to play important roles in rice population differentiation and rice improvement. Our results revealed their very strong differentiation between subspecies and populations, important roles in response to abiotic stresses, as well as strong genetic bottleneck effects and artificial selection of gcHap diversity in the modern breeding process of Xian (indica) and Geng (japonica) populations. The results also suggested that natural variations in most rice CNGC loci are potentially valuable for improving rice productivity and tolerance to abiotic stresses. The favorable alleles at the CNGC loci should be explored to facilitate their application in future rice improvement. |
| first_indexed | 2024-03-08T18:35:22Z |
| format | Article |
| id | doaj.art-f8db201c97f34f268177101eb2b916f1 |
| institution | Directory Open Access Journal |
| issn | 2223-7747 |
| language | English |
| last_indexed | 2024-03-08T18:35:22Z |
| publishDate | 2023-12-01 |
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| series | Plants |
| spelling | doaj.art-f8db201c97f34f268177101eb2b916f12023-12-29T15:47:19ZengMDPI AGPlants2223-77472023-12-011224408910.3390/plants12244089Identification of the CNGC Gene Family in Rice and Mining of Alleles for Application in Rice ImprovementXinchen Wang0Fengcai Wu1Jinguo Zhang2Yaling Bao3Nansheng Wang4Guohui Dou5Dezhuang Meng6Xingmeng Wang7Jianfeng Li8Yingyao Shi9College of Agronomy, Anhui Agricultural University, Hefei 230036, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230036, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230036, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230036, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230036, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230036, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230036, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230036, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230036, ChinaCollege of Agronomy, Anhui Agricultural University, Hefei 230036, ChinaCyclic nucleotide-gated ion channel (CNGC) gene regulation plays important roles in plant immune and abiotic stress response. Here, we identified 16 CNGC genes in rice (Oryza sativa). Then, we analyzed their chromosomal location, physicochemical properties, subcellular localization, gene functional interaction network, cis-acting elements, phylogenetic relationships, collinearity, expression in tissues under normal conditions and abiotic stresses, and geng-cds-haplotype (gcHap) diversity in 3010 gcHaps. As a result, <i>OsCNGC3</i> (<i>Os06g0527300</i>) was identified as a gene different from previous report, and <i>OsCNGC</i> genes were found to play important roles in rice population differentiation and rice improvement. Our results revealed their very strong differentiation between subspecies and populations, important roles in response to abiotic stresses, as well as strong genetic bottleneck effects and artificial selection of gcHap diversity in the modern breeding process of Xian (indica) and Geng (japonica) populations. The results also suggested that natural variations in most rice CNGC loci are potentially valuable for improving rice productivity and tolerance to abiotic stresses. The favorable alleles at the CNGC loci should be explored to facilitate their application in future rice improvement.https://www.mdpi.com/2223-7747/12/24/4089ricecyclic nucleotide-gated ion channel genegeng-cds-haplotype (gcHap) diversitymodification |
| spellingShingle | Xinchen Wang Fengcai Wu Jinguo Zhang Yaling Bao Nansheng Wang Guohui Dou Dezhuang Meng Xingmeng Wang Jianfeng Li Yingyao Shi Identification of the CNGC Gene Family in Rice and Mining of Alleles for Application in Rice Improvement Plants rice cyclic nucleotide-gated ion channel gene geng-cds-haplotype (gcHap) diversity modification |
| title | Identification of the CNGC Gene Family in Rice and Mining of Alleles for Application in Rice Improvement |
| title_full | Identification of the CNGC Gene Family in Rice and Mining of Alleles for Application in Rice Improvement |
| title_fullStr | Identification of the CNGC Gene Family in Rice and Mining of Alleles for Application in Rice Improvement |
| title_full_unstemmed | Identification of the CNGC Gene Family in Rice and Mining of Alleles for Application in Rice Improvement |
| title_short | Identification of the CNGC Gene Family in Rice and Mining of Alleles for Application in Rice Improvement |
| title_sort | identification of the cngc gene family in rice and mining of alleles for application in rice improvement |
| topic | rice cyclic nucleotide-gated ion channel gene geng-cds-haplotype (gcHap) diversity modification |
| url | https://www.mdpi.com/2223-7747/12/24/4089 |
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