The Pitaya Flower Tissue’s Gene Differential Expression Analysis between Self-Incompatible and Self-Compatible Varieties for the Identification of Genes Involved in Self-Incompatibility Regulation
Self-incompatible pitaya varieties have low fruit-setting rates under natural conditions, leading to higher production costs and hindering industrial prosperity. Through transcriptome sequencing, we obtained the 36,900 longest transcripts (including 9167 new transcripts) from 60 samples of flowers....
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| Format: | Article |
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MDPI AG
2023-07-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/24/14/11406 |
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| author | Zhouwen Wang Meng Wang Yi Ding Tao Li Senrong Jiang Shaoling Kang Shuangshuang Wei Jun Xie Jiaquan Huang Wenbin Hu Hongli Li Hua Tang |
| author_facet | Zhouwen Wang Meng Wang Yi Ding Tao Li Senrong Jiang Shaoling Kang Shuangshuang Wei Jun Xie Jiaquan Huang Wenbin Hu Hongli Li Hua Tang |
| author_sort | Zhouwen Wang |
| collection | DOAJ |
| description | Self-incompatible pitaya varieties have low fruit-setting rates under natural conditions, leading to higher production costs and hindering industrial prosperity. Through transcriptome sequencing, we obtained the 36,900 longest transcripts (including 9167 new transcripts) from 60 samples of flowers. Samples were collected pre- and post-pollination (at 0 h, 0.5 h, 2 h, 4 h, and 12 h) from two varieties of pitaya (self-compatible Jindu No. 1 and self-incompatible Cu Sha). Using the RNA-Seq data and comparison of reference genomes, we annotated 28,817 genes in various databases, and 1740 genes were optimized in their structure for annotation. There were significant differences in the expression of differentially expressed genes (DEGs) in the pitaya stigmas under different pollination types, especially at the late post-pollination stage, where the expression of protease genes increasedal significantly under cross-pollination. We identified DEGs involved in the ribosomal, ubiquitination-mediated, and phyto-signaling pathways that may be involved in pitaya SI regulation. Based on the available transcriptome data and bioinformatics analysis, we tentatively identified <i>HuS-RNase2</i> as a candidate gynogenetic S gene in the pitaya GSI system. |
| first_indexed | 2024-03-11T01:00:43Z |
| format | Article |
| id | doaj.art-747eff7b9c014d0880f0ce0083e42e56 |
| institution | Directory Open Access Journal |
| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-11T01:00:43Z |
| publishDate | 2023-07-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | International Journal of Molecular Sciences |
| spelling | doaj.art-747eff7b9c014d0880f0ce0083e42e562023-11-18T19:38:53ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672023-07-0124141140610.3390/ijms241411406The Pitaya Flower Tissue’s Gene Differential Expression Analysis between Self-Incompatible and Self-Compatible Varieties for the Identification of Genes Involved in Self-Incompatibility RegulationZhouwen Wang0Meng Wang1Yi Ding2Tao Li3Senrong Jiang4Shaoling Kang5Shuangshuang Wei6Jun Xie7Jiaquan Huang8Wenbin Hu9Hongli Li10Hua Tang11Sanya Nanfan Research Institute of Hainan University, Sanya 572025, ChinaSanya Nanfan Research Institute of Hainan University, Sanya 572025, ChinaSanya Nanfan Research Institute of Hainan University, Sanya 572025, ChinaSanya Nanfan Research Institute of Hainan University, Sanya 572025, ChinaHainan Key Laboratory for Sustainable Utilization of Tropical Bioresources, College of Tropical Crops, Hainan University, Haikou 570228, ChinaHainan Key Laboratory for Sustainable Utilization of Tropical Bioresources, College of Tropical Crops, Hainan University, Haikou 570228, ChinaHainan Key Laboratory for Sustainable Utilization of Tropical Bioresources, College of Tropical Crops, Hainan University, Haikou 570228, ChinaHainan Key Laboratory for Sustainable Utilization of Tropical Bioresources, College of Tropical Crops, Hainan University, Haikou 570228, ChinaSanya Nanfan Research Institute of Hainan University, Sanya 572025, ChinaTropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou 571700, ChinaTropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou 571700, ChinaSanya Nanfan Research Institute of Hainan University, Sanya 572025, ChinaSelf-incompatible pitaya varieties have low fruit-setting rates under natural conditions, leading to higher production costs and hindering industrial prosperity. Through transcriptome sequencing, we obtained the 36,900 longest transcripts (including 9167 new transcripts) from 60 samples of flowers. Samples were collected pre- and post-pollination (at 0 h, 0.5 h, 2 h, 4 h, and 12 h) from two varieties of pitaya (self-compatible Jindu No. 1 and self-incompatible Cu Sha). Using the RNA-Seq data and comparison of reference genomes, we annotated 28,817 genes in various databases, and 1740 genes were optimized in their structure for annotation. There were significant differences in the expression of differentially expressed genes (DEGs) in the pitaya stigmas under different pollination types, especially at the late post-pollination stage, where the expression of protease genes increasedal significantly under cross-pollination. We identified DEGs involved in the ribosomal, ubiquitination-mediated, and phyto-signaling pathways that may be involved in pitaya SI regulation. Based on the available transcriptome data and bioinformatics analysis, we tentatively identified <i>HuS-RNase2</i> as a candidate gynogenetic S gene in the pitaya GSI system.https://www.mdpi.com/1422-0067/24/14/11406pitayaself-incompatibilitytranscriptome analysisdifferential gene expression<i>S-RNase</i> |
| spellingShingle | Zhouwen Wang Meng Wang Yi Ding Tao Li Senrong Jiang Shaoling Kang Shuangshuang Wei Jun Xie Jiaquan Huang Wenbin Hu Hongli Li Hua Tang The Pitaya Flower Tissue’s Gene Differential Expression Analysis between Self-Incompatible and Self-Compatible Varieties for the Identification of Genes Involved in Self-Incompatibility Regulation International Journal of Molecular Sciences pitaya self-incompatibility transcriptome analysis differential gene expression <i>S-RNase</i> |
| title | The Pitaya Flower Tissue’s Gene Differential Expression Analysis between Self-Incompatible and Self-Compatible Varieties for the Identification of Genes Involved in Self-Incompatibility Regulation |
| title_full | The Pitaya Flower Tissue’s Gene Differential Expression Analysis between Self-Incompatible and Self-Compatible Varieties for the Identification of Genes Involved in Self-Incompatibility Regulation |
| title_fullStr | The Pitaya Flower Tissue’s Gene Differential Expression Analysis between Self-Incompatible and Self-Compatible Varieties for the Identification of Genes Involved in Self-Incompatibility Regulation |
| title_full_unstemmed | The Pitaya Flower Tissue’s Gene Differential Expression Analysis between Self-Incompatible and Self-Compatible Varieties for the Identification of Genes Involved in Self-Incompatibility Regulation |
| title_short | The Pitaya Flower Tissue’s Gene Differential Expression Analysis between Self-Incompatible and Self-Compatible Varieties for the Identification of Genes Involved in Self-Incompatibility Regulation |
| title_sort | pitaya flower tissue s gene differential expression analysis between self incompatible and self compatible varieties for the identification of genes involved in self incompatibility regulation |
| topic | pitaya self-incompatibility transcriptome analysis differential gene expression <i>S-RNase</i> |
| url | https://www.mdpi.com/1422-0067/24/14/11406 |
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