Transcriptomic Profiling of Two Rice Thermo-Sensitive Genic Male Sterile Lines with Contrasting Seed Storability after Artificial Accelerated Aging Treatment
Seed storability has a significant impact on seed vitality and is a crucial genetic factor in maintaining seed value during storage. In this study, RNA sequencing was used to analyze the seed transcriptomes of two rice thermo-sensitive genic male sterile (TGMS) lines, S1146S (storage-tolerant) and S...
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MDPI AG
2024-03-01
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| author | Fan Li Hongbing Ye Yingfeng Wang Jieqiang Zhou Guilian Zhang Xiong Liu Xuedan Lu Feng Wang Qiuhong Chen Guihua Chen Yunhua Xiao Wenbang Tang Huabing Deng |
| author_facet | Fan Li Hongbing Ye Yingfeng Wang Jieqiang Zhou Guilian Zhang Xiong Liu Xuedan Lu Feng Wang Qiuhong Chen Guihua Chen Yunhua Xiao Wenbang Tang Huabing Deng |
| author_sort | Fan Li |
| collection | DOAJ |
| description | Seed storability has a significant impact on seed vitality and is a crucial genetic factor in maintaining seed value during storage. In this study, RNA sequencing was used to analyze the seed transcriptomes of two rice thermo-sensitive genic male sterile (TGMS) lines, S1146S (storage-tolerant) and SD26S (storage-susceptible), with 0 and 7 days of artificial accelerated aging treatment. In total, 2658 and 1523 differentially expressed genes (DEGs) were identified in S1146S and SD26S, respectively. Among these DEGs, 729 (G1) exhibited similar regulation patterns in both lines, while 1924 DEGs (G2) were specific to S1146S, 789 DEGs (G3) were specific to SD26S, and 5 DEGs (G4) were specific to contrary differential expression levels. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis showed that “translation”, “ribosome”, “oxidative phosphorylation”, “ATP-dependent activity”, “intracellular protein transport”, and “regulation of DNA-templated transcription” were significantly enriched during seed aging. Several genes, like <i>Os01g0971400</i>, <i>Os01g0937200</i>, <i>Os03g0276500</i>, <i>Os05g0328632</i>, and <i>Os07g0214300</i>, associated with seed storability were identified in G4. Core genes <i>Os03g0100100</i> (<i>OsPMEI12</i>), <i>Os03g0320900</i> (<i>V2</i>), <i>Os02g0494000</i>, <i>Os02g0152800</i>, and <i>Os03g0710500</i> (<i>OsBiP2</i>) were identified in protein–protein interaction (PPI) networks. Seed vitality genes, <i>MKKK62</i> (<i>Os01g0699600</i>), <i>OsFbx352</i> (<i>Os10g0127900</i>), <i>FSE6</i> (<i>Os05g0540000</i>), and <i>RAmy3E</i> (<i>Os08g0473600</i>), related to seed storability were identified. Overall, these results provide novel perspectives for studying the molecular response and related genes of different-storability rice TGMS lines under artificial aging conditions. They also provide new ideas for studying the storability of hybrid rice. |
| first_indexed | 2024-04-24T10:37:00Z |
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| spelling | doaj.art-9942b43ff62843bab4a04c1f287030682024-04-12T13:24:41ZengMDPI AGPlants2223-77472024-03-0113794510.3390/plants13070945Transcriptomic Profiling of Two Rice Thermo-Sensitive Genic Male Sterile Lines with Contrasting Seed Storability after Artificial Accelerated Aging TreatmentFan Li0Hongbing Ye1Yingfeng Wang2Jieqiang Zhou3Guilian Zhang4Xiong Liu5Xuedan Lu6Feng Wang7Qiuhong Chen8Guihua Chen9Yunhua Xiao10Wenbang Tang11Huabing Deng12College of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaCollege of Agronomy, Hunan Agricultural University, Changsha 410128, ChinaSeed storability has a significant impact on seed vitality and is a crucial genetic factor in maintaining seed value during storage. In this study, RNA sequencing was used to analyze the seed transcriptomes of two rice thermo-sensitive genic male sterile (TGMS) lines, S1146S (storage-tolerant) and SD26S (storage-susceptible), with 0 and 7 days of artificial accelerated aging treatment. In total, 2658 and 1523 differentially expressed genes (DEGs) were identified in S1146S and SD26S, respectively. Among these DEGs, 729 (G1) exhibited similar regulation patterns in both lines, while 1924 DEGs (G2) were specific to S1146S, 789 DEGs (G3) were specific to SD26S, and 5 DEGs (G4) were specific to contrary differential expression levels. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis showed that “translation”, “ribosome”, “oxidative phosphorylation”, “ATP-dependent activity”, “intracellular protein transport”, and “regulation of DNA-templated transcription” were significantly enriched during seed aging. Several genes, like <i>Os01g0971400</i>, <i>Os01g0937200</i>, <i>Os03g0276500</i>, <i>Os05g0328632</i>, and <i>Os07g0214300</i>, associated with seed storability were identified in G4. Core genes <i>Os03g0100100</i> (<i>OsPMEI12</i>), <i>Os03g0320900</i> (<i>V2</i>), <i>Os02g0494000</i>, <i>Os02g0152800</i>, and <i>Os03g0710500</i> (<i>OsBiP2</i>) were identified in protein–protein interaction (PPI) networks. Seed vitality genes, <i>MKKK62</i> (<i>Os01g0699600</i>), <i>OsFbx352</i> (<i>Os10g0127900</i>), <i>FSE6</i> (<i>Os05g0540000</i>), and <i>RAmy3E</i> (<i>Os08g0473600</i>), related to seed storability were identified. Overall, these results provide novel perspectives for studying the molecular response and related genes of different-storability rice TGMS lines under artificial aging conditions. They also provide new ideas for studying the storability of hybrid rice.https://www.mdpi.com/2223-7747/13/7/945<i>Oryza sativa</i> L.TGMS lineseed storabilityartificially accelerated aging treatmenttranscriptome analysis |
| spellingShingle | Fan Li Hongbing Ye Yingfeng Wang Jieqiang Zhou Guilian Zhang Xiong Liu Xuedan Lu Feng Wang Qiuhong Chen Guihua Chen Yunhua Xiao Wenbang Tang Huabing Deng Transcriptomic Profiling of Two Rice Thermo-Sensitive Genic Male Sterile Lines with Contrasting Seed Storability after Artificial Accelerated Aging Treatment Plants <i>Oryza sativa</i> L. TGMS line seed storability artificially accelerated aging treatment transcriptome analysis |
| title | Transcriptomic Profiling of Two Rice Thermo-Sensitive Genic Male Sterile Lines with Contrasting Seed Storability after Artificial Accelerated Aging Treatment |
| title_full | Transcriptomic Profiling of Two Rice Thermo-Sensitive Genic Male Sterile Lines with Contrasting Seed Storability after Artificial Accelerated Aging Treatment |
| title_fullStr | Transcriptomic Profiling of Two Rice Thermo-Sensitive Genic Male Sterile Lines with Contrasting Seed Storability after Artificial Accelerated Aging Treatment |
| title_full_unstemmed | Transcriptomic Profiling of Two Rice Thermo-Sensitive Genic Male Sterile Lines with Contrasting Seed Storability after Artificial Accelerated Aging Treatment |
| title_short | Transcriptomic Profiling of Two Rice Thermo-Sensitive Genic Male Sterile Lines with Contrasting Seed Storability after Artificial Accelerated Aging Treatment |
| title_sort | transcriptomic profiling of two rice thermo sensitive genic male sterile lines with contrasting seed storability after artificial accelerated aging treatment |
| topic | <i>Oryza sativa</i> L. TGMS line seed storability artificially accelerated aging treatment transcriptome analysis |
| url | https://www.mdpi.com/2223-7747/13/7/945 |
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