Transcriptomic profiling suggests candidate molecular responses to waterlogging in cassava
Owing to climate change impacts, waterlogging is a serious abiotic stress that affects crops, resulting in stunted growth and loss of productivity. Cassava (Manihot esculenta Grantz) is usually grown in areas that experience high amounts of rainfall; however, little research has been done on the wat...
| Main Authors: | , , , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
2022
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/127662 |
| _version_ | 1855524528802758656 |
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| author | Cao, Min Zheng, Linling Junyi Li Mao, Yiming Zhang, Rui Niu, Xiaolei Geng, Mengting Zhang, Xiaofei Huang, Wei Luo, Kai Chen, Yinhua |
| author_browse | Cao, Min Chen, Yinhua Geng, Mengting Huang, Wei Junyi Li Luo, Kai Mao, Yiming Niu, Xiaolei Zhang, Rui Zhang, Xiaofei Zheng, Linling |
| author_facet | Cao, Min Zheng, Linling Junyi Li Mao, Yiming Zhang, Rui Niu, Xiaolei Geng, Mengting Zhang, Xiaofei Huang, Wei Luo, Kai Chen, Yinhua |
| author_sort | Cao, Min |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Owing to climate change impacts, waterlogging is a serious abiotic stress that affects crops, resulting in stunted growth and loss of productivity. Cassava (Manihot esculenta Grantz) is usually grown in areas that experience high amounts of rainfall; however, little research has been done on the waterlogging tolerance mechanism of this species. Therefore, we investigated the physiological responses of cassava plants to waterlogging stress and analyzed global gene transcription responses in the leaves and roots of waterlogged cassava plants. The results showed that waterlogging stress significantly decreased the leaf chlorophyll content, caused premature senescence, and increased the activities of superoxide dismutase (SOD), catalase (CAT) and peroxidase (POD) in the leaves and roots. In total, 2538 differentially expressed genes (DEGs) were detected in the leaves and 13364 in the roots, with
1523 genes shared between the two tissues. Comparative analysis revealed that the DEGs were related mainly to photosynthesis, amino metabolism, RNA transport and degradation. We also summarized the functions of the pathways that respond to waterlogging and are involved in photosynthesis, glycolysis and galactose metabolism. Additionally, many transcription factors (TFs), such as MYBs, AP2/ERFs, WRKYs and NACs, were identified, suggesting that they potentially function in the waterlogging response in cassava. The expression of 12 randomly selected genes evaluated via both quantitative real-time PCR (qRT-PCR) and RNA sequencing (RNA-seq) was highly correlated (R2 = 0.9077), validating the reliability of the RNA-seq results. The potential waterlogging stress-related transcripts identified in this study are representatives of candidate genes and molecular resources for further understanding the molecular mechanisms underlying the waterlogging response in cassava. |
| format | Journal Article |
| id | CGSpace127662 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2022 |
| publishDateRange | 2022 |
| publishDateSort | 2022 |
| record_format | dspace |
| spelling | CGSpace1276622025-11-11T18:48:20Z Transcriptomic profiling suggests candidate molecular responses to waterlogging in cassava Cao, Min Zheng, Linling Junyi Li Mao, Yiming Zhang, Rui Niu, Xiaolei Geng, Mengting Zhang, Xiaofei Huang, Wei Luo, Kai Chen, Yinhua waterlogging cassava water tolerance gene expression transcription factors Owing to climate change impacts, waterlogging is a serious abiotic stress that affects crops, resulting in stunted growth and loss of productivity. Cassava (Manihot esculenta Grantz) is usually grown in areas that experience high amounts of rainfall; however, little research has been done on the waterlogging tolerance mechanism of this species. Therefore, we investigated the physiological responses of cassava plants to waterlogging stress and analyzed global gene transcription responses in the leaves and roots of waterlogged cassava plants. The results showed that waterlogging stress significantly decreased the leaf chlorophyll content, caused premature senescence, and increased the activities of superoxide dismutase (SOD), catalase (CAT) and peroxidase (POD) in the leaves and roots. In total, 2538 differentially expressed genes (DEGs) were detected in the leaves and 13364 in the roots, with 1523 genes shared between the two tissues. Comparative analysis revealed that the DEGs were related mainly to photosynthesis, amino metabolism, RNA transport and degradation. We also summarized the functions of the pathways that respond to waterlogging and are involved in photosynthesis, glycolysis and galactose metabolism. Additionally, many transcription factors (TFs), such as MYBs, AP2/ERFs, WRKYs and NACs, were identified, suggesting that they potentially function in the waterlogging response in cassava. The expression of 12 randomly selected genes evaluated via both quantitative real-time PCR (qRT-PCR) and RNA sequencing (RNA-seq) was highly correlated (R2 = 0.9077), validating the reliability of the RNA-seq results. The potential waterlogging stress-related transcripts identified in this study are representatives of candidate genes and molecular resources for further understanding the molecular mechanisms underlying the waterlogging response in cassava. 2022-01-21 2023-01-20T09:32:32Z 2023-01-20T09:32:32Z Journal Article https://hdl.handle.net/10568/127662 en Open Access application/pdf Cao, M.; Zheng, L.; Li, J.; Mao, Y.; Zhang, R.; Niu, X.; Geng, M.; Zhang, X.; Huang, W.; Luo, K.; Chen, Y. (2022) Transcriptomic profiling suggests candidate molecular responses to waterlogging in cassava. PLOS ONE 17(1): e0261086. ISSN: 1932-6203 |
| spellingShingle | waterlogging cassava water tolerance gene expression transcription factors Cao, Min Zheng, Linling Junyi Li Mao, Yiming Zhang, Rui Niu, Xiaolei Geng, Mengting Zhang, Xiaofei Huang, Wei Luo, Kai Chen, Yinhua Transcriptomic profiling suggests candidate molecular responses to waterlogging in cassava |
| title | Transcriptomic profiling suggests candidate molecular responses to waterlogging in cassava |
| title_full | Transcriptomic profiling suggests candidate molecular responses to waterlogging in cassava |
| title_fullStr | Transcriptomic profiling suggests candidate molecular responses to waterlogging in cassava |
| title_full_unstemmed | Transcriptomic profiling suggests candidate molecular responses to waterlogging in cassava |
| title_short | Transcriptomic profiling suggests candidate molecular responses to waterlogging in cassava |
| title_sort | transcriptomic profiling suggests candidate molecular responses to waterlogging in cassava |
| topic | waterlogging cassava water tolerance gene expression transcription factors |
| url | https://hdl.handle.net/10568/127662 |
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