Comparison of transcriptomes undergoing waterlogging at the seedling stage between tolerant and sensitive varieties of Brassica napus L.
RNA sequencing of the sensitive GH01 variety of Brassica napus L. seedling roots under 12 h of waterlogging was compared with previously published data of the ZS9 tolerant variety to unravel genetic mechanisms of waterlogging tolerance beyond natural variation. A total of 2 977 genes with similar ex...
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| Format: | Article |
| Language: | English |
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KeAi Communications Co., Ltd.
2015-09-01
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| Series: | Journal of Integrative Agriculture |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2095311915611388 |
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| author | Xi-ling ZOU Liu ZENG Guang-yuan LU Yong CHENG Jin-song XU Xue-kun ZHANG |
| author_facet | Xi-ling ZOU Liu ZENG Guang-yuan LU Yong CHENG Jin-song XU Xue-kun ZHANG |
| author_sort | Xi-ling ZOU |
| collection | DOAJ |
| description | RNA sequencing of the sensitive GH01 variety of Brassica napus L. seedling roots under 12 h of waterlogging was compared with previously published data of the ZS9 tolerant variety to unravel genetic mechanisms of waterlogging tolerance beyond natural variation. A total of 2 977 genes with similar expression patterns and 17 genes with opposite expression patterns were identified in the transcription profiles of ZS9 and GH01. An additional 1 438 genes in ZS9 and 1 861 genes in GH01 showed strain specific regulation. Analysis of the overlapped genes between ZS9 and GH01 revealed that waterlogging tolerance is determined by ability to regulate genes with similar expression patterns. Moreover, differences in both gene expression profiles and abscisic acid (ABA) contents between the two varieties suggest that ABA may play some role in waterlogging tolerance. This study identifies a subset of candidate genes for further functional analysis. |
| format | Article |
| id | doaj-art-f862b2ed0eaa42759bcfe4d40da77e83 |
| institution | Kabale University |
| issn | 2095-3119 |
| language | English |
| publishDate | 2015-09-01 |
| publisher | KeAi Communications Co., Ltd. |
| record_format | Article |
| series | Journal of Integrative Agriculture |
| spelling | doaj-art-f862b2ed0eaa42759bcfe4d40da77e832025-08-20T03:57:55ZengKeAi Communications Co., Ltd.Journal of Integrative Agriculture2095-31192015-09-011491723173410.1016/S2095-3119(15)61138-8Comparison of transcriptomes undergoing waterlogging at the seedling stage between tolerant and sensitive varieties of Brassica napus L.Xi-ling ZOU0Liu ZENG1Guang-yuan LU2Yong CHENG3Jin-song XU4Xue-kun ZHANG5Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture/Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan 430062, P.R.ChinaKey Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture/Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan 430062, P.R.ChinaKey Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture/Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan 430062, P.R.ChinaKey Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture/Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan 430062, P.R.ChinaKey Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture/Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan 430062, P.R.ChinaCorrespondence ZHANG Xue-kun; Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture/Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan 430062, P.R.ChinaRNA sequencing of the sensitive GH01 variety of Brassica napus L. seedling roots under 12 h of waterlogging was compared with previously published data of the ZS9 tolerant variety to unravel genetic mechanisms of waterlogging tolerance beyond natural variation. A total of 2 977 genes with similar expression patterns and 17 genes with opposite expression patterns were identified in the transcription profiles of ZS9 and GH01. An additional 1 438 genes in ZS9 and 1 861 genes in GH01 showed strain specific regulation. Analysis of the overlapped genes between ZS9 and GH01 revealed that waterlogging tolerance is determined by ability to regulate genes with similar expression patterns. Moreover, differences in both gene expression profiles and abscisic acid (ABA) contents between the two varieties suggest that ABA may play some role in waterlogging tolerance. This study identifies a subset of candidate genes for further functional analysis.http://www.sciencedirect.com/science/article/pii/S2095311915611388rapeseed (Brassica napus L.)waterloggingdigital gene expression (DGE)rootstranscriptomecomparative analysis |
| spellingShingle | Xi-ling ZOU Liu ZENG Guang-yuan LU Yong CHENG Jin-song XU Xue-kun ZHANG Comparison of transcriptomes undergoing waterlogging at the seedling stage between tolerant and sensitive varieties of Brassica napus L. Journal of Integrative Agriculture rapeseed (Brassica napus L.) waterlogging digital gene expression (DGE) roots transcriptome comparative analysis |
| title | Comparison of transcriptomes undergoing waterlogging at the seedling stage between tolerant and sensitive varieties of Brassica napus L. |
| title_full | Comparison of transcriptomes undergoing waterlogging at the seedling stage between tolerant and sensitive varieties of Brassica napus L. |
| title_fullStr | Comparison of transcriptomes undergoing waterlogging at the seedling stage between tolerant and sensitive varieties of Brassica napus L. |
| title_full_unstemmed | Comparison of transcriptomes undergoing waterlogging at the seedling stage between tolerant and sensitive varieties of Brassica napus L. |
| title_short | Comparison of transcriptomes undergoing waterlogging at the seedling stage between tolerant and sensitive varieties of Brassica napus L. |
| title_sort | comparison of transcriptomes undergoing waterlogging at the seedling stage between tolerant and sensitive varieties of brassica napus l |
| topic | rapeseed (Brassica napus L.) waterlogging digital gene expression (DGE) roots transcriptome comparative analysis |
| url | http://www.sciencedirect.com/science/article/pii/S2095311915611388 |
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