The transcriptome variations of Panax notoginseng roots treated with different forms of nitrogen fertilizers
Abstract Background The sensitivity of plants to ammonia is a worldwide problem that limits crop production. Excessive use of ammonium as the sole nitrogen source results in morphological and physiological disorders, and retarded plant growth. Results In this study we found that the root growth of P...
| Main Authors: | , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2020-02-01
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| Series: | BMC Genomics |
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| Online Access: | https://doi.org/10.1186/s12864-019-6340-7 |
| _version_ | 1819060605023158272 |
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| author | Xiaohong Ou Shipeng Li Peiran Liao Xiuming Cui Binglian Zheng Ye Yang Dahui Liu Yun Zheng |
| author_facet | Xiaohong Ou Shipeng Li Peiran Liao Xiuming Cui Binglian Zheng Ye Yang Dahui Liu Yun Zheng |
| author_sort | Xiaohong Ou |
| collection | DOAJ |
| description | Abstract Background The sensitivity of plants to ammonia is a worldwide problem that limits crop production. Excessive use of ammonium as the sole nitrogen source results in morphological and physiological disorders, and retarded plant growth. Results In this study we found that the root growth of Panax notoginseng was inhibited when only adding ammonium nitrogen fertilizer, but the supplement of nitrate fertilizer recovered the integrity, activity and growth of root. Twelve RNA-seq profiles in four sample groups were produced and analyzed to identify deregulated genes in samples with different treatments. In comparisons to NH 4+ ${~}_{4}^{+}$ treated samples, ACLA-3 gene is up-regulated in samples treated with NO 3− ${~}_{3}^{-}$ and with both NH 4+ $_{4}^{+}$ and NO 3− ${~}_{3}^{-}$, which is further validated by qRT-PCR in another set of samples. Subsequently, we show that the some key metabolites in the TCA cycle are also significantly enhanced when introducing NO 3− ${~}_{3}^{-}$. These potentially enhance the integrity and recover the growth of Panax notoginseng roots. Conclusion These results suggest that the activated TCA cycle, as demonstrated by up-regulation of ACLA-3 and several key metabolites in this cycle, contributes to the increased Panax notoginseng root yield when applying both ammonium and nitrate fertilizer. |
| first_indexed | 2024-12-21T14:29:38Z |
| format | Article |
| id | doaj.art-0c251e0fa4f54a11939cfd62bccbf1e3 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-21T14:29:38Z |
| publishDate | 2020-02-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-0c251e0fa4f54a11939cfd62bccbf1e32022-12-21T19:00:31ZengBMCBMC Genomics1471-21642020-02-0120S911510.1186/s12864-019-6340-7The transcriptome variations of Panax notoginseng roots treated with different forms of nitrogen fertilizersXiaohong Ou0Shipeng Li1Peiran Liao2Xiuming Cui3Binglian Zheng4Ye Yang5Dahui Liu6Yun Zheng7Kunming Key Laboratory of Sustainable Development and Utilization of Famous-Region Drug, Key Laboratory of Panax notoginseng Resources Sustainable Development and Utilization of State Administration of Traditional Chinese Medicine, Faculty of Life Science and Technology, Kunming University of Science and TechnologyKunming Key Laboratory of Sustainable Development and Utilization of Famous-Region Drug, Key Laboratory of Panax notoginseng Resources Sustainable Development and Utilization of State Administration of Traditional Chinese Medicine, Faculty of Life Science and Technology, Kunming University of Science and TechnologyKunming Key Laboratory of Sustainable Development and Utilization of Famous-Region Drug, Key Laboratory of Panax notoginseng Resources Sustainable Development and Utilization of State Administration of Traditional Chinese Medicine, Faculty of Life Science and Technology, Kunming University of Science and TechnologyKunming Key Laboratory of Sustainable Development and Utilization of Famous-Region Drug, Key Laboratory of Panax notoginseng Resources Sustainable Development and Utilization of State Administration of Traditional Chinese Medicine, Faculty of Life Science and Technology, Kunming University of Science and TechnologyState Key Laboratory of Genetic Engineering, Collaborative Innovation Center for Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan UniversityKunming Key Laboratory of Sustainable Development and Utilization of Famous-Region Drug, Key Laboratory of Panax notoginseng Resources Sustainable Development and Utilization of State Administration of Traditional Chinese Medicine, Faculty of Life Science and Technology, Kunming University of Science and TechnologyCollege of Pharmacy, Hubei University of Chinese MedicineYunnan Key Lab of Primate Biomedicine Research; Institute of Primate Translational Medicine, Kunming University of Science and Technology, Kunming University of Science and TechnologyAbstract Background The sensitivity of plants to ammonia is a worldwide problem that limits crop production. Excessive use of ammonium as the sole nitrogen source results in morphological and physiological disorders, and retarded plant growth. Results In this study we found that the root growth of Panax notoginseng was inhibited when only adding ammonium nitrogen fertilizer, but the supplement of nitrate fertilizer recovered the integrity, activity and growth of root. Twelve RNA-seq profiles in four sample groups were produced and analyzed to identify deregulated genes in samples with different treatments. In comparisons to NH 4+ ${~}_{4}^{+}$ treated samples, ACLA-3 gene is up-regulated in samples treated with NO 3− ${~}_{3}^{-}$ and with both NH 4+ $_{4}^{+}$ and NO 3− ${~}_{3}^{-}$, which is further validated by qRT-PCR in another set of samples. Subsequently, we show that the some key metabolites in the TCA cycle are also significantly enhanced when introducing NO 3− ${~}_{3}^{-}$. These potentially enhance the integrity and recover the growth of Panax notoginseng roots. Conclusion These results suggest that the activated TCA cycle, as demonstrated by up-regulation of ACLA-3 and several key metabolites in this cycle, contributes to the increased Panax notoginseng root yield when applying both ammonium and nitrate fertilizer.https://doi.org/10.1186/s12864-019-6340-7Panax notoginsengTranscriptomeNitrateACLA-3Ammonium stress |
| spellingShingle | Xiaohong Ou Shipeng Li Peiran Liao Xiuming Cui Binglian Zheng Ye Yang Dahui Liu Yun Zheng The transcriptome variations of Panax notoginseng roots treated with different forms of nitrogen fertilizers BMC Genomics Panax notoginseng Transcriptome Nitrate ACLA-3 Ammonium stress |
| title | The transcriptome variations of Panax notoginseng roots treated with different forms of nitrogen fertilizers |
| title_full | The transcriptome variations of Panax notoginseng roots treated with different forms of nitrogen fertilizers |
| title_fullStr | The transcriptome variations of Panax notoginseng roots treated with different forms of nitrogen fertilizers |
| title_full_unstemmed | The transcriptome variations of Panax notoginseng roots treated with different forms of nitrogen fertilizers |
| title_short | The transcriptome variations of Panax notoginseng roots treated with different forms of nitrogen fertilizers |
| title_sort | transcriptome variations of panax notoginseng roots treated with different forms of nitrogen fertilizers |
| topic | Panax notoginseng Transcriptome Nitrate ACLA-3 Ammonium stress |
| url | https://doi.org/10.1186/s12864-019-6340-7 |
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