Analysis of Dynamic Global Transcriptional Atlas Reveals Common Regulatory Networks of Hormones and Photosynthesis Across Nicotiana Varieties in Response to Long-Term Drought
Land plants evolve drought acclimation. Existing knowledge of gene regulation mainly comes from short-term drought treatment. However, common regulatory mechanism shared by multiple varieties under long-term drought is little explored. Here we investigated changes in physiology, hormones and transcr...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2020-05-01
|
| Series: | Frontiers in Plant Science |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/article/10.3389/fpls.2020.00672/full |
| _version_ | 1818836793220399104 |
|---|---|
| author | Jing Wang Shihua Zhang Shihua Zhang Yunpeng Fu Tiantian He Xuewen Wang |
| author_facet | Jing Wang Shihua Zhang Shihua Zhang Yunpeng Fu Tiantian He Xuewen Wang |
| author_sort | Jing Wang |
| collection | DOAJ |
| description | Land plants evolve drought acclimation. Existing knowledge of gene regulation mainly comes from short-term drought treatment. However, common regulatory mechanism shared by multiple varieties under long-term drought is little explored. Here we investigated changes in physiology, hormones and transcriptomes in leaves of Nicotiana varieties K326 and Basma Xanthi with/without drought treatment at time courses spanning 1 month. Analyses of deep RNA-Seq data and further full-length Iso-Seq data revealed an atlas of dynamic changes of transcripts, spliced isoforms, gene expression, associated Gene Ontology, and metabolism pathways. Fewer differentially expressed genes (DEGs) were induced by drought in high tolerance variety than susceptible variety. Comparison among seven hormone signal pathways identified that genes in both abscisic acid and auxin signaling pathways were highly induced although specific genes were depended on the variety. Common hormone regulatory network analysis revealed that genes encoding clade A protein phosphatase 2C gene (PP2C) in abscisic acid pathway was the pivotal hub. Expressional regulation in photosynthesis was also common and variety specific. We conclude that long-term drought inducing gene regulatory networks of hormones and photosynthesis are variety dependent, and PP2C is the center of the common hormone regulatory network. Thus, this study improves our understanding of gene regulatory network in drought response. |
| first_indexed | 2024-12-19T03:12:15Z |
| format | Article |
| id | doaj.art-82b0dccd85b94592a8264764b3d2f2d8 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-12-19T03:12:15Z |
| publishDate | 2020-05-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-82b0dccd85b94592a8264764b3d2f2d82022-12-21T20:37:59ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2020-05-011110.3389/fpls.2020.00672533258Analysis of Dynamic Global Transcriptional Atlas Reveals Common Regulatory Networks of Hormones and Photosynthesis Across Nicotiana Varieties in Response to Long-Term DroughtJing Wang0Shihua Zhang1Shihua Zhang2Yunpeng Fu3Tiantian He4Xuewen Wang5College of Tobacco Science, Henan Agricultural University, Zhengzhou, ChinaDepartment of Genetics, University of Georgia, Athens, GA, United StatesCollege of Life Science and Health, Wuhan University of Science and Technology, Wuhan, ChinaCollege of Tobacco Science, Henan Agricultural University, Zhengzhou, ChinaCollege of Tobacco Science, Henan Agricultural University, Zhengzhou, ChinaDepartment of Genetics, University of Georgia, Athens, GA, United StatesLand plants evolve drought acclimation. Existing knowledge of gene regulation mainly comes from short-term drought treatment. However, common regulatory mechanism shared by multiple varieties under long-term drought is little explored. Here we investigated changes in physiology, hormones and transcriptomes in leaves of Nicotiana varieties K326 and Basma Xanthi with/without drought treatment at time courses spanning 1 month. Analyses of deep RNA-Seq data and further full-length Iso-Seq data revealed an atlas of dynamic changes of transcripts, spliced isoforms, gene expression, associated Gene Ontology, and metabolism pathways. Fewer differentially expressed genes (DEGs) were induced by drought in high tolerance variety than susceptible variety. Comparison among seven hormone signal pathways identified that genes in both abscisic acid and auxin signaling pathways were highly induced although specific genes were depended on the variety. Common hormone regulatory network analysis revealed that genes encoding clade A protein phosphatase 2C gene (PP2C) in abscisic acid pathway was the pivotal hub. Expressional regulation in photosynthesis was also common and variety specific. We conclude that long-term drought inducing gene regulatory networks of hormones and photosynthesis are variety dependent, and PP2C is the center of the common hormone regulatory network. Thus, this study improves our understanding of gene regulatory network in drought response.https://www.frontiersin.org/article/10.3389/fpls.2020.00672/fullabiotic stressgene expressionregulation networkRNA-SeqIso-Seq |
| spellingShingle | Jing Wang Shihua Zhang Shihua Zhang Yunpeng Fu Tiantian He Xuewen Wang Analysis of Dynamic Global Transcriptional Atlas Reveals Common Regulatory Networks of Hormones and Photosynthesis Across Nicotiana Varieties in Response to Long-Term Drought Frontiers in Plant Science abiotic stress gene expression regulation network RNA-Seq Iso-Seq |
| title | Analysis of Dynamic Global Transcriptional Atlas Reveals Common Regulatory Networks of Hormones and Photosynthesis Across Nicotiana Varieties in Response to Long-Term Drought |
| title_full | Analysis of Dynamic Global Transcriptional Atlas Reveals Common Regulatory Networks of Hormones and Photosynthesis Across Nicotiana Varieties in Response to Long-Term Drought |
| title_fullStr | Analysis of Dynamic Global Transcriptional Atlas Reveals Common Regulatory Networks of Hormones and Photosynthesis Across Nicotiana Varieties in Response to Long-Term Drought |
| title_full_unstemmed | Analysis of Dynamic Global Transcriptional Atlas Reveals Common Regulatory Networks of Hormones and Photosynthesis Across Nicotiana Varieties in Response to Long-Term Drought |
| title_short | Analysis of Dynamic Global Transcriptional Atlas Reveals Common Regulatory Networks of Hormones and Photosynthesis Across Nicotiana Varieties in Response to Long-Term Drought |
| title_sort | analysis of dynamic global transcriptional atlas reveals common regulatory networks of hormones and photosynthesis across nicotiana varieties in response to long term drought |
| topic | abiotic stress gene expression regulation network RNA-Seq Iso-Seq |
| url | https://www.frontiersin.org/article/10.3389/fpls.2020.00672/full |
| work_keys_str_mv | AT jingwang analysisofdynamicglobaltranscriptionalatlasrevealscommonregulatorynetworksofhormonesandphotosynthesisacrossnicotianavarietiesinresponsetolongtermdrought AT shihuazhang analysisofdynamicglobaltranscriptionalatlasrevealscommonregulatorynetworksofhormonesandphotosynthesisacrossnicotianavarietiesinresponsetolongtermdrought AT shihuazhang analysisofdynamicglobaltranscriptionalatlasrevealscommonregulatorynetworksofhormonesandphotosynthesisacrossnicotianavarietiesinresponsetolongtermdrought AT yunpengfu analysisofdynamicglobaltranscriptionalatlasrevealscommonregulatorynetworksofhormonesandphotosynthesisacrossnicotianavarietiesinresponsetolongtermdrought AT tiantianhe analysisofdynamicglobaltranscriptionalatlasrevealscommonregulatorynetworksofhormonesandphotosynthesisacrossnicotianavarietiesinresponsetolongtermdrought AT xuewenwang analysisofdynamicglobaltranscriptionalatlasrevealscommonregulatorynetworksofhormonesandphotosynthesisacrossnicotianavarietiesinresponsetolongtermdrought |