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Full-length transcript sequencing and comparative transcriptomic analysis to evaluate the contribution of osmotic and ionic stress components towards salinity tolerance in the roots of cultivated alfalfa (Medicago sativa L.).
BMC Plant Biol. 2019 Jan 21; 19(1):32.BP

Abstract

BACKGROUND

Alfalfa is the most extensively cultivated forage legume. Salinity is a major environmental factor that impacts on alfalfa's productivity. However, little is known about the molecular mechanisms underlying alfalfa responses to salinity, especially the relative contribution of the two important components of osmotic and ionic stress.

RESULTS

In this study, we constructed the first full-length transcriptome database for alfalfa root tips under continuous NaCl and mannitol treatments for 1, 3, 6, 12, and 24 h (three biological replicates for each time points, including the control group) via PacBio Iso-Seq. This resulted in the identification of 52,787 full-length transcripts, with an average length of 2551 bp. Global transcriptional changes in the same 33 stressed samples were then analyzed via BGISEQ-500 RNA-Seq. Totals of 8861 NaCl-regulated and 8016 mannitol-regulated differentially expressed genes (DEGs) were identified. Metabolic analyses revealed that these DEGs overlapped or diverged in the cascades of molecular networks involved in signal perception, signal transduction, transcriptional regulation, and antioxidative defense. Notably, several well characterized signalling pathways, such as CDPK, MAPK, CIPK, and PYL-PP2C-SnRK2, were shown to be involved in osmotic stress, while the SOS core pathway was activated by ionic stress. Moreover, the physiological shifts of catalase and peroxidase activity, glutathione and proline content were in accordance with dynamic transcript profiles of the relevant genes, indicating that antioxidative defense system plays critical roles in response to salinity stress.

CONCLUSIONS

Overall, our study provides evidence that the response to salinity stress in alfalfa includes both osmotic and ionic components. The key osmotic and ionic stress-related genes are candidates for future studies as potential targets to improve resistance to salinity stress via genetic engineering.

Authors+Show Affiliations

State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730000, People's Republic of China.State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730000, People's Republic of China.State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730000, People's Republic of China.State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730000, People's Republic of China.State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730000, People's Republic of China.State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730000, People's Republic of China.Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100000, People's Republic of China.State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730000, People's Republic of China. Core Research & Transformation, Noble Research Institute, Ardmore, OK, 73401, USA.State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730000, People's Republic of China. lzp@lzu.edu.cn.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

30665358

Citation

Luo, Dong, et al. "Full-length Transcript Sequencing and Comparative Transcriptomic Analysis to Evaluate the Contribution of Osmotic and Ionic Stress Components Towards Salinity Tolerance in the Roots of Cultivated Alfalfa (Medicago Sativa L.)." BMC Plant Biology, vol. 19, no. 1, 2019, p. 32.
Luo D, Zhou Q, Wu Y, et al. Full-length transcript sequencing and comparative transcriptomic analysis to evaluate the contribution of osmotic and ionic stress components towards salinity tolerance in the roots of cultivated alfalfa (Medicago sativa L.). BMC Plant Biol. 2019;19(1):32.
Luo, D., Zhou, Q., Wu, Y., Chai, X., Liu, W., Wang, Y., Yang, Q., Wang, Z., & Liu, Z. (2019). Full-length transcript sequencing and comparative transcriptomic analysis to evaluate the contribution of osmotic and ionic stress components towards salinity tolerance in the roots of cultivated alfalfa (Medicago sativa L.). BMC Plant Biology, 19(1), 32. https://doi.org/10.1186/s12870-019-1630-4
Luo D, et al. Full-length Transcript Sequencing and Comparative Transcriptomic Analysis to Evaluate the Contribution of Osmotic and Ionic Stress Components Towards Salinity Tolerance in the Roots of Cultivated Alfalfa (Medicago Sativa L.). BMC Plant Biol. 2019 Jan 21;19(1):32. PubMed PMID: 30665358.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Full-length transcript sequencing and comparative transcriptomic analysis to evaluate the contribution of osmotic and ionic stress components towards salinity tolerance in the roots of cultivated alfalfa (Medicago sativa L.). AU - Luo,Dong, AU - Zhou,Qiang, AU - Wu,Yuguo, AU - Chai,Xutian, AU - Liu,Wenxian, AU - Wang,Yanrong, AU - Yang,Qingchuan, AU - Wang,Zengyu, AU - Liu,Zhipeng, Y1 - 2019/01/21/ PY - 2018/09/25/received PY - 2019/01/04/accepted PY - 2019/1/23/entrez PY - 2019/1/23/pubmed PY - 2019/2/27/medline KW - Alfalfa KW - Antioxidative defense KW - Differentially expressed genes KW - Full-length transcripts KW - Physiological shifts KW - Salinity stress SP - 32 EP - 32 JF - BMC plant biology JO - BMC Plant Biol VL - 19 IS - 1 N2 - BACKGROUND: Alfalfa is the most extensively cultivated forage legume. Salinity is a major environmental factor that impacts on alfalfa's productivity. However, little is known about the molecular mechanisms underlying alfalfa responses to salinity, especially the relative contribution of the two important components of osmotic and ionic stress. RESULTS: In this study, we constructed the first full-length transcriptome database for alfalfa root tips under continuous NaCl and mannitol treatments for 1, 3, 6, 12, and 24 h (three biological replicates for each time points, including the control group) via PacBio Iso-Seq. This resulted in the identification of 52,787 full-length transcripts, with an average length of 2551 bp. Global transcriptional changes in the same 33 stressed samples were then analyzed via BGISEQ-500 RNA-Seq. Totals of 8861 NaCl-regulated and 8016 mannitol-regulated differentially expressed genes (DEGs) were identified. Metabolic analyses revealed that these DEGs overlapped or diverged in the cascades of molecular networks involved in signal perception, signal transduction, transcriptional regulation, and antioxidative defense. Notably, several well characterized signalling pathways, such as CDPK, MAPK, CIPK, and PYL-PP2C-SnRK2, were shown to be involved in osmotic stress, while the SOS core pathway was activated by ionic stress. Moreover, the physiological shifts of catalase and peroxidase activity, glutathione and proline content were in accordance with dynamic transcript profiles of the relevant genes, indicating that antioxidative defense system plays critical roles in response to salinity stress. CONCLUSIONS: Overall, our study provides evidence that the response to salinity stress in alfalfa includes both osmotic and ionic components. The key osmotic and ionic stress-related genes are candidates for future studies as potential targets to improve resistance to salinity stress via genetic engineering. SN - 1471-2229 UR - https://www.unboundmedicine.com/medline/citation/30665358/Full_length_transcript_sequencing_and_comparative_transcriptomic_analysis_to_evaluate_the_contribution_of_osmotic_and_ionic_stress_components_towards_salinity_tolerance_in_the_roots_of_cultivated_alfalfa__Medicago_sativa_L___ DB - PRIME DP - Unbound Medicine ER -