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Gieniec M, Miszalski Z, Rozpądek P, Jędrzejczyk RJ, Czernicka M, Nosek M. How the Ethylene Biosynthesis Pathway of Semi-Halophytes Is Modified with Prolonged Salinity Stress Occurrence? Int J Mol Sci 2024; 25:4777. [PMID: 38731994 PMCID: PMC11083548 DOI: 10.3390/ijms25094777] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2024] [Revised: 04/16/2024] [Accepted: 04/24/2024] [Indexed: 05/13/2024] Open
Abstract
The mechanism of ethylene (ET)-regulated salinity stress response remains largely unexplained, especially for semi-halophytes and halophytes. Here, we present the results of the multifaceted analysis of the model semi-halophyte Mesembryanthemum crystallinum L. (common ice plant) ET biosynthesis pathway key components' response to prolonged (14 days) salinity stress. Transcriptomic analysis revealed that the expression of 3280 ice plant genes was altered during 14-day long salinity (0.4 M NaCl) stress. A thorough analysis of differentially expressed genes (DEGs) showed that the expression of genes involved in ET biosynthesis and perception (ET receptors), the abscisic acid (ABA) catabolic process, and photosynthetic apparatus was significantly modified with prolonged stressor presence. To some point this result was supported with the expression analysis of the transcript amount (qPCR) of key ET biosynthesis pathway genes, namely ACS6 (1-aminocyclopropane-1-carboxylate synthase) and ACO1 (1-aminocyclopropane-1-carboxylate oxidase) orthologs. However, the pronounced circadian rhythm observed in the expression of both genes in unaffected (control) plants was distorted and an evident downregulation of both orthologs' was induced with prolonged salinity stress. The UPLC-MS analysis of the ET biosynthesis pathway rate-limiting semi-product, namely of 1-aminocyclopropane-1-carboxylic acid (ACC) content, confirmed the results assessed with molecular tools. The circadian rhythm of the ACC production of NaCl-treated semi-halophytes remained largely unaffected by the prolonged salinity stress episode. We speculate that the obtained results represent an image of the steady state established over the past 14 days, while during the first hours of the salinity stress response, the view could be completely different.
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Affiliation(s)
- Miron Gieniec
- W. Szafer Institute of Botany, Polish Academy of Sciences, Lubicz 46, 31-512 Kraków, Poland; (M.G.); (Z.M.)
| | - Zbigniew Miszalski
- W. Szafer Institute of Botany, Polish Academy of Sciences, Lubicz 46, 31-512 Kraków, Poland; (M.G.); (Z.M.)
| | - Piotr Rozpądek
- Małopolska Centre of Biotechnology, Jagiellonian University, Gronostajowa 7a, 30-387 Kraków, Poland; (P.R.); (R.J.J.)
| | - Roman J. Jędrzejczyk
- Małopolska Centre of Biotechnology, Jagiellonian University, Gronostajowa 7a, 30-387 Kraków, Poland; (P.R.); (R.J.J.)
| | - Małgorzata Czernicka
- Department of Plant Biology and Biotechnology, Faculty of Biotechnology and Horticulture, University of Agriculture in Krakow, Al. Mickiewicza 21, 31-120 Kraków, Poland;
| | - Michał Nosek
- Institute of Biology and Earth Sciences, University of the National Education Commission, Krakow, Podchorążych 2, 30-084 Kraków, Poland
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Hong MJ, Ko CS, Kim JB, Kim DY. Identification and transcriptomic profiling of salinity stress response genes in colored wheat mutant. PeerJ 2024; 12:e17043. [PMID: 38464747 PMCID: PMC10924784 DOI: 10.7717/peerj.17043] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2023] [Accepted: 02/13/2024] [Indexed: 03/12/2024] Open
Abstract
Background Salinity is a major abiotic stress that prevents normal plant growth and development, ultimately reducing crop productivity. This study investigated the effects of salinity stress on two wheat lines: PL1 (wild type) and PL6 (mutant line generated through gamma irradiation of PL1). Results The salinity treatment was carried out with a solution consisting of a total volume of 200 mL containing 150 mM NaCl. Salinity stress negatively impacted germination and plant growth in both lines, but PL6 exhibited higher tolerance. PL6 showed lower Na+ accumulation and higher K+ levels, indicating better ion homeostasis. Genome-wide transcriptomic analysis revealed distinct gene expression patterns between PL1 and PL6 under salt stress, resulting in notable phenotypic differences. Gene ontology analysis revealed positive correlations between salt stress and defense response, glutathione metabolism, peroxidase activity, and reactive oxygen species metabolic processes, highlighting the importance of antioxidant activities in salt tolerance. Additionally, hormone-related genes, transcription factors, and protein kinases showed differential expression, suggesting their roles in the differential salt stress response. Enrichment of pathways related to flavonoid biosynthesis and secondary metabolite biosynthesis in PL6 may contribute to its enhanced antioxidant activities. Furthermore, differentially expressed genes associated with the circadian clock system, cytoskeleton organization, and cell wall organization shed light on the plant's response to salt stress. Conclusions Understanding these mechanisms is crucial for developing stress-tolerant crop varieties, improving agricultural practices, and breeding salt-resistant crops to enhance global food production and address food security challenges.
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Affiliation(s)
- Min Jeong Hong
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute, Jeongeup, Jeollabuk-do, Korea
| | - Chan Seop Ko
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute, Jeongeup, Jeollabuk-do, Korea
| | - Jin-Baek Kim
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute, Jeongeup, Jeollabuk-do, Korea
| | - Dae Yeon Kim
- Plant Resources, Kongju National University, Yesan-eup, Chungnam, South Korea
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Wang H, Jia Y, Bai X, Gong W, Liu G, Wang H, Xin J, Wu Y, Zheng H, Liu H, Wang J, Zou D, Zhao H. Whole-Transcriptome Profiling and Functional Prediction of Long Non-Coding RNAs Associated with Cold Tolerance in Japonica Rice Varieties. Int J Mol Sci 2024; 25:2310. [PMID: 38396991 PMCID: PMC10889138 DOI: 10.3390/ijms25042310] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2024] [Revised: 02/07/2024] [Accepted: 02/10/2024] [Indexed: 02/25/2024] Open
Abstract
Low-temperature chilling is a major abiotic stress leading to reduced rice yield and is a significant environmental threat to food security. Low-temperature chilling studies have focused on physiological changes or coding genes. However, the competitive endogenous RNA mechanism in rice at low temperatures has not been reported. Therefore, in this study, antioxidant physiological indices were combined with whole-transcriptome data through weighted correlation network analysis, which found that the gene modules had the highest correlation with the key antioxidant enzymes superoxide dismutase and peroxidase. The hub genes of the superoxide dismutase-related module included the UDP-glucosyltransferase family protein, sesquiterpene synthase and indole-3-glycerophosphatase gene. The hub genes of the peroxidase-related module included the WRKY transcription factor, abscisic acid signal transduction pathway-related gene plasma membrane hydrogen-ATPase and receptor-like kinase. Therefore, we selected the modular hub genes and significantly enriched the metabolic pathway genes to construct the key competitive endogenous RNA networks, resulting in three competitive endogenous RNA networks of seven long non-coding RNAs regulating three co-expressed messenger RNAs via four microRNAs. Finally, the negative regulatory function of the WRKY transcription factor OsWRKY61 was determined via subcellular localization and validation of the physiological indices in the mutant.
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Affiliation(s)
| | - Yan Jia
- Correspondence: (Y.J.); (H.Z.)
| | | | | | | | | | | | | | | | | | | | | | - Hongwei Zhao
- Key Laboratory of Germplasm Enhancement and Physiology & Ecology of Food Crop in Cold Region, Ministry of Education/College of Agriculture, Northeast Agricultural University, Harbin 150030, China; (H.W.); (X.B.); (W.G.); (G.L.); (H.W.); (J.X.); (Y.W.); (H.Z.); (H.L.); (J.W.); (D.Z.)
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4
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Khan S, Alvi AF, Saify S, Iqbal N, Khan NA. The Ethylene Biosynthetic Enzymes, 1-Aminocyclopropane-1-Carboxylate (ACC) Synthase (ACS) and ACC Oxidase (ACO): The Less Explored Players in Abiotic Stress Tolerance. Biomolecules 2024; 14:90. [PMID: 38254690 PMCID: PMC10813531 DOI: 10.3390/biom14010090] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2023] [Revised: 01/06/2024] [Accepted: 01/10/2024] [Indexed: 01/24/2024] Open
Abstract
Ethylene is an essential plant hormone, critical in various physiological processes. These processes include seed germination, leaf senescence, fruit ripening, and the plant's response to environmental stressors. Ethylene biosynthesis is tightly regulated by two key enzymes, namely 1-aminocyclopropane-1-carboxylate synthase (ACS) and 1-aminocyclopropane-1-carboxylate oxidase (ACO). Initially, the prevailing hypothesis suggested that ACS is the limiting factor in the ethylene biosynthesis pathway. Nevertheless, accumulating evidence from various studies has demonstrated that ACO, under specific circumstances, acts as the rate-limiting enzyme in ethylene production. Under normal developmental processes, ACS and ACO collaborate to maintain balanced ethylene production, ensuring proper plant growth and physiology. However, under abiotic stress conditions, such as drought, salinity, extreme temperatures, or pathogen attack, the regulation of ethylene biosynthesis becomes critical for plants' survival. This review highlights the structural characteristics and examines the transcriptional, post-transcriptional, and post-translational regulation of ACS and ACO and their role under abiotic stress conditions. Reviews on the role of ethylene signaling in abiotic stress adaptation are available. However, a review delineating the role of ACS and ACO in abiotic stress acclimation is unavailable. Exploring how particular ACS and ACO isoforms contribute to a specific plant's response to various abiotic stresses and understanding how they are regulated can guide the development of focused strategies. These strategies aim to enhance a plant's ability to cope with environmental challenges more effectively.
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Affiliation(s)
- Sheen Khan
- Plant Physiology and Biochemistry Laboratory, Department of Botany, Aligarh Muslim University, Aligarh 202002, India; (S.K.); (S.S.)
| | - Ameena Fatima Alvi
- Plant Physiology and Biochemistry Laboratory, Department of Botany, Aligarh Muslim University, Aligarh 202002, India; (S.K.); (S.S.)
| | - Sadaf Saify
- Plant Physiology and Biochemistry Laboratory, Department of Botany, Aligarh Muslim University, Aligarh 202002, India; (S.K.); (S.S.)
| | - Noushina Iqbal
- Department of Botany, Jamia Hamdard, New Delhi 110062, India;
| | - Nafees A. Khan
- Plant Physiology and Biochemistry Laboratory, Department of Botany, Aligarh Muslim University, Aligarh 202002, India; (S.K.); (S.S.)
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Chen W, Cui Y, He Y, Zhao L, Cui R, Liu X, Huang H, Zhang Y, Fan Y, Feng X, Ni K, Jiang T, Han M, Lei Y, Liu M, Meng Y, Chen X, Lu X, Wang D, Wang J, Wang S, Guo L, Chen Q, Ye W. Raffinose degradation-related gene GhAGAL3 was screened out responding to salinity stress through expression patterns of GhAGALs family genes. FRONTIERS IN PLANT SCIENCE 2023; 14:1246677. [PMID: 38192697 PMCID: PMC10773686 DOI: 10.3389/fpls.2023.1246677] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/04/2023] [Accepted: 11/27/2023] [Indexed: 01/10/2024]
Abstract
A-galactosidases (AGALs), the oligosaccharide (RFO) catabolic genes of the raffinose family, play crucial roles in plant growth and development and in adversity stress. They can break down the non-reducing terminal galactose residues of glycolipids and sugar chains. In this study, the whole genome of AGALs was analyzed. Bioinformatics analysis was conducted to analyze members of the AGAL family in Gossypium hirsutum, Gossypium arboreum, Gossypium barbadense, and Gossypium raimondii. Meanwhile, RT-qPCR was carried out to analyze the expression patterns of AGAL family members in different tissues of terrestrial cotton. It was found that a series of environmental factors stimulated the expression of the GhAGAL3 gene. The function of GhAGAL3 was verified through virus-induced gene silencing (VIGS). As a result, GhAGAL3 gene silencing resulted in milder wilting of seedlings than the controls, and a significant increase in the raffinose content in cotton, indicating that GhAGAL3 responded to NaCl stress. The increase in raffinose content improved the tolerance of cotton. Findings in this study lay an important foundation for further research on the role of the GhAGAL3 gene family in the molecular mechanism of abiotic stress resistance in cotton.
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Affiliation(s)
- Wenhua Chen
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
- Engineering Research Centre of Cotton, Ministry of Education/College of Agriculture, Xinjiang Agricultural University, Urumqi, China
| | - Yupeng Cui
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Yunxin He
- Hunan Institute of Cotton Science, Changde, Hunan, China
| | - Lanjie Zhao
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Ruifeng Cui
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Xiaoyu Liu
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Hui Huang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Yuexin Zhang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Yapeng Fan
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Xixian Feng
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Kesong Ni
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Tiantian Jiang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Mingge Han
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Yuqian Lei
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Mengyue Liu
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Yuan Meng
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Xiugui Chen
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Xuke Lu
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Delong Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Junjuan Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Shuai Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Lixue Guo
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
| | - Quanjia Chen
- Engineering Research Centre of Cotton, Ministry of Education/College of Agriculture, Xinjiang Agricultural University, Urumqi, China
| | - Wuwei Ye
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Anyang, Henan, China
- Engineering Research Centre of Cotton, Ministry of Education/College of Agriculture, Xinjiang Agricultural University, Urumqi, China
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6
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Marcelino ADADL, Barbosa DD, Fernandes PD, da Silva FDA, de Albuquerque FA, Dias MDS, da Silva CRC, Dos Santos RC. Gas exchange and osmotic adjustment in cotton cultivars subjected to severe salt stress. BRAZ J BIOL 2023; 83:e274499. [PMID: 38055576 DOI: 10.1590/1519-6984.274499] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2023] [Accepted: 10/04/2023] [Indexed: 12/08/2023] Open
Abstract
Salinity is harmful to crops when the concentration of soluble salts overcomes the salinity threshold of the crop, causing osmotic stress and limitations in plant growth. In this scenario, adopting tolerant cultivars is the most adequate strategy to minimize agricultural losses. However, the inheritance of tolerance depends on the genotype. From this perspective, this study assessed the tolerance to severe salt stress in 11 cotton cultivars based on gas exchange parameters and the free proline content. The cultivars were grown in a greenhouse and subjected to 34 days of saline irrigation (10 dS m-1), starting 45 days after seedling emergence (B1 phase). Plant growth was monitored weekly until the end of the salt stress period. The treatments consisted of a combination of two factors: eleven cultivars associated with two electrical conductivity levels of irrigation water (ECw: 0.3 and 10.0 dS m-1). The experimental design was in randomized blocks in a 11 × 2 factorial arrangement with three replications (66 plots), with the experimental unit consisting of one plant per plot. Salinity impacted plant growth, being reflected on the gas exchange and free proline data of most cultivars. However, BRS 286, FMT 705, BRS 416, and BRS Acácia, and CNPA 7MH withstood the effects of stress and osmotically adjusted to the salt stress conditions, thus minimizing the damage to growth. Those cultivars are the most indicated for improvement programs aiming at tolerance to salt stress based on the results found in this research.
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Affiliation(s)
- A D A de L Marcelino
- Universidade Federal da Paraíba - UFPB, Centro de Ciências Agrárias - CCA, Departamento de Fitotecnia e Ciências Ambientais - DFCA, Areia, PB, Brasil
| | - D D Barbosa
- Universidade Federal da Paraíba - UFPB, Centro de Ciências Agrárias - CCA, Departamento de Fitotecnia e Ciências Ambientais - DFCA, Areia, PB, Brasil
| | - P D Fernandes
- Universidade Federal de Campina Grande - UFCG, Centro de Tecnologia e Recursos Naturais - CTRN, Unidade Acadêmica de Engenharia Agrícola - UAEA, Campina Grande, PB, Brasil
| | - F de A da Silva
- Universidade Federal de Campina Grande - UFCG, Centro de Tecnologia e Recursos Naturais - CTRN, Unidade Acadêmica de Engenharia Agrícola - UAEA, Campina Grande, PB, Brasil
| | - F A de Albuquerque
- Empresa Brasileira de Pesquisa Agropecuária - EMBRAPA Algodão, Campina Grande, PB, Brasil
| | - M Dos S Dias
- Universidade Federal de Campina Grande - UFCG, Centro de Tecnologia e Recursos Naturais - CTRN, Unidade Acadêmica de Engenharia Agrícola - UAEA, Campina Grande, PB, Brasil
| | - C R C da Silva
- Empresa Brasileira de Pesquisa Agropecuária - EMBRAPA Algodão, Campina Grande, PB, Brasil
| | - R C Dos Santos
- Empresa Brasileira de Pesquisa Agropecuária - EMBRAPA Algodão, Campina Grande, PB, Brasil
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Chen B, Liu T, Yang Z, Yang S, Chen J. PacBio Full-Length Transcriptome Sequencing Reveals the Mechanism of Salt Stress Response in Sonneratia apetala. PLANTS (BASEL, SWITZERLAND) 2023; 12:3849. [PMID: 38005746 PMCID: PMC10675792 DOI: 10.3390/plants12223849] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2023] [Revised: 11/09/2023] [Accepted: 11/12/2023] [Indexed: 11/26/2023]
Abstract
Sonneratia apetala is an essential mangrove wetland restoration tree species. Studying its molecular mechanism for salt tolerance could lay a foundation for further cultivating excellent resistant germplasm. This study used a combination of PacBio isoform sequencing (Iso-seq) and BGISEQ RNA sequencing (RNA-seq) to analyze the molecular mechanism to salt stress response of one-year-old S. apetala leaves. The growth and physiological analysis showed that physiological indexes such as growth rate, net photosynthetic rate and antioxidant enzyme activity all exhibit significant changes under salt stress. From Iso-seq, a total of 295,501 full-length transcripts, with an average length of 1418 bp, were obtained. RNA-seq produced 4712 differentially expressed genes (DEGs) as compared to a control group. Of these, 930 were identified to be co-expressed during the STEM time sequence analysis. Further, 715 and 444 co-expressed DEGs were annotated by GO and KEGG analyses, respectively. Moreover, 318 of the co-expressed DEGs were annotated as essential genes that were implicated in salt stress response of S. apetala, which were involved in transcription factors, signal transduction, hormone response, ROS homeostasis, osmotic balance, cell wall synthesis or modification. These results provide candidate targets for further characterization and offer insights into the salt-tolerant mechanism of S. apetala.
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Affiliation(s)
- Beibei Chen
- Mangrove Research Center of Guangdong Ocean University, College of Coastal Agricultural Science, Guangdong Ocean University, Zhanjiang 524088, China; (B.C.); (T.L.); (Z.Y.); (S.Y.)
| | - Tingting Liu
- Mangrove Research Center of Guangdong Ocean University, College of Coastal Agricultural Science, Guangdong Ocean University, Zhanjiang 524088, China; (B.C.); (T.L.); (Z.Y.); (S.Y.)
| | - Zhuanying Yang
- Mangrove Research Center of Guangdong Ocean University, College of Coastal Agricultural Science, Guangdong Ocean University, Zhanjiang 524088, China; (B.C.); (T.L.); (Z.Y.); (S.Y.)
| | - Shaoxia Yang
- Mangrove Research Center of Guangdong Ocean University, College of Coastal Agricultural Science, Guangdong Ocean University, Zhanjiang 524088, China; (B.C.); (T.L.); (Z.Y.); (S.Y.)
| | - Jinhui Chen
- School of Breeding and Multiplication (Sanya Institute of Breeding and Multiplication), Hainan University, Sanya 572019, China
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Nazir MF, Chen B, Umer MJ, Sarfraz Z, Peng Z, He S, Iqbal MS, Wang J, Li H, Pan Z, Hu D, Song M, Du X. Transcriptomic analysis reveals the beneficial effects of salt priming on enhancing defense responses in upland cotton under successive salt stress. PHYSIOLOGIA PLANTARUM 2023; 175:e14074. [PMID: 38148226 DOI: 10.1111/ppl.14074] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2023] [Revised: 10/11/2023] [Accepted: 10/24/2023] [Indexed: 12/28/2023]
Abstract
Priming-mediated stress tolerance in plants stimulates defense mechanisms and enables plants to cope with future stresses. Seed priming has been proven effective for tolerance against abiotic stresses; however, underlying genetic mechanisms are still unknown. We aimed to assess upland cotton genotypes and their transcriptional behaviors under salt priming and successive induced salt stress. We pre-selected 16 genotypes based on previous studies and performed morpho-physiological characterization, from which we selected three genotypes, representing different tolerance levels, for transcriptomic analysis. We subjected these genotypes to four different treatments: salt priming (P0), salt priming with salinity dose at 3-true-leaf stage (PD), salinity dose at 3-true-leaf stage without salt priming (0D), and control (CK). Although the three genotypes displayed distinct expression patterns, we identified common differentially expressed genes (DEGs) under PD enriched in pathways related to transferase activity, terpene synthase activity, lipid biosynthesis, and regulation of acquired resistance, indicating the beneficial role of salt priming in enhancing salt stress resistance. Moreover, the number of unique DEGs associated with G. hirsutum purpurascens was significantly higher compared to other genotypes. Coexpression network analysis identified 16 hub genes involved in cell wall biogenesis, glucan metabolic processes, and ribosomal RNA binding. Functional characterization of XTH6 (XYLOGLUCAN ENDOTRANSGLUCOSYLASE/HYDROLASE) using virus-induced gene silencing revealed that suppressing its expression improves plant growth under salt stress. Overall, findings provide insights into the regulation of candidate genes in response to salt stress and the beneficial effects of salt priming on enhancing defense responses in upland cotton.
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Affiliation(s)
- Mian Faisal Nazir
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
| | - Baojun Chen
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
| | - Muhammad Jawad Umer
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
| | - Zareen Sarfraz
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
| | - Zhen Peng
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
- Zhengzhou Research Base, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Zhengzhou University, Zhengzhou, China
- Hainan Yazhou Bay Seed Laboratory, Sanya Nanfan Research Institute of Hainan University, Sanya, China
| | - Shoupu He
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
| | - Muhammad Shahid Iqbal
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
| | - Jingjing Wang
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
| | - Hongge Li
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
- Hainan Yazhou Bay Seed Laboratory, Sanya Nanfan Research Institute of Hainan University, Sanya, China
| | - Zhaoe Pan
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
| | - Daowu Hu
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
- Hainan Yazhou Bay Seed Laboratory, Sanya Nanfan Research Institute of Hainan University, Sanya, China
| | - Meizhen Song
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
| | - Xiongming Du
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS), China
- Zhengzhou Research Base, National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Zhengzhou University, Zhengzhou, China
- Hainan Yazhou Bay Seed Laboratory, Sanya Nanfan Research Institute of Hainan University, Sanya, China
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Li R, Fu R, Li M, Song Y, Li J, Chen C, Gu Y, Liang X, Nie W, Ma L, Wang X, Zhang H, Zhang H. Transcriptome profiling reveals multiple regulatory pathways of Tamarix chinensis in response to salt stress. PLANT CELL REPORTS 2023; 42:1809-1824. [PMID: 37733273 DOI: 10.1007/s00299-023-03067-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2023] [Accepted: 09/03/2023] [Indexed: 09/22/2023]
Abstract
KEY MESSAGE Multiple regulatory pathways of T. chinensis to salt stress were identified through transcriptome data analysis. Tamarix chinensis (Tamarix chinensis Lour.) is a typical halophyte capable of completing its life cycle in soils with medium to high salinity. However, the mechanisms underlying its resistance to high salt stress are still largely unclear. In this study, transcriptome profiling analyses in different organs of T. chinensis plants in response to salt stress were carried out. A total number of 2280, 689, and 489 differentially expressed genes (DEGs) were, respectively, identified in roots, stems, and leaves, with more DEGs detected in roots than in stems and leaves. Gene Ontology (GO) term analysis revealed that they were significantly enriched in "biological processes" and "molecular functions". Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis revealed that "Beta-alanine metabolism" was the most differentially enriched pathway in roots, stems, and leaves. In pair-to-pair comparison of the most differentially enriched pathways, a total of 14 pathways, including 5 pathways in roots and leaves, 6 pathways in roots and stems, and 3 pathways in leaves and stems, were identified. Furthermore, genes encoding transcription factor, such as bHLH, bZIP, HD-Zip, MYB, NAC, WRKY, and genes associated with oxidative stress, starch and sucrose metabolism, and ion homeostasis, were differentially expressed with distinct organ specificity in roots, stems, and leaves. Our findings in this research provide a novel approach for exploring the salt tolerance mechanism of halophytes and identifying new gene targets for the genetic breeding of new plant cultivars with improved resistance to salt stress.
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Affiliation(s)
- Ruxia Li
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
| | - Rao Fu
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
| | - Meng Li
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
| | - Yanjing Song
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
| | - Junlin Li
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
| | - Chuanjie Chen
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
| | - Yinyu Gu
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
| | - Xiaoyan Liang
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
| | - Wenjing Nie
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
| | - Lan Ma
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
| | - Xiangyu Wang
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China
| | - Haiyang Zhang
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China.
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China.
| | - Hongxia Zhang
- Yantai Engineering Research Center for Plant Stem Cell Targeted Breeding, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China.
- Yantai Key Laboratory for Evaluation and Utilization of Silkworm Functional Substances, Shandong Institute of Sericulture, 21 Zhichubei Road, Yantai, 264001, Shandong Province, China.
- 3The Engineering Research Institute of Agriculture and Forestry, Ludong University, 186 Hongqizhong Road, Yantai, 264025, Shandong Province, China.
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10
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Peng Z, Rehman A, Li X, Jiang X, Tian C, Wang X, Li H, Wang Z, He S, Du X. Comprehensive Evaluation and Transcriptome Analysis Reveal the Salt Tolerance Mechanism in Semi-Wild Cotton ( Gossypium purpurascens). Int J Mol Sci 2023; 24:12853. [PMID: 37629034 PMCID: PMC10454576 DOI: 10.3390/ijms241612853] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2023] [Revised: 08/03/2023] [Accepted: 08/14/2023] [Indexed: 08/27/2023] Open
Abstract
Elevated salinity significantly threatens cotton growth, particularly during the germination and seedling stages. The utilization of primitive species of Gossypium hirsutum, specifically Gossypium purpurascens, has the potential to facilitate the restoration of genetic diversity that has been depleted due to selective breeding in modern cultivars. This investigation evaluated 45 G. purpurascens varieties and a salt-tolerant cotton variety based on 34 morphological, physiological, and biochemical indicators and comprehensive salt tolerance index values. This study effectively identified a total of 19 salt-tolerant and two salt-resistant varieties. Furthermore, transcriptome sequencing of a salt-tolerant genotype (Nayanmian-2; NY2) and a salt-sensitive genotype (Sanshagaopao-2; GP2) revealed 2776, 6680, 4660, and 4174 differentially expressed genes (DEGs) under 0.5, 3, 12, and 24 h of salt stress. Gene ontology enrichment analysis indicated that the DEGs exhibited significant enrichment in biological processes like metabolic (GO:0008152) and cellular (GO:0009987) processes. MAPK signaling, plant-pathogen interaction, starch and sucrose metabolism, plant hormone signaling, photosynthesis, and fatty acid metabolism were identified as key KEGG pathways involved in salinity stress. Among the DEGs, including NAC, MYB, WRKY, ERF, bHLH, and bZIP, transcription factors, receptor-like kinases, and carbohydrate-active enzymes were crucial in salinity tolerance. Weighted gene co-expression network analysis (WGCNA) unveiled associations of salt-tolerant genotypes with flavonoid metabolism, carbon metabolism, and MAPK signaling pathways. Identifying nine hub genes (MYB4, MYB105, MYB36, bZIP19, bZIP43, FRS2 SMARCAL1, BBX21, F-box) across various intervals offered insights into the transcriptional regulation mechanism of salt tolerance in G. purpurascens. This study lays the groundwork for understanding the important pathways and gene networks in response to salt stress, thereby providing a foundation for enhancing salt tolerance in upland cotton.
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Affiliation(s)
- Zhen Peng
- Zhengzhou Research Base, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, China; (Z.P.); (A.R.); (X.L.); (X.J.); (C.T.); (X.W.); (H.L.)
- National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, China;
- National Nanfan Research Institute (Sanya), Chinese Academy of Agricultural Sciences, Sanya 572025, China
| | - Abdul Rehman
- Zhengzhou Research Base, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, China; (Z.P.); (A.R.); (X.L.); (X.J.); (C.T.); (X.W.); (H.L.)
- National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, China;
| | - Xiawen Li
- Zhengzhou Research Base, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, China; (Z.P.); (A.R.); (X.L.); (X.J.); (C.T.); (X.W.); (H.L.)
| | - Xuran Jiang
- Zhengzhou Research Base, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, China; (Z.P.); (A.R.); (X.L.); (X.J.); (C.T.); (X.W.); (H.L.)
| | - Chunyan Tian
- Zhengzhou Research Base, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, China; (Z.P.); (A.R.); (X.L.); (X.J.); (C.T.); (X.W.); (H.L.)
| | - Xiaoyang Wang
- Zhengzhou Research Base, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, China; (Z.P.); (A.R.); (X.L.); (X.J.); (C.T.); (X.W.); (H.L.)
| | - Hongge Li
- Zhengzhou Research Base, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, China; (Z.P.); (A.R.); (X.L.); (X.J.); (C.T.); (X.W.); (H.L.)
- National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, China;
| | - Zhenzhen Wang
- National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, China;
| | - Shoupu He
- Zhengzhou Research Base, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, China; (Z.P.); (A.R.); (X.L.); (X.J.); (C.T.); (X.W.); (H.L.)
- National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, China;
- National Nanfan Research Institute (Sanya), Chinese Academy of Agricultural Sciences, Sanya 572025, China
| | - Xiongming Du
- Zhengzhou Research Base, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, China; (Z.P.); (A.R.); (X.L.); (X.J.); (C.T.); (X.W.); (H.L.)
- National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, China;
- National Nanfan Research Institute (Sanya), Chinese Academy of Agricultural Sciences, Sanya 572025, China
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11
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Shehzad M, Ditta A, Cai X, Ur Rahman S, Xu Y, Wang K, Zhou Z, Fang L. Identification of salt stress-tolerant candidate genes in the BC 2F 2 population at the seedling stages of G. hirsutum and G. darwinii using NGS-based bulked segregant analysis. FRONTIERS IN PLANT SCIENCE 2023; 14:1125805. [PMID: 37465381 PMCID: PMC10350501 DOI: 10.3389/fpls.2023.1125805] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/16/2022] [Accepted: 05/02/2023] [Indexed: 07/20/2023]
Abstract
Salinity is a major threat to the yield and productivity of cotton seedlings. In the present study, we developed a BC2F2 population of cotton plants from Gossypium darwinii (5-7) and Gossypium hirsutum (CCRI 12-4) salt-susceptible parents to identify salt-resistant candidate genes. The Illumina HiSeq™ strategy was used with bulked segregant analysis. Salt-resistant and salt-susceptible DNA bulks were pooled by using 30 plants from a BC2F2 population. Next-generation sequencing (NGS) technology was used for the sequencing of parents and both bulks. Four significant genomic regions were identified: the first genomic region was located on chromosome 18 (1.86 Mb), the second and third genomic regions were on chromosome 25 (1.06 Mb and 1.94 Mb, respectively), and the fourth was on chromosome 8 (1.41 Mb). The reads of bulk1 and bulk2 were aligned to the G. darwinii and G. hirsutum genomes, respectively, leading to the identification of 20,664,007 single-nucleotide polymorphisms (SNPs) and insertions/deletions (indels). After the screening, 6,573 polymorphic markers were obtained after filtration of the candidate regions. The SNP indices in resistant and susceptible bulks and Δ(SNP-index) values of resistant and susceptible bulks were measured. Based on the higher Δ(SNP-index) value, six effective polymorphic SNPs were selected in a different chromosome. Six effective SNPs were linked to five candidate genes in four genomic regions. Further validation of these five candidate genes was carried out using reverse transcription-quantitative polymerase chain reaction (RT-qPCR), resulting in an expression profile that showed two highly upregulated genes in the salt-tolerant species G. darwinii, i.e., Gohir.D05G367800 and Gohir.D12G239100; however, the opposite was shown in G. hirsutum, for which all genes, except one, showed partial expression. The results indicated that Gohir.D05G367800 and Gohir.D12G239100 may be salt-tolerant genes. We are confident that this study could be helpful for the cloning, transformation, and development of salt-resistant cotton varieties.
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Affiliation(s)
- Muhammad Shehzad
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, China
| | - Allah Ditta
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, China
- Plant Breeding and Genetics Division, Cotton Group, Nuclear Institute for Agriculture and Biology (NIAB), Faisalabad, Punjab, Pakistan
| | - Xiaoyan Cai
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, China
- National Nanfan Research Institute of Chinese Academy of Agriculture Sciences, Sanya, China
| | - Shafeeq Ur Rahman
- MOE Laboratory for Earth Surface Processes, College of Urban and Environmental Sciences, Peking University, Beijing, China
| | - Yanchao Xu
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, China
- National Nanfan Research Institute of Chinese Academy of Agriculture Sciences, Sanya, China
| | - Kunbo Wang
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, China
| | - Zhongli Zhou
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, China
| | - Liu Fang
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, China
- National Nanfan Research Institute of Chinese Academy of Agriculture Sciences, Sanya, China
- School of Agricultural Sciences, Zhengzhou University, Zhengzhou, Henan, China
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12
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Rawal HC, Ali S, Mondal TK. Role of non-coding RNAs against salinity stress in Oryza species: Strategies and challenges in analyzing miRNAs, tRFs and circRNAs. Int J Biol Macromol 2023; 242:125172. [PMID: 37268077 DOI: 10.1016/j.ijbiomac.2023.125172] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2023] [Revised: 05/03/2023] [Accepted: 05/24/2023] [Indexed: 06/04/2023]
Abstract
Salinity is an imbalanced concentration of mineral salts in the soil or water that causes yield loss in salt-sensitive crops. Rice plant is vulnerable to soil salinity stress at seedling and reproductive stages. Different non-coding RNAs (ncRNAs) post-transcriptionally regulate different sets of genes during different developmental stages under varying salinity tolerance levels. While microRNAs (miRNAs) are well known small endogenous ncRNAs, tRNA-derived RNA fragments (tRFs) are an emerging class of small ncRNAs derived from tRNA genes with a demonstrated regulatory role, like miRNAs, in humans but unexplored in plants. Circular RNA (circRNA), another ncRNA produced by back-splicing events, acts as target mimics by preventing miRNAs from binding with their target mRNAs, thereby reducing the miRNA's action upon its target. Same may hold true between circRNAs and tRFs. Hence, the work done on these ncRNAs was reviewed and no reports were found for circRNAs and tRFs under salinity stress in rice, either at seedling or reproductive stages. Even the reports on miRNAs are restricted to seedling stage only, in spite of severe effects on rice crop production due to salt stress during reproductive stage. Moreover, this review sheds light on strategies to predict and analyze these ncRNAs in an effective manner.
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Affiliation(s)
- Hukam Chand Rawal
- ICAR-National Institute for Plant Biotechnology, LBS Centre, Pusa, New Delhi 110012, India; School of Interdisciplinary Sciences and Technology, Jamia Hamdard (Hamdard University), Hamdard Nagar, New Delhi 110062, India
| | - Shakir Ali
- School of Interdisciplinary Sciences and Technology, Jamia Hamdard (Hamdard University), Hamdard Nagar, New Delhi 110062, India; Department of Biochemistry, School of Chemical and Life Sciences, Jamia Hamdard (Hamdard University), Hamdard Nagar, New Delhi 110062, India
| | - Tapan Kumar Mondal
- ICAR-National Institute for Plant Biotechnology, LBS Centre, Pusa, New Delhi 110012, India.
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Farooq MA, Chattha WS, Shafique MS, Karamat U, Tabusam J, Zulfiqar S, Shakeel A. Transgenerational impact of climatic changes on cotton production. FRONTIERS IN PLANT SCIENCE 2023; 14:987514. [PMID: 37063216 PMCID: PMC10102597 DOI: 10.3389/fpls.2023.987514] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/06/2022] [Accepted: 02/28/2023] [Indexed: 06/19/2023]
Abstract
Changing climatic conditions are an increasing threat to cotton production worldwide. There is a need to develop multiple stress-tolerant cotton germplasms that can adapt to a wide range of environments. For this purpose, 30 cotton genotypes were evaluated for two years under drought (D), heat (H), and drought + heat stresses (DH) under field conditions. Results indicated that plant height, number of bolls, boll weight, seed cotton yield, fiber fineness, fiber strength, fiber length, K+, K+/Na+, relative water contents (RWC), chlorophyll a and b, carotenoids, and total soluble proteins got reduced under D and H and were lowest under DH, whereas superoxidase dismutase (SOD), H2O2, Na+, GOT%, total phenolic contents, ascorbate, and flavonoids got increased for consecutive years. Correlation studies indicated that there was a positive correlation between most of the traits, but a negative correlation with H2O2 and Na+ ions. PCA and clustering analysis indicated that MNH-786, KAHKSHAN, CEMB-33, MS-71, FH-142, NIAB-820, CRS-2007, and FH-312 consistently performed better than other genotypes for most traits under stress conditions. Identified genotypes can be utilized in the future cotton breeding program to develop high-yielding, climate change-resilient cotton.
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Affiliation(s)
- Muhammad Awais Farooq
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad, Pakistan
- Molecular Virology Laboratory, National Institute of Biotechnology and Genetic Engineering, Faisalabad, Pakistan
- State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei, Collaborative Innovation Center of Vegetable Industry in Hebei, College of Horticulture, Hebei Agricultural University, Beijing, China
| | - Waqas Shafqat Chattha
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad, Pakistan
| | - Muhammad Sohaib Shafique
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad, Pakistan
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Umer Karamat
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad, Pakistan
- State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei, Collaborative Innovation Center of Vegetable Industry in Hebei, College of Horticulture, Hebei Agricultural University, Beijing, China
| | - Javaria Tabusam
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad, Pakistan
- State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei, Collaborative Innovation Center of Vegetable Industry in Hebei, College of Horticulture, Hebei Agricultural University, Beijing, China
| | - Sumer Zulfiqar
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad, Pakistan
- State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei, Collaborative Innovation Center of Vegetable Industry in Hebei, College of Horticulture, Hebei Agricultural University, Beijing, China
| | - Amir Shakeel
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad, Pakistan
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14
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Ju F, Sun L, Xiong C, Wang Z, Yu H, Pang J, Bai H, Zhao W, Zhou Z, Chen B. Weighted gene co-expression network analysis revealed the key pathways and hub genes of potassium regulating cotton root adaptation to salt stress. FRONTIERS IN PLANT SCIENCE 2023; 14:1132877. [PMID: 36938049 PMCID: PMC10014550 DOI: 10.3389/fpls.2023.1132877] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/28/2022] [Accepted: 02/10/2023] [Indexed: 06/18/2023]
Abstract
Soil salinization is one of the main abiotic stresses affecting cotton yield and planting area. Potassium application has been proven to be an important strategy to reduce salt damage in agricultural production. However, the mechanism of potassium regulating the salt adaptability of cotton has not been fully elucidated. In the present research, the appropriate potassium application rate for alleviating salt damage of cotton based on different K+/Na+ ratios we screened, and a gene co-expression network based on weighted gene co-expression network analysis (WGCNA) using the transcriptome data sets treated with CK (0 mM NaCl), S (150 mM NaCl), and SK8 (150 mM NaCl + 9.38 mM K2SO4) was constructed. In this study, four key modules that are highly related to potassium regulation of cotton salt tolerance were identified, and the mitogen-activated protein kinase (MAPK) signaling pathway, tricarboxylic acid (TCA) cycle and glutathione metabolism pathway were identified as the key biological processes and metabolic pathways for potassium to improve cotton root salt adaptability. In addition, 21 hub genes and 120 key candidate genes were identified in this study, suggesting that they may play an important role in the enhancement of salt adaptability of cotton by potassium. The key modules, key biological pathways and hub genes discovered in this study will provide a new understanding of the molecular mechanism of potassium enhancing salinity adaptability in cotton, and lay a theoretical foundation for the improvement and innovation of high-quality cotton germplasm.
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Affiliation(s)
- Feiyan Ju
- College of Agriculture, Nanjing Agricultural University, Nanjing, China
- Collaborative Innovation Center for Modern Crop Production co-sponsored by Province and Ministry, Nanjing, China
| | - Liyuan Sun
- College of Agriculture, Nanjing Agricultural University, Nanjing, China
- Collaborative Innovation Center for Modern Crop Production co-sponsored by Province and Ministry, Nanjing, China
| | - Cai Xiong
- College of Agriculture, Nanjing Agricultural University, Nanjing, China
- Collaborative Innovation Center for Modern Crop Production co-sponsored by Province and Ministry, Nanjing, China
| | - Zhuo Wang
- College of Agriculture, Nanjing Agricultural University, Nanjing, China
- Collaborative Innovation Center for Modern Crop Production co-sponsored by Province and Ministry, Nanjing, China
| | - Huilian Yu
- College of Agriculture, Nanjing Agricultural University, Nanjing, China
- Collaborative Innovation Center for Modern Crop Production co-sponsored by Province and Ministry, Nanjing, China
| | - Jiali Pang
- College of Agriculture, Nanjing Agricultural University, Nanjing, China
- Collaborative Innovation Center for Modern Crop Production co-sponsored by Province and Ministry, Nanjing, China
| | - Hua Bai
- School of Agricultural Sciences, Northwest Missouri State University, Maryville, MO, United States
| | - Wengqing Zhao
- College of Agriculture, Nanjing Agricultural University, Nanjing, China
- Collaborative Innovation Center for Modern Crop Production co-sponsored by Province and Ministry, Nanjing, China
| | - Zhiguo Zhou
- College of Agriculture, Nanjing Agricultural University, Nanjing, China
- Collaborative Innovation Center for Modern Crop Production co-sponsored by Province and Ministry, Nanjing, China
| | - Binglin Chen
- College of Agriculture, Nanjing Agricultural University, Nanjing, China
- Collaborative Innovation Center for Modern Crop Production co-sponsored by Province and Ministry, Nanjing, China
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15
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Wang X, Tian Z, Xi Y, Guo Y. Identification of endophytic fungi with ACC deaminase-producing isolated from halophyte Kosteletzkya Virginica. PLANT SIGNALING & BEHAVIOR 2022; 17:2152224. [PMID: 36463534 PMCID: PMC9721417 DOI: 10.1080/15592324.2022.2152224] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/25/2022] [Revised: 11/22/2022] [Accepted: 11/22/2022] [Indexed: 06/17/2023]
Abstract
Seashore mallow (Kosteletzkya virginica), as a noninvasive perennial halophytic oilseed-producing dicot, is native from the Gulf to the Atlantic coasts of the U.S. The purpose of our research was to investigate 1-aminocyclopropane-1carboxylic acid deaminase (ACCD) producing endophytic fungi from K.virginica. A total of 59 endophytic fungal strains, isolated from roots in K.virginica of seedlings, were grouped into 12 genera including in Penicillium, Aspergillus, Fusarium, Trichoderma, Rhizopycnis sp., Ceriporia Donk, Trametes sp., Schizophyllum commune sp., Alternaria, Cladosporium, Cylindrocarpon, and Scytalidium according to sequences of ITS. The ACD activity of 10 endophytic fungi isolated was detected. T.asperellum had the highest ACC deaminase activity among all 10 isolated genera of fungal strains, followed by T. viride. Dry weight and fresh weight of plant, plant height, root length, SOD activity, and chlorophyll content of wheat and soybean inoculated with T.asperellum or T. viride was increased compared with non-inoculated control plants under non salt or salt stress. Further analysis showed that T.asperellum or T.viride strains induced downregulation of the expression of ethylene synthesis-related genes such as ACC oxidase (ACO) and ACC synthase (ACS), thereby reducing ethylene synthesis and damage to plants under salt stress. These endophytic fungi can be used as alternative bioinoculants to increase crop yield in saline soil.
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Affiliation(s)
- Xiaomin Wang
- School of Life Sciences, Zhengzhou University, Zhengzhou, China
| | - Zengyuan Tian
- School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China
| | - Yu Xi
- School of Life Sciences, Zhengzhou University, Zhengzhou, China
| | - Yuqi Guo
- School of Life Sciences, Zhengzhou University, Zhengzhou, China
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16
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Li C, Li Y, Chu P, Hao-hao Z, Wei Z, Cheng Y, Liu X, Zhao F, Li YJ, Zhang Z, Zheng Y, Mu Z. Effects of salt stress on sucrose metabolism and growth in Chinese rose ( Rosa chinensis). BIOTECHNOL BIOTEC EQ 2022. [DOI: 10.1080/13102818.2022.2116356] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
Affiliation(s)
- Caihua Li
- Economic Crop Research Laboratory, Economic Crops Institute, Jilin Academy of Agricultural Sciences, Changchun, PR China
| | - Yuhuan Li
- Economic Crop Research Laboratory, Economic Crops Institute, Jilin Academy of Agricultural Sciences, Changchun, PR China
| | - Peiyu Chu
- Laboratory of Economic Crops, Agricultural College, Heilongjiang Bayi Agriculture University, Daqing, PR China
| | - Zhao Hao-hao
- Laboratory of Economic Crops, Agricultural College, Heilongjiang Bayi Agriculture University, Daqing, PR China
| | - Zunmiao Wei
- Economic Crop Research Laboratory, Economic Crops Institute, Jilin Academy of Agricultural Sciences, Changchun, PR China
| | - Yan Cheng
- Economic Crop Research Laboratory, Economic Crops Institute, Jilin Academy of Agricultural Sciences, Changchun, PR China
| | - Xianxian Liu
- Economic Crop Research Laboratory, Economic Crops Institute, Jilin Academy of Agricultural Sciences, Changchun, PR China
| | - Fengzhou Zhao
- Laboratory of Economic Crops, Agricultural College, Heilongjiang Bayi Agriculture University, Daqing, PR China
| | - Yan-jun Li
- Economic Crop Research Laboratory, Economic Crops Institute, Jilin Academy of Agricultural Sciences, Changchun, PR China
| | - Zhiwen Zhang
- Laboratory of Economic Crops, Agricultural College, Heilongjiang Bayi Agriculture University, Daqing, PR China
| | - Yi Zheng
- Economic Crop Research Laboratory, Economic Crops Institute, Jilin Academy of Agricultural Sciences, Changchun, PR China
| | - Zhongsheng Mu
- Economic Crop Research Laboratory, Economic Crops Institute, Jilin Academy of Agricultural Sciences, Changchun, PR China
- Laboratory of Economic Crops, Agricultural College, Heilongjiang Bayi Agriculture University, Daqing, PR China
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17
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Khan TA, Saleem M, Fariduddin Q. Recent advances and mechanistic insights on Melatonin-mediated salt stress signaling in plants. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2022; 188:97-107. [PMID: 35995025 DOI: 10.1016/j.plaphy.2022.08.007] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2022] [Revised: 08/06/2022] [Accepted: 08/11/2022] [Indexed: 06/15/2023]
Abstract
Salinity stress is one of the major abiotic constraints that limit plant growth and yield, which thereby is a serious concern to world food security. It adversely affects crop production by inducing hyperosmotic stress and ionic toxicity as well as secondary stresses such as oxidative stress, all of which disturb optimum physiology and metabolism. Nonetheless, various strategies have been employed to improve salt tolerance in crop plants, among which the application of Melatonin (Mel) could also be used as it has demonstrated promising results. The ongoing experimental evidence revealed that Mel is a pleiotropic signaling molecule, which besides being involved in various growth and developmental processes also mediates environmental stress responses. The current review systematically discusses and summarizes how Mel mediates the response of plants under salt stress and could optimize the balance between plant growth performances and stress responses. Specifically, it covers the latest advances of Mel in fine-tuning the signaling in plants. Furthermore, it highlights plant-built tolerance of salt stress by manifesting the biosynthesis of Mel, its cross talks with nitric oxide (NO), and Mel as a multifaceted antioxidant molecule.
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Affiliation(s)
- Tanveer Ahmad Khan
- Plant Physiology and Biochemistry Section, Department of Botany, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, 202002, India
| | - Mohd Saleem
- Plant Physiology and Biochemistry Section, Department of Botany, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, 202002, India
| | - Qazi Fariduddin
- Plant Physiology and Biochemistry Section, Department of Botany, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, 202002, India.
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18
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Saud S, Wang L. Mechanism of cotton resistance to abiotic stress, and recent research advances in the osmoregulation related genes. FRONTIERS IN PLANT SCIENCE 2022; 13:972635. [PMID: 36061778 PMCID: PMC9428623 DOI: 10.3389/fpls.2022.972635] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2022] [Accepted: 07/25/2022] [Indexed: 05/27/2023]
Abstract
Abiotic stress is an important factor affecting the normal growth and development of plants and crop yield. To reduce the impact of abiotic adversity on cotton growth and development, the material basis of cotton resistance and its physiological functions are analyzed at the molecular level. At the same time, the use of genetic engineering methods to recombine resistance genes has become a hot spot in cotton resistance research. This paper provides an overviews of the resistance mechanism of cotton against the threat of non-biological adversity, as well as the research progress of osmoregulation-related genes, protein-acting genes, and transcription regulatory factor genes in recent years, and outlines the explored gene resources in cotton resistance genetic engineering, with the aim to provide ideas and reference bases for future research on cotton resistance.
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Duan S, Xu Z, Li XY, Liao P, Qin HK, Mao YP, Dai WS, Ma HJ, Bao ML. Dodder-transmitted mobile systemic signals activate a salt-stress response characterized by a transcriptome change in Citrus sinensis. FRONTIERS IN PLANT SCIENCE 2022; 13:986365. [PMID: 36046588 PMCID: PMC9422749 DOI: 10.3389/fpls.2022.986365] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/05/2022] [Accepted: 07/21/2022] [Indexed: 06/15/2023]
Abstract
Citrus is an essential horticultural fruit whose yield and quality are affected by salinity all over the world. The recognition and adaptive regulation of citrus against salt stress are important areas for cultivar improvement, but the vascular system signal transduction mechanism of the plant response to salt stress remains elusive. In this study, we constructed a dodder (Cuscuta spp.) linked Hamlin sweet orange (Citrus sinensis) plant community in which deliver a vascular signal through the dodder in response to salt stress. RNA-seq technology was used to analyze the gene expression profile of citrus leaves after salt treatment. The results showed that a vascular signal was transmitted to a dodder-linked host plant, triggering a transcriptional response to salt stress. However, the phenotypic and transudative ability of the dodder changed after 24 h. The salt treatment group (Group S) and the dodder-linked group (Group D) respectively contained 1,472 and 557 differentially expressed genes (DEGs). 454 of which were common to both groups. The results of our analysis revealed that the gene expression categories in Group D represented a highly consistent trend compared to the group S plants, indicating that the dodder-bridged vascular signals activated the stress-response of citrus leaves for transcriptomic reconfiguration. The KEGG pathway database and an analysis of key drivers revealed that phenylpropanoid biosynthesis, photosynthesis-antenna proteins, starch and sucrose metabolism, plant hormone signal transduction, circadian rhythm, and MAPK signaling pathways were significantly enriched as the critical genes during salt stress. A systemic signal in the dodder-bridged host significantly regulated abiotic stress-related secondary metabolic pathways, including those for phenylpropanoids, lignin, and lignans. The physiological indexes of photosynthetic intensity, respiration, and attractiveness among communities supported the transcriptional changes. Thus, our results indicate that salt stress-induced vascular system signals can be transmitted through the vascular system of a dodder linking citrus plants, revealing the genetic regulation and physiological changes of citrus leaves responding to plant stress signal transmission.
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Affiliation(s)
- Shuo Duan
- China-USA Citrus Huanglongbing Joint Laboratory, National Navel Orange Engineering Research Center, Gannan Normal University, Ganzhou, China
| | - Zhou Xu
- China-USA Citrus Huanglongbing Joint Laboratory, National Navel Orange Engineering Research Center, Gannan Normal University, Ganzhou, China
| | - Xin-Yu Li
- China-USA Citrus Huanglongbing Joint Laboratory, National Navel Orange Engineering Research Center, Gannan Normal University, Ganzhou, China
| | - Ping Liao
- China-USA Citrus Huanglongbing Joint Laboratory, National Navel Orange Engineering Research Center, Gannan Normal University, Ganzhou, China
| | - Hong-Kun Qin
- China-USA Citrus Huanglongbing Joint Laboratory, National Navel Orange Engineering Research Center, Gannan Normal University, Ganzhou, China
| | - Ya-Ping Mao
- China-USA Citrus Huanglongbing Joint Laboratory, National Navel Orange Engineering Research Center, Gannan Normal University, Ganzhou, China
| | - Wen-Shan Dai
- China-USA Citrus Huanglongbing Joint Laboratory, National Navel Orange Engineering Research Center, Gannan Normal University, Ganzhou, China
| | - Hai-Jie Ma
- College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
| | - Min-Li Bao
- China-USA Citrus Huanglongbing Joint Laboratory, National Navel Orange Engineering Research Center, Gannan Normal University, Ganzhou, China
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20
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Dong Y, Hu G, Grover CE, Miller ER, Zhu S, Wendel JF. Parental legacy versus regulatory innovation in salt stress responsiveness of allopolyploid cotton (Gossypium) species. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2022; 111:872-887. [PMID: 35686631 PMCID: PMC9540634 DOI: 10.1111/tpj.15863] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/18/2022] [Revised: 06/06/2022] [Accepted: 06/07/2022] [Indexed: 06/15/2023]
Abstract
Polyploidy provides an opportunity for evolutionary innovation and species diversification, especially under stressful conditions. In allopolyploids, the conditional dynamics of homoeologous gene expression can be either inherited from ancestral states pre-existing in the parental diploids or novel upon polyploidization, the latter potentially permitting a wider range of phenotypic responses to stresses. To gain insight into regulatory mechanisms underlying the diversity of salt resistance in Gossypium species, we compared global transcriptomic responses to modest salinity stress in two allotetraploid (AD-genome) cotton species, Gossypium hirsutum and G. mustelinum, relative to their model diploid progenitors (A-genome and D-genome). Multivariate and pairwise analyses of salt-responsive changes revealed a profound alteration of gene expression for about one third of the transcriptome. Transcriptional responses and associated functional implications of salt acclimation varied across species, as did species-specific coexpression modules among species and ploidy levels. Salt responsiveness in both allopolyploids was strongly biased toward the D-genome progenitor. A much lower level of transgressive downregulation was observed in the more salt-tolerant G. mustelinum than in the less tolerant G. hirsutum. By disentangling inherited effects from evolved responses, we show that expression biases that are not conditional upon salt stress approximately equally reflect parental legacy and regulatory novelty upon allopolyploidization, whereas stress-responsive biases are predominantly novel, or evolved, in allopolyploids. Overall, our work suggests that allopolyploid cottons acquired a wide range of stress response flexibility relative to their diploid ancestors, most likely mediated by complex suites of duplicated genes and regulatory factors.
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Affiliation(s)
- Yating Dong
- Department of AgronomyZhejiang UniversityHangzhouZhejiang310 053China
- Department of Ecology, Evolution, and Organismal Biology (EEOB), Bessey HallIowa State UniversityAmesIA50011USA
| | - Guanjing Hu
- State Key Laboratory of Cotton BiologyInstitute of Cotton Research, Chinese Academy of Agricultural SciencesAnyang455 000China
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural AffairsAgricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural SciencesShenzhen518 120China
| | - Corrinne E. Grover
- Department of Ecology, Evolution, and Organismal Biology (EEOB), Bessey HallIowa State UniversityAmesIA50011USA
| | - Emma R. Miller
- Department of Ecology, Evolution, and Organismal Biology (EEOB), Bessey HallIowa State UniversityAmesIA50011USA
| | - Shuijin Zhu
- Department of AgronomyZhejiang UniversityHangzhouZhejiang310 053China
| | - Jonathan F. Wendel
- Department of Ecology, Evolution, and Organismal Biology (EEOB), Bessey HallIowa State UniversityAmesIA50011USA
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Chen B, Ding Z, Zhou X, Wang Y, Huang F, Sun J, Chen J, Han W. Integrated Full-Length Transcriptome and MicroRNA Sequencing Approaches Provide Insights Into Salt Tolerance in Mangrove ( Sonneratia apetala Buch.-Ham.). Front Genet 2022; 13:932832. [PMID: 35899202 PMCID: PMC9310009 DOI: 10.3389/fgene.2022.932832] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2022] [Accepted: 06/08/2022] [Indexed: 11/13/2022] Open
Abstract
MicroRNAs (miRNAs) are small RNA molecules that serve as key players in plant stress responses. Although stress-regulated miRNAs have been explored in various plants, they are not well studied in mangroves. Herein, we combined PacBio isoform sequencing (Iso-Seq) with BGISEQ short-read RNA-seq to probe the role of miRNAs in the salt stress response of the mangrove plant, Sonneratia apetala Buch.-Ham. A total of 1,702,463 circular consensus sequencing reads were generated that produced 295,501 nonredundant full-length transcripts from the leaves of a 1-year-old S. apetala. After sequencing nine small RNA libraries constructed from control and 1- and 28-day 300 mM NaCl treatments, we identified 143 miRNAs (114 known and 29 novel) from a total of >261 million short reads. With the criteria of |log2FC| ≥ 1 and q-value < 0.05, 42 and 70 miRNAs were differentially accumulated after 1- and 28-day salt treatments, respectively. These differential accumulated miRNAs potentially targeted salt-responsive genes encoding transcription factors, ion homeostasis, osmotic protection, and detoxificant-related proteins, reminiscent of their responsibility for salinity adaptation in S. apetala. Particularly, 62 miRNAs were Sonneratia specific under salt stress, of which 34 were co-expressed with their 131 predicted targets, thus producing 140 miRNA-target interactions. Of these, 82 miRNA-target pairs exhibited negative correlations. Eighteen miRNA targets were categorized for the 'environmental information processing' during KEGG analysis and were related to plant hormone signal transduction (ko04075), MAPK signaling pathway-plant (ko04016), and ABC transporters (ko02010). These results underscored miRNAs as possible contributors to mangrove success in severe environments and offer insights into an miRNA-mediated regulatory mechanism of salt response in S. apetala.
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Affiliation(s)
- Beibei Chen
- College of Coastal Agricultural Science, Guangdong Ocean University, Zhanjiang, China
| | - Zeyi Ding
- College of Coastal Agricultural Science, Guangdong Ocean University, Zhanjiang, China
| | - Xiang Zhou
- College of Coastal Agricultural Science, Guangdong Ocean University, Zhanjiang, China
| | - Yue Wang
- Hainan Yazhou Bay Seed Laboratory, Sanya Nanfan Research Institute of Hainan University, Sanya, China
| | - Fei Huang
- College of Coastal Agricultural Science, Guangdong Ocean University, Zhanjiang, China
| | - Jiaxin Sun
- College of Coastal Agricultural Science, Guangdong Ocean University, Zhanjiang, China
| | - Jinhui Chen
- Hainan Yazhou Bay Seed Laboratory, Sanya Nanfan Research Institute of Hainan University, Sanya, China
| | - Weidong Han
- College of Coastal Agricultural Science, Guangdong Ocean University, Zhanjiang, China
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22
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Mao Y, Cui X, Wang H, Qin X, Liu Y, Yin Y, Su X, Tang J, Wang F, Ma F, Duan N, Zhang D, Hu Y, Wang W, Wei S, Chen X, Mao Z, Chen X, Shen X. De novo assembly provides new insights into the evolution of Elaeagnus angustifolia L. PLANT METHODS 2022; 18:84. [PMID: 35717244 PMCID: PMC9206267 DOI: 10.1186/s13007-022-00915-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/09/2022] [Accepted: 05/26/2022] [Indexed: 05/04/2023]
Abstract
BACKGROUND Elaeagnus angustifolia L. is a deciduous tree in the family Elaeagnaceae. It is widely used to study abiotic stress tolerance in plants and to improve desertification-affected land because of its ability to withstand diverse types of environmental stress, such as drought, salt, cold, and wind. However, no studies have examined the mechanisms underlying the resistance of E. angustifolia to environmental stress and its adaptive evolution. METHODS Here, we used PacBio, Hi-C, resequencing, and RNA-seq to construct the genome and transcriptome of E. angustifolia and explore its adaptive evolution. RESULTS The reconstructed genome of E. angustifolia was 526.80 Mb, with a contig N50 of 12.60 Mb and estimated divergence time of 84.24 Mya. Gene family expansion and resequencing analyses showed that the evolution of E. angustifolia was closely related to environmental conditions. After exposure to salt stress, GO pathway analysis showed that new genes identified from the transcriptome were related to ATP-binding, metal ion binding, and nucleic acid binding. CONCLUSION The genome sequence of E. angustifolia could be used for comparative genomic analyses of Elaeagnaceae family members and could help elucidate the mechanisms underlying the response of E. angustifolia to drought, salt, cold, and wind stress. Generally, these results provide new insights that could be used to improve desertification-affected land.
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Affiliation(s)
- Yunfei Mao
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Xueli Cui
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Haiyan Wang
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Xin Qin
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Yangbo Liu
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Yijun Yin
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Xiafei Su
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Juan Tang
- Biomarker Technologies Corporation, Beijing, China
| | | | - Fengwang Ma
- College of Horticulture, Northwest Agriculture and Forestry University, Yangling, China
| | - Naibin Duan
- Germplasm Resource Center of Shandong Province, Shandong Academy of Agricultural Sciences, Jinan, China
| | - Donglin Zhang
- Department of Horticulture, University of Georgia, Athens, USA
| | - Yanli Hu
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Wenli Wang
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Shaochong Wei
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Xiaoliu Chen
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Zhiquan Mao
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Xuesen Chen
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China
| | - Xiang Shen
- College of Horticultural Science and Engineering/State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, China.
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23
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Liu J, Xue C, Lin Y, Yan Q, Chen J, Wu R, Zhang X, Chen X, Yuan X. Genetic analysis and identification of VrFRO8, a salt tolerance-related gene in mungbean. Gene 2022; 836:146658. [PMID: 35714797 DOI: 10.1016/j.gene.2022.146658] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2022] [Revised: 05/09/2022] [Accepted: 06/02/2022] [Indexed: 12/20/2022]
Abstract
Mungbean (Vigna radiata (L.) R. Wilczek) is an important legume crop of Asia. Salt concentrations typically causes major yield reductions in mungbean. Although the biochemical and genetic basis of salt tolerance-related gene are well studied in Arabidopsis and soybean, limited information concerning the salt tolerance-related genes in mungbean. To address this issue, we mined salt tolerance related genes using the survival rate trait and 160,1405 SNPs in 112 mungbean accessions. As a result, VrFRO8 significantly associated with salt-stress were identified in the GWAS analysis. The candidate gene VrFRO8 was evidenced by comparative genomics, transcriptome and RT-qPCR analysis. The expression level of VrFRO8 was significantly up-regulated (P-value = 0.001) after salt treatment compared with the control group. Moreover, 188 genes and 158 transcription factors related to salt-stress signal transduction pathway were mined, and 18 genes (18/188) had higher expression level in the salt-tolerant varieties than salt-sensitive varieties. And, the function of VrFRO8 was predicted in mungbean, the protein interaction between VrFRO8 and seven related-genes were found by molecular structure analysis. VrFRO8 might reduce SOD contents by influence Fe2+/Fe3+ ratio under the damage of salt stress. This study used multi-omics data to mine a key genes significantly associated with salt tolerance, and constructed a VrFRO8-related PPI network for salt tolerance, which would lay a solid foundation for further molecular biology research of VrFRO8 and mungbean breeding.
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Affiliation(s)
- Jinyang Liu
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, Jiangsu, China
| | - Chenchen Xue
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, Jiangsu, China
| | - Yun Lin
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, Jiangsu, China
| | - Qiang Yan
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, Jiangsu, China
| | - Jingbin Chen
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, Jiangsu, China
| | - Ranran Wu
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, Jiangsu, China
| | - Xiaoyan Zhang
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, Jiangsu, China
| | - Xin Chen
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, Jiangsu, China.
| | - Xingxing Yuan
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, Jiangsu, China.
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Riyazuddin R, Bela K, Poór P, Szepesi Á, Horváth E, Rigó G, Szabados L, Fehér A, Csiszár J. Crosstalk between the Arabidopsis Glutathione Peroxidase-Like 5 Isoenzyme (AtGPXL5) and Ethylene. Int J Mol Sci 2022; 23:ijms23105749. [PMID: 35628560 PMCID: PMC9171577 DOI: 10.3390/ijms23105749] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2022] [Revised: 05/16/2022] [Accepted: 05/17/2022] [Indexed: 01/27/2023] Open
Abstract
Glutathione peroxidases (GPXs) are important antioxidant enzymes in animals. Plants contain GPX-like (GPXL) enzymes, which-in contrast to GPXs-contain cysteine in their active site instead of selenocysteine. Although several studies proved their importance in development and stress responses, their interaction with ethylene (ET) signalling is not known. Our aim was to investigate the involvement of AtGPXL5 in ET biosynthesis and/or signalling using Atgpxl5 mutant and AtGPXL5 cDNA-overexpressing (OX-AtGPXL5) lines. Four-day-old dark-grown Atgpxl5 seedlings had shorter hypocotyls and primary roots, while OX-AtGPXL5 seedlings exhibited a similar phenotype as wild type under normal conditions. Six-week-old OX-AtGPXL5 plants contained less H2O2 and malondialdehyde, but higher polyamine and similar ascorbate- and glutathione contents and redox potential (EGSH) than the Col-0. One-day treatment with the ET-precursor 1-aminocyclopropane-1-carboxylic acid (ACC) induced the activity of glutathione- and thioredoxin peroxidases and some other ROS-processing enzymes. In the Atgpxl5 mutants, the EGSH became more oxidised; parallelly, it produced more ethylene after the ACC treatment than other genotypes. Although the enhanced ET evolution measured in the Atgpxl5 mutant can be the result of the increased ROS level, the altered expression pattern of ET-related genes both in the Atgpxl5 and OX-AtGPXL5 plants suggests the interplay between AtGPXL5 and ethylene signalling.
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Affiliation(s)
- Riyazuddin Riyazuddin
- Department of Plant Biology, Faculty of Science and Informatics, University of Szeged, Közép fasor 52., H-6726 Szeged, Hungary; (R.R.); (K.B.); (P.P.); (Á.S.); (E.H.); (A.F.)
- Biological Research Centre, Institute of Plant Biology, Temesvári krt. 62., H-6726 Szeged, Hungary; (G.R.); (L.S.)
| | - Krisztina Bela
- Department of Plant Biology, Faculty of Science and Informatics, University of Szeged, Közép fasor 52., H-6726 Szeged, Hungary; (R.R.); (K.B.); (P.P.); (Á.S.); (E.H.); (A.F.)
| | - Péter Poór
- Department of Plant Biology, Faculty of Science and Informatics, University of Szeged, Közép fasor 52., H-6726 Szeged, Hungary; (R.R.); (K.B.); (P.P.); (Á.S.); (E.H.); (A.F.)
| | - Ágnes Szepesi
- Department of Plant Biology, Faculty of Science and Informatics, University of Szeged, Közép fasor 52., H-6726 Szeged, Hungary; (R.R.); (K.B.); (P.P.); (Á.S.); (E.H.); (A.F.)
| | - Edit Horváth
- Department of Plant Biology, Faculty of Science and Informatics, University of Szeged, Közép fasor 52., H-6726 Szeged, Hungary; (R.R.); (K.B.); (P.P.); (Á.S.); (E.H.); (A.F.)
| | - Gábor Rigó
- Biological Research Centre, Institute of Plant Biology, Temesvári krt. 62., H-6726 Szeged, Hungary; (G.R.); (L.S.)
| | - László Szabados
- Biological Research Centre, Institute of Plant Biology, Temesvári krt. 62., H-6726 Szeged, Hungary; (G.R.); (L.S.)
| | - Attila Fehér
- Department of Plant Biology, Faculty of Science and Informatics, University of Szeged, Közép fasor 52., H-6726 Szeged, Hungary; (R.R.); (K.B.); (P.P.); (Á.S.); (E.H.); (A.F.)
- Biological Research Centre, Institute of Plant Biology, Temesvári krt. 62., H-6726 Szeged, Hungary; (G.R.); (L.S.)
| | - Jolán Csiszár
- Department of Plant Biology, Faculty of Science and Informatics, University of Szeged, Közép fasor 52., H-6726 Szeged, Hungary; (R.R.); (K.B.); (P.P.); (Á.S.); (E.H.); (A.F.)
- Correspondence:
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Fortt J, González M, Morales P, Araya N, Remonsellez F, Coba de la Peña T, Ostria-Gallardo E, Stoll A. Bacterial Modulation of the Plant Ethylene Signaling Pathway Improves Tolerance to Salt Stress in Lettuce (Lactuca sativa L.). FRONTIERS IN SUSTAINABLE FOOD SYSTEMS 2022. [DOI: 10.3389/fsufs.2022.768250] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023] Open
Abstract
Salinity has extensive adverse effects on plant growth and the development of new agronomic strategies to improve crop salt tolerance is becoming necessary. Currently, the use of plant growth promoting rhizobacteria (PGPR) to mitigate abiotic stress in crops is of increasing interest. The most analyzed mechanism is based on ACC deaminase activity, an enzyme that decreases the ethylene synthesis, an important phytohormone in plant stress response. We aimed to identify other PGPR mediated mechanisms involved in the regulation of salt stress in plant. We used three PGPR strains (ESL001, ESL007, SH31), of which only ESL007 demonstrated ACC deaminase activity, to evaluate their effect on lettuce plants under salt stress (100 mM NaCl). We measured growth and biochemical parameters (e.g., proline content, lipid peroxidation and ROS degradation), as well as expression levels of genes involved in ethylene signaling (CTR1, EBF1) and transcription factors induced by ethylene (ERF5, ERF13). All bacterial strains enhanced growth on salt-stressed lettuce plants and modulated the proline levels. Strains ESL007 and SH31 triggered a higher catalase and ascorbate-peroxidase activity, compared to non-stressed plants. Differential expression of ethylene-related genes in inoculated plants subjected to salinity was observed. We gained consistent evidence for the existence of alternative mechanisms to ethylene modulation, which probably rely on bacterial IAA production and other chemical signals. These mechanisms modify the expression of genes associated with ethylene signaling and regulation, complementarily to the ACC deaminase model to diminish abiotic stress responses.
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Prasad P, Khatoon U, Verma RK, Aalam S, Kumar A, Mohapatra D, Bhattacharya P, Bag SK, Sawant SV. Transcriptional Landscape of Cotton Fiber Development and Its Alliance With Fiber-Associated Traits. FRONTIERS IN PLANT SCIENCE 2022; 13:811655. [PMID: 35283936 PMCID: PMC8908376 DOI: 10.3389/fpls.2022.811655] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/09/2021] [Accepted: 01/10/2022] [Indexed: 06/14/2023]
Abstract
Cotton fiber development is still an intriguing question to understand fiber commitment and development. At different fiber developmental stages, many genes change their expression pattern and have a pivotal role in fiber quality and yield. Recently, numerous studies have been conducted for transcriptional regulation of fiber, and raw data were deposited to the public repository for comprehensive integrative analysis. Here, we remapped > 380 cotton RNAseq data with uniform mapping strategies that span ∼400 fold coverage to the genome. We identified stage-specific features related to fiber cell commitment, initiation, elongation, and Secondary Cell Wall (SCW) synthesis and their putative cis-regulatory elements for the specific regulation in fiber development. We also mined Exclusively Expressed Transcripts (EETs) that were positively selected during cotton fiber evolution and domestication. Furthermore, the expression of EETs was validated in 100 cotton genotypes through the nCounter assay and correlated with different fiber-related traits. Thus, our data mining study reveals several important features related to cotton fiber development and improvement, which were consolidated in the "CottonExpress-omics" database.
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Affiliation(s)
- Priti Prasad
- Division of Molecular Biology and Biotechnology, CSIR-National Botanical Research Institute, Lucknow, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Uzma Khatoon
- Division of Molecular Biology and Biotechnology, CSIR-National Botanical Research Institute, Lucknow, India
- Department of Botany, University of Lucknow, Lucknow, India
| | - Rishi Kumar Verma
- Division of Molecular Biology and Biotechnology, CSIR-National Botanical Research Institute, Lucknow, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Shahre Aalam
- Division of Molecular Biology and Biotechnology, CSIR-National Botanical Research Institute, Lucknow, India
| | - Ajay Kumar
- Division of Molecular Biology and Biotechnology, CSIR-National Botanical Research Institute, Lucknow, India
| | | | | | - Sumit K. Bag
- Division of Molecular Biology and Biotechnology, CSIR-National Botanical Research Institute, Lucknow, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Samir V. Sawant
- Division of Molecular Biology and Biotechnology, CSIR-National Botanical Research Institute, Lucknow, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
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27
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Naing AH, Campol JR, Kang H, Xu J, Chung MY, Kim CK. Role of Ethylene Biosynthesis Genes in the Regulation of Salt Stress and Drought Stress Tolerance in Petunia. FRONTIERS IN PLANT SCIENCE 2022; 13:844449. [PMID: 35283920 PMCID: PMC8906779 DOI: 10.3389/fpls.2022.844449] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/28/2021] [Accepted: 02/03/2022] [Indexed: 06/12/2023]
Abstract
Ethylene plays a critical signaling role in the abiotic stress tolerance mechanism. However, the role of ethylene in regulating abiotic stress tolerance in petunia has not been well-investigated, and the underlying molecular mechanism by which ethylene regulates abiotic stress tolerance is still unknown. Therefore, we examined the involvement of ethylene in salt and drought stress tolerance of petunia using the petunia wild type cv. "Merage Rose" and the ethylene biosynthesis genes (PhACO1 and PhACO3)-edited mutants (phaco1 and phaco3). Here, we discovered that editing PhACO1 and PhACO3 reduced ethylene production in the mutants, and mutants were more sensitive to salt and drought stress than the wild type (WT). This was proven by the better outcomes of plant growth and physiological parameters and ion homeostasis in WT over the mutants. Molecular analysis revealed that the expression levels of the genes associated with antioxidant, proline synthesis, ABA synthesis and signaling, and ethylene signaling differed significantly between the WT and mutants, indicating the role of ethylene in the transcriptional regulation of the genes associated with abiotic stress tolerance. This study highlights the involvement of ethylene in abiotic stress adaptation and provides a physiological and molecular understanding of the role of ethylene in abiotic stress response in petunia. Furthermore, the finding alerts researchers to consider the negative effects of ethylene reduction on abiotic stress tolerance when editing the ethylene biosynthesis genes to improve the postharvest quality of horticultural crops.
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Affiliation(s)
- Aung Htay Naing
- Department of Horticulture, Kyungpook National University, Daegu, South Korea
| | - Jova Riza Campol
- Department of Horticulture, Kyungpook National University, Daegu, South Korea
| | - Hyunhee Kang
- Department of Horticulture, Kyungpook National University, Daegu, South Korea
| | - Junping Xu
- Department of Horticulture, Kyungpook National University, Daegu, South Korea
| | - Mi Young Chung
- Department of Agricultural Education, Sunchon National University, Suncheon, South Korea
| | - Chang Kil Kim
- Department of Horticulture, Kyungpook National University, Daegu, South Korea
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Li Y, Wang L, Yu B, Guo J, Zhao Y, Zhu Y. Expression Analysis of AUX/IAA Family Genes in Apple Under Salt Stress. Biochem Genet 2021; 60:1205-1221. [PMID: 34802110 DOI: 10.1007/s10528-021-10158-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2021] [Accepted: 11/10/2021] [Indexed: 11/26/2022]
Abstract
Members of the auxin/indoleacetic acid (Aux/IAA) gene family in plants are primary auxin-responsive genes that play important roles in many aspects of plant development and in responses to abiotic stress. Recently, 33 Aux/IAA have been identified in the apple genome. The biological responses of MdIAAs to salt stress are still unknown. In this study, Malus zumi, Malus baccata, and Malus × domestica 'Fuji' plantlets were subjected to salt stress by supplementing hydroponic media with NaCl at various concentrations. M. zumi showed the strongest salt resistance, followed by 'Fuji', and M. baccata was the most sensitive to salt stress. Tissue-specific expression profiles of MdIAAs were determined by quantitative real-time polymerase chain reaction. When apple plantlets were subjected to salt stress, most of salt-responsive MdIAAs were up-regulated by 1 h, 3 h, and 6 h in roots, shoot tips, and leaves, respectively. Highly expressed MdIAAs in roots, especially for M. zumi, consisted with the salt tolerance of apple rootstocks. Transgenic apple calli were tolerant to salt stress when over-expressed salt-responsive genes, MdIAA8, -9, and -25. These results provide clues about salt resistance in these three Malus species, which helps apple breeding of salt tolerance by genetic transformation.
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Affiliation(s)
- Yongzhou Li
- Department of Pomology, College of Horticulture, China Agricultural University, Yuanmingyuan West Road No. 2, Haidian District, Beijing, 100193, People's Republic of China
| | - Limin Wang
- Department of Pomology, College of Horticulture, China Agricultural University, Yuanmingyuan West Road No. 2, Haidian District, Beijing, 100193, People's Republic of China
| | - Boyang Yu
- Department of Pomology, College of Horticulture, China Agricultural University, Yuanmingyuan West Road No. 2, Haidian District, Beijing, 100193, People's Republic of China
| | - Jing Guo
- Department of Pomology, College of Horticulture, China Agricultural University, Yuanmingyuan West Road No. 2, Haidian District, Beijing, 100193, People's Republic of China
| | - Yanan Zhao
- Department of Pomology, College of Horticulture, China Agricultural University, Yuanmingyuan West Road No. 2, Haidian District, Beijing, 100193, People's Republic of China
| | - Yuandi Zhu
- Department of Pomology, College of Horticulture, China Agricultural University, Yuanmingyuan West Road No. 2, Haidian District, Beijing, 100193, People's Republic of China.
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29
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Rao YR, Ansari MW, Sahoo RK, Wattal RK, Tuteja N, Kumar VR. Salicylic acid modulates ACS, NHX1, sos1 and HKT1;2 expression to regulate ethylene overproduction and Na + ions toxicity that leads to improved physiological status and enhanced salinity stress tolerance in tomato plants cv. Pusa Ruby. PLANT SIGNALING & BEHAVIOR 2021; 16:1950888. [PMID: 34252347 PMCID: PMC8526040 DOI: 10.1080/15592324.2021.1950888] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2021] [Revised: 06/06/2021] [Accepted: 06/26/2021] [Indexed: 05/30/2023]
Abstract
Tomato is an important crop for its high nutritional and medicinal properties. The role of salicylic acid (SA) in 1-aminocyclopropane-1-carboxylate synthase (ACS), sodium-hydrogen exchanger (NHX1), salt overly sensitive 1 (sos1) and high-affinity K+ transporter (HKT1;2) transcripts, and ACS enzyme activity and ethylene (ET) production, and growth and physiological attributes was evaluated in tomato cv. Pusa Ruby under salinity stress. Thirty days-old seedlings treated with 0 mM NaCl, 250 mM NaCl, 250 mM NaCl plus 100 µM SA were assessed for different growth and physiological parameters at 45 DAS. Results showed ACS, NHX1, sos1 and HKT1;2 transcripts were significantly changed in SA treated plants. The ACS enzyme activity and ET content were considerably decreased in SA treated plants. Shoot length (SL), root length (RL), number of leaves (NL), leaf area per plant (LA), shoot fresh weight (SFW) and root fresh weight (RFW) were also improved under SA treatment. Conversely, the electrolyte leakage and sodium ion (Na+) content were significantly reduced in SA treated plants. In addition, the endogenous proline and potassium ion (K+) content, and K+/Na+ ratio were considerably increased under SA treatment. Likewise, antioxidant enzymes (SOD, CAT, APX and GR) profile were better in SA treated plant. The present findings suggest that SA reverse the negative effects of salinity stress and stress induced ET production by modulating ACS, NHX, sos1 and HKT1;2 transcript level, and improving various growth and physiological parameters, and antioxidants enzymes profile. This will contribute to a better understanding of salinity stress tolerance mechanisms of tomato plants involving SA and ET cross talk and ions homeostasis to develop more tolerant plant.
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Affiliation(s)
- Yalaga Rama Rao
- Department of Biotechnology, Vignan University, Vadlamudi, India
| | - Mohammad Wahid Ansari
- Department of Botany, Zakir Husain Delhi College, University of Delhi, New Delhi, India
| | - Ranjan Kumar Sahoo
- Department of Biotechnology, Centurion University of Technology and Management, Bhubaneswar, India
| | - Ratnum Kaul Wattal
- Department of Botany, Zakir Husain Delhi College, University of Delhi, New Delhi, India
| | - Narendra Tuteja
- Plant Molecular Biology Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
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Bomle DV, Kiran A, Kumar JK, Nagaraj LS, Pradeep CK, Ansari MA, Alghamdi S, Kabrah A, Assaggaf H, Dablool AS, Murali M, Amruthesh KN, Udayashankar AC, Niranjana SR. Plants Saline Environment in Perception with Rhizosphere Bacteria Containing 1-Aminocyclopropane-1-Carboxylate Deaminase. Int J Mol Sci 2021; 22:ijms222111461. [PMID: 34768893 PMCID: PMC8584133 DOI: 10.3390/ijms222111461] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2021] [Revised: 10/17/2021] [Accepted: 10/18/2021] [Indexed: 11/16/2022] Open
Abstract
Soil salinity stress has become a serious roadblock for food production worldwide since it is one of the key factors affecting agricultural productivity. Salinity and drought are predicted to cause considerable loss of crops. To deal with this difficult situation, a variety of strategies have been developed, including plant breeding, plant genetic engineering, and a wide range of agricultural practices, including the use of plant growth-promoting rhizobacteria (PGPR) and seed biopriming techniques, to improve the plants' defenses against salinity stress, resulting in higher crop yields to meet future human food demand. In the present review, we updated and discussed the negative effects of salinity stress on plant morphological parameters and physio-biochemical attributes via various mechanisms and the beneficial roles of PGPR with 1-Aminocyclopropane-1-Carboxylate(ACC) deaminase activity as green bio-inoculants in reducing the impact of saline conditions. Furthermore, the applications of ACC deaminase-producing PGPR as a beneficial tool in seed biopriming techniques are updated and explored. This strategy shows promise in boosting quick seed germination, seedling vigor and plant growth uniformity. In addition, the contentious findings of the variation of antioxidants and osmolytes in ACC deaminase-producing PGPR treated plants are examined.
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Affiliation(s)
- Dhanashree Vijayrao Bomle
- Department of Studies in Biotechnology, University of Mysore, Manasagangotri, Mysore 570006, Karnataka, India; (D.V.B.); (A.K.); (J.K.K.); (L.S.N.); (C.K.P.)
| | - Asha Kiran
- Department of Studies in Biotechnology, University of Mysore, Manasagangotri, Mysore 570006, Karnataka, India; (D.V.B.); (A.K.); (J.K.K.); (L.S.N.); (C.K.P.)
| | - Jeevitha Kodihalli Kumar
- Department of Studies in Biotechnology, University of Mysore, Manasagangotri, Mysore 570006, Karnataka, India; (D.V.B.); (A.K.); (J.K.K.); (L.S.N.); (C.K.P.)
| | - Lavanya Senapathyhalli Nagaraj
- Department of Studies in Biotechnology, University of Mysore, Manasagangotri, Mysore 570006, Karnataka, India; (D.V.B.); (A.K.); (J.K.K.); (L.S.N.); (C.K.P.)
| | - Chamanahalli Kyathegowda Pradeep
- Department of Studies in Biotechnology, University of Mysore, Manasagangotri, Mysore 570006, Karnataka, India; (D.V.B.); (A.K.); (J.K.K.); (L.S.N.); (C.K.P.)
| | - Mohammad Azam Ansari
- Department of Epidemic Disease Research, Institutes for Research and Medical Consultations (IRMC), Imam Abdulrahman Bin Faisal University, Dammam 31441, Saudi Arabia
- Correspondence: (M.A.A.); (A.C.U.); (S.R.N.)
| | - Saad Alghamdi
- Laboratory Medicine Department, Faculty of Applied Medical Sciences, Umm Al-Qura University, Makkah P.O. Box 715, Saudi Arabia; (S.A.); (A.K.); (H.A.)
| | - Ahmed Kabrah
- Laboratory Medicine Department, Faculty of Applied Medical Sciences, Umm Al-Qura University, Makkah P.O. Box 715, Saudi Arabia; (S.A.); (A.K.); (H.A.)
| | - Hamza Assaggaf
- Laboratory Medicine Department, Faculty of Applied Medical Sciences, Umm Al-Qura University, Makkah P.O. Box 715, Saudi Arabia; (S.A.); (A.K.); (H.A.)
| | - Anas S. Dablool
- Department of Public Health, Health Science College Al-Leith, Umm Al-Qura University, Makkah 21961, Saudi Arabia;
| | - Mahadevamurthy Murali
- Applied Plant Pathology Laboratory, Department of Studies in Botany, University of Mysore, Manasagangotri, Mysore 570006, Karnataka, India; (M.M.); (K.N.A.)
| | - Kestur Nagaraj Amruthesh
- Applied Plant Pathology Laboratory, Department of Studies in Botany, University of Mysore, Manasagangotri, Mysore 570006, Karnataka, India; (M.M.); (K.N.A.)
| | - Arakere Chunchegowda Udayashankar
- Department of Studies in Biotechnology, University of Mysore, Manasagangotri, Mysore 570006, Karnataka, India; (D.V.B.); (A.K.); (J.K.K.); (L.S.N.); (C.K.P.)
- Correspondence: (M.A.A.); (A.C.U.); (S.R.N.)
| | - Siddapura Ramachandrappa Niranjana
- Department of Studies in Biotechnology, University of Mysore, Manasagangotri, Mysore 570006, Karnataka, India; (D.V.B.); (A.K.); (J.K.K.); (L.S.N.); (C.K.P.)
- Correspondence: (M.A.A.); (A.C.U.); (S.R.N.)
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Xie T, Zhang J, Luan A, Zhang W, Wu J, Cai Z, He Y. Comparative transcriptome analysis of a fan-shaped inflorescence in pineapple using RNA-seq. Genomics 2021; 113:3653-3665. [PMID: 34455035 DOI: 10.1016/j.ygeno.2021.08.022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2021] [Revised: 08/15/2021] [Accepted: 08/23/2021] [Indexed: 10/20/2022]
Abstract
Pineapple plant usually has a capitulum. However, a fan-shaped inflorescence was exceptionally evolved in pineapple, having multiple crown buds. In order to reveal the molecular mechanisms of the formation of the fan-shaped inflorescence, fruit traits and the transcriptional differences between the fan-shaped inflorescence and the wild-shaped inflorescence pineapples were analyzed in three tissues, i.e., the flower stem apex, the base of the inflorescence, and the inflorescence axis. The weight (i.e., individual yield) of fan-shaped fruit is 4.5 times that of wild-shaped fruit;and non-significant difference in soluble solids, soluble sugar, titratable acid, and Vitamin C was found. Between the fan-shaped inflorescence and wild-shaped inflorescence, a total of 5370 differentially expressed genes were identified across the three tissues. Of these genes, there were 489 overlapping differentially expressed genes in all three tissue comparisons. Between the two pineapples, functional analysis indicated that 444 transcription factors and 206 inflorescence development-related genes were differentially expressed in at least one tissue comparison, while 45 transcription factors and 21 inflorescence development-related genes were overlapped across three tissues. Among the 489 overlapping differentially expressed genes in the three tissue comparisons, excluding the inflorescence development-related genes and transcription factors, 80 of them revealed a higher percentage of involvement in the biological processes relating to response to auxin, and reproductive processes. RNA-seq value and real-time quantitative PCR analysis exhibited the similar gene expression patterns in the three tissues. Our result provided novel cues for understanding the molecular mechanisms of the formation of the fan-shaped inflorescence in pineapple, making a valuable resource for the study of plant breeding and the speciation of pineapple.
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Affiliation(s)
- Tao Xie
- Department of Horticulture, Foshan University, Foshan 528231, China; Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Jing Zhang
- Department of Horticulture, Foshan University, Foshan 528231, China
| | - Aiping Luan
- Tropical Crops Genetic Resources Institute of Chinese Academy of Tropical Agricultural Science, Haikou 571101, China
| | - Wei Zhang
- Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Jing Wu
- Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Zhiquan Cai
- Department of Horticulture, Foshan University, Foshan 528231, China.
| | - Yehua He
- Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture, South China Agricultural University, Guangzhou 510642, China.
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32
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Genome-Wide Identification and Functional Investigation of 1-Aminocyclopropane-1-carboxylic Acid Oxidase ( ACO) Genes in Cotton. PLANTS 2021; 10:plants10081699. [PMID: 34451744 PMCID: PMC8402218 DOI: 10.3390/plants10081699] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/30/2021] [Revised: 08/09/2021] [Accepted: 08/14/2021] [Indexed: 12/02/2022]
Abstract
ACO is one of the rate-limiting enzymes in the biosynthesis of ethylene, and it plays a critical role in the regulation of plant growth and development. However, the function of ACO genes in cotton is not well studied. In this study, a total of 332 GhACOs, 187 GaACOs, and 181 GrACOs were identified in G. hirsutum, G. arboretum, and G. raimondii, respectively. Gene duplication analysis showed that whole-genome duplication (WGD) and tandem duplication were the major forces driving the generation of cotton ACO genes. In the promoters of GhACOs, there were cis-acting elements responding to stress, phytohormones, light, and circadian factors, indicating the possible involvement of GhACOs in these processes. Expression and co-expression analyses illustrated that most GhACOs were not only widely expressed in various tissues but also coexpressed with other genes in response to salt and drought stress. GhACO106_At overexpression in Arabidopsis promoted flowering and increased salt tolerance. These results provide a comprehensive overview of the ACO genes of cotton and lay the foundation for subsequent functional studies of these genes.
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Singhal RK, Saha D, Skalicky M, Mishra UN, Chauhan J, Behera LP, Lenka D, Chand S, Kumar V, Dey P, Indu, Pandey S, Vachova P, Gupta A, Brestic M, El Sabagh A. Crucial Cell Signaling Compounds Crosstalk and Integrative Multi-Omics Techniques for Salinity Stress Tolerance in Plants. FRONTIERS IN PLANT SCIENCE 2021; 12:670369. [PMID: 34484254 PMCID: PMC8414894 DOI: 10.3389/fpls.2021.670369] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/21/2021] [Accepted: 05/28/2021] [Indexed: 10/29/2023]
Abstract
In the era of rapid climate change, abiotic stresses are the primary cause for yield gap in major agricultural crops. Among them, salinity is considered a calamitous stress due to its global distribution and consequences. Salinity affects plant processes and growth by imposing osmotic stress and destroys ionic and redox signaling. It also affects phytohormone homeostasis, which leads to oxidative stress and eventually imbalances metabolic activity. In this situation, signaling compound crosstalk such as gasotransmitters [nitric oxide (NO), hydrogen sulfide (H2S), hydrogen peroxide (H2O2), calcium (Ca), reactive oxygen species (ROS)] and plant growth regulators (auxin, ethylene, abscisic acid, and salicylic acid) have a decisive role in regulating plant stress signaling and administer unfavorable circumstances including salinity stress. Moreover, recent significant progress in omics techniques (transcriptomics, genomics, proteomics, and metabolomics) have helped to reinforce the deep understanding of molecular insight in multiple stress tolerance. Currently, there is very little information on gasotransmitters and plant growth regulator crosstalk and inadequacy of information regarding the integration of multi-omics technology during salinity stress. Therefore, there is an urgent need to understand the crucial cell signaling crosstalk mechanisms and integrative multi-omics techniques to provide a more direct approach for salinity stress tolerance. To address the above-mentioned words, this review covers the common mechanisms of signaling compounds and role of different signaling crosstalk under salinity stress tolerance. Thereafter, we mention the integration of different omics technology and compile recent information with respect to salinity stress tolerance.
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Affiliation(s)
| | - Debanjana Saha
- Department of Biotechnology, Centurion University of Technology and Management, Bhubaneswar, India
| | - Milan Skalicky
- Department of Botany and Plant Physiology, Faculty of Agrobiology, Food, and Natural Resources, Czech University of Life Sciences Prague, Prague, Czechia
| | - Udit N. Mishra
- Faculty of Agriculture, Sri Sri University, Cuttack, India
| | - Jyoti Chauhan
- Narayan Institute of Agricultural Sciences, Gopal Narayan Singh University, Jamuhar, India
| | - Laxmi P. Behera
- Department of Agriculture Biotechnology, Orissa University of Agriculture and Technology, Bhubaneswar, India
| | - Devidutta Lenka
- Department of Plant Breeding and Genetics, Orissa University of Agriculture and Technology, Bhubaneswar, India
| | - Subhash Chand
- ICAR-Indian Grassland and Fodder Research Institute, Jhansi, India
| | - Vivek Kumar
- Institute of Agriculture Sciences, Banaras Hindu University, Varanasi, India
| | - Prajjal Dey
- Faculty of Agriculture, Sri Sri University, Cuttack, India
| | - Indu
- ICAR-Indian Grassland and Fodder Research Institute, Jhansi, India
| | - Saurabh Pandey
- Department of Agriculture, Guru Nanak Dev University, Amritsar, India
| | - Pavla Vachova
- Department of Botany and Plant Physiology, Faculty of Agrobiology, Food, and Natural Resources, Czech University of Life Sciences Prague, Prague, Czechia
| | - Aayushi Gupta
- Department of Botany and Plant Physiology, Faculty of Agrobiology, Food, and Natural Resources, Czech University of Life Sciences Prague, Prague, Czechia
| | - Marian Brestic
- Department of Botany and Plant Physiology, Faculty of Agrobiology, Food, and Natural Resources, Czech University of Life Sciences Prague, Prague, Czechia
- Department of Plant Physiology, Slovak University of Agriculture in Nitra, Nitra, Slovakia
| | - Ayman El Sabagh
- Department of Agronomy, Faculty of Agriculture, University of Kafrelsheikh, Kafr El Sheikh, Egypt
- Department of Field Crops, Faculty of Agriculture, Siirt University, Siirt, Turkey
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Sun J, Li S, Guo H, Hou Z. Ion homeostasis and Na+ transport-related gene expression in two cotton (Gossypium hirsutum L.) varieties under saline, alkaline and saline-alkaline stresses. PLoS One 2021; 16:e0256000. [PMID: 34375358 PMCID: PMC8354432 DOI: 10.1371/journal.pone.0256000] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2021] [Accepted: 07/27/2021] [Indexed: 01/08/2023] Open
Abstract
The sensitivity of cotton to salt stress depends on the genotypes and salt types. Understanding the mechanism of ion homeostasis under different salt stresses is necessary to improve cotton performance under saline conditions. A pot experiment using three salt stresses saline stress (NaCl+Na2SO4), alkaline stress (Na2CO3+NaHCO3), and saline-alkaline stress (NaCl+Na2SO4+Na2CO3+NaHCO3) and two cotton varieties (salt-tolerant variety L24 and salt-sensitive variety G1) was conducted. The growth, ion concentrations, and Na+ transport-related gene expression in the cotton varieties were determined. The inhibitory effects of saline-alkaline stress on cotton growth were greater than that of either saline stress or alkaline stress alone. The root/shoot ratio under alkaline stress was significantly lower than that under saline stress. The salt-tolerant cotton variety had lower Na and higher K concentrations in the leaves, stems and roots than the salt-sensitive variety under different salt stresses. For the salt-sensitive cotton variety, saline stress significantly inhibited the absorption of P and the transport of P, K, and Mg, while alkaline stress and saline-alkaline stress significantly inhibited the uptake and transport of P, K, Ca, Mg, and Zn. Most of the elements in the salt-tolerant variety accumulated in the leaves and stems under different salt stresses. This indicated that the salt-tolerant variety had a stronger ion transport capacity than the salt-sensitive variety under saline conditions. Under alkaline stress and salt-alkaline stress, the relative expression levels of the genes GhSOS1, GhNHX1 and GhAKT1 in the salt-tolerant variety were significantly higher than that in the salt-sensitive variety. These results suggest that this salt-tolerant variety of cotton has an internal mechanism to maintain ionic homeostasis.
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Affiliation(s)
- Jialin Sun
- Department of Resources and Environmental Science, Shihezi University, Shihezi, Xinjiang, People’s Republic of China
| | - Shuangnan Li
- Department of Resources and Environmental Science, Shihezi University, Shihezi, Xinjiang, People’s Republic of China
| | - Huijuan Guo
- Department of Resources and Environmental Science, Shihezi University, Shihezi, Xinjiang, People’s Republic of China
| | - Zhenan Hou
- Department of Resources and Environmental Science, Shihezi University, Shihezi, Xinjiang, People’s Republic of China
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Zhang Y, Fan Y, Rui C, Zhang H, Xu N, Dai M, Chen X, Lu X, Wang D, Wang J, Wang J, Wang Q, Wang S, Chen C, Guo L, Zhao L, Ye W. Melatonin Improves Cotton Salt Tolerance by Regulating ROS Scavenging System and Ca 2 + Signal Transduction. FRONTIERS IN PLANT SCIENCE 2021; 12:693690. [PMID: 34262587 PMCID: PMC8273866 DOI: 10.3389/fpls.2021.693690] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2021] [Accepted: 05/31/2021] [Indexed: 05/23/2023]
Abstract
As one of the cash crops, cotton is facing the threat of abiotic stress during its growth and development. It has been reported that melatonin is involved in plant defense against salt stress, but whether melatonin can improve cotton salt tolerance and its molecular mechanism remain unclear. We investigated the role of melatonin in cotton salt tolerance by silencing melatonin synthesis gene and exogenous melatonin application in upland cotton. In this study, applicating of melatonin can improve salt tolerance of cotton seedlings. The content of endogenous melatonin was different in cotton varieties with different salt tolerance. The inhibition of melatonin biosynthesis related genes and endogenous melatonin content in cotton resulted in the decrease of antioxidant enzyme activity, Ca2+ content and salt tolerance of cotton. To explore the protective mechanism of exogenous melatonin against salt stress by RNA-seq analysis. Melatonin played an important role in the resistance of cotton to salt stress, improved the salt tolerance of cotton by regulating antioxidant enzymes, transcription factors, plant hormones, signal molecules and Ca2+ signal transduction. This study proposed a regulatory network for melatonin to regulate cotton's response to salt stress, which provided a theoretical basis for improving cotton's salt tolerance.
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Zhang J, Zhang P, Huo X, Gao Y, Chen Y, Song Z, Wang F, Zhang J. Comparative Phenotypic and Transcriptomic Analysis Reveals Key Responses of Upland Cotton to Salinity Stress During Postgermination. FRONTIERS IN PLANT SCIENCE 2021; 12:639104. [PMID: 33927736 PMCID: PMC8076740 DOI: 10.3389/fpls.2021.639104] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2020] [Accepted: 03/19/2021] [Indexed: 06/01/2023]
Abstract
To understand the molecular mechanisms of salinity tolerance during seed germination and post-germination stages, this study characterized phenotypic and transcriptome responses of two cotton cultivars during salinity stress. The two cultivars were salt-tolerant (ST) LMY37 and salt-sensitive (SS) ZM12, with the former exhibiting higher germination rate, growth, and primary-root fresh weight under salinity stress. Transcriptomic comparison revealed that up-regulation of differentially expressed genes (DEGs) was the main characteristic of transcriptional regulation in ST, while SS DEGs were mainly down-regulated. GO and KEGG analyses uncovered both common and specific responses in ST and SS. Common processes, such as reactive oxygen species (ROS) metabolism and cell wall biosynthesis, may be general responses to salinity in cotton. In contrast, DEGs involved in MAPK-signaling pathway activated by ROS, carotenoid biosynthesis pathway and cysteine and methionine metabolism pathway [producing the precursors of stress hormone abscisic acid (ABA) and ethylene (ET), respectively] as well as stress tolerance related transcription factor genes, showed significant expression differences between ST and SS. These differences might be the molecular basis leading to contrasting salinity tolerance. Silencing of GhERF12, an ethylene response factor gene, caused higher salinity sensitivity and increased ROS accumulation after salinity stress. In addition, peroxidase (POD) and superoxide dismutase (SOD) activity obviously declined after silencing GhERF12. These results suggest that GhERF12 is involved in salinity tolerance during early development. This study provides a novel and comprehensive perspective to understand key mechanisms of salinity tolerance and explores candidate genes that may be useful in developing stress-tolerant crops through biotechnology.
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Affiliation(s)
- Jingxia Zhang
- Key Laboratory of Cotton Breeding and Cultivation in Huang-Huai-Hai Plain, Ministry of Agriculture, Cotton Research Center of Shandong Academy of Agricultural Sciences, Jinan, China
| | - Pei Zhang
- Key Laboratory of Plant Stress Research, College of Life Sciences, Shandong Normal University, Jinan, China
| | - Xuehan Huo
- Key Laboratory of Plant Stress Research, College of Life Sciences, Shandong Normal University, Jinan, China
| | - Yang Gao
- Key Laboratory of Cotton Breeding and Cultivation in Huang-Huai-Hai Plain, Ministry of Agriculture, Cotton Research Center of Shandong Academy of Agricultural Sciences, Jinan, China
| | - Yu Chen
- Key Laboratory of Cotton Breeding and Cultivation in Huang-Huai-Hai Plain, Ministry of Agriculture, Cotton Research Center of Shandong Academy of Agricultural Sciences, Jinan, China
| | - Zhangqiang Song
- Key Laboratory of Cotton Breeding and Cultivation in Huang-Huai-Hai Plain, Ministry of Agriculture, Cotton Research Center of Shandong Academy of Agricultural Sciences, Jinan, China
| | - Furong Wang
- Key Laboratory of Cotton Breeding and Cultivation in Huang-Huai-Hai Plain, Ministry of Agriculture, Cotton Research Center of Shandong Academy of Agricultural Sciences, Jinan, China
- Key Laboratory of Plant Stress Research, College of Life Sciences, Shandong Normal University, Jinan, China
| | - Jun Zhang
- Key Laboratory of Cotton Breeding and Cultivation in Huang-Huai-Hai Plain, Ministry of Agriculture, Cotton Research Center of Shandong Academy of Agricultural Sciences, Jinan, China
- Key Laboratory of Plant Stress Research, College of Life Sciences, Shandong Normal University, Jinan, China
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Ghassemi S, Raei Y. Evaluation of ion content, productivity and essential oil quality of garlic under saline conditions and biochar and polyamine treatments. J Food Compost Anal 2021. [DOI: 10.1016/j.jfca.2020.103720] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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38
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Physiological and Molecular Responses to Acid Rain Stress in Plants and the Impact of Melatonin, Glutathione and Silicon in the Amendment of Plant Acid Rain Stress. Molecules 2021; 26:molecules26040862. [PMID: 33562098 PMCID: PMC7915782 DOI: 10.3390/molecules26040862] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Revised: 02/01/2021] [Accepted: 02/03/2021] [Indexed: 12/21/2022] Open
Abstract
Air pollution has been a long-term problem, especially in urban areas, that eventually accelerates the formation of acid rain (AR), but recently it has emerged as a serious environmental issue worldwide owing to industrial and economic growth, and it is also considered a major abiotic stress to agriculture. Evidence showed that AR exerts harmful effects in plants, especially on growth, photosynthetic activities, antioxidant activities and molecular changes. Effectiveness of several bio-regulators has been tested so far to arbitrate various physiological, biochemical and molecular processes in plants under different diverse sorts of environmental stresses. In the current review, we showed that silicon (tetravalent metalloid and semi-conductor), glutathione (free thiol tripeptide) and melatonin (an indoleamine low molecular weight molecule) act as influential growth regulators, bio-stimulators and antioxidants, which improve plant growth potential, photosynthesis spontaneity, redox-balance and the antioxidant defense system through quenching of reactive oxygen species (ROS) directly and/or indirectly under AR stress conditions. However, earlier research findings, together with current progresses, would facilitate the future research advancements as well as the adoption of new approaches in attenuating the consequence of AR stress on crops, and might have prospective repercussions in escalating crop farming where AR is a restraining factor.
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Yun J, Pierrelée M, Cho D, Kim U, Heo J, Choi D, Lee YJ, Lee B, Kim H, Habermann B, Chang YK, Kim H. Transcriptomic analysis of
Chlorella
sp. HS2 suggests the overflow of acetyl‐CoA and NADPH cofactor induces high lipid accumulation and halotolerance. Food Energy Secur 2020. [DOI: 10.1002/fes3.267] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Affiliation(s)
- Jin‐Ho Yun
- Cell Factory Research Center KRIBB Daejeon Korea
| | | | - Dae‐Hyun Cho
- Cell Factory Research Center KRIBB Daejeon Korea
| | - Urim Kim
- Cell Factory Research Center KRIBB Daejeon Korea
- Department of Environmental Biotechnology UST Daejeon Korea
| | - Jina Heo
- Cell Factory Research Center KRIBB Daejeon Korea
- Department of Environmental Biotechnology UST Daejeon Korea
| | | | - Yong Jae Lee
- Cell Factory Research Center KRIBB Daejeon Korea
| | - Bongsoo Lee
- Department of Microbial and Nano Materials College of Science and Technology Mokwon University Daejeon Korea
| | - HyeRan Kim
- Plant Systems Engineering Research Center KRIBB Daejeon Korea
| | | | - Yong Keun Chang
- Advanced Biomass R&D Center Daejeon Korea
- Department of Chemical and Biomolecular Engineering KAIST Daejeon Korea
| | - Hee‐Sik Kim
- Cell Factory Research Center KRIBB Daejeon Korea
- Department of Environmental Biotechnology UST Daejeon Korea
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Shi P, Gu M. Transcriptome analysis and differential gene expression profiling of two contrasting quinoa genotypes in response to salt stress. BMC PLANT BIOLOGY 2020; 20:568. [PMID: 33380327 PMCID: PMC7774241 DOI: 10.1186/s12870-020-02753-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2020] [Accepted: 11/24/2020] [Indexed: 06/01/2023]
Abstract
BACKGROUND Soil salinity is one of the major abiotic stress factors that affect crop growth and yield, which seriously restricts the sustainable development of agriculture. Quinoa is considered as one of the most promising crops in the future for its high nutrition value and strong adaptability to extreme weather and soil conditions. However, the molecular mechanisms underlying the adaptive response to salinity stress of quinoa remain poorly understood. To identify candidate genes related to salt tolerance, we performed reference-guided assembly and compared the gene expression in roots treated with 300 mM NaCl for 0, 0.5, 2, and 24 h of two contrasting quinoa genotypes differing in salt tolerance. RESULTS The salt-tolerant (ST) genotype displayed higher seed germination rate and plant survival rate, and stronger seedling growth potential as well than the salt-sensitive (SS) genotype under salt stress. An average of 38,510,203 high-quality clean reads were generated. Significant Gene Ontology (GO) terms and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways were identified to deeper understand the differential response. Transcriptome analysis indicated that salt-responsive genes in quinoa were mainly related to biosynthesis of secondary metabolites, alpha-Linolenic acid metabolism, plant hormone signal transduction, and metabolic pathways. Moreover, several pathways were significantly enriched amongst the differentially expressed genes (DEGs) in ST genotypes, such as phenylpropanoid biosynthesis, plant-pathogen interaction, isoquinoline alkaloid biosynthesis, and tyrosine metabolism. One hundred seventeen DEGs were common to various stages of both genotypes, identified as core salt-responsive genes, including some transcription factor members, like MYB, WRKY and NAC, and some plant hormone signal transduction related genes, like PYL, PP2C and TIFY10A, which play an important role in the adaptation to salt conditions of this species. The expression patterns of 21 DEGs were detected by quantitative real-time PCR (qRT-PCR) and confirmed the reliability of the RNA-Seq results. CONCLUSIONS We identified candidate genes involved in salt tolerance in quinoa, as well as some DEGs exclusively expressed in ST genotype. The DEGs common to both genotypes under salt stress may be the key genes for quinoa to adapt to salinity environment. These candidate genes regulate salt tolerance primarily by participating in reactive oxygen species (ROS) scavenging system, protein kinases biosynthesis, plant hormone signal transduction and other important biological processes. These findings provide theoretical basis for further understanding the regulation mechanism underlying salt tolerance network of quinoa, as well establish foundation for improving its tolerance to salinity in future breeding programs.
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Affiliation(s)
- Pibiao Shi
- Xinyang Agricultural Experiment Station of Yancheng City, Yancheng, 224049, Jiangsu, China
| | - Minfeng Gu
- Xinyang Agricultural Experiment Station of Yancheng City, Yancheng, 224049, Jiangsu, China.
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Growth, ionic homeostasis, and physiological responses of cotton under different salt and alkali stresses. Sci Rep 2020; 10:21844. [PMID: 33318587 PMCID: PMC7736318 DOI: 10.1038/s41598-020-79045-z] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2020] [Accepted: 12/03/2020] [Indexed: 11/16/2022] Open
Abstract
To better understand the mechanism of salt tolerance, we analyzed cotton growth and the ionomes in different tissues under different types of salt–alkali stress. Cotton was exposed to the soil salt and alkali stresses, NaCl, Na2SO4, and Na2CO3 + NaHCO3, in a pot study. Salt and alkali stress significantly inhibited cotton growth, significantly reduced root length, surface area, and volume, and significantly increased relative electrical conductivity (REC) and malondialdehyde (MDA) content but also significantly increased antioxidant enzyme activities, and proline (Pro) content. The REC in leaves was higher under salt stress than under alkali stress, but the effects on Pro were in the order Na2CO3 + NaHCO3 > NaCl > Na2SO4. Principal component analysis showed a significant difference in ion composition under the different types of salt–alkali stress. Under the three types of salt–alkali stress, concentrations of Na and Mo increased significantly in different organs of cotton plants. Under NaCl stress, the absorption of Ca was inhibited, the transport capacity of P, Mg, and Cu was reduced, and the ion balance was maintained by promoting the uptake and transport of Zn, Mn, Al, and Mo. Under Na2SO4 stress, the absorption of P and Ca was inhibited, the transport capacity of Mg, B, and Cu was reduced, and the ion balance was maintained by promoting the uptake and transport of S, Zn, Fe, Mo, Al, and Co. Under Na2CO3 + NaHCO3 stress, the absorption of P and S was inhibited, the transport capacity of Mg and B was reduced, but that of Al and Fe increased, and the ion balance was maintained by promoting the uptake and transport of Mn, Mo, Ni, and Co. The relative expression of GhSOS1 and GhNHX1 in leaves increased significantly under salt stress but decreased under alkali stress. These results suggest that cotton is well-adapted to salt–alkali stress via the antioxidant enzyme system, adjustment of osmotic substances, and reconstruction of ionic equilibrium; neutral salt stress primarily disrupts the ion balance, whereas alkali stress decreases the ability to regulate Na and inhibits the absorption of mineral elements, as well as disrupts the ion balance; and the changes in the expression of salt tolerance-related genes may partially explain the accumulation of Na ions in cotton under salt–alkali stress.
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Wang D, Lu X, Chen X, Wang S, Wang J, Guo L, Yin Z, Chen Q, Ye W. Temporal salt stress-induced transcriptome alterations and regulatory mechanisms revealed by PacBio long-reads RNA sequencing in Gossypium hirsutum. BMC Genomics 2020; 21:838. [PMID: 33246403 PMCID: PMC7694341 DOI: 10.1186/s12864-020-07260-z] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2019] [Accepted: 11/19/2020] [Indexed: 12/18/2022] Open
Abstract
Background Cotton (Gossypium hirsutum) is considered a fairly salt tolerant crop however, salinity can still cause significant economic losses by affecting the yield and deteriorating the fiber quality. We studied a salt-tolerant upland cotton cultivar under temporal salt stress to unfold the salt tolerance molecular mechanisms. Biochemical response to salt stress (400 mM) was measured at 0 h, 3 h, 12 h, 24 h and 48 h post stress intervals and single-molecule long-read sequencing technology from Pacific Biosciences (PacBio) combined with the unique molecular identifiers approach was used to identify differentially expressed genes (DEG). Results Antioxidant enzymes including, catalase (CAT), peroxidase (POD), superoxide dismutase (SOD) were found significantly induced under temporal salt stress, suggesting that reactive oxygen species scavenging antioxidant machinery is an essential component of salt tolerance mechanism in cotton. We identified a wealth of novel transcripts based on the PacBio long reads sequencing approach. Prolonged salt stress duration induces high number of DEGs. Significant numbers of DEGs were found under key terms related to stress pathways such as “response to oxidative stress”, “response to salt stress”, “response to water deprivation”, “cation transport”, “metal ion transport”, “superoxide dismutase”, and “reductase”. Key DEGs related to hormone (abscisic acid, ethylene and jasmonic acid) biosynthesis, ion homeostasis (CBL-interacting serine/threonine-protein kinase genes, calcium-binding proteins, potassium transporter genes, potassium channel genes, sodium/hydrogen exchanger or antiporter genes), antioxidant activity (POD, SOD, CAT, glutathione reductase), transcription factors (myeloblastosis, WRKY, Apetala 2) and cell wall modification were found highly active in response to salt stress in cotton. Expression fold change of these DEGs showed both positive and negative responses, highlighting the complex nature of salt stress tolerance mechanisms in cotton. Conclusion Collectively, this study provides a good insight into the regulatory mechanism under salt stress in cotton and lays the foundation for further improvement of salt stress tolerance. Supplementary Information The online version contains supplementary material available at 10.1186/s12864-020-07260-z.
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Affiliation(s)
- Delong Wang
- College of Agriculture, Xinjiang Agricultural University, 311 Nongda East Road, Urumqi, 830052, P. R. China.,State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Xuke Lu
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Xiugui Chen
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Shuai Wang
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Junjuan Wang
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Lixue Guo
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Zujun Yin
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Quanjia Chen
- College of Agriculture, Xinjiang Agricultural University, 311 Nongda East Road, Urumqi, 830052, P. R. China
| | - Wuwei Ye
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China.
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Summanwar A, Basu U, Kav NNV, Rahman H. Identification of lncRNAs in response to infection by Plasmodiophora brassicae in Brassica napus and development of lncRNA-based SSR markers. Genome 2020; 64:547-566. [PMID: 33170735 DOI: 10.1139/gen-2020-0062] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Clubroot resistance in spring canola has been introgressed from different Brassica sources; however, molecular mechanism underlying this resistance, especially the involvement of long non-coding RNAs (lncRNAs), is yet to be understood. We identified 464 differentially expressed (DE) lncRNAs from the roots of clubroot-resistant canola, carrying resistance on chromosome BnaA03, and susceptible canola lines challenged with Plasmodiophora brassicae pathotype 3. Pathway enrichment analysis showed that most of the target genes regulated by these DE lncRNAs belonged to plant-pathogen interaction and hormone signaling, as well as primary and secondary metabolic pathways. Comparative analysis of these lncRNAs with 530 previously reported DE lncRNAs, identified using resistance located on BnaA08, detected 12 lncRNAs that showed a similar trend of upregulation in both types of resistant lines; these lncRNAs probably play a fundamental role in clubroot resistance. We identified SSR markers within 196 DE lncRNAs. Genotyping of two DH populations carrying resistance on BnaA03 identified a marker capable of detecting the resistance in 98% of the DH lines. To our knowledge, this is the first report of the identification of SSRs within lncRNAs responsive to P. brassicae infection, demonstrating the potential use of lncRNAs in the breeding of Brassica crops.
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Affiliation(s)
- Aarohi Summanwar
- Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB, T6G 2P5, Canada.,Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB, T6G 2P5, Canada
| | - Urmila Basu
- Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB, T6G 2P5, Canada.,Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB, T6G 2P5, Canada
| | - Nat N V Kav
- Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB, T6G 2P5, Canada.,Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB, T6G 2P5, Canada
| | - Habibur Rahman
- Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB, T6G 2P5, Canada.,Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB, T6G 2P5, Canada
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Zhang L, Chen L, Lu F, Liu Z, Lan S, Han G. Differentially expressed genes related to oxidoreductase activity and glutathione metabolism underlying the adaptation of Phragmites australis from the salt marsh in the Yellow River Delta, China. PeerJ 2020; 8:e10024. [PMID: 33072439 PMCID: PMC7537617 DOI: 10.7717/peerj.10024] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2019] [Accepted: 09/02/2020] [Indexed: 12/11/2022] Open
Abstract
The common reed (Phragmites australis) is a dominant species in the coastal wetlands of the Chinese Yellow River Delta, where it tolerates a wide range of salinity. Recent environmental changes have led to the increase of soil salinity in this region, which has degraded much of the local vegetation. Clones of common reeds from the tidal marsh may have adapted to local high salinity habitat through selection on genes and metabolic pathways conferring salt tolerance. This study aims to reveal molecular mechanisms underlying salt tolerance in the tidal reed by comparing them to the salt-sensitive freshwater reed under salt stress. We employed comparative transcriptomics to reveal the differentially expressed genes (DEGs) between these two types of common reeds under different salinity conditions. The results showed that only three co-expressed genes were up-regulated and one co-expressed gene was down-regulated between the two reed types. On the other hand, 1,371 DEGs were exclusively up-regulated and 285 DEGs were exclusively down-regulated in the tidal reed compared to the control, while 115 DEGs were exclusively up-regulated and 118 DEGs were exclusively down-regulated in the freshwater reed compared to the control. From the pattern of enrichment of transcripts involved in salinity response, the tidal reed was more active and efficient in scavenging reactive oxygen species (ROS) than the freshwater reed, with the tidal reed showing significantly higher gene expression in oxidoreductase activity. Furthermore, when the reeds were exposed to salt stress, transcripts encoding glutathione metabolism were up-regulated in the tidal reed but not in the freshwater reed. DEGs related to encoding glutathione reductase (GR), glucose-6-phosphate 1-dehydrogenase (G6PDH), 6-phosphogluconate dehydrogenase (6PD), glutathione S-transferase (GST) and L-ascorbate peroxidase (LAP) were revealed as especially highly differentially regulated and therefore represented candidate genes that could be cloned into plants to improve salt tolerance. Overall, more genes were up-regulated in the tidal reed than in the freshwater reed from the Yellow River Delta when under salt stress. The tidal reed efficiently resisted salt stress by up-regulating genes encoding for oxidoreductase activity and glutathione metabolism. We suggest that this type of common reed could be extremely useful in the ecological restoration of degraded, high salinity coastal wetlands in priority.
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Affiliation(s)
- Liwen Zhang
- CAS Key Laboratory of Coastal Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research (YIC), Chinese Academy of Sciences (CAS); Shandong Key Laboratory of Coastal Environmental Processes, YICCAS, Yantai, China
| | - Lin Chen
- CAS Key Laboratory of Coastal Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research (YIC), Chinese Academy of Sciences (CAS); Shandong Key Laboratory of Coastal Environmental Processes, YICCAS, Yantai, China.,College of Environment and Planning, Liaocheng University, Liaocheng, China
| | - Feng Lu
- Administration Committee of Shandong Yellow River Delta National Nature Reserve, Dongying, China
| | - Ziting Liu
- College of Environment and Planning, Liaocheng University, Liaocheng, China
| | - Siqun Lan
- CAS Key Laboratory of Coastal Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research (YIC), Chinese Academy of Sciences (CAS); Shandong Key Laboratory of Coastal Environmental Processes, YICCAS, Yantai, China.,School of Resources and Environmental Engineering, Ludong University, Yantai, China
| | - Guangxuan Han
- CAS Key Laboratory of Coastal Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research (YIC), Chinese Academy of Sciences (CAS); Shandong Key Laboratory of Coastal Environmental Processes, YICCAS, Yantai, China
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45
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Understanding salt tolerance mechanism using transcriptome profiling and de novo assembly of wild tomato Solanum chilense. Sci Rep 2020; 10:15835. [PMID: 32985535 PMCID: PMC7523002 DOI: 10.1038/s41598-020-72474-w] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2019] [Accepted: 08/21/2020] [Indexed: 01/30/2023] Open
Abstract
Soil salinity affects the plant growth and productivity detrimentally, but Solanum chilense, a wild relative of cultivated tomato (Solanum lycopersicum L.), is known to have exceptional salt tolerance. It has precise adaptations against direct exposure to salt stress conditions. Hence, a better understanding of the mechanism to salinity stress tolerance by S. chilense can be accomplished by comprehensive gene expression studies. In this study 1-month-old seedlings of S. chilense and S. lycopersicum were subjected to salinity stress through application of sodium chloride (NaCl) solution. Through RNA-sequencing here we have studied the differences in the gene expression patterns. A total of 386 million clean reads were obtained through RNAseq analysis using the Illumina HiSeq 2000 platform. Clean reads were further assembled de novo into a transcriptome dataset comprising of 514,747 unigenes with N50 length of 578 bp and were further aligned to the public databases. Genebank non-redundant (Nr), Viridiplantae, Gene Ontology (GO), KOG, and KEGG databases classification suggested enrichment of these unigenes in 30 GO categories, 26 KOG, and 127 pathways, respectively. Out of 265,158 genes that were differentially expressed in response to salt treatment, 134,566 and 130,592 genes were significantly up and down-regulated, respectively. Upon placing all the differentially expressed genes (DEG) in known signaling pathways, it was evident that most of the DEGs involved in cytokinin, ethylene, auxin, abscisic acid, gibberellin, and Ca2+ mediated signaling pathways were up-regulated. Furthermore, GO enrichment analysis was performed using REVIGO and up-regulation of multiple genes involved in various biological processes in chilense under salinity were identified. Through pathway analysis of DEGs, “Wnt signaling pathway” was identified as a novel pathway for the response to the salinity stress. Moreover, key genes for salinity tolerance, such as genes encoding proline and arginine metabolism, ROS scavenging system, transporters, osmotic regulation, defense and stress response, homeostasis and transcription factors were not only salt-induced but also showed higher expression in S. chilense as compared to S. lycopersicum. Thus indicating that these genes may have an important role in salinity tolerance in S. chilense. Overall, the results of this study improve our understanding on possible molecular mechanisms underlying salt tolerance in plants in general and tomato in particular.
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He S, Hao Y, Zhang Q, Zhang P, Ji F, Cheng H, Lv D, Sun Y, Hao F, Miao C. Histone Deacetylase Inhibitor SAHA Improves High Salinity Tolerance Associated with Hyperacetylation-Enhancing Expression of Ion Homeostasis-Related Genes in Cotton. Int J Mol Sci 2020; 21:E7105. [PMID: 32993126 PMCID: PMC7582796 DOI: 10.3390/ijms21197105] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2020] [Revised: 09/22/2020] [Accepted: 09/23/2020] [Indexed: 01/01/2023] Open
Abstract
Histone acetylation plays an important role in regulation of chromatin structure and gene expression in terms of responding to abiotic stresses. Histone acetylation is modulated by histone deacetylases (HDACs) and histone acetyltransferases. Recently, the effectiveness of HDAC inhibitors (HDACis) for conferring plant salt tolerance has been reported. However, the role of HDACis in cotton has not been elucidated. In the present study, we assessed the effects of the HDACi suberoylanilide hydroxamic acid (SAHA) during high salinity stress in cotton. We demonstrated that 10 μM SAHA pretreatment could rescue of cotton from 250 mM NaCl stress, accompanied with reduced Na+ accumulation and a strong expression of the ion homeostasis-related genes. Western blotting and immunostaining results revealed that SAHA pretreatment could induce global hyperacetylation of histone H3 at lysine 9 (H3K9) and histone H4 at lysine 5 (H4K5) under 250 mM NaCl stress, indicating that SAHA could act as the HDACi in cotton. Chromatin immunoprecipitation and chromatin accessibility coupled with real time quantitative PCR analyses showed that the upregulation of the ion homeostasis-related genes was associated with the elevated acetylation levels of H3K9 and H4K5 and increased chromatin accessibility on the promoter regions of these genes. Our results could provide a theoretical basis for analyzing the mechanism of HDACi application on salt tolerance in plants.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | - Chen Miao
- State Key Laboratory of Cotton Biology, School of Life Sciences, Henan University, Kaifeng 475004, China; (S.H.); (Y.H.); (Q.Z.); (P.Z.); (F.J.); (H.C.); (D.L.); (Y.S.); (F.H.)
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Hernandez Y, Goswami K, Sanan‐Mishra N. Stress induced dynamic adjustment of conserved miR164:NAC module. PLANT-ENVIRONMENT INTERACTIONS (HOBOKEN, N.J.) 2020; 1:134-151. [PMID: 37283725 PMCID: PMC10168063 DOI: 10.1002/pei3.10027] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/04/2019] [Revised: 07/02/2020] [Accepted: 07/14/2020] [Indexed: 06/08/2023]
Abstract
Aims including the rationale Salinity and drought are the two major stresses limiting the productivity of economically important crops such as Glycine max (soybean). The incidence of these stresses during the pod development stages affects the quality and quantity of seeds, which compromise the yield of soybean. The miR164:NAC module has been shown to play a critical role in regulating the response to salt and drought stress in several plant species. However, biological role of miR164:NAC module in salt stress in soybean is not fully understood. Methods In this study, we identified 215 salt responsive miRNAs, using miScript miRNA array with a sensitive and a tolerant soybean genotype, William82 and INCASoy36, respectively. The targets of these salt regulated miRNAs were searched in the degradome datasets. Key results It was found that four salt stress deregulated miRNAs targeted the NAC transcription factor and among these miR164k and miR408d showed antagonistic expression in the two soybean genotypes. The expression of miR164k was higher in salt tolerant INCASoy36 as compared to salt sensitive William82, under unstressed conditions. However under salt stress, miR164k was downregulated in INCASoy36 (-2.65 fold), whereas it was upregulated in William82 (4.68 fold). A transient co-expression assay validated that gma-miR164k directs the cleavage of GmNAC1 transcript. Bioinformatics analysis revealed that the regulation of NAC transcription factor family by members of miR164 family is conserved across many species. The dynamic expression profiles of miR164 and NAC-TFs were captured in different tissues of rice, tobacco, and two soybean genotypes under drought and salt stress conditions. Main conclusion Collectively, our results suggest that genetically determined dynamic modulation of the conserved miR164:NAC-TF module may play an important role in determining the adaptive response of plants to stress.
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Affiliation(s)
- Yuniet Hernandez
- Plant RNAi Biology GroupInternational Centre for Genetic Engineering and BiotechnologyNew DelhiIndia
| | - Kavita Goswami
- Plant RNAi Biology GroupInternational Centre for Genetic Engineering and BiotechnologyNew DelhiIndia
| | - Neeti Sanan‐Mishra
- Plant RNAi Biology GroupInternational Centre for Genetic Engineering and BiotechnologyNew DelhiIndia
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Debnath B, Li M, Liu S, Pan T, Ma C, Qiu D. Melatonin-mediate acid rain stress tolerance mechanism through alteration of transcriptional factors and secondary metabolites gene expression in tomato. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 200:110720. [PMID: 32470680 DOI: 10.1016/j.ecoenv.2020.110720] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/19/2019] [Revised: 04/27/2020] [Accepted: 05/03/2020] [Indexed: 05/03/2023]
Abstract
Acid rain is a widespread environmental issue intensely affecting normal plant growth of crops. Melatonin is well known pleiotropic molecule which improves abiotic and biotic stress tolerance of plants through physiological and molecular mediation. However, the impact of exogenous melatonin on molecular activities under acid rain conditions in plants has never been studied. The objective of the study is to expose the possible role of exogenous melatonin on physiological and molecular changes against acid rain stress in tomato. Transcriptome profile through RNA-sequence analysis identified 1228, 1120 and 1537 differentially expressed genes (DEGs) in control plant (Ctr) vs simulated acid rain stressed plant (P25) comparison, control plant vs melatonin treatment in simulated acid rain stressed plant (P25M) comparison and P25 vs P25M comparison, respectively. Among them, 152 differentially expressed genes (DEGs) were commonly expressed and the expression of secondary metabolites related gene was noticeably observed in all comparison. Moreover, transcript families such as ERF, WRKY, MYB and bZIP related gene accounted more in all treatment comparison. The RNA-sequence and qPCR results indicated that exogenous melatonin is closely associated with acid rain stress moderator and might be involved in alteration of differentially expressed genes (DEGs), biosynthesis of plant secondary metabolites and transcriptional factor encoding genes expression which might have potential application against environmental hazardous conditions.
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Affiliation(s)
- Biswojit Debnath
- College of Horticulture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China; Department of Horticulture, Sylhet Agricultural University, Sylhet, 3100, Bangladesh
| | - Min Li
- College of Horticulture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China
| | - Shuang Liu
- College of Horticulture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China
| | - Tengfei Pan
- College of Horticulture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China
| | - Cuilan Ma
- College of Horticulture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China
| | - Dongliang Qiu
- College of Horticulture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China.
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Transcriptome Analysis Reveals Complex Defensive Mechanisms in Salt-Tolerant and Salt-Sensitive Shrub Willow Genotypes under Salinity Stress. Int J Genomics 2020; 2020:6870157. [PMID: 32775403 PMCID: PMC7407064 DOI: 10.1155/2020/6870157] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2020] [Revised: 06/23/2020] [Accepted: 07/08/2020] [Indexed: 01/07/2023] Open
Abstract
Salinity stress is one of the most devastating abiotic stresses limiting plant growth and productivity. As a moderately salt-tolerant crop, shrub willow (Salix spp.) is widely distributed over the world and can provide multiple bioenergy product and environmental benefits. To delve into the salt tolerance mechanism and screen out salt-tolerant genes, two shrub willow cultivars (a salt-sensitive genotype JW9-6 and a salt-tolerant genotype JW2372) at three time points (0, 2, and 12 h) after NaCl treatments were used for RNA sequencing. A comparative analysis between genotypes and time points showed 1,706 differentially expressed genes (DEGs), of which 1,029 and 431 DEGs were only found in the JW9-6 and JW2372, respectively. Gene Ontology (GO) and MapMan annotations suggested that many DEGs were involved in various defense-related biological pathways, including cell wall integrity, hormone signaling, antioxidant system, heat shock proteins, and transcription factors. Compared to JW9-6, JW2372 contained more DEGs involved in the maintenance of the cell wall integrity, ABA, and ethylene signal transduction pathways. In addition, more DEGs encoding heat shock proteins were found in JW2372. Instead, transcription factors including ERF, MYB, NAC, and WRKY were found to be more differentially expressed in JW9-6 under salinity stress. Furthermore, expressions of nine randomly selected DEGs were verified by qRT-PCR analysis. This study contributes in new perspicacity into underlying the salt tolerance mechanism of a shrub willow at the transcriptome level and also provides numerous salt-tolerant genes for further genetic engineering and breeding purposes in the future.
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Salt stress induces endoplasmic reticulum stress-responsive genes in a grapevine rootstock. PLoS One 2020; 15:e0236424. [PMID: 32730292 PMCID: PMC7392237 DOI: 10.1371/journal.pone.0236424] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2020] [Accepted: 07/06/2020] [Indexed: 11/19/2022] Open
Abstract
Grapevines, although adapted to occasional drought or salt stress, are relatively sensitive to growth- and yield-limiting salinity stress. To understand the molecular mechanisms of salt tolerance and endoplasmic reticulum (ER) stress and identify genes commonly regulated by both stresses in grapevine, we investigated transcript profiles in leaves of the salt-tolerant grapevine rootstock 1616C under salt- and ER-stress. Among 1643 differentially expressed transcripts at 6 h post-treatment in leaves, 29 were unique to ER stress, 378 were unique to salt stress, and 16 were common to both stresses. At 24 h post-treatment, 243 transcripts were unique to ER stress, 1150 were unique to salt stress, and 168 were common to both stresses. GO term analysis identified genes in categories including ‘oxidative stress’, ‘protein folding’, ‘transmembrane transport’, ‘protein phosphorylation’, ‘lipid transport’, ‘proteolysis’, ‘photosynthesis’, and ‘regulation of transcription’. The expression of genes encoding transporters, transcription factors, and proteins involved in hormone biosynthesis increased in response to both ER and salt stresses. KEGG pathway analysis of differentially expressed genes for both ER and salt stress were divided into four main categories including; carbohydrate metabolism, amino acid metabolism, signal transduction and lipid metabolism. Differential expression of several genes was confirmed by qRT-PCR analysis, which validated our microarray results. We identified transcripts for genes that might be involved in salt tolerance and also many genes differentially expressed under both ER and salt stresses. Our results could provide new insights into the mechanisms of salt tolerance and ER stress in plants and should be useful for genetic improvement of salt tolerance in grapevine.
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