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Malambane G, Madumane K, Sewelo LT, Batlang U. Drought stress tolerance mechanisms and their potential common indicators to salinity, insights from the wild watermelon (Citrullus lanatus): A review. FRONTIERS IN PLANT SCIENCE 2023; 13:1074395. [PMID: 36815012 PMCID: PMC9939662 DOI: 10.3389/fpls.2022.1074395] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/19/2022] [Accepted: 11/25/2022] [Indexed: 06/18/2023]
Abstract
Climate change has escalated the effect of drought on crop production as it has negatively altered the environmental condition. Wild watermelon grows abundantly in the Kgalagadi desert even though the environment is characterized by minimal rainfall, high temperatures and intense sunshine during growing season. This area is also characterized by sandy soils with low water holding capacity, thus bringing about drought stress. Drought stress affects crop productivity through its effects on development and physiological functions as dictated by molecular responses. Not only one or two physiological process or genes are responsible for drought tolerance, but a combination of various factors do work together to aid crop tolerance mechanism. Various studies have shown that wild watermelon possess superior qualities that aid its survival in unfavorable conditions. These mechanisms include resilient root growth, timely stomatal closure, chlorophyll fluorescence quenching under water deficit as key physiological responses. At biochemical and molecular level, the crop responds through citrulline accumulation and expression of genes associated with drought tolerance in this species and other plants. Previous salinity stress studies involving other plants have identified citrulline accumulation and expression of some of these genes (chloroplast APX, Type-2 metallothionein), to be associated with tolerance. Emerging evidence indicates that the upstream of functional genes are the transcription factor that regulates drought and salinity stress responses as well as adaptation. In this review we discuss the drought tolerance mechanisms in watermelons and some of its common indicators to salinity at physiological, biochemical and molecular level.
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Crop Root Responses to Drought Stress: Molecular Mechanisms, Nutrient Regulations, and Interactions with Microorganisms in the Rhizosphere. Int J Mol Sci 2022; 23:ijms23169310. [PMID: 36012575 PMCID: PMC9409098 DOI: 10.3390/ijms23169310] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2022] [Revised: 08/03/2022] [Accepted: 08/17/2022] [Indexed: 12/03/2022] Open
Abstract
Roots play important roles in determining crop development under drought. Under such conditions, the molecular mechanisms underlying key responses and interactions with the rhizosphere in crop roots remain limited compared with model species such as Arabidopsis. This article reviews the molecular mechanisms of the morphological, physiological, and metabolic responses to drought stress in typical crop roots, along with the regulation of soil nutrients and microorganisms to these responses. Firstly, we summarize how root growth and architecture are regulated by essential genes and metabolic processes under water-deficit conditions. Secondly, the functions of the fundamental plant hormone, abscisic acid, on regulating crop root growth under drought are highlighted. Moreover, we discuss how the responses of crop roots to altered water status are impacted by nutrients, and vice versa. Finally, this article explores current knowledge of the feedback between plant and soil microbial responses to drought and the manipulation of rhizosphere microbes for improving the resilience of crop production to water stress. Through these insights, we conclude that to gain a more comprehensive understanding of drought adaption mechanisms in crop roots, future studies should have a network view, linking key responses of roots with environmental factors.
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Devitt JK, Chung A, Schenk JJ. Inferring the genetic responses to acute drought stress across an ecological gradient. BMC Genomics 2022; 23:3. [PMID: 34983380 PMCID: PMC8725310 DOI: 10.1186/s12864-021-08178-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2020] [Accepted: 11/16/2021] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND How do xerophytic species thrive in environments that experience extreme annual drought? Although critical to the survival of many species, the genetic responses to drought stress in many non-model organisms has yet to be explored. We investigated this question in Mentzelia section Bartonia (Loasaceae), which occurs throughout western North America, including arid lands. To better understand the genetic responses to drought stress among species that occur in different habitats, the gene expression levels of three species from Mentzelia were compared across a precipitation gradient. Two de novo reference transcriptomes were generated and annotated. Leaf and root tissues were collected from control and drought shocked plants and compared to one another for differential expression. A target-gene approach was also implemented to better understand how drought-related genes from model and crop species function in non-model systems. RESULTS When comparing the drought-shock treatment plants to their respective control plants, we identified 165 differentially expressed clusters across all three species. Differentially expressed genes including those associated with water movement, photosynthesis, and delayed senescence. The transcriptome profiling approach was coupled with a target genes approach that measured expression of 90 genes associated with drought tolerance in model organisms. Comparing differentially expressed genes with a ≥ 2 log-fold value between species and tissue types showed significant differences in drought response. In pairwise comparisons, species that occurred in drier environments differentially expressed greater genes in leaves when drought shocked than those from wetter environments, but expression in the roots mostly produced opposite results. CONCLUSIONS Arid-adapted species mount greater genetic responses compared to the mesophytic species, which has likely evolved in response to consistent annual drought exposure across generations. Drought responses also depended on organ type. Xerophytes, for example, mounted a larger response in leaves to downregulate photosynthesis and senescence, while mobilizing carbon and regulating water in the roots. The complexity of drought responses in Mentzelia suggest that whole organism responses need to be considered when studying drought and, in particular, the physiological mechanisms in which plants regulate water, carbon, cell death, metabolism, and secondary metabolites.
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Affiliation(s)
- Jessica K Devitt
- Department of Biology, Georgia Southern University, Statesboro, GA, 30460, USA.
| | - Albert Chung
- Department of Ecology and Evolutionary Biology, University of California Los Angeles, Los Angeles, CA, 90095-7246, USA
| | - John J Schenk
- Department of Environmental and Plant Biology, Ohio University, Athens, OH, 457012979, USA
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Vu TTH, Le TTC, Pham TL. Growth responses and differential expression of VrDREB2A gene at different growth stages of mungbean ( Vigna radiata L. Wilczek) under drought stress. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2021; 27:2447-2458. [PMID: 34924703 PMCID: PMC8639898 DOI: 10.1007/s12298-021-01089-w] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2021] [Revised: 09/21/2021] [Accepted: 10/16/2021] [Indexed: 06/14/2023]
Abstract
UNLABELLED Mungbean is an important pulse crop and is predominantly cultivated across Asia. However, its production is hampered by climate change-induced drought stress. Drought affects various morpho-physiological processes associated with growth and molecular functions. This study analyzed growth responses and VrDREB2A gene expression in two mungbean cultivars, DX208 and Tam Thanh Hoa under water deficit at vegetative and flowering stages. Water use and growth characters were evaluated at four time-points (8, 12, 15 and 20-day drought) and 7-day recovery while yield components and yield were recorded after harvesting. Differential expression of VrDREB2A gene was analyzed at four time-points for leaf and root. Plants used up water more quickly at the flowering stage than vegetative stage. The data for plant height, leaf number, above-ground plant biomass and root weight indicated that drought stress significantly repressed mungbean growth, with a reduction relative to the control by 4.0-85%. Yield components and individual yield reduced significantly by 50-60%, with more reduction in drought imposed under the vegetative stage. VrDREB2A expression began to increase on a 12-day drought and was significant in stressed roots on a 20-day drought at the vegetative stage. In contrast, an increase in VrDREB2A expression occurred from 8-day and lasted until a 20-day drought in stressed leave and root at the flowering stage. Overall, the vegetative stage was more sensitive to drought than the flowering stage. A cultivar with less relative reduction in growth and yield related traits and higher VrDREB2A expression was more tolerant to drought. VrDREB2A functioned as an important transcriptional activator and can increase the drought stress tolerance of the mungbean. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s12298-021-01089-w.
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Affiliation(s)
- Thi Thuy Hang Vu
- Faculty of Agronomy, Vietnam National University of Agriculture, Hanoi, Vietnam
| | - Thi Tuyet Cham Le
- Faculty of Agronomy, Vietnam National University of Agriculture, Hanoi, Vietnam
| | - Thi Ly Pham
- Undergraduate Student of Advanced Crop Science Program, Faculty of Agronomy, Vietnam National University of Agriculture, Hanoi, Vietnam
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Hoang XLT, Chuong NN, Hoa TTK, Doan H, Van PHP, Trang LDM, Huyen PNT, Le DT, Tran LSP, Thao NP. The Drought-Mediated Soybean GmNAC085 Functions as a Positive Regulator of Plant Response to Salinity. Int J Mol Sci 2021; 22:8986. [PMID: 34445699 PMCID: PMC8396556 DOI: 10.3390/ijms22168986] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2021] [Revised: 08/13/2021] [Accepted: 08/17/2021] [Indexed: 01/01/2023] Open
Abstract
Abiotic stress factors, such as drought and salinity, are known to negatively affect plant growth and development. To cope with these adverse conditions, plants have utilized certain defense mechanisms involved in various aspects, including morphological, biochemical and molecular alterations. Particularly, a great deal of evidence for the biological importance of the plant-specific NAM, ATAF1/2, CUC2 (NAC) transcription factors (TFs) in plant adaptation to abiotic stress conditions has been reported. A previous in planta study conducted by our research group demonstrated that soybean (Glycine max) GmNAC085 mediated drought resistance in transgenic Arabidopsis plants. In this study, further characterization of GmNAC085 function in association with salt stress was performed. The findings revealed that under this condition, transgenic soybean plants overexpressing GmNAC085 displayed better germination rates than wild-type plants. In addition, biochemical and transcriptional analyses showed that the transgenic plants acquired a better defense system against salinity-induced oxidative stress, with higher activities of antioxidant enzymes responsible for scavenging hydrogen peroxide or superoxide radicals. Higher transcript levels of several key stress-responsive genes involved in the proline biosynthetic pathway, sodium ion transporter and accumulation of dehydrins were also observed, indicating better osmoprotection and more efficient ion regulation capacity in the transgenic lines. Taken together, these findings and our previous report indicate that GmNAC085 may play a role as a positive regulator in plant adaptation to drought and salinity conditions.
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Affiliation(s)
- Xuan Lan Thi Hoang
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc City, Ho Chi Minh City 700000, Vietnam; (X.L.T.H.); (N.N.C.); (T.T.K.H.); (H.D.); (P.H.P.V.); (L.D.M.T.); (P.N.T.H.)
- Vietnam National University, Thu Duc City, Ho Chi Minh City 700000, Vietnam
| | - Nguyen Nguyen Chuong
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc City, Ho Chi Minh City 700000, Vietnam; (X.L.T.H.); (N.N.C.); (T.T.K.H.); (H.D.); (P.H.P.V.); (L.D.M.T.); (P.N.T.H.)
- Vietnam National University, Thu Duc City, Ho Chi Minh City 700000, Vietnam
| | - Tran Thi Khanh Hoa
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc City, Ho Chi Minh City 700000, Vietnam; (X.L.T.H.); (N.N.C.); (T.T.K.H.); (H.D.); (P.H.P.V.); (L.D.M.T.); (P.N.T.H.)
- Vietnam National University, Thu Duc City, Ho Chi Minh City 700000, Vietnam
| | - Hieu Doan
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc City, Ho Chi Minh City 700000, Vietnam; (X.L.T.H.); (N.N.C.); (T.T.K.H.); (H.D.); (P.H.P.V.); (L.D.M.T.); (P.N.T.H.)
- Vietnam National University, Thu Duc City, Ho Chi Minh City 700000, Vietnam
| | - Pham Hoang Phuong Van
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc City, Ho Chi Minh City 700000, Vietnam; (X.L.T.H.); (N.N.C.); (T.T.K.H.); (H.D.); (P.H.P.V.); (L.D.M.T.); (P.N.T.H.)
- Vietnam National University, Thu Duc City, Ho Chi Minh City 700000, Vietnam
| | - Le Dang Minh Trang
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc City, Ho Chi Minh City 700000, Vietnam; (X.L.T.H.); (N.N.C.); (T.T.K.H.); (H.D.); (P.H.P.V.); (L.D.M.T.); (P.N.T.H.)
- Vietnam National University, Thu Duc City, Ho Chi Minh City 700000, Vietnam
| | - Pham Ngoc Thai Huyen
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc City, Ho Chi Minh City 700000, Vietnam; (X.L.T.H.); (N.N.C.); (T.T.K.H.); (H.D.); (P.H.P.V.); (L.D.M.T.); (P.N.T.H.)
- Vietnam National University, Thu Duc City, Ho Chi Minh City 700000, Vietnam
| | - Dung Tien Le
- Agricultural Genetics Institute, Vietnam Academy of Agricultural Sciences, Pham Van Dong Str., Hanoi 100000, Vietnam;
| | - Lam-Son Phan Tran
- Department of Plant and Soil Science, Institute of Genomics for Crop Abiotic Stress Tolerance, Texas Tech University, Lubbock, TX 79409, USA
| | - Nguyen Phuong Thao
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc City, Ho Chi Minh City 700000, Vietnam; (X.L.T.H.); (N.N.C.); (T.T.K.H.); (H.D.); (P.H.P.V.); (L.D.M.T.); (P.N.T.H.)
- Vietnam National University, Thu Duc City, Ho Chi Minh City 700000, Vietnam
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Zhang J, Huang D, Zhao X, Zhang M. Evaluation of drought resistance and transcriptome analysis for the identification of drought-responsive genes in Iris germanica. Sci Rep 2021; 11:16308. [PMID: 34381085 PMCID: PMC8358056 DOI: 10.1038/s41598-021-95633-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2020] [Accepted: 07/28/2021] [Indexed: 02/07/2023] Open
Abstract
Iris germanica, a species with very high ornamental value, exhibits the strongest drought resistance among the species in the genus Iris, but the molecular mechanism underlying its drought resistance has not been evaluated. To investigate the gene expression profile changes exhibited by high-drought-resistant I. germanica under drought stress, 10 cultivars with excellent characteristics were included in pot experiments under drought stress conditions, and the changes in the chlorophyll (Chl) content, plasma membrane relative permeability (RP), and superoxide dismutase (SOD), malondialdehyde (MDA), free proline (Pro), and soluble protein (SP) levels in leaves were compared among these cultivars. Based on their drought-resistance performance, the 10 cultivars were ordered as follows: 'Little Dream' > 'Music Box' > 'X'Brassie' > 'Blood Stone' > 'Cherry Garden' > 'Memory of Harvest' > 'Immortality' > 'White and Gold' > 'Tantara' > 'Clarence'. Using the high-drought-resistant cultivar 'Little Dream' as the experimental material, cDNA libraries from leaves and rhizomes treated for 0, 6, 12, 24, and 48 h with 20% polyethylene glycol (PEG)-6000 to simulate a drought environment were sequenced using the Illumina sequencing platform. We obtained 1, 976, 033 transcripts and 743, 982 unigenes (mean length of 716 bp) through a hierarchical clustering analysis of the resulting transcriptome data. The unigenes were compared against the Nr, Nt, Pfam, KOG/COG, Swiss-Prot, KEGG, and gene ontology (GO) databases for functional annotation, and the gene expression levels in leaves and rhizomes were compared between the 20% PEG-6000 stress treated (6, 12, 24, and 48 h) and control (0 h) groups using DESeq2. 7849 and 24,127 differentially expressed genes (DEGs) were obtained from leaves and rhizomes, respectively. GO and KEGG enrichment analyses of the DEGs revealed significantly enriched KEGG pathways, including ribosome, photosynthesis, hormone signal transduction, starch and sucrose metabolism, synthesis of secondary metabolites, and related genes, such as heat shock proteins (HSPs), transcription factors (TFs), and active oxygen scavengers. In conclusion, we conducted the first transcriptome sequencing analysis of the I. germanica cultivar 'Little Dream' under drought stress and generated a large amount of genetic information. This study lays the foundation for further exploration of the molecular mechanisms underlying the responses of I. germanica to drought stress and provides valuable genetic resources for the breeding of drought-resistant plants.
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Affiliation(s)
- Jingwei Zhang
- grid.274504.00000 0001 2291 4530College of Landscape Architecture and Tourism, Hebei Agricultural University, Baoding, China
| | - Dazhuang Huang
- grid.274504.00000 0001 2291 4530College of Landscape Architecture and Tourism, Hebei Agricultural University, Baoding, China
| | - Xiaojie Zhao
- grid.274504.00000 0001 2291 4530College of Landscape Architecture and Tourism, Hebei Agricultural University, Baoding, China
| | - Man Zhang
- grid.274504.00000 0001 2291 4530State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
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Hoang XLT, Nguyen NC, Nguyen YNH, Watanabe Y, Tran LSP, Thao NP. The Soybean GmNAC019 Transcription Factor Mediates Drought Tolerance in Arabidopsis in an Abscisic Acid-Dependent Manner. Int J Mol Sci 2019; 21:E286. [PMID: 31906240 PMCID: PMC6981368 DOI: 10.3390/ijms21010286] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2019] [Accepted: 12/27/2019] [Indexed: 12/27/2022] Open
Abstract
Being master regulators of gene expression, transcription factors (TFs) play important roles in determining plant growth, development and reproduction. To date, many TFs have been shown to positively mediate plant responses to environmental stresses. In the current study, the biological functions of a stress-responsive NAC [NAM (No Apical Meristem), ATAF1/2 (Arabidopsis Transcription Activation Factor1/2), CUC2 (Cup-shaped Cotyledon2)]-TF encoding gene isolated from soybean (GmNAC019) in relation to plant drought tolerance and abscisic acid (ABA) responses were investigated. By using a heterologous transgenic system, we revealed that transgenic Arabidopsis plants constitutively expressing the GmNAC019 gene exhibited higher survival rates in a soil-drying assay, which was associated with lower water loss rate in detached leaves, lower cellular hydrogen peroxide content and stronger antioxidant defense under water-stressed conditions. Additionally, the exogenous treatment of transgenic plants with ABA showed their hypersensitivity to this phytohormone, exhibiting lower rates of seed germination and green cotyledons. Taken together, these findings demonstrated that GmNAC019 functions as a positive regulator of ABA-mediated plant response to drought, and thus, it has potential utility for improving plant tolerance through molecular biotechnology.
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Affiliation(s)
- Xuan Lan Thi Hoang
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University–Vietnam National University HCMC, Ho Chi Minh 700000, Vietnam; (X.L.T.H.); (N.C.N.); (Y.-N.H.N.)
| | - Nguyen Cao Nguyen
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University–Vietnam National University HCMC, Ho Chi Minh 700000, Vietnam; (X.L.T.H.); (N.C.N.); (Y.-N.H.N.)
| | - Yen-Nhi Hoang Nguyen
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University–Vietnam National University HCMC, Ho Chi Minh 700000, Vietnam; (X.L.T.H.); (N.C.N.); (Y.-N.H.N.)
| | - Yasuko Watanabe
- Stress Adaptation Research Unit, RIKEN Center for Sustainable Resource Science, 1-7-22, Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan;
| | - Lam-Son Phan Tran
- Stress Adaptation Research Unit, RIKEN Center for Sustainable Resource Science, 1-7-22, Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan;
- Institute of Research and Development, Duy Tan University, 03 Quang Trung, Da Nang 550000, Vietnam
| | - Nguyen Phuong Thao
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University–Vietnam National University HCMC, Ho Chi Minh 700000, Vietnam; (X.L.T.H.); (N.C.N.); (Y.-N.H.N.)
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Nguyen NC, Hoang XLT, Nguyen QT, Binh NX, Watanabe Y, Thao NP, Tran LSP. Ectopic Expression of Glycine maxGmNAC109 Enhances Drought Tolerance and ABA Sensitivity in Arabidopsis. Biomolecules 2019; 9:E714. [PMID: 31703428 PMCID: PMC6920929 DOI: 10.3390/biom9110714] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2019] [Revised: 10/28/2019] [Accepted: 11/01/2019] [Indexed: 01/09/2023] Open
Abstract
The NAC (NAM, ATAF1/2, CUC2) transcription factors are widely known for their various functions in plant development and stress tolerance. Previous studies have demonstrated that genetic engineering can be applied to enhance drought tolerance via overexpression/ectopic expression of NAC genes. In the present study, the dehydration- and drought-inducible GmNAC109 from Glycine max was ectopically expressed in Arabidopsis (GmNAC109-EX) plants to study its biological functions in mediating plant adaptation to water deficit conditions. Results revealed an improved drought tolerance in the transgenic plants, which displayed greater recovery rates by 20% to 54% than did the wild-type plants. In support of this finding, GmNAC109-EX plants exhibited lower water loss rates and decreased endogenous hydrogen peroxide production in leaf tissues under drought, as well as higher sensitivity to exogenous abscisic acid (ABA) treatment at germination and early seedling development stages. In addition, analyses of antioxidant enzymes indicated that GmNAC109-EX plants possessed stronger activities of superoxide dismutase and catalase under drought stress. These results together demonstrated that GmNAC109 acts as a positive transcriptional regulator in the ABA-signaling pathway, enabling plants to cope with adverse water deficit conditions.
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Affiliation(s)
- Nguyen Cao Nguyen
- School of Biotechnology, International University—Vietnam National University HCMC, Ho Chi Minh 700000, Vietnam; (N.C.N.); (X.L.T.H.); (Q.T.N.)
| | - Xuan Lan Thi Hoang
- School of Biotechnology, International University—Vietnam National University HCMC, Ho Chi Minh 700000, Vietnam; (N.C.N.); (X.L.T.H.); (Q.T.N.)
| | - Quang Thien Nguyen
- School of Biotechnology, International University—Vietnam National University HCMC, Ho Chi Minh 700000, Vietnam; (N.C.N.); (X.L.T.H.); (Q.T.N.)
| | - Ngo Xuan Binh
- Faculty of Biotechnology and Food Technology, Thai Nguyen University of Agriculture and Forestry, Thai Nguyen 250000, Vietnam;
| | - Yasuko Watanabe
- Stress Adaptation Research Unit, RIKEN Center for Sustainable Resource Science, 1-7-22, Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan;
| | - Nguyen Phuong Thao
- School of Biotechnology, International University—Vietnam National University HCMC, Ho Chi Minh 700000, Vietnam; (N.C.N.); (X.L.T.H.); (Q.T.N.)
| | - Lam-Son Phan Tran
- Institute of Research and Development, Duy Tan University, 03 Quang Trung, Da Nang, Vietnam; Stress Adaptation Research Unit, RIKEN Center for Sustainable Resource Science, 1-7-22, Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan
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Begum N, Zenat EA, Sarkar MK, K. Roy C, Munshi JL, A. Jahan MA. In vitro Micro Propagation of Soybean (Glycine max) BARI-5 Variety. Open Microbiol J 2019. [DOI: 10.2174/1874285801913010177] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
Introduction:
The present research work was undertaken with a view to developing a suitable protocol for in vitro plant regeneration of economically important plant (Glycine max) (Bangladesh Agricultural Research Institute BARI- 5) variety, via both direct and indirect organogenesis from in vitro grown seedlings.
Methods:
For micropropagation explants were cultured on MS and half strength Murashige and Skoog (MS) medium supplemented with various plant growth regulators (cytokinins and auxins). In the present study for inducting of callus, among 3 different hormone combinations, the suitable medium was 3.32 mg/L 2, 4-D containing MS medium and the callus was deep green in color. Different type of media like MS, 1/2 MS and MS with different (6-Benzyl Amino Purine) BAP concentration was used for seed germination of Glycine max. 100% of seed germination was observed in MS +1 mg/L BAP containing the medium.
Results:
In the present investigation, different concentration of cytokinins and auxins{BAP, 2, 4-D, and Naphthalene Acetic Acid (NAA)} were used individually or in combinations with MS medium to observe their effect on multiple shoot regeneration from the cotyledonary nodal segment. 100% shoot formation from cotyledonary nodal segment was recorded in 1.5 mg/L BAP and 0.15 mg/L BAP + 0.025 mg/L NAA containing MS medium, the best number of shoot was 10.9±2.0 found in MS + 1.5 mg/L BAP containing medium and highest length of shoot was 2 cm recorded in 1.5 mg/L BAP + 0.3 mg/L (different concentrations of Giberrellic acid) GA3 containing MS medium. In addition, for root induction in vitro raised well developed and elongated shoots were excised and cultured on MS and 1/2 MS medium supplemented with various concentration of Indole-3-Butyric acid (IBA). It was observed that MS medium containing 0.1 mg/L IBA and 1/2 MS medium containing 0.25 mg/L IBA was optimal for root induction. In which 100% shoots rooted well within 13 days of culture. The highest average number of roots per shoot was 6 recorded in MS +0.5 mg/L IBA containing the medium and highest average length of root was 8 cm recorded in 0.1 mg/L IBA containing MS medium.
Conclusion:
The most effective surface sterilization treatment for explants of Glycine max has been found in 0.1% HgCl2 solution for 15 minutes.
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Park YC, Chapagain S, Jang CS. A Negative Regulator in Response to Salinity in Rice: Oryza sativa Salt-, ABA- and Drought-Induced RING Finger Protein 1 (OsSADR1). PLANT & CELL PHYSIOLOGY 2018; 59:575-589. [PMID: 29361060 DOI: 10.1093/pcp/pcy009] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2017] [Accepted: 01/12/2018] [Indexed: 05/20/2023]
Abstract
RING (Really Interesting New Gene) finger proteins play crucial roles in abiotic stress responses in plants. We report the RING finger E3 ligase gene, an Oryza sativa salt, ABA and drought stress-induced RING finger protein 1 gene (OsSADR1). We demonstrated that although OsSAR1 possesses E3 ligase activity, a single amino acid substitution (OsSADR1C168A) in the RING domain resulted in no E3 ligase activity, suggesting that the activity of most E3s is specified by the RING domain. Additional assays substantiated that OsSADR1 interacts with three substrates-no E3 ligase acti and OsPIRIN, and mediates their proteolysis via the 26S proteasome pathway. For OsSADR1, approximately 62% of the transient signals were in the cytosol and 38% in the nucleus. However, transiently expressed OsSADR1 was primarily expressed in the nucleus (70%) in 200 mM salt-treated rice protoplasts. The two nucleus-localized proteins (OsSNAC2 and OsGRAS44) interacted with OsSADR1 in the cytosol and nucleus. Heterogeneous overexpression of OsSADR1 in Arabidopsis resulted in sensitive phenotypes for salt- and mannitol-responsive seed germination and seedling growth. With ABA, OsSADR1 overexpression in plants produced highly tolerant phenotypes, with morphological changes in root length and stomatal closure. The ABA-tolerant transgenic plants also showed hypersensitivity phenotypes under severe water deficit conditions. Taken together, OsSADR1 may act as a regulator in abiotic stress responses by modulating target protein levels.
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Affiliation(s)
- Yong Chan Park
- Plant Genomics Lab, Department of Applied Plant Sciences, Kangwon National University, Chuncheon 200-713, Republic of Korea
| | - Sandeep Chapagain
- Plant Genomics Lab, Department of Applied Plant Sciences, Kangwon National University, Chuncheon 200-713, Republic of Korea
| | - Cheol Seong Jang
- Plant Genomics Lab, Department of Applied Plant Sciences, Kangwon National University, Chuncheon 200-713, Republic of Korea
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11
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Melo BP, Fraga OT, Silva JCF, Ferreira DO, Brustolini OJB, Carpinetti PA, Machado JPB, Reis PAB, Fontes EPB. Revisiting the Soybean GmNAC Superfamily. FRONTIERS IN PLANT SCIENCE 2018; 9:1864. [PMID: 30619426 PMCID: PMC6305603 DOI: 10.3389/fpls.2018.01864] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2018] [Accepted: 12/04/2018] [Indexed: 05/07/2023]
Abstract
The NAC (NAM, ATAF, and CUC) genes encode transcription factors involved with the control of plant morph-physiology and stress responses. The release of the last soybean (Glycine max) genome assembly (Wm82.a2.v1) raised the possibility that new NAC genes would be present in the soybean genome. Here, we interrogated the last version of the soybean genome against a conserved NAC domain structure. Our analysis identified 32 putative novel NAC genes, updating the superfamily to 180 gene members. We also organized the genes in 15 phylogenetic subfamilies, which showed a perfect correlation among sequence conservation, expression profile, and function of orthologous Arabidopsis thaliana genes and NAC soybean genes. To validate our in silico analyses, we monitored the stress-mediated gene expression profiles of eight new NAC-genes by qRT-PCR and monitored the GmNAC senescence-associated genes by RNA-seq. Among ER stress, osmotic stress and salicylic acid treatment, all the novel tested GmNAC genes responded to at least one type of stress, displaying a complex expression profile under different kinetics and extension of the response. Furthermore, we showed that 40% of the GmNACs were differentially regulated by natural leaf senescence, including eight (8) newly identified GmNACs. The developmental and stress-responsive expression profiles of the novel NAC genes fitted perfectly with their phylogenetic subfamily. Finally, we examined two uncharacterized senescence-associated proteins, GmNAC065 and GmNAC085, and a novel, previously unidentified, NAC protein, GmNAC177, and showed that they are nuclear localized, and except for GmNAC065, they display transactivation activity in yeast. Consistent with a role in leaf senescence, transient expression of GmNAC065 and GmNAC085 induces the appearance of hallmarks of leaf senescence, including chlorophyll loss, leaf yellowing, lipid peroxidation and accumulation of H2O2. GmNAC177 was clustered to an uncharacterized subfamily but in close proximity to the TIP subfamily. Accordingly, it was rapidly induced by ER stress and by salicylic acid under late kinetic response and promoted cell death in planta. Collectively, our data further substantiated the notion that the GmNAC genes display functional and expression profiles consistent with their phylogenetic relatedness and established a complete framework of the soybean NAC superfamily as a foundation for future analyses.
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Affiliation(s)
- Bruno P. Melo
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
- Departamento de Bioquímica e Biologia Molecular/BIOAGRO, Universidade Federal de Viçosa, Viçosa, Brazil
| | - Otto T. Fraga
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
- Departamento de Bioquímica e Biologia Molecular/BIOAGRO, Universidade Federal de Viçosa, Viçosa, Brazil
| | - José Cleydson F. Silva
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
| | - Dalton O. Ferreira
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
| | - Otávio J. B. Brustolini
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
| | - Paola A. Carpinetti
- Departamento de Bioquímica e Biologia Molecular/BIOAGRO, Universidade Federal de Viçosa, Viçosa, Brazil
| | | | - Pedro A. B. Reis
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
- Departamento de Bioquímica e Biologia Molecular/BIOAGRO, Universidade Federal de Viçosa, Viçosa, Brazil
| | - Elizabeth P. B. Fontes
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
- Departamento de Bioquímica e Biologia Molecular/BIOAGRO, Universidade Federal de Viçosa, Viçosa, Brazil
- *Correspondence: Elizabeth P. B. Fontes
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12
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Hoang XLT, Nhi DNH, Thu NBA, Thao NP, Tran LSP. Transcription Factors and Their Roles in Signal Transduction in Plants under Abiotic Stresses. Curr Genomics 2017. [PMID: 29204078 DOI: 10.2174/1389101918666170227150057] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/01/2023] Open
Abstract
In agricultural production, abiotic stresses are known as the main disturbance leading to negative impacts on crop performance. Research on elucidating plant defense mechanisms against the stresses at molecular level has been addressed for years in order to identify the major contributors in boosting the plant tolerance ability. From literature, numerous genes from different species, and from both functional and regulatory gene categories, have been suggested to be on the list of potential candidates for genetic engineering. Noticeably, enhancement of plant stress tolerance by manipulating expression of Transcription Factors (TFs) encoding genes has emerged as a popular approach since most of them are early stress-responsive genes and control the expression of a set of downstream target genes. Consequently, there is a higher chance to generate novel cultivars with better tolerance to either single or multiple stresses. Perhaps, the difficult task when deploying this approach is selecting appropriate gene(s) for manipulation. In this review, on the basis of the current findings from molecular and post-genomic studies, our interest is to highlight the current understanding of the roles of TFs in signal transduction and mediating plant responses towards abiotic stressors. Furthermore, interactions among TFs within the stress-responsive network will be discussed. The last section will be reserved for discussing the potential applications of TFs for stress tolerance improvement in plants.
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Affiliation(s)
- Xuan Lan Thi Hoang
- School of Biotechnology, International University, Vietnam National University, Ho Chi Minh City, Vietnam
| | - Du Ngoc Hai Nhi
- School of Biotechnology, International University, Vietnam National University, Ho Chi Minh City, Vietnam
| | - Nguyen Binh Anh Thu
- School of Biotechnology, International University, Vietnam National University, Ho Chi Minh City, Vietnam
| | - Nguyen Phuong Thao
- School of Biotechnology, International University, Vietnam National University, Ho Chi Minh City, Vietnam
| | - Lam-Son Phan Tran
- Plant Abiotic Stress Research Group & Faculty of Applied Sciences, Ton Duc Thang University, Ho Chi Minh City, Vietnam
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science, Yokohama, Japan
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13
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Hoang XLT, Nhi DNH, Thu NBA, Thao NP, Tran LSP. Transcription Factors and Their Roles in Signal Transduction in Plants under Abiotic Stresses. Curr Genomics 2017; 18:483-497. [PMID: 29204078 PMCID: PMC5684650 DOI: 10.2174/1389202918666170227150057] [Citation(s) in RCA: 105] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2016] [Revised: 10/07/2016] [Accepted: 10/15/2016] [Indexed: 12/15/2022] Open
Abstract
In agricultural production, abiotic stresses are known as the main disturbance leading to negative impacts on crop performance. Research on elucidating plant defense mechanisms against the stresses at molecular level has been addressed for years in order to identify the major contributors in boosting the plant tolerance ability. From literature, numerous genes from different species, and from both functional and regulatory gene categories, have been suggested to be on the list of potential candidates for genetic engineering. Noticeably, enhancement of plant stress tolerance by manipulating expression of Transcription Factors (TFs) encoding genes has emerged as a popular approach since most of them are early stress-responsive genes and control the expression of a set of downstream target genes. Consequently, there is a higher chance to generate novel cultivars with better tolerance to either single or multiple stresses. Perhaps, the difficult task when deploying this approach is selecting appropriate gene(s) for manipulation. In this review, on the basis of the current findings from molecular and post-genomic studies, our interest is to highlight the current understanding of the roles of TFs in signal transduction and mediating plant responses towards abiotic stressors. Furthermore, interactions among TFs within the stress-responsive network will be discussed. The last section will be reserved for discussing the potential applications of TFs for stress tolerance improvement in plants.
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Affiliation(s)
- Xuan Lan Thi Hoang
- School of Biotechnology, International University, Vietnam National University, Ho Chi Minh City, Vietnam
| | - Du Ngoc Hai Nhi
- School of Biotechnology, International University, Vietnam National University, Ho Chi Minh City, Vietnam
| | - Nguyen Binh Anh Thu
- School of Biotechnology, International University, Vietnam National University, Ho Chi Minh City, Vietnam
| | - Nguyen Phuong Thao
- School of Biotechnology, International University, Vietnam National University, Ho Chi Minh City, Vietnam
| | - Lam-Son Phan Tran
- Plant Abiotic Stress Research Group & Faculty of Applied Sciences, Ton Duc Thang University, Ho Chi Minh City, Vietnam
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science, Yokohama, Japan
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14
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Sun M, Jia B, Yang J, Cui N, Zhu Y, Sun X. Genome-Wide Identification of the PHD-Finger Family Genes and Their Responses to Environmental Stresses in Oryza sativa L. Int J Mol Sci 2017; 18:ijms18092005. [PMID: 32961651 PMCID: PMC5618654 DOI: 10.3390/ijms18092005] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2017] [Revised: 08/25/2017] [Accepted: 09/14/2017] [Indexed: 11/16/2022] Open
Abstract
The PHD-finger family has been demonstrated to be involved in regulating plant growth and development. However, little information is given for its role in environmental stress responses. Here, we identified a total of 59 PHD family genes in the rice genome. These OsPHDs genes were located on eleven chromosomes and synteny analysis only revealed nine duplicated pairs within the rice PHD family. Phylogenetic analysis of all OsPHDs and PHDs from other species revealed that they could be grouped into two major clusters. Furthermore, OsPHDs were clustered into eight groups and members from different groups displayed a great divergence in terms of gene structure, functional domains and conserved motifs. We also found that with the exception of OsPHD6, all OsPHDs were expressed in at least one of the ten tested tissues and OsPHDs from certain groups were expressed in specific tissues. Moreover, our results also uncovered differential responses of OsPHDs expression to environmental stresses, including ABA (abscisic acid), water deficit, cold and high Cd. By using quantitative real-time PCR, we further confirmed the differential expression of OsPHDs under these stresses. OsPHD1/7/8/13/33 were differentially expressed under water deficit and Cd stresses, while OsPHD5/17 showed altered expression under water deficit and cold stresses. Moreover, OsPHD3/44/28 displayed differential expression under ABA and Cd stresses. In conclusion, our results provide valuable information on the rice PHD family in plant responses to environmental stress, which will be helpful for further characterizing their biological roles in responding to environmental stresses.
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Affiliation(s)
- Mingzhe Sun
- Key Laboratory of Agricultural Biological Functional Gene, College of Life Science, Northeast Agricultural University, Harbin 150038, China; (M.S.); (B.J.)
- Crop Stress Molecular Biology Laboratory, College of Agronomy, Heilongjiang Bayi Agricultural University, Daqing 163319, China;
| | - Bowei Jia
- Key Laboratory of Agricultural Biological Functional Gene, College of Life Science, Northeast Agricultural University, Harbin 150038, China; (M.S.); (B.J.)
- Crop Stress Molecular Biology Laboratory, College of Agronomy, Heilongjiang Bayi Agricultural University, Daqing 163319, China;
| | - Junkai Yang
- Crop Stress Molecular Biology Laboratory, College of Agronomy, Heilongjiang Bayi Agricultural University, Daqing 163319, China;
| | - Na Cui
- LGPM, CentraleSupélec, Université Paris-Saclay, SFR Condorcet FR CNRS 3417, Centre Européen de Biotechnologie et de Bioéconomie (CEBB), 3 rue des Rouges Terres, 51110 Pomacle, France;
| | - Yanming Zhu
- Key Laboratory of Agricultural Biological Functional Gene, College of Life Science, Northeast Agricultural University, Harbin 150038, China; (M.S.); (B.J.)
- Crop Stress Molecular Biology Laboratory, College of Agronomy, Heilongjiang Bayi Agricultural University, Daqing 163319, China;
- Correspondence: (Y.Z.); (X.S.); Tel.: +86-451-55190025 (Y.Z.); +86-459-6819185 (X.S.)
| | - Xiaoli Sun
- Crop Stress Molecular Biology Laboratory, College of Agronomy, Heilongjiang Bayi Agricultural University, Daqing 163319, China;
- Correspondence: (Y.Z.); (X.S.); Tel.: +86-451-55190025 (Y.Z.); +86-459-6819185 (X.S.)
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15
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Hussain RM, Ali M, Feng X, Li X. The essence of NAC gene family to the cultivation of drought-resistant soybean (Glycine max L. Merr.) cultivars. BMC PLANT BIOLOGY 2017; 17:55. [PMID: 28241800 PMCID: PMC5330122 DOI: 10.1186/s12870-017-1001-y] [Citation(s) in RCA: 56] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/21/2016] [Accepted: 02/13/2017] [Indexed: 05/03/2023]
Abstract
BACKGROUND The NAC gene family is notable due to its large size, as well as its relevance in crop cultivation - particularly in terms of enhancing stress tolerance of plants. These plant-specific proteins contain NAC domain(s) that are named after Petunia NAM and Arabidopsis ATAF1/2 and CUC2 transcription factors based on the consensus sequence they have. Despite the knowledge available regarding NAC protein function, an extensive study on the possible use of GmNACs in developing soybean cultivars with superior drought tolerance is yet to be done. RESULTS In response to this, our study was carried out, mainly through means of phylogenetic analysis (rice and Arabidopsis NAC genes served as seeding sequences). Through this, 139 GmNAC genes were identified and later grouped into 17 clusters. Furthermore, real-time quantitative PCR was carried out on drought-stressed and unstressed leaf tissues of both sensitive (B217 and H228) and tolerant (Jindou 74 and 78) cultivars. This was done to analyze the gene expression of 28 dehydration-responsive GmNAC genes. Upon completing the analysis, it was found that GmNAC gene expression is actually dependent on genotype. Eight of the 28 selected genes (GmNAC004, GmNAC021, GmNAC065, GmNAC066, GmNAC073, GmNAC082, GmNAC083 and GmNAC087) were discovered to have high expression levels in the drought-resistant soybean varieties tested. This holds true for both extreme and standard drought conditions. Alternatively, the drought-sensitive cultivars exhibited lower GmNAC expression levels in comparison to their tolerant counterparts. CONCLUSION The study allowed for the identification of eight GmNAC genes that could be focused upon in future attempts to develop superior soybean varieties, particularly in terms of drought resistance. This study revealed that there were more dehydration-responsive GmNAC genes as (GmNAC004, GmNAC005, GmNAC020 and GmNAC021) in addition to what were reported in earlier inquiries. It is important to note though, that discovering such notable genes is not the only goal of the study. It managed to put emphasis on the significance of further understanding the potential of soybean GmNAC genes, for the purpose of enhancing tolerance towards abiotic stress in general. This scientific inquiry has also revealed that cultivar genotypes tend to differ in their drought-induced gene expression.
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Affiliation(s)
- Reem M Hussain
- State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, People's Republic of China.
- Tishreen University, Faculty of Agriculture, Crop Field Department, Tishreen University, Lattakia, Syria.
| | - Mohammed Ali
- State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, People's Republic of China
| | - Xing Feng
- National Key Lab of Crop Genetic Improvement, College of Life science and Technology, Bioinformatics Lab, Huazhong Agriculture University, Wuhan, 430070, Hubei, People's Republic of China
| | - Xia Li
- State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, People's Republic of China.
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16
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Kunert KJ, Vorster BJ, Fenta BA, Kibido T, Dionisio G, Foyer CH. Drought Stress Responses in Soybean Roots and Nodules. FRONTIERS IN PLANT SCIENCE 2016; 7:1015. [PMID: 27462339 PMCID: PMC4941547 DOI: 10.3389/fpls.2016.01015] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2016] [Accepted: 06/27/2016] [Indexed: 05/18/2023]
Abstract
Drought is considered to be a major threat to soybean production worldwide and yet our current understanding of the effects of drought on soybean productively is largely based on studies on above-ground traits. Although the roots and root nodules are important sensors of drought, the responses of these crucial organs and their drought tolerance features remain poorly characterized. The symbiotic interaction between soybean and rhizobia facilitates atmospheric nitrogen fixation, a process that provides essential nitrogen to support plant growth and development. Symbiotic nitrogen fixation is important for sustainable agriculture, as it sustains plant growth on nitrogen-poor soils and limits fertilizer use for crop nitrogen nutrition. Recent developments have been made in our understanding of the drought impact on soybean root architecture and nodule traits, as well as underpinning transcriptome, proteome and also emerging metabolome information, with a view to improve the selection of more drought-tolerant soybean cultivars and rhizobia in the future. We conclude that the direct screening of root and nodule traits in the field as well as identification of genes, proteins and also metabolites involved in such traits will be essential in order to gain a better understanding of the regulation of root architecture, bacteroid development and lifespan in relation to drought tolerance in soybean.
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Affiliation(s)
- Karl J. Kunert
- Department Plant Production and Soil Science, Forestry and Agricultural Biotechnology Institute, University of PretoriaPretoria, South Africa
| | - Barend J. Vorster
- Department Plant Production and Soil Science, Forestry and Agricultural Biotechnology Institute, University of PretoriaPretoria, South Africa
| | - Berhanu A. Fenta
- Melkassa Agricultural Research Centre, Ethiopian Institute of Agricultural ResearchAdama, Ethiopia
| | - Tsholofelo Kibido
- Department Plant Production and Soil Science, Forestry and Agricultural Biotechnology Institute, University of PretoriaPretoria, South Africa
| | - Giuseppe Dionisio
- Faculty of Science and Technology, Research Centre Flakkebjerg, Department of Molecular Biology and Genetics, Aarhus UniversityAarhus, Denmark
| | - Christine H. Foyer
- Centre for Plant Sciences, School of Biology, Faculty of Biological Sciences, University of LeedsLeeds, UK
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Chai C, Wang Y, Joshi T, Valliyodan B, Prince S, Michel L, Xu D, Nguyen HT. Soybean transcription factor ORFeome associated with drought resistance: a valuable resource to accelerate research on abiotic stress resistance. BMC Genomics 2015; 16:596. [PMID: 26268547 PMCID: PMC4534118 DOI: 10.1186/s12864-015-1743-6] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2014] [Accepted: 06/30/2015] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Whole genome sequencing provides the most comprehensive collection of an organism's genetic information. The availability of complete genome sequences is expected to dramatically deliver a high impact on biology. However, to achieve this impact in the area of crop improvement, significant efforts are still required on functional genomics, including the areas of gene annotation, cloning, expression profiling, and functional validation. RESULTS Here we report our efforts in generating the first transcription factor (TF) open reading frame (ORF)eome resource associated with drought resistance in soybean (Glycine max), a major oil/protein crop grown worldwide. This study provides a highly annotated soybean TF-ORFeome associated with drought resistance. It contains information from experimentally verified protein-coding sequences (CDS), expression profiling under several abiotic stresses (drought, salinity, dehydration and ABA), and computationally predicted protein subcellular localization and cis-regulatory elements (CREs) analysis. All the information is available to plant researchers through a freely accessible and user-friendly database, Soybean Knowledge Base (SoyKB). CONCLUSIONS The soybean TF-ORFeome provides a valuable public resource for functional genomics studies, especially in the area of plant abiotic stresses. It will accelerate findings in the areas of abiotic stresses and lead to the generation of crops with enhanced resistance to multiple stresses.
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Affiliation(s)
- Chenglin Chai
- Division of Plant Sciences and National Center for Soybean Biotechnology, University of Missouri, Columbia, MO, 65211, USA.
| | - Yongqin Wang
- Division of Plant Sciences and National Center for Soybean Biotechnology, University of Missouri, Columbia, MO, 65211, USA.
| | - Trupti Joshi
- Department of Computer Science, Informatics Institute, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO, 65211, USA.
| | - Babu Valliyodan
- Division of Plant Sciences and National Center for Soybean Biotechnology, University of Missouri, Columbia, MO, 65211, USA.
| | - Silvas Prince
- Division of Plant Sciences and National Center for Soybean Biotechnology, University of Missouri, Columbia, MO, 65211, USA.
| | - Lydia Michel
- Division of Plant Sciences and National Center for Soybean Biotechnology, University of Missouri, Columbia, MO, 65211, USA.
| | - Dong Xu
- Department of Computer Science, Informatics Institute, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO, 65211, USA.
| | - Henry T Nguyen
- Division of Plant Sciences and National Center for Soybean Biotechnology, University of Missouri, Columbia, MO, 65211, USA.
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Sulieman S, Ha CV, Nasr Esfahani M, Watanabe Y, Nishiyama R, Pham CTB, Nguyen DV, Tran LSP. DT2008: a promising new genetic resource for improved drought tolerance in soybean when solely dependent on symbiotic N2 fixation. BIOMED RESEARCH INTERNATIONAL 2015; 2015:687213. [PMID: 25685802 PMCID: PMC4299153 DOI: 10.1155/2015/687213] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/22/2014] [Revised: 08/31/2014] [Accepted: 09/14/2014] [Indexed: 01/01/2023]
Abstract
Water deficit is one of the major constraints for soybean production in Vietnam. The soybean breeding research efforts conducted at the Agriculture Genetics Institute (AGI) of Vietnam resulted in the development of promising soybean genotypes, suitable for the drought-stressed areas in Vietnam and other countries. Such a variety, namely, DT2008, was recommended by AGI and widely used throughout the country. The aim of this work was to assess the growth of shoots, roots, and nodules of DT2008 versus Williams 82 (W82) in response to drought and subsequent rehydration in symbiotic association as a means to provide genetic resources for genomic research. Better shoot, root, and nodule growth and development were observed in the cultivar DT2008 under sufficient, water deficit, and recovery conditions. Our results represent a good foundation for further comparison of DT2008 and W82 at molecular levels using high throughput omic technologies, which will provide huge amounts of data, enabling us to understand the genetic network involved in regulation of soybean responses to water deficit and increasing the chances of developing drought-tolerant cultivars.
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Affiliation(s)
- Saad Sulieman
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science (CSRS), 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan
- Department of Agronomy, Faculty of Agriculture, University of Khartoum, 13314 Shambat, Khartoum North, Sudan
| | - Chien Van Ha
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science (CSRS), 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan
- National Key Laboratory of Plant Cell Biotechnology, Agricultural Genetics Institute, Vietnamese Academy of Agricultural Science, Hanoi 100000, Vietnam
| | - Maryam Nasr Esfahani
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science (CSRS), 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan
- Department of Biology, Lorestan University, Khorramabad 68151-44316, Iran
| | - Yasuko Watanabe
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science (CSRS), 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan
| | - Rie Nishiyama
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science (CSRS), 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan
| | - Chung Thi Bao Pham
- Department of Mutation and Heterosis Breeding, Agricultural Genetics Institute, Vietnamese Academy of Agricultural Science, Hanoi 100000, Vietnam
| | - Dong Van Nguyen
- National Key Laboratory of Plant Cell Biotechnology, Agricultural Genetics Institute, Vietnamese Academy of Agricultural Science, Hanoi 100000, Vietnam
| | - Lam-Son Phan Tran
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science (CSRS), 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan
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Ha CV, Watanabe Y, Tran UT, Le DT, Tanaka M, Nguyen KH, Seki M, Nguyen DV, Tran LSP. Comparative analysis of root transcriptomes from two contrasting drought-responsive Williams 82 and DT2008 soybean cultivars under normal and dehydration conditions. FRONTIERS IN PLANT SCIENCE 2015; 6:551. [PMID: 26300889 PMCID: PMC4528160 DOI: 10.3389/fpls.2015.00551] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/22/2015] [Accepted: 07/06/2015] [Indexed: 05/04/2023]
Abstract
The economically important DT2008 and the model Williams 82 (W82) soybean cultivars were reported to have differential drought-tolerant degree to dehydration and drought, which was associated with root trait. Here, we used 66K Affymetrix Soybean Array GeneChip to compare the root transcriptomes of DT2008 and W82 seedlings under normal, as well as mild (2 h treatment) and severe (10 h treatment) dehydration conditions. Out of the 38172 soybean genes annotated with high confidence, 822 (2.15%) and 632 (1.66%) genes showed altered expression by dehydration in W82 and DT2008 roots, respectively, suggesting that a larger machinery is required to be activated in the drought-sensitive W82 cultivar to cope with the stress. We also observed that long-term dehydration period induced expression change of more genes in soybean roots than the short-term one, independently of the genotypes. Furthermore, our data suggest that the higher drought tolerability of DT2008 might be attributed to the higher number of genes induced in DT2008 roots than in W82 roots by early dehydration, and to the expression changes of more genes triggered by short-term dehydration than those by prolonged dehydration in DT2008 roots vs. W82 roots. Differentially expressed genes (DEGs) that could be predicted to have a known function were further analyzed to gain a basic understanding on how soybean plants respond to dehydration for their survival. The higher drought tolerability of DT2008 vs. W82 might be attributed to differential expression in genes encoding osmoprotectant biosynthesis-, detoxification- or cell wall-related proteins, kinases, transcription factors and phosphatase 2C proteins. This research allowed us to identify genetic components that contribute to the improved drought tolerance of DT2008, as well as provide a useful genetic resource for in-depth functional analyses that ultimately leads to development of soybean cultivars with improved tolerance to drought.
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Affiliation(s)
- Chien Van Ha
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
- National Key Laboratory for Plant Cell Technology, Agricultural Genetics Institute, Vietnamese Academy of Agricultural ScienceHanoi, Vietnam
| | - Yasuko Watanabe
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
| | - Uyen Thi Tran
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
| | - Dung Tien Le
- National Key Laboratory for Plant Cell Technology, Agricultural Genetics Institute, Vietnamese Academy of Agricultural ScienceHanoi, Vietnam
| | - Maho Tanaka
- Plant Genomic Network Research Team, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
| | - Kien Huu Nguyen
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
- National Key Laboratory for Plant Cell Technology, Agricultural Genetics Institute, Vietnamese Academy of Agricultural ScienceHanoi, Vietnam
| | - Motoaki Seki
- Plant Genomic Network Research Team, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
- CREST, Japan Science and Technology AgencyKawaguchi, Japan
| | - Dong Van Nguyen
- National Key Laboratory for Plant Cell Technology, Agricultural Genetics Institute, Vietnamese Academy of Agricultural ScienceHanoi, Vietnam
| | - Lam-Son Phan Tran
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
- *Correspondence: Lam-Son Phan Tran, Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan
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Nguyen KH, Ha CV, Watanabe Y, Tran UT, Nasr Esfahani M, Nguyen DV, Tran LSP. Correlation between differential drought tolerability of two contrasting drought-responsive chickpea cultivars and differential expression of a subset of CaNAC genes under normal and dehydration conditions. FRONTIERS IN PLANT SCIENCE 2015; 6:449. [PMID: 26150822 PMCID: PMC4472984 DOI: 10.3389/fpls.2015.00449] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2015] [Accepted: 06/01/2015] [Indexed: 05/04/2023]
Abstract
Drought causes detrimental effect to growth and productivity of many plants, including crops. NAC transcription factors have been reported to play important role in drought tolerance. In this study, we assessed the expression profiles of 19 dehydration-responsive CaNAC genes in roots and leaves of two contrasting drought-responsive chickpea varieties treated with water (control) and dehydration to examine the correlation between the differential expression levels of the CaNAC genes and the differential drought tolerability of these two cultivars. Results of real-time quantitative PCR indicated a positive relationship between the number of dehydration-inducible and -repressible CaNAC genes and drought tolerability. The higher drought-tolerant capacity of ILC482 cultivar vs. Hashem cultivar might be, at least partly, attributed to the higher number of dehydration-inducible and lower number of dehydration-repressible CaNAC genes identified in both root and leaf tissues of ILC482 than in those of Hashem. In addition, our comparative expression analysis of the selected CaNAC genes in roots and leaves of ILC482 and Hashem cultivars revealed different dehydration-responsive expression patterns, indicating that CaNAC gene expression is tissue- and genotype-specific. Furthermore, the analysis suggested that the enhanced drought tolerance of ILC482 vs. Hashem might be associated with five genes, namely CaNAC02, 04, 05, 16, and 24. CaNAC16 could be a potential candidate gene, contributing to the better drought tolerance of ILC482 vs. Hashem as a positive regulator. Conversely, CaNAC02 could be a potential negative regulator, contributing to the differential drought tolerability of these two cultivars. Thus, our results have also provided a solid foundation for selection of promising tissue-specific and/or dehydration-responsive CaNAC candidates for detailed in planta functional analyses, leading to development of transgenic chickpea varieties with improved productivity under drought.
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Affiliation(s)
- Kien Huu Nguyen
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
- National Key Laboratory for Plant Cell Technology, Agricultural Genetics Institute, Vietnam Academy of Agricultural SciencesHanoi, Vietnam
| | - Chien Van Ha
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
- National Key Laboratory for Plant Cell Technology, Agricultural Genetics Institute, Vietnam Academy of Agricultural SciencesHanoi, Vietnam
| | - Yasuko Watanabe
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
| | - Uyen Thi Tran
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
| | | | - Dong Van Nguyen
- National Key Laboratory for Plant Cell Technology, Agricultural Genetics Institute, Vietnam Academy of Agricultural SciencesHanoi, Vietnam
| | - Lam-Son Phan Tran
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
- *Correspondence: Lam-Son Phan Tran, Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan,
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Thu NBA, Hoang XLT, Doan H, Nguyen TH, Bui D, Thao NP, Tran LSP. Differential expression analysis of a subset of GmNAC genes in shoots of two contrasting drought-responsive soybean cultivars DT51 and MTD720 under normal and drought conditions. Mol Biol Rep 2014. [PMID: 24985975 DOI: 10.1007/s11105-014-0825-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/13/2023]
Abstract
NAC transcription factors are known to be involved in regulation of plant responses to drought stress. In this study, the expression of 23 drought-responsive GmNAC genes was assessed in the shoot tissues of DT51 and MTD720, the two soybean varieties with contrasting drought-responsive phenotypes, by real-time quantitative PCR (RT-qPCR) under normal and drought conditions. Results indicated that expression profile of GmNAC genes was genotype-dependent, and six GmNACs (GmNAC019, 043, 062, 085, 095 and 101) had higher transcript levels in the shoots of the drought-tolerant DT51 in comparison with the drought-sensitive MTD720 under drought. Our study suggests a positive correlation between the higher drought tolerance degree of DT51 versus MTD720 and the up-regulation of at least these six drought-responsive GmNACs in the shoot tissues. Furthermore, on the basis of our analysis, three genes, GmNAC043, 085 and 101, were identified as promising candidates for development of drought-tolerant soybean cultivars by genetic engineering.
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Affiliation(s)
- Nguyen Binh Anh Thu
- School of Biotechnology, International University, Vietnam National University HCMC, Block 6, Linh Trung Ward, Thu Duc District, Ho Chi Minh City, Vietnam
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Thu NBA, Hoang XLT, Doan H, Nguyen TH, Bui D, Thao NP, Tran LSP. Differential expression analysis of a subset of GmNAC genes in shoots of two contrasting drought-responsive soybean cultivars DT51 and MTD720 under normal and drought conditions. Mol Biol Rep 2014; 41:5563-9. [PMID: 24985975 DOI: 10.1007/s11033-014-3507-9] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2014] [Accepted: 06/19/2014] [Indexed: 10/25/2022]
Abstract
NAC transcription factors are known to be involved in regulation of plant responses to drought stress. In this study, the expression of 23 drought-responsive GmNAC genes was assessed in the shoot tissues of DT51 and MTD720, the two soybean varieties with contrasting drought-responsive phenotypes, by real-time quantitative PCR (RT-qPCR) under normal and drought conditions. Results indicated that expression profile of GmNAC genes was genotype-dependent, and six GmNACs (GmNAC019, 043, 062, 085, 095 and 101) had higher transcript levels in the shoots of the drought-tolerant DT51 in comparison with the drought-sensitive MTD720 under drought. Our study suggests a positive correlation between the higher drought tolerance degree of DT51 versus MTD720 and the up-regulation of at least these six drought-responsive GmNACs in the shoot tissues. Furthermore, on the basis of our analysis, three genes, GmNAC043, 085 and 101, were identified as promising candidates for development of drought-tolerant soybean cultivars by genetic engineering.
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Affiliation(s)
- Nguyen Binh Anh Thu
- School of Biotechnology, International University, Vietnam National University HCMC, Block 6, Linh Trung Ward, Thu Duc District, Ho Chi Minh City, Vietnam
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Thu NBA, Nguyen QT, Hoang XLT, Thao NP, Tran LSP. Evaluation of drought tolerance of the Vietnamese soybean cultivars provides potential resources for soybean production and genetic engineering. BIOMED RESEARCH INTERNATIONAL 2014; 2014:809736. [PMID: 24804248 PMCID: PMC3997955 DOI: 10.1155/2014/809736] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/06/2014] [Revised: 02/28/2014] [Accepted: 03/03/2014] [Indexed: 11/18/2022]
Abstract
Drought is one of the greatest constraints to soybean production in many countries, including Vietnam. Although a wide variety of the newly produced cultivars have been produced recently in Vietnam through classical breeding to cope with water shortage, little knowledge of their molecular and physiological responses to drought has been discovered. This study was conducted to quickly evaluate drought tolerance of thirteen local soybean cultivars for selection of the best drought-tolerant cultivars for further field test. Differences in drought tolerance of cultivars were assessed by root and shoot lengths, relative water content, and drought-tolerant index under both normal and drought conditions. Our data demonstrated that DT51 is the strongest drought-tolerant genotype among all the tested cultivars, while the highest drought-sensitive phenotype was observed with MTD720. Thus, DT51 could be subjected to further yield tests in the field prior to suggesting it for use in production. Due to their contrasting drought-tolerant phenotypes, DT51 and MTD720 provide excellent genetic resources for further studies underlying mechanisms regulating drought responses and gene discovery. Our results provide vital information to support the effort of molecular breeding and genetic engineering to improve drought tolerance of soybean.
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Affiliation(s)
- Nguyen Binh Anh Thu
- School of Biotechnology, International University, Vietnam National University HCMC, Quarter 6, Linh Trung Ward, Thu Duc District, Ho Chi Minh City 70000, Vietnam
| | - Quang Thien Nguyen
- School of Biotechnology, International University, Vietnam National University HCMC, Quarter 6, Linh Trung Ward, Thu Duc District, Ho Chi Minh City 70000, Vietnam
| | - Xuan Lan Thi Hoang
- School of Biotechnology, International University, Vietnam National University HCMC, Quarter 6, Linh Trung Ward, Thu Duc District, Ho Chi Minh City 70000, Vietnam
| | - Nguyen Phuong Thao
- School of Biotechnology, International University, Vietnam National University HCMC, Quarter 6, Linh Trung Ward, Thu Duc District, Ho Chi Minh City 70000, Vietnam
| | - Lam-Son Phan Tran
- Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan
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