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Yıldırım K, Miladinović D, Sweet J, Akin M, Galović V, Kavas M, Zlatković M, de Andrade E. Genome editing for healthy crops: traits, tools and impacts. FRONTIERS IN PLANT SCIENCE 2023; 14:1231013. [PMID: 37965029 PMCID: PMC10641503 DOI: 10.3389/fpls.2023.1231013] [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: 05/29/2023] [Accepted: 10/09/2023] [Indexed: 11/16/2023]
Abstract
Crop cultivars in commercial use have often been selected because they show high levels of resistance to pathogens. However, widespread cultivation of these crops for many years in the environments favorable to a pathogen requires durable forms of resistance to maintain "healthy crops". Breeding of new varieties tolerant/resistant to biotic stresses by incorporating genetic components related to durable resistance, developing new breeding methods and new active molecules, and improving the Integrated Pest Management strategies have been of great value, but their effectiveness is being challenged by the newly emerging diseases and the rapid change of pathogens due to climatic changes. Genome editing has provided new tools and methods to characterize defense-related genes in crops and improve crop resilience to disease pathogens providing improved food security and future sustainable agricultural systems. In this review, we discuss the principal traits, tools and impacts of utilizing genome editing techniques for achieving of durable resilience and a "healthy plants" concept.
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Affiliation(s)
- Kubilay Yıldırım
- Department of Molecular Biology and Genetics, Faculty of Arts and Sciences, Ondokuz Mayıs University, Samsun, Türkiye
| | - Dragana Miladinović
- Institute of Field and Vegetable Crops, National Institute of Republic of Serbia, Novi Sad, Serbia
| | - Jeremy Sweet
- Sweet Environmental Consultants, Cambridge, United Kingdom
| | - Meleksen Akin
- Department of Horticulture, Iğdır University, Iğdır, Türkiye
| | - Vladislava Galović
- Institute of Lowland Forestry and Environment (ILFE), University of Novi Sad, Novi Sad, Serbia
| | - Musa Kavas
- Department of Agricultural Biotechnology, Faculty of Agriculture, Ondokuz Mayıs University, Samsun, Türkiye
| | - Milica Zlatković
- Institute of Lowland Forestry and Environment (ILFE), University of Novi Sad, Novi Sad, Serbia
| | - Eugenia de Andrade
- National Institute for Agricultural and Veterinary Research (INIAV), I.P., Oeiras, Portugal
- GREEN-IT Bioresources for Sustainability, ITQB NOVA, Oeiras, Portugal
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Al-Awaida W, Al-Ameer HJ, Sharab A, Akasheh RT. Modulation of wheatgrass ( Triticum aestivum Linn) toxicity against breast cancer cell lines by simulated microgravity. Curr Res Toxicol 2023; 5:100127. [PMID: 37767028 PMCID: PMC10520342 DOI: 10.1016/j.crtox.2023.100127] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2023] [Revised: 08/11/2023] [Accepted: 09/18/2023] [Indexed: 09/29/2023] Open
Abstract
This study scrutinizes the effects of simulated microgravity on the antioxidant and cytotoxic potential, along with the phytochemical content of wheatgrass (Triticum aestivum Linn). To imitate microgravity, wheatgrass seeds were germinated in a 3D-clinostat at different rotations per minute (5, 10, 15, and 20 rpm), together with terrestrial gravity control, over 10 days. After germination, the methanolic extracts were analyzed using UPLC-Triple Quad LCMS for their phytochemical composition and tested for their hydrogen peroxide, nitric oxide, and DPPH scavenging activities. The cytotoxic effects of these extracts were evaluated against normal skin fibroblasts, normal breast cells (MCF-10), and breast cancer cells (MCF-7 and MDA-231). The findings showed an extended root growth in wheatgrass germinated under microgravity (WGM) compared to under gravity (WGG). Additionally, WGM extracts demonstrated increased H2O2-, NO-, and DPPH-scavenging activities and a higher content of polyphenols and flavonoids than WGG extracts. These effects were amplified with an increase in clinostat rotations. Moreover, WGM extracts were found to contain a unique set of bioactive compounds (compounds that were detected in the microgravity-germinated wheatgrass but were either absent or present in lower concentrations in wheatgrass germinated under standard gravity conditions.), including pyridoxine, apigenin, and tocopherol, among others, which were absent in WGG. The UPLC-Triple Quad LCMS analysis revealed these unique bioactive compounds in WGM. Notably, WGM extracts showed enhanced cytotoxic effects against normal skin fibroblasts, normal MCF-10, MCF-7, and breast cancer MDA-231 cell lines, with increased cytotoxicity correlating with the number of clinostat rotations. Particularly, WGM extract (at 20 rpm) demonstrated significantly stronger cytotoxicity against MCF-7 breast cancer cells. Further in-depth gene expression analysis of MCF-7 cells exposed to WGM revealed a significant downregulation of genes integral to breast cancer pathways, tyrosine kinase signaling, and DNA repair, complemented by upregulation of certain cell survival and cytotoxic genes. These alterations in genetic pathways associated with cell survival, hormone responses, and cancer progression may elucidate the enhanced cytotoxicity observed in WGM extracts. Our findings underscore the potential of microgravity as a tool to enhance the cytotoxic capabilities of wheatgrass against cancer cell lines, presenting a promising direction for future research in the field of space biology and its implications for terrestrial health.
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Affiliation(s)
- Wajdy Al-Awaida
- Department of Biology and Biotechnology, Faculty of Science, American University of Madaba, P.O. Box: 99, Madaba 17110, Jordan
| | - Hamzeh J. Al-Ameer
- Department of Biology and Biotechnology, Faculty of Science, American University of Madaba, P.O. Box: 99, Madaba 17110, Jordan
- Department of Pharmaceutical Biotechnology, Faculty of Allied Medical Sciences, Al-AhliyyaAmman University (AAU), Amman, 19328, Jordan
| | - Ahmad Sharab
- Department of Biology and Biotechnology, Faculty of Science, American University of Madaba, P.O. Box: 99, Madaba 17110, Jordan
| | - Rand T. Akasheh
- Department of Nutrition and Dietetics, American University of Madaba, P.O. Box: 99, Madaba 17110, Jordan
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Li Y, Liang G, Nai G, Lu S, Ma W, Ma Z, Mao J, Chen B. VaSUS2 confers cold tolerance in transgenic tomato and Arabidopsis by regulation of sucrose metabolism and ROS homeostasis. PLANT CELL REPORTS 2023; 42:505-520. [PMID: 36645437 DOI: 10.1007/s00299-022-02972-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Accepted: 12/20/2022] [Indexed: 06/17/2023]
Abstract
VaSUS2 enhances cold tolerance of transgenic tomato and Arabidopsis by regulating sucrose metabolism and improving antioxidant enzymes activity. Sucrose synthetase (SUS) is a key enzyme of sugar metabolism, and plays an important role in response to abiotic stress in plant. However, the function of VaSUS2 remains unknown in cold tolerance. Here, the cloning and functional characterization of the plasma membrane-localized VaSUS2 gene isolated from Vitis amurensis was studied. The transcript level of VaSUS2 was up-regulated under cold stress in Vitis amurensis. Heterologous expression of VaSUS2 in tomato increased SUS activity, which promoted the accumulation of glucose and fructose under cold treatment. The transgenic tomato and Arabidopsis exhibited higher levels of antioxidant enzymes activity, lower relative electrolyte leakage (REL), malondialdehyde (MDA) and hydrogen peroxide (H2O2) content compared to wild type under cold stress. Importantly, the ability of scavenging reactive oxygen species (ROS) in transgenic plants was significantly improved. Moreover, yeast two-hybrid (Y2H) indicated that VaSnRK1 might be a potential interaction protein of VaSUS2. qRT-PCR showed that sucrose metabolism-related genes SlSUS, SlSPS and SlINV were significantly up-regulated in transgenic tomatoes. Meanwhile, the expression levels of antioxidant enzyme genes and cold-related genes CBF1, COR47 and ICE1 were up-regulated in transgenic plants. Taken together, these results suggested that VaSUS2 was involved in cold tolerance by increasing the levels of soluble sugars, improving the activity of antioxidant enzymes, and up-regulating the expression of cold-related genes in transgenic tomatoes and Arabidopsis.
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Affiliation(s)
- Yanmei Li
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China
| | - Guoping Liang
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China
| | - Guojie Nai
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China
| | - Shixiong Lu
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China
| | - Weifeng Ma
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China
| | - Zonghuan Ma
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China
| | - Juan Mao
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China.
| | - Baihong Chen
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, China.
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Responses to Drought Stress in Poplar: What Do We Know and What Can We Learn? Life (Basel) 2023; 13:life13020533. [PMID: 36836891 PMCID: PMC9962866 DOI: 10.3390/life13020533] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2022] [Revised: 02/09/2023] [Accepted: 02/11/2023] [Indexed: 02/17/2023] Open
Abstract
Poplar (Populus spp.) is a high-value crop for wood and biomass production and a model organism for tree physiology and genomics. The early release, in 2006, of the complete genome sequence of P. trichocarpa was followed by a wealth of studies that significantly enriched our knowledge of complex pathways inherent to woody plants, such as lignin biosynthesis and secondary cell wall deposition. Recently, in the attempt to cope with the challenges posed by ongoing climate change, fundamental studies and breeding programs with poplar have gradually shifted their focus to address the responses to abiotic stresses, particularly drought. Taking advantage from a set of modern genomic and phenotyping tools, these studies are now shedding light on important processes, including embolism formation (the entry and expansion of air bubbles in the xylem) and repair, the impact of drought stress on biomass yield and quality, and the long-term effects of drought events. In this review, we summarize the status of the research on the molecular bases of the responses to drought in poplar. We highlight how this knowledge can be exploited to select more tolerant genotypes and how it can be translated to other tree species to improve our understanding of forest dynamics under rapidly changing environmental conditions.
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Gautam R, Meena RK, Rampuria S, Shukla P, Kirti PB. Ectopic expression of DnaJ type-I protein homolog of Vigna aconitifolia ( VaDJI) confers ABA insensitivity and multiple stress tolerance in transgenic tobacco plants. FRONTIERS IN PLANT SCIENCE 2023; 14:1135552. [PMID: 37152162 PMCID: PMC10154610 DOI: 10.3389/fpls.2023.1135552] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/01/2023] [Accepted: 03/31/2023] [Indexed: 05/09/2023]
Abstract
Reduced crop productivity results from altered plant physiological processes caused by dysfunctional proteins due to environmental stressors. In this study, a novel DnaJ Type-I encoding gene, VaDJI having a zinc finger motif in its C-terminal domain was found to be induced early upon treatment with heat stress (within 5 min) in a heat tolerant genotype of Vigna aconitifolia RMO-40. VaDJI is induced by multiple stresses. In tobacco, ectopic expression of VaDJI reduced ABA sensitivity during seed germination and the early stages of seedling growth of transgenic tobacco plants. Concomitantly, it also improved the ability of transgenic tobacco plants to withstand drought stress by modulating the photosynthetic efficiency, with the transgenic plants having higher Fv/Fm ratios and reduced growth inhibition. Additionally, transgenic plants showed a reduced build-up of H2O2 and lower MDA levels and higher chlorophyll content during drought stress, which attenuated cell damage and reduced oxidative damage. An analysis using the qRT-PCR study demonstrated that VaDJI overexpression is associated with the expression of some ROS-detoxification-related genes and stress-marker genes that are often induced during drought stress responses. These findings suggest a hypothesis whereby VaDJI positively influences drought stress tolerance and ABA signalling in transgenic tobacco, and suggests that it is a potential gene for genetic improvement of drought and heat stress tolerance in crop plants.
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Affiliation(s)
- Ranjana Gautam
- Department of Plant Sciences, School of Life Sciences, University of Hyderabad, Hyderabad, Telangana, India
- Department of Life Sciences and Biotechnology, Chhatrapati Shahu Ji Maharaj University, Kanpur, Uttar Pradesh, India
- *Correspondence: Ranjana Gautam, ; P. B. Kirti,
| | - Rajesh Kumar Meena
- Department of Plant Sciences, School of Life Sciences, University of Hyderabad, Hyderabad, Telangana, India
| | - Sakshi Rampuria
- Department of Plant Sciences, School of Life Sciences, University of Hyderabad, Hyderabad, Telangana, India
| | - Pawan Shukla
- Seri-Biotech Research Laboratory, Central Silk Board, Bangalore, India
| | - P. B. Kirti
- Department of Plant Sciences, School of Life Sciences, University of Hyderabad, Hyderabad, Telangana, India
- *Correspondence: Ranjana Gautam, ; P. B. Kirti,
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Avoid, tolerate, or escape? Native vegetation responses to invasion vary between functional groups. Biol Invasions 2022. [DOI: 10.1007/s10530-022-02983-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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Yang F, Lv G. Characterization of the gene expression profile response to drought stress in Haloxylon using PacBio single-molecule real-time and Illumina sequencing. FRONTIERS IN PLANT SCIENCE 2022; 13:981029. [PMID: 36051288 PMCID: PMC9424927 DOI: 10.3389/fpls.2022.981029] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/29/2022] [Accepted: 07/22/2022] [Indexed: 06/15/2023]
Abstract
Haloxylon ammodendron and Haloxylon persicum are important drought-tolerant plants in northwest China. The whole-genome sequencing of H. ammodendron and H. persicum grown in their natural environment is incomplete, and their transcriptional regulatory network in response to drought environment remains unclear. To reveal the transcriptional responses of H. ammodendron and H. persicum to an arid environment, we performed single-molecule real-time (SMRT) and Illumina RNA sequencing. In total, 20,246,576 and 908,053 subreads and 435,938 and 210,334 circular consensus sequencing (CCS) reads were identified by SMRT sequencing of H. ammodendron and H. persicum, and 15,238 and 10,135 unigenes, respectively, were successfully obtained. In addition, 9,794 and 7,330 simple sequence repeats (SSRs) and 838 and 71 long non-coding RNAs were identified. In an arid environment, the growth of H. ammodendron was restricted; plant height decreased significantly; basal and branch diameters became thinner and hydrogen peroxide (H2O2) content and peroxidase (POD) activity were increased. Under dry and wet conditions, 11,803 and 15,217 differentially expressed genes (DEGs) were identified in H. ammodendron and H. persicum, respectively. There were 319 and 415 DEGs in the signal transduction pathways related to drought stress signal perception and transmission, including the Ca2+ signal pathway, the ABA signal pathway, and the MAPK signal cascade. In addition, 217 transcription factors (TFs) and 398 TFs of H. ammodendron and H. persicum were differentially expressed, including FAR1, MYB, and AP2/ERF. Bioinformatic analysis showed that under drought stress, the expression patterns of genes related to active oxygen [reactive oxygen species (ROS)] scavenging, functional proteins, lignin biosynthesis, and glucose metabolism pathways were altered. Thisis the first full-length transcriptome report concerning the responses of H. ammodendron and H. persicum to drought stress. The results provide a foundation for further study of the adaptation to drought stress. The full-length transcriptome can be used in genetic engineering research.
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Affiliation(s)
- Fang Yang
- School of Ecology and Environment, Xinjiang University, Ürümqi, China
- Key Laboratory of Oasis Ecology, Ministry of Education, Ürümqi, China
- Xinjiang Jinghe Observation and Research Station of Temperate Desert Ecosystem, Ministry of Education, Ürümqi, China
| | - Guanghui Lv
- School of Ecology and Environment, Xinjiang University, Ürümqi, China
- Key Laboratory of Oasis Ecology, Ministry of Education, Ürümqi, China
- Xinjiang Jinghe Observation and Research Station of Temperate Desert Ecosystem, Ministry of Education, Ürümqi, China
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Zhu Y, Liu Y, Zhou K, Tian C, Aslam M, Zhang B, Liu W, Zou H. Overexpression of ZmEREBP60 enhances drought tolerance in maize. JOURNAL OF PLANT PHYSIOLOGY 2022; 275:153763. [PMID: 35839657 DOI: 10.1016/j.jplph.2022.153763] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/20/2022] [Revised: 07/02/2022] [Accepted: 07/02/2022] [Indexed: 06/15/2023]
Abstract
Apetala2/ethylene response factor (AP2/ERF) family of transcription factors plays important roles in plant development and stress responses. However, few members of this family have been functionally and mechanistically characterised in maize. In this study, we characterised a member of the AP2/ERF transcription factor family, ZmEREBP60 from maize. Amino acid sequence alignment and phylogenetic analysis showed that ZmEREBP60 belongs to cluster I of the AP2/ERF family. qRT-PCR analysis indicated that ZmEREBP60 expression was highly induced by drought in the roots, coleoptiles, and leaves. Subcellular localisation analysis revealed that ZmEREBP60 was localised in the nucleus. Moreover, overexpression of ZmEREBP60 enhanced tolerance to drought stress while alleviating the drought-induced increase in H2O2 accumulation and malondialdehyde content in transgenic lines. Transcriptome analysis showed that ZmEREBP60 regulates the expression of genes involved in H2O2 catabolism, water deprivation response, and abscisic acid signalling pathway. Collectively, as a new member of the AP2/ERF transcription factor family in maize, ZmEREBP60 is a positive regulator of plant drought response.
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Affiliation(s)
- Yeqing Zhu
- College of Agriculture, Yangtze University, China
| | - Yue Liu
- College of Agriculture, Yangtze University, China
| | - Kaiming Zhou
- College of Agriculture, Yangtze University, China
| | - Congyan Tian
- College of Agriculture, Yangtze University, China
| | - Muhammad Aslam
- Department of Plant Breeding & Genetics, University of Agriculture, Faisalabad, Pakistan
| | | | - Weijuan Liu
- College of Agriculture, Yangtze University, China.
| | - Huawen Zou
- College of Agriculture, Yangtze University, China.
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Nai G, Liang G, Ma W, Lu S, Li Y, Gou H, Guo L, Chen B, Mao J. Overexpression VaPYL9 improves cold tolerance in tomato by regulating key genes in hormone signaling and antioxidant enzyme. BMC PLANT BIOLOGY 2022; 22:344. [PMID: 35840891 PMCID: PMC9284830 DOI: 10.1186/s12870-022-03704-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/09/2022] [Accepted: 06/17/2022] [Indexed: 06/02/2023]
Abstract
BACKGROUND Abscisic acid (ABA) has been reported in controlling plant growth and development, and particularly dominates a role in resistance to abiotic stress. The Pyrabactin Resistance1/PYR1-Like /Regulatory Components of ABA receptors (PYR1/PYL/RCAR) gene family, of which the PYL9 is a positive regulator related to stress response in ABA signaling transduction. Although the family has been identified in grape, detailed VaPYL9 function in cold stress remains unknown. RESULTS In order to explore the cold tolerance mechanism in grape, VaPYL9 was cloned from Vitis amurensis. The subcellular localization showed that VaPYL9 was mainly expressed in the plasma membrane. Yeast two-hybrid (Y2H) showed VaPCMT might be a potential interaction protein of VaPYL9. Through the overexpression of VaPYL9 in tomatoes, results indicated transgenic plants had higher antioxidant enzyme activities and proline content, lower malondialdehyde (MDA) and H2O2 content, and improving the ability to scavenge reactive oxygen species than wild-type (WT). Additionally, ABA content and the ratio of ABA/IAA kept a higher level than WT. Quantitative real-time PCR (qRT-PCR) showed that VaPYL9, SlNCED3, SlABI5, and antioxidant enzyme genes (POD, SOD, CAT) were up-regulated in transgenic tomatoes. Transcriptome sequencing (RNA-seq) found that VaPYL9 overexpression caused the upregulation of key genes PYR/PYL, PYL4, MAPK17/18, and WRKY in transgenic tomatoes under cold stress. CONCLUSION Overexpression VaPYL9 enhances cold resistance of transgenic tomatoes mediated by improving antioxidant enzymes activity, reducing membrane damages, and regulating key genes in plant hormones signaling and antioxidant enzymes.
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Affiliation(s)
- Guojie Nai
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Guoping Liang
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Weifeng Ma
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Shixiong Lu
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Yanmei Li
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Huimin Gou
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Lili Guo
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Baihong Chen
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Juan Mao
- College of Horticulture, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China.
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Li X, Zhou S, Liu Z, Lu L, Dang H, Li H, Chu B, Chen P, Ma Z, Zhao S, Li Z, van Nocker S, Ma F, Guan Q. Fine-tuning of SUMOylation modulates drought tolerance of apple. PLANT BIOTECHNOLOGY JOURNAL 2022; 20:903-919. [PMID: 34978131 PMCID: PMC9055824 DOI: 10.1111/pbi.13772] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/28/2021] [Accepted: 12/24/2021] [Indexed: 06/14/2023]
Abstract
SUMOylation is involved in various aspects of plant biology, including drought stress. However, the relationship between SUMOylation and drought stress tolerance is complex; whether SUMOylation has a crosstalk with ubiquitination in response to drought stress remains largely unclear. In this study, we found that both increased and decreased SUMOylation led to increased survival of apple (Malus × domestica) under drought stress: both transgenic MdSUMO2A overexpressing (OE) plants and MdSUMO2 RNAi plants exhibited enhanced drought tolerance. We further confirmed that MdDREB2A is one of the MdSUMO2 targets. Both transgenic MdDREB2A OE and MdDREB2AK192R OE plants (which lacked the key site of SUMOylation by MdSUMO2A) were more drought tolerant than wild-type plants. However, MdDREB2AK192R OE plants had a much higher survival rate than MdDREB2A OE plants. We further showed SUMOylated MdDREB2A was conjugated with ubiquitin by MdRNF4 under drought stress, thereby triggering its protein degradation. In addition, MdRNF4 RNAi plants were more tolerant to drought stress. These results revealed the molecular mechanisms that underlie the relationship of SUMOylation with drought tolerance and provided evidence for the tight control of MdDREB2A accumulation under drought stress mediated by SUMOylation and ubiquitination.
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Affiliation(s)
- Xuewei Li
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
| | - Shuangxi Zhou
- Department of Biological SciencesMacquarie UniversityNorth RydeNSWAustralia
| | - Zeyuan Liu
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
| | - Liyuan Lu
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
| | - Huan Dang
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
| | - Huimin Li
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
| | - Baohua Chu
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
| | - Pengxiang Chen
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
| | - Ziqing Ma
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
| | - Shuang Zhao
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
| | - Zhongxing Li
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
| | - Steve van Nocker
- Department of HorticultureMichigan State UniversityEast LansingMIUSA
| | - Fengwang Ma
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
| | - Qingmei Guan
- State Key Laboratory of Crop Stress Biology for Arid Areas/Shaanxi Key Laboratory of AppleCollege of HorticultureNorthwest A&F UniversityYanglingChina
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Rane J, Singh AK, Tiwari M, Prasad PVV, Jagadish SVK. Effective Use of Water in Crop Plants in Dryland Agriculture: Implications of Reactive Oxygen Species and Antioxidative System. FRONTIERS IN PLANT SCIENCE 2022; 12:778270. [PMID: 35082809 PMCID: PMC8784697 DOI: 10.3389/fpls.2021.778270] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2021] [Accepted: 12/02/2021] [Indexed: 05/03/2023]
Abstract
Under dryland conditions, annual and perennial food crops are exposed to dry spells, severely affecting crop productivity by limiting available soil moisture at critical and sensitive growth stages. Climate variability continues to be the primary cause of uncertainty, often making timing rather than quantity of precipitation the foremost concern. Therefore, mitigation and management of stress experienced by plants due to limited soil moisture are crucial for sustaining crop productivity under current and future harsher environments. Hence, the information generated so far through multiple investigations on mechanisms inducing drought tolerance in plants needs to be translated into tools and techniques for stress management. Scope to accomplish this exists in the inherent capacity of plants to manage stress at the cellular level through various mechanisms. One of the most extensively studied but not conclusive physiological phenomena is the balance between reactive oxygen species (ROS) production and scavenging them through an antioxidative system (AOS), which determines a wide range of damage to the cell, organ, and the plant. In this context, this review aims to examine the possible roles of the ROS-AOS balance in enhancing the effective use of water (EUW) by crops under water-limited dryland conditions. We refer to EUW as biomass produced by plants with available water under soil moisture stress rather than per unit of water (WUE). We hypothesize that EUW can be enhanced by an appropriate balance between water-saving and growth promotion at the whole-plant level during stress and post-stress recovery periods. The ROS-AOS interactions play a crucial role in water-saving mechanisms and biomass accumulation, resulting from growth processes that include cell division, cell expansion, photosynthesis, and translocation of assimilates. Hence, appropriate strategies for manipulating these processes through genetic improvement and/or application of exogenous compounds can provide practical solutions for improving EUW through the optimized ROS-AOS balance under water-limited dryland conditions. This review deals with the role of ROS-AOS in two major EUW determining processes, namely water use and plant growth. It describes implications of the ROS level or content, ROS-producing, and ROS-scavenging enzymes based on plant water status, which ultimately affects photosynthetic efficiency and growth of plants.
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Affiliation(s)
- Jagadish Rane
- ICAR-National Institute of Abiotic Stress Management, Baramati, India
| | - Ajay Kumar Singh
- ICAR-National Institute of Abiotic Stress Management, Baramati, India
| | - Manish Tiwari
- Department of Agronomy, Kansas State University, Manhattan, KS, United States
| | - P. V. Vara Prasad
- Department of Agronomy, Kansas State University, Manhattan, KS, United States
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Nergui K, Jin S, Zhao L, Liu X, Xu T, Wei J, Chen X, Yang Y, Li H, Liu Y, Wang Y, Liu J, Zhao T, Li Y, Tang L, Sun R, Wang X, Liu Y, Deng X. Comparative analysis of physiological, agronomic and transcriptional responses to drought stress in wheat local varieties from Mongolia and Northern China. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2022; 170:23-35. [PMID: 34844115 DOI: 10.1016/j.plaphy.2021.11.026] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2021] [Revised: 11/10/2021] [Accepted: 11/14/2021] [Indexed: 06/13/2023]
Abstract
Drought is one of the major abiotic stresses that threaten wheat production worldwide, especially in the Mongolian Plateau and adjacent regions. This study aims to find local wheat varieties with high yields and drought resistance at various developmental stages based on agronomic traits and drought resistance indices analysis and explore the underlining molecular mechanisms by transcriptome analysis. Our results revealed that drought stress started at the seedling stage has a greater impact on crop yields. Four types of drought responses were found among the tested varieties. Type 1 and type 2 show low tolerance to drought stress despite high or low yield in control condition, type 3 exhibits high yield under control condition but dropped significantly after drought, and type 4 displays relatively high and stable yields under control and drought conditions. Transcriptome analysis performed with the representative varieties of the four types revealed GO terms and KEGG pathways enriched among drought-triggered differential expressed genes (DEGs). A network containing 18 modules was constructed using weighted gene co-expression analysis (WGCNA). Ten modules were significantly correlated to yield by module-trait correlation, and 3 modules showed Darkhan 144 specific gene expression patterns. C2H2 zinc finger factor-recognized motifs were identified from the promoters of genes in these modules. qRT-PCR confirmed several key DEGs with specific expression patterns and physiological measurements validated the relatively low oxidative damage and high antioxidant capacity in the drought tolerant variety Dankhan 144. These findings provide an important basis for local agriculture and breeding of drought-tolerant high yield wheat varieties.
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Affiliation(s)
- Khandmaa Nergui
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Songsong Jin
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Li Zhao
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Xiaoqiang Liu
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Tao Xu
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China; Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, 510080, China
| | - Jun Wei
- University of Chinese Academy of Sciences, Beijing, 100049, PR China; Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Xiuxiu Chen
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Yang Yang
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Hui Li
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Yang Liu
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Yuanyuan Wang
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Jie Liu
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Tong Zhao
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Yang Li
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Ling Tang
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Runze Sun
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Xiaohua Wang
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Yongxiu Liu
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, China; The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Xin Deng
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
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Transcriptomic Analysis Reveals Regulatory Networks for Osmotic Water Stress and Rewatering Response in the Leaves of Ginkgo biloba. FORESTS 2021. [DOI: 10.3390/f12121705] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
To elucidate the transcriptomic regulation mechanisms that underlie the response of Ginkgo biloba to dehydration and rehydration, we used ginkgo saplings exposed to osmotically driven water stress and subsequent rewatering. When compared with a control group, 137, 1453, 1148, and 679 genes were differentially expressed in ginkgo leaves responding to 2, 6, 12, and 24 h of water deficit, and 796 and 1530 genes were differentially expressed responding to 24 and 48 h of rewatering. Upregulated genes participated in the biosynthesis of abscisic acid, eliminating reactive oxygen species (ROS), and biosynthesis of flavonoids and bilobalide, and downregulated genes were involved in water transport and cell wall enlargement in water stress-treated ginkgo leaves. Under rehydration conditions, the genes associated with water transport and cell wall enlargement were upregulated, and the genes that participated in eliminating ROS and the biosynthesis of flavonoids and bilobalide were downregulated in the leaves of G. biloba. Furthermore, the weighted gene coexpression networks were established and correlated with distinct water stress and rewatering time-point samples. Hub genes that act as key players in the networks were identified. Overall, these results indicate that the gene coexpression networks play essential roles in the transcriptional reconfiguration of ginkgo leaves in response to water stress and rewatering.
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Kavas M, Yıldırım K, Seçgin Z, Abdulla MF, Gökdemir G. Genome-wide identification of the BURP domain-containing genes in Phaseolus vulgaris. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2021; 27:1885-1902. [PMID: 34629769 PMCID: PMC8484419 DOI: 10.1007/s12298-021-01052-9] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2021] [Revised: 07/29/2021] [Accepted: 08/19/2021] [Indexed: 06/13/2023]
Abstract
Plant-specific BURP domain-containing proteins have an essential role in the plant's development and stress responses. Although BURP domain-containing proteins have been identified in several plant species, genome-wide analysis of the BURP gene family has not been investigated in the common bean. In the present study, we identified 11 BURP family members in the common bean (Phaseolus vulgaris) genome with a comprehensive in silico analysis. Pairwise alignment and phylogenetic analyses grouped PvBURP members into four subfamilies [RD-22 like (3), PG1β-like (4), BNM2-like (3), and USP-like (1)] according to their amino acid motifs, protein domains and intron-exon structure. The physical and biochemical characteristics of amino acids, motif and intron-exon structure, and cis-regulatory elements of BURPs members were determined. Promoter regions of BURP members included stress, light, and hormone response-related cis-elements. Therefore, expression profiles of PvBURP genes were identified with in silico tools and qRT-PCR analyses under stress (salt and drought) and hormone treatment (ABA, IAA) in the current study. While significant activity changes were not observed in BURP genes in RNA-seq data sets related to salt stress, it was determined that some BURP genes were expressed differently in those with drought stress. We identified 12 different miRNA, including miRNA395, miRNA156, miRNA169, miRNA171, miRNA319, and miRNA390, targeting the nine PvBURP genes using two different in silico tools based on perfect or near-perfect complementarity to their targets. Here we present the first study to identify and characterize the BURP genes in common bean using whole-genome analysis, and the findings may serve as a reference for future functional research in common bean. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s12298-021-01052-9.
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Affiliation(s)
- Musa Kavas
- Department of Agricultural Biotechnology, Faculty of Agriculture, Ondokuz Mayıs University, Samsun, Turkey
| | - Kubilay Yıldırım
- Department of Molecular Biology and Genetics, Faculty of Arts and Sciences, Ondokuz Mayıs University, Samsun, Turkey
| | - Zafer Seçgin
- Department of Agricultural Biotechnology, Faculty of Agriculture, Ondokuz Mayıs University, Samsun, Turkey
| | - Mohamed Farah Abdulla
- Department of Agricultural Biotechnology, Faculty of Agriculture, Ondokuz Mayıs University, Samsun, Turkey
| | - Gökhan Gökdemir
- Department of Agricultural Biotechnology, Faculty of Agriculture, Ondokuz Mayıs University, Samsun, Turkey
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Detecting drought regulators using stochastic inference in Bayesian networks. PLoS One 2021; 16:e0255486. [PMID: 34398879 PMCID: PMC8367000 DOI: 10.1371/journal.pone.0255486] [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: 05/24/2021] [Accepted: 07/18/2021] [Indexed: 11/19/2022] Open
Abstract
Drought is a natural hazard that affects crops by inducing water stress. Water stress, induced by drought accounts for more loss in crop yield than all the other causes combined. With the increasing frequency and intensity of droughts worldwide, it is essential to develop drought-resistant crops to ensure food security. In this paper, we model multiple drought signaling pathways in Arabidopsis using Bayesian networks to identify potential regulators of drought-responsive reporter genes. Genetically intervening at these regulators can help develop drought-resistant crops. We create the Bayesian network model from the biological literature and determine its parameters from publicly available data. We conduct inference on this model using a stochastic simulation technique known as likelihood weighting to determine the best regulators of drought-responsive reporter genes. Our analysis reveals that activating MYC2 or inhibiting ATAF1 are the best single node intervention strategies to regulate the drought-responsive reporter genes. Additionally, we observe simultaneously activating MYC2 and inhibiting ATAF1 is a better strategy. The Bayesian network model indicated that MYC2 and ATAF1 are possible regulators of the drought response. Validation experiments showed that ATAF1 negatively regulated the drought response. Thus intervening at ATAF1 has the potential to create drought-resistant crops.
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Li W, Lee J, Yu S, Wang F, Lv W, Zhang X, Li C, Yang J. Characterization and analysis of the transcriptome response to drought in Larix kaempferi using PacBio full-length cDNA sequencing integrated with de novo RNA-seq reads. PLANTA 2021; 253:28. [PMID: 33423138 DOI: 10.1007/s00425-020-03555-3] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Accepted: 12/24/2020] [Indexed: 06/12/2023]
Abstract
A hypothetical model of drought tolerance mechanism of Larix kaempferi was established through SMRT-seq and Illumina HiSeq. Larix kaempferi is an important economic and ecological species and a major afforestation species in north-eastern China. To date, no information has been reliably derived regarding full-length cDNA sequencing information on L. kaempferi. By single-molecule long-read isoform sequencing (SMRT-seq), here we report a total of 26,153,342 subreads (21.24 Gb) and 330,371 circular consensus sequence (CCS) reads after the modification of site mismatch, and 35,414 unigenes were successfully collected. To gain deeper insights into the molecular mechanisms of L. kaempferi response to drought stress, we combined Illumina HiSeq with SMRT-seq to decode full-length transcripts. In this study, we report 27 differentially expressed genes (DEGs) involved in the perception and transmission of drought stress signals in L. kaempferi. A large number of DEGs responding to drought stress were detected in L. kaempferi, especially DEGs involved in the reactive oxygen species (ROS) scavenging, lignin biosynthesis, and sugar metabolism, and DEGs encoding drought stress proteins. We detected 73 transcription factors (TFs) under drought stress, including AP2/ERF, bZIP, TCP, and MYB. This study provides basic full sequence resources for L. kaempferi research and will help us to better understand the functions of drought-resistance genes in L. kaempferi.
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Affiliation(s)
- Wenlong Li
- State Key Laboratory of Forest Genetics and Tree Breeding, Northeast Forestry University, 26 Hexing Road, Harbin, 150040, China
| | - Joobin Lee
- State Key Laboratory of Forest Genetics and Tree Breeding, Northeast Forestry University, 26 Hexing Road, Harbin, 150040, China
| | - Sen Yu
- State Key Laboratory of Forest Genetics and Tree Breeding, Northeast Forestry University, 26 Hexing Road, Harbin, 150040, China
| | - Fude Wang
- Institute of Forestry Science of Heilongjiang Province, 134 Haping Road, Harbin, 150040, China
| | - Wanqiu Lv
- State Key Laboratory of Forest Genetics and Tree Breeding, Northeast Forestry University, 26 Hexing Road, Harbin, 150040, China
| | - Xin Zhang
- State Key Laboratory of Forest Genetics and Tree Breeding, Northeast Forestry University, 26 Hexing Road, Harbin, 150040, China
| | - Chenghao Li
- State Key Laboratory of Forest Genetics and Tree Breeding, Northeast Forestry University, 26 Hexing Road, Harbin, 150040, China.
| | - Jingli Yang
- State Key Laboratory of Forest Genetics and Tree Breeding, Northeast Forestry University, 26 Hexing Road, Harbin, 150040, China.
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Gregorio Jorge J, Villalobos-López MA, Chavarría-Alvarado KL, Ríos-Meléndez S, López-Meyer M, Arroyo-Becerra A. Genome-wide transcriptional changes triggered by water deficit on a drought-tolerant common bean cultivar. BMC PLANT BIOLOGY 2020; 20:525. [PMID: 33203368 PMCID: PMC7672829 DOI: 10.1186/s12870-020-02664-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/18/2020] [Accepted: 09/23/2020] [Indexed: 06/01/2023]
Abstract
BACKGROUND Common bean (Phaseolus vulgaris L.) is a relevant crop cultivated over the world, largely in water insufficiency vulnerable areas. Since drought is the main environmental factor restraining worldwide crop production, efforts have been invested to amend drought tolerance in commercial common bean varieties. However, scarce molecular data are available for those cultivars of P. vulgaris with drought tolerance attributes. RESULTS As a first approach, Pinto Saltillo (PS), Azufrado Higuera (AH), and Negro Jamapa Plus (NP) were assessed phenotypically and physiologically to determine the outcome in response to drought on these common bean cultivars. Based on this, a Next-generation sequencing approach was applied to PS, which was the most drought-tolerant cultivar to determine the molecular changes at the transcriptional level. The RNA-Seq analysis revealed that numerous PS genes are dynamically modulated by drought. In brief, 1005 differentially expressed genes (DEGs) were identified, from which 645 genes were up-regulated by drought stress, whereas 360 genes were down-regulated. Further analysis showed that the enriched categories of the up-regulated genes in response to drought fit to processes related to carbohydrate metabolism (polysaccharide metabolic processes), particularly genes encoding proteins located within the cell periphery (cell wall dynamics). In the case of down-regulated genes, heat shock-responsive genes, mainly associated with protein folding, chloroplast, and oxidation-reduction processes were identified. CONCLUSIONS Our findings suggest that secondary cell wall (SCW) properties contribute to P. vulgaris L. drought tolerance through alleviation or mitigation of drought-induced osmotic disturbances, making cultivars more adaptable to such stress. Altogether, the knowledge derived from this study is significant for a forthcoming understanding of the molecular mechanisms involved in drought tolerance on common bean, especially for drought-tolerant cultivars such as PS.
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Affiliation(s)
- Josefat Gregorio Jorge
- Consejo Nacional de Ciencia y Tecnología - Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional (CIBA-IPN), Ex-Hacienda San Juan Molino, Carretera Estatal Tecuexcomac- Tepetitla de Lardizábal Km 1.5, 90700 Tlaxcala, Mexico
| | - Miguel Angel Villalobos-López
- Laboratorio de Genómica Funcional y Biotecnología de Plantas, Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional (CIBA-IPN), Ex-Hacienda San Juan Molino, Carretera Estatal Tecuexcomac- Tepetitla de Lardizábal Km 1.5, 90700 Tlaxcala, Mexico
| | - Karen Lizeth Chavarría-Alvarado
- Laboratorio de Genómica Funcional y Biotecnología de Plantas, Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional (CIBA-IPN), Ex-Hacienda San Juan Molino, Carretera Estatal Tecuexcomac- Tepetitla de Lardizábal Km 1.5, 90700 Tlaxcala, Mexico
| | - Selma Ríos-Meléndez
- Laboratorio de Genómica Funcional y Biotecnología de Plantas, Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional (CIBA-IPN), Ex-Hacienda San Juan Molino, Carretera Estatal Tecuexcomac- Tepetitla de Lardizábal Km 1.5, 90700 Tlaxcala, Mexico
| | - Melina López-Meyer
- Departamento de Biotecnología Agrícola, Centro Interdisciplinario de Investigación para el Desarrollo Integral Regional, Instituto Politécnico Nacional (CIIDIR-IPN Unidad Sinaloa), Boulevard Juan de Dios Bátiz Paredes 250, Colonia San Joachin, 81101 Guasave, Sinaloa Mexico
| | - Analilia Arroyo-Becerra
- Laboratorio de Genómica Funcional y Biotecnología de Plantas, Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional (CIBA-IPN), Ex-Hacienda San Juan Molino, Carretera Estatal Tecuexcomac- Tepetitla de Lardizábal Km 1.5, 90700 Tlaxcala, Mexico
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Xu P, Su H, Zhao S, Jin R, Cheng H, Xu A, Lai W, Yin X, Wang Y. Transcriptome and Phytochemical Analysis Reveals the Alteration of Plant Hormones, Characteristic Metabolites, and Related Gene Expression in Tea ( Camellia sinensis L.) Leaves During Withering. PLANTS (BASEL, SWITZERLAND) 2020; 9:plants9020204. [PMID: 32041337 PMCID: PMC7076645 DOI: 10.3390/plants9020204] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2019] [Revised: 01/29/2020] [Accepted: 02/03/2020] [Indexed: 05/21/2023]
Abstract
Plant hormones play an important role in the chemical metabolism of postharvest plants. However, alterations in plant hormones of postharvest tea and their potential modulation of quality-related metabolites are unknown. In this study, the dynamic alterations of abscisic acid (ABA), salicylic acid (SA), jasmonic acid (JA), and critical metabolites, such as catechins, theanine, and caffeine, in tea leaves were analyzed during withering from 0 to 24 h. It was found that the ABA content increased from 0 to 9 h but decreased thereafter, JA continuously increased, and the SA content showed no significant change. With the exception of gallocatechin (GC) and epicatechin (EC), the amounts of other critical components were significantly reduced at 24 h. Transcriptome analysis showed that compared with 0 h, 2256, 3654, and 1275 differentially expressed genes (DEGs) were identified at 9, 15, and 24 h, respectively. For all comparisons, DEGs corresponding to the pathways of "phenylalanine, tyrosine, and tryptophan biosynthesis" and "phenylalanine metabolism", involved in the biosynthesis of catechins, were significantly enriched. Weighted correlation network analysis (WGCNA) of co-expression genes indicated that many of the modules were only correlated with a specific trait during the withering process; the dark olive-green module, however, was correlated with two traits, ABA and theanine. Our study indicates that withering induced dramatic alterations in gene transcription as well as levels of hormones (ABA, JA, and SA) and important components, and that ABA regulated theanine metabolism during this process.
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Affiliation(s)
- Ping Xu
- Department of Tea Science, Zhejiang University, Hangzhou 310058, China; (H.S.); (S.Z.); (H.C.); (A.X.); (W.L.)
- Correspondence: (P.X.); (Y.W.)
| | - Hui Su
- Department of Tea Science, Zhejiang University, Hangzhou 310058, China; (H.S.); (S.Z.); (H.C.); (A.X.); (W.L.)
| | - Shiqi Zhao
- Department of Tea Science, Zhejiang University, Hangzhou 310058, China; (H.S.); (S.Z.); (H.C.); (A.X.); (W.L.)
| | - Rong Jin
- Agricultural Experiment Station, Zhejiang University, Hangzhou 310058, China;
| | - Haiyan Cheng
- Department of Tea Science, Zhejiang University, Hangzhou 310058, China; (H.S.); (S.Z.); (H.C.); (A.X.); (W.L.)
| | - Anan Xu
- Department of Tea Science, Zhejiang University, Hangzhou 310058, China; (H.S.); (S.Z.); (H.C.); (A.X.); (W.L.)
| | - Wanyi Lai
- Department of Tea Science, Zhejiang University, Hangzhou 310058, China; (H.S.); (S.Z.); (H.C.); (A.X.); (W.L.)
| | - Xueren Yin
- Department of Horticulture, Zhejiang University, Hangzhou 310058, China;
| | - Yuefei Wang
- Department of Tea Science, Zhejiang University, Hangzhou 310058, China; (H.S.); (S.Z.); (H.C.); (A.X.); (W.L.)
- Correspondence: (P.X.); (Y.W.)
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Favreau B, Denis M, Ployet R, Mounet F, Peireira da Silva H, Franceschini L, Laclau JP, Labate C, Carrer H. Distinct leaf transcriptomic response of water deficient Eucalyptus grandis submitted to potassium and sodium fertilization. PLoS One 2019; 14:e0218528. [PMID: 31220144 PMCID: PMC6586347 DOI: 10.1371/journal.pone.0218528] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2018] [Accepted: 06/04/2019] [Indexed: 01/06/2023] Open
Abstract
While potassium fertilization increases growth yield in Brazilian eucalyptus plantations, it could also increase water requirements, making trees more vulnerable to drought. Sodium fertilization, which has been shown to promote eucalyptus growth compared to K-deficient trees, could partially mitigate this adverse effect of potassium. However, little is known about the influence of K and Na fertilization on the tree metabolic response to water deficit. The aim of the present study was thus to analyze the transcriptome of leaves sampled from Eucalyptus grandis trees subjected to 37% rainfall reduction, and fertilized with potassium (K), sodium (Na), compared to control trees (C). The multifactorial experiment was set up in a field with a throughfall exclusion system. Transcriptomic analysis was performed on leaves from two-year-old trees, and data analyzed using multifactorial statistical analysis and weighted gene co-expression network analysis (WGCNA). Significant sets of genes were seen to respond to rainfall reduction, in interaction with K or Na fertilization, or to fertilization only (regardless of the water supply regime). The genes were involved in stress signaling, primary and secondary metabolism, secondary cell wall formation and photosynthetic activity. Our focus on key genes related to cation transporters and aquaporins highlighted specific regulation of ion homeostasis, and plant adjustment to water deficit. While water availability significantly affects the transcriptomic response of eucalyptus species, this study points out that the transcriptomic response is highly dependent on the fertilization regime. Our study is based on the first large-scale field trial in a tropical region, specifically designed to study the interaction between water availability and nutrition in eucalyptus. To our knowledge, this is the first global transcriptomic analysis to compare the influence of K and Na fertilization on tree adaptive traits in water deficit conditions.
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Affiliation(s)
- Bénédicte Favreau
- CIRAD, UMR AGAP, Montpellier, France
- AGAP, Université de Montpellier, CIRAD, INRA, Montpellier SupAgro, Montpellier, France
| | - Marie Denis
- CIRAD, UMR AGAP, Montpellier, France
- AGAP, Université de Montpellier, CIRAD, INRA, Montpellier SupAgro, Montpellier, France
| | - Raphael Ployet
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, Castanet-Tolosan, France
| | - Fabien Mounet
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, Castanet-Tolosan, France
| | - Hana Peireira da Silva
- Department of Genetics, Luiz de Queiroz College of Agriculture, University of São Paulo, São Paulo, Brazil
| | - Livia Franceschini
- Department of Genetics, Luiz de Queiroz College of Agriculture, University of São Paulo, São Paulo, Brazil
| | | | - Carlos Labate
- Department of Genetics, Luiz de Queiroz College of Agriculture, University of São Paulo, São Paulo, Brazil
| | - Helaine Carrer
- Department of Biological Sciences, Luiz de Queiroz College of Agriculture, University of São Paulo, São Paulo, Brazil
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Mortality of Different Populus Genotypes in Recently Established Mixed Short Rotation Coppice with Robinia pseudoacacia L. FORESTS 2019. [DOI: 10.3390/f10050410] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Short rotation coppices play an increasing role in providing wooden biomass for energy. Mixing fast-growing tree species in short rotation coppices may result in complementary effects and increased yield. The aim of this study was to analyze the effect on mortality of eight different poplar genotypes (Populus sp.) in mixed short rotation coppices with three different provenances of the N-fixing tree species black locust (Robinia pseudoacacia L.). Pure and mixed stands were established at two sites of contrasting fertility. Survival of poplar was assessed for each tree two times a year, for a period of three years. In the first two years, high variation in mortality was observed between the genotypes, but no significant differences between pure and mixed stands were identified. However, three years after planting, higher mortality rates were observed in the mixtures across all poplar genotypes in comparison to pure stands. The expected advantage on growth of combining an N-fixing tree with an N-demanding tree species, such as poplar, was overshadowed by the Robinia’s dominance and competitiveness.
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21
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Neji M, Gorel A, Ojeda DI, Duminil J, Kastally C, Steppe K, Fayolle A, Hardy OJ. Comparative analysis of two sister Erythrophleum species (Leguminosae) reveal contrasting transcriptome-wide responses to early drought stress. Gene 2019; 694:50-62. [PMID: 30716444 DOI: 10.1016/j.gene.2019.01.027] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2018] [Revised: 12/11/2018] [Accepted: 01/22/2019] [Indexed: 02/01/2023]
Abstract
With the ongoing climate change, African rainforests are expected to experience severe drought events in the future. In Africa, the tropical genus Erythrophleum (Fabaceae) includes two forest sister timber tree species displaying contrasting geographical distributions. Erythrophleum ivorense is adapted to wet evergreen Guineo-Congolian forests, whereas E. suaveolens occurs in a wider range of climates, being found in moist dense forests but also in gallery forests under a relatively drier climate. This geographical distribution pattern suggests that the two species might cope differently to drought at the genomic level. Yet, the genetic basis of tolerance response to drought stress in both species is still uncharacterized. To bridge this gap, we performed an RNA-seq approach on seedlings from each species to monitor their transcriptional responses at different levels of drought stress (0, 2 and 6 weeks after stopping watering seedlings). Monitoring of wilting symptoms revealed that E. suaveolens displayed an earlier phenotypic response to drought stress than E. ivorense. At the transcriptomic level, results revealed 2020 (1204 down-regulated/816 up-regulated) and 1495 differentially expressed genes (DEGs) in response to drought stress from a total of 67,432 and 66,605 contigs assembled in E. ivorense and E. suaveolens, respectively. After identifying 30,374 orthologs between species, we found that only 7 of them were DEGs shared between species, while 587 and 458 were differentially expressed only in E. ivorense or E. suaveolens, respectively. GO and KEGG enrichment analysis revealed that the two species differ in terms of significantly regulated pathways as well as the number and expression profile of DEGs (Up/Down) associated with each pathway in the two stress stages. Our results suggested that the two studied species react differently to drought. E. suaveolens seems displaying a prompt response to drought at its early stage strengthened by the down-regulation of many DEGs encoding for signaling and metabolism-related pathways. A considerable up-regulation of these pathways was also found in E. ivorense at the late stage of drought, suggesting this species may be a late responder. Overall, our data may serve as basis for further understanding the genetic control of drought tolerance in tropical trees and favor the selection of crucial genes for genetically enhancing drought resistance.
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Affiliation(s)
- Mohamed Neji
- Unit of Evolutionary Biology & Ecology, Faculté des Sciences, Université Libre de Bruxelles, Av. F.D. Roosevelt, 50, CP 160/12, B-1050 Brussels, Belgium; Department of Life Sciences, Faculty of Sciences of Gabès, University of Gabès, Tunisia; Laboratory of Extremophile Plants, Centre of Biotechnology of Borj Cedria, Hammam-Lif, Tunisia.
| | - Anais Gorel
- Department Biosystem Engineering (BIOSE), Gembloux Agro-Bio Tech, University of Liege, Belgium
| | - Dario I Ojeda
- Unit of Evolutionary Biology & Ecology, Faculté des Sciences, Université Libre de Bruxelles, Av. F.D. Roosevelt, 50, CP 160/12, B-1050 Brussels, Belgium; Unit of Ecology and Genetics, Department of Biology, Oulu University, Finland; Norwegian Institute of Bioeconomy Research, Ås, Norway
| | - Jérôme Duminil
- Unit of Evolutionary Biology & Ecology, Faculté des Sciences, Université Libre de Bruxelles, Av. F.D. Roosevelt, 50, CP 160/12, B-1050 Brussels, Belgium; UMR-DIADE, Institut de Recherche pour le Développement, Univ. Montpellier, Montpellier, France
| | - Chedly Kastally
- Unit of Evolutionary Biology & Ecology, Faculté des Sciences, Université Libre de Bruxelles, Av. F.D. Roosevelt, 50, CP 160/12, B-1050 Brussels, Belgium
| | - Kathy Steppe
- Laboratory of Plant Ecology, Faculty of Bioscience Engineering, Ghent University, Coupure links 653, B-9000 Ghent, Belgium
| | - Adeline Fayolle
- Department Biosystem Engineering (BIOSE), Gembloux Agro-Bio Tech, University of Liege, Belgium
| | - Olivier J Hardy
- Unit of Evolutionary Biology & Ecology, Faculté des Sciences, Université Libre de Bruxelles, Av. F.D. Roosevelt, 50, CP 160/12, B-1050 Brussels, Belgium
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Zenda T, Liu S, Wang X, Liu G, Jin H, Dong A, Yang Y, Duan H. Key Maize Drought-Responsive Genes and Pathways Revealed by Comparative Transcriptome and Physiological Analyses of Contrasting Inbred Lines. Int J Mol Sci 2019; 20:ijms20061268. [PMID: 30871211 PMCID: PMC6470692 DOI: 10.3390/ijms20061268] [Citation(s) in RCA: 56] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2019] [Revised: 03/08/2019] [Accepted: 03/08/2019] [Indexed: 02/06/2023] Open
Abstract
To unravel the molecular mechanisms underpinning maize (Zea mays L.) drought stress tolerance, we conducted comprehensive comparative transcriptome and physiological analyses of drought-tolerant YE8112 and drought-sensitive MO17 inbred line seedlings that had been exposed to drought treatment for seven days. Resultantly, YE8112 seedlings maintained comparatively higher leaf relative water and proline contents, greatly increased peroxidase activity, but decreased malondialdehyde content, than MO17 seedlings. Using an RNA sequencing (RNA-seq)-based approach, we identified a total of 10,612 differentially expressed genes (DEGs). From these, we mined out four critical sets of drought responsive DEGs, including 80 specific to YE8112, 5140 shared between the two lines after drought treatment (SD_TD), five DEGs of YE8112 also regulated in SD_TD, and four overlapping DEGs between the two lines. Drought-stressed YE8112 DEGs were primarily associated with nitrogen metabolism and amino-acid biosynthesis pathways, whereas MO17 DEGs were enriched in the ribosome pathway. Additionally, our physiological analyses results were consistent with the predicted RNA-seq-based findings. Furthermore, quantitative real-time polymerase chain reaction (qRT-PCR) analysis and the RNA-seq results of twenty representative DEGs were highly correlated (R2 = 98.86%). Crucially, tolerant line YE8112 drought-responsive genes were predominantly implicated in stress signal transduction; cellular redox homeostasis maintenance; MYB, NAC, WRKY, and PLATZ transcriptional factor modulated; carbohydrate synthesis and cell-wall remodeling; amino acid biosynthesis; and protein ubiquitination processes. Our findings offer insights into the molecular networks mediating maize drought stress tolerance.
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Affiliation(s)
- Tinashe Zenda
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China.
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China.
| | - Songtao Liu
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China.
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China.
| | - Xuan Wang
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China.
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China.
| | - Guo Liu
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China.
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China.
| | - Hongyu Jin
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China.
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China.
| | - Anyi Dong
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China.
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China.
| | - Yatong Yang
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China.
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China.
| | - Huijun Duan
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China.
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China.
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Chaichi M, Sanjarian F, Razavi K, Gonzalez-Hernandez JL. Analysis of transcriptional responses in root tissue of bread wheat landrace (Triticum aestivum L.) reveals drought avoidance mechanisms under water scarcity. PLoS One 2019; 14:e0212671. [PMID: 30840683 PMCID: PMC6402654 DOI: 10.1371/journal.pone.0212671] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2018] [Accepted: 02/07/2019] [Indexed: 11/24/2022] Open
Abstract
In this study, high-throughput sequencing (RNA-Seq) was utilized to evaluate differential expression of transcripts and their related genes involved in response to terminal drought in root tissues of bread wheat landrace (L-82) and drought-sensitive genotype (Marvdasht). Subsets of 460 differentially expressed genes (DEGs) in drought-tolerant genotype and 236 in drought-sensitive genotype were distinguished and functionally annotated with 105 gene ontology (GO) terms and 77 metabolic pathways. Transcriptome profiling of drought-resistant genotype “L-82” showed up-regulation of genes mostly involved in Oxidation-reduction process, secondary metabolite biosynthesis, abiotic stress response, transferase activity and heat shock proteins. On the other hand, down-regulated genes mostly involved in signaling, oxidation-reduction process, secondary metabolite biosynthesis, auxin-responsive protein and lipid metabolism. We hypothesized that the drought tolerance in “L-82” was a result of avoidance strategies. Up-regulation of genes related to the deeper root system and adequate hydraulic characteristics to allow water uptake under water scarcity confirms our hypothesis. The transcriptomic sequences generated in this study provide information about mechanisms of acclimation to drought in the selected bread wheat landrace, “L-82”, and will help us to unravel the mechanisms underlying the ability of crops to reproduce and keep its productivity even under drought stress.
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Affiliation(s)
- Mehrdad Chaichi
- National Institute of Genetic Engineering and Biotechnology (NIGEB), Tehran, Iran
| | - Forough Sanjarian
- National Institute of Genetic Engineering and Biotechnology (NIGEB), Tehran, Iran
- * E-mail:
| | - Khadijeh Razavi
- National Institute of Genetic Engineering and Biotechnology (NIGEB), Tehran, Iran
| | - Jose L. Gonzalez-Hernandez
- Agronomy, Horticulture and Plant Sciences Dept., South Dakota State University, Brookings, South Dakota, United States of America
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24
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Kavas M, Kurt Kızıldoğan A, Balık Hİ. Gene expression analysis of bud burst process in European hazelnut ( Corylus avellana L.) using RNA-Seq. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2019; 25:13-29. [PMID: 30804627 PMCID: PMC6352538 DOI: 10.1007/s12298-018-0588-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2018] [Revised: 07/11/2018] [Accepted: 07/24/2018] [Indexed: 05/27/2023]
Abstract
The control of bud burst process depending on temperature is crucial factor in woody perennial plants to survive in unfavorable ecological conditions. Although it has important economic and agronomic values, little information is available on the molecular mechanism of the bud burst process in Corylus avellana. Here for the first time, we conducted a de novo transcriptome-based experiment using eco-dormant leaf bud tissues. Four transcriptome libraries were constructed from the leaf bud tissues and sequenced via Illumina platform. Transcriptome analysis revealed 86,394 unigenes with a mean length of 1189 nt and an N50 of 1916 nt. Among these unigenes, 63,854 (73.78%) of them were annotated by at least one database. De novo assembled transcripts were enriched in phenylpropanoid metabolism, phytohormone biosynthesis and signal transduction pathways. Analyses of phytohormone-associated genes revealed important changes during bud burst, in response to gibberellic acid, auxin, and brassinosteroids. Approximately 2163 putative transcription factors were predicted, of which the largest number of unique transcripts belonged to the MYB transcription factor family. These results contribute to a better understanding of the regulation of bud burst genes in perennial plants.
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Affiliation(s)
- Musa Kavas
- Department of Agricultural Biotechnology, Faculty of Agriculture, Ondokuz Mayıs University, Samsun, Turkey
| | - Aslıhan Kurt Kızıldoğan
- Department of Agricultural Biotechnology, Faculty of Agriculture, Ondokuz Mayıs University, Samsun, Turkey
| | - Hüseyin İrfan Balık
- Giresun Hazelnut Research Station, Ministry of Food, Agriculture and Livestock, Giresun, Turkey
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25
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Li H, Mo Y, Cui Q, Yang X, Guo Y, Wei C, Yang J, Zhang Y, Ma J, Zhang X. Transcriptomic and physiological analyses reveal drought adaptation strategies in drought-tolerant and -susceptible watermelon genotypes. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2019; 278:32-43. [PMID: 30471727 DOI: 10.1016/j.plantsci.2018.10.016] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2018] [Revised: 10/15/2018] [Accepted: 10/17/2018] [Indexed: 05/02/2023]
Abstract
Drought stress has become one of the most urgent environmental hazards for horticultural crops. In this research, we analyzed watermelon adaptation strategies to drought stress in drought-tolerant (M20) and -susceptible (Y34) genotypes via transcriptomic and physiological analyses. After drought stress, a total of 6228 and 4311 differentially expressed genes (DEGs) were observed in Y34 and M20, respectively. Numerous DEGs were involved in various defense responses such as antioxidation, protein protection, osmotic adjustment, wax accumulation, hormone signaling, and melatonin biosynthesis. Accordingly, the contents of ABA, melatonin, wax, and some osmoprotectants were increased by drought stress in both Y34 and especially M20. Exogenous application of melatonin or ABA induced wax accumulation and drought tolerance and melatonin may function upstream of ABA. In comparison to Y34, M20 was more able to activate ABA signaling, melatonin biosynthesis, osmotic adjustment, antioxidation, and wax accumulation under drought stress. These stronger responses confer M20 tolerance to drought. Photosynthesis and most DEGs involved in photosynthesis and cell growth were decreased by drought stress in both M20 and especially Y34. For drought-susceptible genotypes, growth retardation may be an important mechanism for saving and redistributing resources in order to reprogram stress signaling networks.
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Affiliation(s)
- Hao Li
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - YanLing Mo
- Yangtze Normal University, Fuling 408000, Chongqing, China
| | - Qi Cui
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - XiaoZhen Yang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - YanLiang Guo
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - ChunHua Wei
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - Jianqiang Yang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - Yong Zhang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - JianXiang Ma
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - Xian Zhang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling 712100, Shaanxi, China.
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26
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Yıldırım K, Yağcı A, Sucu S, Tunç S. Responses of grapevine rootstocks to drought through altered root system architecture and root transcriptomic regulations. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2018; 127:256-268. [PMID: 29627732 DOI: 10.1016/j.plaphy.2018.03.034] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/15/2018] [Revised: 03/29/2018] [Accepted: 03/29/2018] [Indexed: 06/08/2023]
Abstract
Roots are the major interface between the plant and various stress factors in the soil environment. Alteration of root system architecture (RSA) (root length, spread, number and length of lateral roots) in response to environmental changes is known to be an important strategy for plant adaptation and productivity. In light of ongoing climate changes and global warming predictions, the breeding of drought-tolerant grapevine cultivars is becoming a crucial factor for developing a sustainable viticulture. Root-trait modeling of grapevine rootstock for drought stress scenarios, together with high-throughput phenotyping and genotyping techniques, may provide a valuable background for breeding studies in viticulture. Here, tree grafted grapevine rootstocks (110R, 5BB and 41B) having differential RSA regulations and drought tolerance were investigated to define their drought dependent root characteristics. Root area, root length, ramification and number of root tips reduced less in 110R grafted grapevines compared to 5BB and 41B grafted ones during drought treatment. Root relative water content as well as total carbohydrate and nitrogen content were found to be much higher in the roots of 110R than it was in the roots of other rootstocks under drought. Microarray-based root transcriptome profiling was also conducted on the roots of these rootstocks to identify their gene regulation network behind drought-dependent RSA alterations. Transcriptome analysis revealed totally 2795, 1196 and 1612 differentially expressed transcripts at the severe drought for the roots of 110R, 5BB and 41B, respectively. According to this transcriptomic data, effective root elongation and enlargement performance of 110R were suggested to depend on three transcriptomic regulations. First one is the drought-dependent induction in sugar and protein transporters genes (SWEET and NRT1/PTR) in the roots of 110R to facilitate carbohydrate and nitrogen accumulation. In the roots of the same rootstock, expression increase in osmolyte producer genes revealed another transcriptomic regulation enabling effective root osmotic adjustment under drought stress. The third mechanism was linked to root suberization with upregulation of transcripts functional in wax producing enzymes (Caffeic acid 3-O-methyltransferase, Eceriferum3, 3-ketoacyl-CoAsynthase). These three transcriptomic regulations were suggested to provide essential energy and water preservation to the roots of 110R for its effective RSA regulation under drought. This phenotypic and genotypic knowledge could be used to develop root-dependent drought tolerant grapevines in breeding programs and could facilitate elucidation of genetic regulations behind RSA alteration in other plants.
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Affiliation(s)
- Kubilay Yıldırım
- Gaziosmanpaşa University, Department of Bioengineering, Tokat, Turkey.
| | - Adem Yağcı
- Department of Agriculture, Tokat, Turkey
| | - Seda Sucu
- Department of Agriculture, Tokat, Turkey
| | - Sümeyye Tunç
- Gaziosmanpaşa University, Department of Bioengineering, Tokat, Turkey
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27
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Yıldırım K, Kasım GÇ. Phytoremediation potential of poplar and willow species in small scale constructed wetland for boron removal. CHEMOSPHERE 2018; 194:722-736. [PMID: 29247932 DOI: 10.1016/j.chemosphere.2017.12.036] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2017] [Revised: 11/04/2017] [Accepted: 12/06/2017] [Indexed: 05/04/2023]
Abstract
Boron (B) pollution is an expanding environmental problem throughout the world due to intensive mining practices and extensive usage of B in agricultural chemicals and industrial products in recent years. The purpose of this study was to investigate B removal performance of four poplar and four willow species in small scale Constructed Wetland (CW). Rooted cuttings of tested species were treated with simulated wastewater having five elevated B concentrations (0.5, 5, 10, 20 and 40 ppm). All the tested species could resist up to 20 ppm wastewater B supply and could regrow from their roots in the soil having maximum 15 mg/kg B content. The result of the study indicated that 65% ± 5.3 of B was removed from the wastewater in 5 ppm B treatment while the same efficiency decreased to 45% ± 4.6 at 40 ppm B supply. The average effect of sediment on B removal was found to be approximately 20% for all B treatments while the remaining part of the loaded B was removed from the CW within effluent (35-54%). Therefore, actual effects of plant species on B removal was ranged from 45% to 25% between 5 and 40 ppm B treatments. Mass B removal within plant body (phytextraction) comprised the 13-10% of total loaded B in CW while the remaining part of the loaded B (31-15%) was stabilized into the sediment with the effects of poplar and willow roots. These results presented clear understanding of effective B purification mechanisms in CWs. Boron phytextraction capacity of a plant species was less effective than its phytstabilization efficiency which increase filtering capacity of the sediment and stabilization of more B around the rhizosphere. In terms of their B removal ability, P.nigra and S.anatolica had the highest B removal capacities with phytextraction (20-11%) while S.alba, P.alba and S.babylonica had more phytstabilizaiton performance (40-15%) in CW. Disposal of B loaded plant material create another environmental costs for CW applications. Therefore, B loaded wood and leaf tissues were mixed and used for production of wooden panels in the study. Then a combustion test was applied on these panels to test their fire resistance. The results of the tests revealed much higher burning tolerance of the B loaded panels (5-20%) compared to controls. Annual harvesting, fast growing and deep rooting ability of the poplar and willow species with their high phytstabilization and phytextraction efficiencies make these species excellent tools to remove B from the polluted waters. Utilization of these species for B removal in large scale CWs is quite possible which should be also investigated in further studies.
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28
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Abraham PE, Garcia BJ, Gunter LE, Jawdy SS, Engle N, Yang X, Jacobson DA, Hettich RL, Tuskan GA, Tschaplinski TJ. Quantitative proteome profile of water deficit stress responses in eastern cottonwood (Populus deltoides) leaves. PLoS One 2018; 13:e0190019. [PMID: 29447168 PMCID: PMC5813909 DOI: 10.1371/journal.pone.0190019] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2017] [Accepted: 12/06/2017] [Indexed: 12/26/2022] Open
Abstract
Drought stress is a recurring feature of world climate and the single most important factor influencing agricultural yield worldwide. Plants display highly variable, species-specific responses to drought and these responses are multifaceted, requiring physiological and morphological changes influenced by genetic and molecular mechanisms. Moreover, the reproducibility of water deficit studies is very cumbersome, which significantly impedes research on drought tolerance, because how a plant responds is highly influenced by the timing, duration, and intensity of the water deficit. Despite progress in the identification of drought-related mechanisms in many plants, the molecular basis of drought resistance remains to be fully understood in trees, particularly in poplar species because their wide geographic distribution results in varying tolerances to drought. Herein, we aimed to better understand this complex phenomenon in eastern cottonwood (Populus deltoides) by performing a detailed contrast of the proteome changes between two different water deficit experiments to identify functional intersections and divergences in proteome responses. We investigated plants subjected to cyclic water deficit and compared these responses to plants subjected to prolonged acute water deficit. In total, we identified 108,012 peptide sequences across both experiments that provided insight into the quantitative state of 22,737 Populus gene models and 8,199 functional protein groups in response to drought. Together, these datasets provide the most comprehensive insight into proteome drought responses in poplar to date and a direct proteome comparison between short period dehydration shock and cyclic, post-drought re-watering. Overall, this investigation provides novel insights into drought avoidance mechanisms that are distinct from progressive drought stress. Additionally, we identified proteins that have been associated as drought-relevant in previous studies. Importantly, we highlight the RD26 transcription factor as a gene regulated at both the transcript and protein level, regardless of species and drought condition, and, thus, represents a key, universal drought marker for Populus species.
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Affiliation(s)
- Paul E. Abraham
- Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
| | - Benjamin J. Garcia
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
| | - Lee E. Gunter
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
| | - Sara S. Jawdy
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
| | - Nancy Engle
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
| | - Xiaohan Yang
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
| | - Daniel A. Jacobson
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
| | - Robert L. Hettich
- Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
| | - Gerald A. Tuskan
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
| | - Timothy J. Tschaplinski
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, United States of America
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