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Shahwar D, Khan Z, Park Y. Molecular Markers for Marker-Assisted Breeding for Biotic and Abiotic Stress in Melon ( Cucumis melo L.): A Review. Int J Mol Sci 2024; 25:6307. [PMID: 38928017 PMCID: PMC11204097 DOI: 10.3390/ijms25126307] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2024] [Revised: 06/02/2024] [Accepted: 06/03/2024] [Indexed: 06/28/2024] Open
Abstract
Melon (Cucumis melo L.) is a globally grown crop renowned for its juice and flavor. Despite growth in production, the melon industry faces several challenges owing to a wide range of biotic and abiotic stresses throughout the growth and development of melon. The aim of the review article is to consolidate current knowledge on the genetic mechanism of both biotic and abiotic stress in melon, facilitating the development of robust, disease-resistant melon varieties. A comprehensive literature review was performed, focusing on recent genetic and molecular advancements related to biotic and abiotic stress responses in melons. The review emphasizes the identification and analysis of quantitative trait loci (QTLs), functional genes, and molecular markers in two sections. The initial section provides a comprehensive summary of the QTLs and major and minor functional genes, and the establishment of molecular markers associated with biotic (viral, bacterial, and fungal pathogens, and nematodes) and abiotic stress (cold/chilling, drought, salt, and toxic compounds). The latter section briefly outlines the molecular markers employed to facilitate marker-assisted backcrossing (MABC) and identify cultivars resistant to biotic and abiotic stressors, emphasizing their relevance in strategic marker-assisted melon breeding. These insights could guide the incorporation of specific traits, culminating in developing novel varieties, equipped to withstand diseases and environmental stresses by targeted breeding, that meet both consumer preferences and the needs of melon breeders.
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Affiliation(s)
- Durre Shahwar
- Plant Genomics and Molecular Breeding Laboratory, Department of Horticultural Bioscience, Pusan National University, Miryang 50463, Republic of Korea;
| | - Zeba Khan
- Center for Agricultural Education, Faculty of Agricultural Sciences, Aligarh Muslim University, Aligarh 202002, India;
| | - Younghoon Park
- Plant Genomics and Molecular Breeding Laboratory, Department of Horticultural Bioscience, Pusan National University, Miryang 50463, Republic of Korea;
- Life and Industry Convergence Research Institute, Pusan National University, Miryang 50463, Republic of Korea
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2
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Mukherjee A, Maheshwari U, Sharma V, Sharma A, Kumar S. Functional insight into multi-omics-based interventions for climatic resilience in sorghum (Sorghum bicolor): a nutritionally rich cereal crop. PLANTA 2024; 259:91. [PMID: 38480598 DOI: 10.1007/s00425-024-04365-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2023] [Accepted: 02/13/2024] [Indexed: 03/25/2024]
Abstract
MAIN CONCLUSION The article highlights omics-based interventions in sorghum to combat food and nutritional scarcity in the future. Sorghum with its unique ability to thrive in adverse conditions, has become a tremendous highly nutritive, and multipurpose cereal crop. It is resistant to various types of climatic stressors which will pave its way to a future food crop. Multi-omics refers to the comprehensive study of an organism at multiple molecular levels, including genomics, transcriptomics, proteomics, and metabolomics. Genomic studies have provided insights into the genetic diversity of sorghum and led to the development of genetically improved sorghum. Transcriptomics involves analysing the gene expression patterns in sorghum under various conditions. This knowledge is vital for developing crop varieties with enhanced stress tolerance. Proteomics enables the identification and quantification of the proteins present in sorghum. This approach helps in understanding the functional roles of specific proteins in response to stress and provides insights into metabolic pathways that contribute to resilience and grain production. Metabolomics studies the small molecules, or metabolites, produced by sorghum, provides information about the metabolic pathways that are activated or modified in response to environmental stress. This knowledge can be used to engineer sorghum varieties with improved metabolic efficiency, ultimately leading to better crop yields. In this review, we have focused on various multi-omics approaches, gene expression analysis, and different pathways for the improvement of Sorghum. Applying omics approaches to sorghum research allows for a holistic understanding of its genome function. This knowledge is invaluable for addressing challenges such as climate change, resource limitations, and the need for sustainable agriculture.
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Affiliation(s)
- Ananya Mukherjee
- School of Biotechnology, Faculty of Applied Sciences and Biotechnology, Shoolini University, Solan, Himachal Pradesh, 173229, India
| | - Uma Maheshwari
- School of Biotechnology, Faculty of Applied Sciences and Biotechnology, Shoolini University, Solan, Himachal Pradesh, 173229, India
| | - Vishal Sharma
- School of Biotechnology, Faculty of Applied Sciences and Biotechnology, Shoolini University, Solan, Himachal Pradesh, 173229, India.
| | - Ankush Sharma
- Plant Genome Mapping Laboratory, Crop and Soil Science, University of Georgia, 111 Riverbend Road, Athens, GA, 30605, USA
| | - Satish Kumar
- Department of Food Science and Technology, Dr. Yashwant Singh Parmar University of Horticulture and Forestry, Nauni, Solan, HP, 173230, India
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3
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Debsharma SK, Rahman MA, Khatun M, Disha RF, Jahan N, Quddus MR, Khatun H, Dipti SS, Ibrahim M, Iftekharuddaula KM, Kabir MS. Developing climate-resilient rice varieties (BRRI dhan97 and BRRI dhan99) suitable for salt-stress environments in Bangladesh. PLoS One 2024; 19:e0294573. [PMID: 38241319 PMCID: PMC10810675 DOI: 10.1371/journal.pone.0294573] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2023] [Accepted: 11/04/2023] [Indexed: 01/21/2024] Open
Abstract
Salinity variations are the main reason for rice yield fluctuations in salt-prone regions throughout the dry season (Boro season). Plant breeders must produce new rice varieties that are more productive, salt tolerant, and stable across a variety of settings to ensure Bangladesh's food sustainability. To assess the yield and stability, we used fifteen rice genotypes containing two tolerant checks BRRI dhan67, Binadhan-10 and the popular Boro rice variety BRRI dhan28 in different salinity "hotspot" in three successive years followed by additive main effects and multiplicative interaction (AMMI) model utilizing a randomized complete block (RCB) design with two replications. Parents selection was done based on estimated breeding values (EBVs). Eight parents with high EBVs (IR83484-3-B-7-1-1-1, IR87870-6-1-1-1-1-B, BR8992-B-18-2-26, HHZ5-DT20-DT2-DT1, HHZ12-SAL2-Y3-Y2, BR8980-B-1-3-5, BRRI dhan67, and Binadhan-10) might be used to develop new segregating breeding materials. Based on farmer preferences and grain acceptability, three genotypes (IR83484-3-B-7-1-1-1, HHZ5-DT20-DT2-DT1, and HHZ12-SAL2-Y3-Y2) were the winning and best ones. The above three genotypes in the proposed variety trial showed significantly higher yields than the respective check varieties, high salinity tolerance ability, and good grain quality parameters. Among them, HHZ5-DT20-DT2-DT1 and IR83484-3-B-7-1-1-1 harbored eight and four QTL/genes that regulate the valuable traits revealed through 20 SNP genotyping. Finally, two genotypes IR83484-3-B-7-1-1-1 and HHZ5-DT20-DT2-DT1 were released as high salinity-tolerant rice varieties BRRI dhan97 and BRRI dhan99, respectively in Bangladesh for commercial cultivation for sustaining food security and sustainability.
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Affiliation(s)
- Sanjoy K. Debsharma
- Plant Breeding Division, Bangladesh Rice Research Institute, Gazipur,
Bangladesh
| | - M. Akhlasur Rahman
- Plant Breeding Division, Bangladesh Rice Research Institute, Gazipur,
Bangladesh
| | - Mahmuda Khatun
- Plant Breeding Division, Bangladesh Rice Research Institute, Gazipur,
Bangladesh
| | - Ribed F. Disha
- Plant Breeding Division, Bangladesh Rice Research Institute, Gazipur,
Bangladesh
| | - Nusrat Jahan
- Plant Breeding Division, Bangladesh Rice Research Institute, Gazipur,
Bangladesh
| | - Md. Ruhul Quddus
- Hybrid Rice Division, Bangladesh Rice Research Institute, Gazipur,
Bangladesh
| | - Hasina Khatun
- Plant Breeding Division, Bangladesh Rice Research Institute, Gazipur,
Bangladesh
| | - Sharifa S. Dipti
- Grain Quality and Nutrition Division, Bangladesh Rice Research Institute,
Gazipur, Bangladesh
| | - Md. Ibrahim
- Rice Farming System Division, Bangladesh Rice Research Institute,
Gazipur, Bangladesh
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Chaudhary MT, Majeed S, Rana IA, Ali Z, Jia Y, Du X, Hinze L, Azhar MT. Impact of salinity stress on cotton and opportunities for improvement through conventional and biotechnological approaches. BMC PLANT BIOLOGY 2024; 24:20. [PMID: 38166652 PMCID: PMC10759391 DOI: 10.1186/s12870-023-04558-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Accepted: 10/24/2023] [Indexed: 01/05/2024]
Abstract
Excess salinity can affect the growth and development of all plants. Salinization jeopardizes agroecosystems, induces oxidative reactions in most cultivated plants and reduces biomass which affects crop yield. Some plants are affected more than others, depending upon their ability to endure the effects of salt stress. Cotton is moderately tolerant to salt stress among cultivated crops. The fundamental tenet of plant breeding is genetic heterogeneity in available germplasm for acquired characteristics. Variation for salinity tolerance enhancing parameters (morphological, physiological and biochemical) is a pre-requisite for the development of salt tolerant cotton germplasm followed by indirect selection or hybridization programs. There has been a limited success in the development of salt tolerant genotypes because this trait depends on several factors, and these factors as well as their interactions are not completely understood. However, advances in biochemical and molecular techniques have made it possible to explore the complexity of salt tolerance through transcriptomic profiling. The focus of this article is to discuss the issue of salt stress in crop plants, how it alters the physiology and morphology of the cotton crop, and breeding strategies for the development of salinity tolerance in cotton germplasm.
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Affiliation(s)
| | - Sajid Majeed
- Federal Seed Certification and Registration Department, Ministry of National Food Security and Research, Islamabad, 44090, Pakistan
| | - Iqrar Ahmad Rana
- Center of Agricultural Biochemistry and Biotechnology/Centre of Advanced Studies in Agriculture and Food Security, University of Agriculture, Faisalabad, 38040, Pakistan
| | - Zulfiqar Ali
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad, 38040, Pakistan
| | - Yinhua Jia
- State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang, 455000, China
| | - Xiongming Du
- State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang, 455000, China
| | - Lori Hinze
- US Department of Agriculture, Southern Plains Agricultural Research Center, College Station, TX, 77845, USA
| | - Muhammad Tehseen Azhar
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad, 38040, Pakistan.
- School of Agriculture Sciences, Zhengzhou University, Zhengzhou, 450000, China.
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5
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Zhang Z, Wang L, Chen W, Fu Z, Zhao S, E Y, Zhang H, Zhang B, Sun M, Han P, Chang Y, Tang K, Gao Y, Zhang H, Li X, Zheng W. Integration of mRNA and miRNA analysis reveals the molecular mechanisms of sugar beet (Beta vulgaris L.) response to salt stress. Sci Rep 2023; 13:22074. [PMID: 38086906 PMCID: PMC10716384 DOI: 10.1038/s41598-023-49641-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2023] [Accepted: 12/10/2023] [Indexed: 12/18/2023] Open
Abstract
The continuous increase of saline-alkali areas worldwide has led to the emergence of saline-alkali conditions, which are the primary abiotic stress or hindering the growth of plants. Beet is among the main sources of sugar, and its yield and sugar content are notably affected by saline-alkali stress. Despite sugar beet being known as a salt-tolerant crop, there are few studies on the mechanisms underlying its salt tolerance, and previous studies have mainly delineated the crop's response to stress induced by NaCl. Recently, advancements in miRNA-mRNA network analysis have led to an increased understanding of how plants, including sugar beet, respond to stress. In this study, seedlings of beet variety "N98122" were grown in the laboratory using hydroponics culture and were exposed to salt stress at 40 days of growth. According to the phenotypic adaptation of the seedlings' leaves from a state of turgidity to wilting and then back to turgidity before and after exposure, 18 different time points were selected to collect samples for analysis. Subsequently, based on the data of real-time quantitative PCR (qRT-PCR) of salt-responsive genes, the samples collected at the 0, 2.5, 7.5, and 16 h time points were subjected to further analysis with experimental materials. Next, mRNA-seq data led to the identification of 8455 differentially expressed mRNAs (DEMs) under exposure to salt stress. In addition, miRNA-seq based investigation retrieved 3558 miRNAs under exposure to salt stress, encompassing 887 known miRNAs belonging to 783 families and 2,671 novel miRNAs. With the integrated analysis of miRNA-mRNA network, 57 miRNA-target gene pairs were obtained, consisting of 55 DEMIs and 57 DEMs. Afterwards, we determined the pivotal involvement of aldh2b7, thic, and δ-oat genes in the response of sugar beet to the effect of salt stress. Subsequently, we identified the miRNAs novel-m035-5p and novel-m0365-5p regulating the aldh gene and miRNA novel-m0979-3p regulating the thic gene. The findings of miRNA and mRNA expression were validated by qRT-PCR.
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Affiliation(s)
- Ziqiang Zhang
- Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Liang Wang
- Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Wenjin Chen
- Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Zengjuan Fu
- Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Shangmin Zhao
- Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Yuanyuan E
- Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Hui Zhang
- Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Bizhou Zhang
- Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Mengyuan Sun
- Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Pingan Han
- Inner Mongolia Key Laboratory of Sugar Beet Genetics and Germplasm Enhancement, Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Yue Chang
- Inner Mongolia Key Laboratory of Sugar Beet Genetics and Germplasm Enhancement, Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Kuangang Tang
- Inner Mongolia Key Laboratory of Sugar Beet Genetics and Germplasm Enhancement, Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Yanyan Gao
- Linxi County Agriculture and Animal Husbandry Bureau, Chifeng, 025250, China
| | - Huizhong Zhang
- Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China
| | - Xiaodong Li
- Inner Mongolia Key Laboratory of Sugar Beet Genetics and Germplasm Enhancement, Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China.
| | - Wenzhe Zheng
- Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences, Hohhot, 010031, China.
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Thanthrige N, Weston-Olliver G, Das Bhowmik S, Friedl J, Rowlings D, Kabbage M, Ferguson BJ, Mundree S, Williams B. The cytoprotective co-chaperone, AtBAG4, supports increased nodulation and seed protein content in chickpea without yield penalty. Sci Rep 2023; 13:18553. [PMID: 37899486 PMCID: PMC10613627 DOI: 10.1038/s41598-023-45771-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2023] [Accepted: 10/24/2023] [Indexed: 10/31/2023] Open
Abstract
Drought and extreme temperatures significantly limit chickpea productivity worldwide. The regulation of plant programmed cell death pathways is emerging as a key component of plant stress responses to maintain homeostasis at the cellular-level and a potential target for crop improvement against environmental stresses. Arabidopsis thaliana Bcl-2 associated athanogene 4 (AtBAG4) is a cytoprotective co-chaperone that is linked to plant responses to environmental stress. Here, we investigate whether exogenous expression of AtBAG4 impacts nodulation and nitrogen fixation. Transgenic chickpea lines expressing AtBAG4 are more drought tolerant and produce higher yields under drought stress. Furthermore, AtBAG4 expression supports higher nodulation, photosynthetic levels, nitrogen fixation and seed nitrogen content under well-watered conditions when the plants were inoculated with Mesorhizobium ciceri. Together, our findings illustrate the potential use of cytoprotective chaperones to improve crop performance at least in the greenhouse in future uncertain climates with little to no risk to yield under well-watered and water-deficient conditions.
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Affiliation(s)
- Nipuni Thanthrige
- Centre for Agriculture and the Bioeconomy, Queensland University of Technology, Brisbane, QLD, Australia
- School of Biology and Environmental Science, Queensland University of Technology, Brisbane, QLD, Australia
| | - Grace Weston-Olliver
- Centre for Agriculture and the Bioeconomy, Queensland University of Technology, Brisbane, QLD, Australia
| | - Sudipta Das Bhowmik
- Centre for Agriculture and the Bioeconomy, Queensland University of Technology, Brisbane, QLD, Australia
| | - Johannes Friedl
- Centre for Agriculture and the Bioeconomy, Queensland University of Technology, Brisbane, QLD, Australia
- Department of Forest and Soil Sciences, Institute of Soil Research, University of Natural Resources and Life Sciences Vienna, Vienna, Austria
| | - David Rowlings
- Centre for Agriculture and the Bioeconomy, Queensland University of Technology, Brisbane, QLD, Australia
| | - Mehdi Kabbage
- Department of Plant Pathology, University of Wisconsin-Madison, Madison, WI, USA
| | - Brett J Ferguson
- School of Agriculture and Food Sciences, University of Queensland, Brisbane, QLD, Australia
| | - Sagadevan Mundree
- Centre for Agriculture and the Bioeconomy, Queensland University of Technology, Brisbane, QLD, Australia
- School of Biology and Environmental Science, Queensland University of Technology, Brisbane, QLD, Australia
| | - Brett Williams
- Centre for Agriculture and the Bioeconomy, Queensland University of Technology, Brisbane, QLD, Australia.
- School of Biology and Environmental Science, Queensland University of Technology, Brisbane, QLD, Australia.
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7
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Hafeez A, Ali B, Javed MA, Saleem A, Fatima M, Fathi A, Afridi MS, Aydin V, Oral MA, Soudy FA. Plant breeding for harmony between sustainable agriculture, the environment, and global food security: an era of genomics-assisted breeding. PLANTA 2023; 258:97. [PMID: 37823963 DOI: 10.1007/s00425-023-04252-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2023] [Accepted: 09/22/2023] [Indexed: 10/13/2023]
Abstract
MAIN CONCLUSION Genomics-assisted breeding represents a crucial frontier in enhancing the balance between sustainable agriculture, environmental preservation, and global food security. Its precision and efficiency hold the promise of developing resilient crops, reducing resource utilization, and safeguarding biodiversity, ultimately fostering a more sustainable and secure food production system. Agriculture has been seriously threatened over the last 40 years by climate changes that menace global nutrition and food security. Changes in environmental factors like drought, salt concentration, heavy rainfalls, and extremely low or high temperatures can have a detrimental effects on plant development, growth, and yield. Extreme poverty and increasing food demand necessitate the need to break the existing production barriers in several crops. The first decade of twenty-first century marks the rapid development in the discovery of new plant breeding technologies. In contrast, in the second decade, the focus turned to extracting information from massive genomic frameworks, speculating gene-to-phenotype associations, and producing resilient crops. In this review, we will encompass the causes, effects of abiotic stresses and how they can be addressed using plant breeding technologies. Both conventional and modern breeding technologies will be highlighted. Moreover, the challenges like the commercialization of biotechnological products faced by proponents and developers will also be accentuated. The crux of this review is to mention the available breeding technologies that can deliver crops with high nutrition and climate resilience for sustainable agriculture.
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Affiliation(s)
- Aqsa Hafeez
- Department of Plant Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Baber Ali
- Department of Plant Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan.
| | - Muhammad Ammar Javed
- Institute of Industrial Biotechnology, Government College University, Lahore, 54000, Pakistan
| | - Aroona Saleem
- Institute of Industrial Biotechnology, Government College University, Lahore, 54000, Pakistan
| | - Mahreen Fatima
- Faculty of Biosciences, Cholistan University of Veterinary and Animal Sciences, Bahawalpur, 63100, Pakistan
| | - Amin Fathi
- Department of Agronomy, Ayatollah Amoli Branch, Islamic Azad University, Amol, 46151, Iran
| | - Muhammad Siddique Afridi
- Department of Plant Pathology, Federal University of Lavras (UFLA), Lavras, MG, 37200-900, Brazil
| | - Veysel Aydin
- Sason Vocational School, Department of Plant and Animal Production, Batman University, Batman, 72060, Turkey
| | - Mükerrem Atalay Oral
- Elmalı Vocational School of Higher Education, Akdeniz University, Antalya, 07058, Turkey
| | - Fathia A Soudy
- Genetics and Genetic Engineering Department, Faculty of Agriculture, Benha University, Moshtohor, 13736, Egypt
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8
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Zhang R, Dong Y, Li Y, Ren G, Chen C, Jin X. SLs signal transduction gene CsMAX2 of cucumber positively regulated to salt, drought and ABA stress in Arabidopsis thaliana L. Gene 2023; 864:147282. [PMID: 36822526 DOI: 10.1016/j.gene.2023.147282] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2022] [Revised: 01/09/2023] [Accepted: 02/08/2023] [Indexed: 02/23/2023]
Abstract
Recent studies have demonstrated that strigolactones (SLs) participate in the regulation of stress adaptation, however, the mechanisms remain elusive. MAX2 (MORE AXILLARY GROWTH2) is the key gene in the signal transduction pathway of SLs. This study aimed to clone and functionally characterize the CsMAX2 gene of cucumber in Arabidopsis. The results showed that the expression levels of the CsMAX2 gene changed significantly after salt, drought, and ABA stresses in cucumber. Moreover, the overexpression of CsMAX2 promoted stress tolerance and increased the germination rate and root length of Arabidopsis thaliana. Meanwhile, the content of chlorophyll increased and malondialdehyde decreased in CsMAX2 OE lines under salt and drought stresses. Additionally, the expression levels of stress-related marker genes, especially AREB1 and COR15A, were significantly upregulated under salt stress, while the expression levels of all genes were upregulated under drought stress, except ABI4 and ABI5 genes. The level of NCED3 continued to rise under both salt and drought stresses. In addition, D10 and D27 gene expression level also showed a continuous increase under ABA stress. The result suggested the interaction between SL and ABA in the process of adapting to stress. Overall, CsMAX2 could positively regulate salt, drought, and ABA stress resistance, and this process correlated with ABA transduction.
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Affiliation(s)
- Runming Zhang
- College of Life Science and Technology, Harbin Normal University, Harbin, China
| | - Yanlong Dong
- College of Life Science and Technology, Harbin Normal University, Harbin, China; Horticulture Branch, Heilongjiang Academy of Agricultural Sciences, Harbin, China
| | - Yuanyuan Li
- College of Life Science and Technology, Harbin Normal University, Harbin, China
| | - Guangyue Ren
- College of Life Science and Technology, Harbin Normal University, Harbin, China
| | - Chao Chen
- College of Life Science and Technology, Harbin Normal University, Harbin, China
| | - Xiaoxia Jin
- College of Life Science and Technology, Harbin Normal University, Harbin, China.
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9
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Lu K, Li C, Guan J, Liang WH, Chen T, Zhao QY, Zhu Z, Yao S, He L, Wei XD, Zhao L, Zhou LH, Zhao CF, Wang CL, Zhang YD. The PPR-Domain Protein SOAR1 Regulates Salt Tolerance in Rice. RICE (NEW YORK, N.Y.) 2022; 15:62. [PMID: 36463341 PMCID: PMC9719575 DOI: 10.1186/s12284-022-00608-x] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/30/2022] [Accepted: 11/27/2022] [Indexed: 06/17/2023]
Abstract
Previous studies in Arabidopsis reported that the PPR protein SOAR1 plays critical roles in plant response to salt stress. In this study, we reported that expression of the Arabidopsis SOAR1 (AtSOAR1) in rice significantly enhanced salt tolerance at seedling growth stage and promoted grain productivity under salt stress without affecting plant productivity under non-stressful conditions. The transgenic rice lines expressing AtSOAR1 exhibited increased ABA sensitivity in ABA-induced inhibition of seedling growth, and showed altered transcription and splicing of numerous genes associated with salt stress, which may explain salt tolerance of the transgenic plants. Further, we overexpressed the homologous gene of SOAR1 in rice, OsSOAR1, and showed that transgenic plants overexpressing OsSOAR1 enhanced salt tolerance at seedling growth stage. Five salt- and other abiotic stress-induced SOAR1-like PPRs were also identified. These data showed that the SOAR1-like PPR proteins are positively involved in plant response to salt stress and may be used for crop improvement in rice under salinity conditions through transgenic manipulation.
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Affiliation(s)
- Kai Lu
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Cheng Li
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Ju Guan
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Wen-Hua Liang
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Tao Chen
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Qing-Yong Zhao
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Zhen Zhu
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Shu Yao
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Lei He
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Xiao-Dong Wei
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Ling Zhao
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Li-Hui Zhou
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Chun-Fang Zhao
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Cai-Lin Wang
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China
| | - Ya-Dong Zhang
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Jiangsu High Quality Rice Research and Development Center, Nanjing Branch of China National Center for Rice Improvement, 210014, Nanjing, China.
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Rakkammal K, Priya A, Pandian S, Maharajan T, Rathinapriya P, Satish L, Ceasar SA, Sohn SI, Ramesh M. Conventional and Omics Approaches for Understanding the Abiotic Stress Response in Cereal Crops-An Updated Overview. PLANTS (BASEL, SWITZERLAND) 2022; 11:plants11212852. [PMID: 36365305 PMCID: PMC9655223 DOI: 10.3390/plants11212852] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2022] [Revised: 10/19/2022] [Accepted: 10/22/2022] [Indexed: 05/22/2023]
Abstract
Cereals have evolved various tolerance mechanisms to cope with abiotic stress. Understanding the abiotic stress response mechanism of cereal crops at the molecular level offers a path to high-yielding and stress-tolerant cultivars to sustain food and nutritional security. In this regard, enormous progress has been made in the omics field in the areas of genomics, transcriptomics, and proteomics. Omics approaches generate a massive amount of data, and adequate advancements in computational tools have been achieved for effective analysis. The combination of integrated omics and bioinformatics approaches has been recognized as vital to generating insights into genome-wide stress-regulation mechanisms. In this review, we have described the self-driven drought, heat, and salt stress-responsive mechanisms that are highlighted by the integration of stress-manipulating components, including transcription factors, co-expressed genes, proteins, etc. This review also provides a comprehensive catalog of available online omics resources for cereal crops and their effective utilization. Thus, the details provided in the review will enable us to choose the appropriate tools and techniques to reduce the negative impacts and limit the failures in the intensive crop improvement study.
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Affiliation(s)
- Kasinathan Rakkammal
- Department of Biotechnology, Science Campus, Alagappa University, Karaikudi 630003, Tamil Nadu, India
| | - Arumugam Priya
- Department of Biological Sciences, North Carolina State University, Raleigh, NC 27606, USA
| | - Subramani Pandian
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration, Jeonju 54874, Korea
| | - Theivanayagam Maharajan
- Department of Biosciences, Rajagiri College of Social Sciences, Cochin 683104, Kerala, India
| | - Periyasamy Rathinapriya
- Department of Biotechnology, Science Campus, Alagappa University, Karaikudi 630003, Tamil Nadu, India
| | - Lakkakula Satish
- Applied Phycology and Biotechnology Division, Marine Algal Research Station, Mandapam Camp, CSIR—Central Salt and Marine Chemicals Research Institute, Bhavnagar 623519, Tamil Nadu, India
| | | | - Soo-In Sohn
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration, Jeonju 54874, Korea
| | - Manikandan Ramesh
- Department of Biotechnology, Science Campus, Alagappa University, Karaikudi 630003, Tamil Nadu, India
- Correspondence:
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11
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Wang X, Hu Y, He W, Yu K, Zhang C, Li Y, Yang W, Sun J, Li X, Zheng F, Zhou S, Kong L, Ling H, Zhao S, Liu D, Zhang A. Whole-genome resequencing of the wheat A subgenome progenitor Triticum urartu provides insights into its demographic history and geographic adaptation. PLANT COMMUNICATIONS 2022; 3:100345. [PMID: 35655430 PMCID: PMC9483109 DOI: 10.1016/j.xplc.2022.100345] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/02/2022] [Revised: 04/23/2022] [Accepted: 05/30/2022] [Indexed: 01/17/2023]
Abstract
Triticum urartu is the progenitor of the A subgenome in tetraploid and hexaploid wheat. Uncovering the landscape of genetic variations in T. urartu will help us understand the evolutionary and polyploid characteristics of wheat. Here, we investigated the population genomics of T. urartu by genome-wide sequencing of 59 representative accessions collected around the world. A total of 42.2 million high-quality single-nucleotide polymorphisms and 3 million insertions and deletions were obtained by mapping reads to the reference genome. The ancient T. urartu population experienced a significant reduction in effective population size (Ne) from ∼3 000 000 to ∼140 000 and subsequently split into eastern Mediterranean coastal and Mesopotamian-Transcaucasian populations during the Younger Dryas period. A map of allelic drift paths displayed splits and mixtures between different geographic groups, and a strong genetic drift towards hexaploid wheat was also observed, indicating that the direct donor of the A subgenome originated from northwestern Syria. Genetic changes were revealed between the eastern Mediterranean coastal and Mesopotamian-Transcaucasian populations in genes orthologous to those regulating plant development and stress responses. A genome-wide association study identified two single-nucleotide polymorphisms in the exonic regions of the SEMI-DWARF 37 ortholog that corresponded to the different T. urartu ecotype groups. Our study provides novel insights into the origin and genetic legacy of the A subgenome in polyploid wheat and contributes a gene repertoire for genomics-enabled improvements in wheat breeding.
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Affiliation(s)
- Xin Wang
- State Key Laboratory of Plant Cell and Chromosome Engineering, National Center for Plant Gene Research, Institute of Genetics and Developmental Biology/Innovation Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China; Institute of Vegetables, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China
| | - Yafei Hu
- BGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China
| | - Weiming He
- BGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China
| | - Kang Yu
- BGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China; BGI Institute of Applied Agriculture, BGI-Agro, Shenzhen, 518120, China
| | - Chi Zhang
- BGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China
| | - Yiwen Li
- State Key Laboratory of Plant Cell and Chromosome Engineering, National Center for Plant Gene Research, Institute of Genetics and Developmental Biology/Innovation Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Wenlong Yang
- State Key Laboratory of Plant Cell and Chromosome Engineering, National Center for Plant Gene Research, Institute of Genetics and Developmental Biology/Innovation Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Jiazhu Sun
- State Key Laboratory of Plant Cell and Chromosome Engineering, National Center for Plant Gene Research, Institute of Genetics and Developmental Biology/Innovation Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Xin Li
- State Key Laboratory of Plant Cell and Chromosome Engineering, National Center for Plant Gene Research, Institute of Genetics and Developmental Biology/Innovation Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Fengya Zheng
- BGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China
| | - Shengjun Zhou
- Institute of Vegetables, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China
| | - Lingrang Kong
- State Key Laboratory of Crop Biology, Shandong Key Laboratory of Crop Biology, College of Agronomy, Shandong Agricultural University, Tai'an, 271018, China
| | - Hongqing Ling
- State Key Laboratory of Plant Cell and Chromosome Engineering, National Center for Plant Gene Research, Institute of Genetics and Developmental Biology/Innovation Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Shancen Zhao
- BGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China; BGI Institute of Applied Agriculture, BGI-Agro, Shenzhen, 518120, China.
| | - Dongcheng Liu
- State Key Laboratory of North China Crop Improvement and Regulation, College of Agronomy, Hebei Agricultural University, Baoding, 071001, China.
| | - Aimin Zhang
- State Key Laboratory of Plant Cell and Chromosome Engineering, National Center for Plant Gene Research, Institute of Genetics and Developmental Biology/Innovation Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China; State Key Laboratory of North China Crop Improvement and Regulation, College of Agronomy, Hebei Agricultural University, Baoding, 071001, China.
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12
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Bapela T, Shimelis H, Tsilo TJ, Mathew I. Genetic Improvement of Wheat for Drought Tolerance: Progress, Challenges and Opportunities. PLANTS (BASEL, SWITZERLAND) 2022; 11:1331. [PMID: 35631756 PMCID: PMC9144332 DOI: 10.3390/plants11101331] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2022] [Revised: 04/27/2022] [Accepted: 05/04/2022] [Indexed: 06/01/2023]
Abstract
Wheat production and productivity are challenged by recurrent droughts associated with climate change globally. Drought and heat stress resilient cultivars can alleviate yield loss in marginal production agro-ecologies. The ability of some crop genotypes to thrive and yield in drought conditions is attributable to the inherent genetic variation and environmental adaptation, presenting opportunities to develop drought-tolerant varieties. Understanding the underlying genetic, physiological, biochemical, and environmental mechanisms and their interactions is key critical opportunity for drought tolerance improvement. Therefore, the objective of this review is to document the progress, challenges, and opportunities in breeding for drought tolerance in wheat. The paper outlines the following key aspects: (1) challenges associated with breeding for adaptation to drought-prone environments, (2) opportunities such as genetic variation in wheat for drought tolerance, selection methods, the interplay between above-ground phenotypic traits and root attributes in drought adaptation and drought-responsive attributes and (3) approaches, technologies and innovations in drought tolerance breeding. In the end, the paper summarises genetic gains and perspectives in drought tolerance breeding in wheat. The review will serve as baseline information for wheat breeders and agronomists to guide the development and deployment of drought-adapted and high-performing new-generation wheat varieties.
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Affiliation(s)
- Theresa Bapela
- African Centre for Crop Improvement, University of Kwa-Zulu Natal, Private Bag X01, Scottsville, Pietermaritzburg 3209, South Africa; (H.S.); (I.M.)
- Agricultural Research Council—Small Grain, Bethlehem 9700, South Africa;
| | - Hussein Shimelis
- African Centre for Crop Improvement, University of Kwa-Zulu Natal, Private Bag X01, Scottsville, Pietermaritzburg 3209, South Africa; (H.S.); (I.M.)
| | - Toi John Tsilo
- Agricultural Research Council—Small Grain, Bethlehem 9700, South Africa;
| | - Isack Mathew
- African Centre for Crop Improvement, University of Kwa-Zulu Natal, Private Bag X01, Scottsville, Pietermaritzburg 3209, South Africa; (H.S.); (I.M.)
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Wang X, Li J, Sun J, Gu S, Wang J, Su C, Li Y, Ma D, Zhao M, Chen W. Mining Beneficial Genes for Salt Tolerance From a Core Collection of Rice Landraces at the Seedling Stage Through Genome-Wide Association Mapping. FRONTIERS IN PLANT SCIENCE 2022; 13:847863. [PMID: 35557725 PMCID: PMC9087808 DOI: 10.3389/fpls.2022.847863] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/03/2022] [Accepted: 04/08/2022] [Indexed: 06/15/2023]
Abstract
Rice is a salt-sensitive plant. High concentration of salt will hinder the absorption of water and nutrients and ultimately affect the yield. In this study, eight seedling-stage salt-related traits within a core collection of rice landraces were evaluated under salinity stress (100 mM NaCl) and normal conditions in a growth chamber. Genome-wide association study (GWAS) was performed with the genotypic data including 2,487,353 single-nucleotide polymorphisms (SNPs) detected in the core collection. A total of 65 QTLs significantly associated with salt tolerance (ST) were identified by GWAS. Among them, a co-localization QTL qTL4 associated with the SKC, RN/K, and SNC on chromosome 6, which explained 14.38-17.94% of phenotypic variation, was selected for further analysis. According to haplotype analysis, qRT-PCR analysis, and sequence alignment, it was finally determined that 4 candidate genes (LOC_Os06g47720, LOC_Os06g47820, LOC_Os06g47850, LOC_Os06g47970) were related to ST. The results provide useful candidate genes for marker assisted selection for ST in the rice molecular breeding programs.
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Affiliation(s)
- Xiaoliang Wang
- Rice Research Institute, Shenyang Agricultural University, Shenyang, China
| | - Jinquan Li
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou, China
- Strube Research GmbH & Co. KG, Söllingen, Germany
| | - Jian Sun
- Rice Research Institute, Shenyang Agricultural University, Shenyang, China
| | - Shuang Gu
- Rice Research Institute, Shenyang Agricultural University, Shenyang, China
| | - Jingbo Wang
- Rice Research Institute, Shenyang Agricultural University, Shenyang, China
| | - Chang Su
- Rice Research Institute, Shenyang Agricultural University, Shenyang, China
| | - Yueting Li
- Rice Research Institute, Shenyang Agricultural University, Shenyang, China
| | - Dianrong Ma
- Rice Research Institute, Shenyang Agricultural University, Shenyang, China
| | - Minghui Zhao
- Rice Research Institute, Shenyang Agricultural University, Shenyang, China
| | - Wenfu Chen
- Rice Research Institute, Shenyang Agricultural University, Shenyang, China
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14
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Jež-Krebelj A, Rupnik-Cigoj M, Stele M, Chersicola M, Pompe-Novak M, Sivilotti P. The Physiological Impact of GFLV Virus Infection on Grapevine Water Status: First Observations. PLANTS (BASEL, SWITZERLAND) 2022; 11:plants11020161. [PMID: 35050050 PMCID: PMC8780503 DOI: 10.3390/plants11020161] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2021] [Revised: 01/04/2022] [Accepted: 01/05/2022] [Indexed: 05/06/2023]
Abstract
In a vineyard, grapevines are simultaneously exposed to combinations of several abiotic (drought, extreme temperatures, salinity) and biotic stresses (phytoplasmas, viruses, bacteria). With climate change, the incidences of drought in vine growing regions are increased and the host range of pathogens with increased chances of virulent strain development has expanded. Therefore, we studied the impact of the combination of abiotic (drought) and biotic (Grapevine fanleaf virus (GFLV) infection) stress on physiological and molecular responses on the grapevine of cv. Schioppettino by studying the influence of drought and GFLV infection on plant water status of grapevines, on grapevine xylem vessel occlusion, and on expression patterns of 9-cis-epoxycarotenoid dioxygenase 1 (NCED1), 9-cis-epoxycarotenoid dioxygenase 2 (NCED2), WRKY encoding transcription factor (WRKY54) and RD22-like protein (RD22) genes in grapevines. A complex response of grapevine to the combination of drought and GFLV infection was shown, including priming in the case of grapevine water status, net effect in the case of area of occluded vessels in xylem, and different types of interaction of both stresses in the case of expression of four abscisic acid-related genes. Our results showed that mild (but not severe) water stress can be better sustained by GFLV infection rather than by healthy vines. GFLV proved to improve the resilience of the plants to water stress, which is an important outcome to cope with the challenges of global warming.
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Affiliation(s)
- Anastazija Jež-Krebelj
- School for Viticulture and Enology, University of Nova Gorica (UNG), Glavni trg 8, 5271 Nova Gorica, Slovenia; (M.R.-C.); (M.P.-N.); (P.S.)
- Department of Biotechnology and Systems Biology, National Institute of Biology (NIB), Večna Pot 111, 1000 Ljubljana, Slovenia; (M.S.); (M.C.)
- Regional Development Agency of Northern Primorska Ltd. Nova Gorica (RRA SP), Trg Edvarda Kardelja 3, 5000 Nova Gorica, Slovenia
- Department of Fruit Growing, Viticulture and Oenology, Agricultural Institute of Slovenia (KIS), Hacquetova Ulica 17, 1000 Ljubljana, Slovenia
- Correspondence:
| | - Maja Rupnik-Cigoj
- School for Viticulture and Enology, University of Nova Gorica (UNG), Glavni trg 8, 5271 Nova Gorica, Slovenia; (M.R.-C.); (M.P.-N.); (P.S.)
- Department of Biotechnology and Systems Biology, National Institute of Biology (NIB), Večna Pot 111, 1000 Ljubljana, Slovenia; (M.S.); (M.C.)
- Regional Development Agency of Northern Primorska Ltd. Nova Gorica (RRA SP), Trg Edvarda Kardelja 3, 5000 Nova Gorica, Slovenia
| | - Marija Stele
- Department of Biotechnology and Systems Biology, National Institute of Biology (NIB), Večna Pot 111, 1000 Ljubljana, Slovenia; (M.S.); (M.C.)
| | - Marko Chersicola
- Department of Biotechnology and Systems Biology, National Institute of Biology (NIB), Večna Pot 111, 1000 Ljubljana, Slovenia; (M.S.); (M.C.)
| | - Maruša Pompe-Novak
- School for Viticulture and Enology, University of Nova Gorica (UNG), Glavni trg 8, 5271 Nova Gorica, Slovenia; (M.R.-C.); (M.P.-N.); (P.S.)
- Department of Biotechnology and Systems Biology, National Institute of Biology (NIB), Večna Pot 111, 1000 Ljubljana, Slovenia; (M.S.); (M.C.)
| | - Paolo Sivilotti
- School for Viticulture and Enology, University of Nova Gorica (UNG), Glavni trg 8, 5271 Nova Gorica, Slovenia; (M.R.-C.); (M.P.-N.); (P.S.)
- Department of AgriFood, Environmental and Animal Sciences, University of Udine, Via Palladio 8, 33100 Udine, Italy
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15
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Dwivedi P, Ramawat N, Raju D, Dhawan G, Gopala Krishnan S, Chinnusamy V, Bhowmick PK, Vinod KK, Pal M, Nagarajan M, Ellur RK, Bollinedi H, Singh AK. Drought Tolerant Near Isogenic Lines of Pusa 44 Pyramided With qDTY2.1 and qDTY3.1, Show Accelerated Recovery Response in a High Throughput Phenomics Based Phenotyping. FRONTIERS IN PLANT SCIENCE 2022; 12:752730. [PMID: 35069617 PMCID: PMC8767905 DOI: 10.3389/fpls.2021.752730] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/03/2021] [Accepted: 11/15/2021] [Indexed: 06/14/2023]
Abstract
Reproductive stage drought stress (RSDS) is a major challenge in rice production worldwide. Cultivar development with drought tolerance has been slow due to the lack of precise high throughput phenotyping tools to quantify drought stress-induced effects. Most of the available techniques are based on destructive sampling and do not assess the progress of the plant's response to drought. In this study, we have used state-of-the-art image-based phenotyping in a phenomics platform that offers a controlled environment, non-invasive phenotyping, high accuracy, speed, and continuity. In rice, several quantitative trait loci (QTLs) which govern grain yield under drought determine RSDS tolerance. Among these, qDTY2.1 and qDTY3.1 were used for marker-assisted breeding. A set of 35 near-isogenic lines (NILs), introgressed with these QTLs in the popular variety, Pusa 44 were used to assess the efficiency of image-based phenotyping for RSDS tolerance. NILs offered the most reliable contrast since they differed from Pusa 44 only for the QTLs. Four traits, namely, the projected shoot area (PSA), water use (WU), transpiration rate (TR), and red-green-blue (RGB) and near-infrared (NIR) values were used. Differential temporal responses could be seen under drought, but not under unstressed conditions. NILs showed significant level of RSDS tolerance as compared to Pusa 44. Among the traits, PSA showed strong association with yield (80%) as well as with two drought tolerances indices, stress susceptibility index (SSI) and tolerance index (TOL), establishing its ability in identifying the best drought tolerant NILs. The results revealed that the introgression of QTLs helped minimize the mean WU per unit of biomass per day, suggesting the potential role of these QTLs in improving WU-efficiency (WUE). We identified 11 NILs based on phenomics traits as well as performance under imposed drought in the field. The study emphasizes the use of phenomics traits as selection criteria for RSDS tolerance at an early stage, and is the first report of using phenomics parameters in RSDS selection in rice.
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Affiliation(s)
- Priyanka Dwivedi
- Division of Genetics, ICAR-Indian Agricultural Research Institute (ICAR-IARI), New Delhi, India
| | - Naleeni Ramawat
- Amity Institute of Organic Agriculture, Amity University, Noida, India
| | - Dhandapani Raju
- Nanaji Deshmukh Plant Phenomics Centre, ICAR-IARI, New Delhi, India
- Division of Plant Physiology, ICAR-IARI, New Delhi, India
| | - Gaurav Dhawan
- Division of Genetics, ICAR-Indian Agricultural Research Institute (ICAR-IARI), New Delhi, India
| | - S. Gopala Krishnan
- Division of Genetics, ICAR-Indian Agricultural Research Institute (ICAR-IARI), New Delhi, India
| | - Viswanathan Chinnusamy
- Nanaji Deshmukh Plant Phenomics Centre, ICAR-IARI, New Delhi, India
- Division of Plant Physiology, ICAR-IARI, New Delhi, India
| | - Prolay Kumar Bhowmick
- Division of Genetics, ICAR-Indian Agricultural Research Institute (ICAR-IARI), New Delhi, India
| | - K. K. Vinod
- Division of Genetics, ICAR-Indian Agricultural Research Institute (ICAR-IARI), New Delhi, India
| | - Madan Pal
- Division of Plant Physiology, ICAR-IARI, New Delhi, India
| | | | - Ranjith Kumar Ellur
- Division of Genetics, ICAR-Indian Agricultural Research Institute (ICAR-IARI), New Delhi, India
| | - Haritha Bollinedi
- Division of Genetics, ICAR-Indian Agricultural Research Institute (ICAR-IARI), New Delhi, India
| | - Ashok K. Singh
- Division of Genetics, ICAR-Indian Agricultural Research Institute (ICAR-IARI), New Delhi, India
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16
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Chaudhry S, Sidhu GPS. Climate change regulated abiotic stress mechanisms in plants: a comprehensive review. PLANT CELL REPORTS 2022; 41:1-31. [PMID: 34351488 DOI: 10.1007/s00299-021-02759-5] [Citation(s) in RCA: 104] [Impact Index Per Article: 52.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2021] [Accepted: 07/18/2021] [Indexed: 05/20/2023]
Abstract
Global climate change is identified as a major threat to survival of natural ecosystems. Climate change is a dynamic, multifaceted system of alterations in environmental conditions that affect abiotic and biotic components of the world. It results in alteration in environmental conditions such as heat waves, intensity of rainfall, CO2 concentration and temperature that lead to rise in new pests, weeds and pathogens. Climate change is one of the major constraints limiting plant growth and development worldwide. It impairs growth, disturbs photosynthesis, and reduces physiological responses in plants. The variations in global climate have gained the attention of researchers worldwide, as these changes negatively affect the agriculture by reducing crop productivity and food security. With this background, this review focuses on the effects of elevated atmospheric CO2 concentration, temperature, drought and salinity on the morphology, physiology and biochemistry of plants. Furthermore, this paper outlines an overview on the reactive oxygen species (ROS) production and their impact on the biochemical and molecular status of plants with increased climatic variations. Also additionally, different tolerance strategies adopted by plants to combat environmental adversities have been discussed.
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Affiliation(s)
- Smita Chaudhry
- Institute of Environmental Studies, Kurukshetra University, Kurukshetra, Haryana, 136119, India
- Centre for Applied Biology in Environment Sciences, Kurukshetra University, Kurukshetra, Haryana, 136119, India
| | - Gagan Preet Singh Sidhu
- Centre for Applied Biology in Environment Sciences, Kurukshetra University, Kurukshetra, Haryana, 136119, India.
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17
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Jiménez VM, Carvajal-Campos P. Ingeniería genética contra estrés abiótico en cultivos neotropicales: osmolitos, factores de transcripción y CRISPR/Cas9. REVISTA COLOMBIANA DE BIOTECNOLOGÍA 2021. [DOI: 10.15446/rev.colomb.biote.v23n2.88487] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
Abstract
El neotrópico es sitio de origen de gran variedad de plantas que actualmente son cultivadas con éxito en diferentes regiones del mundo. Sin embargo, condiciones climáticas adversas, que se pueden ver acrecentadas por efectos del cambio climático antropogénico, pueden afectar su rendimiento y productividad debido a las situaciones de estrés abiótico que se pueden generar. Como alternativa para contrarrestar estos efectos, se ha experimentado con modificaciones genéticas, particularmente en genes relacionados con la producción de osmolitos y factores de transcripción que han llevado a que estas plantas, a nivel experimental, tengan mayor tolerancia a estrés oxidativo, altas y bajas temperaturas y fotoinhibición, sequía y salinidad, mediante la acumulación de osmoprotectores, la regulación en la expresión de genes y cambios en el fenotipo. En este trabajo se presentan y describen las estrategias metodológicas planteadas con estos fines y se complementan con ejemplos de trabajos realizados en cultivos de origen neotropical de importancia económica, como maíz, algodón, papa y tomate. Además, y debido a la novedad y potencial que ofrece la edición génica por medio del sistema CRISPR/Cas9, también se mencionan trabajos realizados en plantas con origen neotropical, enfocados en comprender e implementar mecanismos de tolerancia a sequía. Las metodologías aquí descritas podrían constituirse en opciones prácticas para mejorar la seguridad alimentaria con miras a contrarrestar las consecuencias negativas del cambio climático antropogénico.
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18
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Haider S, Iqbal J, Naseer S, Yaseen T, Shaukat M, Bibi H, Ahmad Y, Daud H, Abbasi NL, Mahmood T. Molecular mechanisms of plant tolerance to heat stress: current landscape and future perspectives. PLANT CELL REPORTS 2021; 40:2247-2271. [PMID: 33890138 DOI: 10.1007/s00299-021-02696-3] [Citation(s) in RCA: 38] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2021] [Accepted: 04/08/2021] [Indexed: 06/12/2023]
Abstract
We summarize recent studies focusing on the molecular basis of plant heat stress response (HSR), how HSR leads to thermotolerance, and promote plant adaptation to recurring heat stress events. The global crop productivity is facing unprecedented threats due to climate change as high temperature negatively influences plant growth and metabolism. Owing to their sessile nature, plants have developed complex signaling networks which enable them to perceive changes in ambient temperature. This in turn activates a suite of molecular changes that promote plant survival and reproduction under adverse conditions. Deciphering these mechanisms is an important task, as this could facilitate development of molecular markers, which could be ultimately used to breed thermotolerant crop cultivars. In current article, we summarize mechanisms involve in plant heat stress acclimation with special emphasis on advances related to heat stress perception, heat-induced signaling, heat stress-responsive gene expression and thermomemory that promote plant adaptation to short- and long-term-recurring heat-stress events. In the end, we will discuss impact of emerging technologies that could facilitate the development of heat stress-tolerant crop cultivars.
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Affiliation(s)
- Saqlain Haider
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Javed Iqbal
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan.
- Center for Plant Sciences and Biodiversity, University of Swat, Kanju, 19201, Pakistan.
| | - Sana Naseer
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Tabassum Yaseen
- Department of Botany, Bacha Khan University, Charsadda, Khyber Pakhtunkhwa, Pakistan
| | - Muzaffar Shaukat
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Haleema Bibi
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Yumna Ahmad
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Hina Daud
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Nayyab Laiba Abbasi
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan
| | - Tariq Mahmood
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan.
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Sen Gupta D, Basu PS, Souframanien J, Kumar J, Dhanasekar P, Gupta S, Pandiyan M, Geetha S, Shanthi P, Kumar V, Pratap Singh N. Morpho-Physiological Traits and Functional Markers Based Molecular Dissection of Heat-Tolerance in Urdbean. FRONTIERS IN PLANT SCIENCE 2021; 12:719381. [PMID: 34659290 PMCID: PMC8511409 DOI: 10.3389/fpls.2021.719381] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/02/2021] [Accepted: 08/02/2021] [Indexed: 06/13/2023]
Abstract
Urdbean (Vigna mungo L. Hepper) is one of the important pulse crops. Its cultivation is not so popular during summer seasons because this crop is unable to withstand excessive heat stress beside lack of humidity in the atmosphere. Therefore, a panel of 97 urdbean diverse genotypes was assessed for yield under stress and non-stress conditions with an aim to identify heat tolerant genotypes. This study identified 8 highly heat tolerant and 35 highly heat sensitive genotypes based on heat susceptibility index. Further, physiological and biochemical traits-based characterization of a group of six highly heat sensitive and seven highly heat tolerant urdbean genotypes showed genotypic variability for leaf nitrogen balance index (NBI), chlorophyll (SPAD), epidermal flavnols, and anthocyanin contents under 42/25°C max/min temperature. Our results showed higher membrane stability index among heat tolerant genotypes compared to sensitive genotypes. Significant differences among genotypes for ETR at different levels of PAR irradiances and PAR × genotypes interactions indicated high photosynthetic ability of a few genotypes under heat stress. Further, the most highly sensitive genotype PKGU-1 showed a decrease in different fluorescence parameters indicating distortion of PS II. Consequently, reduction in the quantum yield of PS II was observed in a sensitive one as compared to a tolerant genotype. Fluorescence kinetics showed the delayed and fast quenching of Fm in highly heat sensitive (PKGU 1) and tolerant (UPU 85-86) genotypes, respectively. Moreover, tolerant genotype (UPU 85-86) had high antioxidant activities explaining their role for scavenging superoxide radicals (ROS) protecting delicate membranes from oxidative damage. Molecular characterization further pinpointed genetic differences between heat tolerant (UPU 85-86) and heat sensitive genotypes (PKGU 1). These findings will contribute to the breeding toward the development of heat tolerant cultivars in urdbean.
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Affiliation(s)
- Debjyoti Sen Gupta
- Division of Crop Improvement, ICAR-Indian Institute of Pulses Research, Kanpur, India
- All India Coordinated Research Project on Mungbean, Urdbean, Lentil, Lathyrus, Rajmash, and Fieldpea, ICAR-Indian Institute of Pulses Research, Kanpur, India
| | - Partha S. Basu
- Division of Basic Sciences, ICAR-Indian Institute of Pulses Research, Kanpur, India
| | - J. Souframanien
- Nuclear Agriculture & Biotechnology Division, Bhabha Atomic Research Centre, Mumbai, India
| | - Jitendra Kumar
- Division of Crop Improvement, ICAR-Indian Institute of Pulses Research, Kanpur, India
| | - P. Dhanasekar
- Nuclear Agriculture & Biotechnology Division, Bhabha Atomic Research Centre, Mumbai, India
| | - Sanjeev Gupta
- All India Coordinated Research Project on Mungbean, Urdbean, Lentil, Lathyrus, Rajmash, and Fieldpea, ICAR-Indian Institute of Pulses Research, Kanpur, India
| | | | - S. Geetha
- National Pulses Research Centre, Vamban, India
| | - P. Shanthi
- National Pulses Research Centre, Vamban, India
| | - Vaibhav Kumar
- Division of Basic Sciences, ICAR-Indian Institute of Pulses Research, Kanpur, India
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Drought and High Temperature Stress in Sorghum: Physiological, Genetic, and Molecular Insights and Breeding Approaches. Int J Mol Sci 2021; 22:ijms22189826. [PMID: 34575989 PMCID: PMC8472353 DOI: 10.3390/ijms22189826] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2021] [Revised: 09/07/2021] [Accepted: 09/08/2021] [Indexed: 01/02/2023] Open
Abstract
Sorghum is one of the staple crops for millions of people in Sub-Saharan Africa (SSA) and South Asia (SA). The future climate in these sorghum production regions is likely to have unexpected short or long episodes of drought and/or high temperature (HT), which can cause significant yield losses. Therefore, to achieve food and nutritional security, drought and HT stress tolerance ability in sorghum must be genetically improved. Drought tolerance mechanism, stay green, and grain yield under stress has been widely studied. However, novel traits associated with drought (restricted transpiration and root architecture) need to be explored and utilized in breeding. In sorghum, knowledge on the traits associated with HT tolerance is limited. Heat shock transcription factors, dehydrins, and genes associated with hormones such as auxin, ethylene, and abscisic acid and compatible solutes are involved in drought stress modulation. In contrast, our understanding of HT tolerance at the omic level is limited and needs attention. Breeding programs have exploited limited traits with narrow genetic and genomic resources to develop drought or heat tolerant lines. Reproductive stages of sorghum are relatively more sensitive to stress compared to vegetative stages. Therefore, breeding should incorporate appropriate pre-flowering and post-flowering tolerance in a broad genetic base population and in heterotic hybrid breeding pipelines. Currently, more than 240 QTLs are reported for drought tolerance-associated traits in sorghum prospecting discovery of trait markers. Identifying traits and better understanding of physiological and genetic mechanisms and quantification of genetic variability for these traits may enhance HT tolerance. Drought and HT tolerance can be improved by better understanding mechanisms associated with tolerance and screening large germplasm collections to identify tolerant lines and incorporation of those traits into elite breeding lines. Systems approaches help in identifying the best donors of tolerance to be incorporated in the SSA and SA sorghum breeding programs. Integrated breeding with use of high-throughput precision phenomics and genomics can deliver a range of drought and HT tolerant genotypes that can improve yield and resilience of sorghum under drought and HT stresses.
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21
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Comparison of Drought and Heat Resistance Strategies among Six Populations of Solanum chilense and Two Cultivars of Solanum lycopersicum. PLANTS 2021; 10:plants10081720. [PMID: 34451764 PMCID: PMC8398976 DOI: 10.3390/plants10081720] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/19/2021] [Revised: 08/13/2021] [Accepted: 08/17/2021] [Indexed: 12/02/2022]
Abstract
Within the tomato clade, Solanum chilense is considered one of the most promising sources of genes for tomato (S. lycopersicum) selection to biotic and abiotic stresses. In this study, we compared the effects of drought, high temperature, and their combination in two cultivars of S. lycopersicum and six populations of S. chilense, differing in their local habitat. Plants were grown at 21/19 °C or 28/26 °C under well-watered and water-stressed conditions. Plant growth, physiological responses, and expression of stress-responsive genes were investigated. Our results demonstrated strong variability among accessions. Differences in plant growth parameters were even higher among S. chilense populations than between species. The effects of water stress, high temperature, and their combination also differed according to the accession, suggesting differences in stress resistance between species and populations. Overall, water stress affected plants more negatively than temperature from a morpho-physiological point of view, while the expression of stress-responsive genes was more affected by temperature than by water stress. Accessions clustered in two groups regarding resistance to water stress and high temperature. The sensitive group included the S. lycopersicum cultivars and the S. chilense populations LA2931 and LA1930, and the resistant group included the S. chilense populations LA1958, LA2880, LA2765, and LA4107. Our results suggested that resistance traits were not particularly related to the environmental conditions in the natural habitat of the populations. The expression of stress-responsive genes was more stable in resistant accessions than in sensitive ones in response to water stress and high temperature. Altogether, our results suggest that water stress and high temperature resistance in S. chilense did not depend on single traits but on a combination of morphological, physiological, and genetic traits.
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22
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Shukla RP, Tiwari GJ, Joshi B, Song-Beng K, Tamta S, Boopathi NM, Jena SN. GBS-SNP and SSR based genetic mapping and QTL analysis for drought tolerance in upland cotton. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2021; 27:1731-1745. [PMID: 34539113 PMCID: PMC8405779 DOI: 10.1007/s12298-021-01041-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2021] [Revised: 07/26/2021] [Accepted: 07/27/2021] [Indexed: 05/16/2023]
Abstract
UNLABELLED A recombinant inbred line mapping population of intra-species upland cotton was generated from a cross between the drought-tolerant female parent (AS2) and the susceptible male parent (MCU13). A linkage map was constructed deploying 1,116 GBS-based SNPs and public domain-based 782 SSRs spanning a total genetic distance of 28,083.03 cM with an average chromosomal span length of 1,080.12 cM with inter-marker distance of 10.19 cM.A total of 19 quantitative trait loci (QTLs) were identified in nine chromosomes for field drought tolerance traits. Chromosomes 3 and 8 harbored important drought tolerant QTLs for chlorophyll stability index trait while for relative water content trait, three QTLs on chromosome 8 and one QTL each on chromosome 4, 12 were identified. One QTL on each chromosome 8, 5, and 7, and two QTLs on chromosome 15 linking to proline content were identified. For the nitrate reductase activity trait, two QTLs were identified on chromosome 3 and one on each chromosome 8, 13, and 26. To complement our QTL study, a meta-analysis was conducted along with the public domain database and resulted in a consensus map for chromosome 8. Under field drought stress, chromosome 8 harbored a drought tolerance QTL hotspot with two in-house QTLs for chlorophyll stability index (qCSI01, qCSI02) and three public domain QTLs (qLP.FDT_1, qLP.FDT_2, qCC.ST_3). Identified QTL hotspot on chromosome 8 could play a crucial role in exploring abiotic stress-associated genes/alleles for drought trait improvement. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s12298-021-01041-y.
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Affiliation(s)
- Ravi Prakash Shukla
- Plant Molecular Genetics Laboratory, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, (U.P.) 226001 India
- Aakash Institute, Bhopal, Madhya Pradesh 462011 India
| | - Gopal Ji Tiwari
- Plant Molecular Genetics Laboratory, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, (U.P.) 226001 India
| | - Babita Joshi
- Plant Molecular Genetics Laboratory, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, (U.P.) 226001 India
- Acamedy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002 India
| | - Kah Song-Beng
- School of Science, Monash University Malaysia, 46150 Bandar Sunway, Selangor Malaysia
| | - Sushma Tamta
- Department of Botany, D.S.B. Campus, Kumaun University, Nainital, Uttarakhand 263002 India
| | - N. Manikanda Boopathi
- Department of Plant Biotechnology, CPMP & B, Tamil Nadu Agricultural University, Coimbatore, India
| | - Satya Narayan Jena
- Plant Molecular Genetics Laboratory, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, (U.P.) 226001 India
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Chadalavada K, Kumari BDR, Kumar TS. Sorghum mitigates climate variability and change on crop yield and quality. PLANTA 2021; 253:113. [PMID: 33928417 DOI: 10.1007/s00425-021-03631-2] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/23/2021] [Accepted: 04/17/2021] [Indexed: 06/12/2023]
Abstract
Global food insecurity concerns due to climate change, emphasizes the need to focus on the sensitivity of sorghum to climate change and potential crop improvement strategies available, which is discussed in the current review to promote climate-smart agriculture. Climate change effects immensely disturb the global agricultural systems by reducing crop production. Changes in extreme weather and climate events such as high-temperature episodes and extreme rainfalls events, droughts, flooding adversely affect the production of staple food crops, posing threat to ecosystem resilience. The resulting crop losses lead to food insecurity and poverty and question the sustainable livelihoods of small farmer communities, particularly in developing countries. In view of this, it is essential to focus and adapt climate-resilient food crops which need lower inputs and produce sustainable yields through various biotic and abiotic stress-tolerant traits. Sorghum, "the camel of cereals", is one such climate-resilient food crop that is less sensitive to climate change vulnerabilities and also an important staple food in many parts of Asia and Africa. It is a rainfed crop and provides many essential nutrients. Understanding sorghum's sensitivity to climate change provides scope for improvement of the crop both in terms of quantity and quality and alleviates food and feed security in future climate change scenarios. Thus, the current review focused on understanding the sensitivity of sorghum crop to various stress events due to climate change and throws light on different crop improvement strategies available to pave the way for climate-smart agriculture.
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Affiliation(s)
- Keerthi Chadalavada
- Department of Botany, Bharathidasan University, Tiruchirappalli, Tamil Nadu, India.
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, Telangana, India.
| | - B D Ranjitha Kumari
- Department of Botany, Bharathidasan University, Tiruchirappalli, Tamil Nadu, India
| | - T Senthil Kumar
- Department of Botany, Bharathidasan University, Tiruchirappalli, Tamil Nadu, India
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24
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Saeidnia F, Majidi MM, Mirlohi A. Marker-trait association analysis for drought tolerance in smooth bromegrass. BMC PLANT BIOLOGY 2021; 21:116. [PMID: 33632123 PMCID: PMC7908751 DOI: 10.1186/s12870-021-02891-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/27/2020] [Accepted: 02/13/2021] [Indexed: 06/12/2023]
Abstract
BACKGROUND Little information is available on the application of marker-trait association (MTA) analysis for traits related to drought tolerance in smooth bromegrass. The objectives of this study were to identify marker loci associated with important agronomic traits and drought tolerance indices as well as fining stable associations in a diverse panel of polycross derived genotypes of smooth bromegrass. Phenotypic evaluations were performed at two irrigation regimes (normal and deficit irrigation) during 2 years; and association analysis was done with 626 SRAP markers. RESULTS The results of population structure analysis identified three main subpopulations possessing significant genetic differences. Under normal irrigation, 68 and 57 marker-trait associations were identified using general linear model (GLM) and mixed linear mode1 (MLM), respectively. While under deficit irrigation, 61 and 54 markers were associated with the genes controlling the studied traits, based on these two models, respectively. Some of the markers were associated with more than one trait. It was revealed that markers Me1/Em5-11, Me1/Em3-15, and Me5/Em4-7 were consistently linked with drought-tolerance indices. CONCLUSION Following marker validation, the MTAs reported in this panel could be useful tools to initiate marker-assisted selection (MAS) and targeted trait introgression of smooth bromegrass under normal and deficit irrigation regimes, and possibly fine mapping and cloning of the underlying genes and QTLs.
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Affiliation(s)
- F. Saeidnia
- Department of Agronomy and Plant Breeding, College of Agriculture, Isfahan University of Technology, Isfahan, 84156-83111 Iran
| | - M. M. Majidi
- Department of Agronomy and Plant Breeding, College of Agriculture, Isfahan University of Technology, Isfahan, 84156-83111 Iran
| | - A. Mirlohi
- Department of Agronomy and Plant Breeding, College of Agriculture, Isfahan University of Technology, Isfahan, 84156-83111 Iran
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25
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Guerriero G, Sutera FM, Torabi-Pour N, Renaut J, Hausman JF, Berni R, Pennington HC, Welsh M, Dehsorkhi A, Zancan LR, Saffie-Siebert S. Phyto-Courier, a Silicon Particle-Based Nano-biostimulant: Evidence from Cannabis sativa Exposed to Salinity. ACS NANO 2021; 15:3061-3069. [PMID: 33523648 DOI: 10.1021/acsnano.0c09488] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Global warming and sea level rise are serious threats to agriculture. The negative effects caused by severe salinity include discoloration and reduced surface of the leaves, as well as wilting due to an impaired uptake of water from the soil by roots. Nanotechnology is emerging as a valuable ally in agriculture: several studies have indeed already proven the role of silicon nanoparticles in ameliorating the conditions of plants subjected to (a) biotic stressors. Here, we introduce the concept of phyto-courier: hydrolyzable nanoparticles of porous silicon, stabilized with the nonreducing saccharide trehalose and containing different combinations of lipids and/or amino acids, were used as vehicle for the delivery of the bioactive compound quercetin to the leaves of salt-stressed hemp (Cannabis sativa L., Santhica 27). Hemp was used as a representative model of an economically important crop with multiple uses. Quercetin is an antioxidant known to scavenge reactive oxygen species in cells. Four different silicon-based formulations were administered via spraying in order to investigate their ability to improve the plant's stress response, thereby acting as nano-biostimulants. We show that two formulations proved to be effective at decreasing stress symptoms by modulating the amount of soluble sugars and the expression of genes that are markers of stress-response in hemp. The study proves the suitability of the phyto-courier technology for agricultural applications aimed at crop protection.
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Affiliation(s)
- Gea Guerriero
- Environmental Research and Innovation Department, Luxembourg Institute of Science and Technology, L-4940 Hautcharage, Luxembourg
| | | | | | - Jenny Renaut
- Environmental Research and Innovation Department, Luxembourg Institute of Science and Technology, L-4422 Belvaux, Luxembourg
| | - Jean-Francois Hausman
- Environmental Research and Innovation Department, Luxembourg Institute of Science and Technology, L-4940 Hautcharage, Luxembourg
| | - Roberto Berni
- TERRA Teaching and Research Center, Gembloux Agro-Bio Tech, University of Liège, 5030 Gembloux, Belgium
| | | | - Michael Welsh
- SiSaf Ltd., Surrey Research Park, Guildford GU2 7RE, United Kingdom
| | - Ashkan Dehsorkhi
- SiSaf Ltd., Surrey Research Park, Guildford GU2 7RE, United Kingdom
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Amalova A, Abugalieva S, Chudinov V, Sereda G, Tokhetova L, Abdikhalyk A, Turuspekov Y. QTL mapping of agronomic traits in wheat using the UK Avalon × Cadenza reference mapping population grown in Kazakhstan. PeerJ 2021; 9:e10733. [PMID: 33643705 PMCID: PMC7897413 DOI: 10.7717/peerj.10733] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2020] [Accepted: 12/17/2020] [Indexed: 12/01/2022] Open
Abstract
Background The success of wheat production is largely dependent on local breeding projects that focus on the development of high-yielding cultivars with the use of novel molecular tools. One strategy for improving wheat productivity involves the deployment of diverse germplasms with a high potential yield. An important factor for achieving success involves the dissection of quantitative trait loci (QTLs) for complex agronomic traits, such as grain yield components, in targeted environments for wheat growth. Methods In this study, we tested the United Kingdom (UK) spring set of the doubled haploid (DH) reference population derived from the cross between two British cultivars, Avalon (winter wheat) and Cadenza (spring wheat), in the Northern, Central, and Southern regions (Karabalyk, Karaganda, Kyzylorda) of Kazakhstan over three years (2013–2015). The DH population has previously been genotyped by UK scientists using 3647 polymorphic DNA markers. The list of tested traits includes the heading time, seed maturation time, plant height, spike length, productive tillering, number of kernels per spike, number of kernels per meter, thousand kernel weight, and yield per square meter. Windows QTL Cartographer was applied for QTL mapping using the composite interval mapping method. Results In total, 83 out of 232 QTLs were identified as stable QTLs from at least two environments. A literature survey suggests that 40 QTLs had previously been reported elsewhere, indicating that this study identified 43 QTLs that are presumably novel marker-trait associations (MTA) for these environments. Hence, the phenotyping of the DH population in new environments led to the discovery of novel MTAs. The identified SNP markers associated with agronomic traits in the DH population could be successfully used in local Kazakh breeding projects for the improvement of wheat productivity.
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Affiliation(s)
- Akerke Amalova
- Institute of Plant Biology and Biotechnology, Almaty, Kazakhstan.,Faculty of Biology and Biotechnology, Al-Farabi Kazakh National University, Almaty, Kazakhstan
| | - Saule Abugalieva
- Institute of Plant Biology and Biotechnology, Almaty, Kazakhstan.,Faculty of Biology and Biotechnology, Al-Farabi Kazakh National University, Almaty, Kazakhstan
| | - Vladimir Chudinov
- Karabalyk Agricultural Experimental Station, Nauchnoe, Kostanai Region, Kazakhstan
| | - Grigoriy Sereda
- Karaganda Research Institute of Agriculture, Karaganda, Kazakhstan
| | | | - Alima Abdikhalyk
- Institute of Plant Biology and Biotechnology, Almaty, Kazakhstan
| | - Yerlan Turuspekov
- Institute of Plant Biology and Biotechnology, Almaty, Kazakhstan.,Faculty of Agrobiology, Kazakh National Agrarian University, Almaty, Kazakhstan
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27
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Nayyeripasand L, Garoosi GA, Ahmadikhah A. Genome-Wide Association Study (GWAS) to Identify Salt-Tolerance QTLs Carrying Novel Candidate Genes in Rice During Early Vegetative Stage. RICE (NEW YORK, N.Y.) 2021; 14:9. [PMID: 33420909 PMCID: PMC7797017 DOI: 10.1186/s12284-020-00433-0] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/23/2020] [Accepted: 10/07/2020] [Indexed: 05/15/2023]
Abstract
BACKGROUND Rice is considered as a salt-sensitive plant, particularly at early vegetative stage, and its production is suffered from salinity due to expansion of salt affected land in areas under cultivation. Hence, significant increase of rice productivity on salinized lands is really necessary. Today genome-wide association study (GWAS) is a method of choice for fine mapping of QTLs involved in plant responses to abiotic stresses including salinity stress at early vegetative stage. In this study using > 33,000 SNP markers we identified rice genomic regions associated to early stage salinity tolerance. Eight salinity-related traits including shoot length (SL), root length (RL), root dry weight (RDW), root fresh weight (RFW), shoot fresh weight (SFW), shoot dry weight (SDW), relative water content (RWC) and TW, and 4 derived traits including SL-R, RL-R, RDW-R and RFW-R in a diverse panel of rice were evaluated under salinity (100 mM NaCl) and normal conditions in growth chamber. Genome-wide association study (GWAS) was applied based on MLM(+Q + K) model. RESULTS Under stress conditions 151 trait-marker associations were identified that were scattered on 10 chromosomes of rice that arranged in 29 genomic regions. A genomic region on chromosome 1 (11.26 Mbp) was identified which co-located with a known QTL region SalTol1 for salinity tolerance at vegetative stage. A candidate gene (Os01g0304100) was identified in this region which encodes a cation chloride cotransporter. Furthermore, on this chromosome two other candidate genes, Os01g0624700 (24.95 Mbp) and Os01g0812000 (34.51 Mbp), were identified that encode a WRKY transcription factor (WRKY 12) and a transcriptional activator of gibberellin-dependent alpha-amylase expression (GAMyb), respectively. Also, a narrow interval on the same chromosome (40.79-42.98 Mbp) carries 12 candidate genes, some of them were not so far reported for salinity tolerance at seedling stage. Two of more interesting genes are Os01g0966000 and Os01g0963000, encoding a plasma membrane (PM) H+-ATPase and a peroxidase BP1 protein. A candidate gene was identified on chromosome 2 (Os02g0730300 at 30.4 Mbp) encoding a high affinity K+ transporter (HAK). On chromosome 6 a DnaJ-encoding gene and pseudouridine synthase gene were identified. Two novel genes on chromosome 8 including the ABI/VP1 transcription factor and retinoblastoma-related protein (RBR), and 3 novel genes on chromosome 11 including a Lox, F-box and Na+/H+ antiporter, were also identified. CONCLUSION Known or novel candidate genes in this research were identified that can be used for improvement of salinity tolerance in molecular breeding programmes of rice. Further study and identification of effective genes on salinity tolerance by the use of candidate gene-association analysis can help to precisely uncover the mechanisms of salinity tolerance at molecular level. A time dependent relationship between salt tolerance and expression level of candidate genes could be recognized.
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Affiliation(s)
- Leila Nayyeripasand
- Agricultural Biotechnology Department, Faculty of Agriculture, Imam Khomeini International University, Qazvin, Iran
| | - Ghasem Ali Garoosi
- Agricultural Biotechnology Department, Faculty of Agriculture, Imam Khomeini International University, Qazvin, Iran.
| | - Asadollah Ahmadikhah
- Department of Plant Sciences and Biotechnology, Faculty of Life Sciences and Biotechnology, Shahid Beheshi University, G.C. Velenjak, Tehran, Iran.
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Asif MA, Garcia M, Tilbrook J, Brien C, Dowling K, Berger B, Schilling RK, Short L, Trittermann C, Gilliham M, Fleury D, Roy SJ, Pearson AS. Identification of salt tolerance QTL in a wheat RIL mapping population using destructive and non-destructive phenotyping. FUNCTIONAL PLANT BIOLOGY : FPB 2021; 48:131-140. [PMID: 32835651 DOI: 10.1071/fp20167] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2020] [Accepted: 07/31/2020] [Indexed: 06/11/2023]
Abstract
Bread wheat (Triticum aestivum L.) is one of the most important food crops, however it is only moderately tolerant to salinity stress. To improve wheat yield under saline conditions, breeding for improved salinity tolerance of wheat is needed. We have identified nine quantitative trail loci (QTL) for different salt tolerance sub-traits in a recombinant inbred line (RIL) population, derived from the bi-parental cross of Excalibur × Kukri. This population was screened for salinity tolerance subtraits using a combination of both destructive and non-destructive phenotyping. Genotyping by sequencing (GBS) was used to construct a high-density genetic linkage map, consisting of 3236 markers, and utilised for mapping QTL. Of the nine mapped QTL, six were detected under salt stress, including QTL for maintenance of shoot growth under salinity (QG(1-5).asl-5A, QG(1-5).asl-7B) sodium accumulation (QNa.asl-2A), chloride accumulation (QCl.asl-2A, QCl.asl-3A) and potassium:sodium ratio (QK:Na.asl-2DS2). Potential candidate genes within these QTL intervals were shortlisted using bioinformatics tools. These findings are expected to facilitate the breeding of new salt tolerant wheat cultivars.
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Affiliation(s)
- Muhammad A Asif
- Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia; and School of Agriculture, Food and Wine & Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia
| | - Melissa Garcia
- Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia; and School of Agriculture, Food and Wine & Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia; and ARC Industrial Transformation Research Hub for Wheat in a Hot and Dry Climate, The University of Adelaide, PMB1, Glen Osmond, SA 5064, Australia
| | - Joanne Tilbrook
- Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia; and School of Agriculture, Food and Wine & Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia
| | - Chris Brien
- Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia; and Australian Plant Phenomics Facility, The Plant Accelerator, The University of Adelaide, SA 5064, Australia; and School of Information Technology and Mathematical Sciences, The University of South Australia, GPO Box 2471, Adelaide, SA 5001, Australia
| | - Kate Dowling
- Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia; and Australian Plant Phenomics Facility, The Plant Accelerator, The University of Adelaide, SA 5064, Australia
| | - Bettina Berger
- School of Agriculture, Food and Wine & Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia; and Australian Plant Phenomics Facility, The Plant Accelerator, The University of Adelaide, SA 5064, Australia
| | - Rhiannon K Schilling
- Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia; and School of Agriculture, Food and Wine & Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia
| | - Laura Short
- Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia; and School of Agriculture, Food and Wine & Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia
| | - Christine Trittermann
- Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia; and School of Agriculture, Food and Wine & Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia
| | - Matthew Gilliham
- School of Agriculture, Food and Wine & Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia; and ARC Centre of Excellence in Plant Energy Biology, Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia
| | - Delphine Fleury
- Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia; and School of Agriculture, Food and Wine & Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia; and ARC Industrial Transformation Research Hub for Wheat in a Hot and Dry Climate, The University of Adelaide, PMB1, Glen Osmond, SA 5064, Australia; and Innolea, 6 chemin de Panedautes, 31700, Mondonville, France
| | - Stuart J Roy
- Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia; and School of Agriculture, Food and Wine & Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia; and ARC Industrial Transformation Research Hub for Wheat in a Hot and Dry Climate, The University of Adelaide, PMB1, Glen Osmond, SA 5064, Australia; and Corresponding author.
| | - Allison S Pearson
- Australian Centre for Plant Functional Genomics, PMB 1, Glen Osmond, SA 5064, Australia; and School of Agriculture, Food and Wine & Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia; and ARC Centre of Excellence in Plant Energy Biology, Waite Research Institute, The University of Adelaide, PMB 1, Glen Osmond, SA 5064, Australia
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Wang D, Lu X, Chen X, Wang S, Wang J, Guo L, Yin Z, Chen Q, Ye W. Temporal salt stress-induced transcriptome alterations and regulatory mechanisms revealed by PacBio long-reads RNA sequencing in Gossypium hirsutum. BMC Genomics 2020; 21:838. [PMID: 33246403 PMCID: PMC7694341 DOI: 10.1186/s12864-020-07260-z] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2019] [Accepted: 11/19/2020] [Indexed: 12/18/2022] Open
Abstract
Background Cotton (Gossypium hirsutum) is considered a fairly salt tolerant crop however, salinity can still cause significant economic losses by affecting the yield and deteriorating the fiber quality. We studied a salt-tolerant upland cotton cultivar under temporal salt stress to unfold the salt tolerance molecular mechanisms. Biochemical response to salt stress (400 mM) was measured at 0 h, 3 h, 12 h, 24 h and 48 h post stress intervals and single-molecule long-read sequencing technology from Pacific Biosciences (PacBio) combined with the unique molecular identifiers approach was used to identify differentially expressed genes (DEG). Results Antioxidant enzymes including, catalase (CAT), peroxidase (POD), superoxide dismutase (SOD) were found significantly induced under temporal salt stress, suggesting that reactive oxygen species scavenging antioxidant machinery is an essential component of salt tolerance mechanism in cotton. We identified a wealth of novel transcripts based on the PacBio long reads sequencing approach. Prolonged salt stress duration induces high number of DEGs. Significant numbers of DEGs were found under key terms related to stress pathways such as “response to oxidative stress”, “response to salt stress”, “response to water deprivation”, “cation transport”, “metal ion transport”, “superoxide dismutase”, and “reductase”. Key DEGs related to hormone (abscisic acid, ethylene and jasmonic acid) biosynthesis, ion homeostasis (CBL-interacting serine/threonine-protein kinase genes, calcium-binding proteins, potassium transporter genes, potassium channel genes, sodium/hydrogen exchanger or antiporter genes), antioxidant activity (POD, SOD, CAT, glutathione reductase), transcription factors (myeloblastosis, WRKY, Apetala 2) and cell wall modification were found highly active in response to salt stress in cotton. Expression fold change of these DEGs showed both positive and negative responses, highlighting the complex nature of salt stress tolerance mechanisms in cotton. Conclusion Collectively, this study provides a good insight into the regulatory mechanism under salt stress in cotton and lays the foundation for further improvement of salt stress tolerance. Supplementary Information The online version contains supplementary material available at 10.1186/s12864-020-07260-z.
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Affiliation(s)
- Delong Wang
- College of Agriculture, Xinjiang Agricultural University, 311 Nongda East Road, Urumqi, 830052, P. R. China.,State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Xuke Lu
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Xiugui Chen
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Shuai Wang
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Junjuan Wang
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Lixue Guo
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Zujun Yin
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China
| | - Quanjia Chen
- College of Agriculture, Xinjiang Agricultural University, 311 Nongda East Road, Urumqi, 830052, P. R. China
| | - Wuwei Ye
- State Key Laboratory of Cotton Biology/Key Laboratory for Cotton Genetic Improvement, Ministry of Agriculture/Institute of Cotton Research of Chinese Academy of Agricultural Science, Anyang, 455000, Henan, China.
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Zhang Z, Tong T, Fang Y, Zheng J, Zhang X, Niu C, Li J, Zhang X, Xue D. Genome-Wide Identification of Barley ABC Genes and Their Expression in Response to Abiotic Stress Treatment. PLANTS (BASEL, SWITZERLAND) 2020; 9:plants9101281. [PMID: 32998428 PMCID: PMC7599588 DOI: 10.3390/plants9101281] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2020] [Revised: 09/25/2020] [Accepted: 09/27/2020] [Indexed: 05/15/2023]
Abstract
Adenosine triphosphate-binding cassette transporters (ABC transporters) participate in various plant growth and abiotic stress responses. In the present study, 131 ABC genes in barley were systematically identified using bioinformatics. Based on the classification method of the family in rice, these members were classified into eight subfamilies (ABCA-ABCG, ABCI). The conserved domain, amino acid composition, physicochemical properties, chromosome distribution, and tissue expression of these genes were predicted and analyzed. The results showed that the characteristic motifs of the barley ABC genes were highly conserved and there were great diversities in the homology of the transmembrane domain, the number of exons, amino acid length, and the molecular weight, whereas the span of the isoelectric point was small. Tissue expression profile analysis suggested that ABC genes possess non-tissue specificity. Ultimately, 15 differentially expressed genes exhibited diverse expression responses to stress treatments including drought, cadmium, and salt stress, indicating that the ABCB and ABCG subfamilies function in the response to abiotic stress in barley.
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Kim SL, Kim N, Lee H, Lee E, Cheon KS, Kim M, Baek J, Choi I, Ji H, Yoon IS, Jung KH, Kwon TR, Kim KH. High-throughput phenotyping platform for analyzing drought tolerance in rice. PLANTA 2020; 252:38. [PMID: 32779032 PMCID: PMC7417419 DOI: 10.1007/s00425-020-03436-9] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2020] [Accepted: 07/29/2020] [Indexed: 05/21/2023]
Abstract
A new imaging platform was constructed to analyze drought-tolerant traits of rice. Rice was used to quantify drought phenotypes through image-based parameters and analyzing tools. Climate change has increased the frequency and severity of drought, which limits crop production worldwide. Developing new cultivars with increased drought tolerance and short breeding cycles is critical. However, achieving this goal requires phenotyping a large number of breeding populations in a short time and in an accurate manner. Novel cutting-edge technologies such as those based on remote sensors are being applied to solve this problem. In this study, new technologies were applied to obtain and analyze imaging data and establish efficient screening platforms for drought tolerance in rice using the drought-tolerant mutant osphyb. Red-Green-Blue images were used to predict plant area, color, and compactness. Near-infrared imaging was used to determine the water content of rice, infrared was used to assess plant temperature, and fluorescence was used to examine photosynthesis efficiency. DroughtSpotter technology was used to determine water use efficiency, plant water loss rate, and transpiration rate. The results indicate that these methods can detect the difference between tolerant and susceptible plants, suggesting their value as high-throughput phenotyping methods for short breeding cycles as well as for functional genetic studies of tolerance to drought stress.
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Affiliation(s)
- Song Lim Kim
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea
| | - Nyunhee Kim
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea
| | - Hongseok Lee
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea
- Department of Agricultural Machinery Engineering, Chungnam National University, Daejeon, 34134, Republic of Korea
| | - Eungyeong Lee
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea
- Department of Crop Science and Biotechnology, Jeonbuk National University, Jeonju, 54896, Republic of Korea
| | - Kyeong-Seong Cheon
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea
| | - Minsu Kim
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea
| | - JeongHo Baek
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea
| | - Inchan Choi
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea
| | - Hyeonso Ji
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea
| | - In Sun Yoon
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea
| | - Ki-Hong Jung
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea
| | - Taek-Ryoun Kwon
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea
| | - Kyung-Hwan Kim
- The National Institute of Agricultural Sciences, 370 Nongsaengmyeong-ro, Wansan-gu, Jeonju-si, Jeollabuk-do, Republic of Korea.
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Hirayama T, Saisho D, Matsuura T, Okada S, Takahagi K, Kanatani A, Ito J, Tsuji H, Ikeda Y, Mochida K. Life-Course Monitoring of Endogenous Phytohormone Levels under Field Conditions Reveals Diversity of Physiological States among Barley Accessions. PLANT & CELL PHYSIOLOGY 2020; 61:1438-1448. [PMID: 32294217 DOI: 10.1093/pcp/pcaa046] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/27/2019] [Accepted: 03/27/2020] [Indexed: 05/23/2023]
Abstract
Agronomically important traits often develop during the later stages of crop growth as consequences of various plant-environment interactions. Therefore, the temporal physiological states that change and accumulate during the crop's life course can significantly affect the eventual phenotypic differences in agronomic traits among crop varieties. Thus, to improve productivity, it is important to elucidate the associations between temporal physiological responses during the growth of different crop varieties and their agronomic traits. However, data representing the dynamics and diversity of physiological states in plants grown under field conditions are sparse. In this study, we quantified the endogenous levels of five phytohormones - auxin, cytokinins (CKs), ABA, jasmonate and salicylic acid - in the leaves of eight diverse barley (Hordeum vulgare) accessions grown under field conditions sampled weekly over their life course to assess the ongoing fluctuations in hormone levels in the different accessions under field growth conditions. Notably, we observed enormous changes over time in the development-related plant hormones, such as auxin and CKs. Using 3' RNA-seq-based transcriptome data from the same samples, we investigated the expression of barley genes orthologous to known hormone-related genes of Arabidopsis throughout the life course. These data illustrated the dynamics and diversity of the physiological states of these field-grown barley accessions. Together, our findings provide new insights into plant-environment interactions, highlighting that there is cultivar diversity in physiological responses during growth under field conditions.
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Affiliation(s)
- Takashi Hirayama
- Institute of Plant Science and Resources, Okayama University, 2-20-1 Chuo, Kurashiki, Okayama, 710-0046 Japan
| | - Daisuke Saisho
- Institute of Plant Science and Resources, Okayama University, 2-20-1 Chuo, Kurashiki, Okayama, 710-0046 Japan
| | - Takakazu Matsuura
- Institute of Plant Science and Resources, Okayama University, 2-20-1 Chuo, Kurashiki, Okayama, 710-0046 Japan
| | - Satoshi Okada
- Institute of Plant Science and Resources, Okayama University, 2-20-1 Chuo, Kurashiki, Okayama, 710-0046 Japan
| | - Kotaro Takahagi
- RIKEN Center for Sustainable Resource Science, 1-7-22 Suehirocho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045 Japan
| | - Asaka Kanatani
- RIKEN Center for Sustainable Resource Science, 1-7-22 Suehirocho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045 Japan
| | - Jun Ito
- Kihara Institute for Biological Research, Yokohama City University, 641-12 Maiokacho, Totsuka-ku, Yokohama, Kanagawa, 244-0813 Japan
| | - Hiroyuki Tsuji
- Kihara Institute for Biological Research, Yokohama City University, 641-12 Maiokacho, Totsuka-ku, Yokohama, Kanagawa, 244-0813 Japan
| | - Yoko Ikeda
- Institute of Plant Science and Resources, Okayama University, 2-20-1 Chuo, Kurashiki, Okayama, 710-0046 Japan
| | - Keiichi Mochida
- Institute of Plant Science and Resources, Okayama University, 2-20-1 Chuo, Kurashiki, Okayama, 710-0046 Japan
- RIKEN Center for Sustainable Resource Science, 1-7-22 Suehirocho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045 Japan
- Kihara Institute for Biological Research, Yokohama City University, 641-12 Maiokacho, Totsuka-ku, Yokohama, Kanagawa, 244-0813 Japan
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Zhou R, Yu X, Wen J, Jensen NB, Dos Santos TM, Wu Z, Rosenqvist E, Ottosen CO. Interactive effects of elevated CO 2 concentration and combined heat and drought stress on tomato photosynthesis. BMC PLANT BIOLOGY 2020; 20:260. [PMID: 32505202 PMCID: PMC7276063 DOI: 10.1186/s12870-020-02457-6] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2020] [Accepted: 05/21/2020] [Indexed: 05/09/2023]
Abstract
BACKGROUND Extreme weather events are predicted to increase, such as combined heat and drought. The CO2 concentration ([CO2]) is predicted to approximately double by 2100. We aim to explore how tomato physiology, especially photosynthesis, is affected by combined heat and drought under elevated [CO2] (e [CO2]). RESULTS Two genotypes, 'OuBei' ('OB', Solanum lycopersicum) and 'LA2093' (S. pimpinellifolium) were grown at a [CO2] (atmospheric [CO2], 400 ppm) and e [CO2] (800 ppm), respectively. The 27-days-old seedlings were treated at 1) a [CO2], 2) a [CO2] + combined stress, 3) e [CO2] and 4) e [CO2] + combined stress, followed by recovery. The PN (net photosynthetic rate) increased at e [CO2] as compared with a [CO2] and combined stress inhibited the PN. Combined stress decreased the Fv/Fm (maximum quantum efficiency of photosystem II) of 'OB' at e [CO2] and that of 'LA2093' in regardless of [CO2]. Genotypic difference was observed in the e [CO2] effect on the gas exchange, carbohydrate accumulation, pigment content and dry matter accumulation. CONCLUSIONS Short-term combined stress caused reversible damage on tomato while the e [CO2] alleviated the damage on photosynthesis. However, the e [CO2] cannot be always assumed have positive effects on plant growth during stress due to increased water consumption. This study provided insights into the physiological effects of e [CO2] on tomato growth under combined stress and contributed to tomato breeding and management under climate change.
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Affiliation(s)
- Rong Zhou
- Department of Food Science, Aarhus University, Aarhus, Denmark.
| | - Xiaqing Yu
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Junqin Wen
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | | | | | - Zhen Wu
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Eva Rosenqvist
- Department of Plant and Environmental Sciences, University of Copenhagen, Taastrup, Denmark
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López-Serrano L, Canet-Sanchis G, Selak GV, Penella C, San Bautista A, López-Galarza S, Calatayud Á. Physiological characterization of a pepper hybrid rootstock designed to cope with salinity stress. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2020; 148:207-219. [PMID: 31972389 DOI: 10.1016/j.plaphy.2020.01.016] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/04/2019] [Revised: 12/18/2019] [Accepted: 01/13/2020] [Indexed: 05/08/2023]
Abstract
In pepper crops, rootstocks that tolerate salt stress are not used because available commercial rootstocks offer limited profits. In this context, we obtained the hybrid NIBER®, a new salinity-tolerant rootstock that has been tested under real salinity field conditions for 3 years with 32%-80% higher yields than ungrafted pepper plants. This study aimed to set up the initial mechanisms involved in the salinity tolerance of grafted pepper plants using NIBER® as a rootstock to study root-shoot behavior, a basic requirement to develop efficient rootstocks. Gas exchange, Na+/K+, antioxidant capacity, nitrate reductase activity, ABA, proline, H2O2, phenols, MDA concentration and biomass were measured in ungrafted plants of cultivar Adige (A), self-grafted (A/A), grafted onto NIBER® (A/N) and reciprocal grafted plants (N/A), all exposed to 0 mM and 70 mM NaCl over a 10-day period. Salinity significantly and quickly decreased photosynthesis, stomatal conductance and nitrate reductase activity, but to lower extent in A/N plants compared to A, A/A and N/A. A/N plants showed decreases in the Na+/K+ ratio, ABA content and lipid peroxidation activity. This oxidative damage alleviation in A/N was probably due to an enhanced H2O2 level that activates antioxidant capacity to cope salinity stress, and acts as a signal molecule rather than a damaging one by contributing a major increase in phenols and, to a lesser extent, in proline concentration. These traits led to a minor impact on biomass in A/N plants under salinity conditions. Only the plants with the NIBER® rootstock controlled the scion by modulating responses to salinity.
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Affiliation(s)
- Lidia López-Serrano
- Centro de Citricultura y Producción Vegetal, Departamento de Horticultura, Instituto Valenciano de Investigaciones Agrarias, Moncada, Valencia, Spain
| | - Guillermo Canet-Sanchis
- Centro de Citricultura y Producción Vegetal, Departamento de Horticultura, Instituto Valenciano de Investigaciones Agrarias, Moncada, Valencia, Spain
| | - Gabriela Vuletin Selak
- Department of Plant Science, Institute for Adriatic Crops and Karst Reclamation, Split, Croatia
| | - Consuelo Penella
- Centro de Citricultura y Producción Vegetal, Departamento de Horticultura, Instituto Valenciano de Investigaciones Agrarias, Moncada, Valencia, Spain
| | - Alberto San Bautista
- Departamento de Producción Vegetal, Universitat Politècnica de València, Valencia, Spain
| | - Salvador López-Galarza
- Departamento de Producción Vegetal, Universitat Politècnica de València, Valencia, Spain
| | - Ángeles Calatayud
- Centro de Citricultura y Producción Vegetal, Departamento de Horticultura, Instituto Valenciano de Investigaciones Agrarias, Moncada, Valencia, Spain.
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Preece C, Peñuelas J. A Return to the Wild: Root Exudates and Food Security. TRENDS IN PLANT SCIENCE 2020; 25:14-21. [PMID: 31648938 DOI: 10.1016/j.tplants.2019.09.010] [Citation(s) in RCA: 57] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/15/2019] [Revised: 09/21/2019] [Accepted: 09/30/2019] [Indexed: 05/07/2023]
Abstract
Challenges to food security under conditions of global change are forcing us to increase global crop production. Focussing on belowground plant traits, especially root exudation, has great promise to meet this challenge. Root exudation is the release of a vast array of compounds into the soil. These exudates are involved in many biotic and abiotic interactions. Wild relatives of crops provide a large potential source of information and genetic material and have desirable traits that could be incorporated into modern breeding programs. However, root exudates are currently underexploited. Here, we highlight how the traits of root exudates of crop wild relatives could be used to improve agricultural output and reduce environmental impacts, particularly by decreasing our dependence on pesticides and fertilisers.
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Affiliation(s)
- Catherine Preece
- CREAF, Cerdanyola del Vallès, 08193, Catalonia, Spain; CSIC, Global Ecology Unit CREAF-CSIC-UAB, Bellaterra 08193, Catalonia, Spain.
| | - Josep Peñuelas
- CREAF, Cerdanyola del Vallès, 08193, Catalonia, Spain; CSIC, Global Ecology Unit CREAF-CSIC-UAB, Bellaterra 08193, Catalonia, Spain
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Sun BR, Fu CY, Fan ZL, Chen Y, Chen WF, Zhang J, Jiang LQ, Lv S, Pan DJ, Li C. Genomic and transcriptomic analysis reveal molecular basis of salinity tolerance in a novel strong salt-tolerant rice landrace Changmaogu. RICE (NEW YORK, N.Y.) 2019; 12:99. [PMID: 31883029 PMCID: PMC6934643 DOI: 10.1186/s12284-019-0360-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/05/2019] [Accepted: 12/19/2019] [Indexed: 05/14/2023]
Abstract
BACKGROUND Salt stress is an important factor that limits rice yield. We identified a novel, strongly salt tolerant rice landrace called Changmaogu (CMG) collected from a coastal beach of Zhanjiang, Guangdong Province, China. The salt tolerance of CMG was much better than that of the international recognized salt tolerant rice cultivar Pokkali in the germination and seedling stages. RESULTS To understand the molecular basis of salt tolerance in CMG, we performed BSA-seq for two extreme bulks derived from the cross between CMG and a cultivar sensitive to salt, Zhefu802. Transcriptomic sequencing was conducted for CMG at the germination and young seedling stages. Six candidate regions for salt tolerance were mapped on Chromosome 1 by BSA-seq using the extreme populations. Based on the polymorphisms identified between both parents, we detected 32 genes containing nonsynonymous coding single nucleotide polymorphisms (SNPs) and frameshift mutations in the open reading frame (ORF) regions. With transcriptomic sequencing, we detected a large number of differentially expressed genes (DEGs) at the germination and seedling stages under salt stress. KEGG analysis indicated two of 69 DEGs shared at the germination and seedling stages were significantly enriched in the pathway of carotenoid biosynthesis. Of the 169 overlapping DEGs among three sample points at the seedling stage, 13 and six DEGs were clustered into the pathways of ABA signal transduction and carotenoid biosynthesis, respectively. Of the 32 genes carrying sequence variation, only OsPP2C8 (Os01g0656200) was differentially expressed in the young seedling stage under salt stress and also showed sequence polymorphism in the ORFs between CMG and Zhefu802. CONCLUSION OsPP2C8 was identified as the target candidate gene for salinity tolerance in the seedling stage. This provides an important genetic resource for the breeding of novel salt tolerant rice cultivars.
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Affiliation(s)
- Bing-Rui Sun
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
| | - Chong-Yun Fu
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
| | - Zhi-Lan Fan
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
- Guangdong Provincial Key Laboratory of New Technology in Rice Breeding, Guangzhou, China
| | - Yu Chen
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
- Guangdong Provincial Key Laboratory of New Technology in Rice Breeding, Guangzhou, China
| | - Wen-Feng Chen
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
- Guangdong Provincial Key Laboratory of New Technology in Rice Breeding, Guangzhou, China
| | - Jing Zhang
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
- Guangdong Provincial Key Laboratory of New Technology in Rice Breeding, Guangzhou, China
| | - Li-Qun Jiang
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
- Guangdong Provincial Key Laboratory of New Technology in Rice Breeding, Guangzhou, China
| | - Shuwei Lv
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
- Guangdong Provincial Key Laboratory of New Technology in Rice Breeding, Guangzhou, China
| | - Da-Jian Pan
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
- Guangdong Provincial Key Laboratory of New Technology in Rice Breeding, Guangzhou, China
| | - Chen Li
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
- Guangdong Provincial Key Laboratory of New Technology in Rice Breeding, Guangzhou, China
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Egamberdieva D, Li L, Ma H, Wirth S, Bellingrath-Kimura SD. Soil Amendment With Different Maize Biochars Improves Chickpea Growth Under Different Moisture Levels by Improving Symbiotic Performance With Mesorhizobium ciceri and Soil Biochemical Properties to Varying Degrees. Front Microbiol 2019; 10:2423. [PMID: 31749774 PMCID: PMC6842948 DOI: 10.3389/fmicb.2019.02423] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2019] [Accepted: 10/07/2019] [Indexed: 12/02/2022] Open
Abstract
Chickpea (Cicer arietinum L.) is an important legume originating in the Mediterranean and the Middle East and is now cultivated in several varieties throughout the world due to its high protein and fiber content as well as its potential health benefits. However, production is drastically affected by prevalent water stress in most soybean-growing regions. This study investigates the potential of biochar to affect chickpea-Rhizobium symbiotic performance and soil biological activity in a pot experiment. Two different biochar types were produced from maize using different pyrolysis techniques, i.e., by heating at 600°C (MBC) and by batch-wise hydrothermal carbonization at 210°C (HTC), and used as soil amendments. The plant biomass, plant nutrient concentration, nodule numbers, leghemoglobin (Lb) content, soil enzyme activities, and nutrient contents of the grown chickpeas were examined. Our results indicated that plant root and shoot biomass, the acquisition of N, P, K, and Mg, soil nutrient contents, soil alkaline and acid phosphomonoesterases, and proteases were significantly increased by HTC char application in comparison to MBC char under both well-watered and drought conditions. Furthermore, the application of both biochar types caused an increase in nodule number by 52% in well-watered and drought conditions by improving the symbiotic performance of chickpea with Mesorhizobium ciceri. Rhizobial inoculation combined with HTC char showed a positive effect on soil FDA activity, proteases and alkaline phosphomonoesterases under well-watered and drought conditions compared to the control or MBC char-amended soils. This concept, whereby the type of producing biochar plays a central role in the effect of the biochar, conforms to the fact that there is a link between biochar chemical and physical properties and enhanced plant nutrient acquisition, symbiotic performance and stress tolerance.
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Affiliation(s)
- Dilfuza Egamberdieva
- Leibniz Centre for Agricultural Landscape Research, Müncheberg, Germany
- Department of Microbiology, Faculty of Biology, National University of Uzbekistan, Tashkent, Uzbekistan
- CAS Key Laboratory of Biogeography and Bioresource in Arid Land, Xinjiang Institute of Ecology and Geography, Ürümqi, China
| | - Li Li
- CAS Key Laboratory of Biogeography and Bioresource in Arid Land, Xinjiang Institute of Ecology and Geography, Ürümqi, China
| | - Hua Ma
- Leibniz Centre for Agricultural Landscape Research, Müncheberg, Germany
| | - Stephan Wirth
- Leibniz Centre for Agricultural Landscape Research, Müncheberg, Germany
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Analysis of genetic diversity and population structure using SSR markers and validation of a Cleavage Amplified Polymorphic Sequences (CAPS) marker involving the sodium transporter OsHKT1;5 in saline tolerant rice (Oryza sativa L.) landraces. Gene 2019; 713:143976. [PMID: 31306715 DOI: 10.1016/j.gene.2019.143976] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Revised: 07/11/2019] [Accepted: 07/11/2019] [Indexed: 11/21/2022]
Abstract
Naturally evolved saline tolerant rice landraces found along the coastline of India are a valuable genomic resource to explore the complex, polygenic nature of salinity tolerance. In the present study, a set of 28 genome wide SSR markers, 11 salt responsive genic SSR markers and 8 Saltol QTL linked SSR markers were used to estimate genetic relatedness and population structure within a collection of 47 rice landraces (including a tolerant and 2 sensitive checks) originating from geographically divergent coastal regions of India. All three marker types identified substantial genetic variation among the landraces, as evident from their higher PIC values (0.53 for genomic SSRs, 0.43 for Genic SSRs and 0.59 for Saltol SSRs). The markers RM431, RM484 (Genomic SSRs), OsCAX (D), OsCAX (T) (Genic SSRs) and RM562 (Saltol SSR) were identified as good candidates to be used in breeding programs for improving salinity tolerance in rice. STRUCTURE analysis divided the landraces into five distinct populations, with classification correlating with their geographical locations. Principal coordinate and hierarchical cluster analyses (UPGMA and neighbor joining) are in close agreement with STRUCTURE results. AMOVA analysis indicated a higher magnitude of genetic differentiation within individuals of groups (58%), than among groups (42%). We also report the development and validation of a new Cleavage Amplified Polymorphic Sequence (CAPS) marker (OsHKT1;5V395) that targets a codon in the sodium transporter gene OsHKT1;5 (Saltol/SKC1 locus) that is associated with sodium transport rates in the above rice landraces. The CAPS marker was found to be present in all landraces except in IR29, Kamini, Gheus, Matla 1 and Matla 2. Significant molecular genetic diversity established among the analyzed salt tolerant rice landraces will aid in future association mapping; the CAPS marker, OsHKT1;5V395 can be used to map rice landraces for the presence of the SNP (Single Nucleotide Polymorphism) associated with increased sodium transport rates and concomitant salinity tolerance in rice.
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Shameer K, Naika MB, Shafi KM, Sowdhamini R. Decoding systems biology of plant stress for sustainable agriculture development and optimized food production. PROGRESS IN BIOPHYSICS AND MOLECULAR BIOLOGY 2019; 145:19-39. [DOI: 10.1016/j.pbiomolbio.2018.12.002] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2017] [Revised: 10/23/2018] [Accepted: 12/06/2018] [Indexed: 12/13/2022]
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Riahi J, Amri B, Chibani F, Azri W, Mejri S, Bennani L, Zoghlami N, Matros A, Mock HP, Ghorbel A, Jardak R. Comparative analyses of albumin/globulin grain proteome fraction in differentially salt-tolerant Tunisian barley landraces reveals genotype-specific and defined abundant proteins. PLANT BIOLOGY (STUTTGART, GERMANY) 2019; 21:652-661. [PMID: 30672087 DOI: 10.1111/plb.12965] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2018] [Accepted: 01/18/2019] [Indexed: 06/09/2023]
Abstract
Salinity is one of the major abiotic stresses threatening crop production and yield worldwide. Breeding programmes are therefore needed to improve yield under cultivation in soil. Traits from locally adopted landraces provide a resource to assist breeding of novel elite genotypes. Here, we examine differentially expressed proteins by performing comparative proteomic profiling of the albumin/globulin grain fraction of Tunisian barley genotype landraces with contrasting salinity tolerance. Tunisian barley Boulifa (B, tolerant) and Testour (T, sensitive) mature grains were assessed in 2-DE profiles. Differentially expressed spots, with an abundance enhanced 1.5-fold in the grain, were subjected to MALDI TOF/TOF MS for identification. Distinctiveness between tolerant and sensitive genotypes was proved in the albumin/globulin fraction using PCA; 64 spots showed significant differential abundance. Increased accumulation of 40 spots was confirmed in Boulifa with, interestingly, four genotype-specific spots. Two of these four spots were sHSP. Proteins with highest abundance were serpin Z7, 16.9 KDa Class I HSP and phosphogluconolactonase 2. Proteins such as expansin, kiwellin, kinesin and succinyl-CoA ligase were identified for the first time in barley grain. Moreover, ß-amylase, LEA family and others were identified as abundant in Boulifa. On the other hand, proteins more accumulated in Testour are implicated mainly in ROS scavenging and protease inhibition. Our results clearly indicate proteomic contrast between the two selected genotypes. With identification of specific HSP, high abundant stress-protective and other defined proteins, we provide biochemical traits that will support breeding programmes to address the threat of salinity in agricultural production.
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Affiliation(s)
- J Riahi
- Laboratory of Plant Molecular Physiology, Biotechnology Center of Borj Cedria, Hammam-Lif, Tunisia
| | - B Amri
- Laboratory of Plant Molecular Physiology, Biotechnology Center of Borj Cedria, Hammam-Lif, Tunisia
| | - F Chibani
- Laboratory of Plant Molecular Physiology, Biotechnology Center of Borj Cedria, Hammam-Lif, Tunisia
| | - W Azri
- Laboratory of Plant Molecular Physiology, Biotechnology Center of Borj Cedria, Hammam-Lif, Tunisia
| | - S Mejri
- Laboratory of Plant Molecular Physiology, Biotechnology Center of Borj Cedria, Hammam-Lif, Tunisia
| | - L Bennani
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Germany
| | - N Zoghlami
- Laboratory of Plant Molecular Physiology, Biotechnology Center of Borj Cedria, Hammam-Lif, Tunisia
| | - A Matros
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Germany
| | - H P Mock
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Germany
| | - A Ghorbel
- Laboratory of Plant Molecular Physiology, Biotechnology Center of Borj Cedria, Hammam-Lif, Tunisia
| | - R Jardak
- Laboratory of Plant Molecular Physiology, Biotechnology Center of Borj Cedria, Hammam-Lif, Tunisia
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Wiegmann M, Maurer A, Pham A, March TJ, Al-Abdallat A, Thomas WTB, Bull HJ, Shahid M, Eglinton J, Baum M, Flavell AJ, Tester M, Pillen K. Barley yield formation under abiotic stress depends on the interplay between flowering time genes and environmental cues. Sci Rep 2019; 9:6397. [PMID: 31024028 PMCID: PMC6484077 DOI: 10.1038/s41598-019-42673-1] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2018] [Accepted: 04/05/2019] [Indexed: 01/28/2023] Open
Abstract
Since the dawn of agriculture, crop yield has always been impaired through abiotic stresses. In a field trial across five locations worldwide, we tested three abiotic stresses, nitrogen deficiency, drought and salinity, using HEB-YIELD, a selected subset of the wild barley nested association mapping population HEB-25. We show that barley flowering time genes Ppd-H1, Sdw1, Vrn-H1 and Vrn-H3 exert pleiotropic effects on plant development and grain yield. Under field conditions, these effects are strongly influenced by environmental cues like day length and temperature. For example, in Al-Karak, Jordan, the day length-sensitive wild barley allele of Ppd-H1 was associated with an increase of grain yield by up to 30% compared to the insensitive elite barley allele. The observed yield increase is accompanied by pleiotropic effects of Ppd-H1 resulting in shorter life cycle, extended grain filling period and increased grain size. Our study indicates that the adequate timing of plant development is crucial to maximize yield formation under harsh environmental conditions. We provide evidence that wild barley alleles, introgressed into elite barley cultivars, can be utilized to support grain yield formation. The presented knowledge may be transferred to related crop species like wheat and rice securing the rising global food demand for cereals.
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Affiliation(s)
- Mathias Wiegmann
- Martin Luther University Halle-Wittenberg, Institute of Agricultural and Nutritional Sciences, Betty-Heimann-Str. 3, 06120, Halle, Germany
| | - Andreas Maurer
- Martin Luther University Halle-Wittenberg, Institute of Agricultural and Nutritional Sciences, Betty-Heimann-Str. 3, 06120, Halle, Germany
| | - Anh Pham
- The University of Adelaide, School of Agriculture, Food and Wine, Adelaide, SA, 5064, Australia
| | - Timothy J March
- The University of Adelaide, School of Agriculture, Food and Wine, Adelaide, SA, 5064, Australia
- Rijk Zwaan Australia Pty. Ltd., PO Box 284, Daylesford, 3460, Australia
| | - Ayed Al-Abdallat
- The University of Jordan, Faculty of Agriculture, Department of Horticulture and Crop Science, Amman, Jordan
| | | | - Hazel J Bull
- The James Hutton Institute, Invergrowie, Dundee, DD2 5DA, Scotland, UK
- Syngenta UK Ltd, Market Stainton, Market Rasen, Lincolnshire, LN8 5LJ, UK
| | - Mohammed Shahid
- International Center for Biosaline Agriculture, Dubai, United Arab Emirates
| | - Jason Eglinton
- The University of Adelaide, School of Agriculture, Food and Wine, Adelaide, SA, 5064, Australia
- Sugar Research Australia, 71378 Bruce Highway, Gordonvale, Queensland, Australia
| | - Michael Baum
- International Center for Agricultural Research in the Dry Areas (ICARDA), Dalia Building 2nd Floor, Bashir El Kassar Street, Verdun, Beirut, Lebanon
| | - Andrew J Flavell
- University of Dundee at JHI, School of Life Sciences, Invergrowie, Dundee, DD2 5DA, Scotland, UK
| | - Mark Tester
- King Abdullah University of Science and Technology, Biological and Environmental Sciences and Engineering, Thuwal, 23955-6900, Saudi Arabia
| | - Klaus Pillen
- Martin Luther University Halle-Wittenberg, Institute of Agricultural and Nutritional Sciences, Betty-Heimann-Str. 3, 06120, Halle, Germany.
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Ganie SA, Molla KA, Henry RJ, Bhat KV, Mondal TK. Advances in understanding salt tolerance in rice. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2019; 132:851-870. [PMID: 30759266 DOI: 10.1007/s00122-019-03301-8] [Citation(s) in RCA: 84] [Impact Index Per Article: 16.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/19/2018] [Accepted: 02/02/2019] [Indexed: 05/03/2023]
Abstract
This review presents a comprehensive overview of the recent research on rice salt tolerance in the areas of genomics, proteomics, metabolomics and chemical genomics. Salinity is one of the major constraints in rice cultivation globally. Traditionally, rice is a glycophyte except for a few genotypes that have been widely used in salinity tolerance breeding of rice. Both seedling and reproductive stages of rice are considered to be the salt-susceptible stages; however, research efforts have been biased towards improving the understanding of seedling-stage salt tolerance. An extensive literature survey indicated that there have been very few attempts to develop reproductive stage-specific salt tolerance in rice probably due to the lack of salt-tolerant phenotypes at the reproductive stage. Recently, the role of DNA methylation, genome duplication and codon usage bias in salinity tolerance of rice have been studied. Furthermore, the study of exogenous salt stress alleviants in rice has opened up another potential avenue for understanding and improving its salt tolerance. There is a need to not only generate additional genomic resources in the form of salt-responsive QTLs and molecular markers and to characterize the genes and their upstream regulatory regions, but also to use them to gain deep insights into the mechanisms useful for developing tolerant varieties. We analysed the genomic locations of diverse salt-responsive genomic resources and found that rice chromosomes 1-6 possess the majority of these salinity-responsive genomic resources. The review presents a comprehensive overview of the recent research on rice salt tolerance in the areas of genomics, proteomics, metabolomics and chemical genomics, which should help in understanding the molecular basis of salinity tolerance and its more effective improvement in rice.
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Affiliation(s)
- Showkat Ahmad Ganie
- ICAR-National Bureau of Plant Genetic Resources, IARI Campus, Pusa, New Delhi, 110012, India
| | - Kutubuddin Ali Molla
- ICAR-National Bureau of Plant Genetic Resources, IARI Campus, Pusa, New Delhi, 110012, India
| | - Robert J Henry
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD, 4072, Australia
| | - K V Bhat
- ICAR-National Bureau of Plant Genetic Resources, IARI Campus, Pusa, New Delhi, 110012, India
| | - Tapan Kumar Mondal
- ICAR-National Bureau of Plant Genetic Resources, IARI Campus, Pusa, New Delhi, 110012, India.
- ICAR-National Research Centre on Plant Biotechnology, IARI, Pusa, New Delhi, 110012, India.
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Wang Q, Ni J, Shah F, Liu W, Wang D, Yao Y, Hu H, Huang S, Hou J, Fu S, Wu L. Overexpression of the Stress-Inducible SsMAX2 Promotes Drought and Salt Resistance via the Regulation of Redox Homeostasis in Arabidopsis. Int J Mol Sci 2019; 20:ijms20040837. [PMID: 30781340 PMCID: PMC6412474 DOI: 10.3390/ijms20040837] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2019] [Revised: 02/12/2019] [Accepted: 02/12/2019] [Indexed: 12/30/2022] Open
Abstract
Recent studies have demonstrated that strigolactones (SLs) also participate in the regulation of stress adaptation; however, the regulatory mechanism remains elusive. In this study, the homolog of More Axillary Branches 2, which encodes a key component in SL signaling, in the perennial oil plant Sapium sebiferum was identified and functionally characterized in Arabidopsis. The results showed that the expression of SsMAX2 in S. sebiferum seedlings was stress-responsive, and SsMAX2 overexpression (OE) in Arabidopsis significantly promoted resistance to drought, osmotic, and salt stresses. Moreover, SsMAX2 OE lines exhibited decreased chlorophyll degradation, increased soluble sugar and proline accumulation, and lower water loss ratio in response to the stresses. Importantly, anthocyanin biosynthesis and the activities of several antioxidant enzymes, such as superoxide dismutase (SOD), peroxidase (POD), and ascorbate peroxidase (APX), were enhanced in the SsMAX2 OE lines, which further led to a significant reduction in hydrogen peroxide levels. Additionally, the SsMAX2 OE lines exhibited higher expression level of several abscisic acid (ABA) biosynthesis genes, suggesting potential interactions between SL and ABA in the regulation of stress adaptation. Overall, we provide physiological and biochemical evidence demonstrating the pivotal role of SsMAX2 in the regulation of osmotic, drought, and salt stress resistance and show that MAX2 can be a genetic target to improve stress tolerance.
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Affiliation(s)
- Qiaojian Wang
- College of Forestry and Landscape Architecture, Anhui Agricultural University, Hefei 230000, Anhui, China.
- Key Laboratory of High Magnetic Field and Ion Beam Physical Biology, Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei 230000, Anhui, China.
| | - Jun Ni
- Key Laboratory of High Magnetic Field and Ion Beam Physical Biology, Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei 230000, Anhui, China.
| | - Faheem Shah
- Key Laboratory of High Magnetic Field and Ion Beam Physical Biology, Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei 230000, Anhui, China.
| | - Wenbo Liu
- Key Laboratory of High Magnetic Field and Ion Beam Physical Biology, Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei 230000, Anhui, China.
| | - Dongdong Wang
- College of Forestry and Landscape Architecture, Anhui Agricultural University, Hefei 230000, Anhui, China.
- Key Laboratory of High Magnetic Field and Ion Beam Physical Biology, Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei 230000, Anhui, China.
| | - Yuanyuan Yao
- Key Laboratory of High Magnetic Field and Ion Beam Physical Biology, Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei 230000, Anhui, China.
| | - Hao Hu
- Key Laboratory of High Magnetic Field and Ion Beam Physical Biology, Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei 230000, Anhui, China.
| | - Shengwei Huang
- Key Laboratory of High Magnetic Field and Ion Beam Physical Biology, Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei 230000, Anhui, China.
| | - Jinyan Hou
- Key Laboratory of High Magnetic Field and Ion Beam Physical Biology, Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei 230000, Anhui, China.
| | - Songling Fu
- College of Forestry and Landscape Architecture, Anhui Agricultural University, Hefei 230000, Anhui, China.
| | - Lifang Wu
- Key Laboratory of High Magnetic Field and Ion Beam Physical Biology, Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei 230000, Anhui, China.
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Raza A, Razzaq A, Mehmood SS, Zou X, Zhang X, Lv Y, Xu J. Impact of Climate Change on Crops Adaptation and Strategies to Tackle Its Outcome: A Review. PLANTS (BASEL, SWITZERLAND) 2019; 8:E34. [PMID: 30704089 PMCID: PMC6409995 DOI: 10.3390/plants8020034] [Citation(s) in RCA: 379] [Impact Index Per Article: 75.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/28/2018] [Revised: 01/16/2019] [Accepted: 01/28/2019] [Indexed: 11/17/2022]
Abstract
Agriculture and climate change are internally correlated with each other in various aspects, as climate change is the main cause of biotic and abiotic stresses, which have adverse effects on the agriculture of a region. The land and its agriculture are being affected by climate changes in different ways, e.g., variations in annual rainfall, average temperature, heat waves, modifications in weeds, pests or microbes, global change of atmospheric CO₂ or ozone level, and fluctuations in sea level. The threat of varying global climate has greatly driven the attention of scientists, as these variations are imparting negative impact on global crop production and compromising food security worldwide. According to some predicted reports, agriculture is considered the most endangered activity adversely affected by climate changes. To date, food security and ecosystem resilience are the most concerning subjects worldwide. Climate-smart agriculture is the only way to lower the negative impact of climate variations on crop adaptation, before it might affect global crop production drastically. In this review paper, we summarize the causes of climate change, stresses produced due to climate change, impacts on crops, modern breeding technologies, and biotechnological strategies to cope with climate change, in order to develop climate resilient crops. Revolutions in genetic engineering techniques can also aid in overcoming food security issues against extreme environmental conditions, by producing transgenic plants.
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Affiliation(s)
- Ali Raza
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences (CAAS), Wuhan 430062, China.
| | - Ali Razzaq
- Centre of Agricultural Biochemistry and Biotechnology (CABB), University of Agriculture, Faisalabad 38040, Pakistan.
| | - Sundas Saher Mehmood
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences (CAAS), Wuhan 430062, China.
| | - Xiling Zou
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences (CAAS), Wuhan 430062, China.
| | - Xuekun Zhang
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences (CAAS), Wuhan 430062, China.
| | - Yan Lv
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences (CAAS), Wuhan 430062, China.
| | - Jinsong Xu
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences (CAAS), Wuhan 430062, China.
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Cruz JA, Savage LJ, Zegarac R, Hall CC, Satoh-Cruz M, Davis GA, Kovac WK, Chen J, Kramer DM. Dynamic Environmental Photosynthetic Imaging Reveals Emergent Phenotypes. Cell Syst 2018; 2:365-77. [PMID: 27336966 DOI: 10.1016/j.cels.2016.06.001] [Citation(s) in RCA: 71] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2016] [Revised: 05/29/2016] [Accepted: 06/01/2016] [Indexed: 10/21/2022]
Abstract
Understanding and improving the productivity and robustness of plant photosynthesis requires high-throughput phenotyping under environmental conditions that are relevant to the field. Here we demonstrate the dynamic environmental photosynthesis imager (DEPI), an experimental platform for integrated, continuous, and high-throughput measurements of photosynthetic parameters during plant growth under reproducible yet dynamic environmental conditions. Using parallel imagers obviates the need to move plants or sensors, reducing artifacts and allowing simultaneous measurement on large numbers of plants. As a result, DEPI can reveal phenotypes that are not evident under standard laboratory conditions but emerge under progressively more dynamic illumination. We show examples in mutants of Arabidopsis of such "emergent phenotypes" that are highly transient and heterogeneous, appearing in different leaves under different conditions and depending in complex ways on both environmental conditions and plant developmental age. These emergent phenotypes appear to be caused by a range of phenomena, suggesting that such previously unseen processes are critical for plant responses to dynamic environments.
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Affiliation(s)
- Jeffrey A Cruz
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA; Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI 48824, USA
| | - Linda J Savage
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA
| | - Robert Zegarac
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA
| | - Christopher C Hall
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA; Plant Biology, Michigan State University, East Lansing, MI 48824, USA
| | - Mio Satoh-Cruz
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA
| | - Geoffry A Davis
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA; Cell and Molecular Biology, Michigan State University, East Lansing, MI 48824, USA
| | - William Kent Kovac
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA; Plant Biology, Michigan State University, East Lansing, MI 48824, USA
| | - Jin Chen
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA; Computer Science and Engineering, Michigan State University, East Lansing, MI 48824, USA
| | - David M Kramer
- MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA; Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI 48824, USA; Plant Biology, Michigan State University, East Lansing, MI 48824, USA.
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Shukla PS, Borza T, Critchley AT, Hiltz D, Norrie J, Prithiviraj B. Ascophyllum nodosum extract mitigates salinity stress in Arabidopsis thaliana by modulating the expression of miRNA involved in stress tolerance and nutrient acquisition. PLoS One 2018; 13:e0206221. [PMID: 30372454 PMCID: PMC6205635 DOI: 10.1371/journal.pone.0206221] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2018] [Accepted: 10/09/2018] [Indexed: 11/25/2022] Open
Abstract
Ascophyllum nodosum extract (ANE) contains bioactive compounds that improve the growth of Arabidopsis in experimentally-induced saline conditions; however, the molecular mechanisms through which ANE elicits tolerance to salinity remain largely unexplored. Micro RNAs (miRNAs) are key regulators of gene expression, playing crucial roles in plant growth, development, and stress tolerance. Next generation sequencing of miRNAs from leaves of control Arabidopsis and from plants subjected to three treatments (ANE, NaCl and ANE+NaCl) was used to identify ANE-responsive miRNA in the absence and presence of saline conditions. Differential gene expression analysis revealed that ANE had a strong effect on miRNAs expression in both conditions. In the presence of salinity, ANE tended to reduce the up-regulation or the down-regulation trend induced caused by NaCl in miRNAs such as ath-miR396a-5p, ath-miR399, ath-miR2111b and ath-miR827. To further uncover the effects of ANE, the expression of several target genes of a number of ANE-responsive miRNAs was analyzed by qPCR. NaCl, but not ANE, down-regulated miR396a-5p, which negatively regulated the expression of AtGRF7 leading to a higher expression of AtDREB2a and AtRD29 in the presence of ANE+NaCl, as compared to ANE alone. ANE+NaCl initially reduced and then enhanced the expression of ath-miR169g-5p, while the expression of the target genes AtNFYA1 and ATNFYA2, known to be involved in the salinity tolerance mechanism, was increased as compared to ANE or to NaCl treatments. ANE and ANE+NaCl modified the expression of ath-miR399, ath-miR827, ath-miR2111b, and their target genes AtUBC24, AtWAK2, AtSYG1 and At3g27150, suggesting a role of ANE in phosphate homeostasis. In vivo and in vitro experiments confirmed the improved growth of Arabidopsis in presence of ANE, in saline conditions and in phosphate-deprived medium, further substantiating the influence of ANE on a variety of essential physiological processes in Arabidopsis including salinity tolerance and phosphate uptake.
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Affiliation(s)
- Pushp Sheel Shukla
- Marine Bio-products Research Laboratory, Dalhousie University, Department of Plant, Food and Environmental Sciences, Truro, Nova Scotia, Canada
| | - Tudor Borza
- Marine Bio-products Research Laboratory, Dalhousie University, Department of Plant, Food and Environmental Sciences, Truro, Nova Scotia, Canada
| | - Alan T. Critchley
- Research and Development, Acadian Seaplants Limited, Dartmouth, Nova Scotia, Canada
| | - David Hiltz
- Research and Development, Acadian Seaplants Limited, Dartmouth, Nova Scotia, Canada
| | - Jeff Norrie
- Research and Development, Acadian Seaplants Limited, Dartmouth, Nova Scotia, Canada
| | - Balakrishnan Prithiviraj
- Marine Bio-products Research Laboratory, Dalhousie University, Department of Plant, Food and Environmental Sciences, Truro, Nova Scotia, Canada
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Kumar J, Basu PS, Gupta S, Dubey S, Sen Gupta D, Singh NP. Physiological and molecular characterisation for high temperature stress in Lens culinaris. FUNCTIONAL PLANT BIOLOGY : FPB 2018; 45:474-487. [PMID: 32290986 DOI: 10.1071/fp17211] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2017] [Accepted: 10/16/2017] [Indexed: 05/10/2023]
Abstract
In the present study, 11 lentil (Lens culinaris Medik) genotypes including heat tolerant and heat sensitive genotypes identified after a screening of 334 accessions of lentil for traits imparting heat tolerance, were characterised based on physiological traits and molecular markers. Results showed a higher reduction in pollen viability among sensitive genotypes (up to 52.3%) compared with tolerant genotypes (up to 32.4%) at 43°C. Higher photosynthetic electron transport rate was observed among heat tolerant genotypes and two heat tolerant lentil genotypes, IG 4258 (0.43) and IG 3330 (0.38) were having highest Fv/Fm values. However, membrane stability was significantly higher in only one heat tolerant genotype, ILL 10712, indicating that different mechanisms are involved to control heat tolerance in lentil. The molecular characterisation of lentil genotypes with 70 polymorphic SSR and genic markers resulted into distinct clusters in accordance with their heat stress tolerance. A functional marker ISM11257 (intron spanning marker) amplifying an allele of 205bp in size was present only among heat tolerant genotypes, and could be further used in a breeding program to identify heat tolerant lentil genotypes. The findings of this study will contribute to the development of heat tolerant lentil cultivars.
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Affiliation(s)
- Jitendra Kumar
- Division of Crop Improvement, ICAR-Indian Institute of Pulses Research, Kalyanpur, Kanpur - 208024, India
| | - Partha Sarathi Basu
- Division of Basic Sciences, ICAR-Indian Institute of Pulses Research, Kalyanpur, Kanpur - 208024, India
| | - Sunanda Gupta
- Division of Crop Improvement, ICAR-Indian Institute of Pulses Research, Kalyanpur, Kanpur - 208024, India
| | - Sonali Dubey
- Division of Crop Improvement, ICAR-Indian Institute of Pulses Research, Kalyanpur, Kanpur - 208024, India
| | - Debjyoti Sen Gupta
- Division of Crop Improvement, ICAR-Indian Institute of Pulses Research, Kalyanpur, Kanpur - 208024, India
| | - Narendra Pratap Singh
- Division of Biotechnology, ICAR-Indian Institute of Pulses Research, Kalyanpur, Kanpur - 208024, India
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Leisner CP, Yendrek CR, Ainsworth EA. Physiological and transcriptomic responses in the seed coat of field-grown soybean (Glycine max L. Merr.) to abiotic stress. BMC PLANT BIOLOGY 2017; 17:242. [PMID: 29233093 PMCID: PMC5727933 DOI: 10.1186/s12870-017-1188-y] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/25/2017] [Accepted: 11/30/2017] [Indexed: 05/10/2023]
Abstract
BACKGROUND Understanding how intensification of abiotic stress due to global climate change affects crop yields is important for continued agricultural productivity. Coupling genomic technologies with physiological crop responses in a dynamic field environment is an effective approach to dissect the mechanisms underpinning crop responses to abiotic stress. Soybean (Glycine max L. Merr. cv. Pioneer 93B15) was grown in natural production environments with projected changes to environmental conditions predicted for the end of the century, including decreased precipitation, increased tropospheric ozone concentrations ([O3]), or increased temperature. RESULTS All three environmental stresses significantly decreased leaf-level photosynthesis and stomatal conductance, leading to significant losses in seed yield. This was driven by a significant decrease in the number of pods per node for all abiotic stress treatments. To understand the underlying transcriptomic response involved in the yield response to environmental stress, RNA-Sequencing analysis was performed on the soybean seed coat, a tissue that plays an essential role in regulating carbon and nitrogen transport to developing seeds. Gene expression analysis revealed 49, 148 and 1,576 differentially expressed genes in the soybean seed coat in response to drought, elevated [O3] and elevated temperature, respectively. CONCLUSIONS Elevated [O3] and drought did not elicit substantive transcriptional changes in the soybean seed coat. However, this may be due to the timing of sampling and does not preclude impacts of those stresses on different tissues or different stages in seed coat development. Expression of genes involved in DNA replication and metabolic processes were enriched in the seed coat under high temperate stress, suggesting that the timing of events that are important for cell division and proper seed development were altered in a stressful growth environment.
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Affiliation(s)
- Courtney P. Leisner
- Department of Plant Biology, University of Illinois, Urbana-Champaign, Urbana, IL 61801 USA
- Current address: Department of Plant Biology, Michigan State University, East Lansing, MI 48824 USA
| | - Craig R. Yendrek
- Institute for Genomic Biology, University of Illinois, Urbana-Champaign, Urbana, IL 61801 USA
- Current address: The Scotts Company, Marysville, OH 43040 USA
| | - Elizabeth A. Ainsworth
- Department of Plant Biology, University of Illinois, Urbana-Champaign, Urbana, IL 61801 USA
- Institute for Genomic Biology, University of Illinois, Urbana-Champaign, Urbana, IL 61801 USA
- USDA ARS Global Change and Photosynthesis Research Unit, 1201 W Gregory Drive, Urbana, IL 61801 USA
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Kaashyap M, Ford R, Bohra A, Kuvalekar A, Mantri N. Improving Salt Tolerance of Chickpea Using Modern Genomics Tools and Molecular Breeding. Curr Genomics 2017; 18:557-567. [PMID: 29204084 PMCID: PMC5684649 DOI: 10.2174/1389202918666170705155252] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2016] [Revised: 11/28/2016] [Accepted: 12/15/2016] [Indexed: 11/22/2022] Open
Abstract
INTRODUCTION The high protein value, essential minerals, dietary fibre and notable ability to fix atmospheric nitrogen make chickpea a highly remunerative crop, particularly in low-input food production systems. Of the variety of constraints challenging chickpea productivity worldwide, salinity remains of prime concern owing to the intrinsic sensitivity of the crop. In view of the projected expansion of chickpea into arable and salt-stressed land by 2050, increasing attention is being placed on improving the salt tolerance of this crop. Considerable effort is currently underway to address salinity stress and substantial breeding progress is being made despite the seemingly highly-complex and environment-dependent nature of the tolerance trait. CONCLUSION This review aims to provide a holistic view of recent advances in breeding chickpea for salt tolerance. Initially, we focus on the identification of novel genetic resources for salt tolerance via extensive germplasm screening. We then expand on the use of genome-wide and cost-effective techniques to gain new insights into the genetic control of salt tolerance, including the responsive genes/QTL(s), gene(s) networks/cross talk and intricate signalling cascades.
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Affiliation(s)
- Mayank Kaashyap
- School of Science, RMIT University, Melbourne, 3000, Victoria, Australia
| | - Rebecca Ford
- Environmental Futures Research Institute, School of Natural Sciences, Griffith University, Queensland 4111, Australia
| | - Abhishek Bohra
- Crop Improvement Division, Indian Institute of Pulses Research, Kanpur, India
| | - Aniket Kuvalekar
- Interactive Research School for Health Affairs, Bharati Vidyapeeth University, Pune-Satara Road, Pune, Maharashtra, 411043, India
| | - Nitin Mantri
- School of Science, RMIT University, Melbourne, 3000, Victoria, Australia
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Sita K, Sehgal A, HanumanthaRao B, Nair RM, Vara Prasad PV, Kumar S, Gaur PM, Farooq M, Siddique KHM, Varshney RK, Nayyar H. Food Legumes and Rising Temperatures: Effects, Adaptive Functional Mechanisms Specific to Reproductive Growth Stage and Strategies to Improve Heat Tolerance. FRONTIERS IN PLANT SCIENCE 2017; 8:1658. [PMID: 29123532 PMCID: PMC5662899 DOI: 10.3389/fpls.2017.01658] [Citation(s) in RCA: 59] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2017] [Accepted: 09/08/2017] [Indexed: 05/20/2023]
Abstract
Ambient temperatures are predicted to rise in the future owing to several reasons associated with global climate changes. These temperature increases can result in heat stress- a severe threat to crop production in most countries. Legumes are well-known for their impact on agricultural sustainability as well as their nutritional and health benefits. Heat stress imposes challenges for legume crops and has deleterious effects on the morphology, physiology, and reproductive growth of plants. High-temperature stress at the time of the reproductive stage is becoming a severe limitation for production of grain legumes as their cultivation expands to warmer environments and temperature variability increases due to climate change. The reproductive period is vital in the life cycle of all plants and is susceptible to high-temperature stress as various metabolic processes are adversely impacted during this phase, which reduces crop yield. Food legumes exposed to high-temperature stress during reproduction show flower abortion, pollen and ovule infertility, impaired fertilization, and reduced seed filling, leading to smaller seeds and poor yields. Through various breeding techniques, heat tolerance in major legumes can be enhanced to improve performance in the field. Omics approaches unravel different mechanisms underlying thermotolerance, which is imperative to understand the processes of molecular responses toward high-temperature stress.
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Affiliation(s)
- Kumari Sita
- Department of Botany, Panjab University, Chandigarh, India
| | | | | | | | - P. V. Vara Prasad
- Sustainable Intensification Innovation Lab, Kansas State University, Manhattan, KS, United States
| | - Shiv Kumar
- International Center for Agricultural Research in the Dry Areas, Rabat, Morocco
| | - Pooran M. Gaur
- International Crops Research Institute for the Semi-Arid Tropics, Hyderabad, India
| | - Muhammad Farooq
- Department of Agronomy, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | | | - Rajeev K. Varshney
- International Crops Research Institute for the Semi-Arid Tropics, Hyderabad, India
- The UWA Institute of Agriculture, University of Western Australia, Perth, WA, Australia
| | - Harsh Nayyar
- Department of Botany, Panjab University, Chandigarh, India
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