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Yadav RK, Tripathi MK, Tiwari S, Tripathi N, Asati R, Chauhan S, Tiwari PN, Payasi DK. Genome Editing and Improvement of Abiotic Stress Tolerance in Crop Plants. Life (Basel) 2023; 13:1456. [PMID: 37511831 PMCID: PMC10381907 DOI: 10.3390/life13071456] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2023] [Revised: 06/25/2023] [Accepted: 06/26/2023] [Indexed: 07/30/2023] Open
Abstract
Genome editing aims to revolutionise plant breeding and could assist in safeguarding the global food supply. The inclusion of a 12-40 bp recognition site makes mega nucleases the first tools utilized for genome editing and first generation gene-editing tools. Zinc finger nucleases (ZFNs) are the second gene-editing technique, and because they create double-stranded breaks, they are more dependable and effective. ZFNs were the original designed nuclease-based approach of genome editing. The Cys2-His2 zinc finger domain's discovery made this technique possible. Clustered regularly interspaced short palindromic repeats (CRISPR) are utilized to improve genetics, boost biomass production, increase nutrient usage efficiency, and develop disease resistance. Plant genomes can be effectively modified using genome-editing technologies to enhance characteristics without introducing foreign DNA into the genome. Next-generation plant breeding will soon be defined by these exact breeding methods. There is abroad promise that genome-edited crops will be essential in the years to come for improving the sustainability and climate-change resilience of food systems. This method also has great potential for enhancing crops' resistance to various abiotic stressors. In this review paper, we summarize the most recent findings about the mechanism of abiotic stress response in crop plants and the use of the CRISPR/Cas mediated gene-editing systems to improve tolerance to stresses including drought, salinity, cold, heat, and heavy metals.
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Affiliation(s)
- Rakesh Kumar Yadav
- Department of Genetics & Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Manoj Kumar Tripathi
- Department of Genetics & Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
- Department of Plant Molecular Biology & Biotechnology, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Sushma Tiwari
- Department of Genetics & Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
- Department of Plant Molecular Biology & Biotechnology, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Niraj Tripathi
- Directorate of Research Services, Jawaharlal Nehru Krishi Vishwa Vidyalaya, Jabalpur 482004, India
| | - Ruchi Asati
- Department of Genetics & Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Shailja Chauhan
- Department of Genetics & Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Prakash Narayan Tiwari
- Department of Plant Molecular Biology & Biotechnology, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
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Singh J, Sharma D, Brar GS, Sandhu KS, Wani SH, Kashyap R, Kour A, Singh S. CRISPR/Cas tool designs for multiplex genome editing and its applications in developing biotic and abiotic stress-resistant crop plants. Mol Biol Rep 2022; 49:11443-11467. [PMID: 36002653 DOI: 10.1007/s11033-022-07741-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Revised: 05/22/2022] [Accepted: 06/22/2022] [Indexed: 11/28/2022]
Abstract
Crop plants are prone to several yield-reducing biotic and abiotic stresses. The crop yield reductions due to these stresses need addressing to maintain an adequate balance between the increasing world population and food production to avoid food scarcities in the future. It is impossible to increase the area under food crops proportionately to meet the rising food demand. In such an adverse scenario overcoming the biotic and abiotic stresses through biotechnological interventions may serve as a boon to help meet the globe's food requirements. Under the current genomic era, the wide availability of genomic resources and genome editing technologies such as Transcription Activator-Like Effector Nucleases (TALENs), Zinc Finger Nucleases (ZFNs), and Clustered-Regularly Interspaced Palindromic Repeats/CRISPR-associated proteins (CRISPR/Cas) has widened the scope of overcoming these stresses for several food crops. These techniques have made gene editing more manageable and accessible with changes at the embryo level by adding or deleting DNA sequences of the target gene(s) from the genome. The CRISPR construct consists of a single guide RNA having complementarity with the nucleotide fragments of the target gene sequence, accompanied by a protospacer adjacent motif. The target sequence in the organism's genome is then cleaved by the Cas9 endonuclease for obtaining a desired trait of interest. The current review describes the components, mechanisms, and types of CRISPR/Cas techniques and how this technology has helped to functionally characterize genes associated with various biotic and abiotic stresses in a target organism. This review also summarizes the application of CRISPR/Cas technology targeting these stresses in crops through knocking down/out of associated genes.
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Affiliation(s)
- Jagmohan Singh
- Division of Plant Pathology, Indian Agricultural Research Institute, 110012, New Delhi, India.,Guru Angad Dev Veterinary and Animal Science University, KVK, Barnala, India
| | - Dimple Sharma
- Department of Food Science and Human Nutrition, Michigan State University, 48824, East Lansing, MI, USA
| | - Gagandeep Singh Brar
- Department of Biological Sciences, North Dakota State University, 58102, Fargo, ND, USA
| | - Karansher Singh Sandhu
- Department of Crop and Soil Sciences, Washington State University, 99163, Pullman, WA, USA
| | - Shabir Hussain Wani
- Mountain Research Center for Field Crops, Sher-e-Kashmir University of Agricultural Sciences and Technology Srinagar, Khudwani, Srinagar, Jammu, Kashmir, India
| | - Ruchika Kashyap
- Department of Agronomy, Horticulture, and Plant Sciences, South Dakota State University, 57007, Brookings, SD, USA
| | - Amardeep Kour
- Regional Research Station, Punjab Agricultural University, 151001, Bathinda, Punjab, India
| | - Satnam Singh
- Regional Research Station, Punjab Agricultural University, 151203, Faridkot, Punjab, India.
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Mehta S, Kumar A, Achary VMM, Ganesan P, Rathi N, Singh A, Sahu KP, Lal SK, Das TK, Reddy MK. Antifungal activity of glyphosate against fungal blast disease on glyphosate-tolerant OsmEPSPS transgenic rice. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2021; 311:111009. [PMID: 34482912 DOI: 10.1016/j.plantsci.2021.111009] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2021] [Revised: 07/20/2021] [Accepted: 07/24/2021] [Indexed: 06/13/2023]
Abstract
Weeds, pests, and pathogens are among the pre-harvest constraints in rice farming across rice-growing countries. For weed management, manual weeding and herbicides are widely practiced. Among the herbicides, glyphosate [N-(phosphonomethyl) glycine] is a broad-spectrum systemic chemical extensively used in agriculture. Being a competitive structural analog to phosphoenolpyruvate, it selectively inhibits the conserved 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) enzyme required for the biosynthesis of aromatic amino acids and essential metabolites in eukaryotes and prokaryotes. In the present study, we investigated the antifungal and defense elicitor activity of glyphosate against Magnaporthe oryzae on transgenic-rice overexpressing a glyphosate-resistance OsEPSPS gene (T173I + P177S; TIPS OsmEPSPS) for blast disease management. The glyphosate foliar spray on OsmEPSPS transgenic rice lines showed both prophylactic and curative suppression of blast disease comparable to a blasticide, tricyclazole. The glyphosate displayed direct antifungal activity on Magnaporthe oryzae as well as enhanced the levels of antioxidant enzymes and photosynthetic pigments in rice. However, the genes associated with phytohormones-mediated defense (OsPAD4, OsNPR1.3, and OsFMO) and innate immunity pathway (OsCEBiP and OsCERK1) were found repressed upon glyphosate spray. Altogether, the current study is the first report highlighting the overexpression of a crop-specific TIPS mutation in conjugation with glyphosate application showing potential for blast disease management in rice cultivation.
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Affiliation(s)
- Sahil Mehta
- Crop Improvement Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
| | - Aundy Kumar
- ICAR-Indian Agricultural Research Institute, New Delhi, India.
| | - V Mohan Murali Achary
- Crop Improvement Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
| | - Prakash Ganesan
- ICAR-Indian Agricultural Research Institute, New Delhi, India
| | - Neelmani Rathi
- ICAR-Indian Agricultural Research Institute, New Delhi, India
| | - Asmita Singh
- ICAR-Indian Agricultural Research Institute, New Delhi, India
| | | | - Shambhu Krishan Lal
- Crop Improvement Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India; ICAR-Indian Institute of Agricultural Biotechnology, Ranchi, Jharkhand, India
| | - T K Das
- ICAR-Indian Agricultural Research Institute, New Delhi, India
| | - Malireddy K Reddy
- Crop Improvement Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India.
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Wang Z, Wan L, Xin Q, Zhang X, Song Y, Wang P, Hong D, Fan Z, Yang G. Optimizing glyphosate tolerance in rapeseed by CRISPR/Cas9-based geminiviral donor DNA replicon system with Csy4-based single-guide RNA processing. JOURNAL OF EXPERIMENTAL BOTANY 2021; 72:4796-4808. [PMID: 33872346 DOI: 10.1093/jxb/erab167] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2020] [Accepted: 04/16/2021] [Indexed: 06/12/2023]
Abstract
Rapeseed (Brassica napus L.) is an important oil crop worldwide, and effective weed control can protect its yield and quality. Farmers can benefit from cultivars tolerant to herbicides such as glyphosate. Amino acid substitutions in enolpyruvylshikimate-3-phosphate synthase (EPSPS) render the plant less sensitive to glyphosate. Therefore, we aimed to optimize the glyphosate tolerance trait in rapeseed via endogenous EPSPS modification. To achieve effective gene replacement in B. napus L., we employed a CRISPR/Cas9 system expressing single-guide RNAs (sgRNAs) cleaved by the CRISPR-associated RNA endoribonuclease Csy4 from Pseudomonas aeruginosa, for targeted induction of double-strand breaks. Both the donor template and a geminiviral replicon harbouring an sgRNA expression cassette were introduced into plant cells. Using sgRNAs targeting adjacent donor DNA template containing synonymous mutations in sgRNA sites, we achieved precise gene replacements in the endogenous B. napus EPSPS gene, BnaC04EPSPS, resulting in amino acid substitutions at frequencies up to 20%. Rapeseed seedlings harbouring these substitutions were glyphosate-tolerant. Furthermore, modifications in BnaC04EPSPS were precisely transmitted to the next generation. Our genome editing strategy enables highly efficient gene targeting and the induction of glyphosate tolerance in oilseed rape.
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Affiliation(s)
- Zhuanrong Wang
- Institute of Crop Science, Wuhan Academy of Agricultural Sciences, Wuhan, Hubei, China
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
| | - Lili Wan
- Institute of Crop Science, Wuhan Academy of Agricultural Sciences, Wuhan, Hubei, China
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
| | - Qiang Xin
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
| | - Xiaohui Zhang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
| | - Yixian Song
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
| | - Pengfei Wang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
| | - Dengfeng Hong
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
| | - Zhixiong Fan
- Crop Institute, Anhui Academy of Agricultural Sciences, Hefei, Anhui, China
| | - Guangsheng Yang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
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Hussain A, Ding X, Alariqi M, Manghwar H, Hui F, Li Y, Cheng J, Wu C, Cao J, Jin S. Herbicide Resistance: Another Hot Agronomic Trait for Plant Genome Editing. PLANTS (BASEL, SWITZERLAND) 2021; 10:621. [PMID: 33805182 PMCID: PMC8064318 DOI: 10.3390/plants10040621] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/31/2021] [Revised: 03/16/2021] [Accepted: 03/22/2021] [Indexed: 12/13/2022]
Abstract
Weeds have continually interrupted crop plants since their domestication, leading to a greater yield loss compared to diseases and pests that necessitated the practice of weed control measures. The control of weeds is crucial to ensuring the availability of sufficient food for a rapidly increasing human population. Chemical weed control (herbicides) along with integrated weed management (IWM) practices can be the most effective and reliable method of weed management programs. The application of herbicides for weed control practices calls for the urgency to develop herbicide-resistant (HR) crops. Recently, genome editing tools, especially CRISPR-Cas9, have brought innovation in genome editing technology that opens up new possibilities to provide sustainable farming in modern agricultural industry. To date, several non-genetically modified (GM) HR crops have been developed through genome editing that can present a leading role to combat weed problems along with increasing crop productivity to meet increasing food demand around the world. Here, we present the chemical method of weed control, approaches for herbicide resistance development, and possible advantages and limitations of genome editing in herbicide resistance. We also discuss how genome editing would be effective in combating intensive weed problems and what would be the impact of genome-edited HR crops in agriculture.
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Affiliation(s)
- Amjad Hussain
- Tobacco Research Institute of Hubei Province, Wuhan 430030, China; (A.H.); (Y.L.); (J.C.); (C.W.)
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China; (X.D.); (M.A.); (F.H.)
| | - Xiao Ding
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China; (X.D.); (M.A.); (F.H.)
| | - Muna Alariqi
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China; (X.D.); (M.A.); (F.H.)
| | - Hakim Manghwar
- State Key Laboratory of Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China;
| | - Fengjiao Hui
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China; (X.D.); (M.A.); (F.H.)
| | - Yapei Li
- Tobacco Research Institute of Hubei Province, Wuhan 430030, China; (A.H.); (Y.L.); (J.C.); (C.W.)
| | - Junqi Cheng
- Tobacco Research Institute of Hubei Province, Wuhan 430030, China; (A.H.); (Y.L.); (J.C.); (C.W.)
| | - Chenglin Wu
- Tobacco Research Institute of Hubei Province, Wuhan 430030, China; (A.H.); (Y.L.); (J.C.); (C.W.)
| | - Jinlin Cao
- Tobacco Research Institute of Hubei Province, Wuhan 430030, China; (A.H.); (Y.L.); (J.C.); (C.W.)
| | - Shuangxia Jin
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China; (X.D.); (M.A.); (F.H.)
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Zhao H, Zhao Y, Luo R, Yang L, Li G, Di J, Peng M, Li L, Wen Q, Liang X, Yin M, Wen Y, Huang F. Production of EPSPS and bar gene double-herbicide resistant castor ( Ricinus communis L.). BIOTECHNOL BIOTEC EQ 2020. [DOI: 10.1080/13102818.2020.1804450] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
Affiliation(s)
- Huibo Zhao
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
| | - Yong Zhao
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
| | - Rui Luo
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
| | - Lifeng Yang
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
| | - Guorui Li
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Industrial Engineering Research Center, Universities for Castor, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Key Laboratory of Castor Breeding, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Collaborative Innovation Center for Castor Industry, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Engineering Research Center of Industrial Technology Innovation of Castor, Tongliao, Inner Mongolia, PR China
| | - Jianjun Di
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Industrial Engineering Research Center, Universities for Castor, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Key Laboratory of Castor Breeding, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Collaborative Innovation Center for Castor Industry, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Engineering Research Center of Industrial Technology Innovation of Castor, Tongliao, Inner Mongolia, PR China
| | - Mu Peng
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Industrial Engineering Research Center, Universities for Castor, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Key Laboratory of Castor Breeding, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Collaborative Innovation Center for Castor Industry, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Engineering Research Center of Industrial Technology Innovation of Castor, Tongliao, Inner Mongolia, PR China
| | - Lili Li
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
| | - Qi Wen
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
| | - Xiaotian Liang
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
| | - Mingda Yin
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
| | - Yanpeng Wen
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
| | - Fenglan Huang
- Department of Biotechnology, College of Life Sciences and Food, Inner Mongolia University for the Nationalities, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Industrial Engineering Research Center, Universities for Castor, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Key Laboratory of Castor Breeding, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Collaborative Innovation Center for Castor Industry, Tongliao, Inner Mongolia, PR China
- Inner Mongolia Engineering Research Center of Industrial Technology Innovation of Castor, Tongliao, Inner Mongolia, PR China
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Pepoyan AZ, Chikindas ML. Plant-associated and soil microbiota composition as a novel criterion for the environmental risk assessment of genetically modified plants. GM CROPS & FOOD 2019; 11:47-53. [PMID: 31847696 DOI: 10.1080/21645698.2019.1703447] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Abstract
The impact of genetically modified plants on plant-associated and surrounding soil microorganisms is an uninvestigated area of environmental risk assessment. Biological markers such as lysine racemase, phosphomannose isomerase, and sulfadiazine are in use or suggested for use in plant genetic transformation technologies to confirm that the uptake of DNA has occurred. Similar to the effects of antibiotic-resistance genes, these markers might change the host plant's microbiota. Taking into account the importance of the microbiota in plant growth and protection from pathogens as well as in the lives of both humans and animals, we propose novel criteria for the environmental risk assessment of genetically modified plants: the composition of the plant microbiota and plant-associated soil microbiota. In addition to the possible impact of genetic transformation technologies on the plant microbiota highlighted in this report, the microbiota of genetically modified plants (and/or plant-associated soil microbiota) should be investigated in a comparative study of genetically modified and unmodified plant-derived microbiotas. This could potentially provide important information to farmers when considering the adoption of genetically modified plants.
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Affiliation(s)
- Astghik Z Pepoyan
- Department of Food Safety and Biotechnology, Armenian National Agrarian University, Yerevan, Armenia.,International Association for Human and Animals Health Improvement, Yerevan, Armenia
| | - Michael L Chikindas
- Health Promoting Naturals Laboratory, Rutgers State University, New Brunswick, NJ, USA.,Academy of Biology and Biotechnology, Southern Federal University, Rostov-on-Don, Russia
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Han YJ, Kim JI. Application of CRISPR/Cas9-mediated gene editing for the development of herbicide-resistant plants. PLANT BIOTECHNOLOGY REPORTS 2019; 13:447-457. [PMID: 0 DOI: 10.1007/s11816-019-00575-8] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2019] [Accepted: 09/26/2019] [Indexed: 05/27/2023]
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