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Kumari N, Mishra GP, Dikshit HK, Gupta S, Roy A, Sinha SK, Mishra DC, Das S, Kumar RR, Nair RM, Aski M. Identification of quantitative trait loci (QTLs) regulating leaf SPAD value and trichome density in mungbean ( Vigna radiata L.) using genotyping-by-sequencing (GBS) approach. PeerJ 2024; 12:e16722. [PMID: 38406271 PMCID: PMC10893866 DOI: 10.7717/peerj.16722] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2023] [Accepted: 12/04/2023] [Indexed: 02/27/2024] Open
Abstract
Quantitative trait loci (QTL) mapping is used for the precise localization of genomic regions regulating various traits in plants. Two major QTLs regulating Soil Plant Analysis Development (SPAD) value (qSPAD-7-1) and trichome density (qTric-7-2) in mungbean were identified using recombinant inbred line (RIL) populations (PMR-1×Pusa Baisakhi) on chromosome 7. Functional analysis of QTL region identified 35 candidate genes for SPAD value (16 No) and trichome (19 No) traits. The candidate genes regulating trichome density on the dorsal leaf surface of the mungbean include VRADI07G24840, VRADI07G17780, and VRADI07G15650, which encodes for ZFP6, TFs bHLH DNA-binding superfamily protein, and MYB102, respectively. Also, candidate genes having vital roles in chlorophyll biosynthesis are VRADIO7G29860, VRADIO7G29450, and VRADIO7G28520, which encodes for s-adenosyl-L-methionine, FTSHI1 protein, and CRS2-associated factor, respectively. The findings unfolded the opportunity for the development of customized genotypes having high SPAD value and high trichome density having a possible role in yield and mungbean yellow vein mosaic India virus (MYMIV) resistance in mungbean.
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Affiliation(s)
- Nikki Kumari
- Genetics, Indian Agricultural Research Institute, New Delhi, Delhi, India
| | | | | | - Soma Gupta
- Genetics, Indian Agricultural Research Institute, New Delhi, Delhi, India
| | - Anirban Roy
- Plant Pathology, Indian Agricultural Research Institute, New Delhi, Delhi, India
| | - Subodh Kumar Sinha
- Biotechnology, National Institute of Plant Biotechnology, New Delhi, Delhi, India
| | - Dwijesh C. Mishra
- Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute, New Delhi, Delhi, India
| | - Shouvik Das
- Genetics, Indian Agricultural Research Institute, New Delhi, Delhi, India
| | - Ranjeet R. Kumar
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi, Delhi, India
| | | | - Muraleedhar Aski
- Genetics, Indian Agricultural Research Institute, New Delhi, Delhi, India
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Kohli M, Bansal H, Mishra GP, Dikshit HK, Reddappa SB, Roy A, Sinha SK, Shivaprasad K, Kumari N, Kumar A, Kumar RR, Nair RM, Aski M. Genome-wide association studies for earliness, MYMIV resistance, and other associated traits in mungbean ( Vigna radiata L. Wilczek) using genotyping by sequencing approach. PeerJ 2024; 12:e16653. [PMID: 38288464 PMCID: PMC10823994 DOI: 10.7717/peerj.16653] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Accepted: 11/20/2023] [Indexed: 02/01/2024] Open
Abstract
Yellow mosaic disease (YMD) remains a major constraint in mungbean (Vigna radiata (L.)) production; while short-duration genotypes offer multiple crop cycles per year and help in escaping terminal heat stress, especially during summer cultivation. A comprehensive genotyping by sequencing (GBS)-based genome-wide association studies (GWAS) analysis was conducted using 132 diverse mungbean genotypes for traits like flowering time, YMD resistance, soil plant analysis development (SPAD) value, trichome density, and leaf area. The frequency distribution revealed a wide range of values for all the traits. GBS studies identified 31,953 high-quality single nucleotide polymorphism (SNPs) across all 11 mungbean chromosomes and were used for GWAS. Structure analysis revealed the presence of two genetically distinct populations based on ΔK. The linkage disequilibrium (LD) varied throughout the chromosomes and at r2 = 0.2, the mean LD decay was estimated as 39.59 kb. Two statistical models, mixed linear model (MLM) and Bayesian-information and Linkage-disequilibrium Iteratively Nested Keyway (BLINK) identified 44 shared SNPs linked with various candidate genes. Notable candidate genes identified include FPA for flowering time (VRADI10G01470; chr. 10), TIR-NBS-LRR for mungbean yellow mosaic India virus (MYMIV) resistance (VRADI09G06940; chr. 9), E3 ubiquitin-protein ligase RIE1 for SPAD value (VRADI07G28100; chr. 11), WRKY family transcription factor for leaf area (VRADI03G06560; chr. 3), and LOB domain-containing protein 21 for trichomes (VRADI06G04290; chr. 6). In-silico validation of candidate genes was done through digital gene expression analysis using Arabidopsis orthologous (compared with Vigna radiata genome). The findings provided valuable insight for marker-assisted breeding aiming for the development of YMD-resistant and early-maturing mungbean varieties.
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Affiliation(s)
- Manju Kohli
- Amity Institute of Biotechnology, Amity University, Noida, Uttar Pradesh, India
- Genetics, Indian Agricultural Research Institute, Delhi, Delhi, India
| | - Hina Bansal
- Amity Institute of Biotechnology, Amity University, Noida, Uttar Pradesh, India
| | | | | | | | - Anirban Roy
- Division of Plant Pathology, Indian Agricultural Research Institute, New Delhi, Delhi, India
| | - Subodh Kumar Sinha
- Biotechnology, National Institute of Plant Biotechnology, New Delhi, Delhi, India
| | - K.M. Shivaprasad
- Genetics, Indian Agricultural Research Institute, Delhi, Delhi, India
| | - Nikki Kumari
- Genetics, Indian Agricultural Research Institute, Delhi, Delhi, India
| | - Atul Kumar
- Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi, Delhi, India
| | - Ranjeet R. Kumar
- Biochemistry, Indian Agricultural Research Institute, New Delhi, Delhi, India
| | | | - Muraleedhar Aski
- Genetics, Indian Agricultural Research Institute, Delhi, Delhi, India
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Prathyusha VB, Swathi E, Divya D, Reddy BVB, Bentur JS, Chalam VC, Wankhede DP, Singh K, Anitha K. Field and agroinoculation screening of national collection of urd bean ( Vigna mungo) germplasm accessions for new sources of mung bean yellow mosaic virus (MYMV) resistance. 3 Biotech 2023; 13:194. [PMID: 37206359 PMCID: PMC10188856 DOI: 10.1007/s13205-023-03610-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2023] [Accepted: 05/03/2023] [Indexed: 05/21/2023] Open
Abstract
Yellow mosaic disease (YMD) is a major problem in Urd bean (Vigna mungo L.) in India, which causes huge yield losses. Breeding for wide spectrum and durable Mungbean yellow mosaic virus (MYMV) resistance and cultivating resistant cultivars is the most appropriate and effective approach. However, the task has become challenging with the report of at least two species of the virus, viz., Mungbean yellow mosaic virus (MYMV) and Mungbean yellow mosaic India virus (MYMIV) and their recombinants; the existence of various isolates of these species with varied virulence and rapid mutations noted in the virus as well as in the whitefly vector population. Thus the present study was carried out to identify and characterize novel and diverse sources of YMV resistance and develop linked molecular markers for breeding durable and broadspectrum resistant urdbean cultivars against YMV. Towards this goal, we have screened 998 accessions of urdbean national collection of germplasm against YMD Hyderabad isolate both in a field under the natural level of disease incidence and through agro inoculation in the laboratory using viruliferous clones of the same isolate. Ten highly resistant accessions identified through repeated testing have been characterized in terms of reported linked markers. We attempted to see diversity among the ten resistant accessions reported here using earlier reported resistance-linked SCAR marker YMV1 and SSR CEDG180 marker. SCAR marker YMV1 did not amplify with any of the 10 accessions. But with CEDG180, results suggested that 10 accessions shortlisted through field and laboratory tests do not carry PU31 allele and this shows that it may be likely to carry novel gene(s). Further studies are needed to genetically characterize these new sources.
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Affiliation(s)
| | - E. Swathi
- ICAR-National Bureau of Plant Genetic Resources, Regional Station, Hyderabad, TG 500 030 India
| | - D. Divya
- Agri Biotech Foundation, Rajendranagar, Hyderabad, TG 500 030 India
| | - B. V. Bhaskar Reddy
- Regional Agricultural Research Station, Acharya NG Ranga Agricultural University, Tirupati, AP 517 502 India
| | - J. S. Bentur
- Agri Biotech Foundation, Rajendranagar, Hyderabad, TG 500 030 India
| | - V. Celia Chalam
- ICAR-National Bureau of Plant Genetic Resources, PUSA Campus, New Delhi, 110 012 India
| | - D. P. Wankhede
- ICAR-National Bureau of Plant Genetic Resources, PUSA Campus, New Delhi, 110 012 India
| | - Kuldeep Singh
- ICAR-National Bureau of Plant Genetic Resources, PUSA Campus, New Delhi, 110 012 India
- Present Address: Head, Gene Bank, ICRISAT, Patancheru, TG 502324 India
| | - K. Anitha
- ICAR-National Bureau of Plant Genetic Resources, Regional Station, Hyderabad, TG 500 030 India
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Sahu P, Singh M, Pandey R, Mishra MK, Singh AK, Singh BK, Singh SK, Rai A, Chugh V, Shukla G, Singh S, Singh K, Kumar M, Singh CM. Screening of Comprehensive Panel of Cultivated and Wild Vigna Species for Resistance to Pulse Beetle, Callosobruchus chinensis L. BIOLOGY 2023; 12:781. [PMID: 37372066 DOI: 10.3390/biology12060781] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2023] [Revised: 05/17/2023] [Accepted: 05/25/2023] [Indexed: 06/29/2023]
Abstract
Pulses are a key source of dietary proteins in human nutrition. Despite several efforts to increase the production, various constraints, such as biotic and abiotic factors, threaten pulse production by various means. Bruchids (Callosobruchus spp.) are the serious issue of concern, particularly in storage conditions. Understanding host-plant resistance at morphological, biochemical and molecular levels is the best way to minimize yield losses. The 117 mungbean (Vigna radiata L. Wilczek) genotypes, including endemic wild relatives, were screened for resistance against Callosobruchus chinensis; among them, two genotypes, PRR 2008-2 and PRR 2008-2-sel, which belong to V. umbellata (Thumb.), were identified as highly resistant. The expression of antioxidants in susceptible and resistant genotypes revealed that the activity of phenylalanine ammonia lyase (PAL) was upregulated in the highly resistant wild Vigna species and lower in the cultivated susceptible genotypes, along with other biomarkers. Further, the SCoT-based genotyping revealed SCoT-30 (200 bp), SCoT-31 (1200 bp) and SCoT-32 (300 bp) as unique amplicons, which might be useful for developing the novel ricebean-based SCAR markers to accelerate the molecular breeding programme.
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Affiliation(s)
- Prince Sahu
- Department of Entomology, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Mahendra Singh
- Department of Entomology, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Rakesh Pandey
- Department of Entomology, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Mukesh Kumar Mishra
- Department of Entomology, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Akhilesh Kumar Singh
- Department of Plant Protection, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Bhupendra Kumar Singh
- Department of Entomology, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Surendra Kumar Singh
- Department of Entomology, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Ashutosh Rai
- Department of Basic and Social Sciences, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Vishal Chugh
- Department of Basic and Social Sciences, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Gaurav Shukla
- Department of Statistics and Computer Science, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Saurabh Singh
- Department of Entomology, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Kartikey Singh
- Department of Entomology, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Mukul Kumar
- Department of Genetics and Plant Breeding, Banda University of Agriculture and Technology, Banda 210 001, India
| | - Chandra Mohan Singh
- Department of Genetics and Plant Breeding, Banda University of Agriculture and Technology, Banda 210 001, India
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Multiple begomoviruses infecting soybean; a case study in Faisalabad, Pakistan. Biologia (Bratisl) 2022. [DOI: 10.1007/s11756-022-01290-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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Dhaliwal SK, Gill RK, Sharma A, Kaur A, Bhatia D, Kaur S. A large-effect QTL introgressed from ricebean imparts resistance to Mungbean yellow mosaic India virus in blackgram (Vigna mungo (L.) Hepper). TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2022; 135:4495-4506. [PMID: 36271056 DOI: 10.1007/s00122-022-04234-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2022] [Accepted: 10/09/2022] [Indexed: 06/16/2023]
Abstract
Here, we report identification of a large effect QTL conferring Mungbean yellow mosaic India virus resistance introgressed from ricebean in blackgram variety Mash114. The tightly linked KASP markers would assist in marker-assisted-transfer of this region into Vigna species infected by MYMIV. Until recently, precise location of genes and marker-assisted selection was long thought in legumes such as blackgram due to lack of dense molecular maps. However, advances in next-generation sequencing based on high-throughput genotyping technologies such as QTL-seq have revolutionized trait mapping in marker-orphan crops. Using QTL-seq approach, we have identified a large-effect QTL for resistance to Mungbean yellow mosaic India virus (MYMIV) in blackgram variety Mash114. MYMIV is devastating disease responsible for huge yield losses in blackgram, greengram and other legumes. Mash114 showed consistent and high level of resistance to MYMIV since last nine years. Whole genome re-sequencing of MYMIV-resistant and susceptible bulks derived from RILs of cross KUG253 X Mash114 identified a large-effect QTL (qMYMIV6.1.1) spanning 3.4 Mb on chromosome 6 explaining 70% of total phenotypic variation. This region was further identified as an inter-specific introgression from ricebean. Linkage mapping using KASP markers developed from potent candidate genes involved in virus resistance identified the 500 kb genomic region equaling 1.9 cM on genetic map linked with MYMIV. The three KASP markers closely associated with MYMIV originated from serine threonine kinase, UBE2D2 and BAK1/BRI1-ASSOCIATED RECEPTOR KINASE genes. These KASPs can be used for marker-assisted transfer of introgressed segment into suitable backgrounds of Vigna species.
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Affiliation(s)
- Sandeep Kaur Dhaliwal
- Department of Plant Breeding and Genetics, Punjab Agricultural University, Ludhiana, Punjab, India
| | - Ranjit Kaur Gill
- Department of Plant Breeding and Genetics, Punjab Agricultural University, Ludhiana, Punjab, India
| | - Abhishek Sharma
- Department of Vegetable Science, Punjab Agricultural University, Ludhiana, Punjab, India
| | - Amandeep Kaur
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, Punjab, India
| | - Dharminder Bhatia
- Department of Plant Breeding and Genetics, Punjab Agricultural University, Ludhiana, Punjab, India
| | - Satinder Kaur
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, Punjab, India.
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Qureshi MA, Lal A, Nawaz-ul-Rehman MS, Vo TTB, Sanjaya GNPW, Ho PT, Nattanong B, Kil EJ, Jahan SMH, Lee KY, Tsai CW, Dao HT, Hoat TX, Aye TT, Win NK, Lee J, Kim SM, Lee S. Emergence of Asian endemic begomoviruses as a pandemic threat. FRONTIERS IN PLANT SCIENCE 2022; 13:970941. [PMID: 36247535 PMCID: PMC9554542 DOI: 10.3389/fpls.2022.970941] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/16/2022] [Accepted: 08/05/2022] [Indexed: 06/16/2023]
Abstract
Plant viruses are responsible for the most devastating and commercially significant plant diseases, especially in tropical and subtropical regions. The genus begomovirus is the largest one in the family Geminiviridae, with a single-stranded DNA genome, either monopartite or bipartite. Begomoviruses are transmitted by insect vectors, such as Bemisia tabaci. Begomoviruses are the major causative agents of diseases in agriculture globally. Because of their diversity and mode of evolution, they are thought to be geographic specific. The emerging begomoviruses are of serious concern due to their increasing host range and geographical expansion. Several begomoviruses of Asiatic origin have been reported in Europe, causing massive economic losses; insect-borne transmission of viruses is a critical factor in virus outbreaks in new geographical regions. This review highlights crucial information regarding Asia's four emerging and highly destructive begomoviruses. We also provided information regarding several less common but still potentially important pathogens of different crops. This information will aid possible direction of future studies in adopting preventive measures to combat these emerging viruses.
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Affiliation(s)
- Muhammad Amir Qureshi
- Department of Integrative Biotechnology, Sungkyunkwan University, Suwon, South Korea
| | - Aamir Lal
- Department of Integrative Biotechnology, Sungkyunkwan University, Suwon, South Korea
| | | | - Thuy Thi Bich Vo
- Department of Integrative Biotechnology, Sungkyunkwan University, Suwon, South Korea
| | | | - Phuong Thi Ho
- Department of Integrative Biotechnology, Sungkyunkwan University, Suwon, South Korea
| | - Bupi Nattanong
- Department of Integrative Biotechnology, Sungkyunkwan University, Suwon, South Korea
| | - Eui-Joon Kil
- Department of Plant Medicals, Andong National University, Andong, South Korea
| | | | - Kyeong-Yeoll Lee
- Division of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu, South Korea
| | - Chi-Wei Tsai
- Department of Entomology, National Taiwan University, Taipei, Taiwan
| | - Hang Thi Dao
- Plant Protection Research Institute, Hanoi, Vietnam
| | | | - Tin-Tin Aye
- Department of Entomology, Yezin Agricultural University, Yezin, Myanmar
| | - Nang Kyu Win
- Department of Plant Pathology, Yezin Agricultural University, Yezin, Myanmar
| | - Jangha Lee
- Crop Breeding Research Center, NongWoo Bio, Yeoju, South Korea
| | - Sang-Mok Kim
- Plant Quarantine Technology Center, Animal and Plant Quarantine Agency, Gimcheon, South Korea
| | - Sukchan Lee
- Department of Integrative Biotechnology, Sungkyunkwan University, Suwon, South Korea
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Wang Y, Yao X, Shen H, Zhao R, Li Z, Shen X, Wang F, Chen K, Zhou Y, Li B, Zheng X, Lu S. Nutritional Composition, Efficacy, and Processing of Vigna angularis (Adzuki Bean) for the Human Diet: An Overview. Molecules 2022; 27:molecules27186079. [PMID: 36144812 PMCID: PMC9506481 DOI: 10.3390/molecules27186079] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2022] [Revised: 09/05/2022] [Accepted: 09/13/2022] [Indexed: 11/16/2022] Open
Abstract
Adzuki beans are grown in several countries around the world and are widely popular in Asia, where they are often prepared in various food forms. Adzuki beans are rich in starch, and their proteins contain a balanced variety of amino acids with high lysine content, making up for the lack of protein content of cereals in the daily diet. Therefore, the research on adzuki beans and the development of their products have broad prospects for development. The starch, protein, fat, polysaccharide, and polyphenol contents and compositions of adzuki beans vary greatly among different varieties. The processing characteristic components of adzuki beans, such as starch, isolated protein, and heated flavor, are reported with a view to further promote the processing and development of adzuki bean foods. In addition to favorable edibility, the human health benefits of adzuki beans include antioxidant, antibacterial, and anti-inflammatory properties. Furtherly, adzuki beans and extracts have positive effects on the prevention and treatment of diseases, including diabetes, diabetes-induced kidney disease or kidney damage, obesity, and high-fat-induced cognitive decline. This also makes a case for the dual use of adzuki beans for food and medicine and contributes to the promotion of adzuki beans as a healthy, edible legume.
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Affiliation(s)
- Yao Wang
- Food Processing Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China
- Heilongjiang Province Key Laboratory of Food Processing, Harbin 150086, China
| | - Xinmiao Yao
- Food Processing Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China
- Heilongjiang Province Key Laboratory of Food Processing, Harbin 150086, China
- Correspondence: ; Tel.: +086-0451-86610259
| | - Huifang Shen
- Food Processing Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China
- Heilongjiang Province Key Laboratory of Food Processing, Harbin 150086, China
| | - Rui Zhao
- Food Processing Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China
- Heilongjiang Province Key Laboratory of Food Processing, Harbin 150086, China
| | - Zhebin Li
- Food Processing Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China
- Heilongjiang Province Key Laboratory of Food Processing, Harbin 150086, China
| | - Xinting Shen
- Food Processing Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China
- Heilongjiang Province Key Laboratory of Food Processing, Harbin 150086, China
| | - Fei Wang
- Food Processing Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China
- Heilongjiang Province Key Laboratory of Food Processing, Harbin 150086, China
| | - Kaixin Chen
- Food Processing Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China
- Heilongjiang Province Key Laboratory of Food Processing, Harbin 150086, China
| | - Ye Zhou
- Food Processing Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China
- Heilongjiang Province Key Laboratory of Food Processing, Harbin 150086, China
| | - Bo Li
- Food Processing Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China
- Heilongjiang Province Key Laboratory of Food Processing, Harbin 150086, China
| | - Xianzhe Zheng
- China School of Engineering, Northeast Agricultural University, Harbin 150030, China
| | - Shuwen Lu
- Food Processing Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China
- Heilongjiang Province Key Laboratory of Food Processing, Harbin 150086, China
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Talakayala A, Mekala GK, Reddy MK, Ankanagari S, Garladinne M. Manipulating resistance to mungbean yellow mosaic virus in greengram (Vigna radiata L): Through CRISPR/Cas9 mediated editing of the viral genome. FRONTIERS IN SUSTAINABLE FOOD SYSTEMS 2022. [DOI: 10.3389/fsufs.2022.911574] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Clustered regularly interspaced short palindromic repeats (CRISPR) associated protein (CRISPR/Cas9) is an adaptive immune system of bacteria to counter the impending viral pathogen attack. With persistent improvements, CRISPR has become a versatile tool for developing molecular immunity against viruses in plants. In the current report, we utilized the Cas9 endonuclease and dual 20 bp-gRNAs targeting two different locations in single-stranded DNA-A of AC1 (rep protein) and AV1 (coat protein) of mungbean yellow mosaic virus for achieving resistance in greengram. The cotyledonary nodal explants were infected with Agrobacterium strain EHA105 harboring pMDC100-Cas9 with AC1 and AV1 gRNA cassettes and generated transgenic plants. The integration of Cas9 and gRNA cassettes in the transformed plants of greengram were confirmed by PCR and dot blot assays. Agroinfiltrated T2 transgenic lines exhibited minimal mosaic symptoms. A drastic reduction in the accumulation of AC1 and AV1 was observed in T2 transformed lines. The T7EI assay indicated that AC1 fragments were edited at a frequency of 46%, 32%, 20%, and AV1 at 38.15%, 40%, and 21.36% in MYMV infected greengram lines T2-6-2-3, T2-6-4-4, and T2-6-4-7, respectively. The manipulation of resistance to MYMV through the editing of the pathogen genome using the CRISPR/Cas9 tool can be a powerful approach to combat viruses and develop resistance in greengram.
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Dutta H, Mishra GP, Aski MS, Bosamia TC, Mishra DC, Bhati J, Sinha SK, Vijay D, C. T. MP, Das S, Pawar PAM, Kumar A, Tripathi K, Kumar RR, Yadava DK, Kumar S, Dikshit HK. Comparative transcriptome analysis, unfolding the pathways regulating the seed-size trait in cultivated lentil (Lens culinaris Medik.). Front Genet 2022; 13:942079. [PMID: 36035144 PMCID: PMC9399355 DOI: 10.3389/fgene.2022.942079] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2022] [Accepted: 07/11/2022] [Indexed: 11/16/2022] Open
Abstract
Market class, cooking time, quality, and milled grain yield are largely influenced by the seed size and shape of the lentil (Lens culinaris Medik.); thus, they are considered to be important quality traits. To unfold the pathways regulating seed size in lentils, a transcriptomic approach was performed using large-seeded (L4602) and small-seeded (L830) genotypes. The study has generated nearly 375 million high-quality reads, of which 98.70% were properly aligned to the reference genome. Among biological replicates, very high similarity in fragments per kilobase of exon per million mapped fragments values (R > 0.9) showed the consistency of RNA-seq results. Various differentially expressed genes associated mainly with the hormone signaling and cell division pathways, transcription factors, kinases, etc. were identified as having a role in cell expansion and seed growth. A total of 106,996 unigenes were used for differential expression (DE) analysis. String analysis identified various modules having certain key proteins like Ser/Thr protein kinase, seed storage protein, DNA-binding protein, microtubule-associated protein, etc. In addition, some growth and cell division–related micro-RNAs like miR3457 (cell wall formation), miR1440 (cell proliferation and cell cycles), and miR1533 (biosynthesis of plant hormones) were identified as having a role in seed size determination. Using RNA-seq data, 5254 EST-SSR primers were generated as a source for future studies aiming for the identification of linked markers. In silico validation using Genevestigator® was done for the Ser/Thr protein kinase, ethylene response factor, and Myb transcription factor genes. It is of interest that the xyloglucan endotransglucosylase gene was found differentially regulated, suggesting their role during seed development; however, at maturity, no significant differences were recorded for various cell wall parameters including cellulose, lignin, and xylose content. This is the first report on lentils that has unfolded the key seed size regulating pathways and unveiled a theoretical way for the development of lentil genotypes having customized seed sizes.
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Affiliation(s)
- Haragopal Dutta
- Division of Genetics, Indian Agricultural Research Institute, New Delhi, India
| | - Gyan P. Mishra
- Division of Genetics, Indian Agricultural Research Institute, New Delhi, India
- *Correspondence: Gyan P. Mishra, ; Shiv Kumar, ; Harsh Kumar Dikshit,
| | - Muraleedhar S. Aski
- Division of Genetics, Indian Agricultural Research Institute, New Delhi, India
| | - Tejas C. Bosamia
- Plant Omics Division, Central Salt and Marine Chemicals Research Institute, Bhavnagar, India
| | - Dwijesh C. Mishra
- Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute, New Delhi, India
| | - Jyotika Bhati
- Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute, New Delhi, India
| | | | - Dunna Vijay
- Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi, India
| | - Manjunath Prasad C. T.
- Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi, India
| | - Shouvik Das
- Laboratory of Plant Cell Wall Biology, Regional Centre for Biotechnology, Faridabad, India
| | | | - Atul Kumar
- Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi, India
| | - Kuldeep Tripathi
- Germplasm Evaluation Division, National Bureau of Plant Genetic Resources, New Delhi, India
| | - Ranjeet Ranjan Kumar
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi, India
| | | | - Shiv Kumar
- South Asia and China Program, International Center for Agricultural Research in the Dry Areas, NASC Complex, New Delhi, India
- *Correspondence: Gyan P. Mishra, ; Shiv Kumar, ; Harsh Kumar Dikshit,
| | - Harsh Kumar Dikshit
- Division of Genetics, Indian Agricultural Research Institute, New Delhi, India
- *Correspondence: Gyan P. Mishra, ; Shiv Kumar, ; Harsh Kumar Dikshit,
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11
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Survey of Viruses Infecting Tomato, Cucumber and Mung Bean in Tajikistan. HORTICULTURAE 2022. [DOI: 10.3390/horticulturae8060505] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Viral diseases are major constraints to tomato, cucumber and mung bean production in most areas where these crops are grown. To identify the viruses on the crops in Tajikistan, a field survey was conducted in 2019. Samples of cucumber, mung bean and tomato with virus-like symptoms were collected and the viruses present were diagnosed by RT-PCR and PCR. Across all the samples, a very high proportion of the samples were infected with viruses from the genera Cucumovirus and Potyvirus. Cucumber mosaic virus (CMV; Cucumovirus) was very common in the collected samples of the three crops. As for Potyvirus, Potato virus Y (PVY) was detected in the collected tomato samples, Zucchini yellow mosaic virus (ZYMV) was identified in the collected cucumber samples, and Bean common mosaic virus (BCMV) was detected in 53% of the mung bean samples. Over 68% of the collected samples were infected with two or more viruses, suggesting that mixed infections are common for the three crops. Due to the results that the most identified viruses for the three crops are transmitted by aphids, the management of aphids is extremely important for the production of tomato, cucumber and mung bean in Tajikistan.
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Rasheed A, Barqawi AA, Mahmood A, Nawaz M, Shah AN, Bay DH, Alahdal MA, Hassan MU, Qari SH. CRISPR/Cas9 is a powerful tool for precise genome editing of legume crops: a review. Mol Biol Rep 2022; 49:5595-5609. [PMID: 35585381 DOI: 10.1007/s11033-022-07529-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2022] [Revised: 04/15/2022] [Accepted: 04/26/2022] [Indexed: 10/18/2022]
Abstract
Legumes are an imperative source of food and proteins across the globe. They also improve soil fertility through symbiotic nitrogen fixation (SNF). Genome editing (GE) is now a novel way of developing desirable traits in legume crops. Genome editing tools like clustered regularly interspaced short palindromic repeats (CRISPR) system permits a defined genome alteration to improve crop performance. This genome editing tool is reliable, cost-effective, and versatile, and it has to deepen in terms of use compared to other tools. Recently, many novel variations have drawn the attention of plant geneticists, and efforts are being made to develop trans-gene-free cultivars for ensuring biosafety measures. This review critically elaborates on the recent development in genome editing of major legumes crops. We hope this updated review will provide essential informations for the researchers working on legumes genome editing. In general, the CRISPR/Cas9 novel GE technique can be integrated with other techniques like omics approaches and next-generation tools to broaden the range of gene editing and develop any desired legumes traits. Regulatory ethics of CRISPR/Cas9 are also discussed.
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Affiliation(s)
- Adnan Rasheed
- Key Laboratory of Crops Physiology, Ecology and Genetic Breeding, Ministry of Education/College of Agronomy, Jiangxi Agricultural University, 330045, Nanchang, China
| | - Aminah A Barqawi
- Department of Chemistry, Al-Leith University College, Umm Al Qura University, Makkah, Saudi Arabia
| | - Athar Mahmood
- Department of Agronomy, University of Agriculture Faisalabad, 38040, Faisalabad, Pakistan
| | - Muhammad Nawaz
- Department of Agricultural Engineering, Khwaja Fareed University of Engineering and Information Technology, Rahim Yar Khan, 64200, Punjab, Pakistan
| | - Adnan Noor Shah
- Department of Agricultural Engineering, Khwaja Fareed University of Engineering and Information Technology, Rahim Yar Khan, 64200, Punjab, Pakistan.
| | - Daniyah H Bay
- Department of Biology, Faculty of Applied Sciences, Umm Al-Qura University, Makkah, Saudi Arabia
| | - Maryam A Alahdal
- Biology Department Faculty of Applied Science, Umm Al-Qura University, Makkah, Saudi Arabia
| | - Muhammad Umair Hassan
- Research Center on Ecological Sciences, Jiangxi Agricultural University, 330045, Nanchang, China
| | - Sameer H Qari
- Department of Biology, Al-Jumum University College, Umm Al-Qura University, 21955, Makkah, Saudi Arabia.
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13
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Guevara-Rivera EA, Rodríguez-Negrete EA, Aréchiga-Carvajal ET, Leyva-López NE, Méndez-Lozano J. From Metagenomics to Discovery of New Viral Species: Galium Leaf Distortion Virus, a Monopartite Begomovirus Endemic in Mexico. Front Microbiol 2022; 13:843035. [PMID: 35547137 PMCID: PMC9083202 DOI: 10.3389/fmicb.2022.843035] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2021] [Accepted: 02/28/2022] [Indexed: 12/02/2022] Open
Abstract
Begomoviruses (Family Geminiviridae) are a major group of emerging plant viruses worldwide. The knowledge of begomoviruses is mostly restricted to crop plant systems. Nevertheless, it has been described that non-cultivated plants are important reservoirs and vessels of viral evolution that leads to the emergence of new diseases. High-throughput sequencing (HTS) has provided a powerful tool for speeding up the understanding of molecular ecology and epidemiology of plant virome and for discovery of new viral species. In this study, by performing earlier metagenomics library data mining, followed by geminivirus-related signature single plant searching and RCA-based full-length viral genome cloning, and based on phylogenetic analysis, genomes of two isolates of a novel monopartite begomovirus species tentatively named Galium leaf distortion virus (GLDV), which infects non-cultivated endemic plant Galium mexicanum, were identified in Colima, Mexico. Analysis of the genetic structure of both isolates (GLDV-1 and GLDV-2) revealed that the GLDV genome displays a DNA-A-like structure shared with the new world (NW) bipartite begomoviruses. Nonetheless, phylogenetic analysis using representative members of the main begomovirus American clades for tree construction grouped both GLDV isolates in a clade of the monopartite NW begomovirus, Tomato leaf deformation virus (ToLDeV). A comparative analysis of viral replication regulatory elements showed that the GLDV-1 isolate possesses an array and sequence conservation of iterons typical of NW begomovirus infecting the Solanaceae and Fabaceae families. Interestingly, GLDV-2 showed iteron sequences described only in monopartite begomovirus from OW belonging to a sweepovirus clade that infects plants of the Convolvulaceae family. In addition, the rep iteron related-domain (IRD) of both isolates display FRVQ or FRIS amino acid sequences corresponding to NW and sweepobegomovirus clades for GMV-1 and GMV-2, respectively. Finally, the lack of the GLDV DNA-B segment (tested by molecular detection and biological assays using GLDV-1/2 infectious clones) confirmed the monopartite nature of GLDV. This is the first time that a monopartite begomovirus is described in Mexican ecosystems, and “in silico” geometagenomics analysis indicates that it is restricted to a specific region. These data revealed additional complexity in monopartite begomovirus genetics and geographic distribution and highlighted the importance of metagenomic approaches in understanding global virome ecology and evolution.
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Affiliation(s)
- Enrique A Guevara-Rivera
- Instituto Politécnico Nacional, CIIDIR-Unidad Sinaloa, Departamento de Biotecnología Agrícola, Guasave, Mexico
| | - Edgar A Rodríguez-Negrete
- Instituto Politécnico Nacional, CIIDIR-Unidad Sinaloa, Departamento de Biotecnología Agrícola, Guasave, Mexico
| | - Elva T Aréchiga-Carvajal
- Universidad Autónoma de Nuevo León, Facultad de Ciencias Biológicas, Departamento de Microbiología e Inmunología-Unidad de Manipulación Genética, San Nicolás de los Garza, Mexico
| | - Norma E Leyva-López
- Instituto Politécnico Nacional, CIIDIR-Unidad Sinaloa, Departamento de Biotecnología Agrícola, Guasave, Mexico
| | - Jesús Méndez-Lozano
- Instituto Politécnico Nacional, CIIDIR-Unidad Sinaloa, Departamento de Biotecnología Agrícola, Guasave, Mexico
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14
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Sharma SK, Gupta OP, Pathaw N, Sharma D, Maibam A, Sharma P, Sanasam J, Karkute SG, Kumar S, Bhattacharjee B. CRISPR-Cas-Led Revolution in Diagnosis and Management of Emerging Plant Viruses: New Avenues Toward Food and Nutritional Security. Front Nutr 2022; 8:751512. [PMID: 34977113 PMCID: PMC8716883 DOI: 10.3389/fnut.2021.751512] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2021] [Accepted: 10/31/2021] [Indexed: 12/14/2022] Open
Abstract
Plant viruses pose a serious threat to agricultural production systems worldwide. The world's population is expected to reach the 10-billion mark by 2057. Under the scenario of declining cultivable land and challenges posed by rapidly emerging and re-emerging plant pathogens, conventional strategies could not accomplish the target of keeping pace with increasing global food demand. Gene-editing techniques have recently come up as promising options to enable precise changes in genomes with greater efficiency to achieve the target of higher crop productivity. Of genome engineering tools, clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated (Cas) proteins have gained much popularity, owing to their simplicity, reproducibility, and applicability in a wide range of species. Also, the application of different Cas proteins, such as Cas12a, Cas13a, and Cas9 nucleases, has enabled the development of more robust strategies for the engineering of antiviral mechanisms in many plant species. Recent studies have revealed the use of various CRISPR-Cas systems to either directly target a viral gene or modify a host genome to develop viral resistance in plants. This review provides a comprehensive record of the use of the CRISPR-Cas system in the development of antiviral resistance in plants and discusses its applications in the overall enhancement of productivity and nutritional landscape of cultivated plant species. Furthermore, the utility of this technique for the detection of various plant viruses could enable affordable and precise in-field or on-site detection. The futuristic potential of CRISPR-Cas technologies and possible challenges with their use and application are highlighted. Finally, the future of CRISPR-Cas in sustainable management of viral diseases, and its practical utility and regulatory guidelines in different parts of the globe are discussed systematically.
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Affiliation(s)
| | - Om Prakash Gupta
- Division of Quality & Basic Science, ICAR-Indian Institute of Wheat and Barley Research, Karnal, India
| | - Neeta Pathaw
- ICAR Research Complex for NEH Region, Manipur Centre, Imphal, India
| | - Devender Sharma
- Crop Improvement Division, ICAR-Vivekananda Parvatiya Krishi Anusandhan Sansthan, Almora, India
| | - Albert Maibam
- ICAR Research Complex for NEH Region, Manipur Centre, Imphal, India
| | - Parul Sharma
- Department of Plant Breeding and Genetics, Punjab Agricultural University, Ludhiana, India
| | - Jyotsana Sanasam
- ICAR Research Complex for NEH Region, Manipur Centre, Imphal, India
| | - Suhas Gorakh Karkute
- Division of Crop Improvement, ICAR-Indian Institute of Vegetable Research, Varanasi, India
| | - Sandeep Kumar
- Department of Plant Pathology, Odisha University of Agriculture & Technology, Bhubaneswar, India
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15
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Sivalingam PN, Dokka N, Mahajan MM, Sahu B, Marathe A, Kaushal P, Ghosh PK. Achieving maximum efficiency of Mungbean yellow mosaic India virus infection in mungbean by agroinoculation. 3 Biotech 2022; 12:29. [PMID: 35036277 PMCID: PMC8712281 DOI: 10.1007/s13205-021-03088-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2021] [Accepted: 12/09/2021] [Indexed: 02/02/2023] Open
Abstract
Mungbean is one of the important food legumes in the Indian-sub-continent. Yellow mosaic disease, caused by Mungbean yellow mosaic virus and Mungbean yellow mosaic India virus (MYMIV) poses a severe threat to its production. Agroinoculation has been the most preferred way to test the function of genomic components of these viruses. However, the available inoculation methods are not as efficient as whitefly transmission, thereby limiting their usage for screening and biological studies. We hereby report an efficient and reproducible agroinoculation method for achieving maximum (100%) efficiency using tandem repeat infectious agro-constructs of DNA A and DNA B of MYMIV. The present study targeted wounding of various meristematic tissues of root, shoot, parts of germinating seeds and also non-meristematic tissue of stem to test the suitable tissue types for maximum infection. Among the various tissues selected for, the inoculation on the epicotyl region showed maximum infectivity. Further, to enhance the infectivity of MYMIV, different concentrations of acetosyringone, incubation time and Agrobacterium cell density were also standardized. The incubation of wounded sprouted seeds in 1.0 OD of agroculture containing repeat construct of MYMIV for 2-4 h without acetosyringone followed by sowing in soil showed maximum infection of MYMIV within 10-12 days on the first trifoliate leaf. This standardized method is reproducible and has potential to screen germplasm lines and will be useful in mungbean biological/virological studies and breeding programmes. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s13205-021-03088-w.
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Affiliation(s)
- Palaiyur N. Sivalingam
- ICAR-National Institute of Biotic Stress Management, Baronda, Raipur, Chhattisgarh 493225 India
| | - Narasimham Dokka
- ICAR-National Institute of Biotic Stress Management, Baronda, Raipur, Chhattisgarh 493225 India
| | - Mahesh M. Mahajan
- ICAR-National Institute of Biotic Stress Management, Baronda, Raipur, Chhattisgarh 493225 India
| | - Bhimeshwari Sahu
- ICAR-National Institute of Biotic Stress Management, Baronda, Raipur, Chhattisgarh 493225 India
| | - Ashish Marathe
- ICAR-National Institute of Biotic Stress Management, Baronda, Raipur, Chhattisgarh 493225 India
| | - Pankaj Kaushal
- ICAR-National Institute of Biotic Stress Management, Baronda, Raipur, Chhattisgarh 493225 India
| | - Probir Kumar Ghosh
- ICAR-National Institute of Biotic Stress Management, Baronda, Raipur, Chhattisgarh 493225 India
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16
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Mishra GP, Aski MS, Bosamia T, Chaurasia S, Mishra DC, Bhati J, Kumar A, Javeria S, Tripathi K, Kohli M, Kumar RR, Singh AK, Devi J, Kumar S, Dikshit HK. Insights into the Host-Pathogen Interaction Pathways through RNA-Seq Analysis of Lens culinaris Medik. in Response to Rhizoctonia bataticola Infection. Genes (Basel) 2021; 13:genes13010090. [PMID: 35052429 PMCID: PMC8774501 DOI: 10.3390/genes13010090] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Revised: 12/20/2021] [Accepted: 12/23/2021] [Indexed: 12/13/2022] Open
Abstract
Dry root rot (Rhizoctonia bataticola) is an important disease of lentils (Lens culinaris Medik.).To gain an insight into the molecular aspects of host-pathogen interactions, the RNA-seq approach was used in lentils following inoculation with R.bataticola. The RNA-Seq has generated >450 million high-quality reads (HQRs) and nearly 96.97% were properly aligned to the reference genome. Very high similarity in FPKM (fragments per kilobase of exon per million mapped fragments) values (R > 0.9) among biological replicates showed the consistency of the RNA-Seq results. The study revealed various DEGs (differentially expressed genes) that were associated with changes in phenolic compounds, transcription factors (TFs), antioxidants, receptor kinases, hormone signals which corresponded to the cell wall modification enzymes, defense-related metabolites, and jasmonic acid (JA)/ethylene (ET) pathways. Gene ontology (GO) categorization also showed similar kinds of significantly enriched similar GO terms. Interestingly, of the total unigenes (42,606), 12,648 got assembled and showed significant hit with Rhizoctonia species. String analysis also revealed the role of various disease responsive proteins viz., LRR family proteins, LRR-RLKs, protein kinases, etc. in the host-pathogen interaction. Insilico validation analysis was performed using Genevestigator® and DEGs belonging to six major defense-response groups viz., defense-related enzymes, disease responsive genes, hormones, kinases, PR (pathogenesis related) proteins, and TFs were validated. For the first time some key miRNA targets viz. miR156, miR159, miR167, miR169, and miR482 were identified from the studied transcriptome, which may have some vital role in Rhizoctonia-based responses in lentils. The study has revealed the molecular mechanisms of the lentil/R.bataticola interactions and also provided a theoretical approach for the development of lentil genotypes resistant to R.bataticola.
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Affiliation(s)
- Gyan P. Mishra
- Division of Genetics, Indian Agricultural Research Institute, New Delhi 110012, India; (G.P.M.); (M.S.A.); (S.C.); (M.K.)
| | - Muraleedhar S. Aski
- Division of Genetics, Indian Agricultural Research Institute, New Delhi 110012, India; (G.P.M.); (M.S.A.); (S.C.); (M.K.)
| | - Tejas Bosamia
- Plant Omics Division, Central Salt and Marine Chemicals Research Institute, Bhavnagar 364002, India;
| | - Shiksha Chaurasia
- Division of Genetics, Indian Agricultural Research Institute, New Delhi 110012, India; (G.P.M.); (M.S.A.); (S.C.); (M.K.)
| | - Dwijesh Chandra Mishra
- Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute, New Delhi 110012, India; (D.C.M.); (J.B.)
| | - Jyotika Bhati
- Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute, New Delhi 110012, India; (D.C.M.); (J.B.)
| | - Atul Kumar
- Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi 110012, India; (A.K.); (S.J.)
| | - Shaily Javeria
- Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi 110012, India; (A.K.); (S.J.)
| | - Kuldeep Tripathi
- Germplasm Evaluation Division, National Bureau of Plant Genetic Resources, New Delhi 110012, India;
| | - Manju Kohli
- Division of Genetics, Indian Agricultural Research Institute, New Delhi 110012, India; (G.P.M.); (M.S.A.); (S.C.); (M.K.)
| | - Ranjeet Ranjan Kumar
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi 110012, India;
| | - Amit Kumar Singh
- Division of Genomic Resources, National Bureau of Plant Genetic Resources, New Delhi 110012, India;
| | - Jyoti Devi
- Division of Crop Improvement, Indian Institute of Vegetable Research, Varanasi 221305, India;
| | - Shiv Kumar
- Biodiversity and Integrated Gene Management Program, International Center for Agricultural Research in the Dry Areas, Avenue HafianeCherkaoui, Rabat 10112, Morocco
- Correspondence: (S.K.); (H.K.D.)
| | - Harsh Kumar Dikshit
- Division of Genetics, Indian Agricultural Research Institute, New Delhi 110012, India; (G.P.M.); (M.S.A.); (S.C.); (M.K.)
- Correspondence: (S.K.); (H.K.D.)
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17
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Anuragi H, Yadav R, Sheoran R. Gamma-rays and EMS induced resistance to mungbean yellow mosaic India virus in mungbean [ Vigna radiata (L.) R. Wilczek] and its validation using linked molecular markers. Int J Radiat Biol 2021; 98:69-81. [PMID: 34705607 DOI: 10.1080/09553002.2022.1998710] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
PURPOSE Mungbean yellow mosaic India virus (MYMIV) is a serious constraint in the mungbean which is a potential source of easily digestible high-quality proteins, fibers, minerals, and vitamins in Asian countries. Developing resistant cultivars is the most cost-effective, eco-friendly, and sustainable approach to protect mungbean from MYMIV damage. Mutation breeding provides a quick and cost-effective way of developing resistance as lack of genetic variability is the biggest bottleneck for other traditional breeding tools. MATERIALS AND METHODS Outstanding but MYMIV-sensitive varieties of mungbean, viz., MH 2-15 and MH 318 were mutagenized through various individual and combined doses of gamma-rays and Ethyl methanesulfonate (EMS) and evaluated in M2 and M3 generations for the appearance of resistance reactions. This was subsequently validated through marker-assisted genotyping using previously reported Yellow Mosaic Disease (YMD) linked markers. RESULTS The phenotyping in M3 generation yielded 64 MYMIV resistant mutants whereas, marker-assisted genotyping identified the 22 mutants with true resistance. Markers YR4, CYR1, and CEDG180 were found associated with MYMIV resistance whereas, DMB-SSR158 did not show any amplification. Among identified resistant mutants, ten lines exhibited at par and two revealed a little higher seed yield over controls. CONCLUSIONS The mutagenesis created significant variability in MYMIV resistance as well as seed yield per plant. YR4, CYR1, and CEDG180 are found to be linked with the MYMIV loci in the mungbean and could be utilized for MYMIV resistance breeding. Mutant M-37 from MH 2-15 and M-104 from MH 318 exhibited more seed yield along with MYMIV resistance which upon further validation can be released as a variety. The induced mutagenesis integrated with powerful emerging molecular and next-generation sequencing (NGS) tools would be highly helpful in breeding mungbean for durable resistance against threatening MYMIV.
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Affiliation(s)
- Hirdayesh Anuragi
- ICAR-Central Agroforestry Research Institute, Jhansi, India.,Chaudhary Charan Singh Haryana Agricultural University, Hisar, Haryana, India
| | - Rajesh Yadav
- Chaudhary Charan Singh Haryana Agricultural University, Hisar, Haryana, India
| | - Ravika Sheoran
- Chaudhary Charan Singh Haryana Agricultural University, Hisar, Haryana, India
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18
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Younas M, Zou H, Laraib T, Rajpoot NA, Khan NA, Zaidi AA, Ayaz Kachelo G, Akhtar MW, Hayat S, Al-Sadi AM, Sayed S, Kesba H, Ansari MJ, Zuan ATK, Li Y, Arif M. The impact of insecticides and plant extracts on the suppression of insect vector (Bemisia tabaci) of Mungbean yellow mosaic virus (MYMV). PLoS One 2021; 16:e0256449. [PMID: 34529693 PMCID: PMC8445409 DOI: 10.1371/journal.pone.0256449] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2021] [Accepted: 08/09/2021] [Indexed: 01/19/2023] Open
Abstract
Mungbean yellow mosaic virus (MYMV) is an important constraint in successful production of mungbean (Vigna radiata L.) in many countries, including Pakistan. The MYMV spreads by insect vector whitefly (Bemisia tabaci Gennadius). The use of resistant cultivars is the most effective management tactics for MYMV. Twenty mungbean varieties/lines were screened against insect vector of MYMV under field condition in the current study. Resistance levels for varieties/lines were assessed through visual scoring of typical disease symptoms. Furthermore, the impacts of two insecticides 'Imidacloprid' and 'Thiamethoxam' and two plant extracts, i.e., neem (Azadirachta indica), and Eucalyptus (Eucalyptus camaldulensis) were tested on the suppression of whitefly. Field screening indicated that none of the tested varieties/lines proved immune/highly resistant, while significant variations were recorded among varieties/lines for resistance level. All varieties/lines were systemically infected with MYMV. The varieties 'AARI-2006' and 'Mung-14043' were considered as resistant to MYMV based on visual symptoms and the lowest vector population. These varieties were followed by 'NM-2006' and 'NL-31', which proved as moderately resistant to MYMV. All remaining varieties/lines were grouped as moderately to highly susceptible to MYMV based on visual symptoms' scoring. These results revealed that existing mungbean germplasm do not possess high resistance level MYMV. However, the lines showing higher resistance in the current study must be exploited in breeding programs for the development of resistant mungbean varieties/lines against MYMV. Imidacloprid proved as the most effective insecticide at all concentrations to manage whitefly population. Therefore, use of the varieties with higher resistance level and spraying Imidacloprid could lower the incidence of MYMV.
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Affiliation(s)
- Muhammad Younas
- Department of Plant Pathology, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Huasong Zou
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Tasmia Laraib
- Institute of Molecular Biology and Biotechnology, The University of Lahore, Lahore, Pakistan
| | - Nasir Ahmad Rajpoot
- Department of Plant Pathology, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Nasir Ahmad Khan
- Department of Plant Pathology, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Anas Ahmad Zaidi
- Department of Plant Pathology, The Islamia University of Bahawalpur, Bahawalpur, Pakistan
| | - Ghalib Ayaz Kachelo
- Department of Plant Pathology, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Muhammad Waqar Akhtar
- Department of Soil Science, The Islamia University of Bahawalpur, Bahawalpur, Pakistan
| | - Shoukat Hayat
- Department of Forestry, The Islamia University of Bahawalpur, Bahawalpur, Pakistan
| | - Abdullah M. Al-Sadi
- Department of Plant Sciences, College of Agricultural and Marine Sciences, Sultan Qaboos University, Alkhoud, Oman
| | - Samy Sayed
- Department of Science and Technology, University College-Ranyah, Taif University, Taif, Saudi Arabia
| | - Hosny Kesba
- Zoology and Agricultural Nematology Department, Faculty of Agriculture, Cairo University, Giza, Egypt
| | - Mohammad Javed Ansari
- Department of Botany, Hindu College Moradabad (Mahatma Jyotiba Phule Rohilkhand University Bareilly), Moradabad, India
| | - Ali Tan Kee Zuan
- Department of Land Management, Faculty of Agriculture, Universiti Putra Malaysia, UPM, Selangor, Malaysia
| | - Yunzhou Li
- Department of Plant Pathology, College of Agriculture, Guizhou University, Guiyang, Guizhou, China
| | - Muhammad Arif
- Department of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, China
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19
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Comparative RNA-Seq analysis unfolds a complex regulatory network imparting yellow mosaic disease resistance in mungbean [Vigna radiata (L.) R. Wilczek]. PLoS One 2021; 16:e0244593. [PMID: 33434234 PMCID: PMC7802970 DOI: 10.1371/journal.pone.0244593] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2020] [Accepted: 12/11/2020] [Indexed: 11/19/2022] Open
Abstract
Yellow Mosaic Disease (YMD) in mungbean [Vigna radiata (L.) R. Wilczek] is one of the most damaging diseases in Asia. In the northern part of India, the YMD is caused by Mungbean Yellow Mosaic India Virus (MYMIV), while in southern India this is caused by Mungbean Yellow Mosaic Virus (MYMV). The molecular mechanism of YMD resistance in mungbean remains largely unknown. In this study, RNA-seq analysis was conducted between a resistant (PMR-1) and a susceptible (Pusa Vishal) mungbean genotype under infected and control conditions to understand the regulatory network operating between mungbean-YMV. Overall, 76.8 million raw reads could be generated in different treatment combinations, while mapping rate per library to the reference genome varied from 86.78% to 93.35%. The resistance to MYMIV showed a very complicated gene network, which begins with the production of general PAMPs (pathogen-associated molecular patterns), then activation of various signaling cascades like kinases, jasmonic acid (JA) and brassinosteroid (BR), and finally the expression of specific genes (like PR-proteins, virus resistance and R-gene proteins) leading to resistance response. The function of WRKY, NAC and MYB transcription factors in imparting the resistance against MYMIV could be established. The string analysis also revealed the role of proteins involved in kinase, viral movement and phytoene synthase activity in imparting YMD resistance. A set of novel stress-related EST-SSRs are also identified from the RNA-Seq data which may be used to find the linked genes/QTLs with the YMD resistance. Also, 11 defence-related transcripts could be validated through quantitative real-time PCR analysis. The identified gene networks have led to an insight about the defence mechanism operating against MYMIV infection in mungbean which will be of immense use to manage the YMD resistance in mungbean.
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