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Manoj CA, Muralidhara B, Basavaraj PS, Honnappa M, Ajitha V, Aleena D, Ishwaryalakshmi VG, Usha G, Gireesh C, Senguttuvel P, Kemparaju KB, Rao LVS, Basavaraj K, Laha GS, Sundaram RM, Kumar RM, Rathod S, Salimath PM, Lokesha R, Diwan J, Nidagundi JM, Gowrisankar M, Anantha MS. Improvement of bacterial blight resistance of the high yielding, fine-grain, rice variety, Gangavati sona through marker-assisted backcross breeding. 3 Biotech 2023; 13:393. [PMID: 37953830 PMCID: PMC10638137 DOI: 10.1007/s13205-023-03828-0] [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: 06/27/2023] [Accepted: 10/19/2023] [Indexed: 11/14/2023] Open
Abstract
Gangavati sona (GS) is a high-yielding, fine-grain rice variety widely grown in the Tungabhadra command area in Karnataka, India; however, it is susceptible to bacterial blight (BB). Therefore, the present study was conducted to improve the GS variety for BB resistance. Three BB-resistant genes (xa5, xa13, and Xa21) were introgressed into the genetic background of susceptible cultivar GS through marker-assisted backcrossing (MABB) by using Improved samba Mahsuri (ISM), a popular, high-yielding, bacterial blight resistant rice variety as a donor parent. Foreground selection was carried out using gene-specific markers, viz., xa5FM (xa5), xa13prom (xa13), and pTA248 (Xa21), while background selection was carried out using well-distributed 64 polymorphic microsatellite markers. The true heterozygote F1 was used as the male parent for backcrossing with GS to obtain BC1F1. The process was repeated in BC1F1 generation, and a BC2F1 plant (IGS-5-11-5) possessing all three target genes along with maximum recurrent parent genome (RPG) recovery (86.7%) was selfed to obtain BC2F2s. At BC2F2, a single triple gene homozygote plant (IGS-5-11-5-33) with 92.6% RPG recovery was identified and advanced to BC2F5 by a pedigree method. At BC2F5, the seven best entries were selected, possessing all three resistance genes with high resistance levels against bacterial blight, yield level, and grain quality features equivalent to better than GS. The improved versions of GS will immensely benefit the farmers whose fields are endemic to BB.
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Affiliation(s)
- C. A. Manoj
- University of Agricultural Sciences, Raichur, India
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | - B. Muralidhara
- University of Agricultural Sciences, Raichur, India
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | - P. S. Basavaraj
- ICAR-Indian Institute of Rice Research, Hyderabad, India
- ICAR-National Institute of Abiotic Stress Management, Baramati, India
| | - M. Honnappa
- University of Agricultural Sciences, Raichur, India
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | - V. Ajitha
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | - D. Aleena
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | | | - G. Usha
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | - C. Gireesh
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | - P. Senguttuvel
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | | | | | - K. Basavaraj
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | - G. S. Laha
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | - R. M. Sundaram
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | | | | | | | - R. Lokesha
- University of Agricultural Sciences, Raichur, India
| | | | | | | | - M. S. Anantha
- ICAR-Indian Institute of Rice Research, Hyderabad, India
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Kumar PKC, Bellundagi A, Krishna H, Mallikarjuna MG, Thimmappa RK, Rai N, Shashikumara P, Sinha N, Jain N, Singh PK, Singh GP, Prabhu KV. Development of bread wheat ( Triticum aestivum L) variety HD3411 following marker-assisted backcross breeding for drought tolerance. Front Genet 2023; 14:1046624. [PMID: 36911407 PMCID: PMC9998906 DOI: 10.3389/fgene.2023.1046624] [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: 09/16/2022] [Accepted: 02/06/2023] [Indexed: 02/26/2023] Open
Abstract
Marker-assisted backcross breeding enables selective insertion of targeted traits into the genome to improve yield, quality, and stress resistance in wheat. In the current investigation, we transferred four drought tolerance quantitative trait loci (QTLs) controlling traits, viz canopy temperature, normalized difference vegetative index, chlorophyll content, and grain yield from the drought-tolerant donor line, C306, into a popular high-yielding, drought-sensitive variety, HD2733. Marker-assisted selection coupled with stringent phenotypic screening was used to advance each generation. This study resulted in 23 improved lines carrying combinations of four drought tolerance QTLs with a range of 85.35%-95.79% background recovery. The backcross-derived lines gave a higher yield under moisture-deficit stress conditions compared with the recipient parent. They also showed higher phenotypic mean values for physiological traits and stability characteristics of HD2733. A promising genotype, HD3411, derived from this cross was identified for release after national multi-location coordinating trials under the All India Coordinated Wheat Improvement Project. Our study is a prime example of the advantages of precision breeding using integrating markers and phenotypic selection to develop new cultivars with desirable traits like drought tolerance.
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Affiliation(s)
| | | | - Hari Krishna
- ICAR-Indian Agricultural Research Institute, New Delhi, India
| | | | | | - Neha Rai
- ICAR-Indian Agricultural Research Institute, New Delhi, India
| | - P Shashikumara
- ICAR-Indian Grassland and Fodder Research Institute, Jhansi, India
| | - Nivedita Sinha
- ICAR-Indian Agricultural Research Institute, New Delhi, India
| | - Neelu Jain
- ICAR-Indian Agricultural Research Institute, New Delhi, India
| | - Pradeep K Singh
- ICAR-Indian Agricultural Research Institute, New Delhi, India
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3
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He Z, Xin Y, Wang C, Yang H, Xu Z, Cheng J, Li Z, Ye C, Yin H, Xie Z, Jiang N, Huang J, Xiao J, Tian B, Liang Y, Zhao K, Peng J. Genomics-Assisted Improvement of Super High-Yield Hybrid Rice Variety "Super 1000" for Resistance to Bacterial Blight and Blast Diseases. FRONTIERS IN PLANT SCIENCE 2022; 13:881244. [PMID: 35668808 PMCID: PMC9164160 DOI: 10.3389/fpls.2022.881244] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/24/2022] [Accepted: 04/19/2022] [Indexed: 06/15/2023]
Abstract
The two-line rice hybrid "Super 1000" (GX24S × R900) represents a major landmark achievement of breeding for super-hybrid rice in China. However, both male parent R900 and hybrid "Super 1000" have an obvious defect of high susceptibility to rice bacterial blight (BB) and blast. Thus, improving disease resistance and maintaining the original high-yield capacity are essential for the sustainable application of "Super 1000." In this study, the application of closely linked single-nucleotide polymorphism (SNP) markers for foreground selection of dominant resistance gene loci together with genome-wide SNP markers for the background selection rapidly improved the disease resistance of R900 without disturbing its high-yield capacity. A series of improved R900 lines (iR900, in BC2Fn and BC3Fn generations) were developed to stack resistance genes (Xa23+Pi9, Xa23+Pi1+Pi2/9) by marker-assisted backcrossing and field selection for phenotypes, and further crossed with the female line GX24S to obtain improved hybrid variety Super 1000 (iS1000). The genetic backgrounds of iS1000 and "Super 1000" were profiled by using a 56 K SNP-Chip, and results showed that they shared 98.76% of similarity. Meanwhile, evaluation of the field disease resistance showed that the iR900 lines and iS1000 hybrids possess significantly enhanced resistance to both BB and rice blast. Resistance spectrum assays revealed that the iR900 lines and their derived hybrids exhibited high-level resistance to 28 Xoo strains tested, and enhanced resistance to leaf blast at the seedling stage when infected with 38 Magnaporthe oryzae isolates. Between 2019 and 2020, the multi-location field trials across the middle and lower reaches of the Yangtze River were launched and showed that the iS1000 slightly out-yielded than the original variety. In a large-scale demonstration site (6.73 ha, Yunnan, China), the iS1000 achieved 17.06 t/hm2 of yield in 2019. Moreover, the high similarity was observed in main agronomic traits and grain quality when comparing the improved lines/hybrids to original ones (iR900 vs. R900, iS1000 vs. S1000). This work presented a typical genomics-assisted breeding strategy and practice, which involves in directional introgression and rapid stack of multiple disease resistance genes, endowing the super-high-yield hybrid rice variety with holistic disease resistance but without yield penalty.
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Affiliation(s)
- Zhizhou He
- Huazhi Bio-Tech Co., Ltd., Changsha, China
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Yeyun Xin
- China National Hybrid Rice Research and Development Center, Changsha, China
| | - Chunlian Wang
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing, China
| | - Hanshu Yang
- China National Hybrid Rice Research and Development Center, Changsha, China
| | - Zhi Xu
- Huazhi Bio-Tech Co., Ltd., Changsha, China
| | | | - Zhouwei Li
- Huazhi Bio-Tech Co., Ltd., Changsha, China
| | | | - Hexing Yin
- Huazhi Bio-Tech Co., Ltd., Changsha, China
| | - Zhenyu Xie
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Nan Jiang
- Key Laboratory of Southern Rice Innovation and Improvement, Ministry of Agriculture and Rural Affairs, Hunan Engineering Laboratory of Disease and Pest Resistant Rice Breeding, Yuan Longping High-Tech Agriculture Company Ltd., Changsha, China
| | - Jing Huang
- China National Hybrid Rice Research and Development Center, Changsha, China
| | | | | | - Yan Liang
- State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou, China
| | - Kaijun Zhao
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing, China
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Dasari A, Vemulapalli P, Gonuguntla R, Thota DK, Elumalai P, Muppavarapu K, Butam LP, Kulkarni SR, Sinha P, Gunukula H, Kale RR, Muralidhara AD, Shaik H, Miriyala A, Karnati P, Shaik M, Shankar LG, Madamsetty SP, Sena B, Channappa G, Siddaih AM, Lella VSR, Didla RB, Mohammad LA, Jagarlamudi VR, Avula VG, Sundaram RM. Improvement of bacterial blight resistance of the popular variety, Nellore Mahsuri (NLR34449) through marker-assisted breeding. J Genet 2022. [DOI: 10.1007/s12041-021-01340-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Kumar S, Hilario E, Deng CH, Molloy C. Turbocharging introgression breeding of perennial fruit crops: a case study on apple. HORTICULTURE RESEARCH 2020; 7:47. [PMID: 32257233 PMCID: PMC7109137 DOI: 10.1038/s41438-020-0270-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2019] [Revised: 02/13/2020] [Accepted: 02/18/2020] [Indexed: 05/08/2023]
Abstract
The allelic diversity of primitive germplasm of fruit crops provides a useful resource for introgressing novel genes to meet consumer preferences and environmental challenges. Pre-breeding facilitates the identification of novel genetic variation in the primitive germplasm and expedite its utilisation in cultivar breeding programmes. Several generations of pre-breeding could be required to minimise linkage drag from the donor parent and to maximise the genomic content of the recipient parent. In this study we investigated the potential of genomic selection (GS) as a tool for rapid background selection of parents for the successive generation. A diverse set of 274 accessions was genotyped using random-tag genotyping-by-sequencing, and phenotyped for eight fruit quality traits. The relationship between 'own phenotypes' of 274 accessions and their general combining ability (GCA) was also examined. Trait heritability influenced the strength of correspondence between own phenotype and the GCA. The average (across eight traits) accuracy of predicting own phenotype was 0.70, and the correlations between genomic-predicted own phenotype and GCA were similar to the observed correlations. Our results suggest that genome-assisted parental selection (GAPS) is a credible alternative to phenotypic parental selection, so could help reduce the generation interval to allow faster accumulation of favourable alleles from donor and recipient parents.
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Affiliation(s)
- Satish Kumar
- The New Zealand Institute for Plant and Food Research Limited, Hawkes Bay Research Centre, Havelock North, New Zealand
| | - Elena Hilario
- The New Zealand Institute for Plant and Food Research Limited, Mount Albert Research Centre, Auckland, New Zealand
| | - Cecilia H. Deng
- The New Zealand Institute for Plant and Food Research Limited, Mount Albert Research Centre, Auckland, New Zealand
| | - Claire Molloy
- The New Zealand Institute for Plant and Food Research Limited, Hawkes Bay Research Centre, Havelock North, New Zealand
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Tang Y, Zhang T, Zhang G, Wang J, Fan Q, Chen X, Wei Y, Han K, Wang Y. Eight SNPs of the Myf5 gene and diplotypes associated with growth and reproductive traits in Jinghai yellow chicken. Mol Biol Rep 2014; 41:6837-44. [PMID: 25005260 DOI: 10.1007/s11033-014-3569-8] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2013] [Accepted: 06/25/2014] [Indexed: 02/03/2023]
Abstract
The objective of this study was to analyze possible associations between single nucleotide polymorphisms (SNPs) in the Myf5 gene with chicken growth and reproductive traits. SNPs in Myf5 of the Jinghai yellow chicken were detected by the polymerase chain reaction single-strand conformation polymorphism method and the haplotypes were analyzed. Eight SNPs were identified in the exons of Myf5. Nine haplotypes were established in a group of 379 Jinghai yellow chickens. In terms of growth traits, least square analysis showed that haplotype H1H5 had significant effects on weight at weeks 8 and 12 (P < 0.05). Haplotype H2H6 had significant effects on weight at weeks 12 and 14 (P < 0.05). For reproductive traits, H1H5 had higher body weight for the first egg than H1H4 and H2H4 (P < 0.05), and H1H3 (P < 0.01). H1H3 had a poor performance in average egg weight at 300 days. On the other hand, H1H3 had an advantage in egg number at 300 days. The results showed that SNPs of Myf5 have certain effects on growth and reproductive traits in Jinghai yellow chickens, which can be used in marker-assisted selection to accelerate chicken genetic progress.
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Affiliation(s)
- Ying Tang
- College of Animal Science and Technology, Yangzhou University, Yangzhou, 225009, Jiangsu, China
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7
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Zhao XH, Wang JY, Zhang GX, Wei Y, Gu YP, Yu YB. Single nucleotide polymorphism in the STAT5b gene is associated with body weight and reproductive traits of the Jinghai Yellow chicken. Mol Biol Rep 2011; 39:4177-83. [DOI: 10.1007/s11033-011-1202-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2011] [Accepted: 07/11/2011] [Indexed: 10/18/2022]
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