Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanut
Oligo probe staining is a low-cost and efficient chromosome identification technique. In this study, oligo genomic in situ hybridization (Oligo-GISH) technology was established in peanut. Peanut A and B subgenome-specific interspersed repeat (IR) oligo probe sets were developed based on clustering a...
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| Format: | Article |
| Language: | English |
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KeAi Communications Co., Ltd.
2023-02-01
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| Series: | Crop Journal |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S221451412200085X |
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| author | Pei Du Liuyang Fu Qian Wang Tao Lang Hua Liu Suoyi Han Chenyu Li Bingyan Huang Li Qin Xiaodong Dai Wenzhao Dong Xinyou Zhang |
| author_facet | Pei Du Liuyang Fu Qian Wang Tao Lang Hua Liu Suoyi Han Chenyu Li Bingyan Huang Li Qin Xiaodong Dai Wenzhao Dong Xinyou Zhang |
| author_sort | Pei Du |
| collection | DOAJ |
| description | Oligo probe staining is a low-cost and efficient chromosome identification technique. In this study, oligo genomic in situ hybridization (Oligo-GISH) technology was established in peanut. Peanut A and B subgenome-specific interspersed repeat (IR) oligo probe sets were developed based on clustering and electronic localization of tandem repeat sequences in the reference genome of Tifrunner. The Oligo-GISH kit was then used to perform staining of 15 Arachis species. The A-subgenome probe set stained the chromosomes of A- and E-genome Arachis species, the B-subgenome probe set stained those of B-, F-, K-, and E-genome species, and neither set stained those of H-genome species. These results indicate the relationships among the genomes of these Arachis species. The Oligo-GISH kit was also used for batch staining of the chromosomes of 389 seedlings from the irradiated M1 generation, allowing 67 translocation and deletion lines to be identified. Subsequent Oligo-FISH karyotyping, FISH using single-copy probe libraries, and trait investigation identified seven homozygous chromosomal variants from the M3 generation and suggested that there may be genes on chromosome 4B controlling seed number per pod. These findings demonstrate that the IR probe sets and method developed in this study can facilitate research on distant hybridization and genetic improvement in peanut. |
| first_indexed | 2024-04-10T21:10:20Z |
| format | Article |
| id | doaj.art-db7e4d0137e74f4280df306bb9057503 |
| institution | Directory Open Access Journal |
| issn | 2214-5141 |
| language | English |
| last_indexed | 2024-04-10T21:10:20Z |
| publishDate | 2023-02-01 |
| publisher | KeAi Communications Co., Ltd. |
| record_format | Article |
| series | Crop Journal |
| spelling | doaj.art-db7e4d0137e74f4280df306bb90575032023-01-21T04:20:53ZengKeAi Communications Co., Ltd.Crop Journal2214-51412023-02-01111238246Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanutPei Du0Liuyang Fu1Qian Wang2Tao Lang3Hua Liu4Suoyi Han5Chenyu Li6Bingyan Huang7Li Qin8Xiaodong Dai9Wenzhao Dong10Xinyou Zhang11Henan Academy of Crop Molecular Breeding/State Industrial Innovation Center of Biological Breeding/The Shennong Laboratory/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Henan Academy of Agricultural Sciences, Graduate T & R Base of Zhengzhou University, Zhengzhou 450002, Henan, ChinaHenan Academy of Crop Molecular Breeding/State Industrial Innovation Center of Biological Breeding/The Shennong Laboratory/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Henan Academy of Agricultural Sciences, Graduate T & R Base of Zhengzhou University, Zhengzhou 450002, Henan, ChinaHenan Academy of Crop Molecular Breeding/State Industrial Innovation Center of Biological Breeding/The Shennong Laboratory/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Henan Academy of Agricultural Sciences, Graduate T & R Base of Zhengzhou University, Zhengzhou 450002, Henan, ChinaInstitute of Biotechnology and Nuclear Technology, Sichuan Academy of Agricultural Sciences, Chengdu 610061, Sichuan, ChinaHenan Academy of Crop Molecular Breeding/State Industrial Innovation Center of Biological Breeding/The Shennong Laboratory/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Henan Academy of Agricultural Sciences, Graduate T & R Base of Zhengzhou University, Zhengzhou 450002, Henan, ChinaHenan Academy of Crop Molecular Breeding/State Industrial Innovation Center of Biological Breeding/The Shennong Laboratory/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Henan Academy of Agricultural Sciences, Graduate T & R Base of Zhengzhou University, Zhengzhou 450002, Henan, ChinaHenan Academy of Crop Molecular Breeding/State Industrial Innovation Center of Biological Breeding/The Shennong Laboratory/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Henan Academy of Agricultural Sciences, Graduate T & R Base of Zhengzhou University, Zhengzhou 450002, Henan, ChinaHenan Academy of Crop Molecular Breeding/State Industrial Innovation Center of Biological Breeding/The Shennong Laboratory/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Henan Academy of Agricultural Sciences, Graduate T & R Base of Zhengzhou University, Zhengzhou 450002, Henan, ChinaHenan Academy of Crop Molecular Breeding/State Industrial Innovation Center of Biological Breeding/The Shennong Laboratory/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Henan Academy of Agricultural Sciences, Graduate T & R Base of Zhengzhou University, Zhengzhou 450002, Henan, ChinaHenan Academy of Crop Molecular Breeding/State Industrial Innovation Center of Biological Breeding/The Shennong Laboratory/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Henan Academy of Agricultural Sciences, Graduate T & R Base of Zhengzhou University, Zhengzhou 450002, Henan, ChinaHenan Academy of Crop Molecular Breeding/State Industrial Innovation Center of Biological Breeding/The Shennong Laboratory/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Henan Academy of Agricultural Sciences, Graduate T & R Base of Zhengzhou University, Zhengzhou 450002, Henan, ChinaHenan Academy of Crop Molecular Breeding/State Industrial Innovation Center of Biological Breeding/The Shennong Laboratory/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Henan Academy of Agricultural Sciences, Graduate T & R Base of Zhengzhou University, Zhengzhou 450002, Henan, China; Corresponding author.Oligo probe staining is a low-cost and efficient chromosome identification technique. In this study, oligo genomic in situ hybridization (Oligo-GISH) technology was established in peanut. Peanut A and B subgenome-specific interspersed repeat (IR) oligo probe sets were developed based on clustering and electronic localization of tandem repeat sequences in the reference genome of Tifrunner. The Oligo-GISH kit was then used to perform staining of 15 Arachis species. The A-subgenome probe set stained the chromosomes of A- and E-genome Arachis species, the B-subgenome probe set stained those of B-, F-, K-, and E-genome species, and neither set stained those of H-genome species. These results indicate the relationships among the genomes of these Arachis species. The Oligo-GISH kit was also used for batch staining of the chromosomes of 389 seedlings from the irradiated M1 generation, allowing 67 translocation and deletion lines to be identified. Subsequent Oligo-FISH karyotyping, FISH using single-copy probe libraries, and trait investigation identified seven homozygous chromosomal variants from the M3 generation and suggested that there may be genes on chromosome 4B controlling seed number per pod. These findings demonstrate that the IR probe sets and method developed in this study can facilitate research on distant hybridization and genetic improvement in peanut.http://www.sciencedirect.com/science/article/pii/S221451412200085XPeanutOligo-GISHGenomic relationshipVariantsChromosome identification |
| spellingShingle | Pei Du Liuyang Fu Qian Wang Tao Lang Hua Liu Suoyi Han Chenyu Li Bingyan Huang Li Qin Xiaodong Dai Wenzhao Dong Xinyou Zhang Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanut Crop Journal Peanut Oligo-GISH Genomic relationship Variants Chromosome identification |
| title | Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanut |
| title_full | Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanut |
| title_fullStr | Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanut |
| title_full_unstemmed | Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanut |
| title_short | Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanut |
| title_sort | development of oligo gish kits for efficient detection of chromosomal variants in peanut |
| topic | Peanut Oligo-GISH Genomic relationship Variants Chromosome identification |
| url | http://www.sciencedirect.com/science/article/pii/S221451412200085X |
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