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Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanut.

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Title: Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanut.
Authors: Pei Du1, Liuyang Fu1, Qian Wang1, Tao Lang2, Hua Liu1, Suoyi Han1, Chenyu Li1, Bingyan Huang1, Li Qin1, Xiaodong Dai1, Wenzhao Dong1, Xinyou Zhang1 haasz@126.com
Source: Crop Journal (2095-5421). Feb2023, Vol. 11 Issue 1, p238-246. 9p.
Subject Terms: *PEANUT genetics, *PLANT variation, *PLANT chromosomes, *IN situ hybridization, *ARACHIS
Abstract: 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. [ABSTRACT FROM AUTHOR]
Copyright of Crop Journal (2095-5421) is the property of KeAi Communications Co. and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)
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  Data: Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanut.
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  Data: <searchLink fieldCode="AR" term="%22Pei+Du%22">Pei Du</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Liuyang+Fu%22">Liuyang Fu</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Qian+Wang%22">Qian Wang</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Tao+Lang%22">Tao Lang</searchLink><relatesTo>2</relatesTo><br /><searchLink fieldCode="AR" term="%22Hua+Liu%22">Hua Liu</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Suoyi+Han%22">Suoyi Han</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Chenyu+Li%22">Chenyu Li</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Bingyan+Huang%22">Bingyan Huang</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Li+Qin%22">Li Qin</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Xiaodong+Dai%22">Xiaodong Dai</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Wenzhao+Dong%22">Wenzhao Dong</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Xinyou+Zhang%22">Xinyou Zhang</searchLink><relatesTo>1</relatesTo><i> haasz@126.com</i>
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  Data: <searchLink fieldCode="JN" term="%22Crop+Journal+%282095-5421%29%22">Crop Journal (2095-5421)</searchLink>. Feb2023, Vol. 11 Issue 1, p238-246. 9p.
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  Data: *<searchLink fieldCode="DE" term="%22PEANUT+genetics%22">PEANUT genetics</searchLink><br />*<searchLink fieldCode="DE" term="%22PLANT+variation%22">PLANT variation</searchLink><br />*<searchLink fieldCode="DE" term="%22PLANT+chromosomes%22">PLANT chromosomes</searchLink><br />*<searchLink fieldCode="DE" term="%22IN+situ+hybridization%22">IN situ hybridization</searchLink><br />*<searchLink fieldCode="DE" term="%22ARACHIS%22">ARACHIS</searchLink>
– Name: Abstract
  Label: Abstract
  Group: Ab
  Data: 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. [ABSTRACT FROM AUTHOR]
– Name: AbstractSuppliedCopyright
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  Group: Ab
  Data: <i>Copyright of Crop Journal (2095-5421) is the property of KeAi Communications Co. and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract.</i> (Copyright applies to all Abstracts.)
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        Value: 10.1016/j.cj.2022.03.014
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      – Code: eng
        Text: English
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        PageCount: 9
        StartPage: 238
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      – SubjectFull: PEANUT genetics
        Type: general
      – SubjectFull: PLANT variation
        Type: general
      – SubjectFull: PLANT chromosomes
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      – SubjectFull: IN situ hybridization
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      – SubjectFull: ARACHIS
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      – TitleFull: Development of Oligo-GISH kits for efficient detection of chromosomal variants in peanut.
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              Text: Feb2023
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