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Partitioning and physical mapping of wheat chromosome 3B and its homoeologue 3E in Thinopyrum elongatum by inducing homoeologous recombination.

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Title: Partitioning and physical mapping of wheat chromosome 3B and its homoeologue 3E in Thinopyrum elongatum by inducing homoeologous recombination.
Authors: Zhang, Mingyi1 (AUTHOR), Zhang, Wei1 (AUTHOR), Zhu, Xianwen1 (AUTHOR), Sun, Qing2 (AUTHOR), Chao, Shiaoman3 (AUTHOR), Yan, Changhui2 (AUTHOR), Xu, Steven S.3 (AUTHOR), Fiedler, Jason3 (AUTHOR), Cai, Xiwen1 (AUTHOR) xiwen.cai@ndsu.edu
Source: Theoretical & Applied Genetics. Apr2020, Vol. 133 Issue 4, p1277-1289. 13p.
Subjects: Gene mapping, Genetic recombination, Plant chromosomes, Fluorescence in situ hybridization, Single nucleotide polymorphisms, Wheat diseases & pests, Wheat, Composite construction
Abstract: Key message: We performed homoeologous recombination-based partitioning and physical mapping of wheat chromosome 3B and Th. elongatum chromosome 3E, providing a unique physical framework of this homoeologous pair for genome studies. The wheat (Triticum aestivum, 2n = 6x = 42, AABBDD) and Thinopyrum elongatum (2n = 2x = 14, EE) genomes can be differentiated from each other by fluorescent genomic in situ hybridization (FGISH) as well as molecular markers. This has facilitated homoeologous recombination-based partitioning and engineering of their genomes for physical mapping and alien introgression. Here, we constructed a special wheat genotype, which was double monosomic for wheat chromosome 3B and Th. elongatum chromosome 3E and homozygous for the ph1b mutant, to induce 3B–3E homoeologous recombination. Totally, 81 3B–3E recombinants were recovered and detected in the primary, secondary, and tertiary homoeologous recombination cycles by FGISH. Comparing to the primary recombination, the secondary and tertiary recombination shifted toward the proximal regions due to the increase in homology between the pairing partners. The 3B–3E recombinants were genotyped by high-throughput wheat 90-K single nucleotide polymorphism (SNP) arrays and their recombination breakpoints physically mapped based on the FGISH patterns and SNP results. The 3B–3E recombination physically partitioned chromosome 3B into 38 bins, and 429 SNPs were assigned to the distinct bins. Integrative analysis of FGISH and SNP results led to the construction of a composite bin map for chromosome 3B. Additionally, we developed 22 SNP-derived semi-thermal asymmetric reverse PCR markers specific for chromosome 3E and constructed a comparative map of homoeologous chromosomes 3E, 3B, 3A, and 3D. In summary, this work provides a unique physical framework for further studies of the 3B–3E homoeologous pair and diversifies the wheat genome for wheat improvement. [ABSTRACT FROM AUTHOR]
Copyright of Theoretical & Applied Genetics is the property of Springer Nature and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. 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: Partitioning and physical mapping of wheat chromosome 3B and its homoeologue 3E in Thinopyrum elongatum by inducing homoeologous recombination.
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  Data: <searchLink fieldCode="AR" term="%22Zhang%2C+Mingyi%22">Zhang, Mingyi</searchLink><relatesTo>1</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Zhang%2C+Wei%22">Zhang, Wei</searchLink><relatesTo>1</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Zhu%2C+Xianwen%22">Zhu, Xianwen</searchLink><relatesTo>1</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Sun%2C+Qing%22">Sun, Qing</searchLink><relatesTo>2</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Chao%2C+Shiaoman%22">Chao, Shiaoman</searchLink><relatesTo>3</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Yan%2C+Changhui%22">Yan, Changhui</searchLink><relatesTo>2</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Xu%2C+Steven+S%2E%22">Xu, Steven S.</searchLink><relatesTo>3</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Fiedler%2C+Jason%22">Fiedler, Jason</searchLink><relatesTo>3</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Cai%2C+Xiwen%22">Cai, Xiwen</searchLink><relatesTo>1</relatesTo> (AUTHOR)<i> xiwen.cai@ndsu.edu</i>
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  Data: <searchLink fieldCode="JN" term="%22Theoretical+%26+Applied+Genetics%22">Theoretical & Applied Genetics</searchLink>. Apr2020, Vol. 133 Issue 4, p1277-1289. 13p.
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  Data: <searchLink fieldCode="DE" term="%22Gene+mapping%22">Gene mapping</searchLink><br /><searchLink fieldCode="DE" term="%22Genetic+recombination%22">Genetic recombination</searchLink><br /><searchLink fieldCode="DE" term="%22Plant+chromosomes%22">Plant chromosomes</searchLink><br /><searchLink fieldCode="DE" term="%22Fluorescence+in+situ+hybridization%22">Fluorescence in situ hybridization</searchLink><br /><searchLink fieldCode="DE" term="%22Single+nucleotide+polymorphisms%22">Single nucleotide polymorphisms</searchLink><br /><searchLink fieldCode="DE" term="%22Wheat+diseases+%26+pests%22">Wheat diseases & pests</searchLink><br /><searchLink fieldCode="DE" term="%22Wheat%22">Wheat</searchLink><br /><searchLink fieldCode="DE" term="%22Composite+construction%22">Composite construction</searchLink>
– Name: Abstract
  Label: Abstract
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  Data: Key message: We performed homoeologous recombination-based partitioning and physical mapping of wheat chromosome 3B and Th. elongatum chromosome 3E, providing a unique physical framework of this homoeologous pair for genome studies. The wheat (Triticum aestivum, 2n = 6x = 42, AABBDD) and Thinopyrum elongatum (2n = 2x = 14, EE) genomes can be differentiated from each other by fluorescent genomic in situ hybridization (FGISH) as well as molecular markers. This has facilitated homoeologous recombination-based partitioning and engineering of their genomes for physical mapping and alien introgression. Here, we constructed a special wheat genotype, which was double monosomic for wheat chromosome 3B and Th. elongatum chromosome 3E and homozygous for the ph1b mutant, to induce 3B–3E homoeologous recombination. Totally, 81 3B–3E recombinants were recovered and detected in the primary, secondary, and tertiary homoeologous recombination cycles by FGISH. Comparing to the primary recombination, the secondary and tertiary recombination shifted toward the proximal regions due to the increase in homology between the pairing partners. The 3B–3E recombinants were genotyped by high-throughput wheat 90-K single nucleotide polymorphism (SNP) arrays and their recombination breakpoints physically mapped based on the FGISH patterns and SNP results. The 3B–3E recombination physically partitioned chromosome 3B into 38 bins, and 429 SNPs were assigned to the distinct bins. Integrative analysis of FGISH and SNP results led to the construction of a composite bin map for chromosome 3B. Additionally, we developed 22 SNP-derived semi-thermal asymmetric reverse PCR markers specific for chromosome 3E and constructed a comparative map of homoeologous chromosomes 3E, 3B, 3A, and 3D. In summary, this work provides a unique physical framework for further studies of the 3B–3E homoeologous pair and diversifies the wheat genome for wheat improvement. [ABSTRACT FROM AUTHOR]
– Name: AbstractSuppliedCopyright
  Label:
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  Data: <i>Copyright of Theoretical & Applied Genetics is the property of Springer Nature and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. 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: 10.1007/s00122-020-03547-7
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      – Code: eng
        Text: English
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        PageCount: 13
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    Subjects:
      – SubjectFull: Gene mapping
        Type: general
      – SubjectFull: Genetic recombination
        Type: general
      – SubjectFull: Plant chromosomes
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      – SubjectFull: Fluorescence in situ hybridization
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      – TitleFull: Partitioning and physical mapping of wheat chromosome 3B and its homoeologue 3E in Thinopyrum elongatum by inducing homoeologous recombination.
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