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Diversity arrays technology (DArT) for high-throughput profiling of the hexaploid wheat genome.

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Title: Diversity arrays technology (DArT) for high-throughput profiling of the hexaploid wheat genome.
Authors: Akbari, Mona1, Wenzl, Peter1,2, Caig, Vanessa1,2, Carling, Jason1,2, Xia, Ling1,2, Yang, Shiying1,2, Uszynski, Grzegorz1,2, Mohler, Volker3,4, Lehmensiek, Anke5, Kuchel, Haydn6, Hayden, Mathew J.4, Howes, Neil1,4, Sharp, Peter1,4, Vaughan, Peter1,4, Rathmell, Bill1,4, Huttner, Eric1,2, Kilian, Andrzej1,2 a.kilian@DiversityArrays.com
Source: Theoretical & Applied Genetics. Nov2006, Vol. 113 Issue 8, p1409-1420. 12p. 1 Diagram, 2 Charts, 3 Graphs.
Subjects: Crop improvement, Wheat, Genetic markers, Plant genomes, Nucleotide sequence, Arabidopsis, Genetic polymorphisms
Abstract: Despite a substantial investment in the development of panels of single nucleotide polymorphism (SNP) markers, the simple sequence repeat (SSR) technology with a limited multiplexing capability remains a standard, even for applications requiring whole-genome information. Diversity arrays technology (DArT) types hundreds to thousands of genomic loci in parallel, as previously demonstrated in a number diploid plant species. Here we show that DArT performs similarly well for the hexaploid genome of bread wheat ( Triticum aestivum L.). The methodology previously used to generate DArT fingerprints of barley also generated a large number of high-quality markers in wheat (99.8% allele-calling concordance and approximately 95% call rate). The genetic relationships among bread wheat cultivars revealed by DArT coincided with knowledge generated with other methods, and even closely related cultivars could be distinguished. To verify the Mendelian behaviour of DArT markers, we typed a set of 90 Cranbrook × Halberd doubled haploid lines for which a framework (FW) map comprising a total of 339 SSR, restriction fragment length polymorphism (RFLP) and amplified fragment length polymorphism (AFLP) markers was available. We added an equal number of DArT markers to this data set and also incorporated 71 sequence tagged microsatellite (STM) markers. A comparison of logarithm of the odds (LOD) scores, call rates and the degree of genome coverage indicated that the quality and information content of the DArT data set was comparable to that of the combined SSR/RFLP/AFLP data set of the FW map. [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: <searchLink fieldCode="JN" term="%22Theoretical+%26+Applied+Genetics%22">Theoretical & Applied Genetics</searchLink>. Nov2006, Vol. 113 Issue 8, p1409-1420. 12p. 1 Diagram, 2 Charts, 3 Graphs.
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  Data: <searchLink fieldCode="DE" term="%22Crop+improvement%22">Crop improvement</searchLink><br /><searchLink fieldCode="DE" term="%22Wheat%22">Wheat</searchLink><br /><searchLink fieldCode="DE" term="%22Genetic+markers%22">Genetic markers</searchLink><br /><searchLink fieldCode="DE" term="%22Plant+genomes%22">Plant genomes</searchLink><br /><searchLink fieldCode="DE" term="%22Nucleotide+sequence%22">Nucleotide sequence</searchLink><br /><searchLink fieldCode="DE" term="%22Arabidopsis%22">Arabidopsis</searchLink><br /><searchLink fieldCode="DE" term="%22Genetic+polymorphisms%22">Genetic polymorphisms</searchLink>
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  Data: Despite a substantial investment in the development of panels of single nucleotide polymorphism (SNP) markers, the simple sequence repeat (SSR) technology with a limited multiplexing capability remains a standard, even for applications requiring whole-genome information. Diversity arrays technology (DArT) types hundreds to thousands of genomic loci in parallel, as previously demonstrated in a number diploid plant species. Here we show that DArT performs similarly well for the hexaploid genome of bread wheat ( Triticum aestivum L.). The methodology previously used to generate DArT fingerprints of barley also generated a large number of high-quality markers in wheat (99.8% allele-calling concordance and approximately 95% call rate). The genetic relationships among bread wheat cultivars revealed by DArT coincided with knowledge generated with other methods, and even closely related cultivars could be distinguished. To verify the Mendelian behaviour of DArT markers, we typed a set of 90 Cranbrook × Halberd doubled haploid lines for which a framework (FW) map comprising a total of 339 SSR, restriction fragment length polymorphism (RFLP) and amplified fragment length polymorphism (AFLP) markers was available. We added an equal number of DArT markers to this data set and also incorporated 71 sequence tagged microsatellite (STM) markers. A comparison of logarithm of the odds (LOD) scores, call rates and the degree of genome coverage indicated that the quality and information content of the DArT data set was comparable to that of the combined SSR/RFLP/AFLP data set of the FW map. [ABSTRACT FROM AUTHOR]
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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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