High-resolution skim genotyping by sequencing reveals the distribution of crossovers and gene conversions in Cicer arietinum and Brassica napus

Philipp Bayer; P. Ruperao; A.S. Mason; J. Stiller; Kenneth Chan; S. Hayashi; Y. Long; J. Meng; T. Sutton; P. Visendi; Rajeev K. Varshney; Jacqueline Batley; Dave Edwards

doi:10.1007/s00122-015-2488-y

High-resolution skim genotyping by sequencing reveals the distribution of crossovers and gene conversions in Cicer arietinum and Brassica napus

Philipp Bayer, P. Ruperao, A.S. Mason, J. Stiller, Kenneth Chan, S. Hayashi, Y. Long, J. Meng, T. Sutton, P. Visendi, Rajeev K. Varshney, Jacqueline Batley, Dave Edwards

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Abstract

© 2015, Springer-Verlag Berlin Heidelberg. Key message: We characterise the distribution of crossover and non-crossover recombination inBrassica napusandCicer arietinumusing a low-coverage genotyping by sequencing pipeline SkimGBS. Abstract: The growth of next-generation DNA sequencing technologies has led to a rapid increase in sequence-based genotyping for applications including diversity assessment, genome structure validation and gene–trait association. We have established a skim-based genotyping by sequencing method for crop plants and applied this approach to genotype-segregating populations of Brassica napus and Cicer arietinum. Comparison of progeny genotypes with those of the parental individuals allowed the identification of crossover and non-crossover (gene conversion) events. Our results identify the positions of recombination events with high resolution, permitting the mapping and frequency assessment of recombination in segregating populations.

Original language	English
Pages (from-to)	1039-1047
Journal	Theoretical and Applied Genetics
Volume	128
Issue number	6
Early online date	10 Mar 2015
DOIs	https://doi.org/10.1007/s00122-015-2488-y
Publication status	Published - Jun 2015

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Bayer, P., Ruperao, P., Mason, A. S., Stiller, J., Chan, K., Hayashi, S., Long, Y., Meng, J., Sutton, T., Visendi, P., Varshney, R. K., Batley, J., & Edwards, D. (2015). High-resolution skim genotyping by sequencing reveals the distribution of crossovers and gene conversions in Cicer arietinum and Brassica napus. Theoretical and Applied Genetics, 128(6), 1039-1047. https://doi.org/10.1007/s00122-015-2488-y

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title = "High-resolution skim genotyping by sequencing reveals the distribution of crossovers and gene conversions in Cicer arietinum and Brassica napus",

abstract = "{\textcopyright} 2015, Springer-Verlag Berlin Heidelberg. Key message: We characterise the distribution of crossover and non-crossover recombination inBrassica napusandCicer arietinumusing a low-coverage genotyping by sequencing pipeline SkimGBS. Abstract: The growth of next-generation DNA sequencing technologies has led to a rapid increase in sequence-based genotyping for applications including diversity assessment, genome structure validation and gene–trait association. We have established a skim-based genotyping by sequencing method for crop plants and applied this approach to genotype-segregating populations of Brassica napus and Cicer arietinum. Comparison of progeny genotypes with those of the parental individuals allowed the identification of crossover and non-crossover (gene conversion) events. Our results identify the positions of recombination events with high resolution, permitting the mapping and frequency assessment of recombination in segregating populations.",

author = "Philipp Bayer and P. Ruperao and A.S. Mason and J. Stiller and Kenneth Chan and S. Hayashi and Y. Long and J. Meng and T. Sutton and P. Visendi and Varshney, {Rajeev K.} and Jacqueline Batley and Dave Edwards",

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Bayer, P, Ruperao, P, Mason, AS, Stiller, J, Chan, K, Hayashi, S, Long, Y, Meng, J, Sutton, T, Visendi, P, Varshney, RK, Batley, J & Edwards, D 2015, 'High-resolution skim genotyping by sequencing reveals the distribution of crossovers and gene conversions in Cicer arietinum and Brassica napus', Theoretical and Applied Genetics, vol. 128, no. 6, pp. 1039-1047. https://doi.org/10.1007/s00122-015-2488-y

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T1 - High-resolution skim genotyping by sequencing reveals the distribution of crossovers and gene conversions in Cicer arietinum and Brassica napus

AU - Bayer, Philipp

AU - Ruperao, P.

AU - Mason, A.S.

AU - Stiller, J.

AU - Chan, Kenneth

AU - Hayashi, S.

AU - Long, Y.

AU - Meng, J.

AU - Sutton, T.

AU - Visendi, P.

AU - Varshney, Rajeev K.

AU - Batley, Jacqueline

AU - Edwards, Dave

PY - 2015/6

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N2 - © 2015, Springer-Verlag Berlin Heidelberg. Key message: We characterise the distribution of crossover and non-crossover recombination inBrassica napusandCicer arietinumusing a low-coverage genotyping by sequencing pipeline SkimGBS. Abstract: The growth of next-generation DNA sequencing technologies has led to a rapid increase in sequence-based genotyping for applications including diversity assessment, genome structure validation and gene–trait association. We have established a skim-based genotyping by sequencing method for crop plants and applied this approach to genotype-segregating populations of Brassica napus and Cicer arietinum. Comparison of progeny genotypes with those of the parental individuals allowed the identification of crossover and non-crossover (gene conversion) events. Our results identify the positions of recombination events with high resolution, permitting the mapping and frequency assessment of recombination in segregating populations.

AB - © 2015, Springer-Verlag Berlin Heidelberg. Key message: We characterise the distribution of crossover and non-crossover recombination inBrassica napusandCicer arietinumusing a low-coverage genotyping by sequencing pipeline SkimGBS. Abstract: The growth of next-generation DNA sequencing technologies has led to a rapid increase in sequence-based genotyping for applications including diversity assessment, genome structure validation and gene–trait association. We have established a skim-based genotyping by sequencing method for crop plants and applied this approach to genotype-segregating populations of Brassica napus and Cicer arietinum. Comparison of progeny genotypes with those of the parental individuals allowed the identification of crossover and non-crossover (gene conversion) events. Our results identify the positions of recombination events with high resolution, permitting the mapping and frequency assessment of recombination in segregating populations.

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DO - 10.1007/s00122-015-2488-y

M3 - Article

C2 - 25754422

VL - 128

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JO - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik

JF - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik

SN - 0040-5752

IS - 6

ER -

High-resolution skim genotyping by sequencing reveals the distribution of crossovers and gene conversions in Cicer arietinum and Brassica napus

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