Microsatellite allele dose and configuration establishment (MADCE): an integrated approach for genetic studies in allopolyploids.

BMC Plant Biology
Thijs van DijkEric van de Weg

Abstract

Genetic studies in allopolyploid plants are challenging because of the presence of similar sub-genomes, which leads to multiple alleles and complex segregation ratios. In this study, we describe a novel method for establishing the exact dose and configuration of microsatellite alleles for any accession of an allopolyploid plant species. The method, named Microsatellite Allele Dose and Configuration Establishment (MADCE), can be applied to mapping populations and pedigreed (breeding) germplasm in allopolyploids. Two case studies are presented to demonstrate the power and robustness of the MADCE method. In the mapping case, five microsatellites were analysed. These microsatellites amplified 35 different alleles based on size. Using MADCE, we uncovered 30 highly informative segregating alleles. A conventional approach would have yielded only 19 fully informative and six partially informative alleles. Of the ten alleles that were present in all progeny (and thereby ignored or considered homozygous when using conventional approaches), six were found to segregate by dosage when analysed with MADCE. Moreover, the full allelic configuration of the mapping parents could be established, including null alleles, homozygous loci, and allele...Continue Reading

References

Feb 6, 1995·Molecular & General Genetics : MGG·M S RöderM W Ganal
Jul 23, 1999·Gene·M I RipolM Sorrells
Feb 5, 2000·Nature Biotechnology·M Schuelke
Jun 24, 1997·Proceedings of the National Academy of Sciences of the United States of America·B S Gaut, J F Doebley
May 16, 2002·The Journal of Heredity·R E Voorrips
May 28, 2003·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·E Lerceteau-KöhlerB Denoyes-Rothan
Sep 19, 2003·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·W S De JongM Bodis
Apr 16, 2004·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·G D EsselinkB Vosman
Apr 23, 2004·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·B BarrettD Woodfield
May 22, 2004·Nature Reviews. Genetics·Hans Ellegren
Jun 29, 2005·Biochemical and Biophysical Research Communications·Shumpei IshikawaHiroyuki Aburatani
Sep 10, 2005·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Sandrine FlajoulotBernadette Julier
Mar 1, 2006·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·D J SargentN H Battey
Jun 21, 2006·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Urs LandergottRolf Holderegger
Jun 23, 2009·Clinical Chemistry·Naoya HosonoMichiaki Kubo
May 21, 2011·BMC Bioinformatics·Roeland E VoorripsBen Vosman
Nov 1, 2003·American Journal of Botany·Douglas E SoltisIlia J Leitch
Oct 23, 2012·The Journal of Heredity·Roeland E VoorripsW Eric van de Weg
Feb 1, 1993·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·K G Haynes, D S Douches
Jan 1, 1992·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·K K WuS D Tanksley

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Citations

Oct 23, 2012·The Journal of Heredity·Roeland E VoorripsW Eric van de Weg
Jan 7, 2014·Investigative Genetics·Hilde NybomBjörn Rotter
Apr 25, 2012·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·C F S Koning-BoucoiranC Maliepaard
Nov 15, 2015·Plant Science : an International Journal of Experimental Plant Biology·D J SargentT M Davis
Sep 6, 2012·International Journal of Molecular Sciences·Riccardo AversanoDomenico Carputo
Jan 1, 2014·Horticulture Research·Sara LonghiDaniel J Sargent
May 4, 2018·Frontiers in Plant Science·Peter M BourkeChris Maliepaard
Nov 11, 2021·Genome Génome / Conseil National De Recherches Canada·Min FanQixiang Zhang

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Methods Mentioned

BETA
genotyping
PCR
PCRs

Software Mentioned

MADCE
PR
Pedimap
PBA
Excel
Genemapper
FlexQTL
Mapchart
[UNK]
Powerpoint

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