Comparative AFLP mapping in two hexaploid oat populations

Groh, S.; Zacharias, Arndt; Kianian, Shahryar F.; Penner, G.B.; Chong, J.; Rines, H. W.; Phillips, Ronald L.

doi:10.1007/s001220000468

Cited by 33 publications

(34 citation statements)

References 21 publications

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“…Groh et al (2001) and Menz et al (2002) also reported the percentages of co-dominant AFLP markers in oat (33%) and sorghum (12%), respectively. Detected co-dominant markers are useful to identify heterozygotes in backcross and F 2 analyses.…”

Section: Construction Of the High-density Linkage Mapmentioning

confidence: 83%

Efficient construction of high-density linkage map and its application to QTL analysis in barley

et al. 2003

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Using a High Efficiency Genome Scanning (HEGS) system and recombinant inbred (RI) lines derived from the cross of Russia 6 and H.E.S. 4, a high-density genetic map was constructed in barley. The resulting 1,595.7-cM map encompassed 1,172 loci distributed on the seven linkage groups comprising 1,134 AFLP, 34 SSR, three STS and vrs1 (kernel row type) loci. Including PCR reactions, gel electrophoresis and data processing, 6 months of work by a single person was sufficient for the whole mapping procedure under a reasonable cost. To make an appraisal of the resolution of genetic analysis for the 95 RI lines based on the constructed linkage map, we measured three agronomic traits: plant height, spike exsertion length and 1,000-kernel weight, and the analyzed quantitative trait loci (QTLs) associated with these traits. The results were compared on the number of detected QTLs and their effects between a high-density map and a skeleton map constructed by selected AFLP and anchor markers. The composite interval mapping on the high-density map detected more QTLs than the other analyses. Closely linked markers with QTLs on the high-density map could be powerful tools for marker-assisted selection in barley breeding programs and further genetic analyses including an advanced backcross analysis or a map-based cloning of QTL.

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Section: Construction Of the High-density Linkage Mapmentioning

confidence: 83%

Efficient construction of high-density linkage map and its application to QTL analysis in barley

et al. 2003

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“…Genetic linkage maps in cultivated sugarcane were reported by Grivet et al (1996) and Hoarau et al (2001). Ukoskit and Thompson (1997) reported a map of sweetpotato, Groh et al (2001) a map of oats, and Brouwer and Osborn (1999) a map of tetraploid alfalfa. Other genetic maps, constructed for some polyploid species, e.g., alfalfa (Kiss et al 1993;Tavoletti et al 1996;Kaló et al 2000;Porceddu et al 2002b) and potato (Jacobs et al 1995), have been based on closely related diploid species.…”

Section: Discussionmentioning

confidence: 94%

Microsatellite-AFLP for genetic mapping of complex polyploids

Albertini¹,

Porceddu²,

Marconi³

et al. 2003

Genome

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Abstract:In spite of the economical relevance of polyploid crops, genetic mapping of these species has been relatively overlooked. This is because of intrinsic difficulties such as the uncertainty of the chromosome behavior at meiosis I and the need for very large segregating populations. An important, yet underestimated issue, in mapping polyploids is the choice of the molecular marker system. An ideal molecular marker system for polyploid mapping should maximize the percentage of single dose markers (SDMs) detected and the possibility of recognizing allelic markers. In the present work, the marker index for genetic mapping (MI gm ) of M-AFLP is compared with that of AFLP and SAMPL. M-AFLPs have the highest MI gm values (22 vs. 18.5 of SAMPL and 9.83 of AFLP) mostly because of their high power to detect polymorphism. Owing to their prevalent codominant inheritance, it is proposed that M-AFLP can be used for the preliminary identification of hom(e)ologous groups.Key words: AFLP, mapping, microsatellite-AFLP, polyploids, SSR.Résumé : Malgré l'importance économique de plusieurs espèces végétales polyploïdes, sur une base relative, moins de travaux ont été réalisés en matière de cartographie génétique chez ces espèces. Ceci découle de difficultés intrinsèques telles que l'incertitude quant au comportement chromosomique en méiose I et la nécessité d'avoir recours à de grandes populations en ségrégation. Une autre question, importante mais quelque peu sous-estimée, en matière de cartographie chez les polyploïdes concerne le choix du type de marqueur moléculaire. Un système idéal pour la cartographie chez les polyploïdes devrait maximiser le pourcentage de marqueurs à simple dose (SDM) détectés et la possibilité de reconnaître des marqueurs alléliques. Dans ce travail, les auteurs ont comparé la valeur de l'indice des marqueurs pour la cartographie génétique (MI gm ; « marker index for genetic mapping ») obtenue pour les M-AFLP aux valeurs du même indice pour les marqueurs AFLP et SAMPL. Les marqueurs M-AFLP présentaient les plus fortes valeurs de l'indice (22 contre 18,5 pour les marqueurs SAMPL et 9,83 pour les marqueurs AFLP). Cette valeur élevée de l'indice décou-lait principalement de leur capacité de détection du polymorphisme. En raison de leur hérédité principalement de type codominant, il est suggéré que les marqueurs M-AFLP pourrait être employés pour l'identification préliminaire de groupes homéologues.

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“…The very large number of DArTs used in the present study made it reasonable that most chromosomal regions were represented by at least one DArT marker, capturing genetic variation without significant Theor Appl Genet (2012) bias. On the other hand, Groh et al (2001) have shown that AFLP markers were distributed evenly on their two linkage maps, due to the adoption of a methylation-sensitive enzyme (PstI), which was also used in the present study, implying an even distribution of the AFLPs within the oat genome. As for SSRs, although only 43 polymorphic SSRs were scored, no sign of clustering was observed.…”

Section: Markers In Diversity Detection and In Pca Optimizationmentioning

confidence: 93%

Diversity of North European oat analyzed by SSR, AFLP and DArT markers

Bjørnstad

2012

Theor Appl Genet

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Oat is an important crop in Nordic countries both for feed and human consumption. Maintaining a high level of genetic diversity is essential for both breeding and agronomy. A panel of 94 oat accessions was used in this study, including 24 museum accessions over 100- to 120-year old and 70 genebank accessions from mainly Nordic countries and Germany, covering different breeding periods. Sixty-one polymorphic SSR, 201 AFLP and 1056 DArT markers were used to evaluate the past and present genetic diversity of the Nordic gene pool. Norwegian accessions showed the highest diversity, followed by Swedish and Finnish, with German accessions the least diverse. In addition, the Nordic accessions appeared to be highly interrelated and distinct from the German, reflecting a frequent germplasm exchange and interbreeding among Nordic countries. A significant loss of diversity happened at the transition from landraces and old cultivars to modern cultivars. Modern oat originated from only a segment of the landraces and left the remainder, especially black oat, unused. However, no significant overall diversity reduction was found during modern breeding periods, although fluctuation of diversity indices was observed. The narrow genetic basis of the modern Nordic gene pool calls for increasing genetic diversity through cultivar introduction and prebreeding based on neglected sources like the Nordic black oat.

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Comparative AFLP mapping in two hexaploid oat populations

Cited by 33 publications

References 21 publications

Efficient construction of high-density linkage map and its application to QTL analysis in barley

Efficient construction of high-density linkage map and its application to QTL analysis in barley

Microsatellite-AFLP for genetic mapping of complex polyploids

Diversity of North European oat analyzed by SSR, AFLP and DArT markers

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