Use of locus-specific AFLP markers to construct a high-density molecular map in barley

Abstract

By using 25 primer combinations, 563 AFLP markers segregating in a recombinant inbred population (103 lines, F9) derived from L94/Vada were generated. The 38 AFLP markers in common to the existing AFLP/RFLP combined Proctor/Nudinka map, one STS marker, and four phenotypic markers with known map positions, were used to assign present AFLP linkage groups to barley chromosomes. The constructed high-density molecular map contains 561 AFLP markers, three morphological markers, one disease resistance gene and one STS marker, and covers a 1062-cM genetic distance, corresponding to an average of one marker per 1.9 cM. However, extremely uneven distributions of AFLP markers and strong clustering of markers around the centromere were identified in the present AFLP map. Around the centromeric region, 289 markers cover a genetic distance of 155 cM, corresponding to one marker per 0.5 cM; on the distal parts, 906 cM were covered by 277 markers, corresponding to one marker per 3.3 cM. Three gaps larger than 20 cM still exist on chromosomes 1, 3 and 5. A skeletal map with a uniform distribution of markers can be extracted from the high-density map, and can be applied to detect and map loci underlying quantitative traits. However, the application of this map is restricted to barley species since hardly any marker in common to a closely related Triticum species could be identified.

High resolution map of eggplant (Solanum melongena) reveals extensive chromosome rearrangement in domesticated members of the Solanaceae

“…Such a trend has been previously observed in eggplant (Barchi et al 2010) and other plant species (AlonsoBlanco et al 1998;Qi et al 1998;Pradhan et al 2003). Although the average genetic distance between the AFLP markers in the current map is 3.3 cM, the level of variability in AFLP marker spacing is considerable.…”

A high density barley microsatellite consensus map with 775 SSR loci

“…These may reflect regions of high recombination. A lack of markers in these regions was observed in other genetic maps of barley (Kleinhofs et al 1993;Qi et al 1998;Ramsay et al 2000). The consensus SSR map contains almost all types of SSR loci, however, dinucleotide and compound (mainly containing different dinucleotide SSRs) microsatellites (56 and 21%, respectively) occurred in higher proportion than the trinucleotide (16.5%) and other types of microsatellite.…”

“…These included two recombinant inbred line (RIL) populations and four doubled haploid (DH) populations (Table 1). The RIL populations have been developed at the Laboratory of Plant Breeding, Wageningen University, The Netherlands, and consist of L94 · Vada (L · V) developed by Qi et al (1998) and of SusPtrit · Vada (Su · V) developed by Jafary et al (2006). The two DH populations Steptoe · Morex (St · M) and the Oregon Wolfe Barleys (OWBs), developed in North America, are reference mapping populations and subjects of extensive genotyping and phenotyping.…”

Identification of QTLs for powdery mildew and scald resistance in barley

“…To verify the mlo-carrying RILs, as determined by Qi et al (1998a), a detached leaf test was performed. About 15 seeds per RIL were sown in 7 × 7 × 11 cm pots.…”

“…The use of molecular markers has facilitated the construction of extensive linkage maps in barley (Graner et al, 1991;Qi et al, 1998a). By the availability of such dense linkage maps, individual gene loci (Quantitative trait loci, QTLs) for disease resistance have been identified and mapped in different genetic backgrounds (Jahoor et al, 2004;Hayes et al, 2005).…”