High-thickness genetic map framework inside the maize complete-sib household

To possess discovering intraspecific variation out-of recombination price for the maize, i created a couple 50 % of-sib panels, that to own Dent and something getting Flint inbred lines. Dent and you can Flint are a couple of maize gene swimming pools which might be extremely important to possess crossbreed reproduction from inside the Europe . The 2 half of-sib panels constructed a maximum of twenty-four complete-sib household. The fresh Reduction panel comprises 10 crosses of a main Reduction inbred line (F353) that have varied Damage creator inbreds of the Western european Dent gene pool which were developed in European countries and you can United states. On Flint panel a main Flint inbred range (UH007) is entered to eleven genetically varied Flint maker inbreds of your European Flint reproduction matter. The brand new Flint originator outlines come from early maize introductions so you can The country of spain as well as away from so-called North Flints away from France and you may Germany. Likewise, two reciprocal crosses between them main Drop and you can Flint outlines was indeed examined plus in for each panel one mix on the You Drop line B73 is provided as a connection to the united states nested relationship mapping (NAM) people .

Here, we report on the analysis of the variation of recombination rate in 23 populations of maize using SNPs from the MaizeSNP50 BeadChip . All populations consist of doubled haploid (DH) lines obtained by in vivo haploid induction . DH lines produced with this method reflect female meiosis. Unlike F₂ or RILs, DH lines have the great advantage that the genetic information of each gamete is directly observed. Our objectives were to analyze intraspecific variation for (1) GWRR and chromosome-wide recombination rate, (2) recombination landscape along chromosomes, and (3) CO interference, using high-density genetic linkage maps. We found significant differences of GWRR between individual populations as well as between Dent ? Dent versus Flint ? Flint populations, but not between the Dent and Flint gene pools in general. GWRR was not correlated with the genetic structure of the lines as inferred from admixture analysis. We analyzed the recombination landscapes in all populations and found significant differences between individual populations and between pools. Finally, we characterized quantitatively the interfering and non-interfering CO formation pathways and found a negative correlation over all chromosomes between interference intensity of pathway P1 and GWRR.

Performance

We constructed two half-sib panels comprising a total of 24 maize full-sib families of DH lines for the analysis of intraspecific variation of recombination rates. The full-sib families within the two panels represent the diversity of important founder lines of the European Dent and Flint germplasm, respectively (Table 1; Additional file 1). In the Dent panel (prefix CFD), all full-sib families have the same common parental line F353 which was crossed to diverse Dent founder lines. The common parent of the Flint full-sib families (prefix CFF) is line UH007, which was crossed to diverse Flint founder lines. ₁ plants for in vivo haploid induction, so our maps reflect only female meioses. Details on the diversity analysis of the parental lines are given in Additional file 2.

Throughout crosses, the fresh haploid inducer range was applied once the men mother when entered on the F

As the a primary step-in the analysis regarding recombination, private genetic charts had been created getting 23 out of the twenty four populations and every of the ten chromosomes. Chart analytics are offered in Table step one with additional details in the Additional file step 3, as well as the done set of marker ranking in all maps having the fresh new brutal segregation data is offered within the Additional document cuatro. In total, 39,439 SNPs of MaizeSNP50 assortment is mapped inside the during the minimum one people. Over-all communities, doing 33,884 COs have been present in 2,233 lady meioses and, typically, eleven,988 SNPs was in fact mapped in a single offered inhabitants. The average for Damage ? Drop populations (all the CFD but CFD01) was 13,247 markers mapped as well as for Flint ? Flint communities (the CFF but CFF01 and you may CFF02) the average try nine,874. To own population CFF05, hence serwis randkowy the adult hub comprised just 34 DHs, zero stable map will be received. The total length of genetic charts ranged from one,180 centiMorgan (cM) inside the population CFD05 to a single,893 cM for the CFF03 with a suggest of just one,508 ± 185 cM (imply ± basic departure). The average hereditary map size on the ten Drop ? Dent communities (CFD02 to help you CFD12) was step one,353 ± 99 cM, because the 11 hereditary maps out-of Flint ? Flint communities (CFF03 to CFF15) was, normally, lengthened in the step 1,645 ± 154 cM. The 3 maps of crosses ranging from Dent and Flint moms and dads (CFD01, CFF01, CFF02) had an intermediate average period of step one,570 ± 85 cM. The biggest pit from inside the a genetic map was 53.7 cM on long arm off chromosome seven (7L) into the inhabitants CFF13, where zero SNPs was indeed polymorphic involving the mothers, probably because of term-by-descent (IBD). Information about genome-wider assortment and IBD locations between parents of mapping populations come in Extra file dos. Synteny and you may colinearity of genetic charts try compared to the fresh B73 AGPv2 genome assembly. Overall, a high contract is located, proving the fresh new large structure off marker buy across the populations, having pair exceptions because revealed from inside the Even more file dos.