To have understanding intraspecific variation from recombination rate inside maize, i composed a couple 50 % of-sib panels, you to definitely to have Reduction and something having Flint inbred lines. Drop and you will Flint are two maize gene swimming pools which can be essential to possess hybrid reproduction in Europe . The two 50 % of-sib panels made-up a total of 24 full-sib family members. The newest Reduction committee comprises ten crosses from a central Damage inbred range (F353) having diverse Reduction creator inbreds of your Eu Reduction gene pond which were designed in European countries and United states. Throughout the Flint committee a main Flint inbred line (UH007) are entered in order to eleven genetically varied Flint founder inbreds of your European Flint reproduction issue. The latest Flint creator traces originate from early maize introductions so you’re able to Spain including away from thus-called North Flints away from France and you may Germany. On top of that, a couple reciprocal crosses among them main Damage and you can Flint lines was in fact examined plus for each committee that get across on Us Damage line B73 was provided because a link with the united states nested connection mapping (NAM) inhabitants .
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.
Overall 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.
In every crosses, the fresh haploid inducer line was utilized once the male mother when entered on the F
Since a primary part of the study of recombination, personal genetic maps were developed to own 23 out of the 24 communities each of your own 10 chromosomes. Chart analytics are supplied into the Table 1 with more information into the A lot more document step three, additionally the over directory of marker ranks in every maps with new raw segregation information is given for the A lot more file cuatro. Altogether, 39,439 SNPs of the MaizeSNP50 selection is mapped into the in the the very least one people. Over all populations, around 33,884 COs were seen in 2,233 female meioses and, normally, eleven https://datingranking.net/cs/victoria-milan-recenze/,988 SNPs have been mapped in one single provided society. An average to possess Dent ? Drop communities (every CFD except CFD01) are 13,247 indicators mapped and Flint ? Flint populations (every CFF but CFF01 and CFF02) the average is actually nine,874. For population CFF05, hence composed just 34 DHs, no steady chart might possibly be gotten. The entire length of hereditary maps ranged from a single,180 centiMorgan (cM) in the population CFD05 to a single,893 cM within the CFF03 having a suggest of 1,508 ± 185 cM (suggest ± basic deviation). The common hereditary chart size on the ten Dent ? Damage communities (CFD02 so you can CFD12) is step one,353 ± 99 cM, because 11 genetic charts regarding Flint ? Flint communities (CFF03 to help you CFF15) were, an average of, offered at the step 1,645 ± 154 cM. The 3 maps away from crosses anywhere between Dent and you may Flint mothers (CFD01, CFF01, CFF02) had an intermediate mediocre amount of step 1,570 ± 85 cM. The greatest pit inside the a genetic map is actually 53.eight cM to your long-arm of chromosome 7 (7L) when you look at the society CFF13, in which zero SNPs have been polymorphic within mothers, most likely because of label-by-lineage (IBD). Details about genome-broad assortment and IBD places anywhere between parents of the mapping populations are in More file 2. Synteny and you will colinearity of one’s genetic charts are compared to new B73 AGPv2 genome system. Generally, a top arrangement is actually receive, demonstrating the fresh new large consistency of marker order across populations, which have couple exceptions while the revealed when you look at the Additional file dos.
