Towards the chromosome cuatro, all the three QTLs was indeed at the 66
Container plots indicating the effects of your marker genotypic categories (AAAA, AAAB, AABB, ABBB, escort service Hartford BBBB) from 4 candidate SNPs into the tuber glucose concentration (GLU); bud-avoid fry colour (FBE); stem-tuber fry color (FSE); ID, Idaho
Brand new co-localization regarding numerous QTLs in the readiness locus part contained in this investigation is consistent with the seen activities out of phenotypic correlations. 01) with several characteristics overlapping an identical hereditary reputation (Fig. 1). For example, EBID11 and you will VWID11 ratings both demonstrated an effective bad correlation having MAT95ID and you may MAT120ID. This development may explain the big perception QTL having afterwards maturity directly associated with the defer onset of VW and you will EB, or simply, very early readiness leading to early onset of VW and you may EB. A relatively highest relationship was also observed ranging from vine maturity and you will development practice, that have very early maturity of even more distribute development behavior. However, a reduced relationship (r ? 0.2) ranging from vine maturity and both tuber sugar concentration and bud-prevent fry colour is actually in keeping with different models on QTL outcomes.
Tuber sugar, bud-prevent and you may stem-prevent fry colour
Also chromosome 5, extreme QTLs to have glucose, bud-end and you can stem-prevent fry colour was basically thought in the overlapping aspects of chromosomes 4, six, ten, and you may 11. 0 cM towards LOD scores between cuatro.5 to 6.0 (Dining table step 3, Fig. 4). This type of QTLs said between 7.dos and eleven.3% of your feature variance. Research of different easy models indicated just one most readily useful-fitted model for everyone three qualities, having a double-simplex allele (AAAB ? AAAB) to the homologous chromosomes H2 and you will H5 regarding RGR and you may Advertising, correspondingly (Desk step 3, More document 8: Profile S4). To possess glucose, this new B allele was with the highest glucose focus, if you find yourself having bud-stop and you will stem-stop fry colour, the existence of new B allele indicated straight down reflectance values (Fig. 3b).
LOD rating shipment away from QTLs for three traits along side 12 potato chromosomes (Chr). Abbreviations are such as Fig. step one
A candidate SNP for a double-simplex configuration on H2 and H5 is solcap_c2_12976 at position 67.4 cM. On the reference PGSC v4.03 Pseudomolecules, this SNP maps to the long arm of chromosome 4 at position 69.1 Mb on the F-box and WD40 domain protein gene (PGSC0003DMG400003339), which is close (< 2 Mb) to several genes associated with starch/sugar inter-conversion as annotated in the potato reference genome, and/or associated with tuber quality traits . They include alpha amylase (AMY-4/1 PGSC0003DMG400007974, AMY-4/2 PGSC0003DMG400009891), hexose transporter (HT-4/3, PGSC0003DMG400009994), invertase (NV-4, PGSC0003DMG400009936), and starch branching enzyme I (SBE I, PGSC0003DMG400009981).
On chromosome 6, significant QTLs mapped at 53 cM for glucose and at 43 cM for FBE and SBE, respectively. The LOD profiles ranged from 5.4 to 7.6 and explained between 10.8 and 16.1% of the trait variance, respectively (Table 3, Additional file 9: Figure S5). The best model for all three traits was a double-simplex configuration with allele effects on H2 and H5. As in chromosome 4, the presence of the B alleles was associated with an increase in glucose concentration and a decrease in reflectance readings (Fig. 3c). There are four candidate SNPs with a double simplex configuration nearby (solcap_snp_c2_33777, solcap_snp_c1_10130, solcap_snp_c2_5769, solcap_snp_c2_56145, c1_3003). All were significantly (P-value < 0.0001) associated with the mean trait values, however, solcap_snp_c2_56145 had on average the highest percent of variance explained (9% to 16%). The SNP solcap_snp_c2_56145 maps at position 51.4 Mb of the potato reference genome on the ATP binding protein gene PGSC0003DMG400033089. This SNP is located in a region (
seven Mb) that has several genes with the starch/sugar inter-transformation including hexokinase (HXK-6, PGSC0003DMG400016521), fructokinase (FRK-6/step one, PGSC0003DMG400027017, FRK-6/2, PGSC0003DMG400026916), and you can invertase (INV-na-6/step 1, PGSC0003DMG400026107, INV-6/dos, PGSC0003DMG400033142) family genes.