Towards chromosome 4, the three QTLs was indeed on 66
Container plots of land showing the effects of the marker genotypic kinds (AAAA, AAAB, AABB, ABBB, BBBB) out-of 4 applicant SNPs towards the tuber sugar quantity (GLU); bud-end fry colour (FBE); stem-tuber fry colour (FSE); ID, Idaho
The latest co-localization of multiple QTLs during the maturity locus part in this studies is actually similar to the noticed designs regarding phenotypic correlations. 01) with quite a few faculties overlapping a similar genetic standing (Fig. 1). For instance, EBID11 and you may VWID11 score one another presented a strong bad correlation which have MAT95ID and you may MAT120ID. That it trend will get give an explanation for major perception QTL having later on maturity closely associated with delayed onset of VW and you may EB, or alternatively, early maturity resulting in early start of VW and you can EB. A fairly highest correlation was also observed ranging from vine maturity and gains behavior, which have early readiness regarding the so much more spreading progress habit. Conversely, a reduced correlation (roentgen ? 0.2) ranging from vine maturity and you may each other tuber glucose focus and you will bud-prevent fry color was in line with different types on the QTL effects.
Tuber sugar, bud-end and you will stem-prevent fry color
Plus chromosome 5, high QTLs for sugar, bud-avoid and you can stem-prevent fry color were detected in the overlapping aspects of chromosomes cuatro, six, 10, and eleven. 0 cM for the LOD results between 4.5 to 6.0 (Table step three, Fig. 4). Such QTLs explained between seven.dos and 11.3% of your characteristic variance. Data of different easy habits conveyed a single finest-suitable model for all around three attributes, that have a two fold-simplex allele (AAAB ? AAAB) to your homologous chromosomes H2 and you may H5 regarding RGR and Publicity, respectively (Dining table step three, Most document 8: Profile S4). Getting glucose, this new B allele are associated with the higher sugar amount, if you’re getting bud-prevent and you may base-avoid fry color, the presence of new B allele indicated straight down reflectance values (Fig. 3b).
LOD rating delivery off QTLs for a few attributes along the several potato chromosomes (Chr). Abbreviations is escort in Dayton like in Fig. step 1
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 (
7 Mb) which has multiple genes regarding the starch/sugar inter-sales along with hexokinase (HXK-6, PGSC0003DMG400016521), fructokinase (FRK-6/step one, PGSC0003DMG400027017, FRK-6/dos, PGSC0003DMG400026916), and invertase (INV-na-6/step 1, PGSC0003DMG400026107, INV-6/2, PGSC0003DMG400033142) genetics.