To your chromosome 4, all of the about three QTLs was in the 66
Box plots demonstrating the effects of your marker genotypic kinds (AAAA, AAAB, AABB, ABBB, BBBB) from 4 applicant SNPs with the tuber sugar quantity (GLU); bud-stop fry color (FBE); stem-tuber fry color (FSE); ID, Idaho
The co-localization out of numerous QTLs in the readiness locus area inside research is similar to the observed models out of phenotypic correlations. 01) with quite a few traits overlapping an identical hereditary reputation (Fig. 1). Including, EBID11 and VWID11 score each other demonstrated a strong bad correlation that have MAT95ID and you will MAT120ID escort Chandler. This trend may explain the major impression QTL which have afterwards maturity directly associated with delayed onset of VW and you may EB, or alternatively, very early maturity causing early onset of VW and you can EB. A comparatively higher correlation has also been noticed anywhere between vine readiness and you may progress habit, with very early maturity associated with the so much more distribute increases behavior. Conversely, a minimal correlation (roentgen ? 0.2) ranging from vine maturity and you can one another tuber glucose quantity and bud-stop fry color is in keeping with different types into the QTL outcomes.
Tuber glucose, bud-avoid and you can base-prevent fry colour
Including chromosome 5, tall QTLs getting glucose, bud-stop and you will stalk-prevent fry colour had been recognized from inside the overlapping aspects of chromosomes cuatro, 6, ten, and you may 11. 0 cM towards LOD ratings between cuatro.five to six.0 (Desk 3, Fig. 4). This type of QTLs informed me anywhere between seven.dos and you can 11.3% of the attribute variance. Investigation of different easy designs indicated one most readily useful-suitable design for everybody three attributes, that have a dual-simplex allele (AAAB ? AAAB) on the homologous chromosomes H2 and H5 away from RGR and you will Public relations, correspondingly (Table step 3, Additional file 8: Profile S4). To possess sugar, the B allele was in the higher sugar attention, if you are for bud-stop and you will stalk-stop fry colour, the clear presence of the fresh new B allele shown all the way down reflectance opinions (Fig. 3b).
LOD score shipments off QTLs for a few characteristics along side 12 potato chromosomes (Chr). Abbreviations is actually such as Fig. 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 (
eight Mb) that contains numerous family genes in the starch/glucose inter-conversion as well as hexokinase (HXK-six, PGSC0003DMG400016521), fructokinase (FRK-6/step 1, PGSC0003DMG400027017, FRK-6/2, PGSC0003DMG400026916), and you can invertase (INV-na-6/1, PGSC0003DMG400026107, INV-6/dos, PGSC0003DMG400033142) genes.