GDsnp00106, GDsnp00106 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00106
dbSNP IDss475882296
SNP Array ID
480K SNP array for apple:AX-115183912
IRSC 9K SNP array for apple:GDsnp00106
20K SNP array for apple:GDsnp00106
50K SNP array for apple:AX-105200770
TypeSNP
SNP AllelesT/C
Probe 1GDsnp00106.probe: TGGAACTTGAAGTGAAACACTTAGGGTCCGTTTGATAATTATTTCGTTTT
5' Flanking SequenceCAATAACTTCATCGGTCTAAACAGAATAATTTAAGAATGTCAACCAAATATTACCAAGTG GTCAGGGATNGGAATCGAACACAATGCTGAAATAACAGCA
3' Flanking SequenceAAAACGAAATAATTATCAAACGGACCCTAAGTGTTTCACTTCAAGTTCCAGAATGGAGAT TTGTAAAGNGTGCTCACTGGCAGTGTTCTAAAAAGCCCCG
SpeciesMalus x domestica
Publication[view all]
ContactMichela Troggio
Cindy F. Verdu
Contact
NameDetails
Michela Troggio
First name:Michela
Last name:Troggio
Title:Researcher
Institution:Research and Innovation Centre, Fondazione Edmund Mach
Address:Via Edmund Mach, 1, 38010 San Michele All'adige TN, Italy
Country:Italy
Email:ti.hcamf@oiggort.alehcim
Phone:+39 0461 615111
Fax:+39 0461 650218
Cindy F. Verdu
First name:Cindy
Last name:Verdu
Title:Researcher
Institution:INRA
Address:INRA, UMR1345 Institut de Recherche en Horticulture et Semences, Beaucouze, France
Country:France
Email:cindyverdu@gmail.com
Analyses
This genetic_marker is derived from or has results from the following analyses
Analysis NameDate Performed
RosBREED SNP development2011-01-01
Publications
YearPublication
2010Velasco R, Zharkikh A, Affourtit J, Dhingra A, Cestaro A, Kalyanaraman A, Fontana P, Bhatnagar SK, Troggio M, Pruss D, Salvi S, Pindo M, Baldi P, Castelletti S, Cavaiuolo M, Coppola G, Costa F, Cova V, Dal Ri A, Goremykin V, Komjanc M, Longhi S, Magnago P, Malacarne G, Malnoy M, Micheletti D, Moretto M, Perazzolli M, Si-Ammour A, Vezzulli S, Zini E, Eldredge G, Fitzgerald LM, Gutin N, Lanchbury J, Macalma T, Mitchell JT, Reid J, Wardell B, Kodira C, Chen Z, Desany B, Niazi F, Palmer M, Koepke T, Jiwan D, Schaeffer S, Krishnan V, Wu C, Chu VT, King ST, Vick J, Tao Q, Mraz A, Stormo A, Stormo K, Bogden R, Ederle D, Stella A, Vecchietti A, Kater MM, Masiero S, Lasserre P, Lespinasse Y, Allan AC, Bus V, Chagné D, Crowhurst RN, Gleave AP, Lavezzo E, Fawcett JA, Proost S, Rouzé P, Sterck L, Toppo S, Lazzari B, Hellens RP, Durel CE, Gutin A, Bumgarner RE, Gardiner SE, Skolnick M, Egholm M, Van de Peer Y, Salamini F, Viola R. The genome of the domesticated apple (Malus x domestica Borkh.). Nature Genetics. 2010 Oct; 42(10):833-839.
2014Bianco L, Cestaro A, Sargent DJ, Banchi E, Derdak S, Di Guardo M, Salvi S, Jansen J, Viola R, Gut I, Laurens F, Chagné D, Velasco R, van de Weg E, Troggio M. Development and Validation of a 20K Single Nucleotide Polymorphism (SNP) Whole Genome Genotyping Array for Apple (Malus × domestica Borkh). PloS one. 2014; 9(10):e110377.
2012Antanaviciute L, Fernández-Fernández F, Jansen J, Banchi E, Evans KM, Viola R, Velasco R, Dunwell JM, Troggio M, Sargent DJ. Development of a dense SNP-based linkage map of an apple rootstock progeny using the Malus Infinium whole genome genotyping array. BMC genomics. 2012; 13:203.
2014Verdu CF, Guyot S, Childebrand N, Bahut M, Celton J-M, Gaillard S, Lasserre-Zuber P, Troggio M, Guilet D, Laurens F. QTL Analysis and Candidate Gene Mapping for the Polyphenol Content in Cider Apple. PLoS ONE. 2014; 9(10):e107103.
2016Bianco L, Cestaro A, Linsmith G, Muranty H, Denance C, Théron A, Poncet C, Micheletti D, Kerschbamer E, Di Pierro EA, Larger S, Pindo M, van de Weg E, Davassi A, Laurens F, Velasco R, Durel CE, Troggio M. Development and validation of the Axiom(®) Apple480K SNP genotyping array. The Plant journal : for cell and molecular biology. 2016 Feb 26.
2020Rymenants M, van de Weg E, Auwerkerken A, De Wit I, Czech A, Nijland B, Heuven H, De Storme N, and Keulemans W. Detection of QTL for apple fruit acidity and sweetness using sensorial evaluation in multiple pedigreed full-sib families. Tree Genetics & Genomes 16, 71 (2020). https://doi.org/10.1007/s11295-020-01466-8
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Apple Integrated map10N/A1.4GDsnp00106View
2Apple_HCGA_F110N/A62.88GDsnp00106View
3Apple_HC64_F110N/A90.56GDsnp00106View
4Apple_HCMO_F110N/A3.85GDsnp00106View
5Apple_HGMM_Consenus10N/A2.01GDsnp00106View
6Apple-NC-F110N/A2.04GDsnp00106View
7Apple-NCZFBB-consensus10N/A2.04GDsnp00106View
8Apple-ZF-F110N/A1.45GDsnp00106View
9Apple-MM-F110N/A0b475882296View
10Apple-Honeycrisp_Consensus-F110N/A0.52GDsnp00106View
Sequence
>GDsnp00106 ID=GDsnp00106; Name=GDsnp00106; organism=Malus x domestica; type=genetic_marker; length=201bp
CAATAACTTCATCGGTCTAAACAGAATAATTTAAGAATGTCAACCAAATA
TTACCAAGTGGTCAGGGATNGGAATCGAACACAATGCTGAAATAACAGCA
RAAAACGAAATAATTATCAAACGGACCCTAAGTGTTTCACTTCAAGTTCC
AGAATGGAGATTTGTAAAGNGTGCTCACTGGCAGTGTTCTAAAAAGCCCC
G