GDsnp00091, GDsnp00091 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00091
dbSNP IDss475882586
SNP Array ID
480K SNP array for apple:AX-105181626
IRSC 9K SNP array for apple:GDsnp00091
20K SNP array for apple:GDsnp00091
50K SNP array for apple:AX-105181626
TypeSNP
SNP AllelesT/C
Probe 1GDsnp00091.probe: CAACCCAACTTATGCATATTCATGGTTTCCATTCTCCCTCTGATGCTTGC
5' Flanking SequenceCCGCAAATGATAAATTAAAATAAGTAATACAAGATCATAATCCGTTCTCCCAACCCAACT TATGCATATTCATGGTTTCCATTCTCCCTCTGATGCTTGC
TTTCCATTCTCCCTCT GATGCTTGC
3' Flanking SequenceTGCAGATGATAAAGTGAAAGAAAGGTCCAGAGACCAAAGAGAAGCTCTTCCAGGGGAGCC TAAATGTGTTATATGTAACCGTTATGGTGAGTACATATGC
TGCAGATGATAAAGTG AAAGAAAGG
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.
2012Chagné D, Crowhurst RN, Troggio M, Davey MW, Gilmore B, Lawley C, Vanderzande S, Hellens RP, Kumar S, Cestaro A, Velasco R, Main D, Rees JD, Iezzoni A, Mockler T, Wilhelm L, Van de Weg E, Gardiner SE, Bassil N, Peace C. Genome-wide SNP detection, validation, and development of an 8K SNP array for apple. PloS one. 2012; 7(2):e31745.
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_HCGA_F117N/A63.07GDsnp00091View
2Apple_HC64_F117N/A0GDsnp00091View
3Apple_HGMM_Consenus17N/A0GDsnp00091View
4Apple Integrated map17N/A0GDsnp00091View
5Apple-C16xC17-F1-201217N/A3.43GDsnp00091View
6Apple-JGxWSH-F1LG17N/A58.7GDsnp00091View
7Apple-WSH-F1LG17N/A56.8GDsnp00091View
8Apple-RosBREED-3.9K-201917N/A0.18GDsnp00091View
9Apple-consensus-Allard-2016LG17N/A0.2GDsnp00091View
10Apple-MM-F117N/A0.6a475882586View
11Apple-X3259X3263-F117N/A4.31GD_SNP00091View
12Apple-GDxBr-F1-2013LG17N/A0GD_SNP00091View
13Apple-Honeycrisp_Consensus-F117N/A0.18GDsnp00091View
Sequence
>GDsnp00091 ID=GDsnp00091; Name=GDsnp00091; organism=Malus x domestica; type=genetic_marker; length=201bp
CCGCAAATGATAAATTAAAATAAGTAATACAAGATCATAATCCGTTCTCC
CAACCCAACTTATGCATATTCATGGTTTCCATTCTCCCTCTGATGCTTGC
YTGCAGATGATAAAGTGAAAGAAAGGTCCAGAGACCAAAGAGAAGCTCTT
CCAGGGGAGCCTAAATGTGTTATATGTAACCGTTATGGTGAGTACATATG
C