GDsnp01167, GDsnp01167 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp01167
dbSNP IDss475882335
SNP Array ID
480K SNP array for apple:AX-105204408
IRSC 9K SNP array for apple:GDsnp01167
20K SNP array for apple:GDsnp01167
50K SNP array for apple:AX-105204408
TypeSNP
SNP AllelesA/C
Probe 1GDsnp01167.probe: AGTTCTTGTGAAGGATGGTGAATGGCAACCTGGAACTCCTGAAACTCTGA
5' Flanking SequenceATGAAATGCAGGAGATTGACACATTTTGATGTTGATACATTCGTTGAAGAAGTTCTTGTG AAGGATGGTGAATGGCAACCTGGAACTCCTGAAACTCTGA
3' Flanking SequenceGGGTTCGTATGTTTTTGTATGTTCTCATGGGTCCCGGGATCGCCGTTGTGGAGTCTGTGG TCCTCCATTGGTCACTAGATTCAGAGAAGAGATAGAATTA
SpeciesMalus x domestica
Publication[view all]
ContactMichela Troggio
Nicola Harrison
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
Nicola Harrison
First name:Nicola
Last name:Harrison
Address:East Malling Research, New Road, East Malling, Kent ME19 6BJ, UK
Email:nicola.harrison@emr.ac.uk
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.
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.
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.
2016Harrison N, Harrison RJ, Barber-Perez N, Cascant-Lopez E, Cobo-Medina M, Lipska M, Conde-Ruíz R, Brain P, Gregory PJ, Fernández-Fernández F. A new three-locus model for rootstock-induced dwarfing in apple revealed by genetic mapping of root bark percentage. Journal of experimental botany. 2016 Jan 29; 67(6):1871-1881.
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 map11N/A5.3GDsnp01167View
2Apple_HCGA_F111N/A49.91GDsnp01167View
3Apple_HC64_F111N/A4.57GDsnp01167View
4Apple_HCMO_F111N/A28.75GDsnp01167View
5Apple_HGMM_Consenus11N/A26.6GDsnp01167View
6Pear-PM-F1-PEAR33N/A0.93GDsnp01167View
7Apple-RosBREED-3.9K-201911N/A4.89GDsnp01167View
8Apple-MM-F111N/A10.9b475882335View
9Apple-M27xM116-2016LG11N/A11.5RBsnp1496View
10Pear-PH-CG-2017LG3N/A120.48GDsnp01167View
Sequence
>GDsnp01167 ID=GDsnp01167; Name=GDsnp01167; organism=Malus x domestica; type=genetic_marker; length=75bp
TGGTGAATGGCAACCTGGAACTCCTGAAACTCTGA[A/C]GGGTTCGTAT
GTTTTTGTATGTTCTCATGGGTCCC