NH009b (genetic_marker) Pyrus pyrifolia

Marker Overview
NameNH009b
Genbank IDN/A
TypeSSR
SpeciesPyrus pyrifolia
Repeat Motif(AG)20
PCR ConditionPCR in 20 ul solution of 10 mM Tris-HCL (pH 8.3), 50 mM KCl, 1.5 mM MgCl2, 0.01 % gelatin, 0.2 mM dNTPs, 10 pmoles of each primers, 10 ng of genomic DNA, 0.5 unites Taq Polymerase. Amplification was performed with step 35 cycles of I mim at 94C, 1 min at 50-55 C, 2 min at 72 C.
Primer 1NH009b.F: CCGAGCACTACCATTGA
Primer 2NH009b.Forward: CCGCGCACTACCATTGA
Primer 3NH009b.R: CGTCTGTTTACCGCTTCT
Primer 4NH009b.Reverse: CGTCTGTTTACCGCTTCT
Primer 5NH009b.forward primer: CCGAGCACTACCATTGA
Primer 6NH009b.reverse primer: CGTCTGTTTACCGCTTCT
Product Length159
PolymorphismP_ NH009b
Publication[view all]
ContactT. Yamamoto
Miyuki Kunihisa
Toshiya Yamamoto
Andrea Patocchi
Publications
YearPublication
2002Yamamoto T, Kimura T, Shoda M, Ban Y, Hayashi T, Matsuta N. Development of microsatellite markers in the Japanese pear (Pyrus pyrifolia Nakai). Molecular Ecology Notes. 2002; 2(1):14-16.
2006J. Amer. Soc. Hort. Sci. 131:408-417
2006Silfverberg-Dilworth E, Matasci CL, Van de Weg WE, Van Kaauwen MPW, Walser M, Kodde LP, Soglio V, Gianfranceschi L, Durel CE, Costa F, Yamamoto T, Koller B, Gessler C Patocchi A. Microsatellite markers spanning the apple (Malus x domestica Borkh.) genome. Tree Genetics and Genomes. 2006; 2(4):202-224.
2009Celton J-M, Tustin DS, Chagne D, Gardiner SE. Construction of a dense genetic linkage map for apple rootstocks using SSRs developed from Malus ESTs and Pyrus genomic sequences. Tree Genetics and Genomes. 2009; 5(1):93-107.
2004Yamamoto T, Kimura T, Saito T, Kotobuki K, Matsuta N, Liebhard R, Gessler C, Weg W.E. van de, Hayashi, T. Genetic linkage maps of Japanese and European pears aligned to the apple consensus map. Acta Horticulturae. 2004; 663:51-56.
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.
2014Kunihisa M, Moriya S, Abe K, Okada K, Haji T, Hayashi T, Kim H, Nishitani C, Terakami S, Yamamoto T. Identification of QTLs for fruit quality traits in Japanese apples: QTLs for early ripening are tightly related to preharvest fruit drop. Breeding science. 2014 Sep; 64(3):240-51.
2012Schouten HJ, van de Weg WE, Carling J, Khan SI, McKay SJ, van Kaauwen MPW, Wittenberg AHJ, Koehorst-van Putten HJJ, Noordijk Y, Gao Z, Rees DJG, Van Dyk MM, Jaccoud D, Considine MJ, Kilian A. Diversity arrays technology (DArT) markers in apple for genetic linkage maps. Molecular breeding 2012 29:645–660
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.
2015Ben Sadok I, Tiecher A, Galvez-Lopez D, Lahaye M, Lasserre-Zuber P, Bruneau M, Hanteville S, Robic R, Cournol R, Laurens F. Apple fruit texture QTLs: year and cold storage effects on sensory and instrumental traits. Tree Genetics & Genomes 2015 11:119
2002Liebhard, R., Gianfranceschi, L., Koller, B., Ryder, C.D., Tarchini, R., Weg, E. van de., Gessler, C. Development and characterisation of 140 new microsatellites in apple (Malus x domestica Borkh.) Mol. breed. 2002. v. 10 (4) p. 217-241.
2004Plant Breeding, 123(4):321
2015Luigi Falginella, Guido Cipriani, Corinne Monte, Roberto Gregori, Raffaele Testolin, Riccardo Velasco, Michela Troggio, Stefano Tartarini. A major QTL controlling apple skin russeting maps on the linkage group 12 of ‘Renetta Grigia di Torriana’. BMC Plant Biology. 2015; 15:150.
2002Yamamoto T, Kimura T, Shoda M, Ban Y, Hayashi T, Matsuta N. Development of microsatellite markers in the Japanese pear (Pyrus pyrifolia Nakai). Molecular Ecology Notes. 2002 Mar; 2(1):14-16.
Contact
NameDetails
T. Yamamoto
First name:Toshiya
Last name:Yamamoto
Title:researcher
Institution:National Institute of Fruit Tree Science, Japan
Address:National Institute of Fruit Tree Science Fujimoto 2-1, Tsukuba Ibaraki 305-8605, Japan
Email:toshiya@affrc.go.jp
Phone:81-29-838-6474,6491
Keywords:Pyrus pyrifolia
Miyuki Kunihisa
First name:Miyuki
Last name:Kunihisa
Institution:NARO Institute of Fruit Tree Science
Address:2-1 Fujimoto, Tsukuba, Ibaraki 305-8605
Country:Japan
Email:miyuky@affrc.go.jp
Phone:81-29-838-6437
Keywords:fruit drop
Toshiya Yamamoto
First name:Toshiya
Last name:Yamamoto
Institution:National Institute of Fruit Tree Science, Graduate School of Life and Environmental Sciences, University of Tsukuba
Address:National Institute of Fruit Tree Science, 2-1 Fujimoto, Tsukuba, Ibaraki 305-8605, Japan
Country:Japan
Email:toshiya@affrc.go.jp
Last update:Apr 2014
Andrea Patocchi
First name:Andrea
Last name:Patocchi
Title:researcher
Institution:Plant Pathology, Institute of Integrative Biology (IBZ)
Address:ETH Zurich, CH-8092 Zurich, Switzerland
Country:Switzerland
Email:andrea.patocchi@agrl.ethz.ch
Keywords:SSR
Relationships

This genetic_marker is adjacent to the following primer feature(s):

Feature NameUnique NameSpeciesType
ReverseNH009b.ReversePyrus pyrifoliaprimer
ForwardNH009b.ForwardPyrus pyrifoliaprimer
forward primerNH009b.forward primerPyrus pyrifoliaprimer
reverse primerNH009b.reverse primerPyrus pyrifoliaprimer
FNH009b.FPyrus pyrifoliaprimer
RNH009b.RPyrus pyrifoliaprimer


This genetic_marker is adjacent to the following QTL feature(s):

Feature NameUnique NameSpeciesType
phenolic compound contentqPHE.X5210X8402-LG13.F08.otherProcyanidinMalus x domesticaQTL


The following marker_locus feature(s) are an instance of this genetic_marker:

Feature NameUnique NameSpeciesType
NH009bNH009bPyrus pyrifoliamarker_locus
NH009bNH009b-82.583Pyrus pyrifoliamarker_locus
NH009bNH009b-104.038Pyrus pyrifoliamarker_locus
NH009bNH009b-93.31Pyrus pyrifoliamarker_locus
NH009bNH009b-42.2Pyrus pyrifoliamarker_locus
NH009bNH009b-45.4Pyrus pyrifoliamarker_locus
NH009bNH009b-19.6Pyrus pyrifoliamarker_locus
NH009bNH009b-49.2Pyrus pyrifoliamarker_locus
NH009bNH009b-40.259Pyrus pyrifoliamarker_locus
NH009bNH009b-48.719Pyrus pyrifoliamarker_locus
NH009bNH009b-104.91Pyrus pyrifoliamarker_locus


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Apple Integrated map13N/A43NH009bView
2Apple-C16xC17-F1-201213N/A36.27NH009bView
3Apple-2000-2012-F1ch13N/A46NH009bView
4Apple-PF-F1-2012ch13N/A35NH009bView
5Apple-MM-F113N/A38.5NH009bView
6Apple-OA-F1-AkaneAK13N/A34.2NH009bView
7Apple-X3259X3263-F113N/A34.86NH009bView
8Apple-M432-2012LG13N/A23.2NH009bView
9Apple-M27xM116-2016LG13N/A35.8NH009bView
10Apple-X5210X8402-F1-X5210LG13N/A48.1NH009bView
11Apple-X5210X8402-F1-X8402LG13N/A0NH009bView
12Apple-RGTxGD-F1-2015RGT_13N/A43.17NH009bView
13Apple-RGTxGD-F1-2015GD_13N/A40.95NH009bView
14Apple-JM7xS63-F1J13N/A42.2NH009bView
15Apple-JG-F1LG13N/A33.5NH009bView
16Apple-JGxWSH-F1LG13N/A49.6NH009bView
17Pear-Bartlett-F1-2007Ba13N/A22.1NH009bView
18Pear-La_France-F1-2007La13N/A44.1NH009bView
19Pear-Rcf-F1-femaleLG13N/A82.58NH009bView
20Pear-M-F1-maleLG13N/A104.04NH009bView
21Pear-RM-F1-IntegratedLG13N/A93.31NH009bView
22Apple-JM7xS63-F1J13N/A42.2NH009bView
23Apple-JM7xS63-F1S13N/A45.4NH009bView
24Pear-Ba-F1-2013Ba13N/A19.6NH009bView
25Pear-BD-F1-2015LG13N/A49.2NH009bView
26Pear-Bayuehong-F1-2015LG13N/A40.26NH009bView
27Pear-Dangshansuli-F1-2015LG13N/A48.72NH009bView
28Pear-integrated_consensus_map-IPCG-2017LG13N/A104.91NH009bView