AX-89793164, AX-89793164 (genetic_marker) Fragaria x ananassa

Marker Overview

Name

AX-89793164

dbSNP ID

N/A

SNP Array ID

90K SNP array for cultivated strawberry:	Affx-88869823
850K SNP array for cultivated strawberry:	Affx-478431765
35K SNP array for cultivated strawberry:	Affx-88869823

Type

SNP

SNP Alleles

A/G

Probe 1

AX-89793164.AX-89793164: GTTTGACTAAGTCCAGTTTATCATGAATAA

5' Flanking Sequence

TAAACCAAACTGATTCAGGTCAAATAGTACTTATT

3' Flanking Sequence

TGCTATTGGTAACAAGGGAGCCCTTCTAGCGAGGA

Species

Fragaria x ananassa

Publication

[view all]

Contact

Nahla Bassil
S Verma

Contact

Name

Details

Nahla Bassil

First name:	Nahla
Last name:	Bassil
Title:	Geneticist
Institution:	USDA-ARS, NCGR, Corvallis, OR, USA
Address:	USDA-ARS, NCGR, Corvallis, OR, USA
Country:	USA
Email:	nahla.bassil@ars.usda.gov
Phone:	(541) 738-4214

S Verma

First name:	S
Last name:	Verma
Institution:	University of Florida
Country:	United States
Last update:	2017

Libraries


Library Name	Type
90K SNP array for cultivated strawberry	SNP_chip
35K SNP array for cultivated strawberry	SNP_chip
850K SNP array for cultivated strawberry	SNP_chip

Alignments

The following features are aligned


Feature Name	Type	Location	Analysis	Reference
Fvb5	chromosome	Fvb5:23702787..23702857 +	Fragaria vesca Whole Genome v2.0.a1 Assembly & Annotation	n/a
Fvb5-3	chromosome	Fvb5-3:4982202..4982252 +	Fragaria x ananassa Camarosa Genome Assembly v1.0 & Annotation v1.0.a1	n/a
Fvb5-1	chromosome	Fvb5-1:25890485..25890535 -	Fragaria x ananassa Camarosa Genome Assembly v1.0 & Annotation v1.0.a1	n/a
LG5	chromosome	LG5:22252237..22252237 .	Fragaria vesca Whole Genome v1.1 Assembly & Annotation	n/a
Fvb5-1	chromosome	Fvb5-1:25890500..25890500 .	Fragaria x ananassa Camarosa Genome Assembly v1.0 & Annotation v1.0.a1	n/a

Analyses

This genetic_marker is derived from or has results from the following analyses


Analysis Name	Date Performed
Alignment of Fragaria x ananassa 90K Array SNPs to Fragaria vesca Genome v2.0	2016-11-22
Alignment of Fragaria x ananassa 90K Array SNPs to Fragaria x ananassa Camarosa Genome Assembly v1.0	2019-04-18
90K SNP array for the cultivated strawberry Fragaria x ananassa	2014-07-23
Alignment of Fragaria x ananassa 850K Array SNPs to Fragaria x ananassa Camarosa Genome Assembly v1.0	2020-02-20

Publications


Year	Publication
2015	Bassil NV, Davis TM, Zhang H, Ficklin S, Mittmann M, Webster T, Mahoney L, Wood D, Alperin ES, Rosyara UR, Koehorst-Vanc Putten H, Monfort A, Sargent DJ, Amaya I, Denoyes B, Bianco L, van Dijk T, Pirani A, Iezzoni A, Main D, Peace C, Yang Y, Whitaker V, Verma S, Bellon L, Brew F, Herrera R, van de Weg E. Development and preliminary evaluation of a 90 K Axiom SNP array for the allo-octoploid cultivated strawberry Fragaria × ananassa. BMC genomics. 2015 Dec; 16(1):1310.
2020	Hardigan Michael A., Feldmann Mitchell J., Lorant Anne, Bird Kevin A., Famula Randi, Acharya Charlotte, Cole Glenn, Edger Patrick P., Knapp Steven J. Genome Synteny Has Been Conserved Among the Octoploid Progenitors of Cultivated Strawberry Over Millions of Years of Evolution. Front. Plant Sci., 2020 February 7; 10:1789 \| https://doi.org/10.3389/fpls.2019.01789
2018	Pincot DDA, Poorten TJ, Hardigan MA, Harshman JM, Acharya CB, Cole GS, Gordon TR, Stueven M, Edger PP, Knapp SJ. Genome-Wide Association Mapping Uncovers Fw1, a Dominant Gene Conferring Resistance to Fusarium Wilt in Strawberry. G3 (Bethesda). 2018 Mar 30; 8(5):1817-1828.
2017	Verma S, Bassil NV, van de Weg E, Harrison RJ, Monfort A, Hidalgo JM, Amaya I, Denoyes B, Mahoney L, Davis TM, Fan Z, Knapp S, Whitaker VM. Development and evaluation of the Axiom IStraw35 384HT array for the allo-octoploid cultivated strawberry Fragaria x ananassa. Acta Hortic. (1156): 75–82. 10.17660/ActaHortic.2017.1156.10.

Sequence

>AX-89793164 ID=AX-89793164; Name=AX-89793164; organism=Fragaria x ananassa; type=genetic_marker; length=71bp
TAAACCAAACTGATTCAGGTCAAATAGTACTTATTRTGCTATTGGTAACA
AGGGAGCCCTTCTAGCGAGGA