AX-89904786, AX-89904786 (genetic_marker) Fragaria x ananassa

Marker Overview

Name

AX-89904786

dbSNP ID

N/A

SNP Array ID

90K SNP array for cultivated strawberry:	Affx-88832881
50K SNP array for cultivated strawberry:	Affx-88832881
850K SNP array for cultivated strawberry:	Affx-88832881
35K SNP array for cultivated strawberry:	Affx-88832881

Type

SNP

SNP Alleles

A/G

Probe 1

AX-89904786.AX-89904786: AACAGTGCCCACTTACCAACCCAGATTAAA

5' Flanking Sequence

TGATTTATCTTAGGTTTGGCATAGATGTCAAGTTG

3' Flanking Sequence

AAATTAGACCCAACCATTCACCCGTGACAACAATT

Species

Fragaria x ananassa

Publication

[view all]

Contact

Nahla Bassil
S Verma

Comment

SNP-SNP (haploSNP)

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
50K 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
Fvb3	chromosome	Fvb3:3096598..3096668 -	Fragaria vesca Whole Genome v2.0.a1 Assembly & Annotation	n/a
Fvb3-4	chromosome	Fvb3-4:26510472..26510542 +	Fragaria x ananassa Camarosa Genome Assembly v1.0 & Annotation v1.0.a1	n/a
Fvb3-2	chromosome	Fvb3-2:794759..794829 +	Fragaria x ananassa Camarosa Genome Assembly v1.0 & Annotation v1.0.a1	n/a
Fvb3-3	chromosome	Fvb3-3:1181926..1181969 -	Fragaria x ananassa Camarosa Genome Assembly v1.0 & Annotation v1.0.a1	n/a
LG3	chromosome	LG3:1936805..1936805 .	Fragaria vesca Whole Genome v1.1 Assembly & Annotation	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

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-89904786 ID=AX-89904786; Name=AX-89904786; organism=Fragaria x ananassa; type=genetic_marker; length=71bp
TGATTTATCTTAGGTTTGGCATAGATGTCAAGTTGRAAATTAGACCCAAC
CATTCACCCGTGACAACAATT