brassica.info

genetic markers

Sequence tagged genetic markers

A registry of genetic markers that have been used in published and other reference linkage maps are being collated here. In addition, available information on markers characterised for use in diversity studies, and screening data on levels of polymorphism.

For more information of Microsatellites please see our microsatellite information exchange page
Also, see our table describing the single letter marker type designator codes used in CropStore

Information is now available for increasing numbers of Single Nucleotide Polymorphism (SNP) markers

Brassica marker sets

Type	Number	Marker set Code	Description	Prefix	citation	Curated
RFLP	103	Osborn_lab_RFLPs_1	Osborn (1st generation)	EW%* WG%** WR%**	-	yes
RFLP	279	Osborn_lab_RFLPs_2	Osborn (2nd generation)	pW* pX*	Parkin et al 2005	yes
RFLP	202	Lydiate_lab_RFLPs_1	Lydiate et al.	pN* pO* pR* ca*	Parkin et al 2005	yes
Total	584

SSR	398	BBSRC_SSRs	BBSRC microsatellites	Na% Ni% Ol% Ra%	Lowe et al., 2004	yes
SSR	372	Celera_SSRs	Celera public	CB*** BRAS*	Piquemal et al 2005 Radoev et al 2008	yes
SSR	80	AAFC_SSRs_1	AAFC freely-available	sN** sNR% sOR%* sR sS**	-	-
SSR	588	FITO_SSRs_1	FITO (Wisconsin)	FITO***	Iniguez-Luy et al 2009	yes
SSR	308	NIVTS_SSRs_1	NIVTS (Japan)	BRMS***	Suwabe et al 2002	-
SSR	107		Other SSR sets	-	-	-
SSR	972		MBrGSP anchors		CNU, NIAB Korea	yes
Total	2825

SNP/InDel	65	IGF_SNPs_1	EU IMSORB project	IGF****%	Qiu et al 2006	yes
Intron polymorphism	383	UOD_SNPs_1	Arabidopsis Gene Loci	At*%%%	Panjabi et al 2008 (supplementary data)	yes
ACGM	88	INRA_ACGM_1	INRA	RGA*.	Brunel et al 1999; Source web page	-
Total	536

Prefix wild card key: % = Letter ; * = Number

Total of Public Brassica Sequence Tagged Markers (to date) = 3,945

Additional generic molecular genetic markers

Type	Number	Description	Prefix	citation	Curated
AFLP	-	KeyGene	%%	Commercial	yes
RAPD	1,200	Operon Tec	OP%**	Commercial	yes
RAPD	480	WAKO (Japanese site)	WAKO%**	Commercial	yes

This Page Was Last Edited: 21-May-2010

Sponsored by: BBSRC (UK) link

Hosted by: Rothamsted Research link

Maintained by: Pierre Carion
Edited by: Graham King
Last updated: January 2010

Rothamsted Research provides no express or implied warranties of any kind, including but not limited to those of merchantability, fitness for a particular purpose and non-infringement of the proprietary rights, such as copyrights, patents and trade secrets, of third parties. Rothamsted Research makes every effort to ensure the quality and accuracy of the material on these web pages. However, it accepts no liability for the contents of these web pages, including any third party material.