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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.


  • 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
    Download details
    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
    download Excel file
    Total
    584
     
     
     
     
     
     
     
     
     
     
     
     
     
     
    SSR
    398
    BBSRC_SSRs
    BBSRC microsatellites
    Na**%**
    Ni**%**
    Ol**%**
    Ra**%**
    Lowe et al., 2004
    yes
    download Excel file
    SSR
    372
    Celera_SSRs
    Celera public
    CB*****
    BRAS***
    Piquemal et al 2005
    Radoev et al 2008
    yes
    download Excel file
    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
    download Excel file
    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
    download Excel file
    Total
    2825
     
     
     
     
     
     
     
     
     
     
     
     
     
     
    SNP/InDel
    65
    IGF_SNPs_1
    EU IMSORB project link
    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 link
    RGA***.**
    Brunel et al 1999;
    Source web page link
    -
     
    Total
    536
     
     
     
     
     
     

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

    Total of this previous generation (pre-SNP) of public Brassica Sequence Tagged Markers = 3,945

     

    Additional generic molecular genetic markers

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