USDA ARS VCRU Data Server This web site, https://www.vcru.wisc.edu/sdata, contains data from the laboratory of Philipp W. Simon, USDA-ARS Vegetable Crops Research Unit [Click here for our web page]

Published Daucus Markers

Publications describing markers

This reference number is found in the sequence FASTA file as Ref=

1. Niemann et al. SSRs: Niemann M, Westphal L, Wricke G. Analysis of microsatellite markers in carrot (Daucus carota L. sativus). Journal of Applied Genetics 38A: 20-27. 1997.
   These markers are conveniently listed here: http://www.vcru.wisc.edu/simonlab/sdata/maps/carlos/markertable.htm#Niemann
    
2. DCG RFLP Markers: http://www.vcru.wisc.edu/simonlab/sdata/maps/vivek/markertable.htm#RFLP
    
3. OP-K9C: http://www.vcru.wisc.edu/simonlab/sdata/maps/carlos/markertable.htm#SAMPL
    
4. SSR-W93: http://www.vcru.wisc.edu/simonlab/sdata/maps/carlos/markertable.htm#SSR-W93
    
5. Y2mark marker: Conversion of an AFLP fragment linked to the carrot Y2 locus to a simple, codominant, PCR-based marker form. Theoretical and Applied Genetics 97:960-967. 1998
    
6. RAPD-derived SCAR markers: Characterization of the Meloidogyne javanica resistance locus employing molecular markers and isolation of candidate disease resistance loci in the carrot (Daucus carota L.) genome
   Leonardo Silva Boiteux, Ph.D. Thesis, 2000, University of Wisconsin-Madison
   Information about these markers can also be seen on our lab web page: http://www.vcru.wisc.edu/simonlab/sdata/maps/leonardo/maps.htm
    
7. Invertase or Rs marker (also phenotypic trait): Protocol, sequence, and references
   A 2.5-kb insert eliminates acid soluble invertase isozyme II transcript in carrot (Daucus carota L.) roots, causing high sucrose accumulation. Plant Molecular Biology 53:151-162. 2003
    
8. Carotenoid biosynthetic genes: Carotenoid biosynthesis structural genes in carrot (Daucus carota) isolation, sequence-characterization, single nucleotide polymorphism (SNP) markers and genome mapping Theoretical and Applied Genetics 114 693. 2007.
    
9. BAC end sequences: Characterization of a deep-coverage carrot (Daucus carota L.) BAC library and initial analysis of BAC-end sequences. Mol Genet Genomics 281 273. 2009.
    
10. BSSR and GSSR Markers: Microsatellite isolation and marker development in carrot - genomic distribution, linkage mapping, genetic diversity analysis and marker transferability across Apiaceae BMC Genomics 12 386. 2011.
     
11. ESSR Markers: De novo assembly and characterization of the carrot transcriptome reveals novel genes, new markers, and genetic diversity BMC Genomics 12 389. 2011.
    Note that this publication includes a supplemental FASTA file of sequences that could not be deposited in GenBank since they are consensus sequences. That file can also be found on our Published DNA Sequences page.
     
12. KBioscience SNP markers: Genetic structure and domestication of carrot (Daucus carota subsp. sativus) (Apiaceae) Am. J. Bot. May 2013 vol. 100 no. 5 930-938
     
13. Vivek BS (1997) Carrot (Daucus carota L.) Molecular Markers: Investigations into Daucus Phylogeny, Chloroplast DNA Inheritance and Genetic Mapping. PhD Thesis, University of Wisconsin-Madison.135 pp.
     
14. B493×QAL Linkage Map v.1: BIOMETRICAL STUDIES AND QUANTITATIVE TRAIT LOCI ASSOCIATED WITH MAJOR PRODUCTS OF THE CAROTENOID PATHWAY OF CARROT (DAUCUS CAROTA L.) by Carlos Antonio Fernandes Santos Ph.D. Thesis, University of Wisconsin-Madison, 2001
     
15. UDP-glucose:flavonoid-O-glucosyltransferase: Theoretical and Applied Genetics July 2013, Volume 126, Issue 7, pp 1689-1702 Expression and mapping of anthocyanin biosynthesis genes in carrot. Mehtap Yildiz, David K. Willis, Pablo F. Cavagnaro, Massimo Iorizzo, Kazim Abak, Philipp W. Simon
    GenBank accession JX826445
     
16. Markers with protocols: Listed below
     

Protocols for some of the published PCR Based Markers

• MK000001=P10
• MK000002=Y2
• MK000003=Q1/850
• MK000004=Q1/850Flanking
• MK000005=AA4/800
• MK000006=C16/600
• MK000007=H20/1400
• MK000008=C2/1700
• MK000009=Q6/500
• MK000010=U12/700
• MK000011=AL15/500
• MK000012=Reducing Sugar (Rs)
• MK000013=Codominant Scar-AFLP3
• MK000014=Dominant Scar GGTCTT350-4/H
• MK000015=Dominant Scar AACCAT315-Q/H
• MK000016=Dominant Scar GAGCAC444-4/H
• MK000017=Dominant Scar GATCTC386-4/B
• MK000018=Dominant Scar GGACAA477-4/H
• MK000019=Dominant Scar GGGCAA272-4/H
• MK000020=Dominant Scar ACACAA102-Q/AGGCAT251/4
• MK000021=Dominant Scar ACACAA290-Q/AGCCTT89-4
• MK000022=Dominant Scar GGTCAG366-Q/GGACAG073/4
• MK000023=Dominant Scar GGTCAG287-Q/GGTCAG164-4
• MK000024=Dominant Scar GATCTC251-Q/AGCCTT89-4
• MK000025=Dominant Scar F14/1800
• MK000026=Dominant Scar Q15/700
• MK000027=Dominant Scar H9/1600
• MK000028=Dominant Scar AN14/680
• MK000029=Dominant Scar T6/1350
• MK000030=IPI
• MK000031=GGPS1
• MK000032=GGPS2
• MK000033=PSY1
• MK000034=PSY2
• MK000035=CRTISO
• MK000036=PDS
• MK000037=ZDS1
• MK000038=ZDS2
• MK000039=LCYB
• MK000040=CCS (CYC-B)
• MK000041=LCYE
• MK000042=CHXB1
• MK000043=CHXB2
• MK000044=CHXB3
• MK000045=CHXE
• MK000046=ZEP
• MK000047=VDE
• MK000048=NCED1
• MK000049=NCED2
• MK000050=NCED3
• MK000051=CCD1
• MK000052=CCD2
• MK000053=CCD3
• MK000054=Scar-OPK-9
• MK000055=SSR-W93
• MK000056=Transposon Display
• MK000057=CHS
• MK000058=SST-1=ASLSM1
• MK000059=alliinase=ASLSM2
• MK000060=chitinase=ASLSM3
• MK000061=ASLSM4
• MK000062=Mitochondrial marker A/321:A/392
• MK000063=Mitochondrial marker B/1632
• MK000064=Mitochondrial marker C/1608
• MK000065=Mitochondrial marker D/1346
• MK000066=Mitochondrial marker E/1100
• MK000067=Mitochondrial marker F/373
• MK000068=Mitochondrial marker G/427:G/469
• MK000069=Mitochondrial marker H/1508
• MK000070=Mitochondrial marker I/214:I/401:I/435
• MK000071=Mitochondrial marker J/367
• MK000072=Mitochondrial marker K/751
• MK000073=Mitochondrial marker L/422
• MK000074=Mitochondrial marker M/451
• MK000075=Mitochondrial marker N/795
• MK000076=Mitochondrial marker O/790
• MK000077=Mitochondrial marker P/1229
• MK000078=Mitochondrial marker Q/672
• MK000079=Mitochondrial marker Sp1a/1503
• MK000080=Mitochondrial marker Sp1b/1961
• MK000081=Mitochondrial marker Sp2/1747

Sequences of Published Markers

The following is a single FASTA file containing every published marker from our laboratory with sequence information. The reference number found in the sequence FASTA file as Ref= refers to the number used in the table of references above.
The map number found in the sequence FASTA file as Map= refers to the number used on the data home page.
20131125mappedseq.fna