The first genetic maps for subterranean clover (Trifolium subterraneum L.) and comparative genomics with T. pratense L. and Medicago truncatula ... View Full Text


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Article Info

DATE

2011-08-05

AUTHORS

Kioumars Ghamkhar, Sachiko Isobe, Phillip G. H. Nichols, Troy Faithfull, Megan H. Ryan, Richard Snowball, Shusei Sato, Rudi Appels

ABSTRACT

This study reports on the construction of the first genetic maps of subterranean clover (Trifolium subterraneum L.), a diploid, inbreeding annual pasture legume, and alignment of its linkage groups with those of red clover (T. pratense L.) and Medicago truncatula Gaertn. Transferability of red and white clover (T. repens L.) simple sequence repeat (SSR) markers to subterranean clover was observed. A total of 343 SSR loci were mapped into eight subterranean clover linkage groups, with 6–31 loci per linkage group and 27 loci with similar locations between two distinct F2 mapping populations. Phenotypic data obtained for flowering time, content of three isoflavonoids (formononetin, genistein and biochanin A), hardseededness, leaf markings, calyx pigmentation and hairiness of stems were analyzed, together with genotypic data. Genomic intervals influencing each trait were assigned to one to three chromosome regions, accounting for 5.5–59.8% of the phenotypic variance. Syntenic relationships were observed among subterranean clover, red clover and Medicago truncatula genomes. Comparisons of loci shared between the three species indicated that at least two chromosomal regions have undergone duplications in the subterranean clover genome. Candidate genes for isoflavone content were identified using M. truncatula as a reference genome. Synteny-based segmentation observed in Brassicaceae chromosomes helped to account for the apparent segmental-based relationship between the clover genomes, particularly within the subterranean clover lines. The proposed segmental nature of clover genome could account for the extensive variation observed between the parental genotypes, while not preventing production of fertile intercrosses. More... »

PAGES

213-226

References to SciGraph publications

  • 2009-10-29. Identification of genetic factors influencing salt stress tolerance in white clover (Trifolium repens L.) by QTL analysis in THEORETICAL AND APPLIED GENETICS
  • 2001-10. Positive selection of a gene family during the emergence of humans and African apes in NATURE
  • 1987-01. Genetic control of flowering time and its component processes in subterranean clover (Trifolium subterraneum L.) in EUPHYTICA
  • 2003-09-16. First RFLP linkage map of red clover (Trifolium pratense L.) based on cDNA probes and its transferability to other red clover germplasm in THEORETICAL AND APPLIED GENETICS
  • 2009-01. The Sorghum bicolor genome and the diversification of grasses in NATURE
  • 2004-04-22. A microsatellite map of white clover in THEORETICAL AND APPLIED GENETICS
  • 2009-02-28. Evolution over 16 years in a bulk-hybrid population of subterranean clover (Trifolium subterraneum L.) at two contrasting sites in south-western Australia in EUPHYTICA
  • 2001-02. Development and characterisation of simple sequence repeat (SSR) markers for white clover (Trifolium repens L.) in THEORETICAL AND APPLIED GENETICS
  • 2010-10-30. Structure, function, and engineering of enzymes in isoflavonoid biosynthesis in FUNCTIONAL & INTEGRATIVE GENOMICS
  • 1983-11. Inheritance of rate of breakdown of seed coat impermeability in subterranean clover (Trifolium subterraneum L.) in EUPHYTICA
  • 2007-03-14. Genome mapping of white clover (Trifolium repens L.) and comparative analysis within the Trifolieae using cross-species SSR markers in THEORETICAL AND APPLIED GENETICS
  • 2001-12. Map Manager QTX, cross-platform software for genetic mapping in MAMMALIAN GENOME
  • 2009-05-14. Construction of a consensus linkage map for red clover (Trifolium pratenseL.) in BMC PLANT BIOLOGY
  • 2008-12-02. The first SSR-based genetic linkage map for cultivated groundnut (Arachis hypogaea L.) in THEORETICAL AND APPLIED GENETICS
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    http://scigraph.springernature.com/pub.10.1007/s11032-011-9612-8

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    http://dx.doi.org/10.1007/s11032-011-9612-8

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    73 maps
    74 markers
    75 marking
    76 molecular markers
    77 nature
    78 new molecular markers
    79 parental genotypes
    80 pasture legumes
    81 phenotypic data
    82 phenotypic variance
    83 pigmentation
    84 population
    85 production
    86 red clover
    87 reference genome
    88 region
    89 relationship
    90 repeat markers
    91 segmental nature
    92 segmentation
    93 sequence repeat markers
    94 similar locations
    95 simple sequence repeat (SSR) markers
    96 species
    97 stem
    98 study
    99 subterranean clover
    100 subterranean clover lines
    101 syntenic relationships
    102 synteny
    103 time
    104 total
    105 traits
    106 transferability
    107 truncatula
    108 variance
    109 variation
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