Curtin University Homepage
  • Library
  • Help
    • Admin

    espace - Curtin’s institutional repository

    JavaScript is disabled for your browser. Some features of this site may not work without it.
    View Item 
    • espace Home
    • espace
    • Curtin Research Publications
    • View Item
    • espace Home
    • espace
    • Curtin Research Publications
    • View Item

    Simple sequence repeats in Puccinia graminis: abundance, cross-formae specialis and intra-species utility, and development of novel markers

    Access Status
    Fulltext not available
    Authors
    Karaoglu, H.
    Lee, Crystal
    Park, R.
    Date
    2013
    Type
    Journal Article
    
    Metadata
    Show full item record
    Citation
    Karaoglu, H. and Lee, C. and Park, R. 2013. Simple sequence repeats in Puccinia graminis: abundance, cross-formae specialis and intra-species utility, and development of novel markers. Australasian Plant Pathology. 42 (3): pp. 271-281.
    Source Title
    Australasian Plant Pathology
    DOI
    10.1007/s13313-013-0199-x
    ISSN
    1448-6032
    School
    School of Public Health
    URI
    http://hdl.handle.net/20.500.11937/42982
    Collection
    • Curtin Research Publications
    Abstract

    We evaluated the abundance and nature of simple sequence repeats (SSRs) in the causal agent of stem rust of wheat, Puccinia graminis f. sp. tritici, in order to characterize and develop SSR markers. A strategy was tested in which publicly available genome datasets extracted from genome sequences of P. graminis f. sp. tritici were searched for abundance and mined for candidate novel SSR markers that could be applied to a wide range of Puccinia species. The genome analysis from 393 supercontigs yielded a total of 34,359 SSR repeat motifs. A majority of these (98 %) were mononucleotide, dinucleotide, and trinucleotide repeats. The AG/GA dinucleotide motifs were the most common, and a TTGTT motif was the longest of all SSRs. From a total of 500 primer pairs designed, 460 produced bands within the expected size range and 56 SSR markers were eventually developed. Most of these were tetranucleotide and pentanucleotide motifs with PIC values ranging from 0.40 to 0.91 with an average PIC value of 0.71. The cross amplification of these markers in 11 isolates representing five Puccinia species and six formae speciales of P. graminis was also investigated. The frequency of PCR amplifications was lower for the species P. coronata, P. striiformis and P. triticina, and consequently, no significant polymorphisms were detected. In contrast 10, 10, and 11 polymorphic SSR loci were identified in P. graminis f. sp. secalis, P. graminis f. sp. avenae, and the “Scabrum” rust, respectively. The SSR markers reported here will be useful to characterize and profile global diversity in the important pathogen P. graminis.

    Related items

    Showing items related by title, author, creator and subject.

    • Identification of microsatellites from an extinct moa species using highthroughput (454) sequence data
      Allentoft, M.; Schuster, S.; Holdaway, R.; Hale, M.; McLay, E.; Oskam, C.; Gilbert, Thomas; Spencer, P.; Willerslev, E.; Bunce, Michael (2009)
      Genetic variation in microsatellites is rarely examined in the field of ancientDNA (aDNA) due to the low quantity of nuclear DNA in the fossil record together with the lack of characterized nuclear markers in extinct ...
    • Development of genomic resources for the narrow-leafed lupin (Lupinus angustifolius): construction of a bacterial artificial chromosome (BAC) library and BAC-end sequencing
      Gao, L.; Hane, James; Kamphuis, L.; Foley, R.; Shi, B.; Atkins, C.; Singh, K. (2011)
      Background: Lupinus angustifolius L, also known as narrow-leafed lupin (NLL), is becoming an important grain legume crop that is valuable for sustainable farming and is becoming recognised as a potential human health food. ...
    • Construction of BAC and BIBAC libraries and their applications for generation of SSR markers for genome analysis of chickpea, Cicer arietinum L.
      Lichtenzveig, Judith; Scheuring, C.; Dodge, J.; Abbo, S.; Zhang, H. (2005)
      Large0insect bacterial artificial chromosome (BAC) libraries, plant-transformation-competent binary BAC (BIBAC) libraries, and simple sequence repeat (SSR) markers are essential for many aspects of genomics research. We ...
    Advanced search

    Browse

    Communities & CollectionsIssue DateAuthorTitleSubjectDocument TypeThis CollectionIssue DateAuthorTitleSubjectDocument Type

    My Account

    Admin

    Statistics

    Most Popular ItemsStatistics by CountryMost Popular Authors

    Follow Curtin

    • 
    • 
    • 
    • 
    • 

    CRICOS Provider Code: 00301JABN: 99 143 842 569TEQSA: PRV12158

    Copyright | Disclaimer | Privacy statement | Accessibility

    Curtin would like to pay respect to the Aboriginal and Torres Strait Islander members of our community by acknowledging the traditional owners of the land on which the Perth campus is located, the Whadjuk people of the Nyungar Nation; and on our Kalgoorlie campus, the Wongutha people of the North-Eastern Goldfields.