Plant Molecular Biology Reporter

, Volume 32, Issue 3, pp 750–760

Transcriptome versus Genomic Microsatellite Markers: Highly Informative Multiplexes for Genotyping Abies alba Mill. and Congeneric Species

  • Dragos Postolache
  • Cristina Leonarduzzi
  • Andrea Piotti
  • Ilaria Spanu
  • Anne Roig
  • Bruno Fady
  • Anna Roschanski
  • Sascha Liepelt
  • Giovanni Giuseppe Vendramin
Original Paper

DOI: 10.1007/s11105-013-0688-7

Cite this article as:
Postolache, D., Leonarduzzi, C., Piotti, A. et al. Plant Mol Biol Rep (2014) 32: 750. doi:10.1007/s11105-013-0688-7

Abstract

The availability of high-resolution, cost-effective polymorphic genetic markers displaying Mendelian inheritance is a prerequisite for fine-scale population genetic analyses as well as informed conservation and sustainable management. Silver fir (Abies alba Mill.) is a widespread European species of economic and ecological importance for which genetic markers are needed but difficult to develop, as in most conifer species. In this work, we introduce two sets of new multiplexed transcriptome-derived expressed sequence tag microsatellites (EST-simple sequence repeats (SSRs)) which we compare to a set of multiplexed genomic microsatellites (gSSRs). For both marker types, transferability was tested in 17 congeneric taxa. A total of 16 new EST-SSRs and two new gSSRs were developed. The EST-SSR multiplexes produced easily scorable amplification patterns that allow rapid and cost-effective genotyping at low-error rates, and include loci that display very low null allele frequencies. Generally, EST-SSRs displayed lower polymorphism and frequency of null alleles, but higher genetic differentiation among populations than gSSRs. Preliminary tests revealed that the EST-SSR markers are highly transferable and polymorphic across Abies species. This study also confirmed that SSRs can be successfully developed using next-generation sequencing technology also in large genome species such as conifers.

Keywords

EST-SSRsGenomic SSRsMultiplex PCRDiversitySilver fir

Supplementary material

11105_2013_688_MOESM1_ESM.doc (54 kb)
Table S1(DOC 54 kb)

Copyright information

© Springer Science+Business Media New York 2013

Authors and Affiliations

  • Dragos Postolache
    • 1
    • 2
  • Cristina Leonarduzzi
    • 3
  • Andrea Piotti
    • 2
    • 3
  • Ilaria Spanu
    • 2
  • Anne Roig
    • 4
  • Bruno Fady
    • 4
  • Anna Roschanski
    • 5
  • Sascha Liepelt
    • 5
  • Giovanni Giuseppe Vendramin
    • 2
  1. 1.Scuola Superiore Sant’AnnaPisaItaly
  2. 2.Plant Genetics InstituteNational Research Council (CNR)Sesto Fiorentino (Firenze)Italy
  3. 3.Department of BiosciencesUniversity of ParmaParmaItaly
  4. 4.INRA, UR629 Ecologie des Forêts Méditerranéennes (URFM)AvignonFrance
  5. 5.Faculty of Biology, Conservation BiologyUniversity of MarburgMarburgGermany