Comparison of anonymous and targeted molecular markers for the estimation of genetic diversity in ex situ conserved Lactuca.
The anonymous marker systems microsatellites (simple sequence repeats), amplified fragment length polymorphisms and sequence-specific amplified polymorphisms were compared with the targeted marker systems sequence-related amplified polymorphisms, target region amplification polymorphisms and nucleotide binding site profiling for their ability to describe the genetic diversity in a selected set of 80 Lactuca accessions. The accessions were also described morphologically, and all characterisation methods were evaluated against the genetic diversity assessed by a panel of three crop experts. The morphological data showed a low level of association with the molecular data, and did not display a consistently better relationship with the experts' assessments in comparison with the molecular data. In general, the diversity described by the targeted molecular markers did not differ markedly from that of the anonymous markers, resulting in only slight differences in performance when related to the expert-based assessments. It was argued that markers targeted to specific gene sequences may still behave as anonymous markers and that the type of marker system used is irrelevant when at low taxonomic levels a clear genetic structure is absent due to intensive breeding activities.
van Treuren
R
R
Centre for Genetic Resources, The Netherlands, Wageningen University and Research Centre, P.O. Box 16, 6700 AA Wageningen, The Netherlands. Robbert.vanTreuren@WUR.NL
van Hintum
Th J L
TJ
D018744:DNA, Plant / Q000235:genetics / Q000302:isolation & purification; D005819:Genetic Markers; D014644:Genetic Variation; D005828:Genetics, Population; D018545:Lactuca / Q000235:genetics*; D018895:Microsatellite Repeats; D011110:Polymorphism, Genetic; D017422:Sequence Analysis, DNA
D018744:DNA, Plant; D005819:Genetic Markers
Nucleic Acids Res. 1995 Nov 11;23(21):4407-14
7501463
Theor Appl Genet. 2004 Jul;109(2):384-93
15057419
Trends Ecol Evol. 1993 Aug;8(8):285-8
21236170
Theor Appl Genet. 2007 Aug;115(3):343-9
17503012
Theor Appl Genet. 2003 Jul;107(2):271-82
12845442
Plant J. 2002 Jul;31(2):211-22
12121450
Mol Ecol. 2002 Jul;11(7):1145-56
12074722
Mol Gen Genet. 1997 Feb 27;253(6):687-94
9079879
Cancer Res. 1967 Feb;27(2):209-20
6018555
J Hered. 2009 Mar-Apr;100(2):256-62
18796462
Theor Appl Genet. 2005 May;110(7):1195-202
15761718
Theor Appl Genet. 2004 Jan;108(2):328-34
13679978
Evolution. 2001 Jun;55(6):1095-103
11475045
Theor Appl Genet. 2006 Feb;112(3):517-27
16341837
Heredity (Edinb). 2009 May;102(5):506-13
19174839
Genome. 1999 Feb;42(1):139-49
10208007