Development of novel low-copy nuclear markers for Hieraciinae (Asteraceae) and their perspective for other tribes.
OBJECTIVE
The development of three low-copy nuclear markers for low taxonomic level phylogenies in Asteraceae with emphasis on the subtribe Hieraciinae is reported.


RESULTS
Marker candidates were selected by comparing a Lactuca complementary DNA (cDNA) library with public DNA sequence databases. Interspecific variation and phylogenetic signal of the selected genes were investigated for diploid taxa from the subtribe Hieraciinae and compared to a reference phylogeny. Their ability to cross-amplify was assessed for other Asteraceae tribes. All three markers had higher variation (2.1-4.5 times) than the internal transcribed spacer (ITS) in Hieraciinae. Cross-amplification was successful in at least seven other tribes of the Asteraceae. Only three cases indicating the presence of paralogs or pseudogenes were detected.


CONCLUSIONS
The results demonstrate the potential of these markers for phylogeny reconstruction in the Hieraciinae as well as in other Asteraceae tribes, especially for very closely related species.
Institute of Botany, Academy of Sciences of the Czech Republic, Zámek 1, 252 43 Pruůhonice, Czech Republic. krak@ibot.cas.cz
Karol
K
Krak
Inés
I
Alvarez
Petra
P
Caklová
Andrea
A
Costa
Jindrich
J
Chrtek
Judith
J
Fehrer
D019659:Asteraceae / Q000145:classification / Q000235:genetics*; D001483:Base Sequence; D002467:Cell Nucleus / Q000235:genetics*; D032461:Chromosomes, Plant / Q000235:genetics; D019295:Computational Biology; D017931:DNA Primers / Q000235:genetics; D021901:DNA, Intergenic / Q000235:genetics; D018744:DNA, Plant / Q000235:genetics; D004171:Diploidy; D018628:Gene Dosage; D015723:Gene Library; D017343:Genes, Plant; D005819:Genetic Markers; D014644:Genetic Variation; D010802:Phylogeny; D011544:Pseudogenes; D017422:Sequence Analysis, DNA
D017931:DNA Primers; D021901:DNA, Intergenic; D018744:DNA, Plant; D005819:Genetic Markers