Shatalina, M., Wicker, T., Buchmann, J.P., Oberhaensli, S., Šimková, H., Doležel, J., Keller, B.
PLANT BIOTECHNOLOGY JOURNAL
11:
23-32,
2013
Keywords:
wheat, genetic mapping, single-nucleotide polymorphism, synteny, Brachypodium
Abstract:
Agronomically important traits are frequently controlled by rare, genotype-specific alleles. Such
genes can only be mapped in a population derived from the donor genotype. This requires the
development of a specific genetic map, which is difficult in wheat because of the low level of
polymorphism among elite cultivars. The absence of sufficient polymorphism, the complexity of
the hexaploid wheat genome as well as the lack of complete sequence information make the
construction of genetic maps with a high density of reproducible and polymorphic markers
challenging. We developed a genotype-specific genetic map of chromosome 3B from winter
wheat cultivars Arina and Forno. Chromosome 3B was isolated from the two cultivars and then
sequenced to 10-fold coverage. This resulted in a single-nucleotide polymorphisms (SNP)
database of the complete chromosome. Based on proposed synteny with the Brachypodium
model genome and gene annotation, sequences close to coding regions were used for the
development of 70 SNP-based markers. They were mapped on a Arina 9 Forno Recombinant
Inbred Lines population and found to be spread over the complete chromosome 3B. While
overall synteny was well maintained, numerous exceptions and inversions of syntenic gene order
were identified. Additionally, we found that the majority of recombination events occurred in
distal parts of chromosome 3B, particularly in hot-spot regions. Compared with the earlier map
based on SSR and RFLP markers, the number of markers increased fourfold. The approach
presented here allows fast development of genotype-specific polymorphic markers that can be
used for mapping and marker-assisted selection.
Fulltext: contact IEB authors
IEB authors: Jaroslav Doležel,
Hana Šimková
