Genetic mapping in Lilium: mapping of major genes and quantitative trait loci for several ornamental traits and disease resistances

Abstract

Construction of genetic linkage maps for lily was achieved using two populations, LA and AA that share one parent ÔConnecticut KingÕ. Three different molecular marker systems (AFLP TM , DArT and NBS profiling) were used in generating linkage maps for ÔConnecticut KingÕ. The LA and the AA populations consist of 20 and 21 linkage groups (LGs), respectively. Average density between markers was 3.9 cM for the LA and 5 cM for the AA population. Several horticultural traits were mapped for the first time in Lilium and showed to be single gene based. We propose to name these genes as LFCc for flower colour, lfs for flower spots, LSC for stem colour, lal for antherless phenotype and lfd for flower direction whereby upper and lower case names refer to dominant and recessive genes, respectively. Additionally, resistance to Lily mottle virus (LMoV) was mapped as a locus on LG AA10. For Fusarium resistance, the Kruskal-Wallis test identified six putative quantitative trait loci (QTL) in the AA population of which one QTL (explaining 25% of the variation in resistance) could be confirmed by interval mapping.

Development of expressed sequence tag derived-simple sequence repeats in the genus Lilium

“…Van Heusden et al (2002) used amplified fragment length polymorphism markers to map four quantitative trait loci (QTLs) for Fusarium oxysporum and a single locus of LMoV in an Asiatic backcross population. Shahin et al (2011) analyzed QTLs for several ornamental traits and disease resistance with amplified fragment length polymorphism, DArT, and fine-map NBS profiling. However, these reported linkage analyses and QTLs for important agronomical traits lead to questions about the anchor markers for landing the loci on the particular chromosome.…”

Generation and analysis of expressed sequence tags in the extreme large genomes Lilium and Tulipa

“…On the other hand, genetic mapping of lily has not yet been well studied. The currently available genetic maps which were constructed using dominant markers (AFLP ‘Amplified Fragment Length Polymorphism’, NBS ‘Nucleotide Binding Site’, and DArT ‘Diversity Arrays Technology’) are not well saturated [9]. The available EST data [10] in the sequence database is very limited with only 3,329 ESTs deposited [10].…”

“…These resistances are difficult to breed for using classical breeding because of the quantitative nature of the resistances and/or elaborate disease tests. For instance, Fusarium resistance in lily is known to be controlled by six putative QTLs (Quantitative Trait Locus) and disease tests are highly influenced by environment [9]. Developing user friendly, efficient, transferable, and co-dominant markers such as SNPs and SSRs markers that can be implemented in molecular assisted breeding (MAB) applications will help to speed up breeding in these two species.…”

Recent Progress in Genomic Analysis of Ornamental Plants, with a Focus on Carnation

“…Lily and tulip are also very interesting from an evolutionary point of view, as both species have huge genomes (1C = 25 Gb in tulip and 36 Gb in lily; Shahin et al, 2012b). In lily, linkage maps have been generated using RAPD, AFLP, ISSR, diversity arrays technology, and nucleotide binding site markers, and QTL analysis has been conducted for flower color (Abe et al, 2002;Nakano et al, 2005) and disease resistance (Jansen, 1996;Shahin et al, 2011). Large-scale EST sequencing was recently conducted using NGS technology for both species from the Netherlands (Shahin et al, 2012b).…”