Abstract
For the ornamental crop Gerbera hybrida, breeding at the moment is done using conventional methods. As this has drawbacks in breeding speed and efficiency, especially for complex traits like disease resistance, we set out to develop genomic resources. The leaf and flower bud transcriptomes of four parents, used to generate two gerbera populations, were sequenced using Illumina paired-end sequencing. In total, 36,770 contigs with an average length of 1397 bp were generated and these have been the starting point for SNP identification and annotation. The consensus contig sequences were used to map reads of individual parents, to identify genotype specific SNPs, and to assess the presence of common SNPs between genotypes. Comparison with the non-redundant protein database (nr) showed that 29,146 contigs gave BLAST hits. Of sequences with blast results, 73.3% obtained a clear gene ontology (GO) annotation. EST contigs coding for enzymes were found in Kyoto Encyclopedia of Genes and Genomes maps (KEGG). Through, these annotated data and KEGG molecular interaction network, transcripts associated with the phenylpropanoid metabolism, other secondary metabolite biosynthesis pathways, phytohormone biosynthesis and signal transduction were analyzed in more detail. Identifying genes involved in these processes could provide genetic and genomic resources for studying the mechanism of disease resistance in gerbera.
Highlights
Gerbera hybrida (2n = 2x = 50) is one of the most important ornamental plants and belongs to the Compositae family
Merging connected paired-end reads using FLASH software resulted in 46,043,245 single reads and 5,931,379 paired end reads for de novo assembly
We found the multiple contigs connected with these two plant hormone signaling pathway which were shown on Figure 5, some of them still remained without coverage
Summary
Gerbera hybrida (2n = 2x = 50) is one of the most important ornamental plants and belongs to the Compositae family. Cultivated gerbera, which probably originates from a crossing of two wild species from Africa (G. jamesonii and G. viridifolia; Hansen, 1999), is highly heterozygous. Gerbera became a model plant to study flower development in composed (Compositea) flowers (Teeri et al, 2006). The high variation in flower color and patterning of ray and disc florets as well as the high levels of secondary metabolites derived from connected pathways make it a putative model crop for biosynthetic research (Teeri et al, 2006). Given the importance of gerbera in floriculture and breeding as well as its potential for fundamental
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