ena-STUDY-INRA CLERMONT-FERRAND - THEIX-14-03-2019-09:13:53:453-593
Resequencing of chromosome 3B from 44 wheat accessions.
Background: Structural variations (SVs) such as copy-number and presence-absence variations are polymorphisms that are known to impact genome composition at the species level and are associated with phenotypic variations. In the absence of a reference genome sequence, their study has long been hampered in wheat. The recent production of new wheat genomic resources has led to a paradigm shift, making possible to investigate the extent of SVs among cultivated and wild accessions.Results: We assessed SVs affecting genes and transposable elements (TEs) in a Triticeae diversity panel of 44 accessions from seven tetraploid and hexaploid species using high coverage shotgun sequencing of sorted chromosome 3B DNA and dedicated bioinformatics approaches. We show that 23% of the genes are variable within this panel. In addition, analyzes revealed a high level of intra- and interspecific variability affecting TEs, contrasting with the weak single nucleotide polymorphism (SNP) rate. Chromosome extremities are the regions where we observed most of the variability, confirming previous hypotheses made when comparing wheat with the other grasses. Conclusions: This study provides deeper insights into the genomic variability affecting the complex Triticeae genomes at the intra- and interspecific level.
Background: Structural variations (SVs) such as copy-number and presence-absence variations are polymorphisms that are known to impact genome composition at the species level and are associated with phenotypic variations. In the absence of a reference genome sequence, their study has long been hampered in wheat. The recent production of new wheat genomic resources has led to a paradigm shift, making possible to investigate the extent of SVs among cultivated and wild accessions.Results: We assessed SVs affecting genes and transposable elements (TEs) in a Triticeae diversity panel of 44 accessions from seven tetraploid and hexaploid species using high coverage shotgun sequencing of sorted chromosome 3B DNA and dedicated bioinformatics approaches. We show that 23% of the genes are variable within this panel. In addition, analyzes revealed a high level of intra- and interspecific variability affecting TEs, contrasting with the weak single nucleotide polymorphism (SNP) rate. Chromosome extremities are the regions where we observed most of the variability, confirming previous hypotheses made when comparing wheat with the other grasses. Conclusions: This study provides deeper insights into the genomic variability affecting the complex Triticeae genomes at the intra- and interspecific level.