Doležel, J., Vrána, J., Cápal, P., Kubaláková, M., Burešová, V., Šimková, H.
BIOTECHNOLOGY ADVANCES
32:
122-136,
2014
Keywords:
BAC library, Chromosome sorting, Cytogenetics, DNA arrays, DNA marker development, Flow cytometry, Genome assembly, Mitotic metaphase chromosomes, Next generation sequencing, Physical mapping
Abstract:
Next generation sequencing (NGS) is revolutionizing genomics and is providing novel insights into genome
organization, evolution and function. The number of plant genomes targeted for sequencing is rising. For
the moment, however, the acquisition of full genome sequences in large genome species remains difficult,
largely because the short reads produced by NGS platforms are inadequate to cope with repeat-rich DNA,
which forms a large part of these genomes. The problem of sequence redundancy is compounded in polyploids,
which dominate the plant kingdom. An approach to overcoming some of these difficulties is to reduce the full
nuclear genome to its individual chromosomes using flow-sorting. The DNA acquired in this way has proven
to be suitable for many applications, including PCR-based physical mapping, in situ hybridization, forming
DNA arrays, the development of DNAmarkers, the construction of BAC libraries and positional cloning. Coupling
chromosome sorting with NGS offers opportunities for the study of genome organization at the single chromosomal
level, for comparative analyses between related species and for the validation of whole genome assemblies.
Apart from the primary aim of reducing the complexity of the template, taking a chromosome-based
approach enables independent teams to work in parallel, each tasked with the analysis of a different chromosome(
s). Given that the number of plant species tractable for chromosome sorting is increasing, the likelihood
is that chromosome genomics – the marriage of cytology and genomics – will make a significant contribution
to the field of plant genetics.
Fulltext: contact IEB authors
IEB authors: Veronika Burešová,
Petr Cápal,
Jaroslav Doležel,
Marie Kubaláková,
Hana Šimková,
Jan Vrána
Čeština
English