LARGE TANDEM REPEATS OF MESOCRICETUS AURATUS IN SILICO AND IN SITU
D.Yu. Miheev, O.I. Podgornaya, D.I. Ostromyshenskii 1
Institute of Cytology RAS, St. Petersburg;
1 e-mail: necroforus@gmail.com
The class of tandemly repeated sequences exists only in eukaryotic genomes and absent in prokaryotes.
The tens percent of eukaryotic genome are built up of the tandem repeats. The whole set of different tandem repeats
is not revealed to any of the eukaryote species in spite of the half century history of its investigation by
molecular biology methods. Previously we found the set of tandem repeats in the database of well assembled
mouse genome with the bioinformatics methods. In the current work we applied the same methods to the poorly
assembled hamster Mesocricetus auratus genome. 19 tandem repeats families have been found in hamster genome
by bioinformatics (in silico). Only one of tandem repeats’ families found have been cloned previously
and exists in the Repbase, the database of all known repetitive fragments. The rest of the families are new and
need the experimental verification by FISH (in situ). Oligo probes were designed at the base of in silico found
sequences. Oligo probe for the known tandem repeat gives the same signal as the cloned probe, i. e. probes designed
are suitable for oligo-FISH. All four oligo probes tested give signal at the heterochromatic centromeric
region as expected, though with different intensities and at different number of chromosomes. The results show
the power of the in silico methods for the mostly mysterious genome component, tandem repeats, investigation.
Key words:
satellite DNA, tandem repeats, Mesocricetus auratus
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