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Global repeat map method for higher order repeat alpha satellites in human and chimpanzee genomes (build 37.2 assembly) (CROSBI ID 187250)

Prilog u časopisu | izvorni znanstveni rad | međunarodna recenzija

Glunčić, Matko ; Rosandić, Marija ; Jelovina, Denis ; Dekanić, Krešimir ; Vlahović, Ines ; Paar, Vladimir Global repeat map method for higher order repeat alpha satellites in human and chimpanzee genomes (build 37.2 assembly) // Croatica chemica acta, 85 (2012), 3; 327-351. doi: 10.5562/cca1987

Podaci o odgovornosti

Glunčić, Matko ; Rosandić, Marija ; Jelovina, Denis ; Dekanić, Krešimir ; Vlahović, Ines ; Paar, Vladimir

engleski

Global repeat map method for higher order repeat alpha satellites in human and chimpanzee genomes (build 37.2 assembly)

Alpha satellites are tandemly repeated sequences found in all human centromeres. In addition to the functional and structural role within centromere they are also a suitable model for evolutionary studies, because of being subject to concerted evolution. The Global Repeat Map (GRM) algorithm is a convenient computational tool to determine consensus repeat units and their exact size within a given genomic sequence, both of monomeric and higher-order (HOR) type. Using GRM, we identify in Build 37.2 assembly fifteen different alpha satellite HORs, three of them novel, not reported previously. In the next step we compute suprachromosomal family classification and CENP-B box / pJα distributions for these HORs. All human alpha satellite sequences originate from one pra-ancestral alpha satellite monomer. For the first time we perform GRM analysis and compare human and chimpanzee alpha satellite HORs for chromosomes 4 and give an evidence that the human and chimpanzee alpha satellites originate from a common ancestor that predated the human-chimpanzee separation. We also compare the codon-like trinucleotide (CLT) extensions of human and chimpanzee chromosome 4. Our results are consistent with the expectation that the alpha satellite HORs in human and chimpanzee have been created after the human- chimpanzee separation.

alpha satellites higher order repeats; human chromosome 4; chimpanzee chromosome 4; GRM; trinucleotide extensions

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Podaci o izdanju

85 (3)

2012.

327-351

objavljeno

0011-1643

10.5562/cca1987

Povezanost rada

Fizika, Računarstvo, Biologija

Poveznice
Indeksiranost