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Intra-genomic GC heterogeneity in sauropsids : evolutionary insights from cDNA mapping and GC 3 profiling in snake

Intra-genomic GC heterogeneity in sauropsids : evolutionary insights from cDNA mapping and GC 3 profiling in snake

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MATSUBARA, Kazumi, Shigehiro KURAKU, Hiroshi TARUI, Osamu NISHIMURA, Chizuko NISHIDA, Kiyokazu AGATA, Yoshinori KUMAZAWA, Yoichi MATSUDA, 2012. Intra-genomic GC heterogeneity in sauropsids : evolutionary insights from cDNA mapping and GC 3 profiling in snake. In: BMC Genomics. 13(1), 604. eISSN 1471-2164

@article{Matsubara2012Intra-23653, title={Intra-genomic GC heterogeneity in sauropsids : evolutionary insights from cDNA mapping and GC 3 profiling in snake}, year={2012}, doi={10.1186/1471-2164-13-604}, number={1}, volume={13}, journal={BMC Genomics}, author={Matsubara, Kazumi and Kuraku, Shigehiro and Tarui, Hiroshi and Nishimura, Osamu and Nishida, Chizuko and Agata, Kiyokazu and Kumazawa, Yoshinori and Matsuda, Yoichi}, note={Article Number: 604} }

2012 deposit-license Agata, Kiyokazu Nishimura, Osamu Tarui, Hiroshi Nishimura, Osamu Matsubara, Kazumi Intra-genomic GC heterogeneity in sauropsids : evolutionary insights from cDNA mapping and GC 3 profiling in snake Tarui, Hiroshi Kumazawa, Yoshinori Kuraku, Shigehiro 2013-06-14T09:22:08Z Kumazawa, Yoshinori BMC Genomics ; 13 (2012). - 604 Matsubara, Kazumi Nishida, Chizuko Agata, Kiyokazu Kuraku, Shigehiro 2013-06-14T09:22:08Z Background<br /><br /><br />Extant sauropsids (reptiles and birds) are divided into two major lineages, the lineage of Testudines (turtles) and Archosauria (crocodilians and birds) and the lineage of Lepidosauria (tuatara, lizards, worm lizards and snakes). Karyotypes of these sauropsidan groups generally consist of macrochromosomes and microchromosomes. In chicken, microchromosomes exhibit a higher GC-content than macrochromosomes. To examine the pattern of intra-genomic GC heterogeneity in lepidosaurian genomes, we constructed a cytogenetic map of the Japanese four-striped rat snake (Elaphe quadrivirgata) with 183 cDNA clones by fluorescence in situ hybridization, and examined the correlation between the GC-content of exonic third codon positions (GC3) of the genes and the size of chromosomes on which the genes were localized.<br /><br /><br />Results<br /><br /><br />Although GC3 distribution of snake genes was relatively homogeneous compared with those of the other amniotes, microchromosomal genes showed significantly higher GC3 than macrochromosomal genes as in chicken. Our snake cytogenetic map also identified several conserved segments between the snake macrochromosomes and the chicken microchromosomes. Cross-species comparisons revealed that GC3 of most snake orthologs in such macrochromosomal segments were GC-poor (GC3 < 50%) whereas those of chicken orthologs in microchromosomes were relatively GC-rich (GC3 ≥ 50%).<br /><br /><br />Conclusion<br /><br /><br />Our results suggest that the chromosome size-dependent GC heterogeneity had already occurred before the lepidosaur-archosaur split, 275 million years ago. This character was probably present in the common ancestor of lepidosaurs and but lost in the lineage leading to Anolis during the diversification of lepidosaurs. We also identified several genes whose GC-content might have been influenced by the size of the chromosomes on which they were harbored over the course of sauropsid evolution. Matsuda, Yoichi eng Nishida, Chizuko Matsuda, Yoichi

Dateiabrufe seit 01.10.2014 (Informationen über die Zugriffsstatistik)

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