The contribution of slippage-like processes to genome evolution - PubMed (original) (raw)
. 1995 Dec;41(6):1038-47.
doi: 10.1007/BF00173185.
Affiliations
- PMID: 8587102
- DOI: 10.1007/BF00173185
The contribution of slippage-like processes to genome evolution
J M Hancock. J Mol Evol. 1995 Dec.
Abstract
Simple sequences present in long (> 30 kb) sequences representative of the single-copy genome of five species (Homo sapiens, Caenorhabditis elegans, Saccharomyces cerevisiae, E. coli, and Mycobacterium leprae) have been analyzed. A close relationship was observed between genome size and the overall level of sequence repetition. This suggested that the incorporation of simple sequences had accompanied increases of genome size during evolution. Densities of simple sequence motifs were higher in noncoding regions than in coding regions in eukaryotes but not in eubacteria. All five genomes showed very biased frequency distributions of simple sequence motifs in all species, particularly in eukaryotes where AAA and TTT predominated. Interspecific comparisons showed that noncoding sequences in eukaryotes showed highly significantly similar frequency distributions of simple sequence motifs but this was not true of coding sequences. ANOVA of the frequency distributions of simple sequence motifs indicated strong contributions from motif base composition and repeat unit length, but much of the variation remained unexplained by these parameters. The sequence composition of simple sequences therefore appears to reflect both underlying sequence biases in slippage-like processes and the action of selection. Frequency distributions of simple sequence motifs in coding sequences correlated weakly or not at all with those in noncoding sequences. Selection on coding sequences to eliminate undesirable sequences may therefore have been strong, particularly in the human lineage.
Similar articles
- Differential distribution of simple sequence repeats in eukaryotic genome sequences.
Katti MV, Ranjekar PK, Gupta VS. Katti MV, et al. Mol Biol Evol. 2001 Jul;18(7):1161-7. doi: 10.1093/oxfordjournals.molbev.a003903. Mol Biol Evol. 2001. PMID: 11420357 - Genome size and the accumulation of simple sequence repeats: implications of new data from genome sequencing projects.
Hancock JM. Hancock JM. Genetica. 2002 May;115(1):93-103. doi: 10.1023/a:1016028332006. Genetica. 2002. PMID: 12188051 - Distinct frequency-distributions of homopolymeric DNA tracts in different genomes.
Dechering KJ, Cuelenaere K, Konings RN, Leunissen JA. Dechering KJ, et al. Nucleic Acids Res. 1998 Sep 1;26(17):4056-62. doi: 10.1093/nar/26.17.4056. Nucleic Acids Res. 1998. PMID: 9705519 Free PMC article. - Simple sequences and the expanding genome.
Hancock JM. Hancock JM. Bioessays. 1996 May;18(5):421-5. doi: 10.1002/bies.950180512. Bioessays. 1996. PMID: 8639165 Review. - DNA sequence evolution: the sounds of silence.
Sharp PM, Averof M, Lloyd AT, Matassi G, Peden JF. Sharp PM, et al. Philos Trans R Soc Lond B Biol Sci. 1995 Sep 29;349(1329):241-7. doi: 10.1098/rstb.1995.0108. Philos Trans R Soc Lond B Biol Sci. 1995. PMID: 8577834 Review.
Cited by
- Evolutionary and phylogenetic insights from the mitochondrial genomic analysis of Diceraeus melacanthus and D. furcatus (Hemiptera: Pentatomidae).
Dallagnol LC, Cônsoli FL. Dallagnol LC, et al. Sci Rep. 2024 Jun 4;14(1):12861. doi: 10.1038/s41598-024-63584-w. Sci Rep. 2024. PMID: 38834792 Free PMC article. - Homorepeat variability within the human population.
Mier P, Andrade-Navarro MA, Morett E. Mier P, et al. NAR Genom Bioinform. 2024 May 20;6(2):lqae053. doi: 10.1093/nargab/lqae053. eCollection 2024 Jun. NAR Genom Bioinform. 2024. PMID: 38774515 Free PMC article. - Genome-Wide Survey and Analysis of Microsatellites in Waterlily, and Potential for Polymorphic Marker Development.
Huang X, Yang M, Guo J, Liu J, Chu G, Xu Y. Huang X, et al. Genes (Basel). 2022 Oct 2;13(10):1782. doi: 10.3390/genes13101782. Genes (Basel). 2022. PMID: 36292667 Free PMC article. - Mining and analysis of microsatellites in human coronavirus genomes using the in-house built Java pipeline.
Umang; Bharti PK, Husai A. Umang, et al. Genomics Inform. 2022 Sep;20(3):e35. doi: 10.5808/gi.20033. Epub 2022 Sep 30. Genomics Inform. 2022. PMID: 36239112 Free PMC article. - Comparative Genome Analysis Reveals Accumulation of Single-Nucleotide Repeats in Pathogenic Escherichia Lineages.
Ishiya K, Nakashima N. Ishiya K, et al. Curr Issues Mol Biol. 2022 Jan 20;44(2):498-504. doi: 10.3390/cimb44020034. Curr Issues Mol Biol. 2022. PMID: 35723320 Free PMC article.
References
- Nucleic Acids Res. 1992 Jan 25;20(2):211-5 - PubMed
- Eur J Biochem. 1985 Jul 1;150(1):1-5 - PubMed
- J Cell Sci. 1978 Dec;34:247-78 - PubMed
- EMBO J. 1989 May;8(5):1517-25 - PubMed
- Nat Genet. 1994 Feb;6(2):114-6 - PubMed