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. 1995 Jun;140(2):811–819. doi: 10.1093/genetics/140.2.811

Analysis of DNA Diversity by Spatial Autocorrelation

G Bertorelle 1, G Barbujani 1
PMCID: PMC1206654  PMID: 7498756

Abstract

Two statistics are proposed for summarizing spatial patterns of DNA diversity. These autocorrelation indices for DNA analysis, or AIDAs, can be applied to RFLP and sequence data; the resulting set of autocorrelation coefficients, or correlogram, measures whether, and to what extent, individual DNA sequences or haplotypes resemble the haplotypes sampled at arbitrarily chosen spatial distances. Analyses of computer-generated sets of data, and of RFLP data from two natural populations, show that AIDAs allow one to objectively and simply identify basic patterns in the spatial distribution of haplotypes. These statistics, therefore, seem to be a useful tool both to explore the genetic structure of a population and to suggest hypotheses on the evolutionary processes that shaped the observed patterns.

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Selected References

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  1. Barbujani G. Autocorrelation of gene frequencies under isolation by distance. Genetics. 1987 Dec;117(4):777–782. doi: 10.1093/genetics/117.4.777. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Barrantes R., Smouse P. E., Mohrenweiser H. W., Gershowitz H., Azofeifa J., Arias T. D., Neel J. V. Microevolution in lower Central America: genetic characterization of the Chibcha-speaking groups of Costa Rica and Panama, and a consensus taxonomy based on genetic and linguistic affinity. Am J Hum Genet. 1990 Jan;46(1):63–84. [PMC free article] [PubMed] [Google Scholar]
  3. Cavalli-Sforza L. L., Piazza A., Menozzi P., Mountain J. Reconstruction of human evolution: bringing together genetic, archaeological, and linguistic data. Proc Natl Acad Sci U S A. 1988 Aug;85(16):6002–6006. doi: 10.1073/pnas.85.16.6002. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Costa R., Peixoto A. A., Barbujani G., Kyriacou C. P. A latitudinal cline in a Drosophila clock gene. Proc Biol Sci. 1992 Oct 22;250(1327):43–49. doi: 10.1098/rspb.1992.0128. [DOI] [PubMed] [Google Scholar]
  5. Excoffier L., Smouse P. E. Using allele frequencies and geographic subdivision to reconstruct gene trees within a species: molecular variance parsimony. Genetics. 1994 Jan;136(1):343–359. doi: 10.1093/genetics/136.1.343. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Kimura M. The number of heterozygous nucleotide sites maintained in a finite population due to steady flux of mutations. Genetics. 1969 Apr;61(4):893–903. doi: 10.1093/genetics/61.4.893. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Kreitman M. Nucleotide polymorphism at the alcohol dehydrogenase locus of Drosophila melanogaster. Nature. 1983 Aug 4;304(5925):412–417. doi: 10.1038/304412a0. [DOI] [PubMed] [Google Scholar]
  8. Mantel N. The detection of disease clustering and a generalized regression approach. Cancer Res. 1967 Feb;27(2):209–220. [PubMed] [Google Scholar]
  9. Nevo E., Honeycutt R. L., Yonekawa H., Nelson K., Hanzawa N. Mitochondrial DNA polymorphisms in subterranean mole-rats of the Spalax ehrenbergi superspecies in Israel, and its peripheral isolates. Mol Biol Evol. 1993 May;10(3):590–604. doi: 10.1093/oxfordjournals.molbev.a040026. [DOI] [PubMed] [Google Scholar]
  10. Rapacz J., Chen L., Butler-Brunner E., Wu M. J., Hasler-Rapacz J. O., Butler R., Schumaker V. N. Identification of the ancestral haplotype for apolipoprotein B suggests an African origin of Homo sapiens sapiens and traces their subsequent migration to Europe and the Pacific. Proc Natl Acad Sci U S A. 1991 Feb 15;88(4):1403–1406. doi: 10.1073/pnas.88.4.1403. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Slatkin M. Gene flow and the geographic structure of natural populations. Science. 1987 May 15;236(4803):787–792. doi: 10.1126/science.3576198. [DOI] [PubMed] [Google Scholar]
  12. Slatkin M., Maddison W. P. Detecting isolation by distance using phylogenies of genes. Genetics. 1990 Sep;126(1):249–260. doi: 10.1093/genetics/126.1.249. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Slatkin M., Maruyama T. Genetic drift in a cline. Genetics. 1975 Sep;81(1):209–222. doi: 10.1093/genetics/81.1.209. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Templeton A. R., Boerwinkle E., Sing C. F. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping. I. Basic theory and an analysis of alcohol dehydrogenase activity in Drosophila. Genetics. 1987 Oct;117(2):343–351. doi: 10.1093/genetics/117.2.343. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Valdes A. M., Slatkin M., Freimer N. B. Allele frequencies at microsatellite loci: the stepwise mutation model revisited. Genetics. 1993 Mar;133(3):737–749. doi: 10.1093/genetics/133.3.737. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Watterson G. A. On the number of segregating sites in genetical models without recombination. Theor Popul Biol. 1975 Apr;7(2):256–276. doi: 10.1016/0040-5809(75)90020-9. [DOI] [PubMed] [Google Scholar]

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