Home LiteratureArticle Details
PMID: 16510794 Published · ppublish English Comparative Study Journal Article Research Support, Non-U.S. Gov't

Contrasted polymorphism patterns in a large sample of populations from the evolutionary genetics model Drosophila simulans.

Genetics ·Vol. 173 ·No. 2 ·2006-06-00 ·Pages 759-67

Baudry E, Derome N, Huet M, Veuille M

Abstract

African populations of Drosophila simulans are thought to be ancestral in this model species and are increasingly used for testing general hypotheses in evolutionary genetics. It is often assumed that African populations are more likely to be at a neutral mutation drift equilibrium than other populations. Here we examine population structuring and the demographic profile in nine populations of D. simulans. We surveyed sequence variation in four X-linked genes (runt, sevenless, Sex-lethal, and vermilion) that have been used in a parallel study in the closely related species D. melanogaster. We found that an eastern group of populations from continental Africa and Indian Ocean islands (Kenya, Tanzania, Madagascar, and Mayotte Island) is widespread, shows little differentiation, and has probably undergone demographic expansion. The other two African populations surveyed (Cameroon and Zimbabwe) show no evidence of population expansion and are markedly differentiated from each other as well as from the populations from the eastern group. Two other populations, Europe and Antilles, are probably recent invaders to these areas. The Antilles population is probably derived from Europe through a substantial bottleneck. The history of these populations should be taken into account when drawing general conclusions from variation patterns.

MeSH Terms
Africa Animals DNA/genetics Drosophila/genetics Drosophila melanogaster/genetics Evolution, Molecular Female Genes, Insect Genetic Linkage Genetics, Population Genome, Insect Indian Ocean Islands Male Models, Genetic Molecular Sequence Data Polymorphism, Genetic Selection, Genetic Species Specificity X Chromosome/genetics
Chemicals
DNA
Authors & Affiliations
4 authors, click to expand affiliations / ORCID
Baudry Emmanuelle
Ecole Pratique des Hautes Etudes, Université Pierre et Marie Curie, Paris, France.
Derome Nicolas
Huet Michèle
Veuille Michel
References (54)
54 references, click to expand
  1. Reduced X-linked nucleotide polymorphism in Drosophila simulans.
    Proc Natl Acad Sci U S A. 2000 May 23;97(11):5960-5 PMID: 10823947
  2. Geographic distribution and inheritance of three cytoplasmic incompatibility types in Drosophila simulans.
    Genetics. 1991 Oct;129(2):399-407 PMID: 1743484
  3. A genome-wide departure from the standard neutral model in natural populations of Drosophila.
    Genetics. 2000 Sep;156(1):257-68 PMID: 10978290
  4. Contrasting patterns of X-linked and autosomal nucleotide variation in Drosophila melanogaster and Drosophila simulans.
    Mol Biol Evol. 2001 Mar;18(3):279-90 PMID: 11230529
  5. The effect of life-history and mode of inheritance on neutral genetic variability.
    Genet Res. 2001 Apr;77(2):153-66 PMID: 11355571
  6. Haplotype tests using coalescent simulations conditional on the number of segregating sites.
    Mol Biol Evol. 2001 Jun;18(6):1136-8 PMID: 11371602
  7. DNA variation at the rp49 gene region of Drosophila simulans: evolutionary inferences from an unusual haplotype structure.
    Genetics. 2001 Jul;158(3):1147-55 PMID: 11454763
  8. Variations of male cuticular hydrocarbons with geoclimatic variables: an adaptative mechanism in Drosophila melanogaster?
    Genetica. 2000;110(2):117-30 PMID: 11678502
  9. Chromosomal patterns of microsatellite variability contrast sharply in African and non-African populations of Drosophila melanogaster.
    Genetics. 2002 Jan;160(1):247-56 PMID: 11805060
  10. Testing models of selection and demography in Drosophila simulans.
    Genetics. 2002 Sep;162(1):203-16 PMID: 12242234
  11. Large-scale adaptive hitchhiking upon high recombination in Drosophila simulans.
    Genetics. 2003 Oct;165(2):895-900 PMID: 14573496
  12. DnaSP, DNA polymorphism analyses by the coalescent and other methods.
    Bioinformatics. 2003 Dec 12;19(18):2496-7 PMID: 14668244
  13. Demography and natural selection have shaped genetic variation in Drosophila melanogaster: a multi-locus approach.
    Genetics. 2003 Nov;165(3):1269-78 PMID: 14668381
  14. Linkage disequilibrium patterns across a recombination gradient in African Drosophila melanogaster.
    Genetics. 2003 Nov;165(3):1289-305 PMID: 14668383
  15. Strong selective sweep associated with a transposon insertion in Drosophila simulans.
    Proc Natl Acad Sci U S A. 2004 Feb 10;101(6):1626-31 PMID: 14745026
  16. Sequential evolution of a symbiont inferred from the host: Wolbachia and Drosophila simulans.
    Mol Biol Evol. 2004 Mar;21(3):428-42 PMID: 14660690
  17. Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations.
    Genetics. 1991 Oct;129(2):555-62 PMID: 1743491
  18. A statistical test for detecting geographic subdivision.
    Mol Biol Evol. 1992 Jan;9(1):138-51 PMID: 1552836
  19. Population growth makes waves in the distribution of pairwise genetic differences.
    Mol Biol Evol. 1992 May;9(3):552-69 PMID: 1316531
  20. Estimation of levels of gene flow from DNA sequence data.
    Genetics. 1992 Oct;132(2):583-9 PMID: 1427045
  21. African and North American populations of Drosophila melanogaster are very different at the DNA level.
    Nature. 1993 Oct 7;365(6446):548-50 PMID: 8413609
  22. Comparative population structuring of molecular and allozyme variation of Drosophila melanogaster Adh between Europe, west Africa and east Africa.
    Genet Res. 1995 Apr;65(2):95-103 PMID: 7781999
  23. Molecular variation at the vermilion locus in geographically diverse populations of Drosophila melanogaster and D. simulans.
    Genetics. 1995 Jul;140(3):1019-32 PMID: 7672574
  24. Intraspecific nuclear DNA variation in Drosophila.
    Mol Biol Evol. 1996 Jan;13(1):261-77 PMID: 8583899
  25. Length variation of CAG/CAA trinucleotide repeats in natural populations of Drosophila melanogaster and its relation to the recombination rate.
    Genetics. 1996 Aug;143(4):1713-25 PMID: 8844158
  26. World-wide variation in Drosophila melanogaster sex pheromone: behavioural effects, genetic bases and potential evolutionary consequences.
    Genetica. 1996 Jan;97(1):73-80 PMID: 8851882
  27. Differences in crossover frequency and distribution among three sibling species of Drosophila.
    Genetics. 1996 Feb;142(2):507-23 PMID: 8852849
  28. Population genetics of silent and replacement variation in Drosophila simulans and D. melanogaster: X/autosome differences?
    Mol Biol Evol. 1996 Dec;13(10):1405-7 PMID: 8952085
  29. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection.
    Genetics. 1997 Oct;147(2):915-25 PMID: 9335623
  30. Measures of divergence between populations and the effect of forces that reduce variability.
    Mol Biol Evol. 1998 May;15(5):538-43 PMID: 9580982
  31. Allele-specific population structure of Drosophila melanogaster alcohol dehydrogenase at the molecular level.
    Genetics. 1998 Jun;149(2):971-81 PMID: 9611207
  32. Power of neutrality tests to detect bottlenecks and hitchhiking.
    J Mol Evol. 2003;57 Suppl 1:S190-200 PMID: 15008416
  33. Effect of breeding structure on population genetic parameters in Drosophila.
    Genetics. 2004 Feb;166(2):779-88 PMID: 15020467
  34. A test of neutrality and constant population size based on the mismatch distribution.
    Mol Biol Evol. 2004 Apr;21(4):724-31 PMID: 14963107
  35. Signature of selective sweep associated with the evolution of sex-ratio drive in Drosophila simulans.
    Genetics. 2004 Mar;166(3):1357-66 PMID: 15082554
  36. Drosophila melanogaster, Drosophila simulans: so similar yet so different.
    Genetica. 2004 Mar;120(1-3):5-16 PMID: 15088643
  37. Genetic variation and differentiation at microsatellite loci in Drosophila simulans. Evidence for founder effects in new world populations.
    Genetics. 1998 Oct;150(2):777-90 PMID: 9755208
  38. Neutrality tests based on the distribution of haplotypes under an infinite-site model.
    Mol Biol Evol. 1998 Dec;15(12):1788-90 PMID: 9917213
  39. Population structure among African and derived populations of Drosophila simulans: evidence for ancient subdivision and recent admixture.
    Genetics. 1999 Sep;153(1):305-17 PMID: 10471714
  40. Why hunter-gatherer populations do not show signs of pleistocene demographic expansions.
    Proc Natl Acad Sci U S A. 1999 Sep 14;96(19):10597-602 PMID: 10485871
  41. Estimation of past demographic parameters from the distribution of pairwise differences when the mutation rates vary among sites: application to human mitochondrial DNA.
    Genetics. 1999 Jul;152(3):1079-89 PMID: 10388826
  42. How two Afrotropical endemics made two cosmopolitan human commensals: the Drosophila melanogaster-D. simulans palaeogeographic riddle.
    Genetica. 2004 Mar;120(1-3):17-39 PMID: 15088644
  43. Mitochondrial DNA in the Drosophila melanogaster complex.
    Genetica. 2004 Mar;120(1-3):41-50 PMID: 15088645
  44. A reanalysis of protein polymorphism in Drosophila melanogaster, D. simulans, D. sechellia and D. mauritiana: effects of population size and selection.
    Genetica. 2004 Mar;120(1-3):101-14 PMID: 15088651
  45. Relations between cuticular hydrocarbon (HC) polymorphism, resistance against desiccation and breeding temperature; a model for HC evolution in D. melanogaster and D. simulans.
    Genetica. 2004 Mar;120(1-3):195-212 PMID: 15088658
  46. Patterns of microsatellite variability among X chromosomes and autosomes indicate a high frequency of beneficial mutations in non-African D. simulans.
    Mol Biol Evol. 2004 Jul;21(7):1384-90 PMID: 15044592
  47. Non-African populations of Drosophila melanogaster have a unique origin.
    Mol Biol Evol. 2004 Aug;21(8):1482-91 PMID: 15014160
  48. Linking phylogenetics with population genetics to reconstruct the geographic origin of a species.
    Mol Phylogenet Evol. 2004 Sep;32(3):998-1009 PMID: 15288072
  49. On the number of segregating sites in genetical models without recombination.
    Theor Popul Biol. 1975 Apr;7(2):256-76 PMID: 1145509
  50. Statistical properties of the number of recombination events in the history of a sample of DNA sequences.
    Genetics. 1985 Sep;111(1):147-64 PMID: 4029609
  51. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism.
    Genetics. 1989 Nov;123(3):585-95 PMID: 2513255
  52. The effect of change in population size on DNA polymorphism.
    Genetics. 1989 Nov;123(3):597-601 PMID: 2599369
  53. Adaptive protein evolution at the Adh locus in Drosophila.
    Nature. 1991 Jun 20;351(6328):652-4 PMID: 1904993
  54. A new statistic for detecting genetic differentiation.
    Genetics. 2000 Aug;155(4):2011-4 PMID: 10924493
Article Info
Journal
Genetics
Abbr.
Genetics
ISSN
0016-6731
DOI
10.1534/genetics.105.046250
Published
2006-06-00
Epub
2006-00-01
Pages
759-67
Language
English
Region
United States
NLM ID
0374636
PMCID
PMC1526533
Subset
IM
Databases
GENBANK
AF486139, AF486140, AF486141, AF486142, AF486143, AF486144, AF486145, AF486146, AF486147, AF486148, AF486149, AF486150, AF486151, AF486152, AF486153, AF486154, AF486155, AF486156, AF486157, AF486158, AF486159, AF486160, AF486161, AF486162, AF486163, AF486164, AF486165, AF486166, AF486167, AF486168, AF486169, AF486170, AF486171, AF486172, AF486173, AF486174, AF486175, AF486176, AF486177, AF486178, AF486179, AF486180, AF486181, AF486182, AF486183, DQ348840, DQ348841, DQ348842, DQ348843, DQ348844, DQ348845, DQ348846, DQ348847, DQ348848, DQ348849, DQ348850, DQ348851, DQ348852, DQ348853, DQ348854, DQ348855, DQ348856, DQ348857, DQ348858, DQ348859, DQ348860, DQ348861, DQ348862, DQ348863, DQ348864, DQ348865, DQ348866, DQ348867, DQ348868, DQ348869, DQ348870, DQ348871, DQ348872, DQ348873, DQ348874, DQ348875, DQ348876, DQ348877, DQ348878, DQ348879, DQ348880, DQ348881, DQ348882, DQ348883, DQ348884, DQ348885, DQ348886, DQ348887, DQ348888, DQ348889, DQ348890, DQ348891, DQ348892, DQ348893, DQ348894, DQ348895, DQ348896, DQ348897, DQ348898, DQ348899, DQ348900, DQ348901, DQ348902, DQ348903, DQ348904, DQ348905, DQ348906, DQ348907, DQ348908, DQ348909, DQ348910, DQ348911, DQ348912, DQ348913, DQ348914, DQ348915, DQ348916, DQ348917, DQ348918, DQ348919, DQ348920, DQ348921, DQ348922, DQ348923, DQ348924, DQ348925, DQ348926, DQ348927, DQ348928, DQ348929, DQ348930, DQ348931, DQ348932, DQ348933, DQ348934, DQ348935, DQ348936, DQ348937, DQ348938, DQ348939, DQ348940, DQ348941, DQ348942, DQ348943, DQ348944, DQ348945, DQ348946, DQ348947, DQ348948, DQ348949, DQ348950, DQ348951, DQ348952, DQ348953, DQ348954, DQ348955, DQ348956, DQ348957, DQ348958, DQ348959, DQ348960, DQ348961, DQ348962, DQ348963, DQ348964, DQ348965, DQ348966, DQ348967, DQ348968, DQ348969, DQ348970, DQ357249, DQ357250, DQ357251, DQ357252, DQ357253, DQ357254, DQ357255, DQ357256, DQ357257, DQ357258, DQ357259, DQ357260, DQ357261, DQ357262, DQ357263, DQ357264, DQ357265, DQ357266, DQ357267, DQ357268, DQ357269, DQ357270, DQ357271, DQ357272, DQ357273, DQ357274, DQ357275, DQ357276, DQ357277, DQ357278, DQ357279, DQ357280, DQ357281, DQ357282, DQ357283, DQ357284, DQ357285, DQ357286, DQ357287, DQ357288, DQ357289, DQ357290, DQ357291, DQ357292, DQ357293, DQ357294, DQ357295, DQ357296, DQ357297, DQ357298, DQ357299, DQ357300, DQ357301, DQ357302, DQ357303, DQ357304, DQ357305, DQ357306, DQ357307, DQ357308, DQ357309, DQ357310, DQ357311, DQ357312, DQ357313, DQ357314, DQ357315, DQ357316, DQ357317, DQ357318, DQ357319, DQ357320, DQ357321, DQ357322, DQ357323, DQ357324, DQ357325, DQ357326, DQ357327, DQ357328, DQ357329, DQ357330, DQ357331, DQ357332, DQ357333, DQ357334, DQ357335, DQ357336, DQ357337, DQ357338, DQ357339, DQ357340, DQ357341, DQ357342, DQ357343, DQ357344, DQ357345, DQ357346, DQ357347, DQ357348, DQ357349, DQ357350, DQ357351, DQ357352, DQ357353, DQ357354, DQ357355, DQ357356, DQ357357, DQ357358, DQ357359, DQ357360, DQ357361, DQ357362, DQ357363, DQ357364, DQ357365, DQ357366, DQ357367, DQ357368, DQ357369, DQ357370, DQ357371, DQ357372, DQ357373, DQ357374, DQ357375, DQ357376, DQ357377, DQ357378, DQ357379, DQ357380, DQ357381, DQ357382, DQ357383, DQ357384, DQ357385, DQ357386, DQ357387, DQ357388, DQ357389, DQ357390, DQ357391, DQ357392, DQ357393, DQ357394, DQ357395, DQ357396, DQ357397, DQ357398, DQ357399, DQ357400, DQ357401, DQ357402, DQ357403, DQ357404, DQ357405, DQ357406, DQ357407, DQ357408, DQ357409, DQ357410, DQ357411, DQ357412, DQ357413, DQ357414, DQ357415, DQ357416, DQ357417, DQ357418, DQ357419, DQ357420, DQ357421, DQ357422, DQ357423, DQ357424, DQ357425, DQ357426, DQ357427, DQ357428, DQ357429, DQ357430, DQ357431, DQ357432, DQ357433, DQ357434, DQ357435, DQ357436, DQ357437, DQ357438, DQ357439, DQ357440, DQ357441, DQ357442, DQ357443, DQ357444, DQ357445, DQ357446, DQ357447, DQ357448, DQ357449, DQ357450, DQ357451, DQ357452, DQ357453, DQ357454, DQ357455, DQ357456, DQ357457, DQ357458, DQ357459, DQ357460, DQ357461, DQ357462, DQ357463, DQ357464, DQ357465, DQ357466, DQ357467, DQ357468, DQ357469, DQ357470, DQ357471, DQ357472, DQ357473, DQ357474, DQ357475, DQ357476, DQ357477, DQ357478, DQ357479, DQ357480, DQ357481, DQ357482, DQ357483, DQ357484, DQ357485, DQ357486, DQ357487, DQ357488, DQ357489, DQ357490, DQ357491, DQ357492, DQ357493, DQ357494, DQ357495, DQ357496, DQ357497, DQ357498, DQ357499, DQ357500, DQ357501, DQ357502, DQ357503, DQ357504, DQ357505, DQ357506, DQ357507, DQ357508, DQ357509
External Links
PubMed source DOI: 10.1534/genetics.105.046250 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: [email protected]

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2