Population genetic structure of Chilo suppressalis (Walker) (Lepidoptera: Crambidae): Strong subdivision in China inferred from microsatellite markers and mtDNA gene sequences

Molecular Ecology

Volumn 17, Issue 12, 2008, Pages 2880-2897

  Meng, Xiang Feng ^a,b   Shi, Min ^a   Chen, Xue Xin ^a  

^a ZHEJIANG UNIVERSITY   (China)

^b Zhumadian Institute of Agricultural Science   (China)

Author keywords

Chilo suppressalis; Haplotype; Microsatellite; Mitochondrial DNA; Phylogeography; Population genetic structure

Indexed keywords

MICROSATELLITE DNA; MITOCHONDRIAL DNA;

ANIMAL; ARTICLE; CHINA; CLASSIFICATION; GENE FLOW; GENETIC VARIABILITY; GENETICS; GENOTYPE; GEOGRAPHY; GROWTH, DEVELOPMENT AND AGING; HAPLOTYPE; LEPIDOPTERA; PHYLOGENY; POPULATION GENETICS;

ANIMALS; CHINA; DNA, MITOCHONDRIAL; GENE FLOW; GENETICS, POPULATION; GENOTYPE; GEOGRAPHY; HAPLOTYPES; LEPIDOPTERA; MICROSATELLITE REPEATS; PHYLOGENY; VARIATION (GENETICS);

CHILO SUPPRESSALIS; CRAMBIDAE; LEPIDOPTERA;

EID: 44849127935     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/j.1365-294X.2008.03792.x     Document Type: Article

References (80)

1. Avise JC, Walker D, Johns GC (1998) Speciation durations and Pleistocene effects on vertebrate phylogeography. Proceedings of the Royal Society B: Biological Sciences, 265, 1707 1712.
2. Baker AJ, Pereira SL, Haddrath OP, Edge KA (2006) Multiple gene evidence for expansion of extant penguins out of Antarctica due to global cooling. Proceedings of the Royal Society B: Biological Sciences, 273, 11 17.
3. Ballard JWO, Whitlock MC (2004) The incomplete natural history of mitochondria. Molecular Ecology, 13, 729 744.
4. Beerli P (2006) Comparison of Bayesian and maximum likelihood inference of population genetic parameters. Bioinformatics, 22, 341 345.
5. Bogdanowicz SM, Schaefer PW, Harrison RG (2000) Mitochdrial DNA variation among worldwide populations of gypsy moths, Lymantria dispar. Molecular Phylogenetics and Evolution, 15, 487 495.
6. Bonnet E, Van der Peer Y (2002) zt: a software tool for simple and partial Mantel tests. Journal of Statistical Software, 7, 1 12.
7. Broadhurst LM, Coates DJ (2004) Genetic divergence among and diversity within two rare Banksia species and their common close relative in the subgenus Isostylis R. Br. (Proteaceae). Conservation Genetics, 5, 837 846.
8. Brower AVZ (1994) Rapid morphological radiation and convergence among races of the butterfly Heliconius erato inferred from patterns of mitochondrial DNA evolution. Proceedings of the National Academy of Sciences, USA, 91, 6491 6495.
9. Cavalli-Sforza LL, Edwards AWF (1967) Phylogenetic analysis: models and estimation procedures. American Journal of Human Genetics, 19, 233 257.
10. Chen XX (1997) Insect Biogeography. China Forestry Press, Beijing.
11. Chen GH, Ji CL, Wang MQ, Weigend S (2006) Analysis of genetic structure and diversity of 12 Chinese indigenous chicken breeds. Acta Veterinaria et Zootechnica Sinica, 37, 105 111.
12. Clement M, Posada D, Crandall KA (2000) tcs: a computer program to estimate gene genealogies. Molecular Ecology, 9, 1657 1660.
13. Coates BS, Hellmich RL, Lewis LC (2002a) Beauveria bassiana haplotype determination based on nuclear rDNA internal transcribed spacer PCR-RFLP. Mycological Research, 106, 40 50.
14. Coates BS, Hellmich RL, Lewis LC (2002b) Nuclear small subunit rRNA group I intron variation among Beauveria spp. provide tools for strain identification and evidence of horizontal transfer. Current Genetics, 41, 414 424.
15. Coates BS, Sumerford DV, Hellmich RL (2004) Geographic and voltinism differentiation among North American Ostrinia nubilalis (European corn borer) mitochondrial cytochrome c oxidase haplotypes. Journal of Insect Science, 4, 1 9.
16. Coates BS, Sumerford DV, Hellmich RL, Lewis LC (2005) Partial mitochondrial genome sequences of Ostrinia nubilalis and Ostrinia furnicalis. International Journal of Biological Sciences, 1, 13 18.
17. Deng LL (2006) The Pleistocene climate of Changjiang valley. Journal of Guizhou Normal University (Natural Sciences), 24, 29 32.
18. Dieringer D, Schlötterer C (2003) microsatellite analyser (MSA): a platform independent analysis tool for large microsaellite data sets. Molecular Ecology Notes, 3, 167 169.
19. Dopman EB, Perez L, Bogdanowicz SM, Harrison RG (2005) Consequences of reproductive barriers for genealogical discordance in the European corn borer. Proceedings of the National Academy of Sciences, USA, 102, 14706 14711.
20. Du ZW, Zhang XX, Wang FM (1991) The Management to Rice Pests in China. Agricultural Press, Beijing.
21. Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software structure: a simulation study. Molecular Ecology, 14, 2611 2620.
22. Excoffier L, Laval G, Schneider S (2005) arlequin version 3.0: an integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online, 1, 47 50.
23. Excoffier L, Smouse PE, Quattiro JM (1992) Analysis of molecular variance inferred from matrix distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics, 131, 479 491.
24. Felsenstein J (1989) phylip - phylogeny inference package (version 3.2). Cladistics, 5, 164 166.
25. Francisco MR, Gibbs HL, Galetti M, Lunardi VO, Galettijunior PM (2007) Genetic structure in a tropical lek-breeding bird, the blue manakin (Chiroxiphia caudata) in the Brazilian Atlantic Forest. Molecular Ecology, 16, 4908 4918.
26. Frankham R (1996) Relationship of genetic variation to population size in wildlife. Conservation Biology, 10, 1500 1508.
27. Fu Y-X (1997) Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics, 147, 915 925.
28. Gong ZT, Chen HZ, Yuan DG, Zhao YG, Wu YJ, Zhang GL (2007) The temporal-spatial distribution of domestic rice in ancient China and its implications. Chinese Science Bulletin, 52, 562 567.
29. Grant WS, Bowen BW (1998) Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation. Journal of Heredity, 89, 415 426.
30. Harper GL, Maclean N, Goulson D (2003) Microsatellite markers to assess the influence of population size, isolation and demographic change on the genetic structure of the UK butterfly Polyommatus bellargus. Molecular Ecology, 12, 3349 3357.
31. Hewitt G (2000) The genetic legacy of the Quaternary ice ages. Nature, 405, 907 913.
32. Huang ZH, Liu NF, Long J (2006) Population genetic structure, haplotype distribution and genetic diversity of the rusty-necklaced partridge Alectoris magna lanzhouensis based on mtDNA control region sequences. Acta Zoologica Sinica, 52, 738 745.
33. Huang ZG, Zhang WQ (2002) The origin and expansion of cultivated rice in ancient China. Tropical Geography, 22, 76 79.
34. Hutchinson DW, Templeton AR (1999) Correlation of pairwise genetic and geographic distance measures: inferring the relative influences of gene flow and drift on the distribution of genetic variability. Evolution, 53, 1898 1914.
35. Ishiguro N, Tsuchida K (2006) Polymorphic microsatellite loci for the rice stem borer, Chilo suppressalis (Walker) (Lepidoptera: Crambidae). Applied Entomology and Zoology, 41, 565 568.
36. Ishiguro N, Yoshida K, Tsuchida K (2006) Genetic differences between rice and water-oat feeders in the rice stem borer, Chilo suppressalis (Walker) (Lepidoptera: Crambidae). Applied Entomology and Zoology, 41, 585 593.
37. Jiang YZ (2002) Genetic Diversity of Domestic Rice (Oryza sativa L.) in China Based on Isozyme and SSR Markers. Chinese Academy of Agricultural Sciences.
38. Johannesen J, Veith M, Seitz A (1996) Population genetic structure of the butterfly Melitaea didyma (Nymphalidae) along a northern distribution border. Molecular Ecology, 5, 259 267.
39. Khan ZR, Litsinger JA, Barrion AT, Villanueva FFD (1991) World Bibliography of Rice Stem Borers 1794-1990. International Rice Research Institute, Makati, Philippines.
40. Lando JP, Chiang YC, Hung KH, Chiang TY, Schaal BA (2006) Phylogeography of Asian wild rice, Oryza rufipogon, reveals multiple independent domestications of cultivated rice, Oryza sativa. Proceedings of the National Academy of Sciences, USA, 103, 9578 9583.
41. Lange CL, Scott KD, Graham GC, Sallam MN, Allsopp PG (2004) Sugarcane moth borers (Lepidoptera: Noctuidae and Pyraloidae): phylogenetics constructed using COII and 16S mitochondrial partial gene sequences. Bulletin of Entomological Research, 94, 457 464.
42. Larson G, Dobney K, Albarella U et al 2005) Worldwide phylogeography of wild boar reveals multiple centers of pig domestication. Science, 307, 1618 1621.
43. Li CQ, Chang Q, Chen JQ, Zhang BW, Zhu LF, Zhou KY (2005) Population structure and phylogeography of the wild boar Sus scrofa. Northeast Asia based on mitochondrial DNA control region variation analysis. Acta Zoologica Sinica, 51, 640 649.
44. Li AX, Li CH (1996) Chilo Suppressalis and its Management Strategies. Chinese Agricultural Science and Technology Press, Beijing.
45. Malausa T, Leniaud L, Martin JF et al 2007) Molecular differentiation at nuclear loci in French host races of the European corn borer (Ostrinia nubilalis). Genetics, 176, 2343 2355.
46. Manly BFJ (1997) Randomization, Bootstrap and Monte Carlo Methods in Biology, 2nd edn. Chapman & Hall, London.
47. Mantel N (1967) The detection of disease clustering as a generalised regression approach. Cancer Research, 209 220.
48. Niu CW, Zhang QW, Ye ZH, Luo LZ (2006) Analysis of genetic diversity in different geographic populations of the beet armyworm Spodoptera exigua (Lepidoptera: Noctuidae) with AFLP technique. Acta Entomologica Sinica, 49, 867 873.
49. Page RDM (1996) treeview: an application to display phylogenetic trees on personal computers. Computer Applications in the Biosciences, 12, 357 358.
50. Peterson MA (1996) Long-distance gene flow in the sedentary butterfly Euphilotes enoptes (Lepidoptera: Lycaenidae). Evolution, 50, 1990 1999.
51. Peterson MA, Denno RF (1998) The influence of dispersal and diet breadth on patterns of genetic isolation by distance in phytophagous insects. American Naturalist, 152, 428 446.
52. Posada D, Crandall KA (1998) modeltest: testing the model of DNA substitution. Bioinformatics, 14, 817 818.
53. Posada D, Crandall KA (2001) Evaluation of methods for detecting recombination from DNA sequences: computer simulations. Proceedings of the National Academy of Sciences, USA, 98, 13757 13762.
54. Pritchard JK, Stephens M, Donnelly P (2000) Inference of populaion structure using multilocus genotype data. Genetics, 155, 945 959.
55. Raymond M, Rousset F (1995) genepop (version 3.4): population genetics software for exact tests and ecumenicism. Journal of Heredity, 86, 248 249.
56. Ren L, Zhang JZ, Li CX (2005) The genetic differentiation among five populations of Locusta migratoria. Journal of Shanxi University (Natural Sciences Editions), 28, 415 420.
57. Rice WR (1989) Analyzing tables of statistical tests. Evolution, 43, 223 225.
58. Roff DA (1994) The evolution of flightlessness: is history important? Evolutionary Ecology, 8, 639 657.
59. Ronquist F, Huelsenbeck JP (2003) mrbayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics, 19, 1572 1574.
60. Rosenberg NA (2004) distruct: a program for the graphical display of population structure. Molecular Ecology Notes, 4, 137 138.
61. Salvato P, Battisti A, Concato S, Masutti L, Patarnello T, Zane L (2002) Genetic differentiation in the winter pine processionary moth (Thaumetopoea pityocampa-wilkinsoni complex), inferred by AFLP and mitochondrial DNA markers. Molecular Ecology, 11, 2435 2444.
62. Schneider S, Excoffier L (1999) Estimation of past demographic parameters from the distribution of pairwise differences when the mutation rates vary among sites: application to human mitochondrial DNA. Genetics, 152, 1079 1089.
63. Scott KD, Wilkinson KS, Merritt MA et al 2003) Genetic shifts in Helicoverpa armigera Hübner (Lepidoptera, Noctuidae) over a year in the Dawson/Callide valleys. Australian Journal of Agricultural Research, 54, 739 744.
64. Sezonlin M, Dupas S, Le Ru B et al 2006) Phylogeography and population genetics of the maize stalk borer Busseola fusca (Lepidoptera, Noctuidae) in sub-Saharan Africa. Molecular Ecology, 15, 407 420.
65. Shi YF, Cui ZJ, Su Z (2006) The Quaternary Glaciations and Environmental Variations in China. Hebei Science and Technology Press, Shijiazhuang.
66. Simon C, Frati F, Beckenbach A, Crespi B, Liu H, Flook P (1994) Evolution, weighting, and phylogenetic utility of mitochondrial gene sequences and a compilation of conserved polymerase chain reaction primers. Annals of the Entomological Society of America, 87, 651 701.
67. Slatkin M, Hudson RR (1991) Pairwise comparisons of mito-chondrial DNA sequences in stable and exponentially growing populations. Genetics, 129, 555 562.
68. Smith CI, Farrell BD (2005) Range expansions in the flightless longhorn cactus beetles, Moneilema gigas and Moneilema armatum, in response to Pleistocene climate changes. Molecular Ecology, 14, 1025 1044.
69. Stauffer C, Lakatos F, Hewitt GM (1999) Phylogeography and postglacial colonization routes of Ips typographus L. (Coleoptera, Scolytidae). Molecular Ecology, 8, 763 773.
70. Swofford DL (2002) paup*. Phylogenetic Analysis Using Parsimony (*and Other Methods), Version 4. Sinauer Associates, Sunderland, Massachusetts.
71. Tajima F (1989) Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics, 123, 585 595.
72. Templeton AR, Crandall KA, Sing CF (1992) A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics, 132, 619 633.
73. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The clustal_x Windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research, 24, 4876 4882.
74. Tzedakis PC, Roucoux KH, de Abreu L, Shackleton NJ (2004) The duration of forest stages in southern Europe and interglacial climate variability. Science, 306, 2231 2235.
75. Van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P (2004) micro-checker: software for identifying and correcting genotyping errors in microsatellite data. Molecular Ecology Notes, 4, 535 538.
76. Weir BS, Cockerham CC (1984) Estimating F-statistics for the analysis of population structure. Evolution, 38, 1358 1370.
77. Xia YZ, Chen YY, Sheng Y (2006) Phylogeographic structure of lenok (Brachymystax lenok Pallas) (Salmoninae, Salmonidae) populations in water systems of eastern China, inferred from mitochondrial DNA sequences. Zoological Studies, 45, 190 200.
78. Zhang MZ, Kang L (2005) The genetic differentiation among geographic populations of Locusta migratoria in China. Science in China (Life Sciences), 35, 220 230.
79. Zhang H, Yan J, Zhang GQ, Zhou KY (2008) Phylogeography and demographic history of Chinese black-spotted frog populations (Pelophylax nigromaculata): evidence for independent refugia expansion and secondary contact. BMC Evolutionary Biology, 8, 21 (24 January 2008).
80. Zhu ZH, Ye H, Zhang Z (2005) Genetic relationships among four Bactrocera cucurbitae geographic populations in Yunnan Province. Chinese Journal of Applied Ecology, 16, 1889 1892.