A single panmictic population of endemic red crabs, Gecarcoidea natalis, on Christmas Island with high levels of genetic diversity

详细信息    查看全文

• 作者：Andrew R. Weeks (1) (2)
  Michael J. Smith (3)
  Anthony van Rooyen (1)
  Dion Maple (3)
  Adam D. Miller (1) (4)
  
• 关键词：Conservation genetics ; Microsatellite ; Effective population size ; Mitochondria ; Anoplolepis gracilipes ; Population structure
• 刊名：Conservation Genetics
• 出版年：2014
• 出版时间：August 2014
• 年：2014
• 卷：15
• 期：4
• 页码：909-919
• 全文大小：784 KB
• 参考文献：1. Adamczewska AM, Morris S (2001) Ecology and behavior of / Gecarcoidea natalis, the Christmas Island red crab, during the annual breeding migration. Biol Bull 200:305-20 CrossRef
  2. Akaike H (1973) Maximum likelihood identification of gaussian autoregressive moving average models. Biometrika 60:255-65 CrossRef
  3. Blacket MJ, Robin C, Good RT, Miller AD (2012) Universal primers for fluorescent labeling of PCR fragments—an efficient and cost effective approach to genotyping by fluorescence. Mol Ecol Res 12:456-63 CrossRef
  4. Boland CRJ, Smith MJ, Maple D et al (2011) Heli-baiting using low concentration fipronil to control invasive yellow crazy ant supercolonies on Christmas Island, Indian Ocean. In: Veitch CR, Clout MN, Towns DR (eds) Island invasives: eradication and management. IUCN, Gland, Switzerland
  5. Brookfield JFY (1996) A simple new method for estimating null allele frequency from heterozygote deficiency. Mol Ecol 5:453-55 CrossRef
  6. Clement M, Posada D, Crandall K (2000) TCS: a computer program to estimate gene genealogies. Mol Ecol 9:1657-660 CrossRef
  7. Do C, Waples RS, Peel D, Macbeth GM, Tillett BJ, Ovenden JR (2014) NeEstimator V2: re-implementation of software for the estimation of contemporary effective population size (Ne) from genetic data. Mol Ecol Res 14:209-14
  8. Drummond AJ, Rambaut A (2007a) BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol Biol 7:214 CrossRef
  9. Drummond A, Rambaut A (2007) Tracer: MCMC trace analysis tool. 1.5.0, Program distributed by the authors
  10. Drummond AJ, Nicholls GK, Rodrigo AG, Solomon W (2002) Estimating mutation parameters, population history and genealogy simultaneously from temporally spaced sequence data. Genetics 161:1307-320
  11. Earl DA, von Holdt BM (2012) Structure Harvester : a website and program for visualizing Structure output and implementing the Evanno method. Conserv Genet Res 4:359-61 CrossRef
  12. Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software Structure : a simulation study. Mol Ecol 14:2611-620 CrossRef
  13. Frankham R (1997) Do island populations have less genetic variation than mainland populations? Heredity 78:311-27 CrossRef
  14. Frankham R (1998) Inbreeding and extinction: island populations. Cons Biol 12:665-75 CrossRef
  15. Goudet J (1995) FSTAT (version 1.2): a computer program to calculate F-statistics. J Hered 86:485-86
  16. Green PT (1997) Red crabs in rain forest on Christmas Island, Indian Ocean: activity patterns, density and biomass. J Trop Ecol 13:17-8 CrossRef
  17. Hardy OJ, Vekemans X (2002) SPAGeDi: a versatile computer program to analyse spatial genetic structure at the individual or population levels. Mol Ecol Notes 2:618-20 CrossRef
  18. Hicks JW (1985) The breeding behaviour and migrations of the terrestrial crab / Gecarcoidea natalis (Decapoda: Brachyura). Aust J Zool 33:127-42 CrossRef
  19. Hill WG (1981) Estimation of effective population size from data on linkage disequilibrium. Genet Res 38:209-16 CrossRef
  20. Hoffmann AA, Parsons PA (1991) Evolutionary genetics and environmental stress. Oxford University Press, Oxford
  21. Hood G (2010) PopTools version 3.2.5. http://www.poptools.org
  22. Jombart T, Devillard S, Balloux F (2010) Discriminant analysis of principal components: a new method for the analysis of genetically structure populations. BMC Genet 11:94 CrossRef
  23. Jost L (2008) Gst and its relatives do not measure differentiation. Mol Ecol 17:4015-026 CrossRef
  24. Knowlton N, Weigt LA (1998) New dates and new rates for divergence across the Isthmus of Panama. Proc R Soc B 265:2257-263 CrossRef
  25. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG (2007) ClustalW and ClustalX version 2. Bioinformatics 23:2947-948 CrossRef
  26. Lewis PO, Zaykin D (2002) GDA software. http://lewis.eeb.uconn.edu/lewishome/
  27. Loiselle BA, Sork VL, Nason J, Graham C (1995) Spatial genetic structure of a tropical understory shrub, / Psychotria officinalis (Rubiaceae). Am J Bot 82:1420-425 CrossRef
  28. Lynch M, Ritland K (1999) Estimation of pairwise relatedness with molecular markers. Genetics 152:1753-766
  29. Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, Bemben LA et al (2005) Genome sequencing in microfabricated high-density picolitre reactors. Nature 437:376-80
  30. Marino IA, Pujolar JM, Zane L (2011) Reconciling deep calibration and demographic history: bayesian inference of post glacial colonization patterns in / Carcinus aestuarii (Nardo, 1847) and / C. maenas (Linnaeus, 1758). PLoS One 6:e28567 CrossRef
  31. McMillen-Jackson AL, Bert TM (2004) Genetic diversity in the mtDNA control region and population structure in the pink shrimp / Farfantepenaeus duorarum. J Crust Biol 24:101-09 CrossRef
  32. Meglécz E, Costedoat C, Dubut V, Gilles A, Malausa T, Pech N, Martin JF (2010) QDD: a user-friendly program to select microsatellite markers and design primers from large sequencing projects. Bioinformatics 26:403-04 CrossRef
  33. Nylander, JAA (2004) MrModeltest v2. Program distributed by the author. Evolutionary Biology Centre, Uppsala University
  34. O’Dowd DJ, Green PT, Lake PS (2003) Invasional ‘meltdown-on an oceanic island. Ecol Lett 6:812-17 CrossRef
  35. Peakall R, Smouse PE (2006) GenAlEx 6: genetic analysis in Excel. Population genetics software for teaching and research. Mol Ecol Notes 6:288-95 CrossRef
  36. Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155:945-59
  37. Queller DC, Goodnight KF (1989) Estimating relatedness using genetic markers. Evolution 43:258-75 CrossRef
  38. Rozen S, Skaletsky HJ (2000) Primer3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S (eds) Bioinformatics methods and protocols: methods in molecular biology. Humana Press, Totowa, pp 365-86
  39. Schubart CD, Diesel R, Hedges SB (1998) Rapid evolution to terrestrial life in Jamaican crabs. Nature 393:363-65 CrossRef
  40. Smith MJ, Cogger H, Tiernan B, Maple D, Boland CRJ, Napier F, Detto T, Smith P (2012) An oceanic island reptile community under threat: the decline of reptiles on Christmas Island, Indian Ocean. Herpet Cons Biol 7:206-18
  41. Sokal RR, Rohlf FJ (1995) Biometry: the principles and practice of statistics in biological research. Freeman, New York
  42. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596-599 CrossRef
  43. Templeton AR, Crandall KA, Sing CF (1992) A cladistics analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. 3 Cladogram estimation. Genetics 132:619-33
  44. Thorpe JP, Sole-Cava AM, Watts PC (2000) Exploited marine invertebrates: genetics and fisheries. Hydrobiologia 420:165-84 CrossRef
  45. Turner LM, Hallas JP, Smith MJ, Morris S (2012) Phylogeography of the Christmas Island blue crab, / Discoplax celeste (Decapoda: Gecarcinidae) on Christmas Island, Indian Ocean. J Mar Biol Assoc UK 93:703-14 CrossRef
  46. Van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P (2004) MICRO-CHECKER: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes 4:535-38 CrossRef
  47. Vannini M, Cannicci S (1995) Homing behavior and possible cognitive maps in crustacean decapods. J Exp Mar Biol Ecol 192:67-1 CrossRef
  48. Walsh PS, Metzgar DA, Higuschi R (1991) Chelex 100 as a medium for simple extraction of DNA for PCR-based typing from forensic material. Biotechniques 10:506-13
  49. Wang J (2001) A pseudo-likelihood method for estimating effective population size from temporally spaced samples. Genet Res 78:243-57 CrossRef
  50. Weeks AR, McColl S (2011) Monitoring of the 2009 aerial baiting of yellow crazy ants ( / Anoplolepis gracilipes) on non-target invertebrate fauna on Christmas Island. A report to The Director of National Parks, Australia. CESAR Consultants, 30 Flemington Rd, North Melbourne
  51. Weir B, Cockerham C (1984) Estimating F-statistics for the analysis of population structure. Evolution 38:1358-370 CrossRef
  
• 作者单位：Andrew R. Weeks (1) (2)
  Michael J. Smith (3)
  Anthony van Rooyen (1)
  Dion Maple (3)
  Adam D. Miller (1) (4)
  
  1. Cesar, 293 Royal Parade, Parkville, VIC, 3052, Australia
  2. Department of Genetics, The University of Melbourne, Parkville, VIC, 3010, Australia
  3. Christmas Island National Park, Christmas Island, Indian Ocean, 6798, Australia
  4. Department of Zoology, The University of Melbourne, Parkville, VIC, 3010, Australia
  
• ISSN：1572-9737

文摘

The red crab, Gecarcoidea natalis, is endemic to Christmas Island in the Indian Ocean and largely responsible for shaping the unique ecosystem found throughout the island’s rainforests. However, the introduction and establishment of supercolonies of the highly invasive yellow crazy ant, Anoplolepis gracilipes, has decimated red crab numbers over the last several decades. This poses a significant risk to the future conservation of G. natalis and consequently threatens the integrity of the unique island ecosystem. Here we undertook a population genetic analysis of G. natalis using a combination of 11 microsatellite markers and sequencing of the mitochondrial cytochrome oxidase subunit I gene from samples collected on Christmas Island as well as a single location from North Keeling Island (located approximately 900?km west of Christmas Island). The genetic results indicate that G. natalis is a single panmictic population on Christmas Island, with no spatial genetic structure or restricted gene flow apparent between sampled locations. Further, G. natalis from North Keeling Island are not genetically distinct and are recent immigrants from Christmas Island. The effective population size of G. natalis has likely remained large and stable on Christmas Island throughout its evolutionary history with relatively moderate to high levels of genetic diversity in microsatellite loci and mitochondrial haplotypes assessed in this study. For management purposes G. natalis can be considered a single panmictic population, which should simplify conservation efforts for the genetic management of this iconic island species.