Toward a mechanistic understanding of larval dispersal: Insights from genomic fingerprinting of the deep-sea hydrothermal vent tubeworm Riftia pachyptila

Marine Ecology

Volumn 28, Issue 1, 2007, Pages 25-35

  Shank, Timothy M ^a   Halanych, Kenneth M ^b  

^a WOODS HOLE OCEANOGRAPHIC INSTITUTION   (United States)

^b AUBURN UNIVERSITY   (United States)

Author keywords

Amplified fragment length polymorphisms; Connectivity; Fingerprinting; Metapopulation genetics; Riftia pachyptila

Indexed keywords

DEEP-SEA BENTHOS; DISPERSAL; DNA FINGERPRINTING; GENOMICS; HYDROTHERMAL VENT COMMUNITY; LARVAL TRANSPORT; METAPOPULATION; POLYMORPHISM; POPULATION GENETICS;

RIFTIA PACHYPTILA; TUBICOLAE;

EID: 33847769654     PISSN: 01739565     EISSN: 14390485     Source Type: Journal    
DOI: 10.1111/j.1439-0485.2007.00146.x     Document Type: Article

References (68)

1. Bachem C.W.B., van der Hoeven R.S., de Bruijn S.M., Vreugdenhil D., Zabeau M., Visser R.G.F. (1996) Visualization of differential gene expression using a novel method of RNA fingerprinting based on AFLP: Analysis of gene expression during potato tuber development. Plant Journal, 9, 745-753.
2. Beerli P., Felsenstein J. (2001) Maximum likelihood estimation of a migration matrix and effective population sizes using a coalescent approach. Proceedings of the National Academy of Sciences of the United States of America, 98, 4563-4568.
3. Bensch S., Akesson S. (2005) Ten years of AFLP in ecology and evolution: why so few animals? Molecular Ecology, 14, 2899-2914.
4. Bensch S., Akesson S., Irwin D. (2002) The use of AFLP to find an informative SNP: Genetic differences across a migratory divide in willow warblers. Molecular Ecology, 11, 2359-2366.
5. Black M.B., Lutz R.A., Vrijenhoek R.C. (1994) Gene flow among vestimentiferan tube worm (Riftia pachyptila) populations from hydrothermal vents of the Eastern Pacific. Marine Biology, 120, 33-39.
6. Black M.B., Halanych K.M., Maas P.A.Y., Hoeh W.R., Hashimoto J., Desbruyères D., Lutz R.A., Vrijenhoek R.C. (1997) Molecular systematics of vestimentiferan tubeworms from hydrothermal vents and cold-water seeps. Marine Biology, 130, 141-149.
7. Black M.B., Trivedi A., Maas P.A.Y., Lutz R.A., Vrijenhoek R.C. (1998) Population genetics and biogeography of vestimentiferan tube worms. Deep-Sea Research II, 45, 365-382.
8. Bucklin A. (1988) Allozymic variability of Riftia pachyptila populations from the Galápagos Rift and 21°N hydrothermal vents. Deep-Sea Research A, 35, 1759-1768.
9. Butman C.A. (1987) Larval settlement of soft-sediment invertebrates: The spatial scales of pattern explained by active habitat selection and the emerging role of hydrodynamical processes. Oceanography and Marine Biology: Annual Review, 25, 133-165.
10. Carney S.L., Peoples J.R., Fisher C.R., Schaeffer S.W. (2002) AFLP analyses of genomic DNA reveal no differentiation between two phenotypes of the vestimentiferan tubeworm Ridgea piscesae. Cahiers de Biologie Marine, 43, 363-366.
11. ChevaldonnéP., Jollivet D., Vangriesheim A., Desbruyères D. (1997) Hydrothermal-vent alvinellid polychaete dispersal in the eastern Pacific. 1. Influence of vent site distribution, bottom currents, and biological patterns. Limnology and Oceanography, 42, 67-80.
12. Creasey S., Rogers A.D. (1999) Population genetics of bathyal and abyssal organisms. Advances in Marine Biology, 35, 1-151.
13. David P., Perdieu M.A., Pernot A.F., Jarne P. (1997) Fine-grained spatial and temporal population genetic structure in the marine bivalve Spisula ovalis. Evolution, 51, 1318-1322.
14. Eanes W.F. (1999) Analysis of selection on enzyme polymorphisms. Annual Review of Ecology and Systematics, 30, 301-326.
15. Escaravage N., Questiau S., Pornon A., Doche B., Taberlet P. (1998) Clonal diversity in a Rhododendron ferrugineum L. (Ericaceae) population inferred from AFLP markers. Molecular Ecology, 7, 975-982.
16. Excoffier L., Smouse P.E., Quattro J.M. (1992) Analysis of molecular variance inferred from metric distance among DNA haplotypes: Application to human mitochondrial DNA restriction data. Genetics, 131, 479-491.
17. Felsenstein J. (1985) Confidence limits on phylogenies: An approach using the bootstrap. Evolution, 39, 783-791.
18. France S.C., Hessler R.R., Vrijenhoek R.C. (1992) Genetic differentiation between spatially-disjunct populations of the deep-sea, hydrothermal vent-endemic amphipod Ventiella sulfuris. Marine Biology, 114, 551-559.
19. Gilig M.R., Hilbish T.J. (2000) The relationship between allele frequency and tidal height in a mussel hybrid zone: A test of the differential settlement hypothesis. Marine Biology, 137, 371-378.
20. Grassle J.P. (1985) Genetic differentiation in populations of hydrothermal vent mussels (Bathymodiolus thermophilus) from the Galápagos Rift and 13°N on the East Pacific Rise. Bulletin of the Biological Society of Washington, 6, 429-442.
21. Helfrich K.R., Battisti T.M. (1991) Experiments on baroclinic vortex shedding from hydrothermal plumes. Journal of Geophysical Research-Oceans, 96, 12511-12518.
22. Helfrich K.R., Joyce T.M., Cannon G.A., Harrington S.A., Pashinski D.J. (1998) Mean hydrographic and velocity sections near Pipe Organ vent at Juan de Fuca Ridge. Geophysical Research Letters, 25, 1737-1740.
23. Hellberg M. (2006) Genetic approaches to understanding marine metapopulation genetics. In: Kritzer J.P., Sale P.F. (Eds), Marine Metapopulations. Elsevier Academic Press, Burlington, MA: Pp. 431-455.
24. Hilbish T.J. (1996) Population genetics of marine species: The interaction of natural selection and historically differentiated populations. Journal of Experimental Marine Biology and Ecology, 200, 67-83.
25. Hurtado L.A., Lutz R.A., Vrijenhoek R.C. (2004) Distinct patterns of genetic differentiation among annelids of eastern Pacific hydrothermal vents. Molecular Ecology, 13, 2603-2615.
26. Jollivet D., Desbruyères D., Bonhomme F., Moraga D. (1995a) Genetic differentiation of deep-sea hydrothermal vent alvinellid populations (Annelida: Polychaeta) along the East Pacific Rise. Heredity, 74, 376-391.
27. Jollivet D., Desbruyères D., Ladrat C., Laubier L. (1995b) Evidence for differences in the allozyme thermostability of deep-sea hydrothermal vent polychaetes (Annelida): A possible selection by habitat. Marine Ecology Progress Series, 123, 125-136.
28. Jollivet D., ChevaldonnéP., Planque B. (1999) Hydrothermal-vent alvinellid polychaete dispersal in the eastern Pacific. 2. A metapopulation model based on habitat shifts. Evolution, 53, 1128-1142.
29. Jones M.L., Gardiner S.L. (1989) On the early development of the vestimentiferan tube worm Ridgeia sp. and observations on the nervous system and trophosome of Ridgeia sp. and Riftia pachyptila. Biological Bulletin, 177, 254-276.
30. Joyce T.M., Cannon G.A., Pashinski D., Helfrich K.R., Harrington S.A. (1998) Vertical and temporal vorticity observations at Juan de Fuca Ridge: Hydrothermal signatures. Geophysical Research Letters, 25, 1741-1744.
31. Karl S.A., Avise J.C. (1992) Balancing selection at allozyme loci in oysters: Implications from nuclear RFLPs. Science, 256, 100-102.
32. Kim S.L., Mullineaux L.S. (1998) Distribution and near-bottom transport of larvae and other plankton at hydrothermal vents. Deep-Sea Research II, 45, 423-440.
33. Kim S.L., Mullineaux L.S., Helfrich K.R. (1994) Larval dispersal via entrainment into hydrothermal vent plumes. Journal of Geophysical Research, 99, 12655-12665.
34. Kojima S., Segawa R., Fujiwara Y., Hashimoto J., Ohta S. (2000) Genetic differentiation of populations of a hydrothermal vent-endemic gastropod, Ifremeria nautilei, between the North Fiji Basin and the Manus Basin revealed by nucleotide sequences of mitochondrial DNA. Zoological Science, 17, 1167-1174.
35. Levin L.A. (2006) Recent progress in understanding larval dispersal: New directions and digressions. Integrative and Comparative Biology, 46, 282-297.
36. Loh J.P., Kiew R., Hay A., Kee A., Leong G., Huat Y., Gan Y. (2000) Intergeneric and interspecific relationships in Araceae tribe Caladieae and development of molecular markers using amplified fragment length polymorphism (AFLP). Annals of Botany, 85, 371-378.
37. Lopez J.V., Kersanach R., Rehner S.A., Knowlton N. (1999) Molecular determination of species boundaries in corals: Genetic analysis of the Montastraea annularis complex using amplified fragment length polymorphisms and a microsatellite marker. Biological Bulletin, 196, 80-93.
38. Lupton J.E., Baker E.T., Massoth G.J. (1999) Helium, heat, and the generation of hydrothermal event plumes at mid-ocean ridges. Earth and Planetary Science Letters, 171, 343-350.
39. Lutz R.A., Bouchet P., Jablonski D., Turner R.D., Waren A. (1986) Larval ecology of mollusks at deep-sea hydrothermal vents. American Malacological Bulletin, 4, 49-54.
40. Maas P.A.Y., O'Mullen G.D., Lutz R.A., Vrijenhoek R.C. (1999) Genetic and morphometric characterization of mussels (Bivalvia: Mytilidae) from Mid-Atlantic Hydrothermal Vents. Biological Bulletin, 196, 265-272.
41. Mariette S., Le Corre V., Austerlitz F., Kremer A. (2002) Sampling within the genome for measuring within-population diversity: Trade-offs between markers. Molecular Ecology, 11, 1145-1156.
42. Marsh A.G., Mullineaux L.S., Young C.M., Manahan D.T. (2001) Larval dispersal potential of the tubeworm Riftia pachyptila at deep-sea hydrothermal vents. Nature, 411, 77-80.
43. Mueller U.G., Wolfenbarger L.L. (1999) AFLP genotyping and fingerprinting. Trends in Ecology and Evolution, 14, 389-394.
44. Mullineaux L.S., France S.C. (1995) Dispersal mechanisms of deep-sea hydrothermal vent fauna. In: Humphris S., Zierenberg R.A., Mullineaux L.S., Thomson R.E. (Eds), Seafloor Hydrothermal Systems: Physical, Chemical, Biological, and Geological Interactions. American Geophysical Union, Washington, DC: Pp. 408-424.
45. Mullineaux L.S., Mills S.W., Sweetman A.K., Beardreau A.H., Metaxas A., Hunt H.L. (2005) Vertical, lateral and temporal structure in larval distribution at hydrothermal vents. Marine Ecology Progress Series, 293, 1-16.
46. Murphy R.W., Sites J.W. Jr, Buth D.G., Haufler C.H. (1996) Proteins: isozyme electrophoresis. In: Hillis D., Moritz C. (Eds), Molecular Systematics. Sinauer Associates, Inc., Sunderland, MA: Pp. 45-126.
47. Nei M. (1973) Analysis of gene diversity in subdivided populations. Proceedings of the National Academy of Sciences of the United States of America, 70, 3321-3323.
48. Nybom H. (2004) Comparison of different nuclear DNA markers for estimating intraspecific genetic diversity in plants. Molecular Ecology, 13, 1143-1155.
49. Parsons Y.M., Shaw K.L. (2001) Species boundaries and genetic diversity among Hawaiian crickets of the genus Laupala identified using amplified fragment length polymorphism. Molecular Ecology, 10, 1765-1772.
50. Peek A.S., Gustafson R.G., Lutz R.A., Varijenhoek R.C. (1997) Evolutionary relationships of deep-sea hydrothermal vent and cold-water seep clamR (Bivalvia: Vesicomyidae): results from mitochondrial cytochrome oxidase subunit I. Marine Biology, 130, 151-161.
51. Raymond M., Rousset F. (1995) GENEPOP (version 1.2) Population genetic software for exact tests and ecumenicism. Journal of Heredity, 86, 248-249.
52. Schneider S., Roessli D., Excoffier L. (2000) Arlequin ver. 2.000: A software for population data analysis. Genetics and Biometry Laboratory, University of Geneva, Geneva, Switzerland.
53. Shank T.M., Lutz R.A., Vrijenhoek R.C. (1998) Molecular Systematics of shrimp (Decapoda: Bresiliidae) from Deep-Sea Hydrothermal Vents: Enigmatic "Small Orange"Shrimp from the Mid-Atlantic Ridge are juvenile Rimicaris exoculata. Molecular Marine Biology and Biotechnology, 7, 88-96.
54. Shank T.M., Black M.B., Halanych K., Lutz R.A. (1999) Miocene radiation of deep-sea hydrothermal vent shrimp (Caridea: Bresiliidae): Evidence from mitochondrial cytochrome oxidase subunit I. Molecular Phylogenetics and Evolution, 13, 363-366.
55. Sherman J.D., Talbert L.E. (2002) Vernalization-induced changes of the DNA methylation pattern in winter wheat. Genome, 45, 253-260.
56. Southward E.C. (1988) Development of the gut and segmentation of newly settled stages of Ridgeia (Vestimentifera): Implications for relationship between Vestimentifera and Pogonophora. Journal of the Marine Biological Association of the United Kingdom, 68, 465-487.
57. Speer K.G., Marshall J. (1995) The growth of convective plumes at sea-floor hot-springs. Journal of Marine Research, 53, 1025-1057.
58. Swofford D.L. (2000) PAUP* 4.0 (Phylogenetic Analysis Using Parsimony). Sinauer Associates, Inc., Sunderland, MA.
59. Tyler P.A., Young C.M. (1999) Reproduction and dispersal at vents and cold seeps. Journal of Marine Biological Association of the United Kingdom, 79, 193-208.
60. Vos P., Hogers R., Bleeker M., Reijans M., van de Lee T., Hornes M., Frijters A., Pot J., Peleman J., Kuiper M., Zabeau M. (1995) AFLP: A new technique for DNA fingerprinting. Nucleic Acid Research, 2, 4407-4414.
61. Vrijenhoek R.C. (1997) Gene flow and genetic diversity in naturally fragmented metapopulations of deep-sea hydrothermal vent animals. Journal of Heredity, 88, 285-293.
62. Vrijenhoek R.C., Shank T.M., Lutz R.A. (1998) Gene flow and modes of dispersal in deep-sea hydrothermal vent animals. Cahiers de Biologie Marine, 39, 363-366.
63. Wang J., Whitlock M.C. (2003) Estimating effective population size and migration rates from genetic samples over space and time. Genetics, 163, 429-446.
64. Whitehead A., Anderson S.L., Kuivila K.M., Roach J.L., May B. (2003) Genetic variation among interconnected populations of Catostomus occidentalis: Implications for distinguishing impacts of contaminants from biogeographical structuring. Molecular Ecology, 12, 2817-2833.
65. Wong A., Forbes M.R., Smith M.L. (2001) Characterization of AFLP markers in damselflies: Prevalence of codominant markers and implications for population genetic applications. Genome, 44, 677-684.
66. Yan G., Romero-Severson J., Walton M., Chadee D.D., Severson D.W. (1999) Population genetics of the yellow fever mosquito in Trinidad: Comparison of amplified fragment length polymorphism (AFLP) and restriction fragment length polymorphism (RFLP) markers. Molecular Ecology, 8, 951-963.
67. Yang H., Shankar M., Buirchell B.J., Sweetingham M.W., Caminero C., Smith P.M.C. (2002) Development of molecular markers using MFLP linked to a gene conferring resistance to Diaporthe toxica in narrow-leafed lupin (Lupinus angustifolius L.). Theoretical and Applied Genetics, 105, 265-270.
68. Young C.M., Vazquez E., Metaxas A., Tyler P.A. (1996) Embryology of vesimentiferan tube worms from deep-sea methane/sulphide seeps. Nature, 381, 514-516.