Species boundaries of Gulf of Mexico vestimentiferans (Polychaeta, Siboglinidae) inferred from mitochondrial genes

Deep-Sea Research Part II: Topical Studies in Oceanography

Volumn 57, Issue 21-23, 2010, Pages 1916-1925

  Pia Miglietta, Maria ^a   Hourdez, Stephane ^b   Cowart, Dominique A ^a   Schaeffer, Stephen W ^a   Fisher, Charles ^a  

^a PENNSYLVANIA STATE UNIVERSITY   (United States)

^b STATION BIOLOGIQUE   (France)

Author keywords

16S; Cytochrome oxidase I; Gulf of Mexico; Mitochondrial gene; Polychaete; Siboglinid; Vestimentiferan tubeworm

Indexed keywords

16S; CYTOCHROME OXIDASE I; GULF OF MEXICO; MITOCHONDRIAL GENES; POLYCHAETE; SIBOGLINID; TUBEWORMS;

ECOLOGY; MITOCHONDRIA;

GENES;

ANNELID; CLADISTICS; COLD SEEP; DATA SET; DEVELOPMENTAL BIOLOGY; ENZYME ACTIVITY; GENE EXPRESSION; GENETIC ANALYSIS; GENETIC MARKER; MITOCHONDRION; POPULATION DISTRIBUTION;

AFRICA; ATLANTIC OCEAN; GULF OF MEXICO; LOUISIANA; UNITED STATES;

ESCARPIA; ESCARPIA LAMINATA; ESCARPIIDAE; LAMELLIBRACHIA; LAMELLIBRACHIA LUYMESI; LAMELLIBRACHIA SP.; POLYCHAETA; SEEPIOPHILA JONESI; SIBOGLINIDAE; TUBICOLAE; VESTIMENTIFERA;

EID: 78349304844     PISSN: 09670645     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.dsr2.2010.05.007     Document Type: Article

References (52)

1. Bergquist D.C., Urcuyo I.A., Fisher C.R. Establishment and persistence of seep vestimentiferan aggregations on the upper Louisiana slope of the Gulf of Mexico. Marine Ecology-Progress Series 2002, 241:89-98.
2. Bergquist D.C., Williams F.M., Fisher C.R. Longevity record for deep-sea invertebrate. Nature 2000, 403(6769):499-500.
3. Bisol P.M., Costa R., Sibuet M. Ecological and genetic survey on two deep-sea holothurians-benthogone-rosea and benthodytes-typica. Marine Ecology-Progress Series 1984, 15(3):275-281.
4. Black M.B., Trivedi A., Maas P.A.Y., Lutz R.A., Vrijenhoek R.C. Population genetics and biogeography of vestimentiferan tube worms. Deep-Sea Research II: Topical Studies in Oceanography 1998, 45:1-3.
5. Burton K.W., Ling H.F., Onions R.K. Closure of the Central American Isthmus and its effect on deep-water formation in the North Atlantic. Nature 1997, 386(6623):382-385.
6. Carney S.L., Formica M.I., Divatia H., Nelson K., Fisher C.R., Schaeffer S.W. Population structure of the mussel "Bathymodiolus′ childressi from Gulf of Mexico hydrocarbon seeps. Deep-Sea Research I: Oceanographic Research Papers 2006, 53(6):1061-1072.
7. Chase M.R., Etter R.J., Rex M.A., Quattro J.M. Bathymetric patterns of genetic variation in a deep-sea protobranch bivalve, Deminucula atacellana. Marine Biology 1998, 131(2):301-308.
8. Cordes E.E., Bergquist D.C., Fisher C.R. Macro-ecology of Gulf of Mexico cold seeps. Annual Review of Marine Science 2009, 1:143-168.
9. Cordes E.E., Bergquist D.C., Redding M.L., Fisher C.R. Patterns of growth in cold-seep vestimenferans including Seepiophila jonesi: a second species of long-lived tubeworm. Marine Ecology-An Evolutionary Perspective 2007, 28(1):160-168.
10. Cordes E.E., Becker E.L., Hourdez S., Fisher C.R. Influence of foundation species, depth, and location on diversity and community composition at Gulf of Mexico lower-slope cold seeps. Deep-Sea Research II: Topical Studies in Oceanography 2010, 57(21-23):1870-1881.
11. Cordes E.E., Carney S.L., Hourdez S., Carney R.S., Brooks J.M., Fisher C.R. Cold seeps of the deep Gulf of Mexico: Community structure and biogeographic comparisons to Atlantic equatorial belt seep communities. Deep-Sea Research I: Oceanographic Research Papers 2007, 54(4):637-653.
12. Cordes E.E., Bergquist D.C., Shea K., Fisher C.R. Hydrogen sulfide demand of long-lived vestimentiferan tube worm aggregations modifies the chemical environment at deep-sea hydrocarbon seeps. Ecology Letters 2003, 6(2003):212-219.
13. Doyle J.J., Doyle J.L. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin 1987, 19:11-15.
14. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985, 39(4):783-791.
15. Folmer O., Black M., Hoeh W., Lutz R., Vrijenhoek R. DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Molecular Marine Biology and Biotechnology 1994, 3(5):294-299.
16. France S.C., Hoover L.L. DNA sequences of the mitochondrial COI gene have low levels of divergence among deep-sea octocorals (Cnidaria: Anthozoa). Hydrobiologia 2002, 471:149-155.
17. France S.C., Kocher T.D. Geographic and bathymetric patterns of mitochondrial 16S rRNA sequence divergence among deepsea amphipods, Eurythenes gryllus. Marine Biology 1996, 126(4):633-643.
18. Gardiner S.L., McMullin E., Fisher C.R. Seepiophila jonesi, a new genus and species of vestimentiferan tube worm (Annelida: Pogonophora) from hydrocarbon seep communities in the Gulf of Mexico. Proceedings of the Biological Society of Washington 2001, 114(3):694-707.
19. Guindon S., Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Systematic Biology 2003, 52(5):696-704.
20. Halanych K.M., Feldman R.A., Vrijenhoek R.C. Molecular evidence that Sclerolinum brattstromi is closely related to vestimentiferans, not to Frenulate pogonophorans (Siboglinidae: Annelida). Biological Bulletin 2001, 201(1):65-75.
21. Halanych K.M., Janosik A.M. A review of molecular markers used for annelid phylogenetics. Integrative and Comparative Biology 2006, 46(4):533-543.
22. Howell K.L., Rogers A.D., Tyler P.A., Billett D.S.M. Reproductive isolation among morphotypes of the Atlantic seastar species Zoroaster fulgens (Asteroidea: Echinodermata). Marine Biology 2004, 144(5):977-984.
23. Hurtado L.A., Lutz R.A., Vrijenhoek R.C. Distinct patterns of genetic differentiation among annelids of eastern Pacific hydrothermal vents. Molecular Ecology 2004, 13(9):2603-2615.
24. Joye S.B., MacDonald I.R., Montoya J.P., Peccini M. Geophysical and geochemical signatures of Gulf of Mexico seafloor brines. Biogeosciences 2005, 2:1-15.
25. Kojima S., Ohta S., Yamamoto T., Miura T., Fujiwara Y., Fujikura K., Hashimoto J. Molecular taxonomy of vestimentiferans of the western Pacific and their phylogenetic relationship to species of the eastern Pacific-II-Families Escarpiidae and Arcovestiidae. Marine Biology 2002, 141(1):57-64.
26. Kojima S., Segawa R., Hashimoto J., Ohta S. Molecular phylogeny of vestimentiferans collected around Japan, revealed by the nucleotide sequences of mitochondrial DNA. Marine Biology 1997, 127(3):507-513.
27. Kojima S., Segawa R., Kobayashi T., Hashimoto T., Fujikura K., Hashimoto J., Ohta S. Phylogenetic relationships among species of Calyptogena (bivalvia, vesicomyidae) collected around Japan revealed by nucleotide sequences of mitochondrial genes. Marine Biology 1995, 122(3):401-407.
28. MacDonald I.R., Buthman D., Sager W.W., Peccini M.B., Guinasso N.R. Pulsed oil discharge from a mud volcano. Geology 2000, 28(10):907-910.
29. Maddison D.R., Maddison W.P. MacClade 4: Analysis of Phylogeny and Character Evolution 2000, Sinauer Associates Inc., Sunderland, MA, USA.
30. Marsh A.G., Mullineaux L.S., Young C.M., Manahan D.T. Larval dispersal potential of the tubeworm Riftia pachyptila at deep-sea hydrothermal vents. Nature 2001, 411(6833):77-80.
31. McMullin E.R., Hourdez S., Schaeffer S.W., Fisher C.R. Phylogeny and biogeography of deep sea vestimentiferan tubeworms and their bacterial symbionts. Symbiosis 2003, 34(1):1-41.
32. Mironov A.N. New taxa of stalked crinoids from the suborder Bourgueticrinina (Echinodermata, Crinoidea). Zoologichesky Zhurnal 2000, 79(6):712-728.
33. Miura T., Nedachi M., Hashimoto A. Sulphur sources for chemoautotrophic nutrition of shallow water vestimentiferan tubeworms in Kagoshima Bay. Journal of the Marine Biological Association of the United Kingdom 2002, 82(4):537-540.
34. Nabholz B., Glemin S., Galtier N. Strong variations of mitochondrial mutation rate across mammals - the longevity hypothesis. Molecular Biology and Evolution 2008, 25(1):120-130.
35. Palumbi S.R., Warner R.R. Ecology. Why gobies are like Hobbits. Science 2003, 299(5603):51-52.
36. Pont-Kingdon G., Okada N.A., Macfarlane J.L., Beagley C.T., Watkins-Sims C.D., Cavalier-Smith T., Clark-Walker G.D., Wolstenholme D.R. Mitochondrial DNA of the coral Sarcophyton glaucum contains a gene for a homologue of bacterial MutS: a possible case of gene transfer from the nucleus to the mitochondrion. Journal of Molecular Evolution 1998, 46(4):419-431.
37. * to select a model of nucleotide substitution. Current Protocols for Bioinformatics, Unit 2003, 6:5. Chapter 6.
38. Posada D., Crandall K.A. MODELTEST: testing the model of DNA substitution. Bioinformatics 1998, 14(9):817-818.
39. Powers D.A., Lauerman T., Crawford D., DiMichele L. Genetic mechanisms for adapting to a changing environment. Annual Review of Genetics 1991, 25:629-659.
40. Quattro J.M., Chase M.R., Rex M.A., Greig T.W., Etter R.J. Extreme mitochondrial DNA divergence within populations of the deep-sea gastropod Frigidoalvania brychia. Marine Biology 2001, 139(6):1107-1113.
41. Rouse G. A cladistic analysis of Siboglinidae caullery, 1914 (Polychaeta, Annelida): formerly the phyla pogonophora and vestimentifera. Zoological Journal of the Linnean Society 2001, 132:55-80.
42. Saitou N., Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular and Biological Evolution 1987, 4:406-425.
43. Tamura K., Dudley J., Nei M., Kumar S. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Molecular Biology and Evolution 2007, 24(8):1596-1599.
44. Thompson, J.D., Gibson, T.J., Higgins, D.G., 2002. Multiple sequence alignment using ClustalW and ClustalX. Current Protocols in Bioinformatics, Chapter 2, Unit 23.
45. Thornhill D.J., Mahon A.R., Norenburg J.L., Halanych K.M. Open-ocean barriers to dispersal: a test case with the Antarctic Polar Front and the ribbon worm Parborlasia corrugatus (Nemertea: Lineidae). Molecular Ecology 2008, 17(23):5104-5117.
46. Tyler P.A., Young C.M. Reproduction and dispersal at vents and cold seeps. Journal of the Marine Biological Association of the United Kingdom 1999, 79:193-208.
47. van der Land, J., Narrevang, A., 1975. The systematic position of Lamellibrachia [sic] (annelida, vestimentifera). In: Norrevang, A. (Ed.), The Phylogeny and Systematic Position of Pogonophora, pp. 86-101.
48. Wilgenbusch, J.C., Swofford, D., 2003. Inferring evolutionary trees with PAUP*. Current Protocols in Bioinformatics, Chapter 6, Unit 64.
49. Won Y., Young C.R., Lutz R.A., Vrijenhoek R.C. Dispersal barriers and isolation among deep-sea mussel populations (mytilidae: Bathymodiolus) from eastern Pacific hydrothermal vents. Molecular Ecology 2003, 12(1):169-184.
50. Young C.M., Vazquez E., Metaxas A., Tyler P.A. Embryology of vestimentiferan tube worms from deep-sea methane/sulphide seeps. Nature 1996, 381(6582):514-516.
51. Zardus J.D., Etter R.J., Chase M.R., Rex M.A., Boyle E.E. Bathymetric and geographic population structure in the pan-Atlantic deep-sea bivalve Deminucula atacellana (Schenck, 1939). Molecular Ecology 2006, 15(3):639-651.
52. Zwickl, D.J., 2006. Genetic algorithm approaches for the pylogenetic analysis of large biological sequence datasets under the maximum liklihood criterion. [] Ph.D. dissertation, The University of Texas at Austin, TX, USA. http://www.bioutexas.edu/faculty/antisense/garli/Garli.html.