Hostname: page-component-cd9895bd7-dzt6s Total loading time: 0 Render date: 2024-12-23T19:25:24.416Z Has data issue: false hasContentIssue false
  • English
  • Français

Ribosomal internal transcribed spacer regions are not suitable for intra- or inter-specific phylogeny reconstruction in haplosclerid sponges (Porifera: Demospongiae)

Published online by Cambridge University Press:  03 June 2009

Niamh E. Redmond  and
Grace P. McCormack
Niamh E. Redmond
Affiliation:
Department of Invertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC 20013-7012, USA
Grace P. McCormack*
Affiliation:
Molecular Evolution and Systematics Laboratory, MRI, Zoology Department, National University of Ireland, Galway, Ireland
*
Correspondence should be addressed to: G. McCormack, Molecular Evolution and Systematics Laboratory, MRI, Zoology Department, National University of Ireland, Galway, Ireland email: [email protected]
Get access Rights & Permissions [Opens in a new window]

Abstract

Sequences of the ribosomal internal transcribed spacer regions 1 and 2 (ITS-1 and ITS-2) were employed to investigate relationships between putatively very closely related species of marine haplosclerids and to investigate the species status of Haliclona cinerea. Results indicate that intra-genomic and intra-specific levels of diversity are equivalent, and sequences from multiple clones from a number of individuals of a single species could not be separated on phylogenetic trees. As a result, the ITS regions are not suitable markers for population level studies in marine haplosclerids. Sequences of these regions were highly species specific, and large differences were found between species. ITS sequences from three Callyspongia and three Haliclona species could not be aligned successfully and therefore this locus could not be used to investigate relationships between these putative close relatives. However, ITS sequences retrieved from one H. cinerea were very different from sequences generated from other H. cinerea individuals indicating that this species comprises more than one taxon.

Keywords

PoriferaHaploscleridaHaliclonaCallyspongiaITS-1ITS-2
Type
Research Article
Information
Journal of the Marine Biological Association of the United Kingdom , Volume 89 , Issue 6 , September 2009 , pp. 1251 - 1256
Copyright
Copyright © Marine Biological Association of the United Kingdom 2009

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

REFERENCES

Addis, J.S. and Peterson, K.J. (2005) Phylogenetic relationships of freshwater sponges (Porifera, Spongillina) inferred from analyses of 18S rDNA, COI mtDNA, and ITS-2 rDNA sequences. Zoologica Scripta 34, 549–557.CrossRefGoogle Scholar
Altschul, S.F., Gish, W., Miller, W., Myers, E.W. and Lipman, D.J. (1990) Basic local alignment search tool. Journal of Molecular Evolution 215, 403–410.CrossRefGoogle ScholarPubMed
Alvarez, B., Krishnan, M. and Gibb, K. (2007) Analysis of intragenomic variation of the rDNA internal transcribed spacers (ITS) in Halichondrida (Porifera: Demospongiae). Journal of the Marine Biological Association of the United Kingdom 87, 1599–1605.CrossRefGoogle Scholar
Bentlage, B. and Wörheide, G. (2007) Low genetic structuring among Pericharax heteroraphis (Porifera: Calcarea) populations from the Great Barrier Reef (Australia), revealed by analysis of nrDNA and nuclear intron sequences. Coral Reefs 26, 807–816.CrossRefGoogle Scholar
de Weerdt, W.H. and Stone, S.M.K. (1989) A taxonomic review of Haliclona cinerea (Grant) and Haliclona rosea (Bowerbank) (Demospongiae, Haplosclerina). In The shallow-water Haplosclerida (Porifera, Demospongiae) of the north east Atlantic Ocean: taxonomy, phylogeny and historical biogeography. PhD thesis. Universiteit van Amsterdam, Amsterdam, Netherlands.Google Scholar
Duran, S., Giribet, G. and Turon, X. (2004) Phylogeographic history of the sponge Crambe crambe (Porifera: Poecilosclerida): range expansion and recent invasion of the Macronesian islands from Mediterranean Sea. Molecular Ecology 73, 109–122.CrossRefGoogle Scholar
Ereskovskii, A.V. (1999) Development of sponges of the Order Haplosclerida. Russian Journal of Marine Biology 25, 361–371.Google Scholar
Erpenbeck, D., McCormack, G.P., Breeuwer, J.A.J. and van Soest, R.W.M. (2004) Order level differences in the structure of partial LSU across demosponges (Porifera): new insights into an old taxon. Molecular Phylogenetics and Evolution 32, 388–395.CrossRefGoogle ScholarPubMed
Hackett, B.J., Gimnig, J., Guelbeogo, W., Costantini, C., Koekemoer, L.L., Coetzee, M., Collins, F.H. and Besansky, N.J. (2000) Ribosomal DNA internal transcribed spacer (ITS2) sequences differentiate Anopheles funestus and An. Rivulorum, and uncover a cryptic taxon. Insect Molecular Biology 9, 369–374.CrossRefGoogle Scholar
Itskovich, V.B., Belikov, S.I., Efremova, S.M., Masuda, Y., Perez, T., Alivon, E., Borchiellini, C. and Boury-Esnualt, N. (2007) Phylogenetic relationships between freshwater and marine Haplosclerida (Porifera, Demospongiae) based on full length 18S rRNA and partial COXI gene sequences. In Custódio, M.R., Lôbo-Hajdu, G., Hajdu, E. and Muricy, G. (eds) Porifera research: biodiversity, innovation and sustainability. Rio de Janeiro: Série Livros. Museu Nacional, pp. 1–9.Google Scholar
Jones, W.C. (1987) Skeletal variation in embryo-containing specimens of Haliclona rosea (Bowerbank) from Anglesey, North Wales. In Vacelet, J. and Boury-Esnault, N. (eds) Taxonomy of Porifera. Berlin and Heidelberg: Springer-Verlag, pp. 101–124.CrossRefGoogle Scholar
Leo, N.P. and Barker, S.C. (2002) Intragenomic variation in ITS2 rDNA in the louse of humans, Pediculus humanus: ITS2 is not a suitable marker for population studies in this species. Insect Molecular Biology 11, 651–657.CrossRefGoogle Scholar
Leys, S.P. and Degnan, B.M. (2002) Embryogenesis and metamorphosis in a haplosclerid demosponge: gastrulation and transdifferentiation of larval ciliated cells to choanocytes. Invertebrate Biology 12, 171–189.CrossRefGoogle Scholar
Leys, S.P. and Ereskovsky, A.V. (2006) Embryogenesis and larval differentiation in sponges. Canadian Journal of Zoology 84, 262–287.CrossRefGoogle Scholar
Lopez, J.V., Peterson, C.L., Willoughby, R., Wright, A.E., Enright, E., Zoladz, S., Reed, J.K. and Pomponi, S.A. (2002) Characterization of genetic markers for in vitro line identification of the marine sponge Axinella corrugata. Journal of Heredity 93, 27–36.CrossRefGoogle ScholarPubMed
Maddison, W.P. and Maddison, D.R. (1998) MacClade, Version 4.03. Sunderland, MA: Sinauer Associates.Google Scholar
McCormack, G.P., Erpenbeck, D. and van Soest, R.W.M. (2002) Major discrepancy between phylogenetic hypotheses based on molecular and morphological criteria within the Order Haplosclerida (Phylum Porifera: Class Demospongiae). Journal of Zoological Systematics and Evolutionary Research 40, 237–240.CrossRefGoogle Scholar
Mello, A., Ghignone, S., Vizzini, A., Sechi, C., Ruiu, P. and Bonfante, P. (2006) ITS primers for the identification of marketable boletes. Journal of Biotechnology 121, 318–329.CrossRefGoogle Scholar
Nichols, S.A. (2005) An evaluation of support for order-level monophyly and interrelationships within the class Demospongiae using partial data from the large subunit rDNA and cytochrome oxidase subunit I. Molecular Phylogenetics and Evolution 34, 81–96.CrossRefGoogle ScholarPubMed
Odorico, D.M. and Miller, D.J. (1997) Variation in the ribosomal internal transcribed spacers and 5.8S rDNA among five species of Acropora (Cnidaria: Scleractina): patterns of variation consistent with reticulate evolution. Molecular Biology and Evolution 14, 465–473.CrossRefGoogle Scholar
Raleigh, J., Redmond, N.E., Delehan, E., Torpey, S., van Soest, R.W.M., Kelly, M. and McCormack, G.P. (2007) Mitochondrial cytochrome oxidase 1 phylogeny supports alternative taxonomic scheme for marine Haplosclerida. Journal of the Marine Biological Association of the United Kingdom 87, 1577–1584.CrossRefGoogle Scholar
Redmond, N.E., van Soest, R.W.M., Kelly, M., Raleigh, J., Travers, S.A.A. and McCormack, G.P. (2007) Reassessment of the classification of the Order Haplosclerida (Class Demospongiae, Phylum Porifera) using 18S rRNA gene sequence data. Molecular Phylogenetics and Evolution 43, 344–352.CrossRefGoogle ScholarPubMed
Redmond, N.E. and McCormack, G.P. (2008) Large expansion segments in 18S rDNA support a new sponge clade (Class Demospongiae, Order Haplosclerida). Molecular Phylogenetics and Evolution 47, 1090–1099.CrossRefGoogle ScholarPubMed
Schmitt, S., Hentschel, U., Zea, S., Dandekar, T. and Wolf, M. (2005) ITS-2 and 18S gene phylogeny of Aplysiniidae (Verongida, Demospongiae). Journal of Molecular Evolution 60, 327–336.CrossRefGoogle ScholarPubMed
Swofford, D.L. (1998) PAUP*. Phylogenetic Analysis Using Parsimony (* and Other Methods). Version 4. Sunderland, MA: Sinauer Associates.Google Scholar
Wörheide, G., Hooper, J.N.A. and Degnan, M. (2002) Phylogeographic of western Pacific Leucetta ‘chagosensis’ (Porifera: Calcarea) from ribosomal DNA sequences: implications for population history and conservation of the Great Barrier Reef World Heritage Area (Australia). Molecular Ecology 11, 1753–1768.CrossRefGoogle ScholarPubMed
Wörheide, G., Nichols, S.A. and Goldberg, J. (2004) Intragenomic variation of the rDNA internal transcribed spacers in sponges (Phylum Porifera): implications for phylogenetic studies. Molecular Phylogenetics and Evolution 33, 816–830.CrossRefGoogle ScholarPubMed