Molecular Literature

Primers for Amplification and Sequencing:

    • Bayha KM, Dawson MN, Collins AG, Barbeitos MS, Haddock SHD (2010) Evolutionary relationships among scyphozoan jellyfish families based on complete taxon sampling and phylogenetic analyses of 18S and 28S ribosomal DNA. Integrative and Comparative Biology 50:436-455.,

 

    • Blanco-Bercial L, A?lvarez-Marque?s F (2007) RFLP procedure to discriminate betwee Clausocalanus Giesbrecht, 1888 (Copepoda, Calanoida) species in the Central Cantabrian Sea. Journal of Experimental Marine Biology and Ecology 344: 73-77.,

 

    • Braga E, Zardoya R, Meyer A, Yen J (1999) Mitochondrial and nuclear rRNA based copepod phylogeny with emphasis on the Euchaetidae (Calanoida). Marine Biology 133:79-90.,

 

    • Bucklin A, Caudill CC, Bentley AM (1998) Population genetics and phylogeny of marine planktonic copepods. In Cooksey KC (ed.), Molecular Approaches to the Study of the Ocean. Chapman Hall, London: 303-318.,

 

    • Bucklin A, Frost BW, Bradford-Grieve J, Allen LD, Copley NJ (2003) Molecular systematic and phylogenetic assessment of 34 calanoid copepod species of the Calanidae and Clausocalanidae. Marine Biology 142: 333-343.,

 

    • Bucklin A, Ortman BD, Jennings RM, Nigro LM, Sweetman CJ, Copley NJ, Sutton T, Wiebe PH (2010a) A Rosetta Stone for metazoan zooplankton: DNA barcode analysis of species diversity in the Sargasso Sea (Northwest Atlantic Ocean). Deep-Sea Research II 57:2234-2247.,

 

    • Bucklin A, Hopcroft RR, Kosobokova KN, Nigro LM, Ortman BD, Jennings RM, Sweetman CJ (2010b) DNA barcoding of Arctic Ocean holozooplankton for species identification and recognition. Deep Sea Research Part II 57:40-48.,

 

    • Colgan DJ, McLauchlan A, Wilson GDF, Livingston SP, Edgecombe GD, Macaranas J, Cassis G, Gray MR (1998) Histone H3 and U2 snRNA DNA sequences and arthropod molecular evolution. Australian Journal of Zoology 46: 419-437.,

 

    • Costa FO, deWaard JR, Boutillier J, Ratnasinghamn S, Dooh RT, Hajibabaei M, Hebert PDN (2007) Biological identifications through DNA barcodes: the case of the Crustacea. Canadian Journal of Fisheries and Aquatic Sciences 64:272-295.,

 

    • Cunningham CW, Buss L W (1993) Molecular evidence for multiple episodes of pedomorphosis in the family Hydractiniidae. Biochemical Systematics and Ecology 21: 57-69.,

 

    • Dawson MN (2005) Incipient speciation of Catostylus mosaicus (Scyphozoa, Rhizostomeae, Catostylidae), comparative phylogeography, and biogeography in south-eastern Australia. Journal of Biogeography 32: 515-533,

 

    • Dawson MN, Jacobs DK (2001) Molecular evidence for cryptic species of Aurelia aurita (Cnidaria, Scyphozoa). Biological Bulletin 200:92-96.,

 

    • Figueroa DF (2011) Phylogenetic Analysis of Ridgewayia (Copepoda: Calanoida) from the Galapagos and of a new species from the Florida Keys with a reevaluation of the phylogeny of Calanoida. Journal of Crustacean Biology 31: 153 - 165.,

 

    • Folmer OM, Black W, Hoen R, Lutz R, Vrijenhoek R (1994) DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Molecular Marine Biology and Biotechnology 3: 294-299.,

 

    • Geller J, Meyer C, Parker M, Hawk H (2013) Redesign of PCR primers for mitochondrial cytochrome c oxidase subunit I for marine invertebrates and application in all-taxa biotic surveys. Molecular Ecology Resources doi: 10.1111/1755-0998.12138,

 

    • Goetze E (2003) Cryptic speciation on the high seas; global phylogenetics of the copepod family Eucalanidae. Proceedings of the Royal Society of London, Series B: Biological Sciences 270:2321-2331.,

 

    • Goetze E (2011) Population Differentiation in the Open Sea: Insights from the Pelagic Copepod Pleuromamma xiphias. Integrative and Comparative Biology 51: 580 - 597.,

 

    • Goetze E, Bradford-Grieve J (2005) Genetic and morphological description of Eucalanus spinifer T. Scott, 1894 (Calanoida: Eucalanidae), a circumglobal sister pecies of the copepod E. hyalinus s.s. (Claus, 1866). Progress in Oceanography 65: 55 - 87.,

 

    • Hamby RK, Zimmer EA (1988) Ribosomal RNA sequences for inferring phylogeny within the grass family (Poaceae). Plant Systematics and Evolution 160:29-37.,

 

    • Hill RS, Allen LD, Bucklin A (2001) Multiplexed species-specific PCR protocol to discriminate four N. Atlantic Calanus species, with an mtCOI gene tree for ten Calanus species. Marine Biology 139: 279 - 287.,

 

    • Hillis DM, Dixon MT (1991) Ribosomal DNA: molecular evolution and phylogenetic inference. The Quarterly Review of Biology 66:411-453,

 

    • Laakmann S, Gerdts G, Erler R, Knebelsberger T, Martinez Arbizu P, Raupach MJ (2013) Comparison of molecular species identification for North Sea calanoid copepods (Crustacea) using proteome fingerprints and DNA sequences. Molecular Ecology Resources doi: 10.1111/1755-0998.12139,

 

    • Lee CE (2000) Global phylogeography of a cryptic copepod species complex and reproductive isolation between genetically proximate "populations". Evolution 54: 2014-2027.,

 

    • Machida RJ, Tsuda A (2010) Dissimilarity of species and forms of planktonic Neocalanus copepods using mitochondrial COI, 12S, nuclear ITS, and 28S gene sequences. PLoS ONE 5:e10278. doi:10210.11371/journal.pone.0010278,

 

    • Machida RJ, Miya MU, Nishida M, Nishida S (2002) Complete mitochondrial DNA sequence of Tigriopus japonicus (Crustacea: Copepoda). Marine Biotechnology 4: 406-417.,

 

    • Machida RJ, Miya MU, Nishida M, Nishida S (2004) Large-scale gene rearrangements in the mitochondrial genomes of two calanoid copepods Eucalanus bungii and Neocalanus cristatus (Crustacea), with notes on new versatile primers for the srRNA and COI genes. Gene 332: 71-78.,

 

    • Merrit TJS, Shi L, Chase MC, Rex MA, Etter RJ (1998) Universal cytochrome b primers facilitate intraspecific studies in molluscan taxa. Molecular Marine Biology and Biotechnology 7:7-11,

 

    • Meyer CP (2003) Molecular systematics of cowries (Gastropoda: Cypraeidae) and diversification patterns in the tropics. Biological Journal of the Linnean Society 79:401-459,

 

    • Ortman BD (2008) DNA Barcoding the Medusozoa and Ctenophora. Disseration, University of Connecticut, Storrs, CT 121pp.,

 

    • Ortman BD, Bucklin A, Pages F, Youngbluth M (2010) DNA Barcoding the Medusozoa using mtCOI. Deep Sea Research Part II 57:2148-2156.,

 

    • Palumbi SR (1996) Nucleic acids II. The polymerase chain re- action. In Hillis DM, Moritz C,. Mable BK (eds), Molecular Systematics, 2nd edn. Sinauer Assoc., Sunderland, MA: 205-247.,

 

    • Papadopoulos LN, Peijnenburg KTCA, Luttikhuizen PC (2005) Phylogeography of the calanoid copepods Calanus helgolandicus and C. euxinus suggests Pleistocene divergences between Atlantic, Mediterranean, and Black Sea populations. Marine Biology 147: 1353-1365,

 

    • Raupach MJ, Mayer C, Malyutina M, Wegele J-W (2009) Multiple origins of deep-sea Asellota (Crustacea: Isopoda) from shallow waters revealed by molecular data. Proceedings of the Royal Society of London, Series B: Biological Sciences 276:799-808.,

 

    • Schroth W, Jarms G, Streit B, Schierwater B (2002) Speciation and phylogeography in the cosmopolitan marine moon jelly, Aurelia sp. BMC Evolutionary Biology 2:1-10.,

 

    • 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 PCR primers. Annals of the Entomological Society of America 87:651-701.,

 

    • Spears T, Abele LG, Kim W (1992) The monophyly of brachyuran crabs: a phylogenetic study based on 18S rRNA. Systematic Biology 41: 446-461.,

 

    • Thum RA (2004) Using 18S rDNA to resolve diaptomid copepod (Copepoda: Calanoida: Diaptomidae) phylogeny: an example with the North American genera. Hydrobiologia 519, 135-141.,

 

    • Thum RA, Harrison RG (2009) Deep genetic divergences among morphologically similar and parapatric Skistodiaptomus (Copepoda: Calanoida: Diaptomidae) challenge the hypothesis of Pleistocene speciation. Biological Journal of the Linnean Society 96, 150-165.,

 

    • Ward RD, Zemlak TS, Innes BH, Last PR, Hebert PS (2005) DNA Barcoding of Australia's fish species. Philosophical Transactions of the Royal Society B: Biological Sciences 360:1847-1857.,

 

    • White TJ, Bruns T, Lee S, Taylor J (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis MA, Gelfand DH, Sninsky JJ (Eds), PCR Protocols. Academic Press, New York, pp 315-322.,

 

  • Zardoya R, Costas E, Lopez-Rodas V, Garrido-Pertierra A, Bautista JM (1995) Revised dinoflagellate phylogeny inferred from molecular analysis of large-subunit ribosomal RNA gene sequences. Journal of Molecular Evolution 41:637-645.,