LEE Hyung Woo, KIM Myung Sook. Species delimitation in the green algal genus Codium (Bryopsidales) from Korea using DNA barcoding[J]. Acta Oceanologica Sinica, 2015, 34(4): 114-124. doi: 10.1007/s13131-015-0651-6
Citation: LEE Hyung Woo, KIM Myung Sook. Species delimitation in the green algal genus Codium (Bryopsidales) from Korea using DNA barcoding[J]. Acta Oceanologica Sinica, 2015, 34(4): 114-124. doi: 10.1007/s13131-015-0651-6

Species delimitation in the green algal genus Codium (Bryopsidales) from Korea using DNA barcoding

doi: 10.1007/s13131-015-0651-6
  • Received Date: 2014-10-09
  • Rev Recd Date: 2015-01-28
  • Codium, one of the largest marine green algal genera, is difficult to delimit species boundary accurately based on morphological identification only. DNA barcoding is a powerful tool for discriminating species of seaweeds. The plastid elongation factor TU (tufA) is considered as maker to perform DNA barcoding of green algal species than rbcL gene due to universality and rapid evolution rate. We conducted DNA barcoding application to Codium specimens from the Jeju Island, Korea to overcome the limit of morphological identification and to confirm the species diversity. As a result of applying tufA marker, we newly generated fifty-five tufA barcodes to resolve eight species. TufA marker exhibited 6.1%-21.8% interspecific divergences, wider than the gap of rbcL exon 1, 3.5%-11.5%. Molecular analysis of rbcL exon 1 sequences of Codium revealed eight distinct species like tufA analysis separated in five phylogenetic groups. DNA barcoding of the genus Codium using tufA marker is more helpful to overcome the limit of morphological identification, and this is more potential to reveal cryptic species and to resolve the relationships among subspecies than rbcL analysis alone. The complement of tufA barcoding and rbcL analyses including morphology for the genus Codium in the northwestern Pacific will give much more reliable achievement for discovering species diversity and resolving the phylogenetic relationships.
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  • Belton G S, Prud'homme van Reine W F, Huisman J M, et al. 2014.Resolving phenotypic plasticity and species designation in the morphologically challenging Caulerpa racemosa-peltata complex (Chlorophyta, Caulerpaceae). Journal of Phycology, 50(1): 32-54
    De Clerck O, Verbruggen H, Huisman J M, et al. 2008. Systematics and biogeography of the genus Pseudocodium (Bryopsidales, Chlorophyta), including the description of P. natalense sp. nov. from south Africa. Phycologia, 47(2): 225-235
    Dijoux L, Verbruggen H, Mattio L, et al. 2012. Diversity of Halimeda (Bryopsidales, Chlorophyta) in New Caledonia: a combined morphological and molecular study. Journal of Phycology, 48(6): 1465-1481
    Famà P, Wysor B, Kooistra W H C F, et al. 2002. Molecular phylogeny of the genus Caulerpa (Caulerpales, Chlorophyta) inferred from chloroplast tufA gene. Journal of Phycology, 38(5): 1040-1050
    González A, Santelices B. 2004. A dichotomous species of Codium (Bryopsidales, Chlorophyta) is colonizing northern Chile. Rev-ista Chilena de Historia Natural, 77: 293-304
    González A V, Chacana M E, Silva P C. 2012. Codium bernabei sp. nov. (Bryopsidales, Chlorophyta), a coalescing green seaweed from the coast of Chile. Phycologia, 51(6): 666-671
    Guiry M D, Guiry G M. 2014. AlgaeBase. World-wide electronic publication, National University of Ireland, Galway. http://www.algaebase. org [2014-2-14]
    Hall T A. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series, 41: 95-98
    Holland B R, Penny D, Hendy M D. 2003. Outgroup misplacement and phylogenetic inaccuracy under a molecular clock—A simulation study. Systematic Biology, 52(2): 229-238
    Kirkendale L, Saunders G W, Winberg P. 2013. A molecular survey of Ulva (Chlorophyta) in temperate Australia reveals enhanced levels of cosmopolitanism. Journal of Phycology, 49(1): 69-81
    Lee H W, Kim M S. 2011. Taxonomic re-examination of a carpet-like Codium (Chlorophyta) from Jeju, Korea. Algae, 26(3): 221-227
    Lee Y, Yoon S Y. 1995. Notes on marine algae from Cheju Island-I. Korean Journal of Phycology, 10: 1-13
    Maggs C A, Kelly J. 2007. Codium. In: Brodie J, Maggs C A, John D M, eds. The Green Seaweeds of Britain and Ireland. London: British Phycological Society, 189-201
    McDevit D C, Saunders G W. 2009. On the utility of DNA barcoding for species differentiation among brown macroalgae (Phaeophyceae) including a novel extraction protocol. Phycological Research, 57(2): 131-141
    Oh Y S, Lee Y P, Lee I K. 1987. A taxonomic study on the genus Codium, Chlorophyta, in Cheju Island. ALGAE, 2(1): 61-72
    Okamura K. 1902. Nippon SouriMeii [Enumeration of Japanese Algae] (in Japanese). Tokyo: Keigyosha, VII + 276
    Okamura K. 1915. Icones of Japanese algae. Vol. 3, No. 9. Tokyo, 180-182
    Oliveira-Carvalho M F, Oliveira M C, Barreto Pereira S M, et al. 2012.Phylogenetic analysis of Codium species from Brazil, with the description of the new species C. pernambucensis (Bryopsidales, Chlorophyta). European Journal of Phycology, 47(4): 355-365
    Rambaut A. 2012. Figtree v. 1.4. 0. http://tree.bio.edac.uk/software/ figtree/Ronquist F, Huelsenbeck J P. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics, 19(12): 1572-1574
    Saunders G W. 2005. Applying DNA barcoding to red macroalgae: a preliminary appraisal holds promise for future applications.
    Philosophical Transactions of the Royal Society of London B:Biological Sciences, 360: 1879-1888
    Saunders G W, Kucera H. 2010. An evaluation of rbcL, tufA, UPA, LSU and ITS as DNA barcode markers for the marine green macroalgae.Cryptogamie, Algologie, 31(4): 487-528
    Schaffner J H. 1922. The classification of plants. XII. The Ohio Journal of Science, 22(5): 129-139
    Schmidt O C. 1923. Beiträge zur kenntnis der Gattung Codium Stackh. Stuttgart; Bibliotheca Botanica, 91: 1-68
    Shimada S, Hiraoka M, Serisawa Y, et al. 2004. Phylogenetic studies in the genus Codium (Chlorophyta) from Japan. Japanese Journal of Phycology, 52: 137-141
    Shimada S, Ebata H, Horiguchi T, et al. 2007b. Molecular phylogenetic and morphological analyses of prostrate Codium (Chlorophyta) in Japan. Journal of Japanese Botany, 82(4): 190-204
    Shimada S, Tadano T, Tanaka J. 2007a. Codium tenuifolium (Codiales, Chlorophyta), a new species from Japan. Journal of Japanese Botany, 82: 117-125.
    Silva P C. 1954. The genus Codium in California, with observations on the structure of the walls of the utricles. University of California Publications in Botany, 25: 79-114
    Silva P C. 1962. Comparison of algal floristic patterns in the Pacific with those in the Atlantic and Indian Oceans, with special reference to Codium. In: The Proceedings of the 9th Pacific Science Congress, 4: 201-216
    Silva P C, Yoshida T, Shimada S. 1997. Typification of species of Codium (Bryopsidales, Chlorophyta) described by Okamura. Phycological Research, 45(1): 23-27
    Stackhouse J. 1797. Neris Britannica; sivefuci, ulvae and confervae in insulisbritanniciscrecentes: descriptis illustrate. Fascicles 1-3.Hazard, Bathoniae, Fasc, 1.pp. ix-xxiv, 31-70
    Stamatakis A. 2006. RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models.Bioinformatics, 22(21): 2688-2690
    Tamura K, Dudley J, Nei M, et al. 2007. MEGA 4: molecular evolutionary genetics analysis (MEGA) software version 4. 0. Molecular Biology and Evolution, 24(8): 1596-1599
    Verbruggen H, Leliaert F, Maggs C A, et al. 2007. Species boundaries and phylogenetic relationships within the green algal genus Codium (Bryopsidales) based on plastid DNA sequences. Molecular Phylogenetics and Evolution, 44(1): 240-254
    Verbruggen H, Pauly K, De Clerck O. 2012. The new species Codium recurvatum from Tanzania. European Journal of Phycology, 47(3): 216-222
    Yang M Y, Geraldino P J L, Kim M S. 2013. DNA barcode assessment of Gracilaria salicornia (Gracilariaceae, Rhodophyta) from Southeast Asia. Botanical Studies, 54: 27
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