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Mitochondrial DNA sequence variation of four Saccharina species (Laminariales, Phaeophyceae) growing in Japan

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Abstract

The complete mitochondrial DNA (mtDNA) was sequenced for four Saccharina species including three varieties of Saccharina japonica in Hokkaido: S. japonica; S. japonica var. religiosa; S. japonica var. ochotensis; S. japonica var. diabolica; Saccharina longipedalis; Saccharina angustata; and Saccharina coriacea. Furthermore, the structure and the sequence were compared among them. The total nucleotide length was 37,500–37,657 bp. All mtDNAs were mapped and no differences in the organization of the coding region were found. From the total alignment of S. japonica including the three varieties and S. longipedalis, nucleotide substitutions were detected at 68 sites, and a nucleotide insertion/deletion was detected at one site on rps19 for the whole genome. Variable regions useful for varieties distinction of S. japonica were trnI, trnM, rps19, ORF41, and seven spacers. The pairwise distance between S. japonica, S. angustata, and S. coraiacea was 0.000–0.116. Sequencing comparisons of rps7, rps11, rpl5, and tatC were thought to be useful tools for discrimination and phylogenetic analysis of Saccharina species having similar morphologies.

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References

  • Alberts B, Bray D, Lewis J, Raff M, Roberts K, Watson JD (1994) Molecular biology of the cell. Garland, New York, pp 1–1294

    Google Scholar 

  • Byrne K, Zuccarello GC, West J, Liao ML, Kraft GT (2002) Gracilaria species (Gracilariaceae, Rhodophyta) from southeastern Australia, including a new species, Gracilaria perplexa sp. nov.: morphology, molecular relationships and agar content. Phycol Res 50:295–311

    Article  Google Scholar 

  • Chiasson WB, Machesky NJ, Vis ML (2003) Phylogeography of a freshwater red alga, Batrachospermum helminthosum, in North America. Phycologia 42:654–660

    Article  Google Scholar 

  • Druehl LD, Kaneko T (1973) On Laminaria saccharina from Hokkaido. Bot Mag Tokyo 86:323–326

    Article  Google Scholar 

  • Hebert PDN, Cywinska A, Ball S, deWaard JR (2003) Biological identifications through DNA barcodes. Proc R Soc Lond B 270:313–322

    Article  CAS  Google Scholar 

  • Kawashima S (1989) Illustration book of Japanese Laminariales. Kitanihon-kaiyo Center, Sapporo (in Japanese)

    Google Scholar 

  • Kawashima S (2004) Konbu. In: Ohno M (ed) Biology and technology of economic seaweeds. Uchida Rokakuho, Tokyo, pp 59–85 (in Japanese)

    Google Scholar 

  • Lane CE, Mayes C, Druehl LD, Saunders GW (2006) A multi-gene molecular investigation of the kelp (Laminariales, Phaeophyceae) supports substantial taxonomic re-organization. J Phycol 42:493–512

    Article  CAS  Google Scholar 

  • Lane CE, Lindstrom SC, Saunders GW (2007) A molecular assessment of northeast Pacific Alaria species (Laminariales, Phaeophyceae) with reference to the utility of DNA barcoding. Mol Phyl Evol 44:634–648

    Article  CAS  Google Scholar 

  • McDevit DC, Saunders GW (2009) On the utility of DNA barcoding for species differentiation among brown macroalgae (Phaeophyceae) including a novel extraction protocol. Phycol Res (in press)

  • Miyabe K (1902) Laminariaceae. Hokkaido Suisan Chosahokoku. Hokkaido Shokuminbu 3:1–60 (in Japanese)

    Google Scholar 

  • Nabata S (2005) 3. Konbu and Wakame. In: Mori K (ed) Suisan Zoshoku system 3. Kouseisya Kouseikaku, Tokyo, pp 35–55 (in Japanese)

    Google Scholar 

  • Nei M (1987) Molecuar evolutionary genetics. Columbia University Press, New York, pp 1–512

    Google Scholar 

  • Okamura K (1936) Nippon Kaiso Shi. Uchida Rokakuho, Tokyo, pp 1–964 (in Japanese)

    Google Scholar 

  • Oudot-Le Secq M-P, Kloareg B, Loiseaux-De Goër S (2002) The mitochondrial genome of the brown alga Laminaria digitata: a comparative analysis. Eur J Phycol 37:163–172

    Article  Google Scholar 

  • Oudot-Le Secq M-P, Loiseaux-De Goër S, Stam WT, Olsen JL (2006) Complete mitochondrial genome of the three brown algae (heterokonta: Phaeophyceae) Dictyota dichotoma, Fucus vesiculosus and Desmarestia viridis. Curr Genet 49:47–58

    Article  CAS  PubMed  Google Scholar 

  • Soltis DE, Soltis PS (1999) Choosing an approach and an appropriate gene for phylogenetic analysis. In: Soltis PS, Soltis DE, Doyle JJ (eds) Molecular systematics of plants II, DNA sequencing. Kluwer Academic, NY, pp 1–42

    Google Scholar 

  • Swofford DL (2002) PAUP*: phylogenetic analysis using parsimony (*and other methods), Version 4.0b10. Sinauer Associates, Sunderland, MA

    Google Scholar 

  • Tanaka T, Yamauchi M, Notoya M, Kimura H, Yotsukura N (2007) The morphological diversity and the genetic variation of Ecklonia cava and E. kurome (Laminariales, Phaeophyta) sporophytes collected along the coasts of Wakayama prefecture. Aquaculture Science 55:1–8 (in Japanese)

    CAS  Google Scholar 

  • Thompson JD, Higgins DJ, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Res 22:425–430

    Article  Google Scholar 

  • Uwai S, Yotsukura N, Serisawa Y, Muraoka D, Hiraoka M, Kogame K (2006a) Intraspecific genetic diversity of Undaria pinnatifida in Japan, based on the mitochondrial cox 3 gene and the ITS1 of nrDNA. Hydrobiologia 553:345–356

    Article  CAS  Google Scholar 

  • Uwai S, Nelson W, Neill K, Wang WD, Aguilar-Rosas LE, Boo SM, Kitayama T, Kawai T (2006b) Genetic diversity in Undaria pinnatifida deduced from mitochondria genes—origins and succession of introduced populations. Phycologia 45:687–695

    Article  Google Scholar 

  • Uwai S, Arai S, Morita T, Kawai H (2007) Genetic distinctness and phylogenetic relationships among Undaria species (Laminariales, Paeophyceae) based on mitochondriasl cox3 gene sequences. Phycol Res 55:263–271

    Article  CAS  Google Scholar 

  • Yoon HS, Lee JY, Boo SM, Bhattacharya D (2001) Phylogeny of Alariaceae, Laminariaceae, and Lessoniaceae (Phaeophyceae) based on plastid-encoded RuBisCo spacer and nuclear-encoded ITS sequence comparisons. Mol Phylogenet Evol 21:231–243

    Article  CAS  PubMed  Google Scholar 

  • Yoshida T (1998) Marine algae of Japan. Uchida Rokakuho, Tokyo, pp 1–1222 (in Japanese)

    Google Scholar 

  • Yoshida T, Shimada S, Yoshinaga K, Nakajima Y (2005) Checklist of marine algae of Japan (revised in 2005). Jpn J Phycol (Sôrui) 53:179–228 (in Japanese)

    Google Scholar 

  • Yotsukura N (2005) Molecular phylogeny of advanced kelps (Laminariales, Phaeophyceae) growing in Japan. Nat Hist Res Spec Issue 8:69–81

    Google Scholar 

  • Yotsukura N (2007) A review on nomenclature of laminariacean kelp growing in cold water areas of Japan. Jpn J Phycol (Sôrui) 55:167–172 (in Japanese)

    Google Scholar 

  • Yotsukura N, Denboh T, Motomura T, Horiguchi T, Coleman AW, Ichimura T (1999) Little divergence in ribosomal DNA internal transcribed spacer-1 and -2 sequences among non-digitate species of Laminaria (Phaeophyceae) from Hokkaido, Japan. Phycol Res 47:71–80

    Article  CAS  Google Scholar 

  • Yotsukura N, Kawai T, Motomura T, Ichimura T (2001) Random amplified polymorphic DNA markers for three Japanese laminarian species. Fish Sci 67:857–886

    Article  CAS  Google Scholar 

  • Yotsukura N, Kawai T, Motomura T, Ichimura T (2002) Tandem 5S ribosomal RNA genes and the spacer region sequences of three Japanese Laminaria species. J Appl Phycol 14:233–239

    Article  CAS  Google Scholar 

  • Yotsukura N, Kawai T, Kawashima S, Ebata H, Ichimura T (2006) Nucleotide sequences diversity of the 5S rDNA spacer in the simple blade genera Laminaria, Cymathaere and Kjellmaniella (Laminariales, Phaeophyceae) from northern Japan. Phycol Res 54:269–279

    Article  CAS  Google Scholar 

  • Yotsukura N, Kawashima S, Kawai T, Abe T, Druehl LD (2008) A systematic re-examination of four Laminaria species: L. japonica, L. religiosa, L. ochotensis and L. diabolica. J Jpn Bot 83:165–176

    Google Scholar 

  • Yotsukura N, Druehl LD (2009) A new name for Laminaria sachalinensis (Laminariales, Phaeophyceae). J Jpn Bot 84:113–117

    Google Scholar 

  • Zuccarello GC, West JA (2002) Phylogeography of the Bostrycha calliptera-B. pinnata complex (Rhodomelaceae, Rhodophyta) and divergence rates based on nuclear, mitochondrial and plastid DNA markers. Phycologia 41:49–60

    Google Scholar 

  • Zuccarello GC, West J, Rueness J (2002) Phylogeography of the cosmopolitan red alga Caulacanthus ustulatus (Caulacanthaceas, Gigartinales). Phycol Res 50:163–172

    Article  Google Scholar 

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Acknowledgments

The authors thank Prof. G. W. Saunders (University of New Brunswick), Dr. K. Miyajima, and Dr. Yoshioka (Hokkaido Industrial Technology Center) for their kind advice and useful comments. The authors also thank Mr. S. Hamano, Mr. H. Katsuragawa (Hokkaido University), and Dr. T. Kawai (Hokkaido Fisheries Experimental Station) for collecting materials. This research was supported partially by a research project, grant-in-aid for Scientific Research (18570077) from the Ministry of Education, Science, Sports and Culture, Japan.

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Authors and Affiliations

  1. Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido, 060-0809, Japan

    Norishige Yotsukura

  2. Research and Development Department, Hokkaido Industrial Technology Center, Hakodate, Hokkaido, 041-0801, Japan

    Takeshi Shimizu

  3. Kobe Customs Laboratory, Kobe, Hyogo, 650-0041, Japan

    Takayuki Katayama

  4. Bamfield Marine science Centre, Bamfield, BC, V0R 1B0, Canada

    Louis D. Druehl

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  1. Norishige Yotsukura
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  2. Takeshi Shimizu
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  3. Takayuki Katayama
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  4. Louis D. Druehl
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Correspondence to Norishige Yotsukura.

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Yotsukura, N., Shimizu, T., Katayama, T. et al. Mitochondrial DNA sequence variation of four Saccharina species (Laminariales, Phaeophyceae) growing in Japan. J Appl Phycol 22, 243–251 (2010). https://doi.org/10.1007/s10811-009-9452-7

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  • DOI: https://doi.org/10.1007/s10811-009-9452-7

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