105
Views
5
CrossRef citations to date
0
Altmetric
Articles

Complete mitochondrial genome, genetic diversity and molecular phylogeny of Gracilaria salicornia (Rhodophyta: Gracilariaceae)

, , , &
Pages 371-377 | Received 29 Jun 2015, Accepted 07 Mar 2016, Published online: 21 Mar 2019

REFERENCES

  • Akaike H. 1973. Information theory and an extension of the maximum likelihood principle. In: Proceedings of the 2nd International Symposium on Information Theory (Ed. by B.N. Petrov & F. Csaki), pp. 267–281. Akademia Kiado, Budapest.
  • Alikhan N.F., Petty N.K., Ben Zakour N.L. & Beatson S.A. 2011. BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons. BMC Genomics 12: 402.
  • Altschul S.F., Gish W., Miller W., Myers E.W. & Lipman D.J. 1990. Basic local alignment search tool. Journal of Molecular Biology 215: 403–410.
  • Campbell M.A., Presting G.G., Bennett M.S. & Sherwood A.R. 2014. Highly conserved organellar genomes in the Gracilariales as inferred using new data from the Hawaiian invasive red alga Gracilaria salicornia (Rhodophyta). Phycologia 53: 109–116.
  • Dawson E.Y. 1954. Notes on tropical Pacific marine algae. Bulletin of the Southern California Academy of Sciences 53: 1–7.
  • Depriest M.S., Bhattacharya D. & López-bautista J.M. 2014. The mitochondrial genome of Grateloupia taiwanensis (Halymeniaceae, Rhodophyta) and comparative mitochondrial genomics of red algae. The Biological Bulletin 227: 191–200.
  • Fukunaga A., Peyton K.A. & Thomas F.I.M. 2014. Epifaunal community structure and ammonium uptake compared for the invasive algae, Gracilaria salicornia and Acanthophora specifera, and the native alga, Padina thivyi. Journal of Experimental Marine Biology and Ecology 456: 78–86.
  • Goff L.J. & McLaughlin I.J. 1997. The complete sequence of the mitochondrial genome of the red algal parasite Plocamiocolax pulvinata (Plocamiales) and comparison to its host, Plocamium cartilagineum, and two other Plocamium non-host species. Phycologia 36: 35.
  • Gray M.W., Lang B.F. & Burger G. 2004. Mitochondria of protists. Annual Review of Genetics 38: 477–524.
  • Guiry M.D. & Guiry G.M. 2015. AlgaeBase. World-wide electronic publication, National University of Ireland, Galway. http://www.algaebase.org; searched on 19 September 2015.
  • Gurgel C.F.D. & Fredericq S. 2004. Systematics of the Gracilariaceae (Gracilariales, Rhodophyta): a critical assessment based on rbcL sequence analysis. Journal of Phycology 40: 138–159.
  • 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.
  • Hancock L., Goff L. & Lane C. 2010. Red algae lose key mitochondrial genes in response to becoming parasitic. Genome Biology and Evolution 2: 897–910.
  • Huelsenbeck J.P. & Ronquist F. 2001. MrBayes: Bayesian Inference of phylogenetic trees. Bioinformatics 17: 754–755.
  • Huynh Q.N. & Nguyen H.D. 1998. The seaweed resources of Vietnam. In: Seaweed resources of the world (Ed. by A.T. Critchley, M. Ohno, D.B. Largo & R.D. Gillespie), pp. 62–69. Japan International Cooperation Agency, Yokosuka, Japan.
  • Jobb G., von Haeseler A. & Strimmer K. 2004. Treefinder: a powerful graphical analysis environment for molecular phylogenetics. BMC Evolutionary Biology 4: 18.
  • Katoh K. & Standley D.M. 2013. MAFFT Multiple Sequence Alignment Software Version 7: Improvements in performance and usability. Molecular Biology and Evolution 30: 772–780.
  • Lee J.M., Boo S.M., Mansilla A. & Yoon H.S. 2015. Unique repeat and plasmid sequences in the mitochondrial genome of Gracilaria chilensis (Gracilariales, Rhodophyta). Phycologia 54: 20–23.
  • Lewmanomont K. 1998. The seaweeds resources of Thailand. In: Seaweeds resources of the world (Ed. by A.T. Critchley, M. Ohno, D.B. Largo & R.D. Gillespie), pp. 70–78. Japan International Cooperation Agency, Yokosuka, Japan.
  • Lim P.E. & Phang S.M. 2004. Gracilaria species (Gracilariales, Rhodophyta) of Malaysia including two new records. Malaysian Journal of Science 23: 71–80.
  • Lim P.E., Thong K.L. & Phang S.M. 2001. Molecular differentiation of two morphological variants of Gracilaria salicornia. Journal of Applied Phycology 13: 335–342.
  • Nishimura N.J. 2000. Assessment of genetic variability in the invasive red alga Gracilaria salicornia using multi-locus DNA fingerprinting. M.S. thesis. University of Hawai‘i at Mānoa, Honolulu.
  • Ng P.K., Lim P.E. & Phang S.M. 2015 a. Small-scale genetic structure of Gracilaria salicornia and its red algal parasite, G. babae (Gracilariaceae, Rhodophyta), in Malaysia. Botanica Marina 58: 175–187.
  • Ng P.K., Lim P.E. & Phang S.M. 2015 b. The first report of the parasitic red alga Gracilaria babae (Rhodophyta: Gracilariaceae) from Singapore. Raffles Bulletin of Zoology Supplement 31: 7–15.
  • Osawa S., Jukes T.H., Watanabe K. & Muto A. 1992. Recent evidence for evolution of genetic code. Microbiology Review 56: 229–264.
  • Pareek M., Mishra A. & Jha B. 2010. Molecular phylogeny of Gracilaria species inferred from molecular markers belonging to three different genomes. Journal of Phycology 46: 1322–1328.
  • Rambaut A. 2012. FigTree, version 1.4.0. http://tree.bio.ed.ac.uk/software/figtree/.
  • Rasooli S., Sattari M., Ramezanpour Z. & Namin J.I. 2015. Antibacterial activities of bioactive compounds extracted from marine algae Gracilaria salicornia against Aeromonas hydrophila. International Journal of Aquatic Biology 3: 155–160.
  • Schattner P., Brooks A.N. & Lowe T.M. 2005. The tRNAscan-SE, snoscan and snoGPS servers for the detection of tRNAs and snoRNAs. Nucleic Acids Research 33: W686–689.
  • Schwarz G. 1978. Estimating the dimension of a model. Annals of Statistics 6: 461–464.
  • Smith J.E., Hunter C.L. & Smith C.M. 2002. Distribution and reproductive characteristics of nonindigenous and invasive marine algae in the Hawaiian Islands. Pacific Science 56: 299–315.
  • Swofford D.L. 2002. PAUP*: Phylogenetic Analysis Using Parsimony (*and other methods). Version 4. Sinauer Associates, Sunderland, MA.
  • Tabarsa M., Rezaei M., Ramezanpour Z. & Waaland J.R. 2012. Chemical compositions of the marine algae Gracilaria salicornia (Rhodophyta) and Ulva lactuca (Chlorophyta) as a potential food source. Journal of the Science of Food and Agriculture 92: 2500–2506.
  • Tablizo F.A. & Lluisma A.O. 2014. The mitochondrial genome of the red alga Kappaphycus striatus (‘Green Sacol’ variety): complete nucleotide sequence, genome structure and organization, and comparative analysis. Marine Genomics 18: 155–161.
  • Tanabe A.S. 2007. Kakusan: a computer program to automate the selection of a nucleotide substitution model and the configuration of a mixed model on multilocus data. Molecular Ecology Notes 7: 962–964.
  • Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F. & Higgins D.G. 1997. The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 24: 4876–4882.
  • Vijayavel K. & Martinez J.A. 2010. In vitro antioxidant and antimicrobial activities of two Hawaiian marine limu: Ulva fasciata (Chlorophyta) and Gracilaria salicornia (Rhodophyta). Journal of Medicinal Food 13: 1494–1499.
  • Yamamoto H. & Phang S.M. 1997. An adelphoparasitic alga growing on Gracilaria salicornia from Malaysia. In: Taxonomy of Economic Seaweeds with reference to some Pacific and Caribbean species, volume VI (Ed. by I.A. Abbott), pp. 91–96. California Sea Grant College Program, La Jolla, California.
  • Yang E.C., Kim K.M., Kim S.Y. & Yoon H.S. 2013 a. Complete mitochondrial genome of agar-producing red alga Gracilariopsis chorda (Gracilariales). Mitochondrial DNA 5: 339–341.
  • Yang M.Y., Geraldino P.J.L. & Kim M.S. 2013 b. DNA barcode assessment of Gracilaria salicornia (Gracilariaceae, Rhodophyta) from Southeast Asia. Botanical Studies 54: 27.
  • Zhang L., Wang X., Qian H., Chi S., Liu C. & Liu T. 2012. Complete sequence of the mitochondrial DNA of the wild Gracilariopsis lemaneiformis and two mutagenic cultivated breeds (Gracilariaceae, Rhodophyta). PLoS One 7: e40241.

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.