Conservation Genetics Resources

, Volume 9, Issue 3, pp 463–466 | Cite as

The complete chloroplast genome sequence of Ulva linza

Methods and Resources Article

Abstract

Ulva linza is one of the causal species that result in the macroalgal blooms around Yellow Sea, China. The blooms have now become the world’s largest green tide, making great disaster for the ecosystem. We analyzed whole genome sequence of chloroplast for the first time (GenBank accession number KX058323). It was found that the annular-shape genome was made up of 86,726 bp, including 67 protein coding genes. We then aligned amino acids of chlorophyta species containing 44 common genes in series as phylogenetic tree, which shows Chlorophyceae and Trebouxiophyceae separately cluster except for Leptosiraterrestri. In the phylogenetic tree of amino acid alignment, Ulvophyceae, Pedinophyceae, Prasinophytes and Chlorophyta incertae sedis are independent cluster respectively, and closer to Trebouxiophyceae in the origin.

Keywords

Green tides Chloroplast genome Ulva linza 

References

  1. Cambiaire JCD, Otis C, Turmel M, Lemieux C (2007) The chloroplast genome sequence of the green alga Leptosira terrestris : multiple losses of the inverted repeat and extensive genome rearrangements within the Trebouxiophyceae. BMC Genom 8:1–13CrossRefGoogle Scholar
  2. Castresana J (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17:540–552CrossRefPubMedGoogle Scholar
  3. Fucíková K, Leliaert F, Cooper ED, Skaloud P, Clerck OD, Gurgel CF D, Lewis LA, Lewis PO, Lopezbautista JM, Delwiche CF (2014) New phylogenetic hypotheses for the core Chlorophyta based on chloroplast sequence data. Front Ecol Evol Int J org Evol 2:63Google Scholar
  4. Han W., Chen L-P, Zhang J-H, Tian X-L, Hua L, He Q, Huo Y-Z, Yu K-F, Shi D-J, Ma J-H, He P-M (2013) Seasonal variation of dominant free-floating and attached Ulva species in Rudong coastal area, China. Harmful Algae 28:46–54.Google Scholar
  5. Huo Y, Zhang J, Chen L, Hu M, Yu K, Chen Q, He Q, He P (2013) Green algae blooms caused by Ulva prolifera in the southern Yellow Sea: identification of the original bloom location and evaluation of biological processes occurring during the early northward floating period. Limnol Oceanogr 58:2206–2218CrossRefGoogle Scholar
  6. Jones DT, Taylor WR, Thornton JM (1992) The rapid generation of mutation data matrices from protein sequences. Comput appl biosci CABIOS 8:275–282PubMedGoogle Scholar
  7. Leliaert F, Smith DR, Moreau H, Herron MD, Verbruggen H, Delwiche CF, De Clerck O (2012) Phylogeny and molecular evolution of the green algae. Crit Rev Plant Sci 31:1–46CrossRefGoogle Scholar
  8. Lemieux C, Otis C, Turmel M (2014a) Chloroplast phylogenomic analysis resolves deep-level relationships within the green algal class trebouxiophyceae. BMC Evolut Biol 14:1–15Google Scholar
  9. Lemieux C, Otis C, Turmel M (2014b) Six newly sequenced chloroplast genomes from prasinophyte green algae provide insights into the relationships among prasinophyte lineages and the diversity of streamlined genome architecture in picoplanktonic species. BMC Genom 15:1–20Google Scholar
  10. Liu X, Li Y, Wang Z, Zhang Q, Cai X (2015) Cruise observation of Ulva prolifera bloom in the southern Yellow Sea, China. Estuar Coast Shelf Sci 163:17–22CrossRefGoogle Scholar
  11. Lue F, Xue W, Tian C, Wang G, Niu J, Pan G, Hu S (2011) The Bryopsis hypnoides plastid genome: multimeric forms and complete nucleotide sequence. PloS ONE 6:e14663Google Scholar
  12. Melton III JT, Leliaert F, Tronholm A., Lopez-Bautista JM (2015) The complete chloroplast and mitochondrial genomes of the green macroalga Ulva sp UNA00071828 (Ulvophyceae, Chlorophyta). PloS ONE 10:e0121020Google Scholar
  13. Pombert JF, Otis C, Lemieux C, Turmel M (2005) Chloroplast genome sequence of the green alga pseudendoclonium akinetum (ulvophyceae) reveals unusual structural features and new insights into the branching order of chlorophyte lineages. Mol Biol Evol 22:1903–1918CrossRefPubMedGoogle Scholar
  14. Pombert JF, Lemieux C, Turmel M (2006) The complete chloroplast DNA sequence of the green alga oltmannsiellopsis viridis reveals a distinctive quadripartite architecture in the chloroplast genome of early diverging ulvophytes. BMC Biol 4:1CrossRefGoogle Scholar
  15. Talavera G, Castresana J (2007) Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Syst Biol 56:564–577CrossRefPubMedGoogle Scholar
  16. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729CrossRefPubMedPubMedCentralGoogle Scholar
  17. Tan IH, Blomster J, Hansen G, Leskinen E, Maggs CA, Mann DG, Sluiman HJ, Stanhope MJ (1999) Molecular phylogenetic evidence for a reversible morphogenetic switch controlling the gross morphology of two common genera of green seaweeds, Ulva and Enteromorpha. Mol Biol Evol 16:1011–1018CrossRefPubMedGoogle Scholar
  18. Wu MQ, Guo H, Zhang AD, Xiao LX, Wang JP (2014) Research on the characteristics of Ulva prolifera in Shandong Peninsula during 2008–2012 based on MODIS Data. Spectrosc Spectr Anal 34:1312–1318Google Scholar
  19. Zuccarello GC, Verbruggen H, Leliaert F, Price N (2009) Analysis of plastid multigene dataset and the phylogenetic position of the marine macrolaga Caulerpa filiformis (Chlorophyta). J Phycol 45:1206–1212CrossRefPubMedGoogle Scholar

Copyright information

© Springer Science+Business Media Dordrecht 2017

Authors and Affiliations

  1. 1.Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of EducationShanghai Ocean UniversityShanghaiChina
  2. 2.Marine Biomedicine InstituteSecond Military Medical UniversityShanghaiChina

Personalised recommendations