Chlorococcum turfosum comb. nov. (Volvocales, Chlorophyceae) and visualization of chimeric sequences

Takashi Nakada, Shin Watanabe, Louise A. Lewis, Masaru Tomita

Research output: Contribution to journalArticle

Abstract

Parachlorococcum turfosum was previously described based on morphological studies of a culture collection strain originally identified as ‘Chlorococcum elkhartiense’ and on an 18S rRNA gene phylogeny of a strain derived from the same original strain but from a different culture collection. However, a subsequently published 18S rRNA gene sequence was inconsistent with the original sequence. Therefore, a new 18S rRNA gene sequence was obtained from the strain from which the holotype was derived. Comparative analyses of the new sequence using the basic local alignment search tool and a newly written Perl code, ChimViewP, which visualizes nucleotide signature shifts characteristic of chimeric sequences, revealed that the sequence used in the original description was of a chimeric nature. Similar analyses also indicated that two published ‘Chlamydomonas acidophila’ sequences are chimeric. Phylogenetic analyses excluding all putative chimeras showed that P. turfosum belongs to Chlorococcum, and thus Chlorococcum turfosum comb. nov. is proposed.

Original languageEnglish
JournalPhycological Research
DOIs
Publication statusAccepted/In press - 2019 Jan 1

Fingerprint

Chlorococcum
Comb and Wattles
Chlorophyceae
rRNA Genes
visualization
gene
ribosomal RNA
Chlamydomonas
chimera
Phylogeny
nucleotide sequences
Sequence Analysis
chimerism
phylogeny
holotypes
Nucleotides
phylogenetics
nucleotides
Chlamydomonadales
genes

Keywords

  • 18S rRNA
  • artificial chimera
  • Chlamydomonas acidophila
  • Chlorococcum
  • clade Moewusinia
  • molecular phylogeny

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Physiology
  • Aquatic Science
  • Agricultural and Biological Sciences (miscellaneous)
  • Plant Science

Cite this

Chlorococcum turfosum comb. nov. (Volvocales, Chlorophyceae) and visualization of chimeric sequences. / Nakada, Takashi; Watanabe, Shin; Lewis, Louise A.; Tomita, Masaru.

In: Phycological Research, 01.01.2019.

Research output: Contribution to journalArticle

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