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Chlorococcum turfosum comb. nov. (Volvocales, Chlorophyceae) and visualization of chimeric sequences
Author(s) -
Nakada Takashi,
Watanabe Shin,
Lewis Louise A.,
Tomita Masaru
Publication year - 2019
Publication title -
phycological research
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.438
H-Index - 44
eISSN - 1440-1835
pISSN - 1322-0829
DOI - 10.1111/pre.12365
Subject(s) - biology , gene , phylogenetic tree , 18s ribosomal rna , nucleic acid sequence , chlorophyceae , chlamydomonas , sequence (biology) , sequence analysis , phylogenetics , genetics , botany , algae , chlorophyta , mutant
SUMMARY Parachlorococcum turfosum was previously described based on morphological studies of a culture collection strain originally identified as ‘ Chlorococcum elkhartiense ’ and on an 18S r RNA gene phylogeny of a strain derived from the same original strain but from a different culture collection. However, a subsequently published 18S r RNA gene sequence was inconsistent with the original sequence. Therefore, a new 18S r RNA 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.