Identification of the green alga, Chlorella vulgaris (SDC1) using cyanobacteria derived 16S rDNA primers: targeting the chloroplast

We have tested a set of oligonucleotide primers originally developed for the specific amplification of 16S rRNA gene segments from cyanobacteria, in order to determine their versatility as an identification tool for phototrophic eucaryotes. Using web-based bioinformatics tools we determined that the...

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Bibliographic Details
Published in:FEMS microbiology letters 2001-08, Vol.202 (2), p.195-203
Main Authors: Burja, A.M, Tamagnini, P, Bustard, M.T, Wright, P.C
Format: Article
Language:English
Subjects:
16S rRNA gene fragment sequencing
Algae
Aquatic plants
Bacteriological methods and techniques used in bacteriology
Bacteriology
Bioinformatic
Bioinformatics
Biological and medical sciences
Chlorella
Chlorella - classification
Chlorella - genetics
Chlorella vulgaris
Chloroplast
chloroplast genome
Chloroplasts
Chloroplasts - genetics
Cloning, Molecular
Computational Biology
Cyanobacteria
DNA Primers
DNA, Fungal - genetics
Environmental degradation
eukaryotic cells
Fresh Water - microbiology
freshwater
Fundamental and applied biological sciences. Psychology
genes
Genetics
Genomes
Genomic
Green alga
Internet
Microbiology
Molecular Sequence Data
Nucleotide sequence
Oligonucleotides
Primers
ribosomal DNA
ribosomal RNA
RNA, Ribosomal, 16S - genetics
rRNA 16S
Sequence Alignment
sequence analysis
Sequence Homology, Nucleic Acid
Sequences
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Description
Summary:We have tested a set of oligonucleotide primers originally developed for the specific amplification of 16S rRNA gene segments from cyanobacteria, in order to determine their versatility as an identification tool for phototrophic eucaryotes. Using web-based bioinformatics tools we determined that these primers not only targeted cyanobacterium sequences as previously described, but also 87% of sequences derived from phototrophic eucaryotes. In order to qualify our finding, a type culture and environmental strain from the freshwater unicellular, green algae genus Chlorella Beijerinck, were selected for further study. Subsequently, we sequenced a 578-bp fragment of the 16S rRNA gene, which proved to be present within the chloroplast genome, performed sequence analysis and positively identified our solvent-degrading environmental strain (SDC1) as Chlorella vulgaris.
ISSN:0378-1097
1574-6968
DOI:10.1111/j.1574-6968.2001.tb10803.x