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Discrimination of the Lactobacillus acidophilus group using sequencing, species‐specific PCR and SNaPshot mini‐sequencing technology based on the recA gene
Author(s) -
Huang ChienHsun,
Chang MuTzu,
Huang MuChiou,
Wang LiTin,
Huang Lina,
Lee FwuLing
Publication year - 2012
Publication title -
journal of the science of food and agriculture
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.782
H-Index - 142
eISSN - 1097-0010
pISSN - 0022-5142
DOI - 10.1002/jsfa.5692
Subject(s) - subspecies , biology , lactobacillus acidophilus , polymerase chain reaction , genetics , primer (cosmetics) , phylogenetic tree , gene , lactobacillus , dna sequencing , 16s ribosomal rna , genotype , bacteria , zoology , chemistry , probiotic , organic chemistry
BACKGROUND: To clearly identify specific species and subspecies of the Lactobacillus acidophilus group using phenotypic and genotypic (16S rDNA sequence analysis) techniques alone is difficult. The aim of this study was to use the recA gene for species discrimination in the L. acidophilus group, as well as to develop a species‐specific primer and single nucleotide polymorphism primer based on the recA gene sequence for species and subspecies identification. RESULTS: The average sequence similarity for the recA gene among type strains was 80.0%, and most members of the L. acidophilus group could be clearly distinguished. The species‐specific primer was designed according to the recA gene sequencing, which was employed for polymerase chain reaction with the template DNA of Lactobacillus strains. A single 231‐bp species‐specific band was found only in L. delbrueckii . A SNaPshot mini‐sequencing assay using recA as a target gene was also developed. The specificity of the mini‐sequencing assay was evaluated using 31 strains of L. delbrueckii species and was able to unambiguously discriminate strains belonging to the subspecies L. delbrueckii subsp. bulgaricus . CONCLUSION: The phylogenetic relationships of most strains in the L. acidophilus group can be resolved using recA gene sequencing, and a novel method to identify the species and subspecies of the L. delbrueckii and L. delbrueckii subsp. bulgaricus was developed by species‐specific polymerase chain reaction combined with SNaPshot mini‐sequencing. Copyright © 2012 Society of Chemical Industry