Draft Genome Sequences of Five Strains of Lactobacillus acidophilus, Strain CIP 76.13 ^T , Isolated from Humans, Strains CIRM-BIA 442 and CIRM-BIA 445, Isolated from Dairy Products, and Strains DSM 20242 and DSM 9126 of Unknown Origin

Abstract

Lactobacillus acidophilus is a natural inhabitant of mammalian gastrointestinal systems and is used in dairy and pharmaceutical products. Five draft genome sequences, covering 1,995,790 nucleotides (nt) on average, are divided into 19 to 34 scaffolds covering 1,995 to 2,053 genes. The draft genome sequences were compared to the sequence of the L. acidophilus NCFM dairy strain.

The domestication of the probiotic bacterium Lactobacillus acidophilus

“…Indeed, there was no evidence of assembling DNA beyond that homologous to the L. acidophilus NCFM reference sequence. Previously published L. acidophilus genomes 15 16 23 also reflected this lack of plasmid DNA, although a single isolate – L.acidophilus 30SC – has two reported plasmids 34 . The anomalous presence of extrachromosomal DNA in the L. acidophilus 30SC genome sequence is due to the mis-identification of this strain; phylogenetic analysis of 30SC genome clearly demonstrates that it should have been classified as Lactobacillus amylovorus 33 35 .…”

“…The same group of closely related Lactobacillus species has also been referred to as the L. acidophilus group in multiple previous studies 14 20 21 and this terminology is adopted herein. Despite the widespread use of L. acidophilus, the number of polyphasically identified isolates of this species deposited within well characterised collections of LAB was limited and previous analysis had shown very little genetic diversity within this species 9 13 14 16 ; 24 isolates and 10 L. acidophilus genomes were collected as representative of the available diversity of this species ( Table 1 ). To contextualise the genetic diversity of L. acidophilus isolates at the species level, ribosomal MLST (rMLST) 22 was used to evaluate the genomic diversity present in species representative of the L. acidophilus group.…”

“…A seven-locus Multi Locus Sequence Typing (MLST) scheme revealed that the L. acidophilus isolates examined encompassed just two MLST allelic profiles, with distinct isolates differing by a single nucleotide 14 . Recent studies independently examining the genomic sequences of three (NCFM, ATCC 4796 and La-14) 15 and five (CIP 76.13 T , CIRM-BIA 442, CIRM-BIA 445, DSM 20242 and DSM 9126) 16 L. acidophilus genomes, have also shown remarkable levels of genetic identity.…”

Complete genome sequencing and comparative genomic analysis of Lactobacillus acidophilus C5 as a potential canine probiotics

“…LA14, FSI4, ATCC53544, LA1,and DSM20079) from NCBI (Table 1) [21][22][23][24][25][26]. In this study, complete genome sequences of other strains in the NCBI database were used for comparative genome analysis of C5, which were isolated from different hosts, and none were isolated from dogs as in previous studies [27,28].…”

Complete Genome Sequence of Lactobacillus acidophilus FSI4, Isolated from Yogurt

“…L. acidophilus is one of the first colonizers of the digestive tract of newborns, and its competitive advantage over other bacteria plays an important role in the healthy development of infants ( 5 , 6 ). There are reports of multiple draft genome sequences of L. acidophilus strains ( 4 , 7 ), but only two complete genome sequences are available ( 8 , 9 ).…”