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Bifidobacterium animalis subsp. lactis

ABSTRACT: Bifidobacterium animalis subsp. lactis Genome sequencing and assembly

PROVIDER: PRJNA486607 | ENA |

REPOSITORIES: ENA

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Transcriptome analysis of Bifidobacterium animalis subsp. lactis BB12 grown on xylo-oligosaccharides

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Expression data from Caco-2 cells co-cultivated with B. animalis subsp. lactis BB-12

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Transcriptional and functional analysis of Bifidobacterium animalis subsp. lactis exposure to tetracycline

Project description:Commercial probiotic bacteria must be tested for acquired antibiotic resistance elements to avoid potential transfer to pathogens. The European Food Safety Authority recommends testing resistance using microdilution culture techniques previously used to establish inhibitory thresholds for the Bifidobacterium genus. Many Bifidobacterium animalis subsp. lactis strains exhibit increased resistance to tetracycline, historically attributed to the ribosomal protection gene tet(W). However, some strains that harbor genetically identical tet(W) genes show various inhibition levels suggesting that other genetic elements also contribute to observed differences. Here, we adapted several molecular assays to confirm the inhibition of B. animalis subsp. lactis strains Bl-04 and HN019, and employed RNA-seq to assess the transcriptional differences related to genomic polymorphisms. We detected specific stress responses to the antibiotic by correlating ATP concentration to viable genome copies from droplet digital PCR, and found that the bacteria were still metabolically active in high drug concentrations. Transcriptional analyses revealed that several polymorphic regions, particularly a novel multi-drug efflux transporter, were differentially expressed between the strains in each experimental condition, likely having phenotypic effects. We also found that the tet(W) gene was up-regulated only during sub-inhibitory tetracycline concentrations, while two novel tetracycline resistance genes were up-regulated at high concentrations. Furthermore, many genes involved in amino acid metabolism and transporter function were up-regulated while genes for complex carbohydrate utilization, protein metabolism, and CRISPR-Cas systems were down-regulated. These results provide high-throughput means for assessing antibiotic resistance and determine the genetic network that contributes to the global tetracycline response between two highly related probiotic strains.

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Expression data from Caco-2 cells co-cultivated with B. animalis subsp. lactis BB-12

Project description:Although intestinal microbiota play a pivotal role in the development of host immune system this biological issue was not so far studied in great detail. In this study we examined immune response of Caco-2 enterocytes after incubation with common probiotic Bifidobacterium animalis subsp. lactis BB-12 for 4 hours. We used microarrays to inspect the global gene expression of Caco-2 cells upon co-culturing with B. animalis subsp. lactis BB-12 and several distinct immune-related genes up-regulated during this process. One time point (T4) and two controls (T0) were analysed. T0 represent differentiated Caco-2 cells cultivated for 3 weeks. T4 represents differentiated Caco-2 cells cultivated for 3 weeks plus consequent 4 hours of co-cultivation with B. animalis subsp. lactis BB-12. 3 technical replicates for T0-1, T0-2 or T4 were pooled to a single sample, RNA extracted and further used in gene expression experiments.

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Expression data from Caenorhabditis elegans fed with the bacterial strain Bifidobacterium animalis sbsp. lactis CECT 8145

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