Project description:RNAsequening revolutionized the bacterial gene expression analysis. The objective of this study was to identify the genes involved in metabolism of Inulin in Ligilactobacillus agilis. We have obtained a list of genes upregulated in Ligilactobacillus agilis when it is grown in 1% Inulin

2020-10-27 | GSE160177 | GEO

Ligilactobacillus animalis strain:LL1

Project description:Lactobacillus animalis LL1 genome sequencing and assembly

| PRJNA533837 | ENA

Comprehensive genomic, phenotypic and transcriptomic approaches to enhance Bifidobacterium animalis subsp. animalis growth and survival in milk

Project description:Bifidobacterium animalis subsp. animalis CNCM I-4602 was tested for its ability to grow in reconstituted skimmed milk (RSM). Strain CNCM I-4602 grows and survives poorly in reconstituted skimmed milk (RSM), although this was partially countered by the addition of certain compounds, including yeast extract, uric acid, glutathione, cysteine, ferrous sulfate and a combination of magnesium sulfate and manganese sulfate. Microarray analysis of the strain grown in RSM revealed a number of up-regulated amino acid biosynthetic pathways, as well as stress-related genes. Expression profiling by array

2021-03-03 | GSE112626 | GEO

The distinct immune-stimulatory capacities of Porphyromonas gingivalis strains 381 and 33277 are determined by the fimB allele and gingipain activity

Project description:The genomes of P. gingivalis strains 33277 and 381 are highly related phylogenetically. However, 33277 displays a reduced capacity to stimulate HEK cell TLR2-dependent signaling and THP-1 cell-dependent IL-1β production compared to 381, suggesting strain-specific differences in the expression of one or more bacterial immune-modulatory cell surface molecules. Genomic sequencing identified a single nucleotide polymorphism in the 33277 fimB allele (A>T), encoding a truncated FimB protein, relative to the 381 fimB allele. Gene exchange experiments indicated that the 33277 fimB allele contributes to the reduced immune-stimulatory capacity of this strain. Transcriptomic analyses determined that multiple genes related to carboxy-terminal domain (CTD) family proteins, including the gingipains, were upregulated in strain 33277 relative to strain 381. A gingipain substrate degradation assay confirmed that cell surface gingipain activity is higher in 33277; and an isogenic mutant strain deficient for the gingipains exhibited an increased capacity to activate TLR2 signaling and induce IL-1β production. Furthermore, 33277 and 381 isogenic mutant strains devoid of CTD cell surface proteins displayed increased immune-stimulatory capacities compared to the wild-type parental strains, confirming an immune-suppressive role for the gingipains. Collectively, our data indicate that the combination of an intact fimB allele and limited cell surface gingipain expression in strain 381 contributes to its relatively potent immune-stimulatory activity. Conversely, a defective fimB allele and high levels of cell surface gingipains reduce the capacity of strain 33277 to elicit host cell innate immune responses.

2019-09-30 | GSE128899 | GEO

Ligilactobacillus animalis KCTC 3501 = DSM 20602

Project description:Lactobacillus animalis KCTC 3501 Genome sequencing project

| PRJNA60479 | ENA