GEO DataSets

(Submitter supplied) Lactobacillus helveticus is a rod-shaped lactic acid bacterium that is widely used in the manufacture of fermented dairy foods and for production of bioactive peptides from milk proteins. Although L. helveticus is commonly associated with milk environments, phylogenetic studies show it is closely related to an intestinal species, Lactobacillus acidophilus, which has been shown to impart probiotic health benefits to humans. more...

Organism:

Lacticaseibacillus paracasei ATCC 334; Lactobacillus helveticus

Type:

Genome variation profiling by array

Platform:

GPL9271

42 Samples

Download data: CEL

(Submitter supplied) Sourdough is a very competitive and challenging environment for microorganisms. Usually, a stable microbiota composed of lactic acid bacteria (LAB) and yeasts comes to dominate this ecosystem. Although rich in carbohydrates, thus providing an ideal environment to grow, the low pH presents a particular challenge. The nature of the adaptation to this low pH was investigated for Lactobacillus plantarum IMDO 130201, an isolate from a laboratory wheat sourdough fermentation. more...

Organism:

Oenococcus oeni; Streptococcus thermophilus; Lactobacillus acidophilus; Weissella confusa; Lentilactobacillus hilgardii; Latilactobacillus sakei; Brevibacterium linens; Companilactobacillus mindensis; Lentilactobacillus buchneri; Lactobacillus delbrueckii; Lactiplantibacillus pentosus; Lactobacillus gasseri; Limosilactobacillus reuteri; Lactobacillus amylovorus; Latilactobacillus curvatus; Lactobacillus johnsonii; Leuconostoc pseudomesenteroides; Enterococcus casseliflavus; Mammaliicoccus lentus; Limosilactobacillus panis; Companilactobacillus paralimentarius; Leuconostoc mesenteroides; Pediococcus acidilactici; Pediococcus pentosaceus; Enterococcus faecium; Levilactobacillus brevis; Lactobacillus helveticus; Lactiplantibacillus plantarum; Companilactobacillus alimentarius; Fructilactobacillus fructivorans; Leuconostoc citreum; Limosilactobacillus pontis; Lactobacillus crispatus; Lactiplantibacillus paraplantarum; Limosilactobacillus frumenti; Furfurilactobacillus rossiae; Staphylococcus aureus; Enterococcus faecalis; Enterococcus hirae; Lactococcus lactis; Lacticaseibacillus casei; Lacticaseibacillus paracasei; Companilactobacillus farciminis; Limosilactobacillus fermentum; Fructilactobacillus sanfranciscensis; Bifidobacterium; Lacticaseibacillus rhamnosus; Enterococcus mundtii; Lentilactobacillus parabuchneri

Type:

Expression profiling by array

Platform:

GPL10874

10 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Pediococcus pentosaceus; Enterococcus faecium; Companilactobacillus alimentarius; Lactobacillus amylovorus; Fructilactobacillus fructivorans; Brevibacterium linens; Limosilactobacillus pontis; Enterococcus casseliflavus; Limosilactobacillus panis; Streptococcus thermophilus; Lactobacillus acidophilus; Lentilactobacillus buchneri; Weissella confusa; Lactobacillus delbrueckii; Lentilactobacillus hilgardii; Lactobacillus gasseri; Companilactobacillus farciminis; Fructilactobacillus sanfranciscensis; Bifidobacterium; Leuconostoc pseudomesenteroides; Companilactobacillus mindensis; Leuconostoc mesenteroides; Oenococcus oeni; Staphylococcus aureus; Lactococcus lactis; Levilactobacillus brevis; Lactiplantibacillus plantarum; Lacticaseibacillus paracasei; Latilactobacillus sakei; Lacticaseibacillus rhamnosus; Enterococcus mundtii; Lentilactobacillus parabuchneri; Furfurilactobacillus rossiae; Pediococcus acidilactici; Enterococcus faecalis; Enterococcus hirae; Lacticaseibacillus casei; Lactobacillus helveticus; Lactiplantibacillus pentosus; Limosilactobacillus reuteri; Limosilactobacillus fermentum; Latilactobacillus curvatus; Lactobacillus johnsonii; Leuconostoc citreum; Mammaliicoccus lentus; Lactobacillus crispatus; Lactiplantibacillus paraplantarum; Companilactobacillus paralimentarius; Limosilactobacillus frumenti

Type:

Expression profiling by array

Platform:

GPL5459

34 Samples

Download data: TXT

(Submitter supplied) Lactic acid bacteria (LAB) are of industrial importance in the production of fermented foods, among which sourdough-derived products. Despite their limited metabolic capacity LAB contribute considerably to important characteristics of fermented foods, among which extended shelf-life, microbial safety, improved texture, and enhanced organoleptic properties. Thanks to the considerable amount of LAB genomic information that became available during the last years, transcriptome, and by extension meta-transcriptome studies, are the exquisite research approaches to study whole ecosystem gene expression into more detail. more...

Organism:

Leuconostoc mesenteroides; Pediococcus acidilactici; Levilactobacillus brevis; Lentilactobacillus buchneri; Lactobacillus delbrueckii; Lactobacillus helveticus; Limosilactobacillus reuteri; Latilactobacillus curvatus; Lactobacillus johnsonii; Leuconostoc citreum; Leuconostoc pseudomesenteroides; Mammaliicoccus lentus; Lactobacillus crispatus; Lactiplantibacillus paraplantarum; Limosilactobacillus frumenti; Oenococcus oeni; Staphylococcus aureus; Enterococcus hirae; Lactococcus lactis; Lactiplantibacillus pentosus; Lacticaseibacillus paracasei; Latilactobacillus sakei; Limosilactobacillus fermentum; Lacticaseibacillus rhamnosus; Enterococcus mundtii; Companilactobacillus paralimentarius; Lentilactobacillus parabuchneri; Streptococcus thermophilus; Enterococcus faecalis; Lactobacillus acidophilus; Lacticaseibacillus casei; Weissella confusa; Lentilactobacillus hilgardii; Companilactobacillus farciminis; Fructilactobacillus sanfranciscensis; Bifidobacterium; Brevibacterium linens; Limosilactobacillus pontis; Companilactobacillus mindensis; Pediococcus pentosaceus; Enterococcus faecium; Lactiplantibacillus plantarum; Lactobacillus gasseri; Companilactobacillus alimentarius; Lactobacillus amylovorus; Fructilactobacillus fructivorans; Enterococcus casseliflavus; Limosilactobacillus panis; Furfurilactobacillus rossiae

Type:

Expression profiling by array

Platform:

GPL5459

9 Samples

Download data: TXT

(Submitter supplied) Lactic acid bacteria (LAB) are of industrial importance in the production of fermented foods, among which sourdough-derived products. Despite their limited metabolic capacity LAB contribute considerably to important characteristics of fermented foods, among which extended shelf-life, microbial safety, improved texture, and enhanced organoleptic properties. Thanks to the considerable amount of LAB genomic information that became available during the last years, transcriptome, and by extension meta-transcriptome studies, are the exquisite research approaches to study whole ecosystem gene expression into more detail. more...

Organism:

Pediococcus pentosaceus; Staphylococcus aureus; Enterococcus faecium; Lactiplantibacillus plantarum; Lactobacillus gasseri; Companilactobacillus alimentarius; Fructilactobacillus fructivorans; Enterococcus casseliflavus; Furfurilactobacillus rossiae; Enterococcus hirae; Lactococcus lactis; Lactiplantibacillus pentosus; Lacticaseibacillus paracasei; Latilactobacillus sakei; Lactobacillus amylovorus; Limosilactobacillus fermentum; Limosilactobacillus panis; Lacticaseibacillus rhamnosus; Enterococcus mundtii; Companilactobacillus paralimentarius; Lentilactobacillus parabuchneri; Enterococcus faecalis; Lactobacillus acidophilus; Lacticaseibacillus casei; Weissella confusa; Lentilactobacillus hilgardii; Companilactobacillus farciminis; Fructilactobacillus sanfranciscensis; Bifidobacterium; Brevibacterium linens; Limosilactobacillus pontis; Limosilactobacillus frumenti; Companilactobacillus mindensis; Leuconostoc mesenteroides; Oenococcus oeni; Pediococcus acidilactici; Streptococcus thermophilus; Levilactobacillus brevis; Lentilactobacillus buchneri; Lactobacillus delbrueckii; Lactobacillus helveticus; Limosilactobacillus reuteri; Latilactobacillus curvatus; Lactobacillus johnsonii; Leuconostoc citreum; Leuconostoc pseudomesenteroides; Mammaliicoccus lentus; Lactobacillus crispatus; Lactiplantibacillus paraplantarum

Type:

Expression profiling by array

Platform:

GPL5459

9 Samples

Download data: TXT

(Submitter supplied) Lactic acid bacteria (LAB) are of industrial importance in the production of fermented foods, among which sourdough-derived products. Despite their limited metabolic capacity LAB contribute considerably to important characteristics of fermented foods, among which extended shelf-life, microbial safety, improved texture, and enhanced organoleptic properties. Thanks to the considerable amount of LAB genomic information that became available during the last years, transcriptome, and by extension meta-transcriptome studies, are the exquisite research approaches to study whole ecosystem gene expression into more detail. more...

Organism:

Leuconostoc mesenteroides; Oenococcus oeni; Streptococcus thermophilus; Lactobacillus acidophilus; Levilactobacillus brevis; Lentilactobacillus buchneri; Lactobacillus delbrueckii; Lentilactobacillus hilgardii; Limosilactobacillus reuteri; Latilactobacillus sakei; Latilactobacillus curvatus; Leuconostoc citreum; Leuconostoc pseudomesenteroides; Companilactobacillus mindensis; Enterococcus hirae; Lactiplantibacillus pentosus; Lactobacillus amylovorus; Limosilactobacillus fermentum; Lactobacillus johnsonii; Mammaliicoccus lentus; Limosilactobacillus panis; Lacticaseibacillus rhamnosus; Enterococcus mundtii; Companilactobacillus paralimentarius; Pediococcus acidilactici; Pediococcus pentosaceus; Enterococcus faecalis; Enterococcus faecium; Lacticaseibacillus casei; Weissella confusa; Lactobacillus helveticus; Companilactobacillus farciminis; Fructilactobacillus fructivorans; Fructilactobacillus sanfranciscensis; Bifidobacterium; Brevibacterium linens; Limosilactobacillus pontis; Lactobacillus crispatus; Lactiplantibacillus paraplantarum; Limosilactobacillus frumenti; Staphylococcus aureus; Lactococcus lactis; Lactiplantibacillus plantarum; Lactobacillus gasseri; Lacticaseibacillus paracasei; Companilactobacillus alimentarius; Enterococcus casseliflavus; Lentilactobacillus parabuchneri; Furfurilactobacillus rossiae

Type:

Expression profiling by array

Platform:

GPL5459

7 Samples

Download data: TXT

(Submitter supplied) Lactic acid bacteria (LAB) are of industrial importance in the production of fermented foods, among which sourdough-derived products. Despite their limited metabolic capacity LAB contribute considerably to important characteristics of fermented foods, among which extended shelf-life, microbial safety, improved texture, and enhanced organoleptic properties. Thanks to the considerable amount of LAB genomic information that became available during the last years, transcriptome, and by extension meta-transcriptome studies, are the exquisite research approaches to study whole ecosystem gene expression into more detail. more...

Organism:

Pediococcus acidilactici; Enterococcus faecalis; Enterococcus hirae; Lacticaseibacillus casei; Lactobacillus helveticus; Lactiplantibacillus pentosus; Limosilactobacillus reuteri; Limosilactobacillus fermentum; Latilactobacillus curvatus; Lactobacillus johnsonii; Leuconostoc citreum; Mammaliicoccus lentus; Lactobacillus crispatus; Lactiplantibacillus paraplantarum; Companilactobacillus paralimentarius; Limosilactobacillus frumenti; Streptococcus thermophilus; Lactobacillus acidophilus; Lentilactobacillus buchneri; Weissella confusa; Lactobacillus delbrueckii; Lentilactobacillus hilgardii; Lactobacillus gasseri; Companilactobacillus farciminis; Fructilactobacillus sanfranciscensis; Bifidobacterium; Leuconostoc pseudomesenteroides; Companilactobacillus mindensis; Leuconostoc mesenteroides; Oenococcus oeni; Staphylococcus aureus; Lactococcus lactis; Levilactobacillus brevis; Lactiplantibacillus plantarum; Lacticaseibacillus paracasei; Latilactobacillus sakei; Lacticaseibacillus rhamnosus; Enterococcus mundtii; Lentilactobacillus parabuchneri; Furfurilactobacillus rossiae; Pediococcus pentosaceus; Enterococcus faecium; Companilactobacillus alimentarius; Lactobacillus amylovorus; Fructilactobacillus fructivorans; Brevibacterium linens; Limosilactobacillus pontis; Enterococcus casseliflavus; Limosilactobacillus panis

Type:

Expression profiling by array

Platform:

GPL5459

9 Samples

Download data: TXT

(Submitter supplied) This study investigated features of the acid tolerance response (ATR) in Lactobacillus casei ATCC 334. To optimize ATR induction, cells were acid adapted for 10 or 20 min at different pH values (range, 3.0 to 5.0) and then acid challenged at pH 2.0. Adaptation over a broad range of pHs improved acid tolerance, but the highest survival was noted in cells acid adapted for 10 or 20 min at pH 4.5. Analysis of cytoplasmic membrane fatty acids (CMFAs) in acid-adapted cells showed that they had significantly (P < 0.05) higher total percentages of saturated and cyclopropane fatty acids than did control cells. more...

Organism:

Lactobacillus helveticus; Lacticaseibacillus paracasei ATCC 334

Type:

Expression profiling by array

Platform:

GPL9271

20 Samples

Download data: CEL

(Submitter supplied) To study their metabolic potential in natural ecosystems, we developed a species-independent LAB microarray, containing 2,269 30-mer oligonucleotides, and targeting 406 genes that play a key role in the production of sugar catabolites, bacteriocins, exopolysaccharides, and aromas, in probiotic and biosafety characteristics, and in stress response. Also, genes linked to negative traits such as antibiotic resistance and virulence are represented. more...

Organism:

Staphylococcus aureus; Lactococcus lactis; Lactiplantibacillus plantarum; Lactobacillus gasseri; Lacticaseibacillus paracasei; Companilactobacillus alimentarius; Enterococcus casseliflavus; Furfurilactobacillus rossiae; Enterococcus hirae; Lactiplantibacillus pentosus; Lactobacillus amylovorus; Limosilactobacillus fermentum; Mammaliicoccus lentus; Limosilactobacillus panis; Lacticaseibacillus rhamnosus; Enterococcus mundtii; Companilactobacillus paralimentarius; Lentilactobacillus parabuchneri; Pediococcus acidilactici; Pediococcus pentosaceus; Enterococcus faecalis; Enterococcus faecium; Lacticaseibacillus casei; Weissella confusa; Lactobacillus helveticus; Lentilactobacillus hilgardii; Companilactobacillus farciminis; Fructilactobacillus fructivorans; Fructilactobacillus sanfranciscensis; Bifidobacterium; Brevibacterium linens; Limosilactobacillus pontis; Lactobacillus crispatus; Lactiplantibacillus paraplantarum; Limosilactobacillus frumenti; Leuconostoc mesenteroides; Oenococcus oeni; Streptococcus thermophilus; Lactobacillus acidophilus; Levilactobacillus brevis; Lentilactobacillus buchneri; Lactobacillus delbrueckii; Limosilactobacillus reuteri; Latilactobacillus sakei; Latilactobacillus curvatus; Lactobacillus johnsonii; Leuconostoc citreum; Leuconostoc pseudomesenteroides; Companilactobacillus mindensis

Type:

Expression profiling by array

Platform:

GPL5459

20 Samples

Download data: TXT

(Submitter supplied) To study their metabolic potential in natural ecosystems, we developed a species-independent LAB microarray, containing 2,269 30-mer oligonucleotides, and targeting 406 genes that play a key role in the production of sugar catabolites, bacteriocins, exopolysaccharides, and aromas, in probiotic and biosafety characteristics, and in stress response. Also, genes linked to negative traits such as antibiotic resistance and virulence are represented. more...

Organism:

Leuconostoc mesenteroides; Oenococcus oeni; Pediococcus acidilactici; Streptococcus thermophilus; Lactobacillus acidophilus; Levilactobacillus brevis; Lentilactobacillus buchneri; Lactobacillus delbrueckii; Lactobacillus helveticus; Limosilactobacillus reuteri; Latilactobacillus curvatus; Lactobacillus johnsonii; Leuconostoc citreum; Leuconostoc pseudomesenteroides; Mammaliicoccus lentus; Lactobacillus crispatus; Lactiplantibacillus paraplantarum; Enterococcus faecalis; Enterococcus faecium; Lacticaseibacillus casei; Weissella confusa; Lentilactobacillus hilgardii; Companilactobacillus farciminis; Fructilactobacillus fructivorans; Fructilactobacillus sanfranciscensis; Bifidobacterium; Brevibacterium linens; Limosilactobacillus pontis; Limosilactobacillus frumenti; Companilactobacillus mindensis; Enterococcus hirae; Lactiplantibacillus pentosus; Lacticaseibacillus paracasei; Latilactobacillus sakei; Lactobacillus amylovorus; Limosilactobacillus fermentum; Limosilactobacillus panis; Lacticaseibacillus rhamnosus; Enterococcus mundtii; Companilactobacillus paralimentarius; Lentilactobacillus parabuchneri; Pediococcus pentosaceus; Staphylococcus aureus; Lactococcus lactis; Lactiplantibacillus plantarum; Lactobacillus gasseri; Companilactobacillus alimentarius; Enterococcus casseliflavus; Furfurilactobacillus rossiae

Type:

Genome variation profiling by array

Platform:

GPL5459

40 Samples

Download data: TXT

(Submitter supplied) Genomic rearrangement, often driven by insertion sequence (IS) elements, is one of the major processes in the evolution of prokaryotes. Sequence analysis of 16S rRNA of Lactobacillus helveticus, an organism that evolved in a dairy environment and Lactobacillus acidiophilus an organism that evolved associated with the gastrointestinal tract (GIT) demonstrated 98.4% identity suggesting that they divergently evolved from a common ancestor. more...

Organism:

Lactobacillus helveticus DPC 4571; Lactobacillus helveticus; Lactobacillus helveticus CNRZ32

Type:

Genome variation profiling by array

Platform:

GPL8703

9 Samples

Download data: TXT

(Submitter supplied) Lactobacillus casei is remarkably adaptive to diverse habitats. To understand the evolution and adaptation of Lb. casei strains isolated from different environments, the gene content of 22 Lb. casei strains isolated from various habitats (cheeses, n=8; plant materials, n=8; and human sources, n=6) were examined by comparative genome hybridization with an Lb. casei ATCC 334-based microarray.

Organism:

Lacticaseibacillus casei; Lactobacillus helveticus

Type:

Genome variation profiling by array

Platform:

GPL8309

22 Samples

Download data: CEL

(Submitter supplied) L. helveticus is used to modulate cheese flavor and as a starter organism in certain cheese varieties. Our group has compiled a draft (4x) sequence for the 2.4 Mb genome of an industrial strain L. helveticus CNRZ32. The primary aim was to investigate expression of 168 completely sequenced genes during growth in milk and MRS medium using microarrays. Oligonucleotide probes against each of the completely sequenced genes were compiled on maskless photolithography-based DNA microarrays. more...

Organism:

Lactobacillus helveticus; Lactobacillus helveticus CNRZ32

Type:

Expression profiling by array

Platform:

GPL4817

12 Samples

Download data: DATA, PAIR

(Submitter supplied) This species-independent microarray for Lactic Acid Bacteria (LAB) enables to assess the expression of genes that play a key role in the production of sugar carbolites, bacteriocins, exopolysaccharides, and aromas, in probiotic and biosafety characteristics, and in stress response. The array design contains 20,160 features (30-mer oligonucleotides) printed in a layout of 12 meta rows and 4 meta columns; consisting out of 20 rows and 21 columns per block. more...

Organism:

Leuconostoc mesenteroides; Oenococcus oeni; Pediococcus acidilactici; Pediococcus pentosaceus; Staphylococcus aureus; Streptococcus thermophilus; Enterococcus faecalis; Enterococcus faecium; Enterococcus hirae; Lactococcus lactis; Lactobacillus acidophilus; Levilactobacillus brevis; Lentilactobacillus buchneri; Lacticaseibacillus casei; Weissella confusa; Lactobacillus delbrueckii; Lactobacillus helveticus; Lentilactobacillus hilgardii; Lactiplantibacillus pentosus; Lactiplantibacillus plantarum; Lactobacillus gasseri; Lacticaseibacillus paracasei; Limosilactobacillus reuteri; Latilactobacillus sakei; Companilactobacillus alimentarius; Lactobacillus amylovorus; Companilactobacillus farciminis; Limosilactobacillus fermentum; Fructilactobacillus fructivorans; Fructilactobacillus sanfranciscensis; Bifidobacterium; Brevibacterium linens; Latilactobacillus curvatus; Lactobacillus johnsonii; Leuconostoc citreum; Leuconostoc pseudomesenteroides; Limosilactobacillus pontis; Enterococcus casseliflavus; Mammaliicoccus lentus; Limosilactobacillus panis; Lacticaseibacillus rhamnosus; Lactobacillus crispatus; Enterococcus mundtii; Lactiplantibacillus paraplantarum; Companilactobacillus paralimentarius; Limosilactobacillus frumenti; Lentilactobacillus parabuchneri; Companilactobacillus mindensis; Furfurilactobacillus rossiae

1 Series

10 Samples

Download data

(Submitter supplied) The DNA is printed, spotted, or actually synthesized directly onto the support. The whole process is based on hybridization probing, a technique that uses fluorescently labeled nucleic acid molecules as "mobile probes" to identify complementary molecules, sequences that are able to base-pair with one another.

Organism:

Lactobacillus helveticus; Lacticaseibacillus paracasei ATCC 334

2 Series

62 Samples

Download data: CDF, TXT

(Submitter supplied) This species-independent microarray for Lactic Acid Bacteria (LAB) enables to assess the expression of genes that play a key role in the production of sugar carbolites, bacteriocins, exopolysaccharides, and aromas, in probiotic and biosafety characteristics, and in stress response. The array design contains 11,520 features (30-mer oligonucleotides) printed in a layout of 12 meta rows and 4 meta columns; consisting out of 16 rows and 15 columns per block. more...

Organism:

Leuconostoc mesenteroides; Oenococcus oeni; Pediococcus acidilactici; Pediococcus pentosaceus; Staphylococcus aureus; Streptococcus thermophilus; Enterococcus faecalis; Enterococcus faecium; Enterococcus hirae; Lactococcus lactis; Lactobacillus acidophilus; Levilactobacillus brevis; Lentilactobacillus buchneri; Lacticaseibacillus casei; Weissella confusa; Lactobacillus delbrueckii; Lactobacillus helveticus; Lentilactobacillus hilgardii; Lactiplantibacillus pentosus; Lactiplantibacillus plantarum; Lactobacillus gasseri; Lacticaseibacillus paracasei; Limosilactobacillus reuteri; Latilactobacillus sakei; Companilactobacillus alimentarius; Lactobacillus amylovorus; Companilactobacillus farciminis; Limosilactobacillus fermentum; Fructilactobacillus fructivorans; Fructilactobacillus sanfranciscensis; Bifidobacterium; Brevibacterium linens; Latilactobacillus curvatus; Lactobacillus johnsonii; Leuconostoc citreum; Leuconostoc pseudomesenteroides; Limosilactobacillus pontis; Enterococcus casseliflavus; Mammaliicoccus lentus; Limosilactobacillus panis; Lacticaseibacillus rhamnosus; Lactobacillus crispatus; Enterococcus mundtii; Lactiplantibacillus paraplantarum; Companilactobacillus paralimentarius; Limosilactobacillus frumenti; Lentilactobacillus parabuchneri; Companilactobacillus mindensis; Furfurilactobacillus rossiae

7 Series

94 Samples

Download data: TXT

(Submitter supplied) Platform includes 2,661 (97%) chromosomal and 17 (85%) plasmid CDSs predicted to occur in Lb. casei ATCC 334, as well as all predicted CDSs in the draft Lb. helveticus CNRZ 32 genome. CDSs that were not included in the microarray design were all transposase-encoding genes. Protocol: E. coli Antisense Array Protocol

Organism:

Lacticaseibacillus casei; Lactobacillus helveticus

1 Series

22 Samples

Download data: CDF, TXT