GEO DataSets

(Submitter supplied) Lactococcus lactis is a lactic acid bacterium of major importance for food fermentation and biotechnological applications. The ability to manipulate its genome quickly and easily through competence for DNA transformation would accelerate its general use as a platform for a variety of applications. Natural transformation in this species requires the activation of the master regulator ComX. However, the growth conditions that lead to spontaneous transformation, as well as the regulators that control ComX production, are unknown. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL34188

6 Samples

Download data: TXT, XLSX

(Submitter supplied) Time-series ribosome profiling experiment. It consists of mock and sk1 bacteriophage infected samples of Lactococcus Lactis at three different timepoints; 2,5 and 15 minutes post infection

Organism:

Lactococcus lactis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23778

16 Samples

Download data: TSV, XLS

(Submitter supplied) Plasmid-free Lactococcus lactis IL1403 is one of the best-characterized representatives of lactic acid bacteria (LAB), intensively used in broad microbiology worldwide. Its parent strain, L. lactis IL594, contains seven plasmids (pIL1-pIL7) with resolved DNA sequences and an indicated role for overall plasmid load in enhancing host adaptive potential. To determine how individual plasmids manipulate the expression of phenotypes and chromosomal genes, we conducted global comparative phenotypic analyses combined with transcriptomic studies in plasmid-free L. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL32506

16 Samples

Download data: TXT

(Submitter supplied) The L. lactis IL594 strain contains seven plasmids (pIL1 to pIL7) and is the parental strain of the plasmid-free L. lactis IL1403, one of the most studied lactic acid bacteria (LAB) strain. The genetic sequences of pIL1 to pIL7 plasmids have been recently described, however the knowledge of global changes in host phenotype and transcriptome remains poor. In presented study, global phenotypic analyses were combined with transcriptomic studies to evaluate a potential influence of plasmidic genes on overall gene expression in industrially important L. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL32506

12 Samples

Download data: TXT

(Submitter supplied) CodY is a widely conserved global regulator, regulating nitrogen metabolism, virulence, and stress response in Gram-positive bacteria. Here, we performed ChIP-seq to define the CodY regulon in L. lactis, and found that CodY served either as an activator or as a repressor of hundreds of genes. The genes involved in amino acid biosynthesis and transport, cell wall synthesis, nisin synthesis and immunity, and several transcription regulators were identified regulated by CodY for the first time. more...

Organism:

Lactococcus lactis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL27717

2 Samples

Download data: XLS

(Submitter supplied) Our transcriptome data shows that comparative transcriptomics analysis was performed on L. lactis WH101 and L. lactis NZ9000 to investigated the response mechanisms of microbial cells during acid stress. Carbohydrate metabolism and sugar transporters were strengthened to provide more energy. Amino acids metabolism and transporters were regulated to maintain intracellular pHi homeostasis and generate ATP. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23427

4 Samples

Download data: TXT

(Submitter supplied) Transcriptome analysis of Lactococcus lactis cultures comparing control non-induced and induced with acetaldehyde

Organism:

Lactococcus cremoris; Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL28321

6 Samples

Download data: GPR, XLSX

(Submitter supplied) Transcriptome analysis of Lactococcus lactis cultures comparing control non-induced and induced with diacetyl

Organism:

Lactococcus cremoris; Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL28321

6 Samples

Download data: GPR, XLSX

(Submitter supplied) In this study, we studied the fibrolytic potential of the rumen microbiota in the rumen of 6 lambs separated from their dams from 12h of age and artificially fed with milk replacer (MR) and starter feed from d8, in absence (3 lambs) or presence (3 lambs) of a combination of the live yeast Saccharomyces cerevisiae CNCM I-1077 and selected yeast metabolites. The fibrolytic potential of the rumen microbiota of the lambs at 56 days of age was analyzed with a DNA microarray (FibroChip) targeting genes coding for 8 glycoside hydrolase (GH) families.

Organism:

Bacteroides fragilis; Xylanibacter ruminicola; Ruminococcus albus; Enterococcus faecium; Clostridium acetobutylicum; Acetivibrio thermocellus; Clostridium beijerinckii; Levilactobacillus brevis; Microbiota; Bacteroides ovatus; Fibrobacter intestinalis; Bacteroides sp.; Epidinium caudatum; Polyplastron multivesiculatum; Butyrivibrio hungatei; Epidinium ecaudatum; Bacteroides xylanisolvens; Cellulosilyticum ruminicola; Ruminococcus champanellensis; Orpinomyces sp.; Selenomonas ruminantium; Lactococcus lactis; Clostridioides difficile; Ruminiclostridium cellulolyticum; Limosilactobacillus fermentum; Cellulomonas flavigena; Neocallimastix patriciarum; Bifidobacterium animalis; Agathobacter rectalis; Enterobacter sp.; Orpinomyces joyonii; Piromyces rhizinflatus; Piromyces sp. 'equi'; Pseudobutyrivibrio xylanivorans; Bifidobacterium longum; Bacteroides thetaiotaomicron; Fibrobacter succinogenes; Clostridium cellulovorans; Bifidobacterium adolescentis; Cellulomonas fimi; Neocallimastix frontalis; [Eubacterium] cellulosolvens; Lachnospira eligens; Ruminococcus sp.; Piromyces sp.; Roseburia intestinalis; Roseburia hominis; Butyrivibrio fibrisolvens; Ruminococcus flavefaciens; Piromyces communis; Pseudobacteroides cellulosolvens; Eudiplodinium maggii; Segatella bryantii; Acetivibrio clariflavus; uncultured Neocallimastigales

Type:

Genome variation profiling by array

Platform:

GPL25777

6 Samples

Download data: TXT

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

Organism:

Lactococcus lactis

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23778 GPL23427

4 Samples

Download data

(Submitter supplied) Bacteria that live in the acidic environment face number of growth-related challenges from the intracellular pH changes. In order to survive under acidic environment, Lactic acid bacteria must employ multiple genes and proteins to regulate the relative pathways.

Organism:

Lactococcus lactis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23778

2 Samples

Download data: FA, GFF, TXT, XLSX

(Submitter supplied) Bacteria that live in the acidic environment face number of growth-related challenges from the intracellular pH changes. In order to survive under acidic environment, Lactic acid bacteria must employ multiple genes and proteins to regulate the relative pathways.

Organism:

Lactococcus lactis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23427

2 Samples

Download data: FA, GFF, XLSX

(Submitter supplied) Purpose: Lactococcus lactis is the primary constituent of many industrial starter cultures used in food fermentations. However, this bacterium is exposed to several stressful conditions during the industrial process. L. lactis TOMSC161 has been shown to resist better to freeze-drying and storage when cells are harvested at the late stationary compared to the early stationary phase. Methods: In this work, the physiological changes that occur during growth (early and late stationary phases) were studied using transcriptomic, proteomic and cytometric approaches in order to elucidate the cell mechanisms involved in the stress tolerance of L. more...

Organism:

Lactococcus lactis subsp. lactis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21093

6 Samples

Download data: CSV

(Submitter supplied) The viability of starter cultures is essential for an adequate contribution to the fermentation process and end-product. Therefore, robustness during processing and storage is an important characteristic of starter culture strains. For instance, during spray drying cells are exposed to heat and oxidative stress, generally resulting in loss of viability. In this study, we exposed the industrially relevant but stress-sensitive Lactococcus lactis strain SK11 to two cycles of heat stress, with intermediate recovery and cultivation at moderate temperatures. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25547

12 Samples

Download data: TXT

(Submitter supplied) Our transcriptome data shows that ythA, which is a PspC family transcriptional regulator, obviously affects amino acid metabolism, pyrimidine biosynthesis and nisin immunity.

Organism:

Lactococcus lactis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23778

2 Samples

Download data: XLS

(Submitter supplied) Ruminants are the most efficient herbivorous animals to transform plant biomass into edible products, principally thanks to the rumen microbiota that produces a large array of enzymes responsible for the hydrolysis of plant cell wall polysaccharides. Several biotic and abiotic factors influence the efficiency of fiber degradation, which can ultimately impact the animal productivity and health. To provide more insight on mechanisms involved in the modulation of fibrolytic activity, a functional DNA microarray targeting genes coding for key enzymes involved in cellulose and hemicellulose degradation by rumen microbiota was designed. more...

Organism:

Bacteroides fragilis; Ruminococcus albus; Enterococcus faecium; Acetivibrio thermocellus; Clostridium beijerinckii; Levilactobacillus brevis; Fibrobacter intestinalis; Epidinium caudatum; Polyplastron multivesiculatum; Orpinomyces joyonii; Piromyces rhizinflatus; Piromyces sp. 'equi'; Epidinium ecaudatum; Bacteroides xylanisolvens; Cellulosilyticum ruminicola; Ruminococcus champanellensis; Butyrivibrio fibrisolvens; Selenomonas ruminantium; Lactococcus lactis; Clostridioides difficile; Ruminiclostridium cellulolyticum; Cellulomonas flavigena; Neocallimastix patriciarum; Bifidobacterium animalis; Agathobacter rectalis; Enterobacter sp.; Escherichia coli K-12; Pseudobutyrivibrio xylanivorans; Bifidobacterium longum; uncultured Neocallimastigales; Bacteroides thetaiotaomicron; Fibrobacter succinogenes; Xylanibacter ruminicola; Clostridium acetobutylicum; Clostridium cellulovorans; Bifidobacterium adolescentis; Cellulomonas fimi; Neocallimastix frontalis; Bacteroides ovatus; [Eubacterium] cellulosolvens; Bacteroides sp.; Lachnospira eligens; Ruminococcus sp.; Piromyces sp.; Roseburia intestinalis; Butyrivibrio hungatei; Roseburia hominis; bovine gut metagenome; Bacteroides xylanisolvens XB1A; Orpinomyces sp.; Ruminococcus flavefaciens; Limosilactobacillus fermentum; Piromyces communis; Pseudobacteroides cellulosolvens; Eudiplodinium maggii; Fibrobacter succinogenes subsp. succinogenes S85; Segatella bryantii; Acetivibrio clariflavus

Type:

Expression profiling by array; Other

Platform:

GPL24327

14 Samples

Download data: TXT

(Submitter supplied) In general, most stress response systems were activated after 5 min of exposure to a variety of stressors. In addition, many tRNAs and small non-coding RNAs were also differentially expressed.

Organism:

Lactococcus lactis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23427

18 Samples

Download data: FASTA, GFF, TXT

(Submitter supplied) Lactococcus lactis is the main bacterium used for food fermentation and is a candidate for probiotic development. In addition to fermentation growth, supplementation with heme in aerobic conditions activates a cytochrome oxidase, which promotes respiration metabolism. In contrast to fermentation in which cells consume energy to produce mainly lactic acid, respiration metabolism dramatically changes energy metabolism, such that massive amounts of acetic acid and acetoin are produced at the expense of lactic acid. more...

Organism:

Lactococcus lactis subsp. lactis

Type:

Expression profiling by array

Platform:

GPL5400

2 Samples

Download data: GPR, GPS, TIFF

(Submitter supplied) Reference samples: Strain MG1363 was grown balanced in SAL medium supplemented with 1% glucose. Stressed samples: Strain MG1363 was exposed to either ethanol (55 mg/ml), butanol (10 ml/mg) or hexanol (2 mg/ml) in GSAL medium after balanced growth

Organism:

Lactococcus lactis; Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL21561

18 Samples

Download data: TXT

(Submitter supplied) Stressed samples: Strain MG1363 was exposed to abrupt glucose depletion in SA medium after balanced growth. Reference sample: Strain MG1363 was grown balanced in SA medium containing 1% glucose

Organism:

Lactococcus lactis; Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL21561

8 Samples

Download data: TXT