GEO DataSets

(Submitter supplied) Trade-offs often occurs during experimental evolution. For example, the degeneration of growth in glucose was found in a galactose adapted yeast. Here, we isolated one Lactococcus lactis mutant using experimental on maltose. The mutant grows normally on glucose, but faster than the wild-type on maltose and galactose. DNA microarray analysis and whole genome re-sequencing were applied to disclose the crucial points that determine the phenotype.

Organism:

Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL13249

18 Samples

Download data: TXT

(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 cremoris subsp. cremoris MG1363; Lactococcus lactis

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 cremoris subsp. cremoris MG1363; Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL21561

8 Samples

Download data: TXT

(Submitter supplied) L. lactis MG1363 was evolved in 4 fermentors in glucose-containing chemically defined medium (CDMPC) for 309 generations at a dilution rate of 0.5h-1 Glycerol stocks made during the evolution experiment were revived in CDMPC and further characterized.

Organism:

Lactococcus cremoris; Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL20601

4 Samples

Download data: TXT

(Submitter supplied) Gene expression in Lactococcus lactis MG1363 was compared to that of L. lactis MG1363 ∆guaA in rich GM17 medium.

Organism:

Lactococcus lactis; Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL13944

1 Sample

Download data: TXT

(Submitter supplied) Temperature is an important factor affecting biological organisms. We characterize a Lactococcus lactis (L. lactis) ssp. cremoris MG1363 mutant (CS3527) capable of growing better at a higher temperature than its parent. The transcriptomic analysis also revealed widespread down-regulation of genes encoding membrane transport proteins in the wild-type at 38°C. A fatty acid composition analysis revealed that the mutant has substantially more straight chained saturated and less cyclopropane fatty acids at 30°C and 38°C compared with the wild-type.

Organism:

Lactococcus lactis; Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL13249

15 Samples

Download data: TXT

(Submitter supplied) This study describes a transcriptome-phenotype matching approach in which the starter L. lactis MG1363 was fermented under a variety of conditions that differed in the levels of oxygen and/or salt, as well as the fermentation pH and temperature. Samples derived from these fermentations in the exponential phase of bacterial growth were analyzed by full-genome transcriptomics and the assessment of heat and oxidative stress phenotypes. more...

Organism:

Lactococcus lactis; Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL18764

32 Samples

Download data: TXT

(Submitter supplied) we report the identification and sequences of the tRNAome of industrially relevant microorganism Lactococcus lactis

Organism:

Lactococcus cremoris subsp. cremoris MG1363

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL18339

3 Samples

Download data: TXT

(Submitter supplied) Short-term adaptation to changing environments relies on regulatory elements translating changing metabolite concentrations into a specifically optimized transcriptome. So far the focus of analyses has been divided between regulatory elements identified in vivo and kinetic studies of small molecules interacting with the regulatory elements in vitro. Here we describe how in vivo Regulatory Kinetics can describe a regulon through the effects of the metabolite controlling it, exemplified by temporal purine exhaustion in Lactococcus lactis. more...

Organism:

Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL17895

15 Samples

Download data: TXT

(Submitter supplied) To understand the system response to pH changes in the environment, the expression of genes during the pH shift was investigated. Pre-adaptation effects were examined by comparing the effects seen with cells pre-grown in pH 5.1 or pH 6.5 to those occuring after a sudden pH change (pre-grown in pH 6.5, and suspended in buffer of pH 5.1).

Organism:

Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL13759

8 Samples

Download data: TXT

(Submitter supplied) Lcn972 is a non-modified bacteriocin that targets exclusively Lactococcus sp. Addition of Lcn972 inhibits cell wall biosynthesis at the septum by binding to the cell wall precursor lipid II. Resistance to Lcn972 develops upon selection with subinhibitory concentrations. The transcriptome of the highly resistant L. lactis D1 derived from the susceptible strain L. lactis MG1614 was compared. Fourteen genes were significantly up-regulated and 29 were down-regulated (expression change > 2-fold, p<0.001). more...

Organism:

Lactococcus lactis subsp. lactis; Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL13759

4 Samples

Download data: TXT

(Submitter supplied) In the present study we examine the changes in the expression of genes of Lactococcus lactis subspecies cremoris MG1363 during growth in milk. To reveal which specific classes of genes (pathways, operons, regulons, COGs) are important, we performed a transcriptome time series experiment. Global analysis of gene expression over time showed that L. lactis adapted quickly to the environmental changes. Using upstream sequences of genes with correlated gene expression profiles, we uncovered a substantial number of putative DNA binding motifs that may be relevant for L. lactis fermentative growth in milk. All available novel and literature-derived data were integrated into network reconstruction building blocks, which were used to reconstruct and visualize the L. lactis gene regulatory network. This network enables easy mining in the chrono-transcriptomics data. A freely available website at http://milkts.molgenrug.nl gives full access to all transcriptome data, to the reconstructed network and to the individual network building blocks.

Organism:

Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL16042

25 Samples

Download data: TXT

(Submitter supplied) pBL1 is a Lactococcus lactis theta-replicating 10.9-kbp plasmid that encodes the synthetic machinery of the bacteriocin Lcn972. In this work, the transcriptomes of exponentially growing L. lactis with and without pBL1 were compared. A discrete response was observed with a total of ten genes showing significantly changed expression. Up-regulation of the lactococcal oligopeptide uptake system (opp) was observed, likely linked to a higher nitrogen demand required for Lcn972 biosynthesis. more...

Organism:

Lactococcus lactis; Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL13271

6 Samples

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(Submitter supplied) Our transcriptome data shows that the two-component system CesSR, which senses cell envelope stresses of different origins, is one of the major players when L. lactis is forced to overproduce the endogenous membrane protein BcaP, a branched-chain amino acid permease.

Organism:

Lactococcus cremoris subsp. cremoris NZ9000; Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL13944

2 Samples

Download data: TXT

(Submitter supplied) Lactococcus lactis NZ9000 and its parent MG1363 are the most commonly used lactic acid bacteria for expression and physiological studies. We noted unexpected but significant differences in the growth behaviors of both strains. We sequenced the entire genomes of the original NZ9000 and MG1363 strains using an ultradeep sequencing strategy. The analysis of the L. lactis NZ9000 genome yielded 79 differences, mostly point mutations, with the annotated genome sequence of L. more...

Organism:

Lactococcus cremoris subsp. cremoris MG1363; Lactococcus cremoris subsp. cremoris NZ9000

Type:

Expression profiling by array

Platform:

GPL5048

2 Samples

Download data: TXT

(Submitter supplied) Transcriptome profiling of a L. lactis strain lacking the MDR transporter genes lmrCD and the same strain adapted to cholate was performed. As compared to the parental strain, the cholate-adapted strain showed 124 genes that were significantly differentially expressed more than 1.8-fold . These genes could be grouped into four major functional classes: i.e., genes involved in (i) cell envelope biogenesis; (ii) stress response and molecular chaperones; (iii) general metabolism and house-keeping function; and (iv) the chromosomally embedded sex-factor. more...

Organism:

Lactococcus lactis; Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL5048

4 Samples

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(Submitter supplied) Background Array-based comparative genome hybridization (aCGH) is commonly used to determine the genomic content of bacterial strains. In aCGH data, systematic errors are comparable to those occurring in transcriptome data. However, especially for microbes, an additional source of variation exists: differences in hybridization due to gene sequence divergence between the strains hybridized. Current normalization methods do not take this source of variation into consideration. more...

Organism:

Lactococcus lactis subsp. lactis Il1403; Lactococcus cremoris subsp. cremoris MG1363

Type:

Genome variation profiling by array

Platform:

GPL2545

4 Samples

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(Submitter supplied) Comparison of L. lactis NZ9000 ΔlmrR versus L. lactis NZ9000 wild type Keywords: Transcription profiling

Organism:

Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL5048

8 Samples

Download data: TXT

(Submitter supplied) Endogenous peptidoglycan (PG) hydrolysing enzymes, the autolysins, are needed to relax the rigid PG sacculus to allow bacterial cell growth and separation. PG of pathogens and commensal bacteria may also be degraded by hydrolases of animal origin (lysozymes), which act as antimicrobials. The genetic mechanisms regulating PG resistance to hydrolytic degradation was dissected in the Gram-positive bacterium Lactococcus lactis. more...

Organism:

Lactococcus cremoris subsp. cremoris MG1363

Type:

Expression profiling by array

Platform:

GPL5048

3 Samples

Download data: DAT

(Submitter supplied) Platform includes plasmid and pseudo genes. Protocol: General Microgrid II spotting protocol on superamine slides

Organism:

Lactococcus cremoris subsp. cremoris MG1363

1 Series

4 Samples

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