GEO DataSets

(Submitter supplied) The stringent response was defined in Lactococcus lactis through transcript profiling after the addition of a chemical inductor, the norvaline. Gene expression was measured in the exponential growth phase (reference sample) and at 1.6 h after norvaline addition. Four hundred and sixty one differentially expressed genes were identified and constituted the stringent response regulon. Keywords: stress response, time course

Organism:

Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL3782

6 Samples

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(Submitter supplied) The development of transcriptomic tools has allowed exhaustive description of stress responses. These responses always superimpose a general response associated to growth rate decrease and a specific one corresponding to the stress. The exclusive growth rate response can be achieved through chemostat cultivation, enabling all parameters to remain constant except the growth rate. We analysed metabolic and transcriptomic responses of Lactococcus lactis in continuous cultures at different growth rates ranging from 0.09 to 0.47 h-1. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL6414

12 Samples

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(Submitter supplied) Adaptation of Lactococcus lactis towards progressive carbon starvation is mediated by three different types of transcriptomic responses: i) global responses, i.e. general decrease of functions linked to bacterial growth and lack of induction of the general stress response, ii) specific responses functionally related to glucose exhaustion, i.e. under expression of central metabolism genes, induction of alternative sugars transport and metabolism genes, induction of arginine deiminase pathway genes and iii) other responses never described previously during carbon starvation. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL3782

12 Samples

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(Submitter supplied) For the first time in Lactococcus lactis, amino acid starvation response was characterized. The natural imposition of isoleucine starvation, by its consumption during growth, associated to transcript profiling, allowed defining exhaustively this stress stimulon. It consisted of a general induction of nitrogen metabolism (amino acid biosynthesis and transport, proteolytic system and proteases), a strong repression of genes encoding major physiological activities (translation, transcription, carbon metabolism, purine and pyrimidine biosynthesis and fatty acid metabolism) and the induction of unexpected cross responses to acid, osmotic and oxidative stresses. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL3782

12 Samples

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(Submitter supplied) Amino acid assimilation and metabolism are crucial for bacterial growth and survival and this is particularly obvious for lactic acid bacteria (LAB) that are generally auxotroph for various amino acids. However, amino acid assimilation is poorly characterized and a complete description of the response during amino acid starvation is still lacking in LAB. In this context, the global response of the LAB model Lactococcus lactis was characterized during isoleucine starvation in batch culture. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL6414

12 Samples

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(Submitter supplied) This paper describes the molecular and physiological adaptations of Lactococcus lactis during the transition from a growing to a near-zero growth state using carbon-limited retentostat cultivation. Metabolic and transcriptomic analyses revealed that metabolic patterns shifted between homolactic and mixed-acid fermentation during the retentostat cultivation, which appeared to be controlled at the transcription level of the corresponding pyruvate-dissipation enzyme pathway encoding genes. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL17806

32 Samples

Download data: TXT

(Submitter supplied) Background Lactococcus lactis is recognised as a safe (GRAS) microorganism and has hence gained interest in numerous biotechnological approaches. As it is fastidious for several amino acids, optimization of processes which involve this organism requires a thorough understanding of its metabolic regulations during multisubstrate growth. Results Using glucose limited continuous cultivations, specific growth rate dependent metabolism of L. more...

Organism:

Lactococcus lactis subsp. lactis Il1403

Type:

Expression profiling by array

Platform:

GPL11413

7 Samples

Download data: GPR

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

Organism:

Lactococcus lactis subsp. lactis Il1403; Lactococcus lactis; Lactococcus cremoris subsp. cremoris SK11; Lactococcus lactis subsp. lactis KF147

Type:

Expression profiling by array

Platforms:

GPL20802 GPL20800 GPL20801

96 Samples

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(Submitter supplied) Recently, we demonstrated that fermentation conditions strongly impact on subsequent survival of Lactococcus lactis strain MG1363 during heat and oxidative stress, two important parameters during spray drying. Moreover, employment of a transcriptome-phenotype matching approach revealed groups of genes associated with robustness towards heat and/or oxidative stress. To investigate if other strains have similar or distinct transcriptome signatures for robustness, we applied a similar transcriptome-robustness phenotype matching approach on the L. more...

Organism:

Lactococcus lactis; Lactococcus cremoris subsp. cremoris SK11

Type:

Expression profiling by array

Platform:

GPL20802

32 Samples

Download data: TXT

(Submitter supplied) Recently, we demonstrated that fermentation conditions strongly impact on subsequent survival of Lactococcus lactis strain MG1363 during heat and oxidative stress, two important parameters during spray drying. Moreover, employment of a transcriptome-phenotype matching approach revealed groups of genes associated with robustness towards heat and/or oxidative stress. To investigate if other strains have similar or distinct transcriptome signatures for robustness, we applied a similar transcriptome-robustness phenotype matching approach on the L. more...

Organism:

Lactococcus lactis; Lactococcus lactis subsp. lactis KF147

Type:

Expression profiling by array

Platform:

GPL20801

32 Samples

Download data: TXT

(Submitter supplied) Recently, we demonstrated that fermentation conditions strongly impact on subsequent survival of Lactococcus lactis strain MG1363 during heat and oxidative stress, two important parameters during spray drying. Moreover, employment of a transcriptome-phenotype matching approach revealed groups of genes associated with robustness towards heat and/or oxidative stress. To investigate if other strains have similar or distinct transcriptome signatures for robustness, we applied a similar transcriptome-robustness phenotype matching approach on the L. more...

Organism:

Lactococcus lactis; Lactococcus lactis subsp. lactis Il1403

Type:

Expression profiling by array

Platform:

GPL20800

32 Samples

Download data: TXT

(Submitter supplied) nylon membranes positively charged 8*12 cm Protocol: Amplicons (PCR) were designed and amplified by Eurogentec. A mean length of 535 bp and final concentrations between 40 and 380 µg/l were obtained. PCR were diluted in DMSO 50 % in 384 wells spot plates and spotted (4 deposits/ spot) in duplicate on positively charged nylon membranes (Roche) with a Biogrid spotter (Biorobotics) with a 4*4 pattern.

Organism:

Lactococcus lactis

3 Series

30 Samples

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(Submitter supplied) Bacterial adaptation involves extensive cellular reorganization. In particular, growth rate adjustments are associated with substantial modifications of gene expression and mRNA abundance. In this work we aimed to assess the role of mRNA degradation during such variations. A genome-wide transcriptomic-based method was used to determine mRNA half-lives. The model bacterium Lactococcus lactis was used and five growth rates were studied in continuous cultures under isoleucine-limitation and in batch cultures during the adaptation to the isoleucine starvation. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL16567

80 Samples

Download data: TXT

(Submitter supplied) LOCUS AM406671 2529478 bp DNA circular BCT 31-JAN-2007 DEFINITION Lactococcus lactis subsp. cremoris MG1363, complete genome. ACCESSION AM406671 VERSION AM406671.1 GI:124491690 KEYWORDS complete genome. SOURCE Lactococcus lactis subsp. cremoris MG1363 The complete genome sequence of the lactic acid bacterial paradigm Lactococcus lactis subsp. cremoris MG1363. more...

Organism:

Lactococcus cremoris subsp. cremoris MG1363

4 Series

17 Samples

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(Submitter supplied) Bacteria have to continuously adjust to nutrient fluctuations from favorable to less favorable conditions and carbon starvation. The glucose-acetate transition followed by carbon starvation is representative of such carbon fluctuations observed by E. coli in many environments. Regulation of gene expression through fine-tuning of mRNA pools constitutes one of the regulation levels required for such a metabolic adaptation. more...

Organism:

Escherichia coli str. K-12 substr. MG1655; Escherichia coli K-12

Type:

Expression profiling by array

Platform:

GPL25406

9 Samples

Download data: PAIR

(Submitter supplied) Bacteria have to continuously adjust to nutrient fluctuations from favorable to less favorable conditions and carbon starvation. The glucose-acetate transition followed by carbon starvation is representative of such carbon fluctuations observed by E. coli in many environments. Regulation of gene expression through fine-tuning of mRNA pools constitutes one of the regulation levels required for such a metabolic adaptation. more...

Organism:

Escherichia coli str. K-12 substr. MG1655; Escherichia coli K-12

Type:

Expression profiling by array

Platform:

GPL25406

35 Samples

Download data: PAIR

(Submitter supplied) The response of L. lactis to the presence of S. cerevisiae was analyzed during the exponential growth phase in fermentors in defined growth conditions. Although no growth kinetic difference was observed between the pure and mixed culture of L. lactis, the mRNA level of genes was significantly modified. More particularly, a strong reorientation of pyrimidine metabolism was observed when L. lactis was grown in the mixed culture. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL6052

6 Samples

Download data: TXT