GEO DataSets

(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

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(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) 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) Transcriptomes of L. lactis MG1363ΔcelBΔptcCΔ0963 containing either an IS905 or a gfp integrated into llmg_1239 (pseudo_39) were compared to that of MG1363 with a Pcel (llmg_0186)up-mutation An integration of IS905 into a gene coding for a transcriptional repressor led to activation of the repressed gene cluster coding for a plant sugar utilization pathway. The strain is further characterized using DNA MicroArrays.

Organism:

Lactococcus cremoris

Type:

Expression profiling by array

Platform:

GPL23996

16 Samples

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

Organism:

Lactococcus lactis

Type:

Expression profiling by array; Genome variation profiling by array

Platform:

GPL6414

39 Samples

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(Submitter supplied) The intra sub-species diversity of six strains of Lactococcus lactis subsp. lactis was investigated at the genomic level and in terms of phenotypic and transcriptomic profiles in UF-cheese model. Six strains were isolated from various sources, but all are exhibiting a dairy phenotype. Our results showed that, the six strains exhibited small phenotypic differences since similar behaviour in terms of growth was obtained during cheese ripening while only different acidification capability was detected. more...

Organism:

Lactococcus lactis

Type:

Genome variation profiling by array

Platform:

GPL6414

21 Samples

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(Submitter supplied) The intra sub-species diversity of six strains of Lactococcus lactis subsp. lactis was investigated at the genomic level and in terms of phenotypic and transcriptomic profiles in UF-cheese model. Six strains were isolated from various sources, but all are exhibiting a dairy phenotype. Our results showed that, the six strains exhibited small phenotypic differences since similar behaviour in terms of growth was obtained during cheese ripening while only different acidification capability was detected. more...

Organism:

Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL6414

18 Samples

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(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

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(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

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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 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

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(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

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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

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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) 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) 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) 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

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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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