GEO DataSets

(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) 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) 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) 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) Lactococcus lactis is one of the most important lactic acid bacterium used in the dairy industry. Activation of natural DNA transformation in this species would greatly improve the selection of novel strains with desired industrial traits. Here, we investigate the activation of natural transformation in L. lactis ssp. cremoris KW2, a strain of plant origin whose genome encodes the master competence regulator ComX and the complete set of essential late gene products required for natural transformation under its potential control. more...

Organism:

Lactococcus cremoris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22400

2 Samples

Download data: XLSX

(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) 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) 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) 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) 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) Bacteriophage infection of Lactococcus lactis strains used in the manufacture of fermented milk products is a major threat for the dairy industry. A greater understanding of the global molecular response of the bacterial host following phage infection has the potential to identify new targets for the design of phage control measures for biotechnological processes. In this study, we have used whole-genome oligonucleotide microarrays to gain insights into the genomic intelligence driving the instinctive response of L. more...

Organism:

Ceduovirus c2; Lactococcus lactis subsp. lactis Il1403; Lactococcus lactis

Type:

Expression profiling by array

Platform:

GPL11277

2 Samples

Download data: TXT

(Submitter supplied) CodY of Lactococcus lactis MG1363 is a transcriptional regulator that represses the expression of several genes encoding proteins of the proteolytic system. DNA microarray analysis, comparing the expression profiles of L. lactis MG1363 and an isogenic strain in which codY was mutated, was used to determine the CodY regulon. In peptide-rich medium and exponentially growing cells, where CodY exerts strong repressing activity, the expression of over 30 genes was significantly increased upon removal of codY. more...

Organism:

Lactococcus lactis subsp. lactis Il1403

Type:

Expression profiling by array

Platform:

GPL2545

10 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) 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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