GEO DataSets

(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) 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 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) 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 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) 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) 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) 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) Compare the physiological state between static, aerobic, and respiratory growth of Lactococcus lactis subsp. lactis CHCC2862 using whole genome transcriptomes. NOTE: the biological replicate array GSM243206 is dye-swapped relative to GSM202337 (unlike the two other biological replicate arrays GSM243203 and GSM24205). Keywords: Physiological response to aerobic and respiratory growth relative to static.

Organism:

Lactococcus lactis subsp. lactis

Type:

Expression profiling by array

Platform:

GPL5400

6 Samples

Download data: GPR, GPS, TIFF

(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) 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) 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) 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

Download data

(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) 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

(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