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Proteome-wide adaptation of Lactococcus cremoris under temperature changes or translation inhibition

ABSTRACT: Growth conditions influence growth rate and the corresponding global proteome composition. It is commonly observed that a higher ribosomal content due to growth rate optimization may impact the level of metabolic proteins. In the case of Lactococcus cremoris, acidification and flavor formation are important traits of their use in cheesemaking. This study correlates the expression level of metabolic (e.g., flavor-relevant) enzymes in relation to the level of ribosomes during growth in defined medium or milk.

INSTRUMENT(S): Q Exactive HF-X

ORGANISM(S): Lactococcus Lactis Subsp. Cremoris Mg1363

SUBMITTER: Sjef Boeren

LAB HEAD: Sjef Boeren

PROVIDER: PXD042113 | Pride | 2025-02-17

REPOSITORIES: Pride

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Dataset's files

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			Action	DRS
	BvO411_M_gal_e0_1.raw	Raw
	BvO412_M_gal_e0_2.raw	Raw
	BvO413_M_gal_e0_3.raw	Raw
	BvO414_M_gal_e0p05_1.raw	Raw
	BvO415_M_gal_e0p05_2.raw	Raw

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Publications

Carbon upshift in Lactococcus cremoris elicits immediate initiation of proteome-wide adaptation, coinciding with growth acceleration and pyruvate dissipation switching.

van Olst Berdien B Boeren Sjef S Vervoort Jacques J Kleerebezem Michiel M

mBio 20250220 3

Fitness optimization in a dynamic environment requires bacteria to adapt their proteome in a tightly regulated manner by altering protein production and/or degradation. Here, we investigate proteome adaptation in Lactococcus cremoris following a sudden nutrient upshift (e.g., nutrients that allow faster growth) and focus especially on the fate of redundant proteins after the shift. Protein turnover analysis demonstrated that L. cremoris cultures shifted from galactose to glucose, i ...[more]

PMID: 39976430

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Proteome-wide adaptation of Lactococcus cremoris after a carbon upshift

Project description:Bacteria must adapt their proteome composition to optimize their growth and fitness after an environmental shift. For the lactic acid bacterium Lactococcus cremoris, the shift from galactose to glucose as the main carbon source is associated with large growth rate and physiological changes. This study used protein turnover to investigate the strategies underlying proteome-wide adaptation after a shift from galactose to glucose as the main carbon source for two closely related Lactococcus cremoris strains.

2025-02-17 | PXD041822 | Pride

Proteome and sugar catabolization capacity of Lactococcus cremoris grown on various sugars

Project description:The lactic acid bacterium Lactococcus cremoris is suggested to repress genes involved in sugar metabolism in a hierarchical way, correlating with the growth rate. For cultures grown on glucose, lactose, galactose and maltose, we unraveled the sugar catabolizing hierarchy by combining the proteome composition and the capacity to catabolize a set of 12 sugars.

2024-01-26 | PXD037169 | Pride

Proteome-wide adaptation of Lactococcus cremoris during growth in milk and during cheese production and ripening

Project description:The enzymatic repertoire of starter cultures is important for cheese characteristics but is challenging to characterize due to the high protein and fat concentration, and the semi-solid state of the cheese matrix. This study aimed to generate a protocol to characterize the proteome of bacteria harvested from milk and cheese, to assess the proteome differences between Lactococcus cremoris grown in milk and laboratory medium, and to investigate the proteome adaptation during cheese production and ripening.

2025-03-12 | PXD046375 | Pride

Manganese availability alters the expression of its corresponding transporters and redox-dependent proteins but not superoxide dismutase in Lactococcus cremoris.

Project description:Growth of L. cremoris NCDO712 was not altered when manganese is omitted from its defined medium. This study was conducted in order to compare protein requirements of Lactococcus cremoris NCDO712 to grow in the presence or absence of manganese in defined medium (1% lactose). The majority of protein adaptation involves upregulation of Mn transporters and to a lesser extent various NADH-dependent proteins. Such adaptation is highly relevant for starter culture in dairy fermentation where manganese is limited and NADH homeostasis determines the formation of volatiles during long-term incubation e.g. cheese ripening.

2022-05-16 | PXD030123 | Pride

Iron deficiency response of Corynebacterium glutamicum

Project description:The response to iron limitation of the Gram-positive soil bacterium Corynebacterium glutamicum was analyzed with respect to proteome during growth in glucose minimal medium. C. glutamicum cells were grown at regular (36 µM) and low (1 µM) iron concentrations and harvested in the late exponential growth phase. Between 1056 and 1357 proteins were detected (1% false discovery rate, FDR) in the measurements of three biological replicates including technical replicates each for low and high iron conditions with a proteomic shotgun analysis using nanoLC-MS/MS, covering in total 1555 proteins. By SWATH-MS measurements, relative levels of 1123 proteins could be quantified. Thereof, 66 proteins exhibited at least two-fold altered ratios with a p-value ≤0.05 in iron-deprived cells compared to the cells cultivated with 36 μM iron. 38 proteins showed a ≥2-fold higher level under iron limitation, 16 of which were members of the DtxR regulon. The levels of 28 proteins were at least 2-fold lower under iron limitation, 10 of which were members of the RipA regulon.

2020-04-15 | PXD017349 | Pride

Transcription profiling of galactose-grown S. cerevisiae cells exposed to lithium chloride

Project description:Wild type strain CEN.PK113-7D was grown in an aerobic batch cultivation with a start concentration of 20 g/L galactose. During exponential growth at a biomass concentration of 3 g dry weight/L LiCl was added to a concentration of 10 mM. Just before addition of LiCl (time 0) and 20, 40, 60 and 140 minutes after addition of LiCl samples were taken for transcription analysis. Lithium inhibits phosphoglucomutase whereby both galactose uptake and growth is strongly affected.

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Investigating proteome constraints of Lactococcus lactis grown in a nutrient-rich environment

Project description:Proteomics comparison of wild type Lactococcus lactis MG1363 with a mutant strain that has a point mutation in the global carbon catabolite repression regulator (CcpA) grown under glucose-limited chemostat conditions at D = 0.5 /h.

2021-03-01 | PXD021956 | Pride

Deletion mutants mth1, std1, and mth1+std1 v. wild type yeast grown in galactose

Project description:Transcriptional profiles of S. cerevisiae strains with deletions of mth1, std1, or both were compared to that of a wild-type strain during growth on synthetic complete media with galactose as the carbon source, with the intent to understand each protein's contribution to the cells' response to glucose. Single-condition experiment, mth1 delete, std1 delete or the double mth1/std1 deletion strain vs. a wild type yeast strain. Biological replicates: 2. Rep. 1: Independently isolated RNA preps for each mutant was compared against a single WT sample. Rep. 2: A second set of mutant and WT samples was used to repeat the profiling. Two replicate spots representing each gene are present per array.

2010-05-06 | E-GEOD-17437 | biostudies-arrayexpress

Systematic Discovery of Deeply Conserved Plant Protein Complexes, Chlamydomonas reinhardtii, DSSO crosslinking

Project description:The associated files are mass spec data from size exclusion chromatography fractions that were subsequently crosslinked with DSSO and digested with one of two enzymes, Trypsin or Chymotrypsin. The starting material was a native extract prepared from Chlamydomonas reinhardtii. The mass spectrometry used a data-dependent MS2-MS3 method to identify crosslinks.

2019-10-28 | PXD013735 | Pride

Expression analysis of Saccharomyces cerevisiae INVSc1 under accumulation of the bacterial alarmone ppGpp

Project description:ppGpp accumulation caused by ectopic expression of RelA in Saccharomyces cerevisiae gave rise to marked changes in gene expression with both upregulation and downregulation, including changes in mitochondrial gene expression. The most prominent upregulation (38-fold) was detected in the function-unknown hypothetical gene YBR072C-A, followed by many other known stress-responsive genes. ppGpp acuumulation resulted in enhancement of tolerance against various stress stimuli, such as osmotic stress, ethanol, hydrogen peroxide, and high temperature. A two chip study using total RNA recoverd from the Saccharomyces cerevisiae TN2080 (accumulating ppGpp) and TN2077 (vector control) grown to mid-growth phase (8h) in SC-uracil medium. The plasmid pYC2/CT (V5-epitope tag vector) was used as a vector to express Sj-RSH.

2012-05-30 | E-GEOD-38239 | biostudies-arrayexpress