The transcriptional and gene regulatory network of Lactococcus lactis MG1363 during growth in milk.
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.
Department of Molecular Genetics, University of Groningen, Groningen Biomolecular Sciences and Biotechnology Institute, Groningen, The Netherlands.
Anne
A
de Jong
Morten E
ME
Hansen
Oscar P
OP
Kuipers
Mogens
M
Kilstrup
Jan
J
Kok
D000818:Animals; D001483:Base Sequence; D046508:Culture Techniques; D005285:Fermentation / Q000235:genetics; D020869:Gene Expression Profiling; D053263:Gene Regulatory Networks; D005798:Genes, Bacterial / Q000235:genetics; D023281:Genomics; D006358:Hot Temperature; D013294:Lactococcus lactis / Q000235:genetics* / Q000254:growth & development* / Q000378:metabolism / Q000502:physiology; D008892:Milk / Q000382:microbiology*; D059372:Nucleotide Motifs / Q000235:genetics; D009711:Nucleotides / Q000378:metabolism; D020411:Oligonucleotide Array Sequence Analysis; D010754:Phosphoribosyl Pyrophosphate / Q000378:metabolism; D018085:Regulon / Q000235:genetics; D013312:Stress, Physiological / Q000235:genetics
D009711:Nucleotides; D010754:Phosphoribosyl Pyrophosphate