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Transcriptome analysis and related databases of Lactococcus lactis.

Antonie Van Leeuwenhoek. 2002 Aug;82(1-4):113-22.

Transcriptome analysis and related databases of Lactococcus lactis.

Kuipers OP*, de Jong A, Baerends RJ, van Hijum SA, Zomer AL, Karsens HA, den Hengst CD, Kramer NE, Buist G, Kok J.

University of Groningen, Groningen Biomolecular Sciences and Biotechnology Institute, PO Box 14, 9750 AA Haren, The Netherlands. This email address is being protected from spambots. You need JavaScript enabled to view it.

Several complete genome sequences of Lactococcus lactis and their annotations will become available in the near future, next to the already published genome sequence of L. lactis ssp. lactis IL 1403. This will allow intraspecies comparative genomics studies as well as functional genomics studies aimed at a better understanding of physiological processes and regulatory networks operating in lactococci. This paper describes the initial set-up of a DNA-microarray facility in our group, to enable transcriptome analysis of various Gram-positive bacteria, including a ssp. lactis and a ssp. cremoris strain of Lactococcus lactis. Moreover a global description will be given of the hardware and software requirements for such a set-up, highlighting the crucial integration of relevant bioinformatics tools and methods. This includes the development of MolGenIS, an information system for transcriptome data storage and retrieval, and LactococCye, a metabolic pathway/genome database of Lactococcus lactis.

Pubmed ID:12369183

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