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Summer school

Project name
Bioinformatic analysis of enzymes within central carbon metabolism of cyanobacteria
Leader
MSc. Anushree Bachhar
Description of the activities of the project
  • The central carbon metabolism of cyanobacteria is made of multiple enzymes with different functions. Though they have similar functions, they may vary in substrates or in number of isoenzymes, e.g., phosphofructokinase may utilize ATP or ADP and count of its isoenzymes differs among species. Finally, enzymes vary in amino acid sequence among genus to genus as well as species to species. If we take a closer look, these variations within the enzyme have a close link to ecology, natural habitat, and growth behavior, sometimes the organisms acquire nonnative enzymes via horizontal gene transfer in order to adapt in the changing environment. For an example, fructose bis-phosphate aldolase class 1 (FDA) in Synechocystis PCC 6803 is associated with salt tolerance under salt stress conditions.
  • With the help of different bioinformatic tools, it is possible to analyze these different subtypes of enzymes while other systems biology tools can decipher their role(s). These studies are helpful not only to identify the distribution pattern of different sub types of enzymes, also for efficient design of experiments as they provide basic understanding of the enzymes their classes, coding genes
  • In this project, student will analyze several enzymes with different bioinformatic tools to quantify these differences and learn the importance of evolutionary impact behind these gene transfer and point mutations within the sequences. This methodology could be used not only with other prokaryotes but with eukaryotes as well.
    • The student will learn:
    • Datamining (literature, and data base)
    • Work with different data bases (Uniprot, NCBI, KEGG etc.)
    • Methods to analyze nucleotide and amino acid sequences
  • The project outcome will improve the understanding the basics of sequence analysis and their impact.
Students
  • Number of students - 1 - 2
  • high school students students - NO
  • university students - YES
  • Prepositions (what should the students know): basic computer skills

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Zamek 136, Nove Hrady

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