This textbook introduces to the basic concepts of bioinformatics and enhances students' skills in using software and tools relevant for investigations in microbiology. The most relevant methods to analyze data are shown and readers are introduced on how to draw valid conclusions based on the results obtained. Software and servers which are free to use on the internet are presented and more advanced stand-alone programs are suggested as a second option. Exercises and training quizzes are provided at the end of each chapter to facilitate learning.The book targets Ph. D. students and advanced undergraduates in microbiology, biotechnology, and (veterinary) medicine with little to basic knowledge in bioinformatics.

Autorentext

Dr. Henrik Christensen

Henrik Christensen (MSc, PhD, DVSc) is associate professor specialized in population genomics and bioinformatics at the Dept. of Veterinary Animal Sciences, University of Copenhagen. He investigates the transmission of opportunistic pathogens and the taxonomy of members of Pasteurellaceae. He is in charge of a PhD course and several ad hoc courses in bioinformatics with a focus on microbiology.

Inhalt

1. Introduction (what the book will teach you) 2. Basics, history 3. DNA sequence assembly and annotation 4. Databases 5. Pair-wise alignment, multiple alignment, BLAST 6. Primer design 7. Phylogeny 8. Metagenomics by 16S rRNA amplicon sequencing 9. Metagenomics by full DNA shotgun sequencing 10. Sequenced based identification and taxonomy 11. Molecular typing of prokaryotes