Comparative genomics II /Metagenomics

14 outubro 2015, 11:00 • Nuno Gonçalo Pereira Mira

Usefulness of comparative genomics for genome annotation.

Introduction to the concept of metagenomics and to the underlying workflow.

Sequence- and activity-driven approaches for metagenomics.

CW1

9 outubro 2015, 11:00 • Nuno Gonçalo Pereira Mira

CW1: High-throughput DNA sequencing: from a DNA sequence to a genome annotation (part B)

CW1

8 outubro 2015, 09:30 • Nuno Gonçalo Pereira Mira

CW1: High-throughput DNA sequencing: from a DNA sequence to a genome annotation (part B)

Comparative genomics and gene evolution

8 outubro 2015, 08:00 • Paulo Jorge Moura Pinto da Costa Dias

(Continuation of Phylogenetic Trees section) Distance methods: least squares (LS) and clustering using Unweighted Pair Group Method with Arithmetic Mean (UPGMA) algorithm.

Concepts of homology and homoplasy of features. Parallel and convergent evolution and secondary loss of a feature. Homology among genes. Orthologs and paralogs genes. Gene trees and species trees.

The genomics revolution and comparative genomics. The phylogenetic trees of Hemiascomycetes. Radiation of the Saccharomyces sensu strictu group. Habitat, domestication and hybrids derived from Saccharomyces sensu strictu species. Yeast comparative genomics. Yeast Gene Order Browser (YGOB). Reconstruction of the evolutionary history of the S. cerevisiae genes TPO2 and TPO3. Yeast and human genomes architecture.

Prevalence of gene duplication. Molecular origins of gene duplication. Gene duplication and its importance in the evolutionary process. Concepts of neofunctionalization, subfunctionalization and dosage selection. Life stages, mechanisms of retention and fate of gene pairs.

CW1

7 outubro 2015, 12:30 • Nuno Gonçalo Pereira Mira

CW1: High-throughput DNA sequencing: from a DNA sequence to a genome annotation (part B)