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An Investigative Case-Based Approach to Phylogenetic Analysis

An Investigative Case-Based Approach to Phylogenetic Analysis. Rafael Tosado-Acevedo & Filipa Godoy-Vitorino Inter American University of Puerto Rico, Metropolitan Campus. E ducational tools to engage undergraduate students in phylogenetic analyses of microbial communities.

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An Investigative Case-Based Approach to Phylogenetic Analysis

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  1. An Investigative Case-Based Approach to Phylogenetic Analysis Rafael Tosado-Acevedo & FilipaGodoy-VitorinoInter American University of Puerto Rico, Metropolitan Campus • Educational tools to engage undergraduate students in phylogenetic analyses of microbial communities. • Use 16S rDNA sequence analysis. • A variety of case settings related to Microbial Ecology.

  2. Investigative Cases • Host-microbe relationships in the gut microbiome. • La Chenchena (Hoatzin), a ruminant bird • Commensal relationships between plants and microbes in the soil. • Rhizosphere microbes and legumes.

  3. Use of Freely Available Web-Based Tools and Databases • To obtain the necessary sequence data from soil and animal gut microbiomes, and for building and analyzing phylogenic trees. • NCBI • Greengenes • SILVA • Phylogeny.fr • QIIME

  4. Activities • Students obtain sequences from different databases, align them, perform quality control for their alignments, perform phylogenies under different models of evolution and interpret their data. • With large 16S rDNA datasets students have a first contact with high-throughput sequence analyses. • Analyses of alpha and beta diversity.

  5. www.caseitproject.org

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