Table 2.
Pedagogical attributes (scale of biological organization, genomic level of analysis, and bioinformatic skills taught) of I3Us developed in this project and disseminated on the project's website
Questions asked at the level of | Analysis | Bioinformatics skills/tools | |||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
I3Ua | Focal taxa | Evolution | Behavior | Physiology | Morphology | Cell | Molecular | Biochemistry | Functional | Comparative | Metagenomic | Species-specific DNA database | Multi-species genome browser | Protein modeling | BLAST/alignment | Phylogenetics | Programming |
A | Brassica | √ | √ | √ | √ | ||||||||||||
B | Human | √ | √ | √ | |||||||||||||
C | Wood frog | √ | √ | √ | √ | ||||||||||||
D | Fish/vertebrates | √ | √ | √ | √ | √ | √ | ||||||||||
E | Fish/vertebrates | √ | √ | √ | √ | √ | √ | ||||||||||
F | Xenopus | √ | √ | √ | √ | √ | √ | ||||||||||
G | Pea/various | √ | √ | √ | √ | √ | |||||||||||
H | Eubacteria | √ | √ | √ | √ | √ | √ | ||||||||||
I | Mouse | √ | √ | √ | √ | √ | √ | √ | |||||||||
J | Worm | √ | √ | √ | √ | √ | |||||||||||
K | Dog | √ | √ | √ | √ | √ | √ | √ | |||||||||
L | Various | √ | √ | √ | √ | √ | √ | √ | |||||||||
M | Various | √ | √ | √ | √ | √ | √ | ||||||||||
N | N/A | √ | √ | √ | √ |
aLetters denote I3U units as follows: A: Reconstructing the Evolution of Cauliflower and Broccoli; B: Human Single Nucleotide Polymorphism Determination; C: Local Population Structure and Behavior of the Wood Frog Rana sylvatica; D: Comparison of Protein Sequences: BLAST Searching and Phylogenetic Tree Construction; E: Phylogenetic Analysis of Bony Fishes: Morphological and mtDNA Sequence Comparisons; F: Molecular Evolution of Gene Families; G: Exploring the Chamaecrista fasciculata Gene Space; H: Metagenomic Analysis of Winogradsky Columns; I: Behavior, Neuroanatomy, Genomics: What Can We Learn from Mouse Mutants?; J: Expression of Gerontogenes in Neurons: A Comparative Genomic Approach to Studying the Role of the Nervous System in Lifespan/Aging; K: Comparison of a Highly Polymorphic Olfactory Receptor Gene Subfamily in Genetically Diverse Dog Breeds; L: Integrative Activities to Study the Evolution of Nervous System Function; M: Modeling Molecular Evolution; N: Constructing and Using a PAM-Style Scoring Matrix.