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The Phylogentic Handbook is a broad introduction to the theory and practice of nucleotide and amino acid phylogenetic analysis. As a unique feature of this book, each chapter contains an extensive practical section, in which step-by-step exercises on real data sets introduce the reader to the most widely-used phylogeny software including CLUSTAL, PHYLIP, PAUP*, DAMBE, TREE-PUZZLE, TREECON, SplitsTree, TreeView, SimPlot, and BOOTSCANNING. Chapters 1-10 provide a strong background in basic topics such as the use of sequence databases, alignment algorithms, tree-building methods, estimation of genetic distances, and testing models of evolution. Additional chapters briefly survey special topics in evolution, for example modelling evolution with networks, studying recombination, testing for positive selection, and methods in population genetics. The book will be an invaluable resource for advanced level undergraduate and graduate students, as well as for professionals working in the fields of molecular biology and evolution.

Systematics. Taxonomy. Nomenclature --- Evolution. Phylogeny --- Analyse cladistique --- Acide aminé --- Phylogénie --- Valeur génétique --- breeding value --- Amino Acid Sequence. --- 575.852 --- 577.212.3 --- -Proteins --- Deoxyribonucleic acid --- Desoxyribonucleic acid --- Thymonucleic acid --- TNA (Nucleic acid) --- Deoxyribose --- Cladism --- Cladistic method --- Cladistic taxonomy --- Cladistics --- Cladograms --- Phylogenetic systematics --- Phylogenetic taxonomy --- Taxonomy, Cladistic --- Taxonomy, Phylogenetic --- Branching processes --- Amino Acid Sequences --- Sequence, Amino Acid --- Sequences, Amino Acid --- Protein Structure, Primary --- Primary Protein Structure --- Primary Protein Structures --- Protein Structures, Primary --- Structure, Primary Protein --- Structures, Primary Protein --- Phylogenies --- Phylogeography --- Biomacromolecules. Molecular evolution --- Nucleic acid base and sequence compositon. Experimental deciphering of genetic code. --- 577.212.3 Nucleic acid base and sequence compositon. Experimental deciphering of genetic code. --- 575.852 Biomacromolecules. Molecular evolution --- DNA phylogeny --- Cladistic analysis --- DNA --- Proteins --- Amino Acid Sequence --- Phylogeny --- Academic collection --- 575.86 --- 577.112 --- Classification --- Peptides --- Proteids --- Biomolecules --- Polypeptides --- Proteomics --- Nucleic acids --- Genes --- Biology --- 577.112 Proteins --- 575.86 Origin of groups of organisms (taxa). Phylogeny --- Origin of groups of organisms (taxa). Phylogeny --- Analysis --- analysis --- Nucleic acid base and sequence compositon. Experimental deciphering of genetic code --- Phylogenomics --- Phylogenomic --- Amino acids --- Évolution --- evolution --- taxonomy --- Identification --- identification --- computer applications --- Computer software --- ADN --- Protéines --- Handbooks, manuals, etc. --- Analyse --- Guides, manuels, etc. --- evolution. --- identification. --- Community Phylogenetics --- Molecular Phylogenetics --- Phylogenetic Analyses --- Phylogenetic Analysis --- Phylogenetic Clustering --- Phylogenetic Comparative Analysis --- Phylogenetic Comparative Methods --- Phylogenetic Distance --- Phylogenetic Generalized Least Squares --- Phylogenetic Groups --- Phylogenetic Incongruence --- Phylogenetic Inference --- Phylogenetic Networks --- Phylogenetic Reconstruction --- Phylogenetic Relatedness --- Phylogenetic Relationships --- Phylogenetic Signal --- Phylogenetic Structure --- Phylogenetic Tree --- Phylogenetic Trees --- Analyse, Phylogenetic --- Analysis, Phylogenetic --- Analysis, Phylogenetic Comparative --- Clustering, Phylogenetic --- Community Phylogenetic --- Comparative Analysis, Phylogenetic --- Comparative Method, Phylogenetic --- Distance, Phylogenetic --- Group, Phylogenetic --- Incongruence, Phylogenetic --- Inference, Phylogenetic --- Method, Phylogenetic Comparative --- Molecular Phylogenetic --- Network, Phylogenetic --- Phylogenetic Analyse --- Phylogenetic Clusterings --- Phylogenetic Comparative Analyses --- Phylogenetic Comparative Method --- Phylogenetic Distances --- Phylogenetic Group --- Phylogenetic Incongruences --- Phylogenetic Inferences --- Phylogenetic Network --- Phylogenetic Reconstructions --- Phylogenetic Relatednesses --- Phylogenetic Relationship --- Phylogenetic Signals --- Phylogenetic Structures --- Phylogenetic, Community --- Phylogenetic, Molecular --- Reconstruction, Phylogenetic --- Relatedness, Phylogenetic --- Relationship, Phylogenetic --- Signal, Phylogenetic --- Structure, Phylogenetic --- Tree, Phylogenetic --- DNA - Analysis - Handbooks, manuals, etc. --- Proteins - Analysis - Handbooks, manuals, etc. --- Cladistic analysis - Handbooks, manuals, etc. --- Clustal --- Phylip --- Paup --- Dambe --- Tree-puzzle --- Trecon --- Splittree --- Treview --- Megaz --- Palm --- Simplot --- PROTEINS --- CLADISTIC ANALYSIS --- HANDBOOKS --- ANALYSIS