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Phylogenetic reconstruction methods: An overview

De Bruyn A., Martin D.P., Lefeuvre P.. 2014. In : by Pascale Besse (ed.). Molecular Plant Taxonomy. New York : Humana Press, p. 257-277. (Mehtods in Molecular Biology, 1115).

Initially designed to infer evolutionary relationships based on morphological and physiological characters, phylogenetic reconstruction methods have greatly benefited from recent developments in molecular biology and sequencing technologies with a number of powerful methods having been developed specifically to infer phylogenies from macromolecular data. This chapter, while presenting an overview of basic concepts and methods used in phylogenetic reconstruction, is primarily intended as a simplified step-by-step guide to the construction of phylogenetic trees from nucleotide sequences using fairly up-to-date maximum likelihood methods implemented in freely available computer programs. While the analysis of chloroplast sequences from various Vanilla species is used as an illustrative example, the techniques covered here are relevant to the comparative analysis of homologous sequences datasets sampled from any group of organisms. (Résumé d'auteur)

Mots-clés : bioinformatique; statistiques; vanilla planifolia; Étude de cas; chloroplaste; biologie moléculaire; génie génétique; méthodologie; adn; séquence nucléotidique; Évolution; phylogénie; organisme; réunion; séquencage

Thématique : Taxonomie végétale et phyto-géographie; Méthodes mathématiques et statistiques; Génétique et amélioration des plantes

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