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Phylogenetic and Evolutionary Analysis of Plant ARGONAUTES

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Book cover Plant Argonaute Proteins

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1640))

Abstract

Comparative sequence analysis is widely used for the reconstruction of phylogeny and for understanding the evolutionary history of gene families. Here, we describe the methodologies to reconstruct the phylogenetic and evolutionary history of a gene family across genomes with a focus on the ARGONAUTE (AGO) family of proteins in plants. The method described here may easily be adapted for studying molecular evolution of a wide variety of gene families. We enlist methods as well as parameters for the collection of molecular data (nucleic acids and peptides), preparation of datasets, and selection of evolutionary models and various methods for the phylogenetic and evolutionary analysis, such as maximum likelihood and Bayesian inference.

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Acknowledgments

Financial assistance from MPG India partner program of Max Planck Society and Department of Science and Technology, India, the WHEAT Competitive Grants Initiative, CIMMYT and the CGIAR (A4031.09.10), and core funding from IISER-Kolkata is thankfully acknowledged.

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Authors and Affiliations

  1. Department of Biological Sciences, Indian Institute of Science Education and Research Kolkata, Mohanpur Campus, Nadia, West Bengal, 741246, India

    Ravi K. Singh & Shree P. Pandey

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  1. Ravi K. Singh
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Correspondence to Shree P. Pandey .

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Editors and Affiliations

  1. Instituto de Biología Molecular y Celular de Plantas, (Consejo Superior de Investigaciones Científicas–Universidad Politécnica de Valencia), Valencia, Spain

    Alberto Carbonell

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Singh, R.K., Pandey, S.P. (2017). Phylogenetic and Evolutionary Analysis of Plant ARGONAUTES. In: Carbonell, A. (eds) Plant Argonaute Proteins. Methods in Molecular Biology, vol 1640. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7165-7_20

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  • DOI: https://doi.org/10.1007/978-1-4939-7165-7_20

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