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Bioinformatics Tools for the Multilocus Phylogenetic Analysis of Fungi

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Book cover Laboratory Protocols in Fungal Biology

Part of the book series: Fungal Biology ((FUNGBIO))

Abstract

Mycologists are generally identifying fungal communities by microscopic and macroscopic assessment. This conventional approach has several limitations due to the growth and environmental factors. Hence, molecular techniques and bioinformatics tools are essential in the field identification and characterization of fungi. Multilocus sequences are widely used in most of the bioinformatics tools and they can be used to recognize species boundaries. Nucleic acid and protein sequences-based analysis in fungal studies are revolutionizing the view on mycology. Numerous bioinformatics tools are available online to guide molecular biologists and biotechnologists. This chapter provides a guide to utilizing the available bioinformatics tools on the World Wide Web for sequence alignment, editing, and multilocus phylogenetic analysis.

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Notes

  1. 1.

    Available from http://www.clustal.org/clustal2.

  2. 2.

    Available at http://www.tcoffee.org/Projects_home_page/t_coffee_home_page.html.

  3. 3.

    from http://www.ebi.ac.uk/clustal.

  4. 4.

    Available from http://morphbank.ebc.uu.se/mrbayes/.

  5. 5.

    http://www.sinauer.com.

  6. 6.

    Available from http://paup.csit.fsu.edu/index.html.

  7. 7.

    Freely available from http://macclade.org/download.html.

  8. 8.

    Available from http://www.tree-puzzle.de/.

  9. 9.

    Available from http://taxonomy.zoology.gla.ac.uk/rod/treeview.html.

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Authors and Affiliations

  1. Department of Botany, Karnataka University, Dharwad, Karnataka, 580003, India

    Devarajan Thangadurai

  2. Department of Zoology, Karnataka University, 580003, Dharwad, Karnataka, India

    Jeyabalan Sangeetha

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  1. Devarajan Thangadurai
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  2. Jeyabalan Sangeetha
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Correspondence to Devarajan Thangadurai .

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Editors and Affiliations

  1. , Department of Biochemistry, National University of Ireland Galway, University Road, Galway, N/A, Ireland

    Vijai Kumar Gupta

  2. , Department of Biochemistry, National University of Ireland Galway, University Road, Galway, N/A, Ireland

    Maria G. Tuohy

  3. , Department of Biochemistry, National University of Ireland Galway, University Road, Galway, N/A, Ireland

    Manimaran Ayyachamy

  4. , Manufacturing Sciences and Technology, Pfizer Ireland Pharmaceuticals, The Pfizer Biotech Campus at Grange Castle, Clondalkin, N/A, Dublin, Ireland

    Kevin M. Turner

  5. , School of Natural Sciences, National University of Ireland Galway, University Road, Galway, N/A, Ireland

    Anthonia O’Donovan

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Thangadurai, D., Sangeetha, J. (2013). Bioinformatics Tools for the Multilocus Phylogenetic Analysis of Fungi. In: Gupta, V., Tuohy, M., Ayyachamy, M., Turner, K., O’Donovan, A. (eds) Laboratory Protocols in Fungal Biology. Fungal Biology. Springer, New York, NY. https://doi.org/10.1007/978-1-4614-2356-0_57

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