Using Tobamoviruses for Phylogenetic Instruction in Undergraduate Biology Courses

Microbial diversity and taxonomy instruction provide an ideal opportunity to introduce students to basic bioinformatics skills. There are many ways to illustrate evolutionary relationships between microorganisms using phylogenetic trees. Thought must be given to the method of presentation used in cl...

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Autores principales:	Kornelia Fillmer, Scott Adkins, Patchara Pongam, Tom D’Elia
Formato:	article
Lenguaje:	EN
Publicado:	American Society for Microbiology 2018
Materias:	Special aspects of education LC8-6691 Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/98ed7737cc5f4da29e122da0ebc7bd9e
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spelling	oai:doaj.org-article:98ed7737cc5f4da29e122da0ebc7bd9e2021-11-15T15:04:11ZUsing Tobamoviruses for Phylogenetic Instruction in Undergraduate Biology Courses10.1128/jmbe.v19i2.15191935-78851935-7877https://doaj.org/article/98ed7737cc5f4da29e122da0ebc7bd9e2018-01-01T00:00:00Zhttps://journals.asm.org/doi/10.1128/jmbe.v19i2.1519https://doaj.org/toc/1935-7877https://doaj.org/toc/1935-7885Microbial diversity and taxonomy instruction provide an ideal opportunity to introduce students to basic bioinformatics skills. There are many ways to illustrate evolutionary relationships between microorganisms using phylogenetic trees. Thought must be given to the method of presentation used in class because interpreting complex trees can be quite challenging for students. Here we present a simple activity that teaches the fundamental bioinformatics skills of multiple sequence alignments and phylogenetics by using Tropical soda apple mosaic virus and other tobamoviruses that produce trees that are easy to interpret. Tobamoviruses are important agricultural pathogens and have well defined phylogenetic groupings that correspond to the phylogenetic groupings of host plant families. This clear pattern illustrates the coevolution of the virus and host, and makes interpreting relationships based on these trees very straightforward. The organization of the trees also indicates related plants that a given virus may potentially infect, making this type of analysis useful for developing measures to limit spread and minimize economic impacts. The simplicity of the analysis, coupled with the real-world application in agricultural science, helps actively engage students in a topic that is challenging to learn. This activity is broadly adaptable, and can be introduced as a learning module in courses covering topics in microbiology, molecular biology, genetics and evolution. Completion of this activity provides students with key foundational skills for phylogenetic analysis and the confidence to utilize bioinformatics software.Kornelia FillmerScott AdkinsPatchara PongamTom D’EliaAmerican Society for MicrobiologyarticleSpecial aspects of educationLC8-6691Biology (General)QH301-705.5ENJournal of Microbiology & Biology Education, Vol 19, Iss 2 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Special aspects of education LC8-6691 Biology (General) QH301-705.5
spellingShingle	Special aspects of education LC8-6691 Biology (General) QH301-705.5 Kornelia Fillmer Scott Adkins Patchara Pongam Tom D’Elia Using Tobamoviruses for Phylogenetic Instruction in Undergraduate Biology Courses
description	Microbial diversity and taxonomy instruction provide an ideal opportunity to introduce students to basic bioinformatics skills. There are many ways to illustrate evolutionary relationships between microorganisms using phylogenetic trees. Thought must be given to the method of presentation used in class because interpreting complex trees can be quite challenging for students. Here we present a simple activity that teaches the fundamental bioinformatics skills of multiple sequence alignments and phylogenetics by using Tropical soda apple mosaic virus and other tobamoviruses that produce trees that are easy to interpret. Tobamoviruses are important agricultural pathogens and have well defined phylogenetic groupings that correspond to the phylogenetic groupings of host plant families. This clear pattern illustrates the coevolution of the virus and host, and makes interpreting relationships based on these trees very straightforward. The organization of the trees also indicates related plants that a given virus may potentially infect, making this type of analysis useful for developing measures to limit spread and minimize economic impacts. The simplicity of the analysis, coupled with the real-world application in agricultural science, helps actively engage students in a topic that is challenging to learn. This activity is broadly adaptable, and can be introduced as a learning module in courses covering topics in microbiology, molecular biology, genetics and evolution. Completion of this activity provides students with key foundational skills for phylogenetic analysis and the confidence to utilize bioinformatics software.
format	article
author	Kornelia Fillmer Scott Adkins Patchara Pongam Tom D’Elia
author_facet	Kornelia Fillmer Scott Adkins Patchara Pongam Tom D’Elia
author_sort	Kornelia Fillmer
title	Using Tobamoviruses for Phylogenetic Instruction in Undergraduate Biology Courses
title_short	Using Tobamoviruses for Phylogenetic Instruction in Undergraduate Biology Courses
title_full	Using Tobamoviruses for Phylogenetic Instruction in Undergraduate Biology Courses
title_fullStr	Using Tobamoviruses for Phylogenetic Instruction in Undergraduate Biology Courses
title_full_unstemmed	Using Tobamoviruses for Phylogenetic Instruction in Undergraduate Biology Courses
title_sort	using tobamoviruses for phylogenetic instruction in undergraduate biology courses
publisher	American Society for Microbiology
publishDate	2018
url	https://doaj.org/article/98ed7737cc5f4da29e122da0ebc7bd9e
work_keys_str_mv	AT korneliafillmer usingtobamovirusesforphylogeneticinstructioninundergraduatebiologycourses AT scottadkins usingtobamovirusesforphylogeneticinstructioninundergraduatebiologycourses AT patcharapongam usingtobamovirusesforphylogeneticinstructioninundergraduatebiologycourses AT tomdelia usingtobamovirusesforphylogeneticinstructioninundergraduatebiologycourses
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Using Tobamoviruses for Phylogenetic Instruction in Undergraduate Biology Courses

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