Metagenomic Approaches to Identify Novel Organisms from the Soil Environment in a Classroom Setting

Molecular Microbial Metagenomics is a research-based undergraduate course developed at Georgia State University. This semester-long course provides hands-on research experience in the area of microbial diversity and introduces molecular approaches to study diversity. Students are part of an ongoing...

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Autores principales:	Sadia J. Rahman, Trevor C. Charles, Parjit Kaur
Formato:	article
Lenguaje:	EN
Publicado:	American Society for Microbiology 2016
Materias:	Special aspects of education LC8-6691 Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/6370046672f54015a663517fd8040276
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spelling	oai:doaj.org-article:6370046672f54015a663517fd80402762021-11-15T15:13:57ZMetagenomic Approaches to Identify Novel Organisms from the Soil Environment in a Classroom Setting10.1128/jmbe.v17i3.11151935-78851935-7877https://doaj.org/article/6370046672f54015a663517fd80402762016-12-01T00:00:00Zhttps://journals.asm.org/doi/10.1128/jmbe.v17i3.1115https://doaj.org/toc/1935-7877https://doaj.org/toc/1935-7885Molecular Microbial Metagenomics is a research-based undergraduate course developed at Georgia State University. This semester-long course provides hands-on research experience in the area of microbial diversity and introduces molecular approaches to study diversity. Students are part of an ongoing research project that uses metagenomic approaches to isolate clones containing 16S ribosomal ribonucleic acid (rRNA) genes from a soil metagenomic library. These approaches not only provide a measure of microbial diversity in the sample but may also allow discovery of novel organisms. Metagenomic approaches differ from the traditional culturing methods in that they use molecular analysis of community deoxyribonucleic acid (DNA) instead of culturing individual organisms. Groups of students select a batch of 100 clones from a metagenomic library. Using universal primers to amplify 16S rRNA genes from the pool of DNA isolated from 100 clones, and a stepwise process of elimination, each group isolates individual clones containing 16S rRNA genes within their batch of 100 clones. The amplified 16S rRNA genes are sequenced and analyzed using bioinformatics tools to determine whether the rRNA gene belongs to a novel organism. This course provides avenues for active learning and enhances students’ conceptual understanding of microbial diversity. Average scores on six assessment methods used during field testing indicated that success in achieving different learning objectives varied between 84% and 95%, with 65% of the students demonstrating complete grasp of the project based on the end-of-project lab report. The authentic research experience obtained in this course is also expected to result in more undergraduates choosing research-based graduate programs or careers.Sadia J. RahmanTrevor C. CharlesParjit KaurAmerican Society for MicrobiologyarticleSpecial aspects of educationLC8-6691Biology (General)QH301-705.5ENJournal of Microbiology & Biology Education, Vol 17, Iss 3, Pp 423-429 (2016)
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 Sadia J. Rahman Trevor C. Charles Parjit Kaur Metagenomic Approaches to Identify Novel Organisms from the Soil Environment in a Classroom Setting
description	Molecular Microbial Metagenomics is a research-based undergraduate course developed at Georgia State University. This semester-long course provides hands-on research experience in the area of microbial diversity and introduces molecular approaches to study diversity. Students are part of an ongoing research project that uses metagenomic approaches to isolate clones containing 16S ribosomal ribonucleic acid (rRNA) genes from a soil metagenomic library. These approaches not only provide a measure of microbial diversity in the sample but may also allow discovery of novel organisms. Metagenomic approaches differ from the traditional culturing methods in that they use molecular analysis of community deoxyribonucleic acid (DNA) instead of culturing individual organisms. Groups of students select a batch of 100 clones from a metagenomic library. Using universal primers to amplify 16S rRNA genes from the pool of DNA isolated from 100 clones, and a stepwise process of elimination, each group isolates individual clones containing 16S rRNA genes within their batch of 100 clones. The amplified 16S rRNA genes are sequenced and analyzed using bioinformatics tools to determine whether the rRNA gene belongs to a novel organism. This course provides avenues for active learning and enhances students’ conceptual understanding of microbial diversity. Average scores on six assessment methods used during field testing indicated that success in achieving different learning objectives varied between 84% and 95%, with 65% of the students demonstrating complete grasp of the project based on the end-of-project lab report. The authentic research experience obtained in this course is also expected to result in more undergraduates choosing research-based graduate programs or careers.
format	article
author	Sadia J. Rahman Trevor C. Charles Parjit Kaur
author_facet	Sadia J. Rahman Trevor C. Charles Parjit Kaur
author_sort	Sadia J. Rahman
title	Metagenomic Approaches to Identify Novel Organisms from the Soil Environment in a Classroom Setting
title_short	Metagenomic Approaches to Identify Novel Organisms from the Soil Environment in a Classroom Setting
title_full	Metagenomic Approaches to Identify Novel Organisms from the Soil Environment in a Classroom Setting
title_fullStr	Metagenomic Approaches to Identify Novel Organisms from the Soil Environment in a Classroom Setting
title_full_unstemmed	Metagenomic Approaches to Identify Novel Organisms from the Soil Environment in a Classroom Setting
title_sort	metagenomic approaches to identify novel organisms from the soil environment in a classroom setting
publisher	American Society for Microbiology
publishDate	2016
url	https://doaj.org/article/6370046672f54015a663517fd8040276
work_keys_str_mv	AT sadiajrahman metagenomicapproachestoidentifynovelorganismsfromthesoilenvironmentinaclassroomsetting AT trevorccharles metagenomicapproachestoidentifynovelorganismsfromthesoilenvironmentinaclassroomsetting AT parjitkaur metagenomicapproachestoidentifynovelorganismsfromthesoilenvironmentinaclassroomsetting
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Metagenomic Approaches to Identify Novel Organisms from the Soil Environment in a Classroom Setting

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