Suppr超能文献

基于实验室教学的个人微生物群与下一代测序

Personal microbiomes and next-generation sequencing for laboratory-based education.

作者信息

Hartman Mark R, Harrington Kristin T, Etson Candice M, Fierman Matthew B, Slonim Donna K, Walt David R

机构信息

Department of Chemistry, Tufts University, Medford, MA, 02155, USA.

Department of Computer Science, Tufts University, Medford, MA, 02155, USA.

出版信息

FEMS Microbiol Lett. 2016 Dec;363(23). doi: 10.1093/femsle/fnw266. Epub 2016 Nov 16.

Abstract

Sequencing and bioinformatics technologies have advanced rapidly in recent years, driven largely by developments in next-generation sequencing (NGS) technology. Given the increasing importance of these advances, there is a growing need to incorporate concepts and practices relating to NGS into undergraduate and high school science curricula. We believe that direct access to sequencing and bioinformatics will improve the ability of students to understand the information obtained through these increasingly ubiquitous research tools. In this commentary, we discuss approaches and challenges for bringing NGS into the classroom based on our experiences in developing and running a microbiome project in high school and undergraduate courses. We describe strategies for maximizing student engagement through establishing personal relevance and utilizing an inquiry-based structure. Additionally, we address the practical issues of incorporating cutting edge technologies into an established curriculum. Looking forward, we anticipate that NGS educational experiments will become more commonplace as sequencing costs continue to decrease and the workflow becomes more user friendly.

摘要

近年来,测序和生物信息学技术发展迅速,这在很大程度上得益于下一代测序(NGS)技术的进步。鉴于这些进展的重要性日益增加,将与NGS相关的概念和实践纳入本科和高中科学课程的需求也在不断增长。我们认为,直接接触测序和生物信息学将提高学生理解通过这些日益普及的研究工具获得的信息的能力。在这篇评论中,我们根据在高中和本科课程中开展和运行微生物组项目的经验,讨论将NGS引入课堂的方法和挑战。我们描述了通过建立个人相关性和采用基于探究的结构来最大限度地提高学生参与度的策略。此外,我们还讨论了将前沿技术纳入既定课程的实际问题。展望未来,随着测序成本持续下降且工作流程变得更加用户友好,我们预计NGS教育实验将变得更加普遍。

相似文献

1
Personal microbiomes and next-generation sequencing for laboratory-based education.
FEMS Microbiol Lett. 2016 Dec;363(23). doi: 10.1093/femsle/fnw266. Epub 2016 Nov 16.
4
Next-generation sequencing: a challenge to meet the increasing demand for training workshops in Australia.
Brief Bioinform. 2013 Sep;14(5):563-74. doi: 10.1093/bib/bbt022. Epub 2013 Mar 29.
6
Integration of bioinformatics into an undergraduate biology curriculum and the impact on development of mathematical skills.
Biochem Mol Biol Educ. 2012 Sep-Oct;40(5):310-9. doi: 10.1002/bmb.20637. Epub 2012 Aug 22.
7
Next-Generation Sequencing Informatics: Challenges and Strategies for Implementation in a Clinical Environment.
Arch Pathol Lab Med. 2016 Sep;140(9):958-75. doi: 10.5858/arpa.2015-0507-RA. Epub 2016 Feb 22.
8
FDA's Activities Supporting Regulatory Application of "Next Gen" Sequencing Technologies.
PDA J Pharm Sci Technol. 2014 Nov-Dec;68(6):626-30. doi: 10.5731/pdajpst.2014.01024.
9
Teaching next-generation sequencing to medical students with a portable sequencing device.
Perspect Med Educ. 2021 Aug;10(4):252-255. doi: 10.1007/s40037-020-00568-2.
10
Assessing an effective undergraduate module teaching applied bioinformatics to biology students.
PLoS Comput Biol. 2018 Jan 11;14(1):e1005872. doi: 10.1371/journal.pcbi.1005872. eCollection 2018 Jan.

引用本文的文献

2
Inquiry-Driven Bioinformatics Laboratory Research Module: Metagenomic Study of Student Oral Microbes.
J Microbiol Biol Educ. 2021 Jun 30;22(2). doi: 10.1128/jmbe.00136-21. eCollection 2021 Fall.
3
Microbiomes for All.
Front Microbiol. 2020 Nov 12;11:593472. doi: 10.3389/fmicb.2020.593472. eCollection 2020.
4
The Bean Beetle Microbiome Project: A Course-Based Undergraduate Research Experience in Microbiology.
Front Microbiol. 2020 Sep 15;11:577621. doi: 10.3389/fmicb.2020.577621. eCollection 2020.
5
Fiber Force: A Fiber Diet Intervention in an Advanced Course-Based Undergraduate Research Experience (CURE) Course.
J Microbiol Biol Educ. 2020 Apr 30;21(1). doi: 10.1128/jmbe.v21i1.1991. eCollection 2020.
6
Teaching next-generation sequencing to medical students with a portable sequencing device.
Perspect Med Educ. 2021 Aug;10(4):252-255. doi: 10.1007/s40037-020-00568-2.

本文引用的文献

1
Killing two birds with one stone: Model plant systems as a tool to teach the fundamental concepts of gene expression while analyzing biological data.
Biochim Biophys Acta Gene Regul Mech. 2017 Jan;1860(1):166-173. doi: 10.1016/j.bbagrm.2016.04.012. Epub 2016 May 4.
2
Participatory Genomic Testing as an Educational Experience.
Trends Genet. 2016 Jun;32(6):317-320. doi: 10.1016/j.tig.2016.03.008. Epub 2016 Apr 22.
3
Brewing for Students: An Inquiry-Based Microbiology Lab.
J Microbiol Biol Educ. 2015 Dec 1;16(2):223-9. doi: 10.1128/jmbe.v16i2.914. eCollection 2015 Dec.
4
Humans differ in their personal microbial cloud.
PeerJ. 2015 Sep 22;3:e1258. doi: 10.7717/peerj.1258. eCollection 2015.
5
Forensic analysis of the microbiome of phones and shoes.
Microbiome. 2015 May 12;3:21. doi: 10.1186/s40168-015-0082-9. eCollection 2015.
6
Identifying personal microbiomes using metagenomic codes.
Proc Natl Acad Sci U S A. 2015 Jun 2;112(22):E2930-8. doi: 10.1073/pnas.1423854112. Epub 2015 May 11.
7
Do you kiss your mother with that mouth? An authentic large-scale undergraduate research experience in mapping the human oral microbiome.
J Microbiol Biol Educ. 2015 May 1;16(1):50-60. doi: 10.1128/jmbe.v16i1.816. eCollection 2015 May.
8
An alternative laboratory designed to address ethical concerns associated with traditional TAS2R38 student genotyping.
Biochem Mol Biol Educ. 2015 Mar-Apr;43(2):100-9. doi: 10.1002/bmb.20846. Epub 2015 Feb 20.

文献AI研究员

20分钟写一篇综述,助力文献阅读效率提升50倍。

立即体验

用中文搜PubMed

大模型驱动的PubMed中文搜索引擎

马上搜索

文档翻译

学术文献翻译模型,支持多种主流文档格式。

立即体验