Bacterial Comparative Genomics

Unraveling Evolutionary Threads: Exploring Bacterial Diversity Through Comparative Genomics

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MODE
Online/ e-LMS

TYPE
Self Paced

LEVEL
Moderate

DURATION
1 Month

About

Explore the intricacies of bacterial genomics in our Advanced program on Bacterial Comparative Genomics. Designed for higher education audiences, this virtual program provides an immersive experience into the analysis of bacterial genomes using cutting-edge bioinformatics tools and techniques. Participants will gain practical skills in processing read data, performing de novo assembly, annotating genomes, and conducting comparative analyses to uncover the evolutionary dynamics and functional diversity of bacterial species.

Aim

The aim of the program on Bacterial Comparative Genomics is to equip participants with advanced knowledge and practical skills essential for analyzing bacterial genomes through comparative genomics methodologies. By the conclusion of the program, participants will possess the expertise needed to conduct sophisticated genomic analyses and contribute to advancements in bacterial genomics research.

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Program Objectives

Provide participants with the technical proficiency required to process and analyze read data for bacterial genomes.
Enable participants to perform de novo assembly, genome annotation, and comparative genomic analyses using state-of-the-art bioinformatics tools.
Foster an understanding of bacterial genome evolution, genetic diversity, and functional genomics.
Familiarize participants with tools for identifying antimicrobial resistance genes and conducting pangenome analyses to elucidate bacterial genome dynamics.
Introduce participants to Comparative Genomics Webservers for further exploration and analysis of bacterial genomes.

Program Structure

Module 1:

Installing genomics tools with Conda
Obtaining reads Data
Perform QC and Trimming of Data
Perform de novo assembly using spades

Module 2:

Polish the draft assembly using pilon
Reordering contigs against a reference genome using ragtag
Multi-locus sequence typing
Annotate the draft genome using prokka

Module 3:

Look for antimicrobial resistance genes using abricate
Perform Pangenome Analysis
Overview of Comparative Genomics Webserver like BV-BRC

Requirements:
• Working knowledge of Linux OS system is a must for the program
• PC with Linux operating system or Microsoft Windows Subsystem for Linux (see this link: https://www.freecodecamp.org/news/how-to-install-wsl2-windows-subsystem-for-linux-2-on-windows-10/)
• Install conda. For installing conda in the Windows sub-system see the link: https://medium.com/@parham.motameni/install-conda-on-wsl2-2e76d1e03229

Participant’s Eligibility

Undergraduate degree in Microbiology, Bioinformatics, Genetics, or related fields.
Professionals in the biotechnology, pharmaceutical, or healthcare industries.
Individuals with a keen interest in genomics and bacterial research.

Program Outcomes

Proficiency in Genomic Data Analysis: Participants will master techniques for processing, analyzing, and interpreting genomic data, including read data QC, de novo assembly, and annotation, enabling them to conduct sophisticated genomic analyses.
Mastery of Bioinformatics Tools: Participants will gain hands-on experience with essential bioinformatics tools such as SPAdes, Pilon, RagTag, Prokka, and Abricate, equipping them with practical skills for genomic data analysis in research and industry settings.
Understanding of Comparative Genomics Principles: Participants will develop a deep understanding of comparative genomics principles and methodologies, enabling them to investigate bacterial genome evolution, genetic diversity, and functional genomics.
Identification of Antimicrobial Resistance Genes: Participants will acquire the expertise to identify antimicrobial resistance genes and interpret their significance in the context of public health, clinical microbiology, and antibiotic drug development.
Pangenome Analysis Skills: Participants will learn pangenome analysis techniques to explore bacterial genome dynamics, population genomics, and evolutionary biology research, providing valuable insights into microbial ecology and adaptation.
Effective Communication of Genomic Findings: Participants will enhance their communication skills to effectively present genomic findings and insights, facilitating scientific discourse, writing research papers, and collaborating with interdisciplinary teams.
Problem-Solving Abilities in Bioinformatics: Participants will develop problem-solving skills to address complex challenges in genomic data analysis, enabling them to overcome technical hurdles and advance genomic research agendas.
Linux OS Proficiency: Participants will gain strong foundational knowledge in Linux OS for bioinformatics analysis, empowering them to navigate command-line interfaces and perform computational analyses efficiently, essential for academic research and industrial applications.

Fee Structure

Standard Fee: INR ~~4,998~~ USD ~~110~~

Discounted Fee: INR 2499 USD 55

We are excited to announce that we now accept payments in over 20 global currencies, in addition to USD. Check out our list to see if your preferred currency is supported. Enjoy the convenience and flexibility of paying in your local currency!

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Key Takeaways

Program Assessment

Certification to this program will be based on the evaluation of following assignment (s)/ examinations:

Exam	Weightage
Mid Term Assignments	50 %
Project Report Submission (Includes Mandatory Paper Publication)	50 %

To study the printed/online course material, submit and clear, the mid term assignments, project work/research study (in completion of project work/research study, a final report must be submitted) and the online examination, you are allotted a 1-month period. You will be awarded a certificate, only after successful completion/ and clearance of all the aforesaid assignment(s) and examinations.