The goal of the Microbiomics course is to provide information about the structure, dynamics, evolution, and methods to investigate complex microbial communities as a whole. The rapid progress of omic sciences (genomics, transcriptomics, proteomics and metabolomics) combined with high-throughput genome sequencing, global gene expression analysis tools, and powerful analytical method of metabolites has made feasible the analysis of complex and diverse microbial communities and their products as a whole.
The course is intended to provide state-of-art information on the impact of the microbiota in agriculture, food production, as well as animal and human health
The course is intended to provide state-of-art information on the impact of the microbiota in agriculture, food production, as well as animal and human health
teacher profile teaching materials
Lecture 1 – Introduction to Microbiomics
Definition of microbiome and microbiota
History and evolution of microbiomics
Importance and major applications of microbiomics
Module 2 – Bioinformatics Databases
Lecture 2 – Major Biological Databases
Role of biological databases in microbiome research
NCBI
UniProt
SILVA
Introduction to additional bioinformatics resources
Module 3 – Sequencing Technologies and Metagenomics
Lecture 3 – Sequencing Technologies
Evolution of sequencing technologies
NGS, PacBio, and Oxford Nanopore platforms
Advantages, limitations, and major applications
Lecture 4 – Metagenomics
Principles of metagenomics
Sequencing strategies (16S rRNA and shotgun metagenomics)
Comparative microbiome analysis
Module 4 – Bioinformatics and Data Analysis
Lecture 5 – Bioinformatics Pipelines
Introduction to bioinformatics for microbiomics
Analysis pipelines (QIIME 2, mothur)
Use of online databases and platforms (KBase)
Lecture 6 – Statistical Analysis and Data Visualization
Quality control and preprocessing
Alpha and beta diversity
Statistical methods for microbiome data
Data visualization and interpretation
Module 5 – Applications of Microbiomics
Lecture 7 – Human Microbiomics
Gut, skin, and oral microbiomes
Role in health and disease
Clinical applications and therapeutic perspectives
Lecture 8 – Environmental Microbiomics
Soil, aquatic, and urban microbiomes
Applications in agriculture, environmental sciences, and biotechnology
Module 6 – Multi-omics Integration and Metabolic Modeling
Lecture 9 – Integrated Omics Approaches
Integration of metagenomics, metabolomics, and proteomics
Functional microbiome analysis
Future perspectives in microbiomics
Lecture 10 – Metabolic Modeling
Introduction to genome-scale metabolic models
Principles of Flux Balance Analysis (FBA)
Applications of FBA in microbiome research
Mutuazione: 20410495 Microbiomica in Biologia Molecolare, Cellulare e della Salute LM-6 R BASILE ARIANNA
Programme
Module 1 – Introduction to MicrobiomicsLecture 1 – Introduction to Microbiomics
Definition of microbiome and microbiota
History and evolution of microbiomics
Importance and major applications of microbiomics
Module 2 – Bioinformatics Databases
Lecture 2 – Major Biological Databases
Role of biological databases in microbiome research
NCBI
UniProt
SILVA
Introduction to additional bioinformatics resources
Module 3 – Sequencing Technologies and Metagenomics
Lecture 3 – Sequencing Technologies
Evolution of sequencing technologies
NGS, PacBio, and Oxford Nanopore platforms
Advantages, limitations, and major applications
Lecture 4 – Metagenomics
Principles of metagenomics
Sequencing strategies (16S rRNA and shotgun metagenomics)
Comparative microbiome analysis
Module 4 – Bioinformatics and Data Analysis
Lecture 5 – Bioinformatics Pipelines
Introduction to bioinformatics for microbiomics
Analysis pipelines (QIIME 2, mothur)
Use of online databases and platforms (KBase)
Lecture 6 – Statistical Analysis and Data Visualization
Quality control and preprocessing
Alpha and beta diversity
Statistical methods for microbiome data
Data visualization and interpretation
Module 5 – Applications of Microbiomics
Lecture 7 – Human Microbiomics
Gut, skin, and oral microbiomes
Role in health and disease
Clinical applications and therapeutic perspectives
Lecture 8 – Environmental Microbiomics
Soil, aquatic, and urban microbiomes
Applications in agriculture, environmental sciences, and biotechnology
Module 6 – Multi-omics Integration and Metabolic Modeling
Lecture 9 – Integrated Omics Approaches
Integration of metagenomics, metabolomics, and proteomics
Functional microbiome analysis
Future perspectives in microbiomics
Lecture 10 – Metabolic Modeling
Introduction to genome-scale metabolic models
Principles of Flux Balance Analysis (FBA)
Applications of FBA in microbiome research
Prerequisiti
The course has no specific prerequisites and is suitable for students with a basic background in the biological sciences.Core Documentation
None. Please refer to slides and your notes taken during lecturesAttendance
Attendance is not mandatory.Type of evaluation
Presentation: The student chooses a gene and conducts a search in the databases covered during the first part of the course. The results of the search are presented to the instructor as a PowerPoint. During the presentation, the instructor will ask questions related to both the presentation and the rest of the course content.