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
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.