Studying at the University of Verona
Here you can find information on the organisational aspects of the Programme, lecture timetables, learning activities and useful contact details for your time at the University, from enrolment to graduation.
Study Plan
The Study Plan includes all modules, teaching and learning activities that each student will need to undertake during their time at the University.
Please select your Study Plan based on your enrollment year.
1° Year
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1 module among the following
1 module among the following
1 module between the following
1 module between the following
2° Year activated in the A.Y. 2021/2022
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1 module between the following
1 module among the following
1 module between the following
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1 module between the following
1 module among the following
1 module among the following
1 module between the following
1 module between the following
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1 module between the following
1 module among the following
1 module between the following
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Legend | Type of training activity (TTA)
TAF (Type of Educational Activity) All courses and activities are classified into different types of educational activities, indicated by a letter.
Genomics and metagenomics for bioresources (2020/2021)
Teaching code
4S008291
Teacher
Coordinator
Credits
6
Also offered in courses:
- Genomics of the course Master's degree in Agri-Food Biotechnology
Language
Italian
Scientific Disciplinary Sector (SSD)
BIO/18 - GENETICS
Period
I semestre dal Oct 1, 2020 al Jan 29, 2021.
Learning outcomes
The course will provide knowledge on the structure and functions of genomes for both prokaryotes and eukaryotes, including relevant organisms for biotransformations and the production of bio-compounds. The course will illustrate experimental methods for genome-sequencing analysis and annotation, including different metagenomic approaches necessary to characterize the composition of microorganisms involved in bioprocesses (natural or induced) and the genes underlying relevant functions.
Program
THE LESSONS WILL TAKE PLACE IN DUAL MODE.
ALL TEACHING MATERIALS AND LESSON RECORDINGS WILL BE AVAILABLE IN THE COURSE'S MOODLE PLATFORM.
Part 1. STRUCTURAL CHARACTERIZATION OF GENOMES
A) The anatomy of genomes
- Structural and genetic organization of prokaryotic genomes and eukaryotic organelles
- Structural and genetic organization of eukaryotic genomes
- Coding and non-coding genes
- Repeated elements
- Pseudogenes
- Bacterial and plant pan-genome
B) Methods for the structural analysis of genomes
- First generation sequencing
- Second generation sequencing methods
- Third generation sequencing methods
- Methods for generating physical and genetic maps
- Introduction to molecular markers and to methods for their analysis
- Sequencing based on linked-reads
C) Approaches for the study and assembly of genomes
- de-novo Assembly:
- hierarchical approach
- shot-gun approach
- hybrid approach
- Comparative analysis:
- reference-based assembly
- re-sequencing
D) Genome Projects
Students will actively carry out the analysis, presentation and discussion of original articles related to genome sequencing projects of organisms that constitute bioresources.
Part 2. FUNCTIONAL CHARACTERIZATION OF GENOMES
A) The transcriptome
- Components of the transcriptome
- Classes and functions of long and small non-coding RNA
B) Methods for the analysis of transcriptome
- Transcriptome analysis by second-generation sequencing
- Transcriptome analysis by third generation sequencing
- Analysis of microRNAs (PCR-based methods and sequencing)
C) Annotation of genomes
- Ab initio gene prediction
- Annotation guided by experimental evidence
- Annotation based on synteny analysis
- Genomic browsers
- In-silico functional annotation
D) The epigenome
- DNA organization in the nucleus and chromatin structure
- Introduction to epigenetic markers (histone modifications and DNA methylation)
E) Methods for the analysis of the epigenome
- Chromatin conformation analysis
- Analysis of DNA-protein interaction
- Analysis of histone markers
- Methylation analysis
Part 3. METAGENOMICS
A) Methods for metagenomic analysis
- Sequence-based metagenomics vs functional metagenomics
- DNA barcodes and metabarcoding
- Metagenomics by Whole Genome Shot-gun sequencing
- Shot-gun metagenomics by HiC, linked-reads and long reads
- Meta-transcriptomics
B) Metagenomic projects
Students will actively analyze, present and discuss original articles related to metagenomic projects relevant for bioresources.
Part 4. EVOLUTION OF GENOMES
- The first genomes and evolution of complex genomes
- Mutations and DNA repair
- Gene duplication, gene families and gene conversion
- Chromosomal alterations and polyploidy
- Horizontal transfer to prokaryotes
Author | Title | Publishing house | Year | ISBN | Notes |
---|---|---|---|---|---|
Brown | Genomes 4 (Edizione 4) | Taylor & Francis | 2017 | 978-0-8153-4508-4 |
Examination Methods
The final exam includes the presentation of a scientific paper and a written exam (10 open questions) covering the course program. The written exam will last 2 hours.
The final vote will result from the sum of votes assigned to the paper presentation (max 3 points) and the vote of written exam (maximum 3 points for each question). Voting will be expressed in thirtieths.
It will be also possible to carry out the exam remotely. In this case, the article will be presented in a teleconference and the exame will be oral (via zoom).
The remote examination is guaranteed for all students who request it in the academic year 2020/21. at this aim, please get in touch via email: marzia.rossato@univ.it