Omics
A.Y. 2022/2023
Learning objectives
The "Introduction to genomics" module presents to the students the main concepts dealing with genome organization. In facts a graded student in Veterinary Biotechnologies must have basic knowledges on the dimension and architecture of genome and chromosomes, in addition to the meaning of linkage and linkage disequilibrium between loci. Practical applications for animal breeding and veterinary medicine are also presented with the connected doctrinal and statistical tools, for example the use of bead DNA chip for genomic evaluation in cattle, parental exclusion or for general concepts and application in population genomics (F-statistics).
The Proteomic module presents essential information to study the complete proteome of a cell or tissue, its qualitatively and quantitative characterization and the analysis of possible modifications induced by a stimulus. Many different applications of this approach will be illustrated starting from published data.
The Proteomic module presents essential information to study the complete proteome of a cell or tissue, its qualitatively and quantitative characterization and the analysis of possible modifications induced by a stimulus. Many different applications of this approach will be illustrated starting from published data.
Expected learning outcomes
Regarding the genomics module, at the end of the course the student will know the genome size, its organization in chromosomes, the meaning of linkage and Linkage Disequilibrium, the use of DNA bead chips for genomic evaluation in cattle or for ascertaining paternity as well as concepts of population genomics (F statistics).
As far as proteomics is concerned, the student will know the principles and applications of the main proteomic methodologies including; two-dimensional electrophoresis, mass spectrometry, MS and MS/MS, quantitative mass spectrometry, amino-terminal sequence, amino acid analysis and study of complexes. About the ability to do: he will be able to make and interpret a MALDI spectrum , an amino-terminal sequence and a 2D aleltrophoresis. He will also be able to read and discuss specific articles on proteomics
As far as proteomics is concerned, the student will know the principles and applications of the main proteomic methodologies including; two-dimensional electrophoresis, mass spectrometry, MS and MS/MS, quantitative mass spectrometry, amino-terminal sequence, amino acid analysis and study of complexes. About the ability to do: he will be able to make and interpret a MALDI spectrum , an amino-terminal sequence and a 2D aleltrophoresis. He will also be able to read and discuss specific articles on proteomics
Lesson period: First semester
Assessment methods: Esame
Assessment result: voto verbalizzato in trentesimi
Single course
This course cannot be attended as a single course. Please check our list of single courses to find the ones available for enrolment.
Course syllabus and organization
Single session
Responsible
Course syllabus
PROTEOMICS
Protein identification and analysis
Analytical and preparative electrophoresis with pH immobilized gradients
Staining methods
Protein maps and sequence analysis of proteins separated in gel
Sequence of proteins and peptides in solution
Amino acids analysis of proteins and peptides
Mass spectrometry in proteomics
Quantitative analysis by mass spectrometry
Studies of post-translational modifications by mass spectrometry
Protein complexes characterization
Comparative proteomics
Biomarkers and antigens identification, food quality control
Microorganisms identifications by mass spectrometry
Practical laboratories
2D electrophoresis
MALDI mass spectrometry
Aminoterminal sequence
GENOMICS
Introduction to genomics is a short course (18 hours) that is designed to give to the students basic and preliminary notions on the genome of domestic animals. The wider and easier access to SNP panels (DNA bead-chip) creates the opportunity to explore interesting applications of this technology in population genomics of domestic animals. The main topics of the course are:
· The dimension of genome and measurements,
· Hardy-Weinberg equilibrium and test,
· Loss of heterozygosity as a consequence of inbreeding, numerical
reduction of the population, and random genetic drift,
· Some grasp on the F-statistics to determine genetic distances among
breeds and to detect selection signature,
· The infinitesimal model to describe mean and genetic variability at a
single locus for quantitative sanitary or productive traits,
· Heterosis as the opposite condition of inbreeding, application in
domestic animals,
· The linkage of two associated loci on the same chromosome,
recombination, distance, linkage-disequilibrium in a family and in an
outcrossing population, covariance and correlation between loci,
· The use of SNP panels to predict the genetic merit of an animal for
productive traits, application in the bovine species (genomic index).
Protein identification and analysis
Analytical and preparative electrophoresis with pH immobilized gradients
Staining methods
Protein maps and sequence analysis of proteins separated in gel
Sequence of proteins and peptides in solution
Amino acids analysis of proteins and peptides
Mass spectrometry in proteomics
Quantitative analysis by mass spectrometry
Studies of post-translational modifications by mass spectrometry
Protein complexes characterization
Comparative proteomics
Biomarkers and antigens identification, food quality control
Microorganisms identifications by mass spectrometry
Practical laboratories
2D electrophoresis
MALDI mass spectrometry
Aminoterminal sequence
GENOMICS
Introduction to genomics is a short course (18 hours) that is designed to give to the students basic and preliminary notions on the genome of domestic animals. The wider and easier access to SNP panels (DNA bead-chip) creates the opportunity to explore interesting applications of this technology in population genomics of domestic animals. The main topics of the course are:
· The dimension of genome and measurements,
· Hardy-Weinberg equilibrium and test,
· Loss of heterozygosity as a consequence of inbreeding, numerical
reduction of the population, and random genetic drift,
· Some grasp on the F-statistics to determine genetic distances among
breeds and to detect selection signature,
· The infinitesimal model to describe mean and genetic variability at a
single locus for quantitative sanitary or productive traits,
· Heterosis as the opposite condition of inbreeding, application in
domestic animals,
· The linkage of two associated loci on the same chromosome,
recombination, distance, linkage-disequilibrium in a family and in an
outcrossing population, covariance and correlation between loci,
· The use of SNP panels to predict the genetic merit of an animal for
productive traits, application in the bovine species (genomic index).
Prerequisites for admission
Basic information on Biochemistry and Genomics
Teaching methods
Lessons and practical laboratories
Some seminars and tutorials will be held in English
Some seminars and tutorials will be held in English
Teaching Resources
Notes, seminars and online courses
Teaching material provided and transmitted by the teacher. a series of files on ariel is also available
Recommended texts:
· Introducing Proteomics, from concepts to sample preparation, mass spectrometry and data analysis by J. Lovric (2011), Wiley-Blackwell Publishers
· Introduction to proteomics, Principles and Applications (2010) N. Mishra, John Wiley & Sons, Inc., Publication.
Teaching material provided and transmitted by the teacher. a series of files on ariel is also available
Recommended texts:
· Introducing Proteomics, from concepts to sample preparation, mass spectrometry and data analysis by J. Lovric (2011), Wiley-Blackwell Publishers
· Introduction to proteomics, Principles and Applications (2010) N. Mishra, John Wiley & Sons, Inc., Publication.
Assessment methods and Criteria
Proteomics: Written exam with open questions on all the topics covered in the lessons
Genomics: Written with open questions and multiple choice in the first session; from the second oral exam session
Genomics: Written with open questions and multiple choice in the first session; from the second oral exam session
Unita' didattica: Introduzione alla genomica
BIO/10 - BIOCHEMISTRY
BIO/18 - GENETICS
BIO/18 - GENETICS
Lessons: 18 hours
Professor:
Minozzi Giulietta
Unita' didattica: Proteomica
BIO/10 - BIOCHEMISTRY
BIO/18 - GENETICS
BIO/18 - GENETICS
Practicals: 12 hours
Lessons: 36 hours
Lessons: 36 hours
Professor:
Tedeschi Gabriella
Professor(s)
Reception:
By appointment via email