SUMMER SCHOOL 2: “FISHing Bacteria”
You may download the Book of Abstracts here!
The 2nd DelNAM Summer School will take place on from the 4th to the 6th of May 2021 and is organised by the Faculty of Engineering of the University of Porto.
This summer school will include theoretical sessions and hands-on practical sessions on the FISH technique and its applications. The practical sessions will include the design of oligonucleotides to target bacteria, standard FISH on planktonic and mixed biofilms, as well as variants including the application of liposomes, microfluidics and spectral image analysis.
The theoretical sessions will take place fully ONLINE on the first day of the event (May 4th), while the practical sessions will happen IN PERSON at FEUP on the following days (May 5th and 6th).
Registration is free of charge, since it is financed by the European Comission's H2020 programme through the DelNAM project. There is a limit of registrations for the practical sessions; registrations will be accepted by order of submission.
Nuno F. Azevedo, Rita S. Santos, Laura Cerqueira, Andreia Azevedo, Nuno Guimarães, Célia Rodrigues, Carina Almeida
Mariana Gomes, Beatriz Magalhães, Luís Moreira, Sara Pereira, Jontana Alkja
Local Time (GMT +1)
DAY 1: Theoretical Sessions (Online)
9h - 9h15
9h15 – 9h45
Chemically modified nucleic acid mimics (NAMS) for improved RNA targeting
Jesper Wengel (University of Southern Denmark, Denmark)
9h45 – 10h15
Nucleic acid mimic applications in fluorescence in situ hybridization
Nuno F. Azevedo (Faculty of Engineering of the University of Porto, Portugal)
10h15 – 10h45
10h45 – 11h15
Micro fluorescence in situ hybridization (μFISH) using a microfluidic scanning probe
Govind Kaigala (IBM Research - Zurich, Switzerland)
11h15 – 11h45
Single-molecule mRNA FISH in bacteria
Zach Hensel (ITQB, Portugal)
11h45 – 12h30
Nanoscopy tools to image and dynamically interact with molecular cell processes
Paolo Bianchini (Istituto Italiano di Tecnologia, Italy)
12h30 – 13h30
13h30 – 14h45
Oral Communications from selected abstracts
Rapid fluorescence-based assays for in situ enumeration of microorganisms - Linda Mezule (Riga Technical University, Latvia)
Disinfection of non-cultivable microorganisms in water supply systems - Viktorija Denisova (Riga Technical University, Latvia)
PNA-FISH approach in Bacterial Vaginosis: from diagnosis to unveiling etiology - Joana Castro (University of Minho, Portugal)
Characterization of bacterial vaginosis-associated multi-species communities by multiplex PNA FISH - Aliona Rosca (University of Minho, Portugal)
Localization of plant pathogenic viruses and bacteria, and endosymbiotic bacteria in plants and insect vectors using FISH methods - Murad Ghanim (Volcani Center, Israel)
14h45 – 15h15
15h15 – 15h45
Aptamers to target microorganisms
Jeffrey J. DeStefano (University of Maryland, USA)
15h45 – 16h15
Practical and Theoretical Aspects of CLASI-FISH imaging applied to microbial communities
Alex Valm (State University of New York at Albany, USA)
16h15 – 16h45
Hatice Ceylan Koydemir (UCLA, USA)
16h45 – 17h
17h – 17h30
Taking FISH from lab to market
Laura Cerqueira (LEPABE, formerly BIOMODE, Portugal)
17h30 - 18h
Drug Development – From bench to bedside
Ricardo Cunha (Blueclinical, Portugal)
DAY 2: Practical Sessions
9h – 9h45
Introduction to the Practical Sessions
9h45 – 11h30
Design of oligonucleotides to target bacteria
Nuno Guimarães (Faculty of Engineering of the University of Porto, Portugal)
11h30 – 12h
12h – 13h30
- sample preparation
13h30 – 14h30
14h30 – 17h
- sample preparation
- liposome preparation
14h30 – 15h
DelNAM GA Meeting (for consortium members only)
15h – 16h
DelNAM Advisory Board Meeting (for consortium members only)
DAY 3: Practical Sessions
9h – 13h
- Standard FISH
- FISH on mixed biofilms
- FISH using liposomes
13h – 14h
14h – 17h
Results analysis: microscopy visualization, spectral image analysis and microfluidics
17h – 17h30
Evaluation of the summer school
Venue: Faculty of Engineering of the University of Porto. Department of Chemical Engineering, Room E007.
Address: s/n, R. Dr. Roberto Frias, 4200-465 Porto.
Travel and Accommodation
How to get to Porto, Portugal
The nearest airport is the Francisco Sá Carneiro Airport in Porto, about 17Km away from the city centre (RECOMMENDED).
Alternatively, you can fly to the Lisbon Portela Airport in Lisbon, about 300Km away from Porto, and then take another flight to the Francisco Sá Carneiro Airport or a train to São Bento station.
By Metro or Bus
From the Francisco Sá Carneiro Airport to Porto’s City Centre
The easiest way is to take the metro at the airport (E line – lilac) and get off at Trindade. Here, you should take another train (D line – yellow) and get off at Aliados. The entire travel will take around 35 minutes. You can buy metro tickets at the airport.
Alternatively, you can take the bus 601 and get off at Cordoaria, though it takes longer (50min). You can check bus timetables here and buy the tickets inside the bus.
How to get to the Venue
By Metro or Bus
The easiest way is to take the metro at the Aliados or São Bento (D line – yellow) and get off at Pólo Universitário or IPO. You can buy metro tickets on the station.
Where to Stay
Hotel Aliados ***
Situated in Porto's city centre.
ADDRESS: R. Elísio de Melo 27, 4000-196 Porto
CONTACT: +351 22 200 4853
Hotel ibis Porto São João **
Situated close to the venue.
ADDRESS: Rua Dr Placido Costa, 4200-450, Porto, Portugal
CONTACT: +351 22 551 3100
Don't forget, participation is free of charge! The Summer School is financed by the European Comission's H2020 programme through the DelNAM project.
You can choose whether you want to attend only the theoretical sessions (4th of May) or both the theoretical and practical sessions (4th-6th of May). There is a limit of registrations for the practical sessions, registrations will be accepted by order of submission.
Registrations are closed.
To present your work at the Workshop you must be registered in the event.
Abstracts must be written in English. Please refer to the Abstract Rules and the Abstract Template files for Submission Rules. The deadline for abstract submissions is the 15th of February 2020.
Submissions are closed.