MPA'15

8-12 June 2015

Braga, Portugal

Metabolic Pathway Analysis 2015

The Metabolic Pathway Analysis 2015 will take place from the 8th to the 12th June 2015 at Bom Jesus, Braga, Portugal. The meeting has a primary focus on the structural (topological) analysis of metabolic networks, and in particular techniques allied to linear algebra, linear programming and computer modelling applied to different fields such as industrial biotechnology and health sciences.

Biochemical Society

Thank you for attending the conference

Our Services


Poster Printing

Poster printing service will NOT be available at the venue. However, all interested presenters can send us (conferencempa2015-posters@outlook.com) their posters in pdf format (portrait orientation – size A0), by June 3rd and we will print them.

This service has a cost of 30€, to be paid at the event check-in process, where presenters should pick up their posters.

Venue

Bom Jesus

Bom Jesus do Monte is a Portuguese sanctuary in Tenões, outside the city of Braga, in northern Portugal. Its name means Good Jesus of the Mount.

Conference Shuttle

A private shuttle service, operating from Oporto’s airport to the event’s venue will be available for participants arriving on the 8th of June and/or leaving on the 12th of June.

Please inform (conferencempa2015@outlook.com) the organization if you intend to take the conference shuttle to the venue’s location until the 1st of June.

Meals

Lunch will be provided at Bom Jesus on conference days 9, 10, 11, 12. Dinner will also be held at Bom Jesus on 8, 9, 11 June.

The conference dinner takes place in Convento do Carmo on 10th June.

Programme

Check-inMonday 8 June 2015

10:00 - 17:00
Check-in

10:00 - 17:00
Workshop – Computational Metabolic Pathway Analysis with OptFlux (registration required)

17:30 – 17:45 Opening Session

Session 1 - Metabolic Engineering 1Monday 8 June 2015

17:45 - 18:45
Keynote Talk - Engineering metabolic pathways
Friedrich Srienc (University of Minnesota, U.S.A.)

18:45 - 19:30
Multi-scale modeling of chemical product choices for cell factory development
Markus Herrgård (Technical University of Denmark, Denmark)

19:30 - 20:30 Welcome reception


20:30 Dinner

Session 2 – Uncovering Biological PrinciplesTuesday 9 June 2015

09:00 - 09:40
Coping with noisy metabolism in the bacterial microenvironment
Nathan Lewis (University of California San Diego, U.S.A.)

09:40 - 10:20
Transcriptional vs post-transcriptional regulation of the central carbon metabolism of E. coli
Daniel Machado (University of Minho, Portugal)

10:20 - 10:50 Coffee break

10:50 - 11:30
Network-level architecture and the evolutionary potential of underground metabolism
Ferenc Pal (Biological Research Centre of the Hungarian Academy of Sciences, Hungary)

11:30 - 12:10
Investigating the fitness effects of aerobic fermentation in yeast
Thomas Pfeiffer (Massey University, New Zealand)

12:10 - 12:50
Dynamics of NAD-metabolism - everything but constant
Ines Heiland (University of Tromsø, Norway)

12:50 - 14:00 Lunch

Session 3 – Methods and ToolsTuesday 9 June 2015

14:00 - 14:40
Alternate integer linear programming for computing elementary modes from genome-scale metabolic networks
Hyun-Seob Song (Pacific Northwest National Laboratory, U.S.A.)

14:40 - 15:20
Optimal resource allocation in metabolic networks
Stefan Mueller (Radon Institute for Computational and Applied Mathematics (RICAM), Austria)

15:20 - 15:40 Coffee break

15:40 - 16:20
Hierarchical decomposition of metabolic networks using k-modules
Arne Reimers (Centrum Wiskunde & Informatica, Netherlands)

16:20 - 17:00
Reconciling gene expression data with regulatory network models
José Faria (Argonne National Laboratory, U.S.A.)

17:00 - 20:00 Poster session 1 & drinks

20:00 Dinner

Session 4 – Applications to Photosynthetic organisms and Microbial Communities Wednesday 10 June 2015

08:30 - 09:10
Investigating lipid production in a genome scale model of Phaeodactylum tricornutum
Dipali Singh (Oxford Brookes University, United Kingdom)

09:10 - 09:50
Modelling evolutionary reversibility of a metabolic pathway: C4 photosynthesis
David Heckmann (HHU Duesseldorf, Germany)

09:50 - 10:30
A reductionist approach to model self-regulating systems in plants
Anna Matuszyńska (Heinrich-Heine University Düsseldorf, Germany)

10:30 - 11:00 Coffee break

11:00 - 11:40
Spatio-temporal models of metabolism in microbial communities
Daniel Segre (Boston University, U.S.A.)

11:40 - 12:20
Stoichiometric analysis of primary autotrophy and biomass turnover in a thermoacidophilic iron oxidizing archaeal community
Kristopher Hunt (Montana State University, U.S.A.)

12:20 - 13:00
Spatiotemporal metabolic modeling of microbial biofilm consortia
Michael Henson (University of Massachusetts, U.S.A.)

13:00 – 14:00 Lunch

14:00 – 19:00
Free afternoon (Tour and Activities in Braga Historical Center)

19:00 Conference Dinner

Session 5 - Applications in Health Thursday 11 June 2015

09:00 - 09:40
A minimal model for explaining the Warburg effect
Stefan Schuster (University of Jena, Germany)

09:40 - 10:20
Reconstruction of Caenorhabditis elegans metabolism - a new resource to support healthy aging in nematodes
Christoph Kaleta (Christian-Albrechts-Universität zu Kiel, Germany)

10:20 - 10:50 Coffee break

10:50 - 11:30
Metabolic reprogramming in the glioblastoma cell: a systems approach
Anu Raghunathan (National Chemical Laboratory, India)

11:30 - 12:10
Analysing the contribution of Plasmodium falciparum to whole body glucose metabolism in malaria patients
Jacky Snoep (Stellenbosch University, South Africa)

12:10 - 12:50
Exploring Trypanosoma brucei energy metabolism using modelling and metabolomic
Fiona Achar (University of Glasgow, United Kingdom)

12:50 - 14:00 Lunch

Session 6 - Metabolic Engineering 2 Thursday 11 June 2015

14:00 - 14:40
Strain design for improved productivity, yield and robustness
Radhakrishnan Mahadevan (University of Toronto, Canada)

14:40 - 15:20
Enforced ATP futile cycling increases specific productivity and yield of anaerobic lactate production in Escherichia coli
Oliver Haedicke (Max-Planck-Institute, Germany)

15:20 - 15:40 Coffee break

15:40 - 16:20
MODCELL- rational design of modular cells for combinatorial biosynthesis of novel molecules
Cong Trinh (University of Tennessee, U.S.A.)

16:20 - 17:00
Analysing the feasibility of growth-coupled product synthesis in microbial strains using the concept of elementary flux vectors
Steffen Klamt (Max Planck Institute for Dynamics of Complex Technical Systems, Germany)

17:00 - 20:00 Poster session 2 & drinks

20:00 Dinner

Session 7 – Omics Data Integration Friday 12 June 2015

08:30 - 09:10
Mapping the fitness landscape of enzyme expression uncovers the cause of antagonism and sign epistasis between adaptive mutations
Christopher Marx (University of Idaho, U.S.A.)

09:10 - 09:50
Which elementary flux modes are biologically relevant?
Juergen Zanghellini (Austrian Centre of Industrial Biotechnology, Austria)

09:50 - 10:30
Pathway level culture media engineering
Rui Oliveira (Faculty of Science and Technology, University Nova de Lisboa, Portugal)

10:30 - 11:00 Coffee break

11:00 - 11:40
In-vivo catalytic rates estimated from proteomics match in-vitro measurements
Dan Davidi (Weizmann institute of science, Israel)

11:40 - 12:20
Testing of network completion algorithms and mutant growth-rate predictions using genome-scale datasets
Igor Libourel (University of Minnesota, USA)

12:20 - 12:40 Closing session

12:40 Lunch

Speakers

Friedrich Srienc

University of California San Diego, U.S.A.

Markus Herrgård

Technical University of Denmark, Denmark

Nathan Lewis

University of California San Diego, U.S.A.

Daniel Machado

University of Minho, Portugal

Ferenc Pal

Biological Research Centre of the Hungarian Academy of Sciences, Hungary

Thomas Pfeiffer

Massey University, New Zealand

Ines Heiland

University of Tromsø, Norway

Hyun-Seob Song

Pacific Northwest National Laboratory, U.S.A.

Stefan Mueller

Radon Institute for Computational and Applied Mathematics (RICAM), Austria

Arne Reimers

Centrum Wiskunde & Informatica, Netherlands

José Faria

Argonne National Laboratory, U.S.A.

Dipali Singh

Oxford Brookes University, United Kingdom

David Heckmann

HHU Duesseldorf, Germany

Anna Matuszyńska

Heinrich-Heine University Düsseldorf, Germany

Daniel Segre

Boston University, U.S.A.

Kristopher Hunt

Montana State University, U.S.A.

Michael Henson

University of Massachusetts, U.S.A.

Stefan Schuster

University of Jena, Germany

Christoph Kaleta

Christian-Albrechts-Universität zu Kiel, Germany

Anu Raghunathan

National Chemical Laboratory, India

Jacky Snoep

Stellenbosch University, South Africa

Fiona Achar

University of Glasgow, United Kingdom

Radhakrishnan Mahadevan

University of Toronto, Canada

Oliver Haedicke

Max-Planck-Institute, Germany

Cong Trinh

University of Tennessee, U.S.A.

Steffen Klamt

Max Planck Institute for Dynamics of Complex Technical Systems, Germany

Christopher Marx

University of Idaho, U.S.A.

Juergen Zanghellini

Austrian Centre of Industrial Biotechnology, Austria

Rui Oliveira

Faculty of Science and Technology, University Nova de Lisboa, Portugal

Dan Davidi

Weizmann institute of science, Israel

Igor Libourel

University of Minnesota, USA

Workshop

Computational Metabolic Pathway Analysis with OptFlux (registration required)

Paulo Maia & Paulo Vilaça

Optflux

OptFlux is an open-source and modular software to support in silico metabolic engineering tasks aimed at being the reference computational application in the field. A major new release of OptFlux is now available, with several important improvements and new features.

Requirements

Participants must have a computer with a valid internet connection (preferentially groups of 2 people).

Download and install OptFlux v 3.2.7.

Download workshop materials: will be made available soon.

Synopsis

Metabolic Models

Introduction to OptFlux

Metabolic Models - assumptions and representation

Hands-on OptFlux models:

Model formats; Loading and exporting; Model information/representation.

Phenotype prediction and Strain optimization

Introduction

Phenotype prediction methods and assumptions

Hands-on OptFlux simulation:

Wild-type prediction; Mutant phenotype predictions; Solution robustness; Maximum theoretical yields; Defining and using environmental conditions.

Introduction to Strain Optimization

Strain optimization strategies

Hands-on OptFlux Strain Optimization:

Configuration and execution; Interpreting results.

Poster Sessions

Poster Sessions

Poster session 1: Tuesday 9th June (5 pm - 8:00pm)

Poster session 2: Thursday 11th June (5 pm - 8:00pm)

Presentation Details

The Poster board is 92 cm wide and 142 cm high (portrait orientation)

Recommended poster size: DIN A0 (84.1 cm width x 118.9 cm height)

Setup

Fixing materials to mount the posters will be provided at the meeting.

Poster Session 1: Posters should be set up on Monday evening and removed before Wednesday at midday (12:00).

Poster Session 2: Posters should be set up on Wednesday evening and removed before Friday at midday (12:00).

Posters remaining after the indicated time will be removed and recycled.

The local to place the posters will be assigned according to a poster ID number that presenters can check here.

Best Poster Award

The Best Poster Award will be given to the best poster presentation at the MPA’15 Conference, which will be selected by an ad hoc committee based in two main dimensions:

Research substance, including the quality and originality of the research idea, as well as the methodology and execution of the research

Presentation, including the clearness of the presented information, the presenter’s quality of communication and the ability to convey the research and its results to the poster audience.

Selected posters:

Jan Ewald: Impact of intermediate toxicity on the regulation of metabolic pathways

Esther Sundermann: The effect of light on the evolution of C4 plants

Leonor Guedes da Silva: Metabolic analysis of EBPR phosphate/glycogen accumulating organisms

Printing Service

Poster printing service will NOT be available at the venue. However, all interested presenters can send us (conferencempa2015-posters@outlook.com) their posters in pdf format (portrait orientation – size A0), until June 3rd and we will print them.

This service has a cost of 30€, to be paid at the event check-in process, where presenters should pick up their posters.

Venue

Bom Jesus do Monte

Many hilltops in Portugal and other parts of Europe have been sites of religious devotion since antiquity, and it is possible that the Bom Jesus hill was one of these. However, the first indication of a chapel over the hill dates from 1373. This chapel - dedicated to the Holy Cross - was rebuilt in the 15th and 16th centuries. In 1629 a pilgrimage church was built dedicated to the Bom Jesus (Good Jesus), with six chapels dedicated to the Passion of Christ.

The present Sanctuary started being built in 1722, under the patronage of the Archbishop of Braga, Rodrigo de Moura Telles. His coat of arms is seen over the gateway, in the beginning of the stairway. Under his direction the first stairway row, with chapels dedicated to the Via Crucis, were completed. Each chapel is decorated with terra cotta sculptures depicting the Passion of Christ. He also sponsored the next segment of stairways, which has a zigzag shape and is dedicated to the Five Senses. Each sense (Sight, Smell, Hearing, Touch, Taste) is represented by a different fountain. At the end of this stairway, a Baroque church was built around 1725 by architect Manuel Pinto Vilalobos.

The works on the first chapels, stairways and church proceeded through the 18th century. In an area behind the church (the Terreiro dos Evangelistas), three octagonal chapels were built in the 1760s with statues depicting episodes that occur after the Crucifixion, like the meeting of Jesus with Mary Magdalene. The exterior design of the beautiful chapels is attributed to renowned Braga architect André Soares. Around these chapels there are four Baroque fountains with statues of the Evangelists, also dating from the 1760s.

Around 1781, archbishop Gaspar de Bragança decided to complete the ensemble by adding a third segment of stairways and a new church. The third stairway also follows a zigzag pattern and is dedicated to the Three Theological Virtues: Faith, Hope and Charity, each with its fountain. The old church was demolished and a new one was built following a Neoclassic design by architect Carlos Amarante. This new church, began in 1784, had its interior decorated in the beginning of the 19th century and was consecrated in 1834. The main altarpiece is dedicated to the Crucifixion.

In the 19th century, the area around the church and stairway was expropriated and turned into a park. In 1882, to facilitate the access to the Sanctuary, the water balance Bom Jesus funicular was built linking the city of Braga to the hill. This was the first funicular to be built in the Iberian Peninsula and is still in use.

from wikipedia

Accommodation

Hotel do Parque (Park's Hotel)

Housed in a nineteenth century building, in the stunning Natural Park of Bom Jesus and among romantic gardens, the newly renovated Hotel do Parque features a spa, a piano bar and modern rooms. Breakfast can be served in the bedroom.

Guests have free access to the wellness area of Hotel do Templo, 60 meters away, which includes an indoor pool, a Turkish bath, a hot tub and a gym. All guests have 10% discount on massages.

Guests can also enjoy traditional cuisine and green wines from Minho region in the panoramic restaurant, located in Hotel Elevator, 50 meters away.

The historic Bom Jesus Church, of neoclassical style, is just a 5 minute walk away and offers views over the hills of the Gerês and Soajo.

Hotel do Parque also possesses a game room and a fire place.

Hotel do Elevador (Elevator's Hotel)

This hotel owes its name to the water powered elevator, built in 1882, one of the oldest in the world. This elevator takes us from the uptown city of Braga to the Sanctuary and Hotels.

In its panoramic restaurant, the kitchen is a world of sensations, mixing traditional cuisine of northern Portugal with the best of national and regional wines like green wine (Vinho Verde).

Hotel do Elevador also possesses a summer terrace, the Tílias Terrasse.

Hotel do Templo (Temple's Hotel)

This hotel's facade, remodeled and turned to the sanctuary, considered one of the first neoclassical buildings in Portugal, hides a modern hotel with the benefits of a health club, a spa and conference rooms.

Hotel do Templo also possesses a safe in each bedroom, cardio-fitness, jacuzzi and turkish bath areas, as well as an indoor swimming pool.

Hotel do Lago (Lake's Hotel)

This hotel stands on the hilltop of Bom Jesus. Its panoramic terrace is the ideal place to contemplate the serenity of Serra do Gerês while enjoying a sophisticated stay.

Hotel do Lago also possesses a Health Center completed with cardio-fitness, jacuzzi, turkish bath, sauna and massages.

All hotels are equipped with

24 hour reception

Parking space

Room services

Laundry room

Babysitting

Fax/copy services

Bicycle rental

Complete bathroom

Hair dryer

Telephone

Air conditioning

Satellite TV

Bar/mini-bar

Wireless internet

Meeting room

Meals

Lunch will be provided at Bom Jesus on conference days 9, 10, 11, 12. Dinner will also be held at Bom Jesus on 8, 9, 11 June.

The conference dinner takes place in Convento do Carmo on 10th June.

Food restrictions

Regarding the meals to be taken during the conference, if you have any food restrictions or allergies, please contact us to conferencempa2015@outlook.com, so we can comply with your needs.

Also, if you have any issues or doubts, please, fell free to contact us at any time to conferencempa2015@outlook.com.

How to get there

Conference shuttle

A private shuttle service, operating from Oporto’s airport (Aeroporto Sá Carneiro) to the event’s venue (Hoteis do Bom Jesus, Braga) will be available for participants arriving on the 8th of June and/or leaving on the 12th of June.

The cost of the shuttle will be 8-10 euros (depending on the number of people) and will depart from Porto airport at specific schedules (to be defined). The payment is made upon check in at the conference’s location.

Please inform the organization if you intend to take the conference shuttle to the venue’s location until the 1st of June.

Alternative transportation

Bus

You can take a shuttle from Porto airport to Braga’s city center following the link.

Once in the city center, urban bus services can take you close to the venue’s location (link).

Train

If you prefer traveling by train you can take the metro train to Porto (link).

And then the train to Braga city center (link).

Once in the city center, urban bus services can take you close to the venue’s location (link):
Complete route (link):

sponsors

Contact us

If you require any further information, please contact:
The Conference Office
Biochemical Society
Charles Darwin House
12 Roger Street
London WC1N 2JU
UK

Email: mpa@ceb.uminho.pt

Telephone (Conference Office): +44 (0)207 685 2450
Telephone (Main reception): +44 (0)207 685 2400
Fax: +44 (0)207 685 2467