Background information

The purpose of the workshop is to enhance connectivity between researchers at both, SciLifeLab and EMBL, to identify new collaboration ideas, and to promote joint technology and infrastructure resource development within Planetary Biology.

This is one of many workshops that will follow the conclusion of the MoU between SciLifeLab and EMBL in 2021.

The workshop is a hybrid event. Physical location is the EMBL Heidelberg campus, where in-person attendance is limited. Allocation of spaces is on a first-come first-served basis. Proof of COVID-19 vaccination or recovery is required for on-site attendance. Please see EMBL’s COVID-19 terms and conditions

Please note: there are two separate registration links for on-site or virtual participation. In case you sign up for on-site participation but your availability changes, please make sure to inform the responsible contacts.

The workshop will include talks on a broad set of themes including:

  • Biodiversity Genomics & Reference Genome Sequencing
  • Ecology & Evolution
  • Biogeochemistry & Ecosystems
  • Data-driven Planetary Biology,

As well as invited keynote speakers and panel discussions.

Agenda

Day 1, Monday 16th May, 2022

13:00Welcome and opening remarks

Edith Heard
Director General of EMBL

Olli Kallioniemi
Director of SciLifeLab
13:10Introduction and overview of Planetary Biology

Detlev Arendt
Planetary Biology Co-Chair, Senior Scientist, Group Leader, EMBL

Olga Vinnere Pettersson & Stefan Bertilsson
Co-Leads Planetary Biology Capability, SciLifeLab
13:30Session 1: Biodiversity Genomics & Reference Genome Sequencing (15 mins + 5 mins Q&A per speaker in each session)

Moderator
Peter Harrison, Genome Analysis Team Leader, EMBL-EBI

Speakers
Fergal Martin, Global biodiversity efforts to sequence, assemble and annotate all eukaryotic life

Kerstin Lindblad Toh (remote), Zoonomia: comparative genetics and genomics to understand genome evolution and disease

Detlev Arendt, The multimodal cellular atlas of the marine annelid Platynereis dumerilii

Ove Nilsson, Conifer reference genome and genetic diversity sequencing
14:50 Coffee break
15:10Session 2: Ecology & Evolution

Moderator
Olga Vinnere Pettersson, Co-Lead Planetary Biology Capability, SciLifeLab

Speakers
Love Dalén, Studying evolutionary change in real-time using palaeogenomics

Michael Dorrity, Measuring hidden phenotypes with single-cell genomics

James Sharpe (remote), SYNTERRA: Studying dryland soil ecosystems in mesocosms

Anna Rosling, Unearthing hidden interactions in soil
16:30Keynote: Chromosomally complete genomes across the Tree of Life
Mark Blaxter, Wellcome Sanger Institute
17:15Coffee break
17:30Closed presentation and IC tour
18:30Networking opportunity (speakers, panellists, moderators, and signed up guests only)

Day 2, Tuesday 17th May, 2022

09:00Arrival and Coffee
09:30Keynote: Eco-evolutionary dynamics of phage-host interactions in the wild + 5mins Q&A
Martin Polz, University of Vienna
10:20Session 3: Biogeochemistry & Ecosystems
(15 mins + 5 mins Q&A per speaker in each session)

Moderator
Stefan Bertilsson, Co-Lead Planetary Biology Capability, SciLifeLab

Speakers
Michael Zimmermann, Group Leader in Structural and Computational Biology, EMBL

Sara Hallin, The nitrogen cycle as a modular network of interconnected microbial assets

Flora Vincent, Viral impacts in the marine world: from single-cells to planktonic ecosystems

Mark Dopson, Shining a light into the deep dark biosphere reveals core adapted microbial communities
11:40 Networking lunch
12:40Session 4: Data-driven Planetary Biology

Moderator
Oliver Stegle, Associate Group Leader in Genome Biology, EMBL

Speakers
Tomas Roslin (remote), LIFEPLAN – a planetary synthesis of life through DNA, image and audio

Peer Bork, Analysing microbes on our planet

Anders Andersson, Ecology and evolution of the Baltic Sea microbiome

Anna Kreshuk, Analysing all cells in a whole organism
14:00Summary and Q&A
14:15Coffee break
14:45Panel Discussion 1: Technological Infrastructure Needs for PB Research

Moderator
Stefan Bertilsson, Co-Lead Planetary Biology Capability, SciLifeLab

Panelists
Yannick Schwab, Team Leader Volume Correlative Light and Electron Microscopy and Head of Electron Microscopy Core Facility, EMBL

Timo Zimmermann, Team Leader Advanced Light Microscopy Technology Development and Service Provision, EMBL

Linda Sandblad, Scientific Platform Director Cellular and Molecular Imaging, Umeå University, SciLifeLab

Olga Vinnere Pettersson, Project coordinator at Department of Immunology, Genetics and Pathology, Uppsala University; Co-Lead Planetary Biology Capability, SciLifeLab

Annika Johansson, Head of Swedish Metabolomics Centre, Umeå University, SciLifeLab
15:30Short break
15:40Panel Discussion 2: Data Collection in PB Research

Moderator
Olga Vinnere Pettersson, Co-Lead Planetary Biology Capability, SciLifeLab

Panelists
Rainer Pepperkok, Director of Scientific Core Facilities and Scientific Services, Team Leader Membrane traffic and Organelle Biogenesis, EMBL

Stefan Bertilsson, Professor in Functional Ecology of Freshwaters, Swedish University of Agricultural Sciences; Director of the Swedish Infrastructure for Ecosystem Science (SITES); Co-Lead Planetary Biology Capability, SciLifeLab

Fredrik Ronquist, Professor in the Department of Bioinformatics and Genetics, Swedish Museum of Natural History; Swedish Biodiversity Data Infrastructure (SBDI)
16:25Short break
16:35Panel Discussion 3: Data Management and Processing in PB Research

Moderator
Fergal Martin, Eukaryotic Annotation Team Leader, EMBL-EBI

Panelists
Lokeshwaran Manoharan, Expert in Metagenomics; National Bioinformatics Infrastructure Sweden (NBIS)

Johan Rung, Head of Data Center, SciLifeLab

Guy Cochrane (remote), Team Leader Data Coordination and Archiving, EMBL-EBI
17:20Conclusion and Closing Remarks

Speakers & Organizers

About the speakers

Mark Blaxter

Programme Lead for Tree of Life Programme and Senior Group Leader in Evolutionary Genomics at Wellcome Sanger Institute

Martin Polz

Professor at University of Vienna in the Department of Microbiology and Ecosystem Science

Session 1: Biodiversity Genomics & Reference Genome Sequencing

Kerstin Lindblad Toh

Professor in Comparative Genomics, Uppsala University, Scientific Director of Vertebrate Genome Biology, Broad Institute

image of Detlev Arendt

Detlev Arendt

Group Leader, Senior Scientist and Academic Mentor Postdoctoral Training

Arendt Group

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Session 2: Ecology & Evolution

Olga Vinnere Pettersson

Biodiversity project coordinator at the National Genomics Infrastructure; Co-Lead Planetary Biology Capability, SciLifeLab

Love Dalén

Professor of Evolutionary Genetics, Swedish Museum of Natural History, Research Leader at Center for Palaeogenetics, Stockholm

Anna Rosling

Group Leader Ecology and Evolution in Soil Fungi, Uppsala University

Session 3: Biogeochemistry & Ecosystems

Stefan Bertilsson

Professor in Functional Ecology of Freshwaters, Swedish University of Agricultural Sciences; Director of the Swedish Infrastructure for Ecosystem Science (SITES); Co-Lead Planetary Biology Capability, SciLifeLab

Sara Hallin

Professor at the Department of Forest Mycology and Plant Pathology, Swedish University of Agricultural Sciences

Mark Dopson

Professor at the Department of Biology and Environmental Science, Linnaeus University

Session 4: Data-driven Planetary Biology

Tomas Roslin

Professor at the Department of Ecology, Swedish University of Agricultural Sciences

Anders Andersson

Group Leader in Environmental Genomics, Royal Institute of Technology

Panel Discussion 1

image of Yannick Schwab

Yannick Schwab

Team Leader and Head of Electron Microscopy Core Facility

Schwab Team

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Linda Sandblad

Scientific Platform Director Cellular and Molecular Imaging, Umeå University, SciLifeLab

Olga Vinnere Pettersson

Biodiversity project coordinator at the National Genomics Infrastructure; Co-Lead Planetary Biology Capability, SciLifeLab

Annika Johansson

Head of Swedish Metabolomics Centre, Umeå University, SciLifeLab; Research coordinator at Department of Plant Physiology, Umeå Plant Science Centre

Panel Discussion 2

Stefan Bertilsson

Professor in Functional Ecology of Freshwaters, Swedish University of Agricultural Sciences; Director of the Swedish Infrastructure for Ecosystem Science (SITES); Co-Lead Planetary Biology Capability, SciLifeLab

Fredrik Ronquist

Professor in the Department of Bioinformatics and Genetics, Swedish Museum of Natural History; Swedish Biodiversity Data Infrastructure (SBDI)

Panel Discussion 3

Johan Rung

Head of Data Centre, SciLifeLab; Researcher in the Department of Immunology, Genetics and Pathology, Uppsala University

image of Guy Cochrane

Guy Cochrane

Team Leader, Data Coordination and Archiving

Data Coordination and Archiving

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Workshop Organizers

International Relations

Planetary Biology Transversal Theme

Opportunities at EMBL

Find out more in our brochures

EMBL’s new scientific Programme Molecules to Ecosystems

This new Programme will expand EMBL’s scope to study the molecular basis of life in the context of changing environments, transforming our understanding of life on earth and informing potential solutions for some of society’s biggest challenges, such as irreversible loss of biodiversity, antimicrobial resistance, pollution, climate change, food security, and emergent pathogens.

Annual Report 2020

Collaborative discovery in challenging times – how EMBL continued operations while adapting to the pandemic.

EMBL’s scientific services

EMBL provides life science researchers in Europe and beyond with access to the very latest in scientific technologies, infrastructure, and data resources.

EMBL Scientific Visitor Programme

The EMBL Scientific Visitor Programme is part of the EMBL International Centre for Advanced Training and provides visiting scientists with logistical and organisational support, to make their stay at EMBL a pleasant and productive experience.

EMBL International PhD Programme

Provides prospective students with valuable information about the EMBL International PhD Programme and gives answers to the most frequently asked questions.

EMBL Postdoctoral Programme

Find out more about opportunities for postdoctoral research at EMBL, and read success stories of former postdoctoral fellows.

EMBLetc.

The latest issue of the magazine of the European Molecular Biology Laboratory, focusing on One Health. Including Info on the DeepMind database, wrangling an octopus-like polymerase, and Mobile DNA sequencing.

Research in Brief 2019

Research in Brief gives an overview of the research and services at EMBL. It introduces all group and team leaders.

Date: Monday 16th May – Tuesday 17th May 2022

Time: Monday 13:00-17:30 (CEST) / Tuesday 09:30-17:30

Location: Large Operon & Online


Contacts:

Sarah Kaiser, International Relations Officer, EMBL

Dilyana Spasova, Operations Officer, EMBL

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