understanding marine microbial diversity: how ...seafront-project.eu/images/ocean_of_tomorrow... ·...
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Understanding marine microbial diversity: How bioinformatics can promote ecological knowledge
and biotechnological applications
Dr. Johanna B. Wesnigk,EMPA Bremen
On behalf of Prof. Frank Oliver Glöckner, Coordinator of Micro B3
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Issues at Stake: Why Does it Matter
•Lack of understanding of microbial marine diversity, now combined with genomic dataexplosion:
• Who is out there, … and what are they doing ?•Our Approach:
• Genomic knowledge helps to get a grip on• black box of unknown but potentially important
microorganisms, • their functions in ecology & for biotechnology
• Knowing the environmental conditions helps• to relate diversity to function• to develop new biotechnological applications
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Environmental Bioinformatics
EnvironmentOrganisms
Function
Ecosystem Biology
Statistics Key parameters
Modelling Predictions
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Ecosystem Ecosystem functioningfunctioningMarine micro-algae: �responsible for45% of global netprimary production
Micro-organisms:Main recyclers of organic carbon
How do marine foodwebs adapt to global warming and ocean acidification?
How can we useknowledge to feed& fuel human population ?
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WP 1Management
& Coordination
JacobsUni
WP 2Ocean Sampling
DayUOXS
WP 3Oceanography
& Environmental Data
MARIS
WP 5Bioinformatics
& Data Integration
MPIMM
WP 7Function
&Biotechnology
UGRO
WP 8Intellectual
PropertyManagement
UCL
Start: 1 January 2012; Duration: 4 years;32 partners (Involvement of stakeholders PharmaMar, SMEs, IGOs)
WP 9Dissemination
&TrainingEMPA
WP 6Exploring
Ecosystems BiologyCNRS
WP 4Standards andInteroperability
EMBL-EBI
Biodiversity Bioinformatics Biotechnology
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Predicted (bio-)diversity hotspots from:de Monte eta al. 2013; The ISME Journal 7, 2054-2056 (October 2013) | doi:10.1038/ismej.2013.72
Routes of Tara Oceans and Malaspina Cruises, focusing on marine micro-organisms
www.oceansamplingday.org
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Including Citizen Science
Legal Framework
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From Visualising Bacteria to Understanding Genomes
Micro B3 deliveries:• Multidisciplinary
communication• Informatics services & tools
for Big Data (geo&bio)• IPR models for researchers,
policy and industry• Bioinformatics prediction
through our integratedMicro B3 Information System
Genomics
Oceanography
Biodi
vers
ity
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13
Micro B3 publications
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What can Bioinformatics do forDiversity & Functions?
Poster: Unraveling the unknown unknowns in the metagenomic protein universe using graphical modelsA. Fernàndez-Guerra et al. (Cork, 2012)
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From Harvesting to Data Mining► Mining genomic data is efficient and
environmental friendly alternative
► Building capacity in bioinformatics:training,TT and KT for next generation of researchers• able to understand multidisciplinary needs• with skill set to work across disciplines
• Bridge information gap to biotechnologicalresearch and application• Proving activity of bioinformatic predictions,
embedded into environmental context• Marine Micr’Omics for Biotech Applications,
Industry Expert Workshop: • PharmaMar headquarters near Madrid, 3-4
November 2014
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Bioinformatics systems & services help scientiststo keep their heads above the surface !
Thank you for your [email protected]
GATC
Drowning in an ocean of (sequence) data ??