
The
initiative is active within HUPO and EUPA. The
initiative re-named back from the recently used “Initiative on multi-organism
proteomics” to its original name, “Initiative for model organism proteomics”,
as the fields of action have been re-oriented.
1. Definition model organism
iMOP
considers organisms as models when they are appropriate to address its fields
of action, especially those relevant i) to the study of biological mechanisms
of importance to human health and disease, ii) to better understand
pathogenicity, pathogen reservoirs, and the emergence of resistance, and iii) those
that can be used as sentinels of our environment or relevant for the One-Health
concept.
2. Fields of Action- Evolutionary Biology and Medicine
- Comparative
proteomics to identify and characterize new molecular fundamental mechanisms, especially
those difficult to study directly in humans, and take advantage of different evolutionary
trajectories to find new therapeutic/preventive levers for human health
- Proteogenomics
on model organisms to identify novel coding sequences, delineate their
structure and regulatory elements, characterize the function of the encoded
proteins, and understand their phylogenetic occurrence, and derive information
for the human proteome annotation
- Proteomics
to identify and characterize new biologics and drugs and their potential
therapeutic performances
- Environmental proteomics and toxicology
- Proteomics
to understand the fate of pathogens in the environment, their reservoirs, their
spread, and the development of antibiotic resistances
- Toxicoproteomics
to analyse the effects of environmental factors and pollutants on model
organisms and derive knowledge for human health
- Ecotoxicoproteomics
with sentinel organisms to monitor the quality of the environment
3. Means & Tools
- Promote
the development of databases and tools to improve inter-organism comparison and
better link proteins from models with human diseases (homology-search,
orthology-search, function definition, post-translational modifications and
maturation, relative protein abundances and regulations)
- Benchmark
proteogenomics tools and promote ideas to improve the annotation of the genomes
of representative branches of the tree of life and understand the code of life
(relationships between genome/transcriptome/proteome/metabolome)
- Instigate
the use of single-cell proteomics for valuable models to understand the
heterogeneities in term of cell structure, functioning, and response to changes
in their environment
- Contribute
to establish some models as sentinels for monitoring the environment and models
that could be representative for toxicology measurements
- Promote
the relevance of some models to the study of either the mechanisms that
underlie human pathophysiology or the mechanisms that could help fight human
diseases
- Federate
efforts for new methodologies to identify and characterize new biologics and
drugs and evaluate their potential therapeutic performances
4. Links with other EuPA initiatives Synergies will be
explored with EuBIC (databases and bioinformatics pipelines), Metaproteomics
Initiative (holobiont models, microorganisms as source of new biologics), Food
and Nutrition Proteomics (models to understand diseases), Standardization
(proteogenomics, toxicoproteomics, ecotoxicoproteomics).
5.
Next activities:- September
2021: online meeting to further discuss and develop the agenda; estimated
number of participants. 10-15
- Development
of (a) common project(s) to be worked on
- Session
at EuPA conference in 2022 (Leipzig)
6.
Chairs- New
chairs will be elected in Sept. 2021 (online meeting)
Chair: Andreas
Tholey, Kiel, GermanyCo-chairs: Jean Armengaud, Univ. Paris-Saclay,
France Fabrice Bertile, Univ. de
Strasbourg, France Dörte Becher, Univ. Greifswald, Germany
Key documents and links:
Journal of Proteomics – Volume 73, Issue 11, Pages 2051-2290 (10 October 2010):Model organism proteomics Edited by Christian H. Ahrens, Sabine P. Schrimpf, Erich Brunner and Ruedi Aebersold
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Heazlewood JL, Schrimpf SP, Becher D, Riedel K, Tholey A, Bendixen E (2015). Multi-organism proteomes (iMOP): advancing our understanding of human biology. Proteomics, 15: 2885-2894.
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Jones AM, Aebersold R, Ahrens CH, Apweiler R, Baerenfaller K, Baker M, Bendixen E, Briggs S, Brownridge P, Brunner E, Daube M, Deutsch EW, Grossniklaus U, Heazlewood J, Hengartner MO, Hermjakob H, Jovanovic M, Lawless C, Lochnit G, Martens L, Ravnsborg C, Schrimpf SP, Shim YH, Subasic D, Tholey A, van Wijk K, von Mering C, Weiss M, Zheng X (2012). The HUPO initiative on Model Organism Proteomes, iMOP. Proteomics, 12: 340-345.
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Tholey A, Treitz C, Kussmann M, Bendixen E, Schrimpf SP, Hengartner MO. (2013). Model organism proteomics - from holobionts to human nutrition. Proteomics, 13: 2537 - 2541.
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