Peroxisome Interactions and Communication

Project Information

PERICO

Grant agreement ID: 812968

DOI 10.3030/812968

Project closed

EC signature date 30 August 2018

Start date 1 October 2018

End date 31 March 2023

Funded under

• EXCELLENT SCIENCE - Marie Skłodowska-Curie Actions

Total cost € 3 974 527,44

EU contribution € 3 974 527,44

Coordinated by

RIJKSUNIVERSITEIT GRONINGEN
Netherlands

Deliverables

Other (7)

Researcher Declarations on Conformity
All ESRs are recruited
4.3 Awards of doctoral degrees

Awards of doctoral degrees. For universities with PhD programmes of 4 years (Netherlands and Belgium) and 4.5 years (Israel) this will be achieved only at months 54 and 60, respectively.

"4.2 Conference organisation ""Peroxisome Interactions and Communication"""

Conference organisation “Peroxisome Interactions and Communication”

4.1 Training School including scientific and transferable skills courses

Training Schools including scientific and transferable skills courses organized

PERICO vacancies advertised
5.1 Project website

Project website

Documents, reports (2)

5.5 Education Programme Report

Education Programme Report

5.6 Public dissemination of project results after protection

Public dissemination of project results after protection

Publications

Book chapters (7)

Assessment of the Peroxisomal Redox State in Living Cells Using NADPH- and NAD+/NADH-Specific Fluorescent Protein Sensors

Author(s): Cláudio F Costa Hongli Li Mohamed A F Hussein Yi Yang Celien Lismont Marc Fransen
Published in: Methods in Molecular Biology, Issue 2643, 2023, Page(s) 183-197, ISBN 978-1-0716-3048-8
Publisher: Humana
DOI: 10.1007/978-1-0716-3048-8_13

Isolation of Glycosomes from Trypanosoma brucei

Author(s): Krishna, C.K., Franke, L., Erdmann, R., Kalel, V.C.
Published in: Methods in Molecular Biology book series (MIMB, volume 2643), 2023, ISBN 978-1-0716-3048-8
Publisher: Humana, New York, NY
DOI: 10.1007/978-1-0716-3048-8_3

Identification of Peroxisome-Derived Hydrogen Peroxide-Sensitive Target Proteins Using a YAP1C-Based Genetic Probe

Author(s): Celien Lismont Iulia Revenco Cláudio F Costa Hongli Li Mohamed A F Hussein Paul P Van Veldhoven Rita Derua Marc Fransen
Published in: Methods in Molecular Biology, Issue 2643, 2023, Page(s) 161-181, ISBN 978-1-0716-3048-8
Publisher: Humana
DOI: 10.1007/978-1-0716-3048-8_12

Applying CRISPR-Cas9 Genome Editing to Study Genes Involved in Peroxisome Biogenesis or Peroxisomal Functions

Author(s): Chornyi S, Koster J, Waterham HR
Published in: Methods Mol Biol, Issue 2643, 2023, Page(s) 233-245, ISBN 978-1-0716-3047-1
Publisher: Humana, New York, NY
DOI: 10.1007/978-1-0716-3048-8_17

Analysis of Yeast Peroxisomes via Spatial Proteomics

Author(s): Hirak Das, Alexandros Zografakis, Silke Oeljeklaus, Bettina Warscheid
Published in: Methods in Molecular Biology (Peroxisomes: Methods and protocols), Issue Vol. 2643, 2023, Page(s) 13-31, ISBN 978-1-0716-3048-8
Publisher: Humana
DOI: 10.1007/978-1-0716-3048-8_2

Peroxisomal Dysfunction and Oxidative Stress in Neurodegenerative Disease: A Bidirectional Crosstalk

Author(s): Marc Fransen, Iulia Revenco, Hongli Li, Cláudio F. Costa, Celien Lismont, Paul P. Van Veldhoven
Published in: Peroxisome Biology: Experimental Models, Peroxisomal Disorders and Neurological Diseases, Issue 1299, 2020, Page(s) 19-30, ISBN 978-3-030-60203-1
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-60204-8_2

Generation of Reporter Cell Lines for Endogenous Expression Analysis of Peroxisomal Proteins

Author(s): Silva, Beatriz S. C.; Schrader, Tina A.; Schrader, Michael; Carmichael, Ruth E.
Published in: Methods Mol Biol, Issue 2643, 2023, Page(s) 247-270, ISSN 1940-6029
Publisher: Springer
DOI: 10.1007/978-1-0716-3048-8_18

Peer reviewed articles (18)

Organoids as a model to study intestinal and liver dysfunction in severe malnutrition

Author(s): José M. Horcas-Nieto, Christian J. Versloot, Miriam Langelaar-Makkinje, Albert Gerding, Tjasso Blokzijl, Mirjam H. Koster, Mirjam Baanstra, Ingrid A. Martini, Robert P. Coppes, Céline Bourdon, Sven C.D. van Ijzendoorn, Peter Kim, Robert H.J. Bandsma, Barbara M. Bakker
Published in: Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease, Issue 1869 (3), 2023, ISSN 0925-4439
Publisher: Elsevier BV
DOI: 10.1016/j.bbadis.2022.166635

The Peroxisome-Autophagy Redox Connection: A Double-Edged Sword?

Author(s): Hongli Li, Celien Lismont, Iulia Revenco, Mohamed A. F. Hussein, Cláudio F. Costa, Marc Fransen
Published in: Frontiers in Cell & Developmental Biology, 2021, Page(s) 1-16, ISSN 2296-634X
Publisher: Frontiers Media S.A
DOI: 10.3389/fcell.2021.814047

The origin of long-chain fatty acids required for de novo ether lipid/plasmalogen synthesis.

Author(s): Chornyi S, Ofman R, Koster J, Waterham HR
Published in: J Lipid Res, Issue 100364, 2023, Page(s) In press, ISSN 1539-7262
Publisher: American Society for Biochemistry and Molecular Biology
DOI: 10.1016/j.jlr.2023.100364

Rebalancing of mitochondrial homeostasis through an NAD+-SIRT1 pathway preserves intestinal barrier function in severe malnutrition

Author(s): Ling C, Versloot CJ, Arvidsson Kvissberg ME, Hu G, Swain N, Horcas-Nieto JM, Miraglia E, Thind MK, Farooqui A, Gerding A, van Eunen K, Koster MH, Kloosterhuis NJ, Chi L, ChenMi Y, Langelaar-Makkinje M, Bourdon C, Swann J, Smit M, de Bruin A, Youssef SA, Feenstra M, van Dijk TH, Thedieck K, Jonker JW, Kim PK, Bakker BM, Bandsma RHJ
Published in: EBioMedicine, Issue 96, 2023, Page(s) 104809, ISSN 2352-3964
Publisher: Elsevier BV
DOI: 10.1016/j.ebiom.2023.104809

OrganelX web server for sub-peroxisomal and sub-mitochondrial protein localization and peroxisomal target signal detection

Author(s): Marco Anteghini,Asmaa Haja,Vitor A.P. Martins dos Santos,Lambert Schomaker, Edoardo Saccentia
Published in: Computational and Structural Biotechnology Journal, Issue 21, 2022, Page(s) 128-133, ISSN 2001-0370
Publisher: ScienceDirect
DOI: 10.1016/j.csbj.2022.11.058

Towards automatization of organoid analysis: A deep learning approach to localize and quantify organoid images

Author(s): Asmaa Haja, José M. Horcas-Nieto, Barbara M. Bakker, Lambert Schomaker
Published in: Computer Methods and Programs in Biomedicine Update, Issue 3, 2023, ISSN 2666-9900
Publisher: Elsevier BV
DOI: 10.1016/j.cmpbup.2023.100101

Insights Into the Peroxisomal Protein Inventory of Zebrafish

Author(s): Kamoshita, Maki; Kumar, Rechal; Anteghini, Marco; Kunze, Markus; Islinger, Markus; Martins dos Santos, Vítor; Schrader, Michael
Published in: Frontiers in Physiology, 2022, ISSN 1664-042X
Publisher: Frontiers Research Foundation
DOI: 10.3389/fphys.2022.822509

The peroxisome: an update on mysteries 3.0

Author(s): Kumar, Rechal; Islinger, Markus; Worthy, Harley; Carmichael, Ruth; Schrader, Michael
Published in: Histochem Cell Biol, Issue 161, 2024, Page(s) 99-132, ISSN 1432-119X
Publisher: Springer
DOI: 10.1007/s00418-023-02259-5

Maintaining social contacts: The physiological relevance of organelle interactions

Author(s): Beatriz S C Silva, Laura DiGiovanni, Rechal Kumar , Ruth E Carmichael, Peter K Kim, Michael Schrader
Published in: Biochim Biophys Acta Mol Cell Res, Issue 1867(11):118800, 2020, ISSN 0167-4889
Publisher: Elsevier BV
DOI: 10.1016/j.bbamcr.2020.118800

Differential roles for ACBD4 and ACBD5 in peroxisome–ER interactions and lipid metabolism

Author(s): Joseph L. Costello, Janet Koster, Beatriz S.C. Silva, Harley L. Worthy, Tina A. Schrader, Christian Hacker, Josiah Passmore, Frans A. Kuypers, Hans R. Waterham, Michael Schrader
Published in: J Biol Chem, Issue 299, 2023, Page(s) 105013, ISSN 1083-351X
Publisher: Elsevier
DOI: 10.1016/j.jbc.2023.105013

Enhanced Levels of Peroxisome-Derived H2O2 Do Not Induce Pexophagy but Impair Autophagic Flux in HEK-293 and HeLa Cells

Author(s): Hongli Li Celien Lismont Cláudio F Costa Mohamed A F Hussein Myriam Baes Marc Fransen
Published in: Antioxidants, Issue 12 (613), 2023, Page(s) 1-21, ISSN 2076-3921
Publisher: MDPI
DOI: 10.3390/antiox12030613

Peroxisome-Derived Hydrogen Peroxide Modulates the Sulfenylation Profiles of Key Redox Signaling Proteins in Flp-In T-REx 293 Cells

Author(s): Celien Lismont, Iulia Revenco, Hongli Li, Cláudio F. Costa, Lisa Lenaerts, Mohamed A. F. Hussein, Jonas De Bie, Bernard Knoops, Paul P. Van Veldhoven, Rita Derua, Marc Fransen
Published in: Frontiers in Cell and Developmental Biology, Issue 10:888873, 2022, Page(s) 1-19, ISSN 2296-634X
Publisher: Frontiers Media S.A.
DOI: 10.3389/fcell.2022.888873

Uncovering targeting priority to yeast peroxisomes using an in-cell competition assay

Author(s): Mira Rosenthal 1, Eyal Metzl-Raz 1, Jérôme Bürgi 2, Eden Yifrach 1, Layla Drwesh 3, Amir Fadel 1, Yoav Peleg 4, Doron Rapaport 3, Matthias Wilmanns 2 5, Naama Barkai 1, Maya Schuldiner 6, Einat Zalckvar 6
Published in: PNAS, Issue 117 (35), 2020, Page(s) 21432-21440, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.1920078117

Pex14p Phosphorylation Modulates Import of Citrate Synthase 2 Into Peroxisomes in Saccharomyces cerevisiae.

Author(s): Andreas Schummer; Renate Maier; Shiran Gabay-Maskit; Tobias Hansen; Wignand W. D. Mühlhäuser; Ida Suppanz; Amir Fadel; Maya Schuldiner; Wolfgang Girzalsky; Silke Oeljeklaus; Silke Oeljeklaus; Einat Zalckvar; Ralf Erdmann; Bettina Warscheid; Bettina Warscheid
Published in: Frontiers in Cell and Developmental Biology, Issue 20, 2020, ISSN 2296-634X
Publisher: Frontiers Media S.A.
DOI: 10.3389/fcell.2020.549451

Peroxisomal Hydrogen Peroxide Metabolism and Signaling in Health and Disease

Author(s): Lismont, Revenco, Fransen
Published in: International Journal of Molecular Sciences, Issue 20/15, 2019, Page(s) 3673, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms20153673

DIMA: Data-Driven Selection of an Imputation Algorithm.

Author(s): Janine Egert; Eva Brombacher; Bettina Warscheid; Clemens Kreutz
Published in: Journal of Proteome Research, Issue 20, 2021, ISSN 1535-3893
Publisher: American Chemical Society
DOI: 10.1021/acs.jproteome.1c00119

Molecular basis of the glycosomal targeting of PEX11 and its mislocalization to mitochondrion in trypanosomes

Author(s): Krishna, Chethan K.; Schmidt, Nadine; Tippler, Bettina G.; Schliebs, Wolfgang; Jung, Martin; Winklhofer, Konstanze F.; Erdmann, Ralf; Kalel, Vishal C.
Published in: Frontiers Cell and Developmental Biology, Issue 1, 2023, ISSN 2296-634X
Publisher: Frontiers Media SA
DOI: 10.3389/fcell.2023.1213761

Peroxisomal Metabolite and Cofactor Transport in Humans.

Author(s): Chornyi S, IJlst L, van Roermund CWT, Wanders RJA, Waterham HR
Published in: Front Cell Dev Biol, Issue 8, 2021, Page(s) 613892, ISSN 2296-634X
Publisher: Frontiers Media SA
DOI: 10.3389/fcell.2020.613892

Conference proceedings (2)

A Fully Automated End-to-End Process for Fluorescence Microscopy Images of Yeast Cells: From Segmentation to Detection and Classification

Author(s): Asmaa Haja, Lambert Schomaker
Published in: Proceedings of 2021 International Conference on Medical Imaging and Computer-Aided Diagnosis (MICAD 2021), 2021, Page(s) 10, ISBN 978-981-16-3880-0
Publisher: Springer
DOI: 10.1007/978-981-16-3880-0_5

A Comparison of Different U-Net Models for Segmentation of Overlapping Organoids

Author(s): Marco Anteghini, Asmaa Haja, Vitor AP Martins dos Santos, Lambert Schomaker, Edoardo Saccenti
Published in: ICBBE '22: Proceedings of the 2022 9th International Conference on Biomedical and Bioinformatics Engineering, 2022, Page(s) 1-10
Publisher: Association for Computing Machinery (ACM)
DOI: 10.1145/3574198.3574199

Other (3)

Finding Balance: A series of U-Net models forImage Segmentation of Overlapping organoids

Author(s): Stefania Radu, Asmaa Haja, Lambert Schomaker
Published in: 2022, Page(s) 1-19
Publisher: University of Groningen

OrganelX Web Server for Sub-Peroxisomal and Sub-Mitochondrial protein localisation

Author(s): Marco Anteghini, Asmaa Haja, Vitor AP Martins dos Santos, Lambert Schomaker, Edoardo Saccenti
Published in: 2022
Publisher: bioRxiv
DOI: 10.1101/2022.06.21.497045

PEX1 is essential for the glycosome biogenesis and trypanosomatid parasite survival

Author(s): Mahadevan, Lavanya; Arya, Hemant; Schliebs, Wolfgang; Erdmann, Ralf; Kalel, Vishal C.
Published in: BioRxiv, Issue 21, 2023, ISSN 2692-8205
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2023.08.05.550684

Thesis and dissertations (1)

Unravelling the molecular mechanisms of peroxisome-organelle communication and interplay

Author(s): Beatriz Silva
Published in: 2023
Publisher: University of Exeter