Uncovering and engineering the principles governing evolution and cellular control of bioenergetic organelles

Project Information

EvoConBiO

Grant agreement ID: 805046

DOI

10.3030/805046

Project closed

EC signature date 28 September 2018

Start date 1 July 2019

End date 31 May 2025

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 1 417 862,00

EU contribution

€ 1 417 862,00

Coordinated by

UNIVERSITETET I BERGEN
Norway

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

Open Research Data Pilot (1)

Data Management Plan

Publications

Peer reviewed articles (40)

Avoiding misleading estimates using mtDNA heteroplasmy statistics to study bottleneck size and selection

Author(s): Konstantinos Giannakis; Amanda K. Broz; Daniel B. Sloan; Iain G. Johnston
Published in: G3, Issue 13, 2023, Page(s) jkad068, ISSN 2160-1836
Publisher: Genetics Society of America
DOI: 10.1101/2022.09.06.506828

Intracellular Energy Variability Modulates Cellular Decision-Making Capacity

Author(s): R Kerr, S Jabbari, IG Johnston
Published in: Scientific Reports, Issue 91, 2019, Page(s) p20196, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-019-56587-5

Evolutionary inference across eukaryotes identifies universal features shaping organelle gene retention

Author(s): Konstantinos Giannakis, Samuel J. Arrowsmith, Luke Richards, Sara Gasparini, Joanna M. Chustecki, Ellen C. Røyrvik, Iain G. Johnston
Published in: Cell Systems, Issue 13, 2022, Page(s) 874-884, ISSN 2405-4712
Publisher: Elsevier
DOI: 10.1016/j.cels.2022.08.007

Sexually antagonistic evolution of mitochondrial and nuclear linkage

Author(s): Arunas Radzvilavicius, Sean Layh, Matthew D. Hall, Damian K. Dowling, Iain G. Johnston
Published in: Journal of Evolutionary Biology, Issue 34, 2024, Page(s) 757-766, ISSN 1010-061X
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/jeb.13776

The Nitroplast and Its Relatives Support a Universal Model of Features Predicting Gene Retention in Endosymbiont and Organelle Genomes

Author(s): Iain G Johnston
Published in: Genome Biology and Evolution, Issue 16, 2024, Page(s) evae132, ISSN 1759-6653
Publisher: Oxford University Press
DOI: 10.1093/gbe/evae132

Avoiding organelle mutational meltdown across eukaryotes with or without a germline bottleneck.

Author(s): David M. Edwards; Ellen C. Røyrvik; Joanna M. Chustecki; Konstantinos Giannakis; Robert C. Glastad; Arunas L. Radzvilavicius; Iain G. Johnston
Published in: PLoS Biology, Issue 19, 2020, Page(s) e3001153, ISSN 1544-9173
Publisher: Public Library of Science
DOI: 10.1371/journal.pbio.3001153

Comparing structure and dynamics of transition graphs by the symmetric difference metric over an edge-filtration

Author(s): Belén García Pascual, Lars M. Salbu, Jessica Renz, Konstantinos Giannakis, Iain G. Johnston
Published in: IEEE Access, Issue 12, 2025, Page(s) 81030, ISSN 2169-3536
Publisher: Institute of Electrical and Electronics Engineers Inc.
DOI: 10.1101/2024.01.29.577802

Efficient inference of evolutionary and progressive dynamics on hypercubic transition graphs

Author(s): Marcus T. Moen; Iain G. Johnston
Published in: Bioinformatics, Issue 39, 2023, Page(s) btac803, ISSN 1367-4811
Publisher: Oxford University Press
DOI: 10.1101/2022.05.09.491130

ATP dependence of decision-making capacity in a fine-grained model of gene regulatory networks

Author(s): Rajneesh Kumar, Iain G. Johnston
Published in: Journal of The Royal Society Interface, Issue 21, 2024, ISSN 1742-5662
Publisher: The Royal Society
DOI: 10.1098/rsif.2024.0246

A Picture Guide to Cancer Progression and Evolutionary Accumulation Models: Systematic Critique, Plausible Interpretations, and Alternative Uses

Author(s): Ramon Diaz-Uriarte, Iain G. Johnston
Published in: IEEE Access, Issue 13, 2025, Page(s) 62306-62340, ISSN 2169-3536
Publisher: Institute of Electrical and Electronics Engineers Inc.
DOI: 10.1109/access.2025.3558392

Stochastic organelle genome segregation through <i>Arabidopsis</i> development and reproduction

Author(s): Amanda K. Broz; Daniel B. Sloan; Iain G. Johnston
Published in: New Phytologist, Issue 241, 2024, Page(s) 896-910, ISSN 0028-646X
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/nph.19288

A hypercubic Mk model framework for capturing reversibility in disease, cancer, and evolutionary accumulation modelling

Author(s): Iain G. Johnston, Ramon Diaz-Uriarte
Published in: Bioinformatics, Issue 41, 2024, Page(s) btae737, ISSN 1367-4811
Publisher: Oxford University Press
DOI: 10.1101/2024.06.27.600959

Cellular and environmental dynamics influence species-specific extents of organelle gene retention

Author(s): Belén García Pascual; Jan M. Nordbotten; Iain G. Johnston
Published in: Proceedings of the Royal Society B, Issue 290, 2023, Page(s) 20222140, ISSN 0962-8452
Publisher: Royal Society of London
DOI: 10.1101/2022.10.17.512581

Mitochondrial network structure controls cell-to-cell mtDNA variability generated by cell divisions

Author(s): Robert C. Glastad; Iain G. Johnston
Published in: PLoS Computational Biology, Issue 19, 2023, Page(s) e1010953, ISSN 1553-734X
Publisher: Public Library of Science
DOI: 10.1101/2022.06.27.497759

Estimating physical conditions supporting gradients of ATP concentration in the eukaryotic cell

Author(s): Rajneesh Kumar, Iain G. Johnston
Published in: Biophysical Journal, Issue 2025, 2025, ISSN 0006-3495
Publisher: Biophysical Society
DOI: 10.1016/j.bpj.2025.06.016

Collective mitochondrial dynamics resolve conflicting cellular tensions: From plants to general principles

Author(s): Joanna M Chustecki, Iain G Johnston
Published in: Seminars in Cell & Developmental Biology, Issue 156, 2024, Page(s) 253-265, ISSN 1084-9521
Publisher: Academic Press
DOI: 10.1016/j.semcdb.2023.09.005

Clustering Large-Scale Biomedical Data to Model Dynamic Accumulation Processes in Disease Progression and Anti-Microbial Resistance Evolution

Author(s): Kazeem A. Dauda, Olav N. L. Aga, Iain G. Johnston
Published in: IEEE Access, Issue 13, 2025, Page(s) 13816-13831, ISSN 2169-3536
Publisher: Institute of Electrical and Electronics Engineers Inc.
DOI: 10.1109/access.2025.3527715

HyperTraPS-CT: Inference and prediction for accumulation pathways with flexible data and model structures

Author(s): Olav N. L. Aga, Morten Brun, Kazeem A. Dauda, Ramon Diaz-Uriarte, Konstantinos Giannakis, Iain G. Johnston
Published in: PLoS Computational Biology, Issue 20, 2025, Page(s) e10112393, ISSN 1553-7358
Publisher: PLoS
DOI: 10.1101/2024.03.07.583841

Metabolic role of the hepatic valine/3-hydroxyisobutyrate (3-HIB) pathway in fatty liver disease

Author(s): Mona Synnøve Bjune, Laurence Lawrence-Archer, Johnny Laupsa-Borge, Cathrine Horn Sommersten, Adrian McCann, Robert Clay Glastad, Iain George Johnston, Matthias Kern, Matthias Blüher, Gunnar Mellgren, Simon N. Dankel
Published in: eBioMedicine, Issue 91, 2023, ISSN 2352-3964
Publisher: Elsevier BV
DOI: 10.1016/j.ebiom.2023.104569

MtDNA sequence features associated with ‘selfish genomes’ predict tissue-specific segregation and reversion

Author(s): Ellen C Røyrvik, Iain G Johnston
Published in: Nucleic Acids Research, Issue 48/15, 2020, Page(s) 8290-8301, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gkaa622

Evolution and maintenance of mtDNA gene content across eukaryotes

Author(s): Shibani Veeraragavan, Maria Johansen, Iain Johnston
Published in: Biochemical Journal, Issue 281, 2024, Page(s) 1015, ISSN 1470-8728
Publisher: Portland Press
DOI: 10.32942/x2hs53

Exchange on dynamic encounter networks allows plant mitochondria to collect complete sets of mitochondrial DNA products despite their incomplete genomes

Author(s): Konstantinos Giannakis; Joanna M. Chustecki; Iain G. Johnston
Published in: Quantitative Plant Biology, Issue 3, 2022, Page(s) e18, ISSN 2632-8828
Publisher: Cambridge University Press
DOI: 10.1017/qpb.2022.15

Mitochondrial Network State Scales mtDNA Genetic Dynamics

Author(s): Juvid Aryaman, Charlotte Bowles, Nick S. Jones, Iain G. Johnston
Published in: Genetics, Issue 212/4, 2019, Page(s) 1429-1443, ISSN 0016-6731
Publisher: Genetics Society of America
DOI: 10.1534/genetics.119.302423

Intracellular Energy Variability Modulates Cellular Decision-Making Capacity

Author(s): Iain G. Johnston; Iain G. Johnston; Ryan Kerr; Sara Jabbari
Published in: Scientific Reports, Vol 9, Iss 1, Pp 1-12 (2019), Issue 1, 2019, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1101/2019.12.13.875427

Ecological Predictors of Organelle Genome Evolution: Phylogenetic Correlations with Taxonomically Broad, Sparse, Unsystematized Data

Author(s): Konstantinos Giannakis, Luke Richards, Iain G Johnston
Published in: Systematic Biology, Issue 73, 2024, Page(s) 419-433, ISSN 1063-5157
Publisher: Taylor & Francis
DOI: 10.1093/sysbio/syae009

Evolving mtDNA populations within cells

Author(s): Iain G. Johnston, Joerg P. Burgstaller
Published in: Biochemical Society Transactions, Issue 47/5, 2019, Page(s) 1367-1382, ISSN 0300-5127
Publisher: Portland Press, Ltd.
DOI: 10.1042/bst20190238

Connecting species-specific extents of genome reduction in mitochondria and plastids

Author(s): Konstantinos Giannakis, Luke Richards, Kazeem A. Dauda, Iain G. Johnston
Published in: Molecular Biology and Evolution, Issue 41, 2025, Page(s) msae097, ISSN 1537-1719
Publisher: Oxford University Press
DOI: 10.1101/2023.12.14.571654

Sorting of mitochondrial and plastid heteroplasmy in Arabidopsis is extremely rapid and depends on MSH1 activity

Author(s): AK Broz, A Keene, M Fernandes Gyorfy, M Hodous, IG Johnston, DB Sloan
Published in: PNAS, Issue 119, 2022, Page(s) e2206973119, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.2206973119

Nucleoside supplements as treatments for mitochondrial DNA depletion syndrome

Author(s): Eszter Dombi, Tony Marinaki, Paolo Spingardi, Val Millar, Nastasia Hadjichristou, Janet Carver, Iain G. Johnston, Carl Fratter, Joanna Poulton
Published in: Frontiers in Cell and Developmental Biology, Issue 12, 2024, ISSN 2296-634X
Publisher: Frontiers Media SA
DOI: 10.3389/fcell.2024.1260496

Stromule geometry allows optimal spatial regulation of organelle interactions in the quasi-2D cytoplasm

Author(s): Jessica Lee Erickson; Jennifer Prautsch; Frisine Reynvoet; Frederik Niemeyer; Gerd Hause; Iain G. Johnston; Martin Schattat
Published in: Plant and Cell Physiology, Issue pcad098, 2023, ISSN 0032-0781
Publisher: Oxford University Press
DOI: 10.1101/2023.04.27.538610

2-Deoxy-D-glucose couples mitochondrial DNA replication with mitochondrial fitness and promotes the selection of wild-type over mutant mitochondrial DNA

Author(s): Boris Pantic, Daniel Ives, Mara Mennuni, Diego Perez-Rodriguez, Uxoa Fernandez-Pelayo, Amaia Lopez de Arbina, Mikel Muñoz-Oreja, Marina Villar-Fernandez, Thanh-mai Julie Dang, Lodovica Vergani, Iain G. Johnston, Robert D. S. Pitceathly, Robert McFarland, Michael G. Hanna, Robert W. Taylor, Ian J. Holt & Antonella Spinazzola
Published in: Nature Communications, 2021, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-021-26829-0

The cellular basis of feeding-dependent body size plasticity in sea anemones

Author(s): Kathrin Garschall, Eudald Pascal-Carreras, Belén Garcia-Pascual, Daria Filimonova, Annika Guse, Iain G. Johnston, Patrick R.H Steinmetz
Published in: Development, Issue 151, 2025, Page(s) dev202926, ISSN 1477-9129
Publisher: Company of Biologists
DOI: 10.1101/2023.05.15.540851

Altered collective mitochondrial dynamics in the Arabidopsis<i>msh1</i>mutant compromising organelle DNA maintenance

Author(s): Joanna M Chustecki; Ross D Etherington; Daniel J Gibbs; Iain G Johnston
Published in: Journal of Experimental Botany, Issue 73, 2022, Page(s) 5428-5439, ISSN 0022-0957
Publisher: Oxford University Press
DOI: 10.1093/jxb/erac250

Cell identity and nucleo-mitochondrial genetic context modulate OXPHOS performance and determine somatic heteroplasmy dynamics

Author(s): Ana Victoria Lechuga-Vieco, Ana Latorre-Pellicer, Iain G. Johnston, Gennaro Prota, Uzi Gileadi, Raquel Justo-Méndez, Rebeca Acín-Pérez, Raquel Martínez-de-Mena, Jose María Fernández-Toro, Daniel Jimenez-Blasco, Alfonso Mora, Jose A. Nicolás-Ávila, Demetrio J. Santiago, Silvia G. Priori, Juan Pedro Bolaños, Guadalupe Sabio, Luis Miguel Criado, Jesús Ruíz-Cabello, Vincenzo Cerundolo, Nick
Published in: Science Advances, Issue 6/31, 2020, Page(s) eaba5345, ISSN 2375-2548
Publisher: Science
DOI: 10.1126/sciadv.aba5345

HyperHMM: efficient inference of evolutionary and progressive dynamics on hypercubic transition graphs

Author(s): Marcus T Moen, Iain G Johnston
Published in: Bioinformatics, Issue 39, 2023, ISSN 1367-4803
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btac803

Network analysis of Arabidopsis mitochondrial dynamics reveals a resolved tradeoff between physical distribution and social connectivity

Author(s): Joanna M.Chustecki, Daniel J.Gibbs, George W.Bassel, Iain G.Johnston
Published in: Cell Systems, 2021, ISSN 2405-4712
Publisher: Cell Systems
DOI: 10.1016/j.cels.2021.04.006

Evolutionary accumulation modeling in AMR: machine learning to infer and predict evolutionary dynamics of multi-drug resistance

Author(s): Jessica Renz, Kazeem A. Dauda, Olav N. L. Aga, Ramon Diaz-Uriarte, Iren H. Löhr, Bjørn Blomberg, Iain G. Johnston
Published in: mBio, Issue 16, 2025, ISSN 2150-7511
Publisher: American Society for Microbiology
DOI: 10.1128/mbio.00488-25

Organelle bottlenecks facilitate evolvability by traversing heteroplasmic fitness valleys

Author(s): Arunas L. Radzvilavicius; Iain G. Johnston
Published in: Frontiers in Genetics, Issue 13, 2022, Page(s) 974472, ISSN 1664-8021
Publisher: Frontiers Media
DOI: 10.1101/2021.01.28.428572

Varied Mechanisms and Models for the Varying Mitochondrial Bottleneck

Author(s): Iain G. Johnston
Published in: Frontiers in Cell and Developmental Biology, Issue 7, 2019, ISSN 2296-634X
Publisher: Frontiers
DOI: 10.3389/fcell.2019.00294

Efficient vasculature investment in tissues can be determined without global information.

Author(s): Salva Duran-Nebreda; Iain G. Johnston; George W. Bassel
Published in: Journal of the Royal Society Interface, Issue 17, 2020, Page(s) 20200137, ISSN 1742-5689
Publisher: The Royal Society
DOI: 10.1098/rsif.2020.0137

Other (1)

Paternal leakage of organelles can improve adaptation to changing environments

Author(s): Arunas Radzvilavicius, Iain G. Johnston
Published in: 2024
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2020.12.18.423500