The macroevolutionary impact of epigenetics and lateral gene transfer on eukaryotic genomes

Informazioni relative al progetto

Macro-EpiK

ID dell’accordo di sovvenzione: 803151

DOI

10.3030/803151

Progetto chiuso

Data della firma CE 10 Ottobre 2018

Data di avvio 1 Marzo 2019

Data di completamento 28 Febbraio 2025

Finanziato da

• EXCELLENT SCIENCE - European Research Council (ERC)

Costo totale

€ 1 499 945,00

Contributo UE

€ 1 499 945,00

Coordinato da

CENTRE NATIONAL DE LA RECHERCHE SCIENTIFIQUE CNRS
France

CORDIS fornisce collegamenti ai risultati finali pubblici e alle pubblicazioni dei progetti ORIZZONTE.

I link ai risultati e alle pubblicazioni dei progetti del 7° PQ, così come i link ad alcuni tipi di risultati specifici come dataset e software, sono recuperati dinamicamente da .OpenAIRE .

Risultati finali

Open Research Data Pilot (1)

Data Management Plan

Participation to the Open Research Data Pilot

Pubblicazioni

Peer reviewed articles (20)

Molecular characterization of the conoid complex in Toxoplasma reveals its conservation in all apicomplexans, including Plasmodium species

Autori: Ludek Koreny, Mohammad Zeeshan, Konstantin Barylyuk, Eelco C. Tromer, Jolien J. E. van Hooff, Declan Brady, Huiling Ke, Sara Chelaghma, David J. P. Ferguson, Laura Eme, Rita Tewari, Ross F. Waller
Pubblicato in: PLOS Biology, Numero 19/3, 2021, Pagina/e e3001081, ISSN 1545-7885
Editore: PLOS
DOI: 10.1371/journal.pbio.3001081

One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade

Autori: Jazmin Blaz, Luis Javier Galindo, Aaron A. Heiss, Harpreet Kaur, Guifré Torruella, Ashley Yang, L. Alexa Thompson, Alexander Filbert, Sally Warring, Apurva Narechania, Takashi Shiratori, Ken-ichiro Ishida, Joel B. Dacks, Purificación López-García, David Moreira, Eunsoo Kim, Laura Eme
Pubblicato in: Scientific Data, Numero 10, 2023, ISSN 2052-4463
Editore: Springer Science and Business Media LLC
DOI: 10.1038/s41597-023-02488-2

Genomics of Preaxostyla Flagellates Illuminates the Path Towards the Loss of Mitochondria

Autori: Lukáš V. F. Novák, Sebastian C. Treitli, Jan Pyrih, Paweł Hałakuc, Shweta V. Pipaliya, Vojtěch Vacek, Ondřej Brzoň, Petr Soukal, Laura Eme, Joel B. Dacks, Anna Karnkowska, Marek Eliáš, Vladimír Hampl
Pubblicato in: PLOS Genetics, Numero 19, 2023, Pagina/e e1011050, ISSN 1553-7404
Editore: Public Library of Science (PLoS)
DOI: 10.1371/journal.pgen.1011050

Releasing uncurated datasets is essential for reproducible phylogenomics

Autori: Eric D. Salomaki, Laura Eme, Matthew W. Brown, Martin Kolisko
Pubblicato in: Nature Ecology & Evolution, Numero 4/11, 2020, Pagina/e 1435-1437, ISSN 2397-334X
Editore: Nature Publishing Group
DOI: 10.1038/s41559-020-01296-w

A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses

Autori: Daniel Tamarit, Eva F. Caceres, Mart Krupovic, Reindert Nijland, Laura Eme, Nicholas P. Robinson, Thijs J. G. Ettema
Pubblicato in: Nature Microbiology, Numero 7, 2022, Pagina/e 948-952, ISSN 2058-5276
Editore: Springer Science and Business Media LLC
DOI: 10.1038/s41564-022-01122-y

Marine Sediments Illuminate Chlamydiae Diversity and Evolution

Autori: Jennah E. Dharamshi, Daniel Tamarit, Laura Eme, Courtney W. Stairs, Joran Martijn, Felix Homa, Steffen L. Jørgensen, Anja Spang, Thijs J.G. Ettema
Pubblicato in: Current Biology, Numero 30/6, 2020, Pagina/e 1032-1048.e7, ISSN 0960-9822
Editore: Cell Press
DOI: 10.1016/j.cub.2020.02.016

PhyloFisher: A phylogenomic package for resolving eukaryotic relationships

Autori: Alexander K. Tice, David Žihala, Tomáš Pánek, Robert E. Jones, Eric D. Salomaki, Serafim Nenarokov, Fabien Burki, Marek Eliáš, Laura Eme, Andrew J. Roger, Antonis Rokas, Xing-Xing Shen, Jürgen F. H. Strassert, Martin Kolísko, Matthew W. Brown
Pubblicato in: PLOS Biology, Numero 19/8, 2021, Pagina/e e3001365, ISSN 1545-7885
Editore: PLOS
DOI: 10.1371/journal.pbio.3001365

Reconstructing the last common ancestor of all eukaryotes

Autori: Thomas A. Richards, Laura Eme, John M. Archibald, Guy Leonard, Susana M. Coelho, Alex de Mendoza, Christophe Dessimoz, Pavel Dolezal, Lillian K. Fritz-Laylin, Toni Gabaldón, Vladimír Hampl, Geert J. P. L. Kops, Michelle M. Leger, Purificacion Lopez-Garcia, James O. McInerney, David Moreira, Sergio A. Muñoz-Gómez, Daniel J. Richter, Iñaki Ruiz-Trillo, Alyson E. Santoro, Arnau Sebé-Pedrós, Be
Pubblicato in: PLOS Biology, Numero 22, 2024, Pagina/e e3002917, ISSN 1545-7885
Editore: Public Library of Science (PLoS)
DOI: 10.1371/journal.pbio.3002917

Lateral Gene Transfer Mechanisms and Pan-genomes in Eukaryotes

Autori: Shannon J. Sibbald, Laura Eme, John M. Archibald, Andrew J. Roger
Pubblicato in: Trends in Parasitology, Numero 36/11, 2020, Pagina/e 927-941, ISSN 1471-4922
Editore: Elsevier BV
DOI: 10.1016/j.pt.2020.07.014

Anaeramoebae are a divergent lineage of eukaryotes that shed light on the transition from anaerobic mitochondria to hydrogenosomes

Autori: Courtney W. Stairs, Petr Táborský, Eric D. Salomaki, Martin Kolisko, Tomáš Pánek, Laura Eme, Miluše Hradilová, Čestmír Vlček, Jon Jerlström-Hultqvist, Andrew J. Roger, Ivan Čepička
Pubblicato in: Current Biology, 2021, ISSN 0960-9822
Editore: Cell Press
DOI: 10.1016/j.cub.2021.10.010

Chlamydial contribution to anaerobic metabolism during eukaryotic evolution

Autori: Courtney W. Stairs, Jennah E. Dharamshi, Daniel Tamarit, Laura Eme, Steffen L. Jørgensen, Anja Spang, Thijs J. G. Ettema
Pubblicato in: Science Advances, Numero 6/35, 2020, ISSN 2375-2548
Editore: American Association for the Advancement of Science
DOI: 10.1126/sciadv.abb7258

Site-and-branch-heterogeneous analyses of an expanded dataset favour mitochondria as sister to known Alphaproteobacteria

Autori: Sergio A. Muñoz-Gómez, Edward Susko, Kelsey Williamson, Laura Eme, Claudio H. Slamovits, David Moreira, Purificación López-García, Andrew J. Roger
Pubblicato in: Nature Ecology & Evolution, Numero 6, 2022, Pagina/e 253-262, ISSN 2397-334X
Editore: Springer Science and Business Media LLC
DOI: 10.1038/s41559-021-01638-2

Phylogenetic reconciliation: making the most of genomes to understand microbial ecology and evolution

Autori: Tom A Williams, Adrian A Davin, Lénárd L Szánthó, Alexandros Stamatakis, Noah A Wahl, Ben J Woodcroft, Rochelle M Soo, Laura Eme, Paul O Sheridan, Cecile Gubry-Rangin, Anja Spang, Philip Hugenholtz, Gergely J Szöllősi
Pubblicato in: The ISME Journal, Numero 18, 2024, ISSN 1751-7362
Editore: Nature Publishing Group
DOI: 10.1093/ismejo/wrae129

A gene-rich mitochondrion with a unique ancestral protein transport system

Autori: David Moreira, Jazmin Blaz, Eunsoo Kim, Laura Eme
Pubblicato in: Current Biology, Numero 34, 2025, Pagina/e 3812-3819.e3, ISSN 0960-9822
Editore: Cell Press
DOI: 10.1016/j.cub.2024.07.017

Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes

Autori: Laura Eme, Daniel Tamarit, Eva F. Caceres, Courtney W. Stairs, Valerie De Anda, Max E. Schön, Kiley W. Seitz, Nina Dombrowski, William H. Lewis, Felix Homa, Jimmy H. Saw, Jonathan Lombard, Takuro Nunoura, Wen-Jun Li, Zheng-Shuang Hua, Lin-Xing Chen, Jillian F. Banfield, Emily St John, Anna-Louise Reysenbach, Matthew B. Stott, Andreas Schramm, Kasper U. Kjeldsen, Andreas P. Teske, Brett J. Baker,
Pubblicato in: Nature, Numero 618, 2024, Pagina/e 992-999, ISSN 0028-0836
Editore: Nature Publishing Group
DOI: 10.1038/s41586-023-06186-2

Create, Analyze, and Visualize Phylogenomic Datasets Using PhyloFisher

Autori: Robert E. Jones, Alexander K. Tice, Marek Eliáš, Laura Eme, Martin Kolísko, Serafim Nenarokov, Tomáš Pánek, Antonis Rokas, Eric Salomaki, Jürgen F. H. Strassert, Xing‐Xing Shen, David Žihala, Matthew W. Brown
Pubblicato in: Current Protocols, Numero 4, 2024, ISSN 2691-1299
Editore: Wiley
DOI: 10.1002/cpz1.969

Expanded phylogeny of extremely halophilic archaea shows multiple independent adaptations to hypersaline environments

Autori: Brittany A. Baker, Ana Gutiérrez-Preciado, Álvaro Rodríguez del Río, Charley G. P. McCarthy, Purificación López-García, Jaime Huerta-Cepas, Edward Susko, Andrew J. Roger, Laura Eme, David Moreira
Pubblicato in: Nature Microbiology, Numero 9, 2024, Pagina/e 964-975, ISSN 2058-5276
Editore: Springer Science and Business Media LLC
DOI: 10.1038/s41564-024-01647-4

Molecular and morphological characterization of four new ancyromonad genera and proposal for an updated taxonomy of the Ancyromonadida

Autori: Naoji Yubuki, Guifré Torruella, Luis Javier Galindo, Aaron A. Heiss, Maria Cristina Ciobanu, Takashi Shiratori, Ken‐ichiro Ishida, Jazmin Blaz, Eunsoo Kim, David Moreira, Purificación López‐García, Laura Eme
Pubblicato in: Journal of Eukaryotic Microbiology, Numero 70, 2023, ISSN 1066-5234
Editore: Blackwell Publishing Inc.
DOI: 10.1111/jeu.12997

GTRpmix: A Linked General Time-Reversible Model for Profile Mixture Models

Autori: Hector Banos, Thomas K F Wong, Justin Daneau, Edward Susko, Bui Quang Minh, Robert Lanfear, Matthew W Brown, Laura Eme, Andrew J Roger
Pubblicato in: Molecular Biology and Evolution, Numero 41, 2024, ISSN 0737-4038
Editore: Oxford University Press
DOI: 10.1093/molbev/msae174

Independent Size Expansions and Intron Proliferation in Red Algal Plastid and Mitochondrial Genomes

Autori: Fabian van Beveren, Laura Eme, Purificación López-García, Maria Ciobanu, David Moreira
Pubblicato in: Genome Biology and Evolution, Numero 14, 2022, ISSN 1759-6653
Editore: Oxford University Press
DOI: 10.1093/gbe/evac037

Non-peer reviewed articles (2)

Microbial Diversity and Open Questions about the Deep Tree of Life

Autori: Laura Eme, Daniel Tamarit
Pubblicato in: Genome Biology and Evolution, Numero 16, 2024, ISSN 1759-6653
Editore: Oxford University Press
DOI: 10.1093/gbe/evae053

Life through the lens of metabolism

Autori: Laura Eme, Courtney W. Stairs
Pubblicato in: Nature Ecology & Evolution, Numero 6, 2022, Pagina/e 1590-1590, ISSN 2397-334X
Editore: Springer Science and Business Media LLC
DOI: 10.1038/s41559-022-01880-2