Inheritance, expressivity and epistasis hidden behind the phenotypic landscape of natural populations

Informacje na temat projektu

PhenomeNal

Identyfikator umowy o grant: 772505

DOI

10.3030/772505

Projekt został zamknięty

Data podpisania przez KE 6 Marca 2018

Data rozpoczęcia 1 Września 2018

Data zakończenia 28 Lutego 2025

Finansowanie w ramach

• EXCELLENT SCIENCE - European Research Council (ERC)

Koszt całkowity

€ 1 999 882,00

Wkład UE

€ 1 999 882,00

Koordynowany przez

UNIVERSITE DE STRASBOURG
France

CORDIS oferuje możliwość skorzystania z odnośników do publicznie dostępnych publikacji i rezultatów projektów realizowanych w ramach programów ramowych HORYZONT.

Odnośniki do rezultatów i publikacji związanych z poszczególnymi projektami 7PR, a także odnośniki do niektórych konkretnych kategorii wyników, takich jak zbiory danych i oprogramowanie, są dynamicznie pobierane z systemu OpenAIRE .

Publikacje

Peer reviewed articles (29)

Species-Wide Transposable Element Repertoires Retrace the Evolutionary History of the Saccharomyces cerevisiae Host

Autorzy: Claudine Bleykasten-Grosshans, Romeo Fabrizio, Anne Friedrich, Joseph Schacherer
Opublikowane w: Molecular Biology and Evolution, Numer 38/10, 2021, Strona(/y) 4334-4345, ISSN 1537-1719
Wydawca: Oxford University Press
DOI: 10.1093/molbev/msab171

Translation variation across genetic backgrounds reveals a post-transcriptional buffering signature in yeast

Autorzy: Elie M Teyssonniere, Yuichi Shichino, Mari Mito, Anne Friedrich, Shintaro Iwasaki, Joseph Schacherer
Opublikowane w: Nucleic Acids Research, Numer 52, 2024, Strona(/y) 2434-2445, ISSN 0305-1048
Wydawca: Oxford University Press
DOI: 10.1093/nar/gkae030

Towards accurate, contiguous and complete alignment-based polyploid phasing algorithms

Autorzy: Omar Abou Saada, Anne Friedrich, Joseph Schacherer
Opublikowane w: Genomics, Numer 114, 2024, Strona(/y) 110369, ISSN 0888-7543
Wydawca: Academic Press
DOI: 10.1016/j.ygeno.2022.110369

Non-additive genetic components contribute significantly to population-wide gene expression variation

Autorzy: Andreas Tsouris, Gauthier Brach, Joseph Schacherer, Jing Hou
Opublikowane w: Cell Genomics, Numer 4, 2024, Strona(/y) 100459, ISSN 2666-979X
Wydawca: Cell Genomics
DOI: 10.1016/j.xgen.2023.100459

Contrasting Genomic Evolution Between Domesticated and Wild<i>Kluyveromyces lactis</i>Yeast Populations

Autorzy: Anne Friedrich, Jean-Sébastien Gounot, Andreas Tsouris, Claudine Bleykasten, Kelle Freel, Claudia Caradec, Joseph Schacherer
Opublikowane w: Genome Biology and Evolution, Numer 15, 2023, ISSN 1759-6653
Wydawca: Oxford University Press
DOI: 10.1093/gbe/evad004

Pan-transcriptome reveals a large accessory genome contribution to gene expression variation in yeast

Autorzy: Élodie Caudal, Victor Loegler, Fabien Dutreux, Nikolaos Vakirlis, Élie Teyssonnière, Claudia Caradec, Anne Friedrich, Jing Hou, Joseph Schacherer
Opublikowane w: Nature Genetics, Numer 56, 2024, Strona(/y) 1278-1287, ISSN 1061-4036
Wydawca: Nature Publishing Group
DOI: 10.1038/s41588-024-01769-9

Species-wide quantitative transcriptomes and proteomes reveal distinct genetic control of gene expression variation in yeast

Autorzy: Elie Marcel Teyssonnière, Pauline Trébulle, Julia Muenzner, Victor Loegler, Daniela Ludwig, Fatma Amari, Michael Mülleder, Anne Friedrich, Jing Hou, Markus Ralser, Joseph Schacherer
Opublikowane w: Proceedings of the National Academy of Sciences, Numer 121, 2024, ISSN 0027-8424
Wydawca: National Academy of Sciences
DOI: 10.1073/pnas.2319211121

Lessons from the meiotic recombination landscape of the ZMM deficient budding yeast Lachancea waltii

Autorzy: Fabien Dutreux, Abhishek Dutta, Emilien Peltier, Sabrina Bibi-Triki, Anne Friedrich, Bertrand Llorente, Joseph Schacherer
Opublikowane w: PLOS Genetics, Numer 19, 2023, Strona(/y) e1010592, ISSN 1553-7404
Wydawca: PLOS Genetics
DOI: 10.1371/journal.pgen.1010592

Telomere-to-telomere assemblies of 142 strains characterize the genome structural landscape in Saccharomyces cerevisiae

Autorzy: Samuel O’Donnell, Jia-Xing Yue, Omar Abou Saada, Nicolas Agier, Claudia Caradec, Thomas Cokelaer, Matteo De Chiara, Stéphane Delmas, Fabien Dutreux, Téo Fournier, Anne Friedrich, Etienne Kornobis, Jing Li, Zepu Miao, Lorenzo Tattini, Joseph Schacherer, Gianni Liti, Gilles Fischer
Opublikowane w: Nature Genetics, Numer 55, 2023, Strona(/y) 1390-1399, ISSN 1061-4036
Wydawca: Nature Publishing Group
DOI: 10.1038/s41588-023-01459-y

Phased polyploid genomes provide deeper insight into the multiple origins of domesticated Saccharomyces cerevisiae beer yeasts

Autorzy: Omar Abou Saada, Andreas Tsouris, Chris Large, Anne Friedrich, Maitreya J. Dunham, Joseph Schacherer
Opublikowane w: Current Biology, Numer 32, 2024, Strona(/y) 1350-1361.e3, ISSN 0960-9822
Wydawca: Cell Press
DOI: 10.1016/j.cub.2022.01.068

Natural proteome diversity links aneuploidy tolerance to protein turnover

Autorzy: Julia Muenzner, Pauline Trébulle, Federica Agostini, Henrik Zauber, Christoph B. Messner, Martin Steger, Christiane Kilian, Kate Lau, Natalie Barthel, Andrea Lehmann, Kathrin Textoris-Taube, Elodie Caudal, Anna-Sophia Egger, Fatma Amari, Matteo De Chiara, Vadim Demichev, Toni I. Gossmann, Michael Mülleder, Gianni Liti, Joseph Schacherer, Matthias Selbach, Judith Berman, Markus Ralser
Opublikowane w: Nature, Numer 630, 2024, Strona(/y) 149-157, ISSN 0028-0836
Wydawca: Nature Publishing Group
DOI: 10.1038/s41586-024-07442-9

The dynamics of loss of heterozygosity events in genomes

Autorzy: Abhishek Dutta, Joseph Schacherer
Opublikowane w: EMBO Reports, 2025, ISSN 1469-3178
Wydawca: EMBO
DOI: 10.1038/s44319-024-00353-w

Diallel panel reveals a significant impact of low-frequency genetic variants on gene expression variation in yeast

Autorzy: Andreas Tsouris, Gauthier Brach, Anne Friedrich, Jing Hou, Joseph Schacherer
Opublikowane w: Molecular Systems Biology, Numer 20, 2024, Strona(/y) 362-373, ISSN 1744-4292
Wydawca: Nature Publishing Group
DOI: 10.1038/s44320-024-00021-0

nPhase: an accurate and contiguous phasing method for polyploids

Autorzy: Omar Abou Saada, Andreas Tsouris, Chris Eberlein, Anne Friedrich, Joseph Schacherer
Opublikowane w: Genome Biology, Numer 22/1, 2021, ISSN 1474-760X
Wydawca: Springer Nature
DOI: 10.1186/s13059-021-02342-x

Loss of Heterozygosity Spectrum Depends on Ploidy Level in Natural Yeast Populations

Autorzy: Abhishek Dutta, Fabien Dutreux, Joseph Schacherer
Opublikowane w: Molecular Biology and Evolution, Numer 39, 2022, ISSN 0737-4038
Wydawca: Oxford University Press
DOI: 10.1093/molbev/msac214

Loss-of-function mutation survey revealed that genes with background-dependent fitness are rare and functionally related in yeast

Autorzy: Elodie Caudal, Anne Friedrich, Arthur Jallet, Marion Garin, Jing Hou, Joseph Schacherer
Opublikowane w: Proceedings of the National Academy of Sciences, Numer 119, 2022, ISSN 0027-8424
Wydawca: National Academy of Sciences
DOI: 10.1073/pnas.2204206119

High complexity and degree of genetic variation in Brettanomyces bruxellensis population

Autorzy: Jean-Sébastien Gounot, Cécile Neuvéglise, Kelle C Freel, Hugo Devillers, Jure Piškur, Anne Friedrich, Joseph Schacherer
Opublikowane w: Genome Biology and Evolution, 2020, ISSN 1759-6653
Wydawca: Oxford University Press
DOI: 10.1093/gbe/evaa077

Discordant evolution of mitochondrial and nuclear yeast genomes at population level

Autorzy: Matteo De Chiara, Anne Friedrich, Benjamin Barré, Michael Breitenbach, Joseph Schacherer, Gianni Liti
Opublikowane w: BMC Biology, Numer 18/1, 2020, ISSN 1741-7007
Wydawca: BioMed Central
DOI: 10.1186/s12915-020-00786-4

Extensive impact of low-frequency variants on the phenotypic landscape at population-scale

Autorzy: Téo Fournier, Omar Abou Saada, Jing Hou, Jackson Peter, Elodie Caudal, Joseph Schacherer
Opublikowane w: eLife, Numer 8, 2019, ISSN 2050-084X
Wydawca: eLife Sciences Publications
DOI: 10.7554/elife.49258

Pervasive Phenotypic Impact of a Large Nonrecombining Introgressed Region in Yeast

Autorzy: Christian Brion, Claudia Caradec, David Pflieger, Anne Friedrich, Joseph Schacherer
Opublikowane w: Molecular Biology and Evolution, 2020, ISSN 0737-4038
Wydawca: Oxford University Press
DOI: 10.1093/molbev/msaa101

Impact of the acquired subgenome on the transcriptional landscape in <i>Brettanomyces bruxellensis</i> allopolyploids

Autorzy: Arthur Jallet, Anne Friedrich, Joseph Schacherer
Opublikowane w: G3: Genes, Genomes, Genetics, Numer 13, 2024, ISSN 2160-1836
Wydawca: Genetics Society of America
DOI: 10.1093/g3journal/jkad115

Species-wide survey of the expressivity and complexity spectrum of traits in yeast

Autorzy: Andreas Tsouris, Téo Fournier, Anne Friedrich, Jing Hou, Maitreya J. Dunham, Joseph Schacherer
Opublikowane w: PLOS Genetics, Numer 20, 2024, Strona(/y) e1011119, ISSN 1553-7404
Wydawca: PLOS Genetics
DOI: 10.1371/journal.pgen.1011119

Loss of heterozygosity results in rapid but variable genome homogenization across yeast genetic backgrounds

Autorzy: Abhishek Dutta, Fabien Dutreux, Joseph Schacherer
Opublikowane w: eLife, Numer 10, 2021, ISSN 2050-084X
Wydawca: eLife Sciences Publications
DOI: 10.7554/elife.70339

Extensive simulations assess the performance of genome-wide association mapping in various<i>Saccharomyces cerevisiae</i>subpopulations

Autorzy: Jackson Peter, Anne Friedrich, Gianni Liti, Joseph Schacherer
Opublikowane w: Philosophical Transactions of the Royal Society B: Biological Sciences, Numer 377, 2023, ISSN 0962-8436
Wydawca: Royal Society of London
DOI: 10.1098/rstb.2020.0514

Overview of the Saccharomyces cerevisiae population structure through the lens of 3,034 genomes

Autorzy: Victor Loegler, Anne Friedrich, Joseph Schacherer
Opublikowane w: G3 Genes|Genomes|Genetics, 2024, ISSN 2160-1836
Wydawca: Genetics Society of America
DOI: 10.1093/g3journal/jkae245

Different trajectories of polyploidization shape the genomic landscape of the<i>Brettanomyces bruxellensis</i>yeast species

Autorzy: Chris Eberlein, Omar Abou Saada, Anne Friedrich, Warren Albertin, Joseph Schacherer
Opublikowane w: Genome Research, Numer 31, 2023, Strona(/y) 2316-2326, ISSN 1088-9051
Wydawca: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gr.275380.121

Copy number variation alters local and global mutational tolerance

Autorzy: Grace Avecilla, Pieter Spealman, Julia Matthews, Elodie Caudal, Joseph Schacherer, David Gresham
Opublikowane w: Genome Research, Numer 33, 2023, Strona(/y) 1340-1353, ISSN 1088-9051
Wydawca: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gr.277625.122

Multiple independent losses of crossover interference during yeast evolutionary history

Autorzy: Abhishek Dutta, Fabien Dutreux, Marion Garin, Claudia Caradec, Anne Friedrich, Gauthier Brach, Pia Thiele, Maxime Gaudin, Bertrand Llorente, Joseph Schacherer
Opublikowane w: PLOS Genetics, Numer 20, 2024, Strona(/y) e1011426, ISSN 1553-7404
Wydawca: PLOS Genetics
DOI: 10.1371/journal.pgen.1011426

Dissection of quantitative trait loci in the Lachancea waltii yeast species highlights major hotspots

Autorzy: Emilien Peltier, Sabrina Bibi-Triki, Fabien Dutreux, Claudia Caradec, Anne Friedrich, Bertrand Llorente, Joseph Schacherer
Opublikowane w: G3 Genes|Genomes|Genetics, Numer 11/9, 2021, ISSN 2160-1836
Wydawca: Genetics Society of America
DOI: 10.1093/g3journal/jkab242