Explore the words cloud of the GENECLOCKS project. It provides you a very rough idea of what is the project "GENECLOCKS" about.
The following table provides information about the project.
Coordinator |
EOTVOS LORAND TUDOMANYEGYETEM
Organization address contact info |
Coordinator Country | Hungary [HU] |
Total cost | 1˙453˙542 € |
EC max contribution | 1˙453˙542 € (100%) |
Programme |
1. H2020-EU.1.1. (EXCELLENT SCIENCE - European Research Council (ERC)) |
Code Call | ERC-2016-STG |
Funding Scheme | ERC-STG |
Starting year | 2017 |
Duration (year-month-day) | from 2017-07-01 to 2022-06-30 |
Take a look of project's partnership.
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1 | EOTVOS LORAND TUDOMANYEGYETEM | HU (BUDAPEST) | coordinator | 1˙453˙542.00 |
With the advent of genome-scale sequencing, molecular phylogeny, which reconstructs gene trees from homologous sequences, has reached an impasse. Instead of answering open questions, new genomes have reignited old debates. The problem is clear, gene trees are not species trees, each is the unique result of series of evolutionary events. If, however, we model these differences in the context of a common species tree, we can access a wealth of information on genome evolution and the diversification of species that is not available to traditional methods. For example, as horizontal gene transfer (HGT) can only occur between coexisting species, HGTs provide information on the order of speciations. When HGT is rare, lineage sorting can generate incongruence between gene trees and the dating problem can be formulated in terms of biologically meaningful parameters (such as population size), that are informative on the rate of evolution and hence invaluable to molecular dating. My first goal is to develop methods that systematically extract information on the pattern and timing of genomic evolution by explaining differences between gene trees. This will allow us to, for the first time, reconstruct a dated tree of life from genome-scale data. We will use parallel programming to maximise the number of genomes analysed. My second goal is to apply these methods to open problems, e.g.: i) to resolve the timing of microbial evolution and its relationship to Earth history, where the extreme paucity of fossils limits the use of molecular dating methods, by using HGT events as “molecular fossils”; ii) to reconstruct rooted phylogenies from complete genomes and harness phylogenetic incongruence to answer long standing questions, such as the of diversification of animals or the position of eukaryotes among archaea; and iii) for eukaryotic groups such as Fungi, where evidence of significant amounts of HGT is emerging our methods will also allow the quantification of the extent of HGT.
year | authors and title | journal | last update |
---|---|---|---|
2020 |
Dániel Grajzel, Imre Derényi, Gergely J. Szöllősi A compartment size-dependent selective threshold limits mutation accumulation in hierarchical tissues published pages: 1606-1611, ISSN: 0027-8424, DOI: 10.1073/pnas.1913104117 |
Proceedings of the National Academy of Sciences 117/3 | 2020-03-05 |
2020 |
Bui Quang Minh, Heiko A Schmidt, Olga Chernomor, Dominik Schrempf, Michael D Woodhams, Arndt von Haeseler, Robert Lanfear IQ-TREE 2: New models and efficient methods for phylogenetic inference in the genomic era published pages: msaa015, ISSN: 0737-4038, DOI: 10.1093/molbev/msaa015 |
Molecular Biology and Evolution ACCEPTED MANUSCRIPT | 2020-03-05 |
2017 |
Cédric Chauve, Akbar Rafiey, Adrián A. DavÃn, Celine Scornavacca, Philippe Veber, Bastien Boussau, Gergely J. SzöllÅ‘si, Vincent Daubin, Eric Tannier MaxTiC: Fast ranking of a phylogenetic tree by Maximum Time Consistency with lateral gene transfers published pages: peer-reviewed an, ISSN: 2551-668X, DOI: 10.1101/127548 |
bioRxiv 10.1101/127548 | 2020-03-05 |
2020 |
Dominik Schrempf, Nicolas Lartillot, Gergely Szöllősi Scalable empirical mixture models that account for across-site compositional heterogeneity published pages: , ISSN: 0737-4038, DOI: |
Molecular Biology and Evolution accepted pending revision | 2020-03-05 |
2020 |
Benoit Morel, Alexey M. Kozlov, Alexandros Stamatakis, Gergely J. Szöllősi GeneRax: A tool for species tree-aware maximum likelihood based gene tree inference under gene duplication, transfer, and loss published pages: , ISSN: 0737-4038, DOI: |
Molecular Biology and Evolution to appear | 2020-03-05 |
2019 |
Dominik Schrempf, Bui Quang Minh, Arndt von Haeseler, Carolin Kosiol Polymorphism-Aware Species Trees with Advanced Mutation Models, Bootstrap, and Rate Heterogeneity published pages: 1294-1301, ISSN: 0737-4038, DOI: 10.1093/molbev/msz043 |
Molecular Biology and Evolution 36/6 | 2020-03-05 |
2019 |
Torda Varga, Krisztina Krizsán, Csenge Földi, Bálint Dima, Marisol Sánchez-GarcÃa, Santiago Sánchez-RamÃrez, Gergely J. SzöllÅ‘si, János G. Szarkándi, Viktor Papp, László Albert, William Andreopoulos, Claudio Angelini, VladimÃr AntonÃn, Kerrie W. Barry, Neale L. Bougher, Peter Buchanan, Bart Buyck, Viktória Bense, Pam Catcheside, Mansi Chovatia, Jerry Cooper, Wolfgang Dämon, Dennis Megaphylogeny resolves global patterns of mushroom evolution published pages: 668-678, ISSN: 2397-334X, DOI: 10.1038/s41559-019-0834-1 |
Nature Ecology & Evolution 3/4 | 2020-03-05 |
2020 |
Tom A. Williams, Cymon J. Cox, Peter G. Foster, Gergely J. Szöllősi, T. Martin Embley Phylogenomics provides robust support for a two-domains tree of life published pages: 138-147, ISSN: 2397-334X, DOI: 10.1038/s41559-019-1040-x |
Nature Ecology & Evolution 4/1 | 2020-02-28 |
2018 |
Adrián A. DavÃn, Eric Tannier, Tom A. Williams, Bastien Boussau, Vincent Daubin, Gergely J. SzöllÅ‘si Gene transfers can date the tree of life published pages: 904-909, ISSN: 2397-334X, DOI: 10.1038/s41559-018-0525-3 |
Nature Ecology & Evolution 2/5 | 2020-02-28 |
2019 |
Adrián A DavÃn, Théo Tricou, Eric Tannier, Damien M de Vienne, Gergely J SzöllÅ‘si Zombi: a phylogenetic simulator of trees, genomes and sequences that accounts for dead linages published pages: 1286-1288, ISSN: 1367-4803, DOI: 10.1093/bioinformatics/btz710 |
Bioinformatics 36/4 | 2020-02-28 |
2017 |
Imre Derényi, Gergely J. Szöllősi Hierarchical tissue organization as a general mechanism to limit the accumulation of somatic mutations published pages: 14545, ISSN: 2041-1723, DOI: 10.1038/ncomms14545 |
Nature Communications 8 | 2019-09-17 |
2018 |
Siri Kellner, Anja Spang, Pierre Offre, Gergely J. Szöllősi, Celine Petitjean, Tom A. Williams Genome size evolution in the Archaea published pages: 595-605, ISSN: 2397-8554, DOI: 10.1042/etls20180021 |
Emerging Topics in Life Sciences 2/4 | 2019-09-17 |
2017 |
Tom A. Williams, Gergely J. Szöllősi, Anja Spang, Peter G. Foster, Sarah E. Heaps, Bastien Boussau, Thijs J. G. Ettema, T. Martin Embley Integrative modeling of gene and genome evolution roots the archaeal tree of life published pages: E4602-E4611, ISSN: 0027-8424, DOI: 10.1073/pnas.1618463114 |
Proceedings of the National Academy of Sciences 114/23 | 2019-09-17 |
2018 |
Wandrille Duchemin, Guillaume Gence, Anne-Muriel Arigon Chifolleau, Lars Arvestad, Mukul S Bansal, Vincent Berry, Bastien Boussau, François Chevenet, Nicolas Comte, Adrián A DavÃn, Christophe Dessimoz, David Dylus, Damir Hasic, Diego Mallo, Rémi Planel, David Posada, Celine Scornavacca, Gergely SzöllÅ‘si, Louxin Zhang, Éric Tannier, Vincent Daubin RecPhyloXML: a format for reconciled gene trees published pages: 3646-3652, ISSN: 1367-4803, DOI: 10.1093/bioinformatics/bty389 |
Bioinformatics 34/21 | 2019-09-17 |
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The information about "GENECLOCKS" are provided by the European Opendata Portal: CORDIS opendata.
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