Gianni Liti

Documents

Publications

	Telomere-to-telomere assemblies of 142 strains characterize the genome structural landscape in Saccharomyces cerevisiae Samuel O’donnell , Jia-Xing Yue , Omar Abou Saada , Nicolas Agier , Claudia Caradec Nature Genetics, 2023, 55 (8), pp.1390 - 1399. ⟨10.1038/s41588-023-01459-y⟩ Journal articles hal-04305689v1
	RecombineX: A generalized computational framework for automatic high-throughput gamete genotyping and tetrad-based recombination analysis Jing Li , Bertrand Llorente , Gianni Liti , Jia-Xing Yue PLoS Genetics, 2022, 18 (5), pp.e1010047. ⟨10.1371/journal.pgen.1010047⟩ Journal articles hal-03869238v1
	The histone H3K9M mutation synergizes with H3K14 ubiquitylation to selectively sequester histone H3K9 methyltransferase Clr4 at heterochromatin Chun-Min Shan , Jin-Kwang Kim , Jiyong Wang , Kehan Bao , Yadong Sun Cell Reports, 2021, 35 (7), pp.109137. ⟨10.1016/j.celrep.2021.109137⟩ Journal articles hal-03455905v1
	Aborting meiosis allows recombination in sterile diploid yeast hybrids Simone Mozzachiodi , Lorenzo Tattini , Agnes Llored , Agurtzane Irizar , Neža Škofljanc Nature Communications, 2021, 12 (1), ⟨10.1038/s41467-021-26883-8⟩ Journal articles hal-03474924v1
	Meiotic Cells Counteract Programmed Retrotransposon Activation via RNA-Binding Translational Repressor Assemblies Raphaelle Laureau , Annie Dyatel , Gizem Dursuk , Samantha Brown , Hannah Adeoye Developmental Cell, 2021, 56, pp.22 - 35.e7. ⟨10.1016/j.devcel.2020.11.008⟩ Journal articles hal-03455850v1
	The budding yeast life cycle: More complex than anticipated? Gilles Fischer , Gianni Liti , Bertrand Llorente Yeast, 2021, 38 (1), pp.5-11. ⟨10.1002/yea.3533⟩ Journal articles hal-03086108v1
	Natural variants suppress mutations in hundreds of essential genes Leopold Parts , Amandine Batté , Maykel Lopes , Michael W Yuen , Meredith Laver Molecular Systems Biology, 2021, 17 (1), pp.e10138. ⟨10.15252/msb.202010138⟩ Journal articles hal-03455912v1
	Population Size, Sex and Purifying Selection: Comparative Genomics of Two Sister Taxa of the Wild Yeast Saccharomyces paradoxus Vassiliki Koufopanou , Susan Lomas , Olga Pronina , Pedro Almeida , Jose Paulo Sampaio Genome Biology and Evolution, 2020, 12 (9), pp.1636-1645. ⟨10.1093/gbe/evaa141⟩ Journal articles hal-03430146v1
	Human RAP 1 specifically protects telomeres of senescent cells from DNA damage Liudmyla Lototska , Jia‐xing Yue , M.J. Giraud-Panis , Zhou Songyang , Nicola Royle EMBO Reports, 2020, 21 (4), ⟨10.15252/embr.201949076⟩ Journal articles hal-03013736v1
	A yeast living ancestor reveals the origin of genomic introgressions Melania d'Angiolo , Matteo de Chiara , Jia-Xing Yue , Agurtzane Irizar , Simon Stenberg Nature, 2020, 587 (7834), pp.420-425. ⟨10.1038/s41586-020-2889-1⟩ Journal articles hal-03430153v1
	An Out-of-Patagonia migration explains the worldwide diversity and distribution of Saccharomyces eubayanus lineages Roberto F Nespolo , Carlos A Villarroel , Christian I Oporto , Sebastián M Tapia , Franco Vega-Macaya PLoS Genetics, 2020, 16 (5), pp.e1008777. ⟨10.1371/journal.pgen.1008777⟩ Journal articles inserm-02877129v1
	Slow Growth and Increased Spontaneous Mutation Frequency in Respiratory Deficient afo1- Yeast Suppressed by a Dominant Mutation in ATP3 Jing Li , Mark Rinnerthaler , Johannes Hartl , Manuela Weber , Thomas Karl G3, 2020, 10 (12), pp.4637 - 4648. ⟨10.1534/g3.120.401537⟩ Journal articles hal-03455791v1
	Intragenic repeat expansion in the cell wall protein gene HPF1 controls yeast chronological aging Benjamin Barré , Johan Hallin , Jia-Xing Yue , Karl Persson , Ekaterina Mikhalev Genome Research, 2020, 30 (5), pp.697-710. ⟨10.1101/gr.253351.119⟩ Journal articles hal-02991696v1
	Discordant evolution of mitochondrial and nuclear yeast genomes at population level Matteo de Chiara , Anne Friedrich , Benjamin Barré , Michael Breitenbach , Joseph Schacherer BMC Biology, 2020, 18 (1), pp.49. ⟨10.1186/s12915-020-00786-4⟩ Journal articles inserm-02971513v1
	Genetic variants of TORC1 signaling pathway affect nitrogen consumption in Saccharomyces cerevisiae during alcoholic fermentation Jennifer Molinet , Francisco A Cubillos , Francisco Salinas , Gianni Liti , Claudio Martínez PLoS ONE, 2019, 14 (7), pp.e0220515. ⟨10.1371/journal.pone.0220515⟩ Journal articles inserm-02265082v1
	simuG: a general-purpose genome simulator Jia-Xing Yue , Gianni Liti Bioinformatics, 2019, 35 (21), pp.4442-4444. ⟨10.1093/bioinformatics/btz424⟩ Journal articles hal-02381480v1
	Shared Molecular Targets Confer Resistance over Short and Long Evolutionary Timescales Jing Li , Ignacio Vázquez-García , Karl Persson , Asier González , Jia-Xing Yue Molecular Biology and Evolution, 2019, 36 (4), pp.691-708. ⟨10.1093/molbev/msz006⟩ Journal articles hal-02381487v1
	André Goffeau's imprinting on second generation yeast “genomologists” Cécile Fairhead , Gilles Fischer , Gianni Liti , Cécile Neuvéglise , Joseph Schacherer Yeast, 2019, 36 (4), pp.167-175. ⟨10.1002/yea.3377⟩ Journal articles hal-02381500v1
	Accurate Tracking of the Mutational Landscape of Diploid Hybrid Genomes Lorenzo Tattini , Nicolò Tellini , Simone Mozzachiodi , Melania d'Angiolo , Sophie Loeillet Molecular Biology and Evolution, 2019, 36 (12), pp.2861-2877. ⟨10.1093/molbev/msz177⟩ Journal articles hal-02381458v1
	Yeast chromosome numbers minimized using genome editing Gianni Liti Nature, 2018, 560 (7718), pp.317-318. ⟨10.1038/d41586-018-05309-4⟩ Journal articles hal-02381492v1
	Long-read sequencing data analysis for yeasts Jia-Xing Yue , Gianni Liti Nature Protocols, 2018, 13 (6), pp.1213-1231. ⟨10.1038/nprot.2018.025⟩ Journal articles hal-02381498v1
	Genome evolution across 1,011 $Saccharomyces\ cerevisiae$ isolates Jackson Peter , Matteo de Chiara , Anne Friedrich , Jia-Xing Yue , David Pflieger Nature, 2018, 556 (7701), pp.339 - 344. ⟨10.1038/s41586-018-0030-5⟩ Journal articles cea-01872910v1
	Contrasting evolutionary genome dynamics between domesticated and wild yeasts Jia-Xing Yue , Jing Li , Louise Aigrain , Johan Hallin , Karl Persson Nature Genetics, 2017, 49 (6), pp.913-924. ⟨10.1038/ng.3847⟩ Journal articles hal-01546021v1
	Extensive Recombination of a Yeast Diploid Hybrid through Meiotic Reversion Raphaëlle Laureau , Sophie Loeillet , Francisco Salinas , Anders Bergström , Patricia Legoix-Né PLoS Genetics, 2016, 12 (2), pp.e1005781. ⟨10.1371/journal.pgen.1005781⟩ Journal articles hal-01306737v1
	A set of genetically diverged Saccharomyces cerevisiae strains with markerless deletions of multiple auxotrophic genes Helene Louvel , Alexandre Gillet-Markowska , Gianni Liti , Gilles Fischer Yeast, 2014, 31 (3), pp.91-101. ⟨10.1002/yea.2991⟩ Journal articles hal-01528407v1
	Filling annotation gaps in yeast genomes using genome-wide contact maps. Hervé Marie-Nelly , Martial Marbouty , Axel Cournac , Gianni Liti , Gilles Fischer Bioinformatics, 2014, 30 (15), pp.2105-13. ⟨10.1093/bioinformatics/btu162⟩ Journal articles pasteur-01488132v1
	High-quality genome (re)assembly using chromosomal contact data Hervé Marie-Nelly , Martial Marbouty , Axel Cournac , Jean-François Flot , Gianni Liti Nature Communications, 2014, 5, pp.5695. ⟨10.1038/ncomms6695⟩ Journal articles hal-01138788v1
	High quality de novo sequencing and assembly of the Saccharomyces arboricolus genome. Gianni Liti , Alex N. Nguyen Ba , Martin Blythe , Carolin Müller , Anders Bergström BMC Genomics, 2013, 14 (1), pp.69. ⟨10.1186/1471-2164-14-69⟩ Journal articles inserm-00799236v1

	Engineering heterothallic strains in fission yeast Daniel García-Ruano , Ian Hsu , Baptiste Leray , Bénédicte Billard , Gianni Liti 2023 Preprints, Working Papers, ... hal-04249525v1

Gianni Liti

Publications

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

RecombineX: A generalized computational framework for automatic high-throughput gamete genotyping and tetrad-based recombination analysis

The histone H3K9M mutation synergizes with H3K14 ubiquitylation to selectively sequester histone H3K9 methyltransferase Clr4 at heterochromatin

Aborting meiosis allows recombination in sterile diploid yeast hybrids

Meiotic Cells Counteract Programmed Retrotransposon Activation via RNA-Binding Translational Repressor Assemblies

The budding yeast life cycle: More complex than anticipated?

Natural variants suppress mutations in hundreds of essential genes

Population Size, Sex and Purifying Selection: Comparative Genomics of Two Sister Taxa of the Wild Yeast Saccharomyces paradoxus

Human RAP 1 specifically protects telomeres of senescent cells from DNA damage

A yeast living ancestor reveals the origin of genomic introgressions

An Out-of-Patagonia migration explains the worldwide diversity and distribution of Saccharomyces eubayanus lineages

Slow Growth and Increased Spontaneous Mutation Frequency in Respiratory Deficient afo1- Yeast Suppressed by a Dominant Mutation in ATP3

Intragenic repeat expansion in the cell wall protein gene HPF1 controls yeast chronological aging

Discordant evolution of mitochondrial and nuclear yeast genomes at population level

Genetic variants of TORC1 signaling pathway affect nitrogen consumption in Saccharomyces cerevisiae during alcoholic fermentation

simuG: a general-purpose genome simulator

Shared Molecular Targets Confer Resistance over Short and Long Evolutionary Timescales

André Goffeau's imprinting on second generation yeast “genomologists”

Accurate Tracking of the Mutational Landscape of Diploid Hybrid Genomes

Yeast chromosome numbers minimized using genome editing

Long-read sequencing data analysis for yeasts

Genome evolution across 1,011 $Saccharomyces\ cerevisiae$ isolates

Contrasting evolutionary genome dynamics between domesticated and wild yeasts

Extensive Recombination of a Yeast Diploid Hybrid through Meiotic Reversion

A set of genetically diverged Saccharomyces cerevisiae strains with markerless deletions of multiple auxotrophic genes

Filling annotation gaps in yeast genomes using genome-wide contact maps.

High-quality genome (re)assembly using chromosomal contact data

High quality de novo sequencing and assembly of the Saccharomyces arboricolus genome.

Engineering heterothallic strains in fission yeast