Laura Eme

Documents

Publications

	Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes Laura Eme , Daniel Tamarit , Eva F Caceres , Courtney W Stairs , Valerie de Anda Nature, 2023, 618 (7967), pp.992-999. ⟨10.1038/s41586-023-06186-2⟩ Article dans une revue hal-04289789v1
	Genomics of Preaxostyla Flagellates Illuminates the Path Towards the Loss of Mitochondria Lukáš V F Novák , Sebastian C Treitli , Jan Pyrih , Paweł Hałakuc , Shweta V Pipaliya PLoS Genetics, 2023, 19 (12), ⟨10.1371/journal.pgen.1011050⟩ Article dans une revue hal-04385954v2
	Molecular and morphological characterization of four new ancyromonad genera and proposal for an updated taxonomy of the Ancyromonadida Naoji Yubuki , Guifré Torruella , Luis Javier Galindo , Aaron A Heiss , Maria Cristina Ciobanu Journal of Eukaryotic Microbiology, 2023, 70 (6), pp.e12997. ⟨10.1111/jeu.12997⟩ Article dans une revue hal-04272301v1
	One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade Jazmin Blaz , Luis Javier Galindo , Aaron Heiss , Harpreet Kaur , Guifré Torruella Scientific Data , 2023, 10 (1), pp.603. ⟨10.1038/s41597-023-02488-2⟩ Article dans une revue hal-04384869v1
	Independent Size Expansions and Intron Proliferation in Red Algal Plastid and Mitochondrial Genomes Fabian van Beveren , Laura Eme , Purificación López-García , Maria Ciobanu , David Moreira Genome Biology and Evolution, 2022, 14 (4), ⟨10.1093/gbe/evac037⟩ Article dans une revue hal-03800403v1
	TreeTuner: A pipeline for minimizing redundancy and complexity in large phylogenetic datasets Xi Zhang , Yining Hu , Laura Eme , Shinichiro Maruyama , Robert J.M. Eveleigh STAR Protocols, 2022, 3 (1), pp.101175. ⟨10.1016/j.xpro.2022.101175⟩ Article dans une revue hal-03800384v1
	A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses Daniel Tamarit , Eva F. Caceres , Mart Krupovic , Reindert Nijland , Laura Eme Nature Microbiology, 2022, 7, pp.948-952. ⟨10.1038/s41564-022-01122-y⟩ Article dans une revue pasteur-03711310v1
	Site-and-branch-heterogeneous analyses of an expanded dataset favour mitochondria as sister to known Alphaproteobacteria Sergio A Muñoz-Gómez , Edward Susko , Kelsey Williamson , Laura Eme , Claudio H. Slamovits Nature Ecology & Evolution, 2022, 6, pp.253-262. ⟨10.1038/s41559-021-01638-2⟩ Article dans une revue hal-03847570v1
	Anaeramoebae are a divergent lineage of eukaryotes that shed light on the transition from anaerobic mitochondria to hydrogenosomes Courtney W Stairs , Petr Táborský , Eric D Salomaki , Martin Kolisko , Tomáš Pánek Current Biology - CB, 2021, ⟨10.1016/j.cub.2021.10.010⟩ Article dans une revue hal-03461937v1
	The Mastigamoeba balamuthi Genome and the Nature of the Free-Living Ancestor of Entamoeba Vojtěch Žárský , Vladimír Klimeš , Jan Pačes , Čestmír Vlček , Miluše Hradilová Molecular Biology and Evolution, 2021, 38 (6), pp.20. ⟨10.1093/molbev/msab020⟩ Article dans une revue hal-03368460v1
	PhyloFisher: A phylogenomic package for resolving eukaryotic relationships Alexander K. Tice , David Zihala , Tomáš Pánek , Robert E Jones , Eric D Salomaki PLoS Biology, 2021, ⟨10.1371/journal.pbio.3001365⟩ Article dans une revue hal-03368434v2
	Molecular characterization of the conoid complex in Toxoplasma reveals its conservation in all apicomplexans, including Plasmodium species Ludek Koreny , Mohammad Zeeshan , Konstantin Barylyuk , Eelco C Tromer , Jolien J E van Hooff PLoS Biology, 2021, ⟨10.1371/journal.pbio.3001081⟩ Article dans une revue hal-03368636v1
	Releasing uncurated datasets is essential for reproducible phylogenomics Eric Salomaki , Laura Eme , Matthew Brown , Martin Kolisko Nature Ecology & Evolution, 2020, 4 (11), pp.1435-1437. ⟨10.1038/s41559-020-01296-w⟩ Article dans une revue hal-03368653v1
	Lateral Gene Transfer Mechanisms and Pan-genomes in Eukaryotes Shannon Sibbald , Laura Eme , John Archibald , Andrew Roger Trends in Parasitology, 2020, 36 (11), pp.927-941. ⟨10.1016/j.pt.2020.07.014⟩ Article dans une revue hal-03368658v1
	Marine Sediments Illuminate Chlamydiae Diversity and Evolution Jennah Dharamshi , Daniel Tamarit , Laura Eme , Courtney Stairs , Joran Martijn Current Biology - CB, 2020, 30 (6), pp.1032-+. ⟨10.1016/j.cub.2020.02.016⟩ Article dans une revue hal-03368662v1
	Chlamydial contribution to anaerobic metabolism during eukaryotic evolution Courtney Stairs , Jennah Dharamshi , Daniel Tamarit , Laura Eme , Steffen Jørgensen Science Advances , 2020, 6 (35), ⟨10.1126/sciadv.abb7258⟩ Article dans une revue hal-04384939v1
	PhyloMagnet: fast and accurate screening of short-read meta-omics data using gene-centric phylogenetics Max E Schön , Laura Eme , Thijs J G Ettema Bioinformatics, 2019, ⟨10.1093/bioinformatics/btz799⟩ Article dans une revue hal-03368665v1
	A natural toroidal microswimmer with a rotary eukaryotic flagellum Sebastian Hess , Laura Eme , Andrew Roger , Alastair Simpson Nature Microbiology, 2019, 4 (10), pp.1620-1626. ⟨10.1038/s41564-019-0478-6⟩ Article dans une revue hal-03368670v1
	Asgard archaea capable of anaerobic hydrocarbon cycling Kiley Seitz , Nina Dombrowski , Laura Eme , Anja Spang , Jonathan Lombard Nature Communications, 2019, 10 (1), ⟨10.1038/s41467-019-09364-x⟩ Article dans une revue hal-03368676v1
	Nephromyces represents a diverse and novel lineage of the Apicomplexa that has retained apicoplasts Sergio Muñoz-Gómez , Keira Durnin , Laura Eme , Christopher Paight , Christopher Lane Genome Biology and Evolution, 2019, ⟨10.1093/gbe/evz155⟩ Article dans une revue hal-03368668v1
	Proposal of the reverse flow model for the origin of the eukaryotic cell based on comparative analyses of Asgard archaeal metabolism Anja Spang , Courtney Stairs , Nina Dombrowski , Laura Eme , Jonathan Lombard Nature Microbiology, 2019, 4 (7), pp.1138-1148. ⟨10.1038/s41564-019-0406-9⟩ Article dans une revue hal-03368673v1
	The Oxymonad Genome Displays Canonical Eukaryotic Complexity in the Absence of a Mitochondrion Anna Karnkowska , Sebastian Treitli , Ondřej Brzoň , Lukáš Novák , Vojtěch Vacek Molecular Biology and Evolution, 2019, 36 (10), pp.2292-2312. ⟨10.1093/molbev/msz147⟩ Article dans une revue hal-03368666v1
	The eukaryotic ancestor shapes up Laura Eme , Thijs Ettema Nature, 2018, 562 (7727), pp.352-353. ⟨10.1038/d41586-018-06868-2⟩ Article dans une revue hal-03368695v1
	Microbial eukaryotes have adapted to hypoxia by horizontal acquisitions of a gene involved in rhodoquinone biosynthesis Courtney Stairs , Laura Eme , Sergio Muñoz-Gómez , Alejandro Cohen , Graham Dellaire eLife, 2018, 7, ⟨10.7554/eLife.34292⟩ Article dans une revue hal-03368699v1
	Demystifying Eukaryote Lateral Gene Transfer (Response to Martin 2017 DOI: 10.1002/bies.201700115) Michelle Leger , Laura Eme , Courtney Stairs , Andrew Roger BioEssays, 2018, 40 (5), pp.1700242. ⟨10.1002/bies.201700242⟩ Article dans une revue hal-03368697v1
	Hemimastigophora is a novel supra-kingdom-level lineage of eukaryotes Gordon Lax , Yana Eglit , Laura Eme , Erin Bertrand , Andrew Roger Nature, 2018, 564 (7736), pp.410-414. ⟨10.1038/s41586-018-0708-8⟩ Article dans une revue hal-03368693v1
	Nuclear genome sequence of the plastid-lacking cryptomonad Goniomonas avonlea provides insights into the evolution of secondary plastids Ugo Cenci , Shannon Sibbald , Bruce Curtis , Ryoma Kamikawa , Laura Eme BMC Biology, 2018, 16 (1), pp.137. ⟨10.1186/s12915-018-0593-5⟩ Article dans une revue hal-02046523v1
	Extreme genome diversity in the hyper-prevalent parasitic eukaryote Blastocystis Eleni Gentekaki , Bruce Curtis , Courtney Stairs , Vladimír Klimeš , Marek Eliáš PLoS Biology, 2017, 15 (9), pp.e2003769. ⟨10.1371/journal.pbio.2003769⟩ Article dans une revue hal-01802863v1
	Gene Acquisitions from Bacteria at the Origins of Major Archaeal Clades Are Vastly Overestimated Mathieu Groussin , Bastien Boussau , Gergely J Szollosi , Laura Eme , Manolo Gouy Molecular Biology and Evolution, 2016, 33 (2), pp.305 - 310. ⟨10.1093/molbev/msv249⟩ Article dans une revue hal-01913926v1
	A Complex Cell Division Machinery Was Present in the Last Common Ancestor of Eukaryotes Laura Eme , David Moreira , Emmanuel Talla , Céline Brochier-Armanet PLoS ONE, 2009, 4 (4), pp.e5021. ⟨10.1371/journal.pone.0005021⟩ Article dans une revue hal-03368340v1

	Archaea Nina Dombrowski , Tara Mahendrarajah , Sarah T Gross , Laura Eme , Anja Spang Lorrence H Green, Emanuel Goldman. Practical Handbook of Microbiology, CRC Press, 2021, 9780367567644. ⟨10.1201/9781003099277⟩ Chapitre d'ouvrage hal-03368633v1

	High quality genome and transcriptome data for two new species of Mantamonas, a deep-branching eukaryote clade Jazmin Blaz , Luis Javier Galindo , Aaron A Heiss , Harpreet Kaur , Guifré Torruella 2023 Pré-publication, Document de travail hal-04289757v1
	Several independent adaptations of archaea to hypersaline environments Brittany A Baker , Ana Gutiérrez-Preciado , Álvaro Rodríguez del Río , Charley G P Mccarthy , Purificación López-García 2023 Pré-publication, Document de travail hal-04289833v1
	Lateral gene transfer leaves lasting traces in Rhizaria Jolien J.E. van Hooff , Laura Eme 2023 Pré-publication, Document de travail hal-04289849v1
	Molecular and morphological characterisation of four new ancyromonad genera and proposal for an updated taxonomy of the Ancyromonadida Naoji Yubuki , Guifré Torruella , Luis Javier Galindo , Aaron A Heiss , Maria Cristina Ciobanu 2023 Pré-publication, Document de travail hal-04289805v1
	A closed Candidatus Odinarchaeum genome exposes Asgard archaeal viruses Daniel Tamarit , Eva F Caceres , Mart Krupovic , Reindert Nijland , Laura Eme 2021 Pré-publication, Document de travail hal-03368645v1
	A site-and-branch-heterogeneous model on an expanded dataset favor mitochondria as sister to known Alphaproteobacteria Sergio A Muñoz-Gómez , Edward Susko , Kelsey Williamson , Laura Eme , Claudio Slamovits 2021 Pré-publication, Document de travail hal-03368518v1

	Phylogénomique des structures multiprotéiques eucaryotes impliquées dans le cycle cellulaire et contribution à la phylogénie des eucaryotes. Laura Eme Evolution [q-bio.PE]. Université de la Méditerranée, 2011. Français. ⟨NNT : ⟩ Thèse tel-03368378v1

Laura Eme

Publications

Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes

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

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

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

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

TreeTuner: A pipeline for minimizing redundancy and complexity in large phylogenetic datasets

A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses

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

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

The Mastigamoeba balamuthi Genome and the Nature of the Free-Living Ancestor of Entamoeba

PhyloFisher: A phylogenomic package for resolving eukaryotic relationships

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

Releasing uncurated datasets is essential for reproducible phylogenomics

Lateral Gene Transfer Mechanisms and Pan-genomes in Eukaryotes

Marine Sediments Illuminate Chlamydiae Diversity and Evolution

Chlamydial contribution to anaerobic metabolism during eukaryotic evolution

PhyloMagnet: fast and accurate screening of short-read meta-omics data using gene-centric phylogenetics

A natural toroidal microswimmer with a rotary eukaryotic flagellum

Asgard archaea capable of anaerobic hydrocarbon cycling

Nephromyces represents a diverse and novel lineage of the Apicomplexa that has retained apicoplasts

Proposal of the reverse flow model for the origin of the eukaryotic cell based on comparative analyses of Asgard archaeal metabolism

The Oxymonad Genome Displays Canonical Eukaryotic Complexity in the Absence of a Mitochondrion

The eukaryotic ancestor shapes up

Microbial eukaryotes have adapted to hypoxia by horizontal acquisitions of a gene involved in rhodoquinone biosynthesis

Demystifying Eukaryote Lateral Gene Transfer (Response to Martin 2017 DOI: 10.1002/bies.201700115)

Hemimastigophora is a novel supra-kingdom-level lineage of eukaryotes

Nuclear genome sequence of the plastid-lacking cryptomonad Goniomonas avonlea provides insights into the evolution of secondary plastids

Extreme genome diversity in the hyper-prevalent parasitic eukaryote Blastocystis

Gene Acquisitions from Bacteria at the Origins of Major Archaeal Clades Are Vastly Overestimated

A Complex Cell Division Machinery Was Present in the Last Common Ancestor of Eukaryotes

Archaea

High quality genome and transcriptome data for two new species of Mantamonas, a deep-branching eukaryote clade

Several independent adaptations of archaea to hypersaline environments

Lateral gene transfer leaves lasting traces in Rhizaria

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

A closed Candidatus Odinarchaeum genome exposes Asgard archaeal viruses

A site-and-branch-heterogeneous model on an expanded dataset favor mitochondria as sister to known Alphaproteobacteria

Phylogénomique des structures multiprotéiques eucaryotes impliquées dans le cycle cellulaire et contribution à la phylogénie des eucaryotes.