Publikationer

Machine learning detection of heteroresistance in Escherichia coli

Guliaev, Andrei; Hjort, Karin; Rossi, Michele; Jonsson, Sofia et al.

Ingår i EBioMedicine, 2025

• DOI för Machine learning detection of heteroresistance in Escherichia coli
• Ladda ner fulltext (pdf) av Machine learning detection of heteroresistance in Escherichia coli

Host–bacteria interactions: ecological and evolutionary insights from ancient, professional endosymbionts

Bontemps, Zélia; Paranjape, Kiran; Guy, Lionel

Ingår i FEMS Microbiology Reviews, 2024

• DOI för Host–bacteria interactions: ecological and evolutionary insights from ancient, professional endosymbionts
• Ladda ner fulltext (pdf) av Host–bacteria interactions: ecological and evolutionary insights from ancient, professional endosymbionts

Phylogeny and Expansion of Serine/Threonine Kinases in Phagocytotic Bacteria in the Phylum Planctomycetota

Odelgard, Anna; Hägglund, Emil; Guy, Lionel; Andersson, Siv G. E.

Ingår i Genome Biology and Evolution, 2024

• DOI för Phylogeny and Expansion of Serine/Threonine Kinases in Phagocytotic Bacteria in the Phylum Planctomycetota
• Ladda ner fulltext (pdf) av Phylogeny and Expansion of Serine/Threonine Kinases in Phagocytotic Bacteria in the Phylum Planctomycetota

Rapid adaptations of Legionella pneumophila to the human host

Leenheer, Daniël; Moreno, Anaísa B.; Paranjape, Kiran; Murray, Susan et al.

Ingår i Microbial Genomics, 2023

• DOI för Rapid adaptations of Legionella pneumophila to the human host
• Ladda ner fulltext (pdf) av Rapid adaptations of Legionella pneumophila to the human host

TADA: Taxonomy-Aware Dataset Aggregator

Hägglund, Emil; Andersson, Siv; Guy, Lionel

Ingår i Bioinformatics, 2023

• DOI för TADA: Taxonomy-Aware Dataset Aggregator
• Ladda ner fulltext (pdf) av TADA: Taxonomy-Aware Dataset Aggregator

The evolution of intramitochondriality in Midichloria bacteria

Floriano, Anna Maria; Batisti Biffignandi, Gherard; Castelli, Michele; Olivieri, Emanuela et al.

Ingår i Environmental Microbiology, s. 2102-2117, 2023

• DOI för The evolution of intramitochondriality in Midichloria bacteria

Early divergence of translation initiation and elongation factors

Fer, Evrim; McGrath, Kaitlyn M.; Guy, Lionel; Hockenberry, Adam J. et al.

Ingår i Protein Science, 2022

• DOI för Early divergence of translation initiation and elongation factors
• Ladda ner fulltext (pdf) av Early divergence of translation initiation and elongation factors

Host Adaptation in Legionellales Is 1.9 Ga, Coincident with Eukaryogenesis

Hugoson, Eric; Guliaev, Andrei; Ammunét, Tea; Guy, Lionel

Ingår i Molecular biology and evolution, 2022

• DOI för Host Adaptation in Legionellales Is 1.9 Ga, Coincident with Eukaryogenesis
• Ladda ner fulltext (pdf) av Host Adaptation in Legionellales Is 1.9 Ga, Coincident with Eukaryogenesis

Phylogenetic affiliation of mitochondria with Alpha-II and Rickettsiales is an artefact

Martijn, Joran; Vosseberg, Julian; Guy, Lionel; Offre, Pierre et al.

Ingår i Nature Ecology & Evolution, s. 1829-1831, 2022

• DOI för Phylogenetic affiliation of mitochondria with Alpha-II and Rickettsiales is an artefact

Chromosomal Location Determines the Rate of Intrachromosomal Homologous Recombination in Salmonella

Garmendia, Eva; Brandis, Gerrit; Guy, Lionel; Cao, Sha et al.

Ingår i mBio, 2021

• DOI för Chromosomal Location Determines the Rate of Intrachromosomal Homologous Recombination in Salmonella
• Ladda ner fulltext (pdf) av Chromosomal Location Determines the Rate of Intrachromosomal Homologous Recombination in Salmonella

Expression of the qepA1 gene is induced under antibiotic exposure

Brandis, Gerrit; Gockel, Jonas; Garoff, Linnéa; Guy, Lionel et al.

Ingår i Journal of Antimicrobial Chemotherapy, s. 1433-1440, 2021

• DOI för Expression of the qepA1 gene is induced under antibiotic exposure
• Ladda ner fulltext (pdf) av Expression of the qepA1 gene is induced under antibiotic exposure

Heimdallarchaea encodes profilin with eukaryotic-like actin regulation and polyproline binding

Survery, Sabeen; Hurtig, Fredrik; Haq, Syed Razaul; Eriksson, Jens et al.

Ingår i Communications Biology, 2021

• DOI för Heimdallarchaea encodes profilin with eukaryotic-like actin regulation and polyproline binding
• Ladda ner fulltext (pdf) av Heimdallarchaea encodes profilin with eukaryotic-like actin regulation and polyproline binding

Molecular Characterization of Multidrug-Resistant Yersinia enterocolitica From Foodborne Outbreaks in Sweden

Karlsson, Philip A.; Tano, Eva; Jernberg, Cecilia; Hickman, Rachel A. et al.

Ingår i Frontiers in Microbiology, 2021

• DOI för Molecular Characterization of Multidrug-Resistant Yersinia enterocolitica From Foodborne Outbreaks in Sweden
• Ladda ner fulltext (pdf) av Molecular Characterization of Multidrug-Resistant Yersinia enterocolitica From Foodborne Outbreaks in Sweden

Chlamydia psittaci in Fulmars on The Faroe Islands: A Causative Link to South American Psittacines Eight Decades After a Severe Epidemic

Wang, Helen; Jensen, Jens-Kjeld; Olsson, Anna; Vorimore, Fabien et al.

Ingår i Microbes and infection, s. 356-359, 2020

• DOI för Chlamydia psittaci in Fulmars on The Faroe Islands: A Causative Link to South American Psittacines Eight Decades After a Severe Epidemic
• Ladda ner fulltext (pdf) av Chlamydia psittaci in Fulmars on The Faroe Islands: A Causative Link to South American Psittacines Eight Decades After a Severe Epidemic

miComplete: weighted quality evaluation of assembled microbial genomes

Hugoson, Eric; Lam, Wai Tin; Guy, Lionel

Ingår i Bioinformatics, s. 936-937, 2020

• DOI för miComplete: weighted quality evaluation of assembled microbial genomes
• Ladda ner fulltext (pdf) av miComplete: weighted quality evaluation of assembled microbial genomes

Paralogization and New Protein Architectures in Planctomycetes Bacteria with Complex Cell Structures

Mahajan, Mayank; Yee, Benjamin; Hägglund, Emil; Guy, Lionel et al.

Ingår i Molecular biology and evolution, s. 1020-1040, 2020

• DOI för Paralogization and New Protein Architectures in Planctomycetes Bacteria with Complex Cell Structures

Asgard archaea are the closest prokaryotic relatives of eukaryotes

Spang, Anja; Eme, Laura; Saw, Jimmy H.; Fernández Cáceres, Eva et al.

Ingår i PLOS Genetics, 2018

• DOI för Asgard archaea are the closest prokaryotic relatives of eukaryotes
• Ladda ner fulltext (pdf) av Asgard archaea are the closest prokaryotic relatives of eukaryotes

Deep mitochondrial origin outside the sampled alphaproteobacteria

Martijn, Joran; Vosseberg, Julian; Guy, Lionel; Offre, Pierre et al.

Ingår i Nature, s. 101-105, 2018

• DOI för Deep mitochondrial origin outside the sampled alphaproteobacteria

Experimental Determination and Prediction of the Fitness Effects of Random Point Mutations in the Biosynthetic Enzyme HisA

Lundin, Erik; Tang, Po-Cheng; Guy, Lionel; Näsvall, Joakim et al.

Ingår i Molecular biology and evolution, s. 704-718, 2018

• DOI för Experimental Determination and Prediction of the Fitness Effects of Random Point Mutations in the Biosynthetic Enzyme HisA
• Ladda ner fulltext (pdf) av Experimental Determination and Prediction of the Fitness Effects of Random Point Mutations in the Biosynthetic Enzyme HisA

Genomes of two archaeal endosymbionts show convergent adaptations to an intracellular lifestyle.

Lind, Anders E.; Lewis, William H; Spang, Anja; Guy, Lionel et al.

Ingår i The ISME Journal, s. 2655-2667, 2018

• DOI för Genomes of two archaeal endosymbionts show convergent adaptations to an intracellular lifestyle.

Legionella pneumophila recurrently isolated in a Spanish hospital: Two years of antimicrobial resistance surveillance

Graells, Tiscar; Hernández-García, Marta; Pérez-Jové, Josefa; Guy, Lionel et al.

Ingår i Environmental Research, s. 638-646, 2018

• DOI för Legionella pneumophila recurrently isolated in a Spanish hospital: Two years of antimicrobial resistance surveillance

Origin and evolution of the Bartonella Gene Transfer Agent

Tamarit, Daniel; Neuvonen, Minna M.; Engel, Philipp; Guy, Lionel et al.

Ingår i Molecular biology and evolution, s. 451-464, 2018

• DOI för Origin and evolution of the Bartonella Gene Transfer Agent
• Ladda ner fulltext (pdf) av Origin and evolution of the Bartonella Gene Transfer Agent

The all-intracellular order Legionellales is unexpectedly diverse, globally distributed and lowly abundant.

Graells, Tiscar; Ishak, Helena; Larsson, Madeleine; Guy, Lionel

Ingår i FEMS Microbiology Ecology, 2018

• DOI för The all-intracellular order Legionellales is unexpectedly diverse, globally distributed and lowly abundant.
• Ladda ner fulltext (pdf) av The all-intracellular order Legionellales is unexpectedly diverse, globally distributed and lowly abundant.

phyloSkeleton: taxon selection, data retrieval and marker identification for phylogenomics

Guy, Lionel

Ingår i Bioinformatics, s. 1230-1232, 2017

• DOI för phyloSkeleton: taxon selection, data retrieval and marker identification for phylogenomics
• Ladda ner fulltext (pdf) av phyloSkeleton: taxon selection, data retrieval and marker identification for phylogenomics

Resurrecting ancestral genes in bacteria to interpret ancient biosignatures

Kacar, Betul; Guy, Lionel; Smith, Eric; Baross, John

Ingår i Philosophical Transactions. Series A, 2017

• DOI för Resurrecting ancestral genes in bacteria to interpret ancient biosignatures
• Ladda ner fulltext (pdf) av Resurrecting ancestral genes in bacteria to interpret ancient biosignatures

Proposal of Coetzeea brasiliensis gen. nov. sp. nov. isolated from larvae of Anopheles darlingi

Kämpfer, Peter; Glaeser, Stefanie P; Marinotti, Osvaldo; Guy, Lionel et al.

Ingår i International Journal of Systematic and Evolutionary Microbiology, s. 5211-5217, 2016

• DOI för Proposal of Coetzeea brasiliensis gen. nov. sp. nov. isolated from larvae of Anopheles darlingi

The genome of Rhizobiales bacteria in predatory ants reveals urease gene functions but no genes for nitrogen fixation

Neuvonen, Minna M.; Tamarit, Daniel; Näslund, Kristina; Liebig, Juergen et al.

Ingår i Scientific Reports, s. 1-11, 2016

• DOI för The genome of Rhizobiales bacteria in predatory ants reveals urease gene functions but no genes for nitrogen fixation
• Ladda ner fulltext (pdf) av The genome of Rhizobiales bacteria in predatory ants reveals urease gene functions but no genes for nitrogen fixation

Complex archaea that bridge the gap between prokaryotes and eukaryotes

Spang, Anja; Saw, Jimmy H.; Jorgensen, Steffen L.; Zaremba-Niedzwiedzka, Katarzyna et al.

Ingår i Nature, s. 173-179, 2015

• DOI för Complex archaea that bridge the gap between prokaryotes and eukaryotes

Exploring microbial dark matter to resolve the deep archaeal ancestry of eukaryotes

Saw, Jimmy H.; Spang, Anja; Zaremba-Niedzwiedzka, Katarzyna; Juzokaite, Lina et al.

Ingår i Philosophical Transactions of the Royal Society of London. Biological Sciences, 2015

• DOI för Exploring microbial dark matter to resolve the deep archaeal ancestry of eukaryotes

Proposal of Thorsellia kenyensis sp. nov. and Thorsellia kandunguensis sp. nov., isolated from the larvae of Anopheles arabiensis as members of the family Thorselliaceae fam. nov.

Kämpfer, Peter; Glaeser, Stefanie P.; Nilsson, Louise K. J.; Eberhard, Thomas et al.

Ingår i International Journal of Systematic and Evolutionary Microbiology, s. 444-451, 2015

• DOI för Proposal of Thorsellia kenyensis sp. nov. and Thorsellia kandunguensis sp. nov., isolated from the larvae of Anopheles arabiensis as members of the family Thorselliaceae fam. nov.

Single-cell genomics of a rare environmental alphaproteobacterium provides unique insights into Rickettsiaceae evolution

Martijn, Joran; Schulz, Frederik; Zaremba-Niedzwiedzka, Katarzyna; Viklund, Johan et al.

Ingår i The ISME Journal, s. 2373-2385, 2015

• DOI för Single-cell genomics of a rare environmental alphaproteobacterium provides unique insights into Rickettsiaceae evolution

'Geoarchaeote NAG1' is a deeply rooting lineage of the archaeal order Thermoproteales rather than a new phylum

Guy, Lionel; Spang, Anja; Saw, Jimmy Hser Wah; Ettema, Thijs J. G.

Ingår i The ISME Journal, s. 1353-1357, 2014

• DOI för 'Geoarchaeote NAG1' is a deeply rooting lineage of the archaeal order Thermoproteales rather than a new phylum

The Archaeal Legacy of Eukaryotes: A Phylogenomic Perspective

Guy, Lionel; Saw, Jimmy Hser Wah; Ettema, Thijs J. G.

Ingår i Cold Spring Harbor Perspectives in Biology, 2014

• DOI för The Archaeal Legacy of Eukaryotes: A Phylogenomic Perspective

A Gene Transfer Agent and a Dynamic Repertoire of Secretion Systems Hold the Keys to the Explosive Radiation of the Emerging Pathogen Bartonella

Guy, Lionel; Nystedt, Björn; Toft, Christina; Zaremba-Niedzwiedzka, Katarzyna et al.

Ingår i PLOS Genetics, 2013

• DOI för A Gene Transfer Agent and a Dynamic Repertoire of Secretion Systems Hold the Keys to the Explosive Radiation of the Emerging Pathogen Bartonella
• Ladda ner fulltext (pdf) av A Gene Transfer Agent and a Dynamic Repertoire of Secretion Systems Hold the Keys to the Explosive Radiation of the Emerging Pathogen Bartonella

Adaptive Mutations and Replacements of Virulence Traits in the Escherichia coli O104:H4 Outbreak Population

Guy, Lionel; Jernberg, Cecilia; Norling, Jenny Arven; Ivarsson, Sofie et al.

Ingår i PLOS ONE, 2013

• DOI för Adaptive Mutations and Replacements of Virulence Traits in the Escherichia coli O104:H4 Outbreak Population
• Ladda ner fulltext (pdf) av Adaptive Mutations and Replacements of Virulence Traits in the Escherichia coli O104:H4 Outbreak Population

Close Encounters of the Third Domain: The Emerging Genomic View of Archaeal Diversity and Evolution

Spang, Anja; Martijn, Joran; Saw, Jimmy Hser Wah; Lind, Anders E. et al.

Ingår i Archaea, s. 202358, 2013

• DOI för Close Encounters of the Third Domain: The Emerging Genomic View of Archaeal Diversity and Evolution

Community-wide plasmid gene mobilization and selection

Sentchilo, Vladimir; Mayer, Antonia P.; Guy, Lionel; Miyazaki, Ryo et al.

Ingår i The ISME Journal, s. 1173-1186, 2013

• DOI för Community-wide plasmid gene mobilization and selection
• Ladda ner fulltext (pdf) av Community-wide plasmid gene mobilization and selection

A genome-wide study of recombination rate variation in Bartonella henselae

Guy, Lionel; Nystedt, Björn; Sun, Yu; Näslund, Kristina et al.

Ingår i BMC Evolutionary Biology, s. 65, 2012

• DOI för A genome-wide study of recombination rate variation in Bartonella henselae
• Ladda ner fulltext (pdf) av A genome-wide study of recombination rate variation in Bartonella henselae

Genomic diversity of the 2011 European outbreaks of Escherichia coli O104:H4

Guy, Lionel; Jernberg, Cecilia; Ivarsson, Sofie; Hedenstrom, Ingela et al.

Ingår i Proceedings of the National Academy of Sciences of the United States of America, 2012

• DOI för Genomic diversity of the 2011 European outbreaks of Escherichia coli O104:H4

The archaeal ‘TACK’ superphylum and the origin of eukaryotes

Guy, Lionel; Ettema, Thijs J. G.

Ingår i Trends in Microbiology, s. 580-587, 2011

• DOI för The archaeal ‘TACK’ superphylum and the origin of eukaryotes

genoPlotR: comparative gene and genome visualization in R

Guy, Lionel; Roat Kultima, Jens; Andersson, Siv G.E.

Ingår i Bioinformatics, s. 2334-2335, 2010

• DOI för genoPlotR: comparative gene and genome visualization in R
• Ladda ner fulltext (pdf) av genoPlotR: comparative gene and genome visualization in R

M-protein and other intrinsic virulence factors of Streptococcus pyogenes are encoded on an ancient pathogenicity island

Panchaud, Alexandre; Guy, Lionel; Collyn, François; Haenni, Marisa et al.

Ingår i BMC Genomics, 2009

• DOI för M-protein and other intrinsic virulence factors of Streptococcus pyogenes are encoded on an ancient pathogenicity island
• Ladda ner fulltext (pdf) av M-protein and other intrinsic virulence factors of Streptococcus pyogenes are encoded on an ancient pathogenicity island

Genomic insights into two independent events of archaeal endosymbiosis

Lind, Anders E; Lewis, William H; Spang, Anja; Guy, Lionel et al.