Publikationer

  • Onsbring, Henning; Tice, Alexander K.; Barton, Brandon T.; Brown, Matthew W. et al.

    An efficient single-cell transcriptomics workflow for microbial eukaryotes benchmarked on Giardia intestinalis cells

    Ingår i BMC Genomics, 2020.

    Open access
  • Montoliu-Nerin, Merce; Sanchez-Garcia, Marisol; Bergin, Claudia; Grabherr, Manfred et al.

    Building de novo reference genome assemblies of complex eukaryotic microorganisms from single nuclei

    Ingår i Scientific Reports, 2020.

    Open access
  • Stairs, Courtney W.; Dharamshi, Jennah; Tamarit, Daniel; Eme, Laura et al.

    Chlamydial contribution to anaerobic metabolism during eukaryotic evolution

    Ingår i Science Advances, 2020.

    Open access
  • Hosseini, Sara; Meunier, Cécile; Nguyen, Diem; Reimegård, Johan et al.

    Comparative analysis of genome-wide DNA methylation in Neurospora

    Ingår i Epigenetics, 2020.

    Open access
  • Lewis, William H; Lind, Anders E.; Sendra, Kacper M.; Onsbring Gustafson, Henning et al.

    Convergent Evolution of Hydrogenosomes from Mitochondria by Gene Transfer and Loss

    Ingår i Molecular biology and evolution, s. 524-539, 2020.

    Open access
  • Almeida, Pedro; Proux-Wera, Estelle; Churcher, Allison; Soler, Lucile et al.

    Genome assembly of the basket willow, Salix viminalis, reveals earliest stages of sex chromosome expansion

    Ingår i BMC Biology, 2020.

    Open access
  • Halvorsen, Matthew; Huh, Ruth; Oskolkov, Nikolay; Wen, Jia et al.

    Increased burden of ultra-rare structural variants localizing to boundaries of topologically associated domains in schizophrenia

    Ingår i Nature Communications, 2020.

    Open access
  • Dharamshi, Jennah E.; Tamarit, Daniel; Eme, Laura; Stairs, Courtney W. et al.

    Marine Sediments Illuminate Chlamydiae Diversity and Evolution

    Ingår i Current Biology, s. 1032-1048.e7, 2020.

  • Morrow, Jennifer L.; Schneider, Daniela, I; Klasson, Lisa; Janitz, Caroline et al.

    Parallel Sequencing of Wolbachia wCer2 from Donor and Novel Hosts Reveals Multiple Incompatibility Factors and Genome Stability after Host Transfers

    Ingår i Genome Biology and Evolution, s. 720-735, 2020.

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

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

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

  • Schön, Max Emil; Eme, Laura; Ettema, Thijs J. G.

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

    Ingår i Bioinformatics, s. 1718-1724, 2020.

    Open access
  • Klimovich, Alexander; Giacomello, Stefania; Björklund, Åsa; Faure, Louis et al.

    Prototypical pacemaker neurons interact with the resident microbiota

    Ingår i Proceedings of the National Academy of Sciences of the United States of America, s. 17854-17863, 2020.

    Open access
  • Nordlund, Jessica; Marincevic-Zuniga, Yanara; Cavelier, Lucia; Raine, Amanda et al.

    Refined detection and phasing of structural aberrations in pediatric acute lymphoblastic leukemia by linked-read whole-genome sequencing

    Ingår i Scientific Reports, 2020.

    Open access
  • Tamarit, Daniel; Andersson, Siv G. E.

    Rethinking microbial symbioses

    Ingår i FEMS Microbiology Letters, 2020.

    Open access
  • Tiklova, Katarina; Nolbrant, Sara; Fiorenzano, Alessandro; Björklund, Åsa K. et al.

    Single cell transcriptomics identifies stem cell-derived graft composition in a model of Parkinson's disease

    Ingår i Nature Communications, 2020.

    Open access
  • Wallén-Mackenzie, Åsa; Dumas, Sylvie; Papathanou, Maria; Martis Thiele, Michaela et al.

    Spatio-molecular domains identified in the mouse subthalamic nucleus and neighboring glutamatergic and GABAergic brain structures

    Ingår i Communications Biology, 2020.

    Open access
  • Najdrova, Vladimira; Stairs, Courtney W.; Vinopalova, Martina; Voleman, Lubos et al.

    The evolution of the Puf superfamily of proteins across the tree of eukaryotes

    Ingår i BMC Biology, 2020.

    Open access
  • Hess, Sebastian; Eme, Laura; Roger, Andrew J.; Simpson, Alastair G. B.

    A natural toroidal microswimmer with a rotary eukaryotic flagellum

    Ingår i Nature Microbiology, s. 1620-1626, 2019.

  • Schwank, Katrin; Bornemann, Till L., V; Dombrowski, Nina; Spang, Anja et al.

    An archaeal symbiont-host association from the deep terrestrial subsurface

    Ingår i The ISME Journal, s. 2135-2139, 2019.

  • Seitz, Kiley W.; Dombrowski, Nina; Eme, Laura; Spang, Anja et al.

    Asgard archaea capable of anaerobic hydrocarbon cycling

    Ingår i Nature Communications, 2019.

    Open access
  • Clark, David W.; Karlsson, Torgny; Sennblad, Bengt; Gyllensten, Ulf B. et al.

    Associations of autozygosity with a broad range of human phenotypes

    Ingår i Nature Communications, 2019.

    Open access
  • Bysani, Madhusudhan; Agren, Rasmus; Davegardh, Cajsa; Volkov, Petr et al.

    ATAC-seq reveals alterations in open chromatin in pancreatic islets from subjects with type 2 diabetes

    Ingår i Scientific Reports, 2019.

    Open access
  • Fritzell, Peter; Welinder-Olsson, Christina; Jönsson, Bodil; Melhus, Åsa et al.

    Bacteria: back pain, leg pain and Modic sign-a surgical multicentre comparative study

    Ingår i European spine journal, s. 2981-2989, 2019.

    Open access
  • Johansson, Henrik J.; Socciarelli, Fabio; Vacanti, Nathaniel M.; Haugen, Mads H. et al.

    Breast cancer quantitative proteome and proteogenomic landscape

    Ingår i Nature Communications, 2019.

    Open access
  • Tiukova, Ievgeniia A.; Pettersson, Mats; Höppner, Marc P.; Olsen, Remi-Andre et al.

    Chromosomal genome assembly of the ethanol production strain CBS 11270 indicates a highly dynamic genome structure in the yeast species Brettanomyces bruxellensis

    Ingår i PLoS ONE, 2019.

    Open access
  • Hård, Joanna; Al Hakim, Ezeddin; Kindblom, Marie; Björklund, Åsa K. et al.

    Conbase: a software for unsupervised discovery of clonal somatic mutations in single cells through read phasing

    Ingår i Genome Biology, 2019.

    Open access
  • Martijn, Joran; Lind, Anders E.; Schön, Max E.; Spiertz, Ian et al.

    Confident phylogenetic identification of uncultured prokaryotes through long read amplicon sequencing of the 16S-ITS-23S rRNA operon

    Ingår i Environmental Microbiology, s. 2485-2498, 2019.

    Open access
  • Shebanits, Kateryna; Günther, Torsten; Johansson, Anna C. V.; Maqbool, Khurram et al.

    Copy number determination of the gene for the human pancreatic polypeptide receptor NPY4R using read depth analysis and droplet digital PCR.

    Ingår i BMC Biotechnology, 2019.

    Open access
  • Morris, Julia; Bailey, Mark E. S.; Baldassarre, Damiano; Cullen, Breda et al.

    Genetic variation in CADM2 as a link between psychological traits and obesity

    Ingår i Scientific Reports, 2019.

    Open access
  • Kampfraath, A. A.; Klasson, Lisa; Anvar, S. Y.; Vossen, R. H. A. M. et al.

    Genome expansion of an obligate parthenogenesis-associated Wolbachia poses an exception to the symbiont reduction model

    Ingår i BMC Genomics, 2019.

    Open access
  • Morales, Hernan E.; Faria, Rui; Johannesson, Kerstin; Larsson, Tomas et al.

    Genomic architecture of parallel ecological divergence: Beyond a single environmental contrast

    Ingår i Science Advances, 2019.

    Open access
  • Jimenez-Gonzalez, Alejandro; Xu, Feifei; Andersson, Jan O.

    Lateral Acquisitions Repeatedly Remodel the Oxygen Detoxification Pathway in Diplomonads and Relatives

    Ingår i Genome Biology and Evolution, s. 2542-2556, 2019.

  • Stairs, Courtney W.; Kokla, Anna; Astvaldsson, Asgeir; Jerlström-Hultqvist, Jon et al.

    Oxygen induces the expression of invasion and stress response genes in the anaerobic salmon parasite Spironucleus salmonicida

    Ingår i BMC Biology, 2019.

    Open access
  • Wu, Di; Yan, Junhong; Shen, Xia; Sun, Yu et al.

    Profiling surface proteins on individual exosomes using a proximity barcoding assay

    Ingår i Nature Communications, 2019.

    Open access
  • Spang, Anja; Stairs, Courtney W.; Dombrowski, Nina; Eme, Laura et al.

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

    Ingår i Nature Microbiology, s. 1138-1148, 2019.

  • Parducci, Laura; Alsos, Inger Greve; Unneberg, Per; Pedersen, Mikkel W. et al.

    Shotgun Environmental DNA, Pollen, and Macrofossil Analysis of Lateglacial Lake Sediments From Southern Sweden

    Ingår i Frontiers in Ecology and Evolution, 2019.

    Open access
  • Tiklova, Katarina; Björklund, Åsa K.; Lahti, Laura; Fiorenzano, Alessandro et al.

    Single-cell RNA sequencing reveals midbrain dopamine neuron diversity emerging during mouse brain development

    Ingår i Nature Communications, 2019.

    Open access
  • Baiao, Guilherme Costa; Schneider, Daniela I.; Miller, Wolfgang J.; Klasson, Lisa

    The effect of Wolbachia on gene expression in Drosophila paulistorum and its implications for symbiont-induced host speciation

    Ingår i BMC Genomics, 2019.

    Open access
  • Sayadi, Ahmed; Martínez Barrio, Álvaro; Immonen, Elina; Dainat, Jacques et al.

    The genomic footprint of sexual conflict

    Ingår i Nature Ecology & Evolution, s. 1725-1730, 2019.

    Open access
  • Riess, Kai; Schön, Max Emil; Ziegler, Rebekka; Lutz, Matthias et al.

    The origin and diversification of the Entorrhizales: deep evolutionary roots but recent speciation with a phylogenetic and phenotypic split between associates of the Cyperaceae and Juncaceae

    Ingår i Organisms Diversity & Evolution, s. 13-30, 2019.

    Open access
  • Garcia-Pichel, Ferran; Lombard, Jonathan; Soule, Tanya; Dunaj, Sean et al.

    Timing the Evolutionary Advent of Cyanobacteria and the Later Great Oxidation Event Using Gene Phylogenies of a Sunscreen

    Ingår i mBio, 2019.

    Open access
  • Spang, Anja; Offre, Pierre

    Towards a systematic understanding of differences between archaeal and bacterial diversity

    Ingår i Environmental Microbiology Reports, s. 9-12, 2019.

    Open access
  • Bäckström, Disa; Yutin, Natalya; Jorgensen, Steffen L.; Dharamshi, Jennah et al.

    Virus Genomes from Deep Sea Sediments Expand the Ocean Megavirome and Support Independent Origins of Viral Gigantism

    Ingår i mBio, 2019.

    Open access
  • Södersten, Erik; Toskas, Konstantinos; Rraklli, Vilma; Tiklova, Katarina et al.

    A comprehensive map coupling histone modifications with gene regulation in adult dopaminergic and serotonergic neurons

    Ingår i Nature Communications, 2018.

    Open access
  • Bergin, Claudia; Wentrup, C.; Brewig, N.; Blazejak, A. et al.

    Acquisition of a Novel Sulfur-Oxidizing Symbiont in the Gutless Marine Worm Inanidrilus exumae

    Ingår i Applied and Environmental Microbiology, 2018.

    Open access
  • Ahmed, Engy; Parducci, Laura; Unneberg, Per; Ågren, Rasmus et al.

    Archaeal community changes in Lateglacial lake sediments: Evidence from ancient DNA

    Ingår i Quaternary Science Reviews, s. 19-29, 2018.

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

    Asgard archaea are the closest prokaryotic relatives of eukaryotes

    Ingår i PLoS Genetics, 2018.

    Open access
  • Narrowe, Adrienne B.; Spang, Anja; Stairs, Courtney W.; Caceres, Eva F. et al.

    Complex Evolutionary History of Translation Elongation Factor 2 and Diphthamide Biosynthesis in Archaea and Parabasalids

    Ingår i Genome Biology and Evolution, s. 2380-2393, 2018.

    Open access
  • Garcia, Sarahi L; Stevens, Sarah L R; Crary, Benjamin; Martinez-Garcia, Manuel et al.

    Contrasting patterns of genome-level diversity across distinct co-occurring bacterial populations

    Ingår i The ISME Journal, s. 742-755, 2018.

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

    Deep mitochondrial origin outside the sampled alphaproteobacteria

    Ingår i Nature, s. 101-105, 2018.