Department of Cell and Molecular Biology

Department of Cell ... Molecular Evolution Publications

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Publications

A chromosome-scale reference genome for Spironucleus salmonicida

Xu, Feifei; Jimenez-Gonzalez, Alejandro; Kurt, Zeynep; Ástvaldsson, Ásgeir et al.

Part of Scientific Data, 2022.

DOI for A chromosome-scale reference genome for Spironucleus salmonicida Download full text (pdf) of A chromosome-scale reference genome for Spironucleus salmonicida

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A genomic and morphometric analysis of alpine bumblebees: Ongoing reductions in tongue length but no clear genetic component

Christmas, Matthew; Jones, Julia C.; Olsson, Anna; Wallerman, Ola et al.

Part of Molecular Ecology, p. 1111-1127, 2022.

DOI for A genomic and morphometric analysis of alpine bumblebees: Ongoing reductions in tongue length but no clear genetic component Download full text (pdf) of A genomic and morphometric analysis of alpine bumblebees: Ongoing reductions in tongue length but no clear genetic component

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A genomic and morphometric analysis of alpine bumblebees: Ongoing reductions in tongue length but no clear genetic component

Christmas, Matthew; Jones, Julia; Olsson, Anna; Wallerman, Ola et al.

Part of Molecular Ecology, p. 1111-1127, 2022.

DOI for A genomic and morphometric analysis of alpine bumblebees: Ongoing reductions in tongue length but no clear genetic component

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A Study Protocol for Validation and Implementation of Whole-Genome and -Transcriptome Sequencing as a Comprehensive Precision Diagnostic Test in Acute Leukemias

Berglund, Eva Caroline; Barbany, Gisela; Orsmark-Pietras, Christina; Fogelstrand, Linda et al.

Part of Frontiers in Medicine, 2022.

DOI for A Study Protocol for Validation and Implementation of Whole-Genome and -Transcriptome Sequencing as a Comprehensive Precision Diagnostic Test in Acute Leukemias Download full text (pdf) of A Study Protocol for Validation and Implementation of Whole-Genome and -Transcriptome Sequencing as a Comprehensive Precision Diagnostic Test in Acute Leukemias

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An estimate of the deepest branches of the tree of life from ancient vertically evolving genes

Moody, Edmund R. R.; Mahendrarajah, Tara A.; Dombrowski, Nina; Clark, James W. et al.

Part of eLIFE, 2022.

DOI for An estimate of the deepest branches of the tree of life from ancient vertically evolving genes
Contribution of rare whole-genome sequencing variants to plasma protein levels and the missing heritability

Kierczak, Marcin; Rafati, Nima; Höglund, Julia; Gourlé, Hadrien et al.

Part of Nature Communications, 2022.

DOI for Contribution of rare whole-genome sequencing variants to plasma protein levels and the missing heritability Download full text (pdf) of Contribution of rare whole-genome sequencing variants to plasma protein levels and the missing heritability

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Environmentally induced DNA methylation is inherited across generations in an aquatic keystone species

Feiner, Nathalie; Radersma, Reinder; Vasquez, Louella; Ringner, Markus et al.

Part of ISCIENCE, 2022.

DOI for Environmentally induced DNA methylation is inherited across generations in an aquatic keystone species Download full text (pdf) of Environmentally induced DNA methylation is inherited across generations in an aquatic keystone species

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Evolving Perspective on the Origin and Diversification of Cellular Life and the Virosphere

Spang, Anja; Mahendrarajah, Tara A.; Offre, Pierre; Stairs, Courtney W.

Part of Genome Biology and Evolution, 2022.

DOI for Evolving Perspective on the Origin and Diversification of Cellular Life and the Virosphere Download full text (pdf) of Evolving Perspective on the Origin and Diversification of Cellular Life and the Virosphere

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FOXO Dictates Initiation of B Cell Development and Myeloid Restriction in Common Lymphoid Progenitors

Pena-Perez, Lucia; Kharazi, Shabnam; Frengen, Nicolai; Krstic, Aleksandra et al.

Part of Frontiers in Immunology, 2022.

DOI for FOXO Dictates Initiation of B Cell Development and Myeloid Restriction in Common Lymphoid Progenitors Download full text (pdf) of FOXO Dictates Initiation of B Cell Development and Myeloid Restriction in Common Lymphoid Progenitors

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FOXO1 and FOXO3 Cooperatively Regulate Innate Lymphoid Cell Development

Luu, Thuy T.; Sondergaard, Jonas Norskov; Pena-Perez, Lucia; Kharazi, Shabnam et al.

Part of Frontiers in Immunology, 2022.

DOI for FOXO1 and FOXO3 Cooperatively Regulate Innate Lymphoid Cell Development Download full text (pdf) of FOXO1 and FOXO3 Cooperatively Regulate Innate Lymphoid Cell Development

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GenErode: a bioinformatics pipeline to investigate genome erosion in endangered and extinct species

Kutschera, Verena E.; Kierczak, Marcin; van der Valk, Tom; von Seth, Johanna et al.

Part of BMC Bioinformatics, 2022.

DOI for GenErode: a bioinformatics pipeline to investigate genome erosion in endangered and extinct species Download full text (pdf) of GenErode: a bioinformatics pipeline to investigate genome erosion in endangered and extinct species

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Genome Evolution of a Symbiont Population for Pathogen Defense in Honeybees

Dyrhage, Karl; Garcia-Montaner, Andrea; Tamarit, Daniel; Seeger, Christian et al.

Part of Genome Biology and Evolution, 2022.

DOI for Genome Evolution of a Symbiont Population for Pathogen Defense in Honeybees Download full text (pdf) of Genome Evolution of a Symbiont Population for Pathogen Defense in Honeybees

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Genomic analyses of the Linum distyly supergene reveal convergent evolution at the molecular level

Gutierrez-Valencia, Juanita; Fracassetti, Marco; Berdan, Emma L.; Bunikis, Ignas et al.

Part of Current Biology, p. 4360-4371.e6, 2022.

DOI for Genomic analyses of the Linum distyly supergene reveal convergent evolution at the molecular level Download full text (pdf) of Genomic analyses of the Linum distyly supergene reveal convergent evolution at the molecular level

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Genomic diversity and biosynthetic capabilities of sponge-associated chlamydiae

Dharamshi, Jennah; Gaarslev, Natalia; Steffen, Karin; Martin, Tom et al.

Part of The ISME Journal, p. 2725-2740, 2022.

DOI for Genomic diversity and biosynthetic capabilities of sponge-associated chlamydiae Download full text (pdf) of Genomic diversity and biosynthetic capabilities of sponge-associated chlamydiae

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Giardia intestinalis thymidine kinase is a high-affinity enzyme crucial for DNA synthesis and an exploitable target for drug discovery

Krakovka, Sascha; Ranjbarian, Farahnaz; Lujan, Lucas A.; Saura, Alicia et al.

Part of Journal of Biological Chemistry, 2022.

DOI for Giardia intestinalis thymidine kinase is a high-affinity enzyme crucial for DNA synthesis and an exploitable target for drug discovery Download full text (pdf) of Giardia intestinalis thymidine kinase is a high-affinity enzyme crucial for DNA synthesis and an exploitable target for drug discovery

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High-throughput muscle fiber typing from RNA sequencing data

Oskolkov, Nikolay; Santel, Malgorzata; Parikh, Hemang M.; Ekstrom, Ola et al.

Part of Skeletal Muscle, 2022.

DOI for High-throughput muscle fiber typing from RNA sequencing data Download full text (pdf) of High-throughput muscle fiber typing from RNA sequencing data

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Implementing precision medicine in a regionally organized healthcare system in Sweden.

Fioretos, Thoas; Wirta, Valtteri; Cavelier, Lucia; Berglund, Eva Caroline et al.

Part of Nature Medicine, p. 1980-1982, 2022.

DOI for Implementing precision medicine in a regionally organized healthcare system in Sweden.
Long-term SARS-CoV-2-specific and cross-reactive cellular immune responses correlate with humoral responses, disease severity, and symptomatology

Lauren, Ida; Havervall, Sebastian; Ng, Henry; Lord, Martin et al.

Part of Immunity, Inflammation and Disease, 2022.

DOI for Long-term SARS-CoV-2-specific and cross-reactive cellular immune responses correlate with humoral responses, disease severity, and symptomatology Download full text (pdf) of Long-term SARS-CoV-2-specific and cross-reactive cellular immune responses correlate with humoral responses, disease severity, and symptomatology

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Nuclear-specific gene expression in heterokaryons of the filamentous ascomycete Neurospora tetrasperma

Meunier, Cecile; Darolti, Iulia; Reimegård, Johan; Mank, Judith E. et al.

Part of Proceedings of the Royal Society of London. Biological Sciences, 2022.

DOI for Nuclear-specific gene expression in heterokaryons of the filamentous ascomycete Neurospora tetrasperma Download full text (pdf) of Nuclear-specific gene expression in heterokaryons of the filamentous ascomycete Neurospora tetrasperma

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scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation

Raine, Amanda; Lundmark, Anders; Annett, Alva; Wiman, Ann-Christin et al.

Part of Scientific Reports, 2022.

DOI for scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation Download full text (pdf) of scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation

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Single-cell multi-omics of human preimplantation embryos shows susceptibility to glucocorticoids

Zhao, Cheng; Biondic, Savana; Vandal, Katherine; Björklund, Åsa K. et al.

Part of Genome Research, p. 1627-1641, 2022.

DOI for Single-cell multi-omics of human preimplantation embryos shows susceptibility to glucocorticoids Download full text (pdf) of Single-cell multi-omics of human preimplantation embryos shows susceptibility to glucocorticoids

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The evolutionary origin of host association in the Rickettsiales

Schön, Max Emil; Martijn, Joran; Vosseberg, Julian; Köstlbacher, Stephan et al.

Part of Nature Microbiology, p. 1189-1199, 2022.

DOI for The evolutionary origin of host association in the Rickettsiales Download full text (pdf) of The evolutionary origin of host association in the Rickettsiales

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The importance of biofilm formation for cultivation of a Micrarchaeon and its interactions with its Thermoplasmatales host

Krause, Susanne; Gfrerer, Sabrina; von Kügelgen, Andriko; Reuse, Carsten et al.

Part of Nature Communications, 2022.

DOI for The importance of biofilm formation for cultivation of a Micrarchaeon and its interactions with its Thermoplasmatales host Download full text (pdf) of The importance of biofilm formation for cultivation of a Micrarchaeon and its interactions with its Thermoplasmatales host

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Transposon- and Genome Dynamics in the Fungal Genus Neurospora: Insights from Nearly Gapless Genome Assemblies

Nguyen, Diem; Peona, Valentina; Unneberg, Per; Suh, Alexander et al.

Part of Fungal Genetics Reports, 2022.

DOI for Transposon- and Genome Dynamics in the Fungal Genus Neurospora: Insights from Nearly Gapless Genome Assemblies Download full text (pdf) of Transposon- and Genome Dynamics in the Fungal Genus Neurospora: Insights from Nearly Gapless Genome Assemblies

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Whole genome analyses based on single, field collected spores of the arbuscular mycorrhizal fungus Funneliformis geosporum

Eshghi Sahraei, Shadi; Sanchez-Garcia, Marisol; Montoliu-Nerin, Merce; Manyara, David et al.

Part of Mycorrhiza, p. 361-371, 2022.

DOI for Whole genome analyses based on single, field collected spores of the arbuscular mycorrhizal fungus Funneliformis geosporum Download full text (pdf) of Whole genome analyses based on single, field collected spores of the arbuscular mycorrhizal fungus Funneliformis geosporum

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A combined approach for single-cell mRNA and intracellular protein expression analysis

Reimegård, Johan; Tarbier, Marcel; Danielsson, Marcus; Schuster, Jens et al.

Part of Communications Biology, 2021.

DOI for A combined approach for single-cell mRNA and intracellular protein expression analysis Download full text (pdf) of A combined approach for single-cell mRNA and intracellular protein expression analysis

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A rooted phylogeny resolves early bacterial evolution

Coleman, Gareth A.; Davin, Adrian A.; Mahendrarajah, Tara A.; Szantho, Lenard L. et al.

Part of Science, 2021.

DOI for A rooted phylogeny resolves early bacterial evolution
Abundantly expressed class of noncoding RNAs conserved through the multicellular evolution of dictyostelid social amoebas

Kjellin, Jonas; Avesson, Lotta; Reimegård, Johan; Liao, Zhen et al.

Part of Genome Research, p. 436-447, 2021.

DOI for Abundantly expressed class of noncoding RNAs conserved through the multicellular evolution of dictyostelid social amoebas Download full text (pdf) of Abundantly expressed class of noncoding RNAs conserved through the multicellular evolution of dictyostelid social amoebas

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Ancient and modem genomes unravel the evolutionary history of the rhinoceros family

Liu, Shanlin; Westbury, Michael, V; Dussex, Nicolas; Mitchell, Kieren J. et al.

Part of Cell, p. 4874-4885.e16, 2021.

DOI for Ancient and modem genomes unravel the evolutionary history of the rhinoceros family Download full text (pdf) of Ancient and modem genomes unravel the evolutionary history of the rhinoceros family

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Antibiotics should not be used for back/leg pain

Fritzell, Peter; Hägg, Olle; Bergström, Tomas; Jönsson, Bodil et al.

Part of Acta Orthopaedica, p. 244-246, 2021.

DOI for Antibiotics should not be used for back/leg pain Download full text (pdf) of Antibiotics should not be used for back/leg pain

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Avian Neo-Sex Chromosomes Reveal Dynamics of Recombination Suppression and W Degeneration

Sigeman, Hanna; Strandh, Maria; Proux-Wera, Estelle; Kutschera, Verena E. et al.

Part of Molecular biology and evolution, p. 5275-5291, 2021.

DOI for Avian Neo-Sex Chromosomes Reveal Dynamics of Recombination Suppression and W Degeneration Download full text (pdf) of Avian Neo-Sex Chromosomes Reveal Dynamics of Recombination Suppression and W Degeneration

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Character and environmental lability of cyanobacteria-derived dissolved organic matter

Patriarca, Claudia; Sedano Núñez, Vicente T.; Garcia, Sarahi L; Bergquist, Jonas et al.

Part of Limnology and Oceanography, p. 496-509, 2021.

DOI for Character and environmental lability of cyanobacteria-derived dissolved organic matter Download full text (pdf) of Character and environmental lability of cyanobacteria-derived dissolved organic matter

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Characterization of the nuclear and cytosolic transcriptomes in human brain tissue reveals new insights into the subcellular distribution of RNA transcripts

Zaghlool, Ammar; Niazi, Adnan; Björklund, Åsa K.; Orzechowski Westholm, Jakub et al.

Part of Scientific Reports, 2021.

DOI for Characterization of the nuclear and cytosolic transcriptomes in human brain tissue reveals new insights into the subcellular distribution of RNA transcripts Download full text (pdf) of Characterization of the nuclear and cytosolic transcriptomes in human brain tissue reveals new insights into the subcellular distribution of RNA transcripts

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Comparative genome sequencing reveals insights into the dynamics of Wolbachia in native and invasive cherry fruit flies

Wolfe, Thomas M.; Bruzzese, Daniel J.; Klasson, Lisa; Corretto, Erika et al.

Part of Molecular Ecology, p. 6259-6272, 2021.

DOI for Comparative genome sequencing reveals insights into the dynamics of Wolbachia in native and invasive cherry fruit flies Download full text (pdf) of Comparative genome sequencing reveals insights into the dynamics of Wolbachia in native and invasive cherry fruit flies

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Comparative Genomics Reveals Factors Associated with Phenotypic Expression of Wolbachia

Baiao, Guilherme Costa; Janice, Jessin; Galinou, Maria; Klasson, Lisa

Part of Genome Biology and Evolution, 2021.

DOI for Comparative Genomics Reveals Factors Associated with Phenotypic Expression of Wolbachia Download full text (pdf) of Comparative Genomics Reveals Factors Associated with Phenotypic Expression of Wolbachia

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Comprehensive analysis of chemical and biological problems associated with browning agents used in aquatic studies

Scharnweber, Kristin; Peura, Sari; Attermeyer, Katrin; Bertilsson, Stefan et al.

Part of Limnology and Oceanography, p. 818-835, 2021.

DOI for Comprehensive analysis of chemical and biological problems associated with browning agents used in aquatic studies Download full text (pdf) of Comprehensive analysis of chemical and biological problems associated with browning agents used in aquatic studies

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Diversity of electron transport chains in anaerobic protists

Gawryluk, Ryan M. R.; Stairs, Courtney W.

Part of Biochimica et Biophysica Acta - Bioenergetics, 2021.

DOI for Diversity of electron transport chains in anaerobic protists Download full text (pdf) of Diversity of electron transport chains in anaerobic protists

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Escherichia coli EC93 deploys two plasmid- encoded class I contact- dependent growth inhibition systems for antagonistic bacterial interactions

Wäneskog, Marcus; Halvorsen, Tiffany; Filek, Klara; Xu, Feifei et al.

Part of MICROBIAL GENOMICS, 2021.

DOI for Escherichia coli EC93 deploys two plasmid- encoded class I contact- dependent growth inhibition systems for antagonistic bacterial interactions

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Expression of the qepA1 gene is induced under antibiotic exposure

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

Part of Journal of Antimicrobial Chemotherapy, p. 1433-1440, 2021.

DOI for Expression of the qepA1 gene is induced under antibiotic exposure

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Functional differences between TSHR alleles associate with variation in spawning season in Atlantic herring

Chen, Junfeng; Bi, Huijuan; Pettersson, Mats; Sato, Daiki et al.

Part of Communications Biology, 2021.

DOI for Functional differences between TSHR alleles associate with variation in spawning season in Atlantic herring Download full text (pdf) of Functional differences between TSHR alleles associate with variation in spawning season in Atlantic herring

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Genome-wide association study of circulating interleukin 6 levels identifies novel loci

Ahluwalia, Tarunveer S.; Prins, Bram P.; Abdollahi, Mohammadreza; Armstrong, Nicola J. et al.

Part of Human Molecular Genetics, p. 393-409, 2021.

DOI for Genome-wide association study of circulating interleukin 6 levels identifies novel loci Download full text (pdf) of Genome-wide association study of circulating interleukin 6 levels identifies novel loci

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Genomic insights into the conservation status of the world's last remaining Sumatran rhinoceros populations

von Seth, Johanna; Dussex, Nicolas; Díez-del-Molino, David; van der Valk, Tom et al.

Part of Nature Communications, 2021.

DOI for Genomic insights into the conservation status of the world's last remaining Sumatran rhinoceros populations Download full text (pdf) of Genomic insights into the conservation status of the world's last remaining Sumatran rhinoceros populations

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Identification and Functional Characterization of a Novel Susceptibility Locus for Small Vessel Vasculitis with MPO-ANCA

Dahlqvist, Johanna; Ekman, Diana; Sennblad, Bengt; Kozyrev, Sergey V. et al.

Part of Rheumatology, p. 3461-3470, 2021.

DOI for Identification and Functional Characterization of a Novel Susceptibility Locus for Small Vessel Vasculitis with MPO-ANCA Download full text (pdf) of Identification and Functional Characterization of a Novel Susceptibility Locus for Small Vessel Vasculitis with MPO-ANCA

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In vivo screen identifies a SIK inhibitor that induces beta cell proliferation through a transient UPR

Charbord, Jeremie; Ren, Lipeng; Sharma, Rohit B.; Johansson, Anna et al.

Part of Nature Metabolism, p. 682-+, 2021.

DOI for In vivo screen identifies a SIK inhibitor that induces beta cell proliferation through a transient UPR
Influence of Different Arm Positions in the Localizer Radiograph(s) on Patient Dose during Exposure-Controlled CT Examinations of the Neck to Pelvis

Svahn, Tony M; Peric, Lovre; Ast, Jennifer C.

Part of Tomography, p. 313-322, 2021.

DOI for Influence of Different Arm Positions in the Localizer Radiograph(s) on Patient Dose during Exposure-Controlled CT Examinations of the Neck to Pelvis Download full text (pdf) of Influence of Different Arm Positions in the Localizer Radiograph(s) on Patient Dose during Exposure-Controlled CT Examinations of the Neck to Pelvis

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Letter to the editor concerning "Comment to chronic low back pain, bacterial infection and treatment with antibiotics"

Fritzell, Peter; Bergström, Tomas; Andersson, Siv G. E.; Jönsson, Bodil et al.

Part of The spine journal, p. 1233-1235, 2021.

DOI for Letter to the editor concerning "Comment to chronic low back pain, bacterial infection and treatment with antibiotics"
Life and Death of Selfish Genes: Comparative Genomics Reveals the Dynamic Evolution of Cytoplasmic Incompatibility

Martinez, Julien; Klasson, Lisa; Welch, John J.; Jiggins, Francis M.

Part of Molecular biology and evolution, p. 2-15, 2021.

DOI for Life and Death of Selfish Genes: Comparative Genomics Reveals the Dynamic Evolution of Cytoplasmic Incompatibility Download full text (pdf) of Life and Death of Selfish Genes: Comparative Genomics Reveals the Dynamic Evolution of Cytoplasmic Incompatibility

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Limited access to antigen drives generation of early B cell memory while restraining the plasmablast response

Glaros, Vassilis; Rauschmeier, Rene; Artemov, Artem, V; Reinhardt, Annika et al.

Part of Immunity, p. 2005-+, 2021.

DOI for Limited access to antigen drives generation of early B cell memory while restraining the plasmablast response Download full text (pdf) of Limited access to antigen drives generation of early B cell memory while restraining the plasmablast response

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Mammuthus sp. (Early and Middle Pleistocene Mammoths)

Pecnerová, Patrícia; Díez-del-Molino, David; van der Valk, Tom; Dehasque, Marianne et al.

Part of Trends in Genetics, p. 682-683, 2021.

DOI for Mammuthus sp. (Early and Middle Pleistocene Mammoths) Download full text (pdf) of Mammuthus sp. (Early and Middle Pleistocene Mammoths)

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Single cell genomics reveals plastid-lacking Picozoa are close relatives of red algae

Schön, Max Emil; Zlatogursky, Vasily V.; Singh, Rohan P.; Poirier, Camille et al.

Part of Nature Communications, 2021.

DOI for Single cell genomics reveals plastid-lacking Picozoa are close relatives of red algae Download full text (pdf) of Single cell genomics reveals plastid-lacking Picozoa are close relatives of red algae

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