Department of Cell and Molecular Biology

Department of Cell ... Research Publications

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Dissertations
Upcomming dissertations at Uppsala University

Publications

N,2,6-Trisubstituted 1H-benzimidazole derivatives as a new scaffold of antimicrobial and anticancer agents: design, synthesis, in vitro evaluation, and in silico studies

Pham, Em Canh; Thi, Tuong Vi Le; Hong, Huong Ha Ly; Thi, Bich Ngoc Vo et al.

Part of RSC Advances, p. 399-420, 2023.

DOI for N,2,6-Trisubstituted 1H-benzimidazole derivatives as a new scaffold of antimicrobial and anticancer agents: design, synthesis, in vitro evaluation, and in silico studies Download full text (pdf) of N,2,6-Trisubstituted 1H-benzimidazole derivatives as a new scaffold of antimicrobial and anticancer agents: design, synthesis, in vitro evaluation, and in silico studies

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New insights into the effect of mutations on affibody-Fc interaction, a molecular dynamics simulation approach

Nosrati, Masoumeh; Housaindokht, Mohammad Reza

Part of Journal of Structural Biology, 2023.

DOI for New insights into the effect of mutations on affibody-Fc interaction, a molecular dynamics simulation approach
5 suggestions to increase grant application success rates

Kamerlin, Shina C. Lynn

Part of EMBO Reports, 2022.

DOI for 5 suggestions to increase grant application success rates
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 closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses

Tamarit, Daniel; Caceres, Eva F.; Krupovic, Mart; Nijland, Reindert et al.

Part of Nature Microbiology, p. 948-+, 2022.

DOI for A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses Download full text (pdf) of A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses

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A full-length infectious cDNA clone of a dsRNA totivirus-like virus

Wang, Han; Maia, Filipe R.N.C.; Okamoto, Kenta

Part of Virology, p. 127-133, 2022.

DOI for A full-length infectious cDNA clone of a dsRNA totivirus-like virus Download full text (pdf) of A full-length infectious cDNA clone of a dsRNA totivirus-like virus

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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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A_2B adenosine receptor antagonists rescue lymphocyte activity in adenosine-producing patient-derived cancer models

Tay, Apple Hui Min; Prieto-Diaz, Ruben; Neo, Shiyong; Tong, Le et al.

Part of Journal for ImmunoTherapy of Cancer, 2022.

DOI for A_2B adenosine receptor antagonists rescue lymphocyte activity in adenosine-producing patient-derived cancer models Download full text (pdf) of A_2B adenosine receptor antagonists rescue lymphocyte activity in adenosine-producing patient-derived cancer models

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All-electrical antibiotic susceptibility testing within 30 min using silicon nano transistors

Xu, Xingxing; Chen, Si; Yu, Yingtao; Virtanen, Petra et al.

Part of Sensors and actuators. B, Chemical, 2022.

DOI for All-electrical antibiotic susceptibility testing within 30 min using silicon nano transistors Download full text (pdf) of All-electrical antibiotic susceptibility testing within 30 min using silicon nano transistors

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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
Analysis of the mast cell expressed carboxypeptidase A3 and its structural and evolutionary relationship to other vertebrate carboxypeptidases

Akula, Srinivas; Hellman, Lars; Aviles, Francesc Xavier; Wernersson, Sara

Part of Developmental and Comparative Immunology, 2022.

DOI for Analysis of the mast cell expressed carboxypeptidase A3 and its structural and evolutionary relationship to other vertebrate carboxypeptidases Download full text (pdf) of Analysis of the mast cell expressed carboxypeptidase A3 and its structural and evolutionary relationship to other vertebrate carboxypeptidases

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Bacterial type I signal peptidase inhibitors-Optimized hits from nature

Szalaj, Natalia; Benediktsdottir, Andrea; Rusin, Dominika; Karlén, Anders et al.

Part of European Journal of Medicinal Chemistry, 2022.

DOI for Bacterial type I signal peptidase inhibitors-Optimized hits from nature
Baseline characteristics of 547 new onset heart failure patients in the PREFERS heart failure study

Linde, Cecilia; Ekstrom, Mattias; Eriksson, Maria J.; Maret, Eva et al.

Part of ESC Heart Failure, p. 2125-2138, 2022.

DOI for Baseline characteristics of 547 new onset heart failure patients in the PREFERS heart failure study Download full text (pdf) of Baseline characteristics of 547 new onset heart failure patients in the PREFERS heart failure study

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Binding Networks Identify Targetable Protein Pockets for Mechanism-Based Drug Design

Balint, Monika; Zsido, Balazs Zoltan; Van der Spoel, David; Hetenyi, Csaba

Part of International Journal of Molecular Sciences, 2022.

DOI for Binding Networks Identify Targetable Protein Pockets for Mechanism-Based Drug Design Download full text (pdf) of Binding Networks Identify Targetable Protein Pockets for Mechanism-Based Drug Design

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Calculation of Heat Capacity Changes in Enzyme Catalysis and Ligand Binding

Åqvist, Johan; van der Ent, Florian

Part of Journal of Chemical Theory and Computation, p. 6345-6353, 2022.

DOI for Calculation of Heat Capacity Changes in Enzyme Catalysis and Ligand Binding Download full text (pdf) of Calculation of Heat Capacity Changes in Enzyme Catalysis and Ligand Binding

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Cerebrospinal Fluid in Classical Trigeminal Neuralgia: An Exploratory Study on Candidate Biomarkers

Svedung-Wettervik, Teodor; Folkvaljon, Dick; Gordh, Torsten; Freyhult, Eva et al.

Part of Biomedicines, 2022.

DOI for Cerebrospinal Fluid in Classical Trigeminal Neuralgia: An Exploratory Study on Candidate Biomarkers Download full text (pdf) of Cerebrospinal Fluid in Classical Trigeminal Neuralgia: An Exploratory Study on Candidate Biomarkers

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Characterization of Metronidazole-Resistant Giardia intestinalis Lines by Comparative Transcriptomics and Proteomics

Krakovka, Sascha; Ribacke, Ulf; Miyamoto, Yukiko; Eckmann, Lars et al.

Part of Frontiers in Microbiology, 2022.

DOI for Characterization of Metronidazole-Resistant Giardia intestinalis Lines by Comparative Transcriptomics and Proteomics Download full text (pdf) of Characterization of Metronidazole-Resistant Giardia intestinalis Lines by Comparative Transcriptomics and Proteomics

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Chicken cathepsin G-like - A highly specific serine protease with a peculiar tryptase specificity expressed by chicken thrombocytes

Fu, Zhirong; Akula, Srinivas; Olsson, Anna-Karin; Hellman, Lars

Part of Developmental and Comparative Immunology, 2022.

DOI for Chicken cathepsin G-like - A highly specific serine protease with a peculiar tryptase specificity expressed by chicken thrombocytes Download full text (pdf) of Chicken cathepsin G-like - A highly specific serine protease with a peculiar tryptase specificity expressed by chicken thrombocytes

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Combined nanometric and phylogenetic analysis of unique endocytic compartments in Giardia lamblia sheds light on the evolution of endocytosis in Metamonada

Santos, Rui; Astvaldsson, Asgeir; Pipaliya, Shweta, V; Zumthor, Jon Paulin et al.

Part of BMC Biology, 2022.

DOI for Combined nanometric and phylogenetic analysis of unique endocytic compartments in Giardia lamblia sheds light on the evolution of endocytosis in Metamonada Download full text (pdf) of Combined nanometric and phylogenetic analysis of unique endocytic compartments in Giardia lamblia sheds light on the evolution of endocytosis in Metamonada

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Comparative genome analysis of Mycobacteria focusing on tRNA and non-coding RNA

Behra, Phani Rama Krishna; Pettersson, B. M. Fredrik; Ramesh, Malavika; Das, Sarbashis et al.

Part of BMC Genomics, 2022.

DOI for Comparative genome analysis of Mycobacteria focusing on tRNA and non-coding RNA Download full text (pdf) of Comparative genome analysis of Mycobacteria focusing on tRNA and non-coding RNA

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Comparative structural analysis provides new insights into the function of R2‐like ligand‐binding oxidase

Diamanti, Riccardo; Srinivas, Vivek; Johansson, Annika I.; Nordström, Anders et al.

Part of FEBS Letters, p. 1600-1610, 2022.

DOI for Comparative structural analysis provides new insights into the function of R2‐like ligand‐binding oxidase Download full text (pdf) of Comparative structural analysis provides new insights into the function of R2‐like ligand‐binding oxidase

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Comprehensive characterization of Cysteine-rich protein-coding genes of Giardia lamblia and their role during antigenic variation

Rodriguez-Walker, Macarena; Molina, Cecilia R.; Lujan, Lucas A.; Saura, Alicia et al.

Part of Genomics, 2022.

DOI for Comprehensive characterization of Cysteine-rich protein-coding genes of Giardia lamblia and their role during antigenic variation Download full text (pdf) of Comprehensive characterization of Cysteine-rich protein-coding genes of Giardia lamblia and their role during antigenic variation

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Computer Simulations Reveal an Entirely Entropic Activation Barrier for the Chemical Step in a Designer Enzyme

Åqvist, Johan

Part of ACS Catalysis, p. 1452-1460, 2022.

DOI for Computer Simulations Reveal an Entirely Entropic Activation Barrier for the Chemical Step in a Designer Enzyme Download full text (pdf) of Computer Simulations Reveal an Entirely Entropic Activation Barrier for the Chemical Step in a Designer Enzyme

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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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CsrA enters Hfq's territory: Regulation of a base-pairing small RNA

Søndergaard Stenum, Thomas; Holmqvist, Erik

Part of Molecular Microbiology, p. 4-9, 2022.

DOI for CsrA enters Hfq's territory: Regulation of a base-pairing small RNA Download full text (pdf) of CsrA enters Hfq's territory: Regulation of a base-pairing small RNA

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Direct measurements of mRNA translation kinetics in living cells

Metelev, Mikhail; Lundin, Erik; Volkov, Ivan; Gynna, Arvid H. et al.

Part of Nature Communications, 2022.

DOI for Direct measurements of mRNA translation kinetics in living cells Download full text (pdf) of Direct measurements of mRNA translation kinetics in living cells

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Distribution of five clinically important neuroglial proteins in the human brain.

Sjölin, Karl; Kultima, Kim; larsson, Anders; Freyhult, Eva et al.

Part of Molecular brain, 2022.

DOI for Distribution of five clinically important neuroglial proteins in the human brain. Download full text (pdf) of Distribution of five clinically important neuroglial proteins in the human brain.

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Effects of denosumab treatment on the expression of receptor activator of nuclear kappa-B ligand (RANKL) and TNF-receptor TNFRSF9 after total hip arthroplasty-results from a randomized placebo-controlled clinical trial.

Sköld, Caroline; Kultima, Kim; Freyhult, Eva; Larsson, Anders et al.

Part of Osteoporosis International, p. 1-8, 2022.

DOI for Effects of denosumab treatment on the expression of receptor activator of nuclear kappa-B ligand (RANKL) and TNF-receptor TNFRSF9 after total hip arthroplasty-results from a randomized placebo-controlled clinical trial. Download full text (pdf) of Effects of denosumab treatment on the expression of receptor activator of nuclear kappa-B ligand (RANKL) and TNF-receptor TNFRSF9 after total hip arthroplasty-results from a randomized placebo-controlled clinical trial.

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Elucidation of the nematicidal mode of action of grammicin on Caenorhabditis elegans

Nguyen, Van Thi; Park, Ae Ran; Duraisamy, Kalaiselvi; Vo, Duc Duy et al.

Part of Pesticide Biochemistry and Physiology, 2022.

DOI for Elucidation of the nematicidal mode of action of grammicin on Caenorhabditis elegans
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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Evolution of Bacterial Interspecies Hybrids with Enlarged Chromosomes

Bartke, Katrin; Huseby, Douglas L; Brandis, Gerrit; Hughes, Diarmaid

Part of Genome Biology and Evolution, 2022.

DOI for Evolution of Bacterial Interspecies Hybrids with Enlarged Chromosomes Download full text (pdf) of Evolution of Bacterial Interspecies Hybrids with Enlarged Chromosomes

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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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Exome-wide association study to identify rare variants influencing COVID-19 outcomes: Results from the Host Genetics Initiative.

Butler-Laporte, Guillaume; Povysil, Gundula; Kosmicki, Jack A; Cirulli, Elizabeth T et al.

Part of PLOS Genetics, 2022.

DOI for Exome-wide association study to identify rare variants influencing COVID-19 outcomes: Results from the Host Genetics Initiative.
Exploring complement-dependent cytotoxicity by rituximab isotypes in 2D and 3D-cultured B-cell lymphoma

Lara, Sandra; Heilig, Juliane; Virtanen, Alexander; Kleinau, Sandra

Part of BMC Cancer, 2022.

DOI for Exploring complement-dependent cytotoxicity by rituximab isotypes in 2D and 3D-cultured B-cell lymphoma Download full text (pdf) of Exploring complement-dependent cytotoxicity by rituximab isotypes in 2D and 3D-cultured B-cell lymphoma

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Exploring Non-orthosteric Interactions with a Series of Potent and Selective A(3) Antagonists

Miranda-Pastoriza, Dario; Bernardez, Rodrigo; Azuaje, Jhonny; Prieto-Diaz, Ruben et al.

Part of ACS Medicinal Chemistry Letters, p. 243-249, 2022.

DOI for Exploring Non-orthosteric Interactions with a Series of Potent and Selective A(3) Antagonists Download full text (pdf) of Exploring Non-orthosteric Interactions with a Series of Potent and Selective A(3) Antagonists

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Extended cleavage specificity of a Chinese alligator granzyme B homologue, a strict Glu-ase in contrast to the mammalian Asp-ases

Ryu, Jinhye; Fu, Zhirong; Akula, Srinivas; Olsson, Anna-Karin et al.

Part of Developmental and Comparative Immunology, 2022.

DOI for Extended cleavage specificity of a Chinese alligator granzyme B homologue, a strict Glu-ase in contrast to the mammalian Asp-ases Download full text (pdf) of Extended cleavage specificity of a Chinese alligator granzyme B homologue, a strict Glu-ase in contrast to the mammalian Asp-ases

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Extracellular vesicles in heart failure: A study in patients with heart failure with preserved ejection fraction or heart failure with reduced ejection fraction characteristics undergoing elective coronary artery bypass grafting

Matan, Dmitri; Mobarrez, Fariborz; Löfström, Ulrika; Corbascio, Matthias et al.

Part of Frontiers in Cardiovascular Medicine, 2022.

DOI for Extracellular vesicles in heart failure: A study in patients with heart failure with preserved ejection fraction or heart failure with reduced ejection fraction characteristics undergoing elective coronary artery bypass grafting Download full text (pdf) of Extracellular vesicles in heart failure: A study in patients with heart failure with preserved ejection fraction or heart failure with reduced ejection fraction characteristics undergoing elective coronary artery bypass grafting

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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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Fractional 2 '-O-methylation in the ribosomal RNA of Dictyostelium discoideum supports ribosome heterogeneity in Amoebozoa

Diesend, Jan; Birkedal, Ulf; Kjellin, Jonas; Zhang, Jingwen et al.

Part of Scientific Reports, 2022.

DOI for Fractional 2 '-O-methylation in the ribosomal RNA of Dictyostelium discoideum supports ribosome heterogeneity in Amoebozoa Download full text (pdf) of Fractional 2 '-O-methylation in the ribosomal RNA of Dictyostelium discoideum supports ribosome heterogeneity in Amoebozoa

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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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Genetic characterisation of an Iflavirus associated with a vomiting disease in the Indian tropical tasar silkworm, Antheraea mylitta

Ponnuvel, Kangayam M.; de Miranda, Joachim R.; Terenius, Olle; Li, Wenli et al.

Part of Virus Research, 2022.

DOI for Genetic characterisation of an Iflavirus associated with a vomiting disease in the Indian tropical tasar silkworm, Antheraea mylitta Download full text (pdf) of Genetic characterisation of an Iflavirus associated with a vomiting disease in the Indian tropical tasar silkworm, Antheraea mylitta

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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 duodenalis

Rojas-Lopez, Laura; Marques, Rafael C.; Svärd, Staffan

Part of Trends in Parasitology, p. 605-606, 2022.

DOI for Giardia duodenalis Download full text (pdf) of Giardia duodenalis

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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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Glucomannan and beta-glucan degradation by Mytilus edulis Cel45A: Crystal structure and activity comparison with GH45 subfamily A, B and C

Okmane, Laura; Nestor, Gustav; Jakobsson, Emma; Xu, Bingze et al.

Part of Carbohydrate Polymers, 2022.

DOI for Glucomannan and beta-glucan degradation by Mytilus edulis Cel45A: Crystal structure and activity comparison with GH45 subfamily A, B and C Download full text (pdf) of Glucomannan and beta-glucan degradation by Mytilus edulis Cel45A: Crystal structure and activity comparison with GH45 subfamily A, B and C

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