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View article: Single-cell sequencing reveals unexpected genetic diversity among <i>Bodo</i> spp. flagellates and their bacterial endosymbionts
Single-cell sequencing reveals unexpected genetic diversity among <i>Bodo</i> spp. flagellates and their bacterial endosymbionts Open
Bodo is a cosmopolitan genus of free living bacterivorous single-celled flagellates in the class Kinetoplastea. Members of genus Bodo are considered the closest free-living relatives to the parasitic lineages Trypanosoma and Leishmania , t…
View article: Comparative single-cell genomics of two uncultivated <i>Naegleria</i> species harboring <i>Legionella</i> cobionts
Comparative single-cell genomics of two uncultivated <i>Naegleria</i> species harboring <i>Legionella</i> cobionts Open
Amoeboflagellates of the genus Naegleria are free-living protists ubiquitously found in soil and freshwater habitats worldwide. They include the “brain-eating amoeba” Naegleria fowleri , an opportunistic pathogen that causes primary amoebi…
View article: Global diversity and evolution of Salmonella enterica serovar Panama: a genomic epidemiology study
Global diversity and evolution of Salmonella enterica serovar Panama: a genomic epidemiology study Open
UK Research and Innovation Global Challenges Research Fund and Biotechnology and Biological Sciences Research Council, UK Medical Research Council, Wellcome Trust, John Lennon Memorial Scholarship, Institut Pasteur, Santé publique France, …
View article: Identifying rare spontaneous mutations through wildtype <i>E. coli</i> population sequencing
Identifying rare spontaneous mutations through wildtype <i>E. coli</i> population sequencing Open
Understanding the rate and types of mutations occurring in different populations is fundamental to our ability to predict and potentially manipulate evolution. Common techniques for microbial mutation rate estimation fall into 2 camps; rap…
View article: Developing a crop- wild-reservoir pathogen system to understand pathogen evolution and emergence
Developing a crop- wild-reservoir pathogen system to understand pathogen evolution and emergence Open
Crop pathogens reduce yield and contribute to global malnourishment. Surveillance not only detects presence/absence but also reveals genetic diversity, which can inform our understanding of rapid adaptation and control measures. An often n…
View article: Leveraging existing data to maximise quality and consistency across gene model annotations: a<i>Fusarium</i>pan-annotation
Leveraging existing data to maximise quality and consistency across gene model annotations: a<i>Fusarium</i>pan-annotation Open
Comparative genomics analyses are frequently used to inform our understanding of how organisms have evolved and how genetics contributes to phenotypic traits. Thanks to the considerable growth in the number of sequenced and assembled genom…
View article: Potential links between human bloodstream infection by Salmonella enterica serovar Typhimurium and international transmission to Colombia
Potential links between human bloodstream infection by Salmonella enterica serovar Typhimurium and international transmission to Colombia Open
Salmonella enterica serovar Typhimurium is a prevalent food-borne pathogen that is usually associated with gastroenteritis infection. S. Typhimurium is also a major cause of bloodstream infections in sub-Saharan Africa, and is responsible …
View article: Nuclear and Mitochondrial Genome Assemblies for the Endangered Wood-Decaying Fungus <i>Somion occarium</i>
Nuclear and Mitochondrial Genome Assemblies for the Endangered Wood-Decaying Fungus <i>Somion occarium</i> Open
Somion occarium is a wood-decaying bracket fungus belonging to an order known to be rich in useful chemical compounds. Despite its widespread distribution, S. occarium has been assessed as endangered on at least 1 national Red List, presum…
View article: Improved Extraction Methods to Isolate High Molecular Weight DNA From Magnaporthaceae and Other Grass Root Fungi for Long-Read Whole Genome Sequencing
Improved Extraction Methods to Isolate High Molecular Weight DNA From Magnaporthaceae and Other Grass Root Fungi for Long-Read Whole Genome Sequencing Open
This manuscript details two modified protocols for the isolation of long-stranded or high molecular weight (HMW) DNA from Magnaporthaceae (Ascomycota) fungal mycelium intended for whole genome sequencing. The Cytiva Nucleon PhytoPure and t…
View article: Multiple independent genetic code reassignments of the UAG stop codon in phyllopharyngean ciliates
Multiple independent genetic code reassignments of the UAG stop codon in phyllopharyngean ciliates Open
The translation of nucleotide sequences into amino acid sequences, governed by the genetic code, is one of the most conserved features of molecular biology. The standard genetic code, which uses 61 sense codons to encode one of the 20 stan…
View article: Multiple Independent Genetic Code Reassignments of the UAG Stop Codon in Phyllopharyngean Ciliates
Multiple Independent Genetic Code Reassignments of the UAG Stop Codon in Phyllopharyngean Ciliates Open
The translation of nucleotide sequences into amino acid sequences, governed by the genetic code, is one of the most conserved features of molecular biology. The standard genetic code, which uses 61 sense codons to encode one of the 20 stan…
View article: Evolutionary genomics reveals variation in structure and genetic content implicated in virulence and lifestyle in the genus <i>Gaeumannomyces</i>
Evolutionary genomics reveals variation in structure and genetic content implicated in virulence and lifestyle in the genus <i>Gaeumannomyces</i> Open
Gaeumannomyces tritici is responsible for take-all disease, one of the most important wheat root threats worldwide. High-quality annotated genome resources are sorely lacking for this pathogen, as well as for the closely related antagonist…
View article: Global diversity and evolution of Salmonella Panama, an understudied serovar causing gastrointestinal and invasive disease worldwide: a genomic epidemiology study
Global diversity and evolution of Salmonella Panama, an understudied serovar causing gastrointestinal and invasive disease worldwide: a genomic epidemiology study Open
Background Nontyphoidal Salmonella (NTS) is a globally important bacterial pathogen, typically associated with foodborne gastrointestinal infection. Some NTS serovars can also colonise normally sterile sites in humans to cause invasive NTS…
View article: Identification of a non-canonical ciliate nuclear genetic code where UAA and UAG code for different amino acids
Identification of a non-canonical ciliate nuclear genetic code where UAA and UAG code for different amino acids Open
The genetic code is one of the most highly conserved features across life. Only a few lineages have deviated from the “universal” genetic code. Amongst the few variants of the genetic code reported to date, the codons UAA and UAG virtually…
View article: Evolutionary conservation of Trichomonas-mycoplasma symbiosis across the host species barrier
Evolutionary conservation of Trichomonas-mycoplasma symbiosis across the host species barrier Open
Introduction The protozoan parasite Trichomonas vaginalis is the most common cellular sexually transmitted disease in humans, and the closely related species Trichomonas gallinae is an avian parasite of ecological and economic importance. …
View article: The ash dieback invasion of Europe was founded by two genetically divergent individuals (https://doi.org/10.1038/s41559-018-0548-9)
The ash dieback invasion of Europe was founded by two genetically divergent individuals (https://doi.org/10.1038/s41559-018-0548-9) Open
Hymenoscyphus fraxineus, genome, annotation and genetic diversity data used in analysis of the ash dieback invasion of Europe (McMullan et al., 2018; see README.txt) McMullan M, Rafiqi M, Kaithakottil G, Clavijo BJ, Bilham L, Orton E, et a…
View article: The ash dieback invasion of Europe was founded by two genetically divergent individuals (https://doi.org/10.1038/s41559-018-0548-9)
The ash dieback invasion of Europe was founded by two genetically divergent individuals (https://doi.org/10.1038/s41559-018-0548-9) Open
Hymenoscyphus fraxineus, genome, annotation and genetic diversity data used in analysis of the ash dieback invasion of Europe (McMullan et al., 2018; see README.txt) McMullan M, Rafiqi M, Kaithakottil G, Clavijo BJ, Bilham L, Orton E, et a…
View article: The genomic epidemiology of shigellosis in South Africa
The genomic epidemiology of shigellosis in South Africa Open
Shigellosis, a leading cause of diarrhoeal mortality and morbidity globally, predominantly affects children under five years of age living in low- and middle-income countries. While whole genome sequence analysis (WGSA) has been effectivel…
View article: BioFAIR Final Report
BioFAIR Final Report Open
In order to identify and address the Research Data Management needs of UK bioscience researchers, in 2020 UK Research and Innovation (UKRI) Biotechnology and Biological Science Research Council (BBSRC), UKRI Medical Research Council (MRC) …
View article: Identification of a Non-Canonical Ciliate Nuclear Genetic Code Where UAA and UAG Code for Different Amino Acids
Identification of a Non-Canonical Ciliate Nuclear Genetic Code Where UAA and UAG Code for Different Amino Acids Open
The genetic code is one of the most highly conserved features across life. Only a few lineages have deviated from the “universal” genetic code. Amongst the few variants of the genetic code reported to date, the codons UAA and UAG virtually…
View article: Oligohymenophorea sp. PL0344
Oligohymenophorea sp. PL0344 Open
Genome and transcriptome sequencing of Oligohymenophorea sp. PL0344.
View article: Oligohymenophorea sp. PL0344
Oligohymenophorea sp. PL0344 Open
Genome and transcriptome sequencing of Oligohymenophorea sp. PL0344.
View article: Oligohymenophorea sp. PL0344
Oligohymenophorea sp. PL0344 Open
Genome and transcriptome sequencing of Oligohymenophorea sp. PL0344.
View article: Euglena International Network (EIN): Driving euglenoid biotechnology for the benefit of a challenged world
Euglena International Network (EIN): Driving euglenoid biotechnology for the benefit of a challenged world Open
Euglenoids (Euglenida) are unicellular flagellates possessing exceptionally wide geographical and ecological distribution. Euglenoids combine a biotechnological potential with a unique position in the eukaryotic tree of life. In large part…
View article: Single-cell genomics reveals population structures from in vitro evolutionary studies of Salmonella
Single-cell genomics reveals population structures from in vitro evolutionary studies of Salmonella Open
Single-cell DNA sequencing has the potential to reveal detailed hierarchical structures in evolving populations of cells. Single cell approaches are increasingly used to study clonal evolution in human ageing and cancer but have not yet be…