Pathogens genome. Medical search. Frequent questions

As they reported online today in Genome Biology , the researchers pooled genomic DNA from half a dozen female house flies, using it as a template to generate sequence reads that were then assembled into a 691 million base M. domestica genome. (genomeweb.com)
Three specific biomolecular techniques are addressed: polymerase chain reaction, microarray comparative genomic hybridization, and whole-genome sequencing. (umd.edu)
To demonstrate the effectiveness of these methods, pan-genomic arrays are applied to the study of multiple strains of the foodborne pathogen, Listeria monocytogenes, revealing new insights into the diversity and evolution of the species. (umd.edu)
Genomic monitoring (or "genomic surveillance" as it is commonly referred to) is the consistent monitoring of pathogens, and analysis, via genome sequencing, of their genetic similarities and differences. (genomeprairie.ca)
The Genomic Monitoring of Pathogens in Water (GeMPaW) strategic initiative will scale-up genomic surveillance of emerging and antimicrobial resistant pathogens in water-driving adoption of best practices for water testing, data sharing and pan-Canadian collaboration to inform public decision making. (genomeprairie.ca)
Early genomic monitoring of the pathogens that cause these diseases is crucial to keeping communities, wildlife and the environment healthy. (genomeprairie.ca)
Expanding water-based genomic monitoring has enormous potential to transform Canada's preparedness for, and response to, other pathogens. (genomeprairie.ca)
To achieve success, we must eliminate silos preventing pan-Canadian coordination to detect and report pathogens by implementing uniform standards, harmonization of techniques and sharing of the data generated by genomic sequencing of water samples. (genomeprairie.ca)
The C3 Hub will act broadly as connector, ensuring that water-based pathogen and AMR genomic monitoring data are used to inform public policy decisions. (genomeprairie.ca)
To further investigate the genomic diversity among this group and to help characterize lineages of the plague organism that have no sequenced members, we present here the genomes of two isolates of the "classical" antiqua biovar, strains Antiqua and Nepal516. (asm.org)
Unexpected genomic diversity in pathogens: implications for food and public safety. (100kgenomes.org)
In the essay, they focus on the history of pathogens and genomic sequencing to help readers understand that the patterns we see now arenâ t new. (omniaeducation.com)
This approach has been called "genomic epidemiology"-using pathogen genome sequences to detect emerging diseases, assess their potential virulence and resistance to antibiotics, and monitor their spread in populations. (cdc.gov)
At a time when global genomic surveillance of coronavirus has been in the spotlight, the ability of countries to contribute through low-cost and rapid whole genome sequencing (WGS) has become increasingly important. (norwichresearchpark.com)
The need to 'democratise' the field of pathogen genomic analysis prompted us to develop a new strategy to sequence thousands of bacterial isolates with collaborators based in many economically-challenged countries. (norwichresearchpark.com)
Focusing on the organism Salmonella enterica, a pathogen with a global significance that causes infection and deadly disease, this large-scale genomic sequencing initiative was led by the worldwide 10,000 Salmonella genomes research consortium (10KSG) with scientists from 16 countries. (norwichresearchpark.com)
This study provides genomic resources for functional genetics to help dissect factors underlying the host-pathogen interactions. (edu.au)
EuPathDB Bioinformatics Resource Center for Biodefense and Emerging/Re-emerging Infectious Diseases is a portal for accessing genomic-scale datasets associated with the eukaryotic pathogens (Cryptospo. (bvsalud.org)
Complete genomic sequences of microbial pathogens and hosts offer sophisticated new strategies for studying host-pathogen interactions. (medscape.com)
Genomic sequencing will provide the data needed to unravel the complexities of the host-pathogen interaction. (medscape.com)

Genomics is key to tackling AMR which occurs when pathogens evolve mechanisms that reduce the effectiveness of antimicrobial medicines used to treat infection. (genomeprairie.ca)
Ancient pathogen genomics is an additional approach that can confirm the infection, even when there are no lesions present on skeletal remains or when disease manifestation is atypical. (biomedcentral.com)
Silver Age of GOLD Introduces New Features The Genomes OnLine Database makes curated microbiome metadata that follows community standards freely available and enables large-scale comparative genomics analysis initiatives. (doe.gov)
Carlton, JM 2003, ' Genome sequencing and comparative genomics of tropical disease pathogens ', Cellular Microbiology , vol. 5, no. 12, pp. 861-873. (nyu.edu)
We need to define objectives for the role of pathogen genomics in responding to public health threats. (omniaeducation.com)
Rapid advances in pathogen genomics have ushered in a new era of "precision public health. (cdc.gov)
WGS data can be used for surveillance, functional genomics and the exploration of pathogen evolution, prompting both public health and research scientists to adopt genome-based approaches. (norwichresearchpark.com)
Her research programme looks at epiphytic colonisation of leaf surfaces during early infection of wheat by the fungal pathogen Zymoseptoria tritici , using a mix of microscopy, genomics, and metabolomics. (biomedcentral.com)

It aims to sequence the genomes of 100,000 infectious microorganisms to create a database of bacterial genome sequences for use in public health, outbreak detection, and bacterial pathogen detection. (wikipedia.org)
The 100K Pathogen Genome Project was selected by the IBM/Mars Food Safety Consortium for metagenomic sequences. (wikipedia.org)
Using these DNA and RNA sequences, the team put together - and annotated - a 691 million base assembly that spans more than three-quarters of the fly's complete genome sequence and contains an estimated 14,810 protein-coding genes. (genomeweb.com)
The house fly genome contained sequences for some 771 apparent immune-related genes, for example, including 355 that are not homologous to Drosophila immune genes. (genomeweb.com)
The researchers also found that the chromosome has a large number of sequences repeated throughout the genome. (innovations-report.com)
His observation is based on comparing the genome sequence of A. butzleri with other sequences posted on the World Wide Web. (thepigsite.com)
The 100K Genome Project has added 20 newly completed genome sequences of foodborne pathogens generated using Pacific Biosciences' single-molecule sequencing technology to the National Center for Biotechnology Information's public database. (genomeweb.com)
This dissertation presents novel computational methods that unlock the potential of these diagnostics by efficiently analyzing whole-genome DNA sequences. (umd.edu)
For designing real-time detection assays, an efficient data structure and search algorithm are presented to identify the most distinguishing sequences of a pathogen that are absent from all other sequenced genomes. (umd.edu)
Results are presented that show these "signature" sequences can be used to detect pathogens in complex samples and differentiate them from their non-pathogenic, phylogenetic near neighbors. (umd.edu)
The genome of A. xylosoxidans NH44784-1996 contains approximately 7 million base pairs with 6390 potential protein-coding sequences. (ku.dk)
Combining pathogen genome sequences with the host and vector genome sequences is promising to be a robust method for the identification of host-pathogen interactions. (nyu.edu)
In contrast to metagenomic detection of unknown pathogens which sequences all available genetic material, 16S sequencing specifically targets the small ribosomal subunit. (folkhalsomyndigheten.se)

This strategy enables worldwide collaboration to identify sets of genetic biomarkers associated with important pathogen traits. (wikipedia.org)
NEW YORK (GenomeWeb) - A Cornell University-led team has sequenced and started analyzing the genome of the domestic house fly, Musca domestica , in the hopes of detecting genetic clues for dealing with the pest and pathogens it carries. (genomeweb.com)
By spelling out protein-coding genes in the genome and comparing the house fly sequence to that of the fruit fly, Drosophila melanogaster , the team has endeavored to unravel genetic factors coinciding with house fly features. (genomeweb.com)
The house fly genome provides a rich resource for enabling work on innovative methods of insect control, for understanding the mechanisms of insecticide resistance, and genetic adaptation to high pathogen loads, and for exploring the basic biology of this important pest," corresponding author Jeffrey Scott, an entomology researcher at Cornell University, and his colleagues wrote. (genomeweb.com)
Moreover, given its ability to carry various pathogens without obvious detriments and to develop resistance to many of the insecticides that humans hurl at them, the house fly's genetic sequence is expected to offer hints about how it achieves these apparent forms of immunity. (genomeweb.com)
Genetic map-guided genome assembly reveals a virulence-governing minichromosome in the lentil anthracnose pathogen Colletotrichum lentis. (pacb.com)
All organisms (bacteria, vegetable, mammal) have a unique genetic code, or genome, that is composed of nucleotide bases (A, T, C, and G). If you know the sequence of the bases in an organism, you have identified its unique DNA fingerprint, or pattern. (cdc.gov)
We undertook whole genome sequencing of E. faecalis associated with bloodstream infection in the UK and Ireland over more than a decade to determine the population structure and genetic associations with hospital adaptation. (nature.com)
Understanding the genetic code of a pathogen like Ebola or the virus that causes COVID-19 allows scientists to track its movement, predict future behavior, identify the source of the outbreak and, most importantly, develop effective vaccines and treatments. (omniaeducation.com)
Understanding the genetic makeup of significant collections of such bacteria strains was imperative, and the project sequenced and analysed 10,000 Salmonella genomes from Africa and Latin America. (norwichresearchpark.com)
The researcher's innovative WGS approach aimed to streamline the large-scale acquisition and genome sequencing of bacteria, and amassed the genetic material of more than 10,400 clinical and environmental bacterial isolates from LMICs in under a year. (norwichresearchpark.com)
The availability of whole genome information enables a number of methods to be applied that can be used to characterise the particular isolate and to determine the genetic relatedness of isolates. (food.gov.uk)
Shigatoxin typing was performed by in silico (computer-based) Polymerase Chain Reaction (PCR) and phylogenetic analysis (analysis of the evolution of genetic structure over time) was based on core genome single nucleotide polymorphisms. (food.gov.uk)
Both immunological and bacterial traits can be associated with genetic variants distributed across the mouse genome, making the CC a unique population for identifying specific host-pathogen genetic interactions that influence pathogenesis. (elifesciences.org)
As bacteria grow and replicate they copy their genetic material (the genome). (futurelearn.com)
Comprehensive genome assemblies were constructed from long DNA reads, optical and genetic maps. (edu.au)
PTT has a longer cultivated host association and, notably, a greater range of host-pathogen genetic interactions compared to other Pyrenophora spp. (edu.au)
WGS provides detailed genetic information about pathogens that make people sick. (cdc.gov)
By sequencing the entire genome, a comprehensive understanding of the genetic composition is obtained. (folkhalsomyndigheten.se)

citation needed] The 100K Pathogen Genome Project is conducting high-throughput next-generation sequencing (NGS) to investigate the genomes of targeted microorganisms, with whole genome sequencing to be carried out on a small number of microorganisms for use as a reference genome. (wikipedia.org)
University of Minnesota researchers, with collaborators at the U. S. Department of Agriculture s National Animal Disease Center in Ames, Iowa, have completed sequencing the genome of the bacteria that causes Johne s disease, a major chronic wasting disease found in dairy cattle. (innovations-report.com)
The sequencing project represents part of an ambitious "microbial pathogenomics" research program at the University of Minnesota to sequence the genomes of a wide range of human and animal pathogens and use this information as a basis to understand the mechanisms by which they cause disease. (innovations-report.com)
Based at the ARS Western Regional Research Center in Albany, California, near San Francisco, he did the genome-sequencing work with colleagues there and with others in the United States and abroad. (thepigsite.com)
His article on sequencing the complete A. butzleri genome appeared in 2007 in the online journal, PloS ONE . (thepigsite.com)
Bart Weimer, the project's director and a professor at UC Davis, told In Sequence this week that these first 20 genomes represent a gearing-up phase for the project, in which his team worked through the logistics of automating its PacBio sequencing protocol for an acceleration of the project over the next year. (genomeweb.com)
This includes water-based monitoring, which uses genome sequencing to test for pathogens in water sources, such as sewage, wastewater treatment plants, saltwater, freshwater and groundwater. (genomeprairie.ca)
During the COVID-19 pandemic, for example, genome sequencing of unprocessed sewage samples emerged as a practical, low-cost solution for monitoring the virus. (genomeprairie.ca)
Whole genome sequencing (WGS) is increasingly used for pathogen identification and surveillance. (eurosurveillance.org)
Bergen Open Research Archive: Whole genome sequencing of the fish pathogen Francisella noatunensis subsp. (uib.no)
See how the University of Washington used HiFi sequencing to uncover a key finding about ALS and the human genome. (pacb.com)
Our revolutionary sequencing technologies combine the completeness of long reads with the accuracy of short reads to provide the most comprehensive view of genomes, transcriptomes, and epigenomes. (pacb.com)
Validation of a Bioinformatics Workflow for Routine Analysis of Whole-Genome Sequencing Data and Related Challenges for Pathogen Typing in a European National Reference Center: as a Proof-of-Concept. (sciensano.be)
Despite being a well-established research method, the use of whole-genome sequencing ( WGS ) for routine molecular typing and pathogen characterization remains a substantial challenge due to the required bioinformatics resources and/or expertise. (sciensano.be)
2018. Automated library construction using KAPA library preparation kits on the Agilent NGS workstation yields high-quality libraries for whole-genome sequencing on the Illumina platform. (100kgenomes.org)
IFSH Whole Genome Sequencing (WGS) for the Food Industry: Current Procedures, Advances, Obstacles and Solutions, Burr Ridge, IL. (100kgenomes.org)
2017. Identifying virulence factors that lead to abortion from zoonotic transmission and whole genome sequencing. (100kgenomes.org)
The sequencing of eukaryotic genomes has lagged behind sequencing of organisms in the other domains of life, archae and bacteria, primarily due to their greater size and complexity. (nyu.edu)
With recent advances in high-throughput technologies such as robotics and improved computational resources, the number of eukaryotic genome sequencing projects has increased significantly. (nyu.edu)
Among these are a number of sequencing projects of tropical pathogens of medical and veterinary importance, many of which are responsible for causing widespread morbidity and mortality in peoples of developing countries. (nyu.edu)
What is whole genome sequencing (WGS)? (cdc.gov)
Whole genome sequencing is a laboratory procedure that determines the order of bases in the genome of an organism in one process. (cdc.gov)
How does whole genome sequencing work? (cdc.gov)
How has whole genome sequencing improved disease detection? (cdc.gov)
Since 2019, whole genome sequencing has been the standard PulseNet method for detecting and investigating foodborne outbreaks associated with bacteria such as Campylobacter , Shiga toxin-producing E. coli (STEC), Salmonella , Vibrio , and Listeria . (cdc.gov)
Since being launched, whole genome sequencing of pathogens in public health laboratories has improved surveillance for foodborne disease outbreaks and enhanced our ability to detect trends in foodborne infections and antimicrobial resistance. (cdc.gov)
Whole genome sequencing provides detailed and precise data for identifying outbreaks sooner. (cdc.gov)
As the use of whole genome sequencing expands, CDC's national surveillance systems and laboratory infrastructure must keep pace with the changing technology. (cdc.gov)
Whole genome sequencing is a fast and affordable way to obtain detailed information about bacteria using just one test. (cdc.gov)
The implementation of whole genome sequencing of pathogens for detecting and tracking foodborne outbreaks was made possible through collaborations with CDC's Advanced Molecular Detection (AMD) Office, Food Safety Office , and Antimicrobial Resistance Solutions Initiative . (cdc.gov)
Microbial genome sequencing provides the opportunity to gain a detailed understanding of the molecular basis for hospital adaptation. (nature.com)
â We wrote this essay to contribute to the broader discussion of how pathogen genome sequencing should be used in the future to improve public health and what types of investments and innovations we need to facilitate this,â Ladner said. (omniaeducation.com)
â To realize the full public health potential of pathogen sequencing in the future, we need to harness the momentum generated by the COVID-19 pandemic while ensuring that the benefits of future investments apply broadly to the full spectrum of human infectious disease,â Ladner said. (omniaeducation.com)
One of the most appealing targets for collaboration has been whole genome analysis, especially the linkage of new sequencing data with the wealth of unstructured information captured in biomedical literature. (biomedcentral.com)
This genome sequencing of M. fructigena, as well as for other Monilinia spp. (uniba.it)
New bacterial pathogen pipeline makes whole genome sequencing accessible for public health scientists worldwide. (norwichresearchpark.com)
A worldwide consortium of scientists, led by the Earlham Institute and the University of Liverpool in the UK, mark a significant milestone in equipping researchers in low- and middle-income countries (LMICs) with cheap and accessible methods for sequencing large collections of bacterial pathogens - at a cost of less than $10USD per genome. (norwichresearchpark.com)
The genome sequencing of thousands of microorganisms has remained expensive - largely due to costs associated with sample transportation and the construction of DNA libraries - while the need to genome sequence collections of key pathogens has grown substantially in recent years. (norwichresearchpark.com)
Until now, large-scale bacterial genome projects could only be performed in a handful of sequencing centres around the world. (norwichresearchpark.com)
Subsequently, isolates were sequenced at the Earlham Institute using the unique LITE protocol - a low cost, low input automated method for rapid genome sequencing. (norwichresearchpark.com)
In total, the gene library construction and DNA sequencing bioinformatic analysis was done with a total reagent cost of less than USD$10 (around £7.50GBP) per genome. (norwichresearchpark.com)
The adoption of large-scale genome sequencing and analysis of bacterial pathogens will be an enormous asset to public health and surveillance in LMI countries. (norwichresearchpark.com)
Here, we have established an efficient and relatively inexpensive pipeline for the worldwide collection and sequencing of bacterial genomes. (norwichresearchpark.com)
The aim of this project was to use Whole Genome Sequencing (WGS) to increase our understanding of the evolution and epidemiology of E. coli O157 isolates from Scotland. (food.gov.uk)
This pilot has shown the potential of whole genome sequencing to advance our knowledge base on the types of E.coli O157 strains circulating in the environment in Scotland and how these relate to the strains which are transmitted through the food chain and those which lead to illness in humans. (food.gov.uk)
The draft genome sequence of strain M86 was determined by Ion Torrent Personal Genome Machine (PGM™) sequencer using a 316 chip with 200-bp single-end shotgun sequencing. (biomedcentral.com)
PGM sequencing resulted in about 67X genome coverage with 148 contigs. (biomedcentral.com)
This image depicts a sequencing instrument that is prepared for multiple whole genome sequencing (WGS) runs, in parallel. (cdc.gov)
The WHO supported building the in-country capacity for genome Overall, Afghanistan has reported 4,759 confirmed cases and 97 sequencing, after training of two national staff on sequencing associated deaths among healthcare workers (HCWs) since 2020. (who.int)
Towards a post-pandemic future for global pathogen genome sequencing. (bvsalud.org)
Whole genome sequencing of Salmonella Typhimurium 12. (who.int)
4. Expert opinion on whole genome sequencing for public health sur- ratory surveillance. (who.int)
Optimising treatment outcomes for children and adults through rapid genome sequencing of sepsis pathogens. (who.int)
Metagenomic sequencing is offered in cases where infection is suspected but other methods have failed to identify a pathogen. (folkhalsomyndigheten.se)
For contact tracing or inquiries related to antibiotic resistance, whole genome sequencing (WGS) of bacterial isolates is offered. (folkhalsomyndigheten.se)
Whole genome sequencing can also provide insights into the specific genes or mutations that may be linked to antibiotic resistance. (folkhalsomyndigheten.se)
It is a platform and database for the automated analysis of whole genome sequencing data. (folkhalsomyndigheten.se)

Consequently, despite the availability of its complete genome sequence, fundamental questions regarding the biology of the pathogen, such as its metabolism, remain largely unexplored. (biorxiv.org)

The presence of these genes provides insights into the interactions of this pathogen with its gramineous host. (nih.gov)
â What we did not fully appreciate at the time, however, was the incredible diversity of human pathogens, their capacity for rapid evolution and the dynamic nature of interactions between pathogens and their hosts,â Ladner and Sahl write. (omniaeducation.com)
While there has indeed been rapid growth in web portals and specialized datasets dedicated to the storage and molecular analysis of individual pathogens or microbial genera, we still lack comprehensive web-accessible resources that organise, analyse and predict host-pathogen interactions. (biomedcentral.com)
A true systems biology approach to interpreting genome-scale data requires the analysis of interactions among the genes, not just the genes in isolation [ 8 ]. (biomedcentral.com)
involved in brown rot diseases, will serve as a valuable resource for studies on populations biology and plant-pathogen interactions. (uniba.it)
We invite submissions on all aspects of plant-pathogen interactions with studies that focus on either the individual host or the pathogen as well as those that map their interactions. (biomedcentral.com)

Achromobacter xylosoxidans is an environmental opportunistic pathogen, which infects an increasing number of immunocompromised patients. (ku.dk)
Ochrobactrum intermedium is an emerging opportunistic pathogen of humans that is closely related to members of the genus Brucella . (biomedcentral.com)

The mobility of house flies, their regular contact with excreta, carcasses, garbage, and other septic matter, and intimate association with animal pathogens and humans, all contribute to their roles in transmission of these diseases," Scott and his co-authors wrote. (genomeweb.com)
Serious animal pathogens include bluetongue virus of sheep and African horse sickness virus. (medscape.com)

For example, the M. domestica genome housed almost 150 cytochrome P450 enzyme-coding genes, consistent with a potentially bolstered detoxification system in the house fly. (genomeweb.com)
Consistent with their role as scent-based waste scavengers, the house flies had higher-than-usual representation by chemoreceptor and odorant-related genes in their genome, authors of the study noted. (genomeweb.com)
The genome sequence sheds new light on the genes and biochemical pathways in the bacterium, and the research offers a starting point for defining the mechanisms by which the organism causes disease and helping devise new strategies to detect infected animals and ultimately help control the spread of the organism. (innovations-report.com)
The analysis of the M. paratuberculosis genome found that its sequence contains nearly 5 million base pairs that are represented on a large circular chromosome with more than 4,500 predicted genes. (innovations-report.com)
The identification of all of the genes and key metabolic pathways in this organism may serve to explain some of the unique aspects of the biology of the pathogen, including its slow growth in laboratory culture (it may take up to six months to identify by growth in laboratory culture). (innovations-report.com)
campestris (Xcc) genomes, but 245 genes apparently specific to Xoo were identified. (nih.gov)
We identified several features that render it an opportunistic human pathogen, We found genes involved in anaerobic growth and the pgaABCD operon encoding the biofilm adhesin poly-β-1,6-N-acetyl-D-glucosamin. (ku.dk)
Furthermore, the genome contains a range of antibiotic resistance genes coding efflux pump systems and antibiotic modifying enzymes. (ku.dk)
Our investigation enables further studies of the functionality of important identified genes contributing to the pathogenicity of A. xylosoxidans and thereby improves our understanding and ability to treat this emerging pathogen. (ku.dk)
Comparing the novel genome with other available Francisella genomes, we found around 2.5% of unique genes present in Francisella noatunensis subsp. (uib.no)
Comparative analysis between human and fish pathogen also provide insights into genes responsible for pathogenecity. (uib.no)
Conclusions: The fish pathogen has lost non-essential genes some time ago. (uib.no)
Locating online resources which are the most suitable for a specific analytic task in hand applied to a set of individual genes or whole genomes has become a challenge. (biomedcentral.com)
This paper attempts to gain whole-genome based insights into the putative gene determinants of O. intermedium for survival in the highly acidic stomach lumen environment .Identification of genes putatively involved in the various metabolic pathways may lead to a better understanding of the survival of O. intermdedium in acidic condition. (biomedcentral.com)
In addition to the intrinsic mechanisms of resistance, bacterial pathogens can acquire genes and mutations that mediate resistance to antibiotics. (futurelearn.com)

Friesen, M. L. Social evolution and cheating in plant pathogens. (nature.com)
We wanted to find out how successful plant pathogens overcome the plant defense and colonize these plants. (mpg.de)

Here, we present molecular evidence of infection with four different pathogens (human parvovirus B19 (B19), HBV, variola virus, and M. leprae ) in 22 individuals. (biomedcentral.com)
Meningitis can be caused by many different pathogens, but the highest global burden is seen with bacterial meningitis. (who.int)
Meningitis can be caused by many different pathogens which include bacteria, viruses, and fungi, but the highest global burden stems from bacterial meningitis. (who.int)
The platform was established in 2012 and is currently used as a primary epidemiological typing tool for a number of different pathogens. (folkhalsomyndigheten.se)

2023 Nature Microbiology), we report the first detailed sequence, assembly, annotation and 3D structure of the nuclear genome of B. duncani . (nature.com)
Several independent high-throughput methods for differential gene expression (including SAGE and differential display) may enable function annotation of sequenced genomes [ 2 ] . (medscape.com)

Antimicrobial-resistant pathogens associated with healthcare-associated infections: summary of data reported to the National Healthcare Safety Network at the Centers for Disease Control and Prevention, 2009-2010. (nature.com)

We present a validation strategy focusing specifically on the exhaustive characterization of the bioinformatics analysis of a WGS workflow designed to replace conventionally employed molecular typing methods for microbial isolates in a representative small-scale laboratory, using the pathogen as a proof-of-concept. (sciensano.be)
It has been 26 years since the first bacterial genome was sequenced, and it is now possible to sequence bacterial isolates at scale. (norwichresearchpark.com)
This project is a pilot which has used genome sequence on a selection of isolates primarily from the Grampian Region of Scotland. (food.gov.uk)
In total, 148 isolates were whole genome sequenced using an Illumina HiSeq sequencer. (food.gov.uk)
As repeat masking in fungal genomes influences the final gene annotations, an accurate and reproducible pipeline was developed to ensure comparability between isolates. (edu.au)
Genome evolution in P teres is characterized by genome fissuring through the insertion and expansion of transposable elements (TEs), a process that isolates blocks of genic sequence. (edu.au)

Commensal Pseudomonas strains facilitate protective response against pathogens in the host plant. (nature.com)

The 100K Pathogen Genome Project was launched in July 2012 by Bart Weimer (UC Davis) as an academic, public, and private partnership. (wikipedia.org)
The 100K Pathogen Genome Project is a public-private collaborative project to sequence the genomes of 100,000 infectious microorganisms. (wikipedia.org)
The 100K Genome Project will provide a roadmap for developing tests to identify pathogens and trace their origins more quickly. (wikipedia.org)
however, the project has also produced closed genomes for a variety of enteric pathogens in the 100K bioproject. (wikipedia.org)
100K Pathogen Genome Project GOLD:Genomes OnLine Database Genome Project Database SUPERFAMILY The sea urchin genome database NRCPB. (wikipedia.org)
Jonas Korlach, PacBio's chief scientific officer, told In Sequence that PacBio and the 100K genomes team have been working with several vendors to adapt fluidic robot technology to automate library preparation steps. (genomeweb.com)
A third advance, which was not in play for the 20 genomes the 100K project just released - but which Korlach said is being incorporated into the workflow moving forward - is upfront DNA size selection using Sage Science's BluePippin platform, which PacBio agreed to co-market earlier this year. (genomeweb.com)

We therefore asked ourselves whether widespread fungal pathogens have strategies to adapt to the chemical defenses of plants of the cabbage family,' Jingyuan Chen, the first author of the study, explains. (mpg.de)

The methods published in Genome Biology can be applied to large collections of bacterial pathogens and will strengthen global research collaborations to tackle future pandemics. (norwichresearchpark.com)
BMC Biology together with BMC Plant Biology and BMC Microbiology announce the launch of the collection 'Plants and their Pathogens', for which we invite submissions of manuscripts relevant to the research topic. (biomedcentral.com)

Home / Healthcare & Medicine / Antimicrobial & Antibiotic Resistance / Bacterial Genomes: Antimicrobial Resistance in Bacterial Pathogens / What are the Mechanisms of Antimicrobial Resistance? (futurelearn.com)

Other tests may miss early signs of disease because there aren't enough viruses , bacteria , or other pathogens in the sample, or your body hasn't had enough time to develop an antibody response. (medlineplus.gov)

Plant Viruses As Molecular Pathogens is the only book to bring you all of this information--22 chapters--in a single volume, compiled by specialists around the globe! (routledge.com)
With helpful illustrations, photos, figures, models that explain viral mechanisms, and easy-to-understand reference tables, Plant Viruses As Molecular Pathogens will stimulate your thinking on this fascinating area of plant science! (routledge.com)
Sam's research interest is centered on molecular genetics and plant pathology, focusing on understanding the interaction between cereal crops and its pathogens. (biomedcentral.com)
Between 2017-2019, Sam took a secondment position at the Australian National University to complete the Australian Research Council Discovery Early Career Research Award project, where he extended his research further to understand the molecular interaction between Myrtaceae tree species and the myrtle rust pathogen. (biomedcentral.com)
His interests are in the development and use of molecular methods for pathogen discovery, human microbial ecology, genomewide host and microbial responses to infection, and Bordetella pathogenesis. (medscape.com)

We need to expand the way we use pathogen genomes in our response to infectious disease. (omniaeducation.com)
Host profiling might also identify gene expression signatures unique for each pathogen, thus providing a novel tool for diagnosis, prognosis, and clinical management of infectious disease. (medscape.com)
The complex interaction between a microbial pathogen and a host is the underlying basis of infectious disease. (medscape.com)

and the US Food and Drug Administration, aims to sequence 100,000 bacterial and viral genomes overall. (genomeweb.com)

Among various pathogens transmitted by ticks, Babesia parasites are particularly important because of their ability to multiply within host erythrocytes and lyse these cells at the end of each cycle thereby causing symptoms similar to those caused by malaria parasites. (nature.com)

Mapping of the genome of Arcobacter butzleri by scientists at the USDA Agricultural Research Service is a first step in control of this foodborne pathogen. (thepigsite.com)

This five-year microbial pathogen project will result in a free, public database containing the sequence information for each pathogen's genome. (wikipedia.org)

We evaluated costs and benefits of routine WGS through case studies at eight reference laboratories in Europe and the Americas which conduct pathogen surveillance for avian influenza (two laboratories), human influenza (one laboratory) and food-borne pathogens (five laboratories). (eurosurveillance.org)
However, WGS brought major benefits for pathogen identification and surveillance, substantially changing laboratory workflows, analytical processes and outbreaks detection and control. (eurosurveillance.org)
Importantly, we present emerging approaches toward surveillance of pathogens and their resistance elements as well as promising treatment strategies that can circumvent common resistance mechanisms. (cdc.gov)

Since the beginning of the pandemic in Feb 2020, a total of 594,804 high-threat pathogens. (who.int)

Global analysis of Mtb transposon mutant fitness (TnSeq) across the CC panel revealed that many virulence pathways are only required in specific host microenvironments, identifying a large fraction of the pathogen's genome that has been maintained to ensure fitness in a diverse population. (elifesciences.org)

In this study, we undertook extensive genome-wide comparative analyses of twelve species that conform the Pectobacterium genus. (mdpi.com)
Evolutionary analysis of the Francisella genomes, strongly suggests that human and fish pathogenic Francisella species have evolved independently from free-living metabolically competent Francisella species. (uib.no)
In this review, we present a comprehensive discussion on circulating resistance profiles and gene mobilization strategies of the most problematic species of enteric bacterial pathogens. (cdc.gov)
Sclerotinia sclerotiorum is a devastating fungal pathogen that can infect more than 400 different plant species. (mpg.de)
Ascetosporea are endoparasites of marine invertebrates that include economically important pathogens of aquaculture species. (lu.se)

Emergent pathogens (EPs) and antimicrobial resistance (AMR) are a rising threat to all sectors of the ecosystem: humans, animals and the environment. (genomeprairie.ca)
Emerging pathogens are newly discovered or previously unknown infectious agents that have recently appeared or are increasing in incidence, and pose a threat to public health due to their ability to cause disease in humans. (genomeprairie.ca)

Here, we perform a systematic metagenomic pathogen screening of 70 individuals representing 89% of all people buried within the Lauchheim "Mittelhofen" village (present-day Germany) in the Alemannic duchy of the Merovingian kingdom. (biomedcentral.com)

The slow-growing nature of this bacterium has been an impediment to the diagnosis of infected animals and has also served as a major obstacle for laboratory based research on the pathogen," said Kapur. (innovations-report.com)
Effective use of a nationwide laboratory system, including relevant sectors, capable of timely, safely and accurately detecting and characterizing pathogens causing epidemic-prone disease, including both known and unknown threats, from all parts of the country. (who.int)
Map existing laboratory capacity for priority diseases and establish referral networks for priority pathogens. (who.int)

Therefore, it seems appropriate to consider robots that could combine the analysis of publicly available genomes of pathogens with the published body of knowledge wide analysis of infectious diseases. (biomedcentral.com)

Finally, multiple methods are presented for the validation of whole-genome sequence assemblies, which are capable of identifying assembly errors in even finished genomes. (umd.edu)
2018. population genetics, biogeography, and phylogenetics of Vibrio parahaemolyticus from North America using whole genome sequence data. (100kgenomes.org)
The first whole-genome sequence of E. faecalis was published in 2003 8 . (nature.com)

Author Summary Mycobacterium leprae , the obligate human pathogen is uncultivable in axenic growth medium, and this hinders research on this pathogen, and the pathogenesis of leprosy. (biorxiv.org)

This endeavour holds particular promise for translational medical microbiology, where a potentially unlimited number of sequenced microbial genomes might be coupled with the breadth of infectious diseases literature. (biomedcentral.com)

Encouraging examples from human genome analyses include systems like Galaxy http://galaxy.psu.edu or CLoVR http://clover.igs.umaryland.edu . (biomedcentral.com)

We adapted several classically employed performance metrics specifically toward three different bioinformatics assays: resistance gene characterization (based on the ARG-ANNOT, ResFinder, CARD, and NDARO databases), several commonly employed typing schemas (including, among others, core genome multilocus sequence typing), and serogroup determination. (sciensano.be)

By taking advantage of high-containment labs in UF's Emerging Pathogens Institute-specially designed for studying highly contagious and virulent pathogens-the team is using CRISPR genome editing techniques to screen human cell lines. (ufl.edu)
In the human fungal pathogen Candida albicans, CNV and LOH confer increased virulence and antifungal drug resistance, yet the mechanisms driving these rearrangements are not completely understood. (technion.ac.il)
Marie C, Verkerke HP, Theodorescu D, Petri WA: A whole-genome RNAi screen uncovers a novel role for human potassium channels in cell killing by the parasite Entamoeba histolytica. (msdmanuals.com)
As of August 10, 2000, draft sequence was available for 87% of the human genome (https://www.ncbi.nlm.nih.gov/genome/seq/), and at least 39 prokaryotic genomes, including those of more than a dozen human pathogens, had been completely sequenced https://www.tigr.org/tdb/mdb/mdbcomplete.html). (medscape.com)

This dissertation focuses on computational methods for improving the accuracy of commonly used nucleic acid tests for pathogen detection and diagnostics. (umd.edu)
These validated assemblies provide the ultimate nucleic acid diagnostic, revealing the entire sequence of a genome. (umd.edu)

The conservation of these targets among different apicomplexan pathogens makes B. duncani a perfect model organism for other parasites to pursue future medicinal chemistry efforts to identify molecules that could be rapidly evaluated in vitro and in mice to assess their efficacy and safety. (nature.com)
The tests work by finding the DNA or RNA of a pathogen (disease-causing organism) or abnormal cells in a sample. (medlineplus.gov)

The complete mitochondrial genome sequence of the ascomycete plant pathogen Colletotrichum acutatum. (pacb.com)

The 10,000 Salmonella genomes project was designed to begin to address this inequality. (norwichresearchpark.com)

Genome sequence data is deposited in the NCBI Gene Expression Omnibus (GEO), accession number GSE164156. (elifesciences.org)
This paper attempts to gain whole-genome based insights into the putative gene determinants of O. intermedium for survival in the highly acidic stomach lumen environment. (biomedcentral.com)

We also used the model to analyze RNA-seq data from M. leprae grown in mouse foot pads, and performed Differential Producibility Analysis (DPA) to identify metabolic pathways that appear to be active during intracellular growth of the pathogen, which included pathways for central carbon metabolism, co-factor, lipids, amino acids, nucleotides and cell wall synthesis. (biorxiv.org)
Our analysis revealed that the B. duncani nuclear genome consists of five chromosomes of sizes ranging between 3.13 and 0.35 MB. (nature.com)

PCR tests can detect disease when there is only a very small amount of pathogens in your body. (medlineplus.gov)

Verocytotoxin-producing Escherichia coli O157 (VTEC) is a gastrointestinal zoonotic pathogen of public health importance in the UK and worldwide. (food.gov.uk)

The pathogen landscape in the Early European Middle Ages remains largely unexplored. (biomedcentral.com)
The pathogen landscape of the Early Middle Ages in Europe (late fifth-tenth century CE) remains largely unexplored. (biomedcentral.com)

Finally, we transferred the disaggregated PtoDC3000 effector arsenal into Pseudomonas fluorescens and show that their cooperative action was sufficient to convert this rhizosphere-inhabiting beneficial bacterium into a phyllosphere pathogen. (nature.com)

Anatomy14

Organisms48

Diseases12

Chemicals and Drugs32

Analytical, Diagnostic and Therapeutic Techniques and Equipment29

Phenomena and Processes120

Disciplines and Occupations4

Technology, Industry, Agriculture6

Information Science12

Health Care4

Genomic20

Genomics8

Sequences13

Genetic19

Sequencing57

Complete genome sequence1

Interactions6

Opportunistic pathogen2

Animal pathogens2

Genes15

Plant Pathogens2

Different pathogens4

Annotation2

Antimicrobial resistant pathogens1

Isolates6

Strains1

100K7

Fungal pathogens1

Biology2

Bacterial genomes1

Bacteria1

Molecular5

Infectious disease3

Viral genomes1

Various pathogens1

Foodborne pathogen1

Microbial pathogen1

Surveillance3

20201

Pathogen's genome1

Species5

Humans2

Metagenomic1

Laboratory3

Publicly available1

Whole-genome s3

Pathogenesis1

Microbiology1

Analyses1

Core genome1

Human4

Nucleic acid2

Organism2

Colletotrichum1

Salmonella1

Gene2

Analysis2

Detect1

Zoonotic1

Largely unexplored2

Pseudomonas1