• Here we describe the Illumina-based metagenomic sequencing, assembly and characterization of 3.3 million non-redundant microbial genes, derived from 576.7 gigabases of sequence, from faecal samples of 124 European individuals. (nature.com)
  • Over 99% of the genes are bacterial, indicating that the entire cohort harbours between 1,000 and 1,150 prevalent bacterial species and each individual at least 160 such species, which are also largely shared. (nature.com)
  • It has been estimated that the microbes in our bodies collectively make up to 100 trillion cells, tenfold the number of human cells, and suggested that they encode 100-fold more unique genes than our own genome 1 . (nature.com)
  • To get a broader overview of the human gut microbial genes we used the Illumina Genome Analyser (GA) technology to carry out deep sequencing of total DNA from faecal samples of 124 European adults. (nature.com)
  • This gene catalogue contains virtually all of the prevalent gut microbial genes in our cohort, provides a broad view of the functions important for bacterial life in the gut and indicates that many bacterial species are shared by different individuals. (nature.com)
  • data are preliminary and based on broth microdilution susceptibility testing and/or presence of resistance genes and mutations found in whole genome sequences of bacterial DNA. (cdc.gov)
  • Together, this sequence represents 280 Mbp (roughly 1% of the loblolly pine genome) and one of the most comprehensive studies of repetitive elements and genes in a gymnosperm species. (plos.org)
  • But at Cold Spring Harbor, she began the studies of the consequence of dicentric chromosome formation and breakage that led her to the discovery of genetic elements capable of moving within the genome and controlling expression of other genes. (cshlpress.com)
  • The plasmid existed as a single-copy per bacterial cell and encoded 27 genes, including four genes forming two toxin-antitoxin (T-A) systems. (usda.gov)
  • A relatively obvious approach to phylogenetic analysis of whole genomes is to extract as many genes as possible from the genome sequences, create a multiple sequence alignment from each of the genes and to concatenate all alignments. (biomedcentral.com)
  • Difficulties with this approach may arise if orthologous genes cannot be identified with certainty or if the combined sequence length is still too small to give well-resolved trees. (biomedcentral.com)
  • Single-cell based high-throughput sequencing of full-length immunoglobulin heavy and light chain genes. (mpg.de)
  • Beta-hydroxyacid dehydrogenase (β-HAD) genes have been identified in all sequenced genomes of eukaryotes and prokaryotes. (researchgate.net)
  • In many fungal and bacterial genomes, multiple β-HAD genes are observed leading. (researchgate.net)
  • From the organization of paralogs in the genome we can conclude that duplicated genes in Bacteria seem to have mainly been created by small scale duplication events such as tandem and operon duplications. (ugent.be)
  • A plot showing that genome size is strongly correlated with the number of duplicated genes in a linear regression. (ugent.be)
  • Further analysis of these four bacterial species revealed that each of them activates distinct genes when grown on pollen, allowing the different species to consume specific nutrients from broken down pollen. (elifesciences.org)
  • The team sequenced the DNA of bacteria taken from each of the 18 patients. (nih.gov)
  • Through start-up support from the Advanced Molecular Detection (AMD) program, StrepLab now sequences whole genomes of group A strep and other bacteria. (cdc.gov)
  • Scientists have done this before for viruses, but viruses typically have much smaller genomes than bacteria. (cdc.gov)
  • 1 Bacterial samples collected over the course of an outbreak might only be "near" identical because bacteria pick up genome mutations over time. (cdc.gov)
  • We define and describe the minimal gut metagenome and the minimal gut bacterial genome in terms of functions present in all individuals and most bacteria, respectively. (nature.com)
  • Bacteria and Archaea: 16S rRNA gene - full length 16S ribosomal RNA sequences that correspond to bacteria and archaea type materials. (nih.gov)
  • The genome size is smaller than that of most other enteric bacteria. (nih.gov)
  • The diversity of bacterial populations was significantly lower in the group with positive results for predominant bacteria according to culture and metagenomic analysis. (bmj.com)
  • When using DNA-sequencing all bacteria present in a spoiled sample are identified, and the relative distribution of the various bacteria is revealed. (dti.dk)
  • Comparing sequencing data of a spoiled product with sequencing data from samples from the production environment may subsequently uncover the origin of the spoiling bacteria. (dti.dk)
  • Strain level identification of bacteria by whole genome sequencing (WGS) and comparison with strains from the production environment or other products to reveal contamination routes. (dti.dk)
  • has been identified as the 2nd most consensus (ERIC) sequences which · 60 environmental samples were tak- frequent organism causing ventilator- are common to Gram-negative enteric en throughout the ICU, including associated pneumonia, the 4th most bacteria [11,12]. (who.int)
  • Xylella fastidiosa is a bacterial pathogen causing Pierce's Disease (PD) of grapevine resulting in significant economic loss in California. (usda.gov)
  • Metagenomic analysis successfully detected the causative pathogen in endophthalmitis cases with both positive and negative results from the bacterial culture. (bmj.com)
  • The increased resolution of pathogen whole-genome sequencing has significantly improved our ability to infer transmission events. (elifesciences.org)
  • High-throughput sequencing projects, such as the 100K Pathogen Genome Project, require methods to rapidly assess the quantity and quality of genomic DNA extracts. (researchgate.net)
  • A putative low molecular weight protein tyrosine phosphatase (LMW-PTP) was identified in the genome sequence of the bacterial pathogen, Campylobacter jejuni. (rcsb.org)
  • Metagenomic sequencing is offered in cases where infection is suspected but other methods have failed to identify a pathogen. (folkhalsomyndigheten.se)
  • Our results also show that short-read metagenomic sequencing can be used for global characterization of the genetic potential of ecologically complex environments. (nature.com)
  • Despite many advancements in high-throughput whole-genome sequencing (WGS), sequence assembly, and annotation of viruses, the reconstruction of full-length viral genomes directly from metagenomic sequencing is possible only for the most abundant phages and requires long-read sequencing technologies. (biorxiv.org)
  • Additionally, the prediction of their cellular hosts remains difficult from conventional metagenomic sequencing alone. (biorxiv.org)
  • To address these gaps in the field and to accelerate the study of viruses directly in their native microbiomes, we developed an end-to-end bioinformatics platform for viral genome reconstruction and host attribution from metagenomic data using proximity-ligation sequencing (i.e. (biorxiv.org)
  • In host-associated microbiomes, metagenomic whole-genome sequencing (WGS) has been widely deployed to show that microbiota composition and metabolic function have significant effects on the health of their host ( 1 , 3 , 4 ). (biorxiv.org)
  • High-throughput metagenomic WGS of microbial communities allowed the study of viruses directly within their native environments, and advancements in viral sequence annotation led to a rapid expansion of viral sequence databases ( 14 , 15 ). (biorxiv.org)
  • Objective To evaluate the usefulness of metagenomic analysis in the search for causative organisms of bacterial endophthalmitis. (bmj.com)
  • Bacterial culture and metagenomic analysis of the vitreous body were performed. (bmj.com)
  • Results Patients were categorised into three groups: endophthalmitis cases with matching predominant organisms according to metagenomic analysis and bacterial culture, those with negative results for bacterial culture and those with negative results in both cases. (bmj.com)
  • The structures of bacterial populations significantly differed between the positive and negative groups by culture and metagenomic analysis. (bmj.com)
  • Identification and analysis of the relative bacterial distribution in a complex sample by DNA extraction and sequencing the 16S rRNA gene. (dti.dk)
  • The platform's method involves deep sequencing two fragment of the 16S rRNA gene, with an automated method being used to analyse data. (folkhalsomyndigheten.se)
  • The bacterial species Streptococcus pyogenes , or group A strep, is known for causing strep throat. (cdc.gov)
  • Distinct bacterial species that cause enteric disease can exist as invasive enteropathogens that immediately evoke gastrointestinal distress, or pathobionts that can arise from established bacterial commensals to inflict dysbiosis and disease. (cdc.gov)
  • 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)
  • Despite their prevalence and importance, the genome sequences of loblolly pine, Norway spruce, and white spruce, three ecologically and economically important conifer species, are just becoming available to the research community. (plos.org)
  • Burkholderia species have environmental, industrial and medical significance, and are important opportunistic pathogens in individuals with cystic fibrosis (CF). Using a combination of existing and newly determined genome sequences, this study investigated prophage carriage across the species B. vietnamiensis , and also isolated spontaneously inducible prophages from a reference strain, G4. (mdpi.com)
  • By this analysis clones of the same bacterial species can be compared and differentiated, and the source of a contamination, e.g., in a production environment can be traced with high confidence. (dti.dk)
  • While diet is thought to play a key role in enabling closely related bacterial species to co-exist in the gut of an animal, experimental evidence is lacking, due to the difficulty in replicating these systems in the laboratory. (elifesciences.org)
  • 16S sequencing is carried out to determine which bacterial species are present in a clinical sample or isolate. (folkhalsomyndigheten.se)
  • Participating ABCs sites then send patients' bacterial strains to CDC's StrepLab. (cdc.gov)
  • Genome sequence information allows scientists to track new strains and antibiotic resistance trends. (cdc.gov)
  • Before genome sequencing, scientists only knew the type of group A strep strains, not if they were identical or near identical. (cdc.gov)
  • Whole-Genome org/10.1016/S0065-3527(03)61004-3 morrhagic E. coli strains. (cdc.gov)
  • Our study objective was to use next-generation DNA sequencing to compare L. pneumophila isolated from Flint tap water after the second Legionnaires' disease outbreak with tap water isolates from neighboring drinking water systems outside of Flint that were never served by Flint River water and clinical strains received during the second outbreak at a regional reference laboratory in Genesee County. (medscape.com)
  • Here, we performed DNA metagenomics using next-generation sequencing with Illumina or Nanopore technologies for clinical samples from MPXV-infected patients diagnosed between June and July 2022. (bvsalud.org)
  • The Clinical Center staff teamed up with researchers from NIH's National Human Genome Research Institute (NHGRI) to figure out how the infection was spreading. (nih.gov)
  • Accurate whole human genome sequencing using reversible terminator chemistry. (nature.com)
  • The research was funded by the National Human Genome Research Institute of the Institutes of Health and by the National Science Foundation. (sciencedaily.com)
  • Modelling segmental duplications in the human genome. (mpg.de)
  • Quantification of GC-biased gene conversion in the human genome. (mpg.de)
  • The sequencing of the human genome revealed that at least 1% of the human genome consists of endogenous retroviral sequences, representing past encounters with retroviruses during the course of human evolution. (msdmanuals.com)
  • A common practice to identify bacterial and fungal pathogens is based on "targeted loci" sequencing & comparison. (nih.gov)
  • A common practice to identify viral pathogens is by amplification & sequencing of key genomic regions. (nih.gov)
  • The gut is a key conduit for the genesis and spread of antimicrobial resistance in enteric bacterial pathogens. (cdc.gov)
  • Although within-host genetic diversity is common among a wide variety of pathogens, conventional whole-genome sequencing phylogenetic approaches exclusively use consensus sequences, which consider only the most prevalent nucleotide at each position and therefore fail to capture low-frequency variation within samples. (elifesciences.org)
  • Source tracing of bacterial pathogens can be assisted by using whole genome sequencing (WGS). (dti.dk)
  • Amplification of specific regions with universal primers in bacterial isolates or fungal isolates generate sequences that can be used for comparison with known reference sequences. (nih.gov)
  • We highlight the untapped structural metabolic diversity encoded in the lichenized fungal genomes. (frontiersin.org)
  • Search for details on specific genomes by organism name and strain. (wikipedia.org)
  • More recently DNA sequencing has dramatically sped up and increased the sensitivity of the identification of an organism, as seen with the new COVID-19 PCR tests. (nih.gov)
  • BLAST can be used to retrieve similar sequences with informative metadata to infer the source organism for the isolate, identify potentially related members of gene families, as well as explore evolutionary or functional relationships between sequences. (nih.gov)
  • Here we carried out a whole-genome sequence analysis of this strain and report the complete genome sequence of this organism and its genetic basis for carbohydrate metabolism, capsule biosynthesis and transport system. (nih.gov)
  • Listeria isolated from a production environment by sequencing the entire pool of DNA (whole genome) from the organism in question. (dti.dk)
  • This list of sequenced eubacterial genomes contains most of the eubacteria known to have publicly available complete genome sequences. (wikipedia.org)
  • Today, in the post-genome era, almost no one would agree with that dour appraisal of small molecules: having complete genome sequences makes it theoretically possible to generate "proteomes," comprehensive sets of all the proteins that constitute a human being or a microbe that makes people sick. (harvardmagazine.com)
  • Most of these sequences have been placed in the International Nucleotide Sequence Database Collaboration, a public database which can be searched on the web. (wikipedia.org)
  • Isolates belonging to 1 clade (3 clinical isolates, 3 water isolates from a Flint hospital, 1 water isolate from a Flint residence, and the reference Paris strain) had a high degree of similarity (2-1,062 single-nucleotide polymorphisms), all L. pneumophila sequence type 1, serogroup 1. (medscape.com)
  • The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. (nih.gov)
  • This manageable size together with the current advances in nucleotide sequencing technology means that partial and whole virus genome sequencing will become an essential component in epidemiologic investigations of disease outbreaks. (msdmanuals.com)
  • Here we announce the complete genome sequence of the coenzyme B(12)-producing enteric bacterium Shimwellia blattae (formerly Escherichia blattae). (nih.gov)
  • Little is known about the virulence mechanism(s) of this bacterium, but genome sequence analyses could provide initial clues. (usda.gov)
  • Outbreaks are caused by spreading the same bacterial strain from person-to-person. (cdc.gov)
  • The resulting "cluster detection tool" accurately and efficiently identifies outbreaks of the same bacterial strain. (cdc.gov)
  • Bacteroides caccae strain VPI 3452A is a bacterial type strain isolated from a fecal sample in Texas. (atcc.org)
  • This strain has been sequenced as a reference genome for the NIH Human Microbiome Project. (atcc.org)
  • 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)
  • Hi-C). We demonstrate the capabilities of the platform by recovering and characterizing the metavirome of a variety of metagenomes, including a fecal microbiome that has also been sequenced with accurate long reads, allowing for the assessment and benchmarking of the new methods. (biorxiv.org)
  • Being significantly cheaper than long-read sequencing of comparable depth, the incorporation of proximity-ligation sequencing in microbiome research shows promise to greatly accelerate future advancements in the field. (biorxiv.org)
  • We detected a high number of mutations (range, 64-73) relatively to a 2018 Nigerian genome ( genome GenBank Accession no. (bvsalud.org)
  • and we detected 35 mutations relatively to genome ON563414.3 (a B.1 lineage reference genome ). (bvsalud.org)
  • Genome-wide patterns and properties of de novo mutations in humans. (mpg.de)
  • Software to continually monitor recently published sequences in order to detect mutations that may affect the sensitivity of PCR-based diagnostics. (folkhalsomyndigheten.se)
  • Thus, phylogenetic trees of prokaryotes can be constructed both by traditional sequence-based methods (gene trees) and by comparison of gene compositions (genome trees). (nih.gov)
  • Phylogenetic methods which do not rely on multiple sequence alignments are important tools in inferring trees directly from completely sequenced genomes. (biomedcentral.com)
  • Here, we extend the recently described Genome BLAST Distance Phylogeny (GBDP) strategy to compute phylogenetic trees from all completely sequenced plastid genomes currently available and from a selection of mitochondrial genomes representing the major eukaryotic lineages. (biomedcentral.com)
  • Nowadays, an increasing number of completely sequenced genomes are available and a growing field of phylogenetic research deals with the question of how to infer reliable phylogenies from this large amount of data to overcome the limitations of single-gene phylogenies. (biomedcentral.com)
  • Furthermore, the use of concatenated multiple sequence alignments discards information that can be utilised by other methods of phylogenetic inference. (biomedcentral.com)
  • Jensen A , Scholz CFP , Kilian M . Re-evaluation of the taxonomy of the Mitis group of the genus Streptococcus based on whole genome phylogenetic analyses, and proposed reclassification of Streptococcus dentisani as Streptococcus oralis subsp. (microbiologyresearch.org)
  • Using whole-genome sequences from SARS-CoV-2 multi-institutional outbreaks as an example, we show how within-sample diversity is partially maintained among repeated serial samples from the same host, it can transmitted between those cases with known epidemiological links, and how this improves phylogenetic inference and our understanding of who infected whom. (elifesciences.org)
  • Genome Insider: Methane Makers in Yosemite's Lakes Meet researchers who sampled the microbial communities living in the mountaintop lakes of the Sierra Nevada mountains to see how climate change affects freshwater ecosystems, and how those ecosystems work. (doe.gov)
  • Sequencing of targeted regions of microbial DNA provide a complete picture of the composition of the present flora directly in a product- or environmental sample with no need for enrichment of the sample. (dti.dk)
  • More deep sequencing studies are needed to explore the microbial variation in the respiratory system in connection with TB. (springer.com)
  • Complete Genome Sequence of Mycobacterium fortuitum subsp. (medscape.com)
  • The three-dimensional structure consists of a central four-stranded parallel beta-sheet flanked by five alpha-helices, revealing an overall structural topology similar to those of the eukaryotic LMW-PTPs, such as human HCPTP-A, bovine BPTP, and Saccharomyces cerevisiae LTP1, and to those of the bacterial LMW-PTPs MPtpA from Mycobacterium tuberculosis and YwlE from Bacillus subtilis. (rcsb.org)
  • The MDH Public Health Laboratory obtained potentially outbreak-related isolates, performed additional testing, and shared these isolates with StrepLab for sequencing and analysis. (cdc.gov)
  • We compared whole-genome sequences of 10 clinical Legionella pneumophila isolates submitted to a laboratory in Genesee County during the second outbreak with 103 water isolates collected the following year. (medscape.com)
  • This study examined the added value of whole genome sequencing (WGS) for investigating a non-point source outbreak of Salmonella ser. (who.int)
  • 2 Whole genome sequencing (WGS) is a high-resolution typing method that can help foodborne disease investigators distinguish outbreak cases from non-outbreak cases. (who.int)
  • Whole-Genome Sequencing Reveals the High Nosocomial Transmission and Antimicrobial Resistance of Clostridioides difficile in a Single Center in China, a Four-Year Retrospective Study. (nih.gov)
  • Sequencing of monkeypox virus from infected patients reveals viral genomes with APOBEC3-like editing, gene inactivation, and bacterial agents of skin superinfection. (bvsalud.org)
  • Siira L , Naseer U , Alfsnes K , Hermansen NO , Lange H , Brandal LT . Whole genome sequencing of Salmonella Chester reveals geographically distinct clusters, Norway, 2000 to 2016. (eurosurveillance.org)
  • Recent advances in the cost and utility of second generation, high-throughput sequencing technologies have made it possible for ten conifer reference genomes to be assembled ( http://www.pinegenome.org/pinerefseq ). (plos.org)
  • An important advantage of the 2200 TapeStation over other high-throughput methods was that high molecular weight genomic DNA quality and quantity can be quantified apart from lower molecular weight size ranges, providing a distinct advantage in the library construction pipeline and over other methods available for this important step in the Next Generation Sequencing process. (researchgate.net)
  • Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries. (nature.com)
  • Biomedical engineers have devised a method for making future genome sequencing faster and cheaper by dramatically reducing the amount of DNA required, thus eliminating the expensive, time-consuming and error-prone step of DNA amplification. (sciencedaily.com)
  • Currently, genome sequencing utilizes DNA amplification to make billions of molecular copies in order to produce a sample large enough to be analyzed. (sciencedaily.com)
  • 2,456 sequences was aligned with the tion of SLE, EE, group C, and GUAMA patient who had been denied surgery group arboviruses in the Amazon region because of the infection. (cdc.gov)
  • Shigellosis is an acute enteric infection that is an important cause of domestically acquired and travel-associated bacterial diarrhea in the United States. (cdc.gov)
  • However, the differentiation between infection and inflammation is sometimes difficult with these methods, particularly in cases with a negative result from the bacterial culture, warranting the exploration of more comprehensive diagnostic approaches. (bmj.com)
  • This could dramatically speed future genomic sequencing by allowing analysis of a long DNA strand in one swipe, rather than having to assemble results from many short snippets. (sciencedaily.com)
  • Our offering includes DNA sequencing, as well as RNA and gene expression analysis and future technology for analysing proteins. (nanoporetech.com)
  • The Agilent 2200 TapeStation system allows for the analysis of samples in the Next Generation Sequencing (NGS) workflow from the starting material, through to final quality control (QC) of the DNA library prior to sequencing. (researchgate.net)
  • Whole genome sequencing-based analysis of tuberculosis (TB) in migrants: rapid tools for cross-border surveillance and to distinguish between recent transmission in the host country and new importations. (eurosurveillance.org)
  • The analysis of 106 genome sequences shows a significant number of paralogs in all bacterial genomes. (ugent.be)
  • Identification and analysis of the relative distribution of yeast and/or fungi in a complex sample by DNA extraction and sequencing the DNA spanning the ITS1 and ITS2 regions. (dti.dk)
  • Whole genome sequencing analysis indicates a common place of acquisition for the cases. (europa.eu)
  • Notably, the most prominent bacterial phyla are Bacteroides, Firmicutes, Proteobacteria, and Actinobacteria , and the Prevotella, Veillonella, but Streptococcus and Pseudomonas were also commonly isolated bacterial genera in the respiratory samples of TB patients and controls. (springer.com)
  • This study makes it clear that genome sequencing, as it becomes more affordable and rapid, will become a critical tool for healthcare epidemiology in the future," says Dr. David Henderson, deputy director for clinical care at the NIH Clinical Center. (nih.gov)
  • The Active Bacterial Core surveillance (ABCs) system collects clinical and demographic information about patients with bacterial infections. (cdc.gov)
  • Serogroup 6 isolates belonging to sequence type 2518 were widespread in Flint hospital water samples but bore no resemblance to available clinical isolates. (medscape.com)
  • These findings warrant a close genomic monitoring of MPXV to get a better picture of the genetic micro-evolution and mutational patterns of this virus , and a close clinical monitoring of skin bacterial superinfection in monkeypox patients . (bvsalud.org)
  • Motro Y , Carriço JA , Friedrich AW , Rossen JWA , Moran-Gilad J . ESCMID postgraduate education course: regional capacity building for integration of next-generation sequencing in the clinical microlab. (eurosurveillance.org)
  • Motro Y , Moran-Gilad J . Next-generation sequencing applications in clinical bacteriology. (eurosurveillance.org)
  • All nucleic acid in the clinical sample is sequenced and data is analysed by a bioinformatician. (folkhalsomyndigheten.se)
  • The guide RNAs, corresponding to the targeted viral sequences embedded in a viral genome, attract CRISPR-associated protein 9 (Cas9), which then cuts the viral genome and destroys it so it can't produce new virus. (medscape.com)
  • Extracted DNA was analysed using 16S rRNA sequences, and libraries were sequenced on an Illumina MiSeq sequencer. (bmj.com)
  • Viruses depend completely on cells (bacterial, plant, or animal) to reproduce. (msdmanuals.com)
  • Classification of viruses is principally according to their genome sequence taking into consideration nature and structure of their genome and their method of replication, but not according to the diseases they cause (see International Committee on Taxonomy of Viruses (ICTV), 2021 release ). (msdmanuals.com)
  • Positive-sense RNA viruses possess a single-stranded RNA genome that can serve as messenger RNA (mRNA) that can be directly translated to produce an amino acid sequence. (msdmanuals.com)
  • Negative-sense RNA viruses possess a single-stranded negative-sense genome that first must synthesize a complementary positive-sense antigenome, which is then used to make genomic negative-sense RNA. (msdmanuals.com)
  • the genome of RNA viruses ranges from 3.5 kilobases (some retroviruses) to 27 kilobases (some reoviruses), and the genome of DNA viruses ranges from 5 kilobases (some parvoviruses) to 280 kilobases (some poxviruses). (msdmanuals.com)
  • When people start to implement genome sequencing or genome profiling using nanopores, they could use our nanopore capture approach to greatly reduce the number of copies used in those measurements. (sciencedaily.com)
  • Meller and his colleagues at BU, New York University and Bar-Ilan University in Israel have harnessed electrical fields surrounding the mouths of the nanopores to attract long, negatively charged strands of DNA and slide them through the nanopore where the DNA sequence can be detected. (sciencedaily.com)
  • Nanopore sequencing offers advantages in all areas of research. (nanoporetech.com)
  • Interested in offering nanopore sequencing as a service? (nanoporetech.com)
  • Our results indicate that, at this taxonomic level, plastid genomes are much more valuable for inferring phylogenies than are mitochondrial genomes, and that distances based on breakpoints are of little use. (biomedcentral.com)
  • Barcoded proteins are assayed en masse in aqueous solution and subsequently immobilized in a polyacrylamide thin film to construct a random single-molecule array, where barcoding DNAs are amplified into in situ polymerase colonies (polonies) 7 and analysed by DNA sequencing. (nature.com)
  • Since 1995, when the first high-quality bacterial genome was completed using Sanger sequencing, the number of publicly available bacterial whole genome sequences (WGS) has grown exponentially, due to advances in next-generation (and now third generation) sequencing technology. (cdc.gov)
  • Furunculosis may result from multiple bacterial and mycobacterial agents. (medscape.com)
  • Pre-Columbian mycobacterial genomes reveal seals as a source of New World human tuberculosis. (microbiologyresearch.org)
  • DNA samples extracted from a pure culture in periwinkle wilt (PW) medium (in vitro DNA) and a PD symptomatic grapevine artificially inoculated in the greenhouse (in planta DNA) were subject to next generation sequencing (NGS) analyses (MiSeq for in vitro DNA and HiSeq for in planta DNA). (usda.gov)
  • Following the completion of these large assemblies, annotation efforts will be undertaken to characterize the reference sequences. (plos.org)
  • This project creates curated BLAST databases which include selected RefSeq records and validated GenBank sequences. (nih.gov)
  • BLAST searches against GenBank database (version 222, including 46 plasmids and 41 whole genome sequences of X. fastidiosa) showed homologs of ydcD-ydcE in 28 records (whole genomes or plasmids) and higA-higB in two whole genome records. (usda.gov)
  • Here we introduce a single-molecular-interaction sequencing (SMI-seq) technology for parallel protein interaction profiling leveraging single-molecule advantages. (nature.com)
  • A description of how gene families were constructed from the complete bacterial proteome, including an evaluation of the parameters used. (ugent.be)
  • StrepLab scientists realized they could also use genome sequences to find connections between invasive group A strep infections. (cdc.gov)
  • It is particularly focused towards rare diseases and cancers, although conditions such as obesity, bacterial and other infections are also included. (news-medical.net)
  • Using newly sequenced and existing plague genomes, researchers saw signs that the Second Plague Pandemic may have involved multiple introductions to Europe. (genomeweb.com)
  • In this paper, two sets of loblolly pine genomic sequence, 103 previously assembled BACs and 90,954 newly sequenced and assembled fosmid scaffolds, were analyzed. (plos.org)
  • NIH staff used genome sequencing to track the microbes' spread, an approach that can be used to help control similar outbreaks in the future. (nih.gov)
  • 2. Bacterial isolate must be in pure culture, actively growing. (testcatalog.org)
  • Sequencing for was extracted from the isolate, and a tion of St. Louis encephalitis virus from sequencing library was generated by arthropods in Pará, Brazil. (cdc.gov)
  • Four bacterial genomes of differing GC content are used to prepare libraries without bias reading for next generation sequencing. (researchgate.net)
  • Intact, high quality genomic DNA in combination with accurate sample quantification is required for numerous applications, particularly array comparative genome hybridization and next generation sequencing. (researchgate.net)
  • Identical sequences found in distant genomes reveal frequent horizontal transfer across the bacterial domain. (mpg.de)
  • But with two projects, communities are forming to generate high quality genomes to benefit researchers. (doe.gov)
  • Researchers also used citrus genomes to untangle their relationships and suggest new taxonomic classifications. (genomeweb.com)
  • This plasmid existed as a single-copy per bacterial genome under both in vitro and in planta environments. (usda.gov)
  • Shendure, J. & Ji, H. Next-generation DNA sequencing. (nature.com)
  • Next generation sequencing (NGS) and subsequent computational analyses were performed. (usda.gov)
  • Next-generation sequencing technologies have expanded the range of organisms that can be explored for their biosynthetic content, as these technologies can provide a glimpse of an organism's entire biosynthetic landscape, without the need for cultivation. (frontiersin.org)
  • The initial step in Next Generation Sequencing is to construct a library from genomic DNA. (researchgate.net)
  • The Agency's Next Generation Sequencing (NGS) platform performs massive parallel sequencing of DNA and RNA. (folkhalsomyndigheten.se)
  • In due course, however, the generality of mobile genetic elements and the concept of a dynamic genome were understood and widely accepted, culminating in the award to McClintock of an unshared Nobel Prize in 1983. (cshlpress.com)