Tag: MinION

Study sites Soils were collected from two different sites (ARDEC: Colorado State University’s Agricultural Research, Development and Education Center in Fort Collins, CO; and CPCRC: USDA Columbia Plateau Conservation Research Center in Pendleton, OR). At each site, four replicate plots of no-till corn (ARDEC) or no-till annual wheat (CPCRC) were…

Flaxman JP, Smith DW, Mackenzie JS, Fraser JRE, Bass SP, Hueston L, et al. A comparison of the diseases caused by Ross River virus and Barmah Forest virus. Med J Aust. 1998;169:159–63. Article  Google Scholar  El-Hage CM, Bamford NJ, Gilkerson JR, Lynch SE. Ross River virus infection of horses: appraisal…

DNA sequencing is a method that determines the order of the four nucleotide bases, namely, adenine (A), thymine (T), guanine (G), and cytosine (C), that form a DNA molecule. In this article, AZoLifeSciences offers a comprehensive guide to DNA Sequencers. Image Credit: Blue Andy/Shutterstock.com In a DNA double helix, nucleotide bases…

Global Genome Sequencing Equipment/Systems Market Size, Share, Growth, and Trend Analysis (2023 – 2030) According to the report published by Virtue Market Research , In 2022, the Global Genome Sequencing Equipment/Systems market was valued at $13.34 billion, and is projected to reach a market size of $31.41 billion by 2030….

Introduction Escherichia coli, a member of the Enterobacterales family, is a common opportunistic pathogen that can cause various infectious illnesses, including urinary tract infections (UTIs) and other infections acquired in the community.1,2 The presence of carbapenemases in E. coli poses a serious threat to public health. These carbapenemase genes may…

Tracking COVID-19, DNA sequencing, and prison abolition were among the groundbreaking research and creative scholarship projects recognized by the inaugural Chancellor’s Innovation Impact Award Program, presented May 30 in an event at the University Center on the UC Santa Cruz campus. This new program celebrates the university’s talented faculty, researchers,…

Introduction Although globalization has provided opportunities for consumers to enjoy a wide range of products and expanded global food trade, the complexity of the international food supply has contributed to an increase in foodborne outbreaks (Quested et al., 2010; Hussain and Dawson, 2013). Worldwide efforts have ensured food safety by…

The soil samples were collected from an orchard situated in Karnataka, India, which were categorized based on their stage of infection (ISI, ASI) and compared with a healthy sample (HSC). Physical examination of the plants, with respect to their roots, leaves, stem and fruits, revealed the presence of root knots…

1. Introduction Tuberculosis (TB) is a significant global burden and is widely reported to be a major public health and economic problem, costing the world $617 billion between 2000 and 2015 and projected to cost $1 trillion between 2015 and 2030 (1). It is the second leading cause of death…

Introduction Severe hospital-acquired pneumonia (SHAP) is the most common acquired infection in the intensive care unit (ICU) and one of the main causes of increased mortality in ICU patients.1,2 Potential multidrug-resistant pathogens are very common in ICU-acquired pneumonia, including Pseudomonas aeruginosa, Acinetobacter spp., methicillin-resistant Staphylococcus aureus (MRSA), and ultrabroad spectrum…

Tarr, P. I., Gordon, C. A. & Chandler, W. L. Shiga toxin-producing Escherichia coli and haemolytic uremic syndrome. Lancet 365, 1073–1086 (2006). Google Scholar  Koudelka, G. B., Arnold, J. W. & Chkraborty, D. Evolution of STEC virulence: Insights from the antipredator activities of shiga toxing-producing E. coli. Int. J. Med….

NEW YORK – Oxford Nanopore Technologies said on Thursday that it is rolling out a new direct RNA sequencing kit that the company promises will “significantly” increase the raw read accuracy as well as data output. While Oxford Nanopore has been known for its relatively rapid product turnover for DNA applications,…

Introduction Multidrug-resistant Enterobacteriaceae infection is a severe threat to public health that is worsening globally and is associated with increasing mortality rates.1 Klebsiella pneumoniae is a significant pathogen that contributes to the dissemination of multidrug-resistant strains in healthcare environments.2 K. michiganensis is a novel specie of pathogenic Klebsiella genus. Since…

Refurbished DNA Sequencing Platforms Market Global “Refurbished DNA Sequencing Platforms Market” Research report is an in-depth study of the market Analysis. Along with the most recent patterns and figures that uncovers a wide examination of the market offer. This report provides exhaustive coverage on geographical segmentation, latest demand scope, growth…

doi: 10.3390/foods12010017. Affiliations Expand Affiliations 1 College of Food Science & Nutritional Engineering, China Agricultural University, Beijing 100083, China. 2 Chinese Academy of Inspection and Quarantine, Beijing 100176, China. 3 China Rural Technology Development Center, Beijing 100045, China. Free PMC article Item in Clipboard Kehan Liu et al. Foods. 2022. Free…

Nanopore config files 0 Hello, I am trying to call modified bases from the Direct RNA Sequencing Kit with the R9.4.1 Flow Cell and the MinION Mk1b. When I print workflows there are no config files available with my kit, flow cell, and that have modbases written in the name….

Introduction Perturbations in the infant gut microbiome during early life affect growth, development, and long-term health (Sherman, 2010; Carl et al., 2014; Tarr and Warner, 2016). Preterm infants have a physiologically and anatomically immature gastrointestinal tract that is known to be more permeable than that of term infants, and their…

Science For Everyone: Welcome back to “Science For Everyone“, ABP Live’s weekly science column. Last week, we discussed black holes, and how they behave. This week, we will discuss the numerous ways the experiments conducted on the International Space Station (ISS) benefit Earth.  The ISS, which has been inhabited by…

On May 11th, Clive Brown, an insider at Oxford Nanopore Technologies (LON:ONT), acquired 63 shares of the company’s stock at an average cost of GBX 236 ($2.98) per share. This equates to a total transaction value of £148.68 ($187.61). Brown’s purchase suggests that he may be optimistic about the company’s…

1. Introduction Shiga toxin-producing Escherichia coli (STEC) are important zoonotic pathogens comprising more than 400 serotypes (Beutin and Fach, 2015). Pathogenic STEC strains such as enterohemorrhagic E. coli (EHEC) may cause hemorrhagic colitis (HC) and hemolytic-uremic syndrome (HUS) in humans. However, it remains difficult to fully define human pathogenic STEC…

Best tool for trimming and filtering nanopore direct RNA sequencing. 1 Hello, I am new to analyzing long read data. I am trying to create a pipeline for analyzing data from Oxford Nanopore’s MinION Mk1b using the R.9.4.1 flow cell and using the Direct RNA Sequencing Kit. We used only…

Figure 1 shows the detailed workflow of the study. Fig. 1 General overview of the study. Briefly, MPXV was isolated from a skin lesion and then was used to infect CV-1 cells. After the designated infection times, total RNA was isolated and sequenced using direct cDNA sequencing protocol on ONT’s MinION platform….

Targeted amplicon paneling and nanopore sequencing A set of primer pools, protocols, and computational commands were designed to sequence hMPXV1 genomes on a MinION nanopore flow cell (Fig. 2A). All necessary protocols are briefly described in the Methods section and available as Additional file 2: Working Laboratory Protocols. Initial amplicon primers…

Ethics declaration Animal study was performed following the Guide for the Care and Use of Laboratory Animals. Animal experiment was approved by the Institutional Animal Care and Use Committee of Colorado State University (protocol number 1090) in advance and conducted in compliance with the Association for the Assessment and Accreditation…

Ashton PM, Nair S, Dallman T et al (2015) MinION nanopore sequencing identifies the position and structure of a bacterial antibiotic resistance island. Nat Biotechnol 33:296–302 CrossRef  CAS  PubMed  Google Scholar  Fenn JB, Mann M, Meng CK et al (1990) ChemInform abstract: electrospray ionization for mass spectrometry of large biomolecules….

Laboratory methods Tissue samples of lizards were collected over the course of several field seasons in Indonesia under appropriate permits as part of a biotic survey of mountains across the island of Sulawesi. Liver tissues were dissected and stored in RNA-later, which were incubated at ambient temperature for 24 to…

Apple Silicon M1 for sequencing and base calling in MinION Mk1B Oxford Nanopore Sequencer 1 Apple M1 for sequencing and base calling in MinION M1kb Nanopore Sequencer Has anyone tried using Apple M1 for sequencing and base calling on Mk1B instrument? We are currently preparing a simple computing device for…

Listen to Freya’s dispatch from Hungary, where she joined Basecamp on a microbe-hunting mission. Your browser does not support the audio element. On a cave lake, metres below the town of Tapolca in Hungary, two scientists paddle along in a boat. One is a former Antarctic ice diver, the other…

I ran a nanopore sequencing on mk1c device with live basecalling and obtained some fastq in fastq_pass, fastq_fail folders. I tried to rerun the basecalling in a different machine, but found that they produce different sequences in just a test case, e.g.: In the fastq basecalled in mk1c > @b2e79451-050f-4d74-b091-40e6b6ee2229…

Seed Health, a microbial science company, revealed its recent research showing that microorganisms, particularly blue-green algae, can unlock new carbon capture solutions.  The research is a collaboration between SeedLabs, an environmental research division of Seed Health, and the team of the Two Frontiers Project (2FP) led by Dr. Braden Tierney. …

Scientists are making major advancements towards rapidly accelerating the world’s capacity to remove and sequester access CO2 emissions in the atmosphere. Seed Health is a microbial sciences company pioneering applications of microbes for human and planetary health, that announced its latest environmental research showing microorganisms that can perform extremely well…

What version of Guppy are you using? My guess is it’s an old version that was released prior to your kit being released. $ singularity exec –nv ONT_Guppy_GPU.sif guppy_basecaller –version Guppy Basecalling Software, (C) Oxford Nanopore Technologies, Limited. Version 6.0.1+652ffd1 $ singularity exec –nv ONT_Guppy_GPU.sif guppy_basecaller –print_workflows flowcell kit barcoding…

For the initial test of this protocol, DNA extraction, PCR, Nanopore library preparation, Nanopore sequencing, and subsequent data analysis were conducted at sea aboard the R/V Atlantic Condor in August 2021 [26]. This investigational effort resulted in the sequencing and analysis of deep sea sediment samples within hours of their…

The project explores Earth’s most extreme, CO2-rich environments to identify ‘extremophile’ microbes that may offer unique solutions for our planet’s climate crisis LOS ANGELES, April 19, 2023 /PRNewswire/ — Seed Health, a microbiome science company, today announced its latest environmental research collaboration, led by Dr. Braden Tierney and his team…

doi: 10.1038/s41431-023-01352-6. Online ahead of print. Affiliations Expand Affiliations 1 Morris Kahn Laboratory of Human Genetics, NIBN and Faculty of Health Sciences, Ben Gurion University of the Negev, Beer Sheva, Israel. 2 Genetics Institute, Soroka Medical Center, Beer Sheva, Israel. 3 Morris Kahn Laboratory of Human Genetics, NIBN and Faculty…

DNA sequencing is one of the most significant breakthroughs in the field of molecular biology. It has allowed scientists to study the structure and function of DNA in great detail, unlocking many secrets of life. One of the most innovative companies in this field is Oxford Nanopore, a UK-based biotechnology…

Bisoffi Z, Buonfrate D, Montresor A, Requena-Méndez A, Muñoz J, Krolewiecki AJ, et al. Strongyloides stercoralis: a plea for action. PLoS Negl Trop Dis. 2013;7:5. Google Scholar  Schär F, Trostdorf U, Giardina F, Khieu V, Muth S, Marti H, et al. Strongyloides stercoralis: global distribution and risk factors. PLoS Negl…

Enrichment in ONT amplicon sequencing and adaptive sequencing The number of TB reads detected in clinical samples can vary from one to thousands, with over 90% human reads8,9. To simulate a simple TB metagenomic sample for enrichment evaluation using MinION amplicon sequencing and adaptive sequencing, we prepared a synthetic metagenomic…

Morelli, L. & Capurso, L. FAO/WHO guidelines on probiotics: 10 years later. J. Clin. Gastroenterol. 46, S1–S2 (2012). Article  PubMed  Google Scholar  Arsène, M. M. J. et al. The use of probiotics in animal feeding for safe production and as potential alternatives to antibiotics. Vet World 14, 319–328 (2021). Article …

Oxford Nanopore’s devices with 4bases kits will enable decentralised, flexible scalability with a significant decrease in turnaround time for clinical researchers in Italy and Switzerland OXFORD, England, March 20, 2023–(BUSINESS WIRE)–Oxford Nanopore Technologies plc (Oxford Nanopore) and 4bases, a Switzerland-based company, specialising in kits for sequencing and bioinformatic tools, today…

Andersen LO, Stensvold CR. Blastocystis in health and disease: are we moving from a clinical to a public health perspective? J Clin Microbiol. 2016;54:524–8. Article  CAS  PubMed  PubMed Central  Google Scholar  Hublin JSY, Maloney JG, Santin M. Blastocystis in domesticated and wild mammals and birds. Res Vet Sci. 2021;135:260–82. Article …

Viral RNA samples Initial development and validation of the assays was performed using four in vitro cultured viruses maintained at LSHTM, for which stocks were obtained from the National Institute for Biological Standards and Controls (NIBSC): 19A SARS-CoV-2 (BetaCoV/Australia/VIC01/2020, CVA-GLA-1, CVA-GLA-2, CVA-GLA-3); two in vitro cultured viruses obtained from BEI…

Job Description The Singapore Centre for Environmental Life Sciences Engineering (SCELSE) is a unique interdisciplinary Research Centre of Excellence (RCE), funded by National Research Foundation, Ministry of Education, Nanyang Technological University (NTU) and National University of Singapore (NUS). Hosted by NTU in partnership with NUS, SCELSE is linking new insights…

February 28, 2023 | Yesterday, Oxford Nanopore Technologies and the Tecan Group announced their collaboration on an automated NGS library preparation workflow, and released a technical note outlining a proof-of-concept use case where the Oxford Nanopore’s Ligation Sequencing Kit XL V14 processing multiple DNA samples on the Tecan DreamPrep NGS…

Advances in DNA sequencing technology have enabled unprecedented access to study the genetic profile of organisms, revolutionized modern medicine, and enhanced diagnostics capabilities. When warfighters deploy to austere environments under potential threats from biological warfare agents (BWAs), rapid and timely threat detection is essential to prescribe appropriate medical countermeasures…

There’s an old saying in the field of technology: “Nobody ever got fired for buying IBM” — a reference to the company’s once-ubiquitous computers. Replace IBM with Illumina, a biotechnology company in San Diego, California, and the same could be said of DNA sequencing today. Keith Robison, a computational biologist…

Fastest DNA sequencing technique | Guinness World Records. www.guinnessworldrecords.com/world-records/675050-fastest%C2%A0dna-sequencing%C2%A0technique. Accessed 30 May 2022 Gorzynski JE, Goenka SD, Shafin K et al (2022) Ultra-rapid nanopore whole genome genetic diagnosis of dilated cardiomyopathy in an adolescent with cardiogenic shock. Circ Genom Precis Med CIRCGEN121003591. doi.org/10.1161/circgen.121.003591 First DNA Sequencing in Space a Game…

Pérez de León AA, Mitchell RD, Watson DW. Ectoparasites of cattle. Vet Clin North Am Food Animal Prac. 2020;36:173–85. Article  Google Scholar  Gómez-Díaz E, Figuerola J. New perspectives in tracing vector-borne interaction networks. Trends Parasitol. 2010;26:470–6. Article  PubMed  Google Scholar  Kent RJ. Molecular methods for arthropod bloodmeal identification and applications…

Abstract Plant pathogens are one of the biggest threats to plant health and food security worldwide. To effectively contain plant disease outbreaks, classification and precise identification of pathogens is crucial to determine treatment and preventive measurements. Conventional methods of detection such as PCR may not be sufficient when the pathogen…

This story includes reporting by Huanjia Zhang. NEW YORK – As the reigning Nature Methods method of the year, long-read sequencing featured prominently in many of the talks at this year’s Advances in Genome Biology and Technology meeting, held in Hollywood, Florida, last week. Pacific Biosciences presented new data from…

Mitochondrial DNA (mtDNA) recombination in animals has remained enigmatic because of its uniparental inheritance and subsequent homoplasmic state, which excludes the biological need for genetic recombination, as well as limits tools to study it. However, molecular recombination is an important genome maintenance mechanism for all organisms, most notably being required…

This research complies with all relevant ethical regulations approved by the Human Investigation Review Board of Albert Szent-Györgyi Clinical Centre of the University of Szeged and the National Biodiversity Authority (NBA) of India. Permission for the faecal sample collection was obtained from the Human Investigation Review Board of Albert Szent-Györgyi…

Bacterial isolate Adolfo Lutz Institute is a regional reference laboratory for Salmonella isolates from São Paulo, Brazil. Thus, all isolates received are submitted to classical serotyping, antimicrobial susceptibility testing, and molecular-typing by PFGE and next-generation sequencing. Isolate 288_18 was recovered from a blood sample from a patient with clinical symptoms…

Variant calling on synthesized DNA 1 Hi everyone, I want to ask your opinion on the following subject: Currently, we are producing synthesized DNA with the use of Multiply-Primed Rolling Circle Amplification. This allows for the production of a lot of DNA. Within that DNA there is a region which…

I’ve been looking at a few Ion Torrent chips. Ion Torrent hasn’t been a massive commercial success, but the Ion Torrent PGM was an important instrument for a number of reasons. So let’s talk about Ion Torrent! (if you just want to see chip pictures, scroll to the end). First…

piola666/E+ via Getty Images Investment Thesis Gene sequencing revolutionized our understanding of the human genome and its function. Today, we can accurately identify thousands of genetic variations that contribute to human health and disease, opening up the possibility of personalized medicine – creating medicine that is customized to the individual….

Andersen LO, Bonde I, Nielsen HB, Stensvold CR. A retrospective metagenomics approach to studying Blastocystis. FEMS Microbiol Ecol. 2015. doi.org/10.1093/femsec/fiv072. Article  Google Scholar  Audebert C, Even G, Cian A, Loywick A, Merlin S, Viscogliosi E, et al. Colonization with the enteric protozoa Blastocystis is associated with increased diversity of human…

Located in Brunswick, Germany. The Thünen Institute of Forest Genetics, one of the 15 Federal Research Institutes for Rural Areas, Forestry and Fisheries in Germany, is offering a 1,5-year position (100 %) starting as soon as possible for a research associate (f/m/d) (PostDoc Biology, Bioinformatics) to study genomic patterns of…

Job Description The Singapore Centre for Environmental Life Sciences Engineering (SCELSE) invites applications for the position of Research Assistant.  The Singapore Centre for Environmental Life Sciences Engineering (SCELSE) is a unique interdisciplinary Research Centre of Excellence (RCE), funded by National Research Foundation, Ministry of Education, Nanyang Technological University (NTU) and…

Pfeffer C, Larsen S, Song J, Dong M, Besenbacher F, Meyer RL, et al. Filamentous bacteria transport electrons over centimetre distances. Nature. 2012;491:218–21. Article  CAS  Google Scholar  Lovley DR, Holmes DE. Electromicrobiology: the ecophysiology of phylogenetically diverse electroactive microorganisms. Nat Rev Microbiol. 2022;20:5–19. Article  CAS  Google Scholar  Bjerg JT, Boschker…

Viral DNA isolation and next generation sequencing ASFV isolate DR-180 was passed once in primary swine macrophage cultures produced from blood, as previously described9. Viral DNA was sequenced, as previously described, using an Illumina Nextseq50010 and oxford nanopore MinIon11 sequencing platforms. In brief, virus DNA was extracted from infected macrophage…

Investigators say they have uncovered a potential new biomarker that could help physicians better assess the risk of relapse in patients treated for acute lymphoblastic leukemia (ALL). This new method relies on the analysis of cell-free DNA (cfDNA) to detect the presence of ALL in patients, which investigators say could…

Investigators at the European Bioinformatics Institute’s European Molecular Biology Laboratory and elsewhere consider the feasibility of Oxford Nanopore long-read sequencing to study the spread and drug susceptibility of tuberculosis-causing Mycobacterium tuberculosis pathogens. As they report in The Lancet Microbe, the researchers set the SNP clusters and drug sensitivity predictions found…

Job Description The Singapore Centre for Environmental Life Sciences Engineering (SCELSE) is a unique interdisciplinary Research Centre of Excellence (RCE), funded by National Research Foundation, Ministry of Education, Nanyang Technological University (NTU) and National University of Singapore (NUS). Hosted by NTU in partnership with NUS, SCELSE is linking new insights…

Category Research / Academic Location Amsterdam Are you fascinated by the latest DNA and RNA technologies that are the basis of major scientific breakthroughs in the Life Sciences? Do you enjoy setting up, improving, and applying these genomics technologies in joint research projects with life scientists? Then the position as…

Run fastqc reports for each of the fastq files in: /data/CompRes/seq_platform_data/ To run the fastqc reports, you can write a script that will execute the following command (edited for you) for each file: fastqc /data/CompRes/seq_platform_data/<inputfastq> -o /home/ASURITE/BIO439/module4/ Then transfer the html files to your local computer and view them, so…

BLAST unmapped reads from BAM 0 Hey, I have sequenced a recombinant plasmid and I am trying to characterize the insert sequences that have not aligned to the reference. I have generated a BAM file with the unmapped sequences and now I am trying to BLAST these in various databases…

Part of a gene is better than none when identifying a species of microbe. But for Rice University computer scientists, part was not nearly enough in their pursuit of a program to identify all the species in a microbiome. Emu, their microbial community profiling software, effectively identifies bacterial species by…

Biogenesis, biology and characterization of circular RNAs Kristensen LS et al. The biogenesis, biology and characterization of circular RNAs. Nat Rev Genet. (2019) Summary text Biogenesis and properties of circRNAs Biogenesis of cirRNA Characteristics of circRNAs Discover and analyze circRNAs circRNA genome-wide analysis CircRNA site-specific analysis circRNA visualization Biological functions…

BUFFALO — Stephen T. Koury, research associate professor of biotechnical and clinical laboratory sciences, has been awarded a $1.3 million grant that will allow high school students and teachers the opportunity to perform genome sequencing of bacteria. “The Metagenomics Education Partnership: Harnessing the Power of Microbial Genome Sequencing and Big…

Total number of isolates for each drug by sensitivity. Each drug is represented by a colored circle weighted by the prevalence of phenotypic resistance to that drug. The center of each circle shows the intersection between values on the x-axis and y-axis. Group 1 = associated with resistance. Group 2…

INTRODUCTION Next-generation sequencing (NGS) has revolutionized many areas of biological research (1, 2), providing ever-more data at an ever-decreasing cost. One such area is microbiome research, the study of microbes in their theater of activity using metagenomic sequencing (3). Here, deep short-read sequencing, and improving performance of long-read sequencing, are…

Objectives: Carbapenem resistance in Klebsiella pneumoniae is a major clinical challenge. Aminoglycosides remain an important asset in the current therapeutic arsenal to treat these infections. We examined aminoglycoside resistance phenotypes and genomics in a collection of 100 invasive KPC-producing K. pneumoniae isolates sequentially collected in a Brazilian tertiary hospital between…

doi: 10.1007/s00414-021-02763-0. Online ahead of print. Affiliations Expand Affiliations 1 Department of Forensic Medicine, Juntendo University School of Medicine, 2-1-1, Hongo, Bunkyo-Ku, Tokyo, 113-8421, Japan. hnakani@juntendo.ac.jp. 2 Department of Forensic Medicine, Saitama Medical University, 38 Morohongo, Moroyama, Saitama, 350-0495, Japan. 3 Department of Forensic Medicine, Juntendo University School of Medicine,…

Hi I’m new to bioinformatics and have just completed my first run on the MinION (long read sequencing Oxford Nanopore Technologies). I was hoping someone could direct me towards R packages, workflow, tutorials or guides that will help me identify species that are present in my sample mainly for fungi…

ONT analysis on Ubuntu 0 Hello guys, I am new on bioinformatic analysis of data from ONT (MinION with FLOW-MIN106D). The lab sent me a collection of fast5 files I have to analyze to obtain the metagenomic details (viruses). I have the new machine with on board Ubuntu 21 (Nvidia…

TLDR: Thanks to funding from EOSC-Life, the Freiburg Galaxy team will work in 2022 with Biolytix, a Swiss Small and Medium-sized Enterprise (SME) specialized in molecular biology and microbiological analyses, toward Accessible and scalable detection and identification of foodborne pathogens. Background Food contaminations with pathogens are a major burden on…

Students Aarthi Vijayakumar, Rebecca Li, Michelle Sung and David Li won the competition in 2018, and their project became the Genes in Space-6 experiment. The student team’s investigation made history. For the first time in space, NASA astronauts successfully edited DNA using CRISPR/Cas9 technology while working on the Genes in…

Introduction Antimicrobial resistance is a global issue associated with an increased and often unrestricted antibiotic use in clinical settings, which leads to the dissemination of carbapenem-resistant Enterobacterales (CRE) in healthcare facilities (World Health Organization, 2017).1 CRE constitutes a large group of bacteria with different mechanisms for drug resistance. Among them,…

PHOTO: IANS The Punjab government has commenced its first genome sequencing facility in Patiala town and 150 samples were tested with no new variant of coronavirus identified, state Health Minister Balbir Sidhu said on Thursday. He said now the report would be ready within five to six days. Earlier, the…

A scientist uses a pipette to place a sample on a GridION in an Oxford Nanopore lab. Oxford Nanopore, the pioneer developer of DNA/RNA nanopore sensing tools that include its pocket-sized MinION DNA/RNA sequencer, has disclosed plans for an initial public offering that could value the company at a reported…

. 2021 Sep;39(9):1129-1140. doi: 10.1038/s41587-021-01049-5. Epub 2021 Sep 9. Jonathan Foox  1   2 , Scott W Tighe  3 , Charles M Nicolet  4 , Justin M Zook  5 , Marta Byrska-Bishop  6 , Wayne E Clarke  6 , Michael M Khayat  7   8 , Medhat Mahmoud  7   8 , Phoebe K Laaguiby  3 , Zachary T…

NEW YORK – The results of a major, core facilities-driven benchmarking study for next-generation sequencing platforms are in, and just about every major player in the field can claim a victory of some sort. The data support longstanding advantages touted by market leader Illumina, while also providing a sneak peak…

A healthy soil nourishes plants and animals, purifies water and air, and promotes sustainable agriculture. Characteristic for highly complex and competitive soil ecosystems are the frequent and direct interactions between all soil-dwelling microorganisms, animals, and plants (1, 2), all of which need to be provided with minerals and carbon sources….

DNA sequencing has helped develop various sectors of the economy and mainly in the health sector. DNA sequencing has helped scientists understand the causes of related genetic disorders and how to cure them. DNA sequencing has also helped scientists understand the evolution of different animal species. What about developing GMOs?…

Stochastic Amplicon Ligation. DNA samples for oncology sequencing are typically extracted from FFPE tissues and can have average lengths of less than 500 nt due to accumulated chemical damage [18]. We developed the Stochastic Amplicon Ligation (SAL) method to enzymatically concatenate many short DNA molecules together to utilize the long-read…

It holds a 15% stake in the company and has valued its holding at £340m, giving a valuation of more than £2bn for the company. . While the company’s current shareholders have recorded its value at just over £2bn, analysts . Essay from the year 2011 in the subject Business…

CHICAGO – Canadian startup BugSeq Bioinformatics has devised a method of detecting pathogens via metagenomic nanopore sequencing that the company says is more accurate and sensitive than PCR and microbial cultures. Notably, the technology does not need to target specific pathogens like PCR and microbial culture tests must. The firm…

Feasibility of genomic skimming on the ONT minION sequencer The term ’genomic skimming’ was first coined by in 2012 by Straub et al. (2012)20 as a way to utilize shallow sequencing of gDNA to obtain relatively deeper coverage of high-copy portions of the genome, including mitogenomes. In combining genomic skimming…

Bioinformatician/Molecular Biologist Grade: HSO New Haw The Animal and Plant Health Agency (APHA) is an executive agency of the Department for Environment, Food & Rural Affairs, and works on behalf of the Scottish Government and Welsh Government. Our diverse teams of over 2,000 skilled and committed professionals come together to…

MinION Data Examples (FAST5) Database 0 Hello everyone, I am constructing a pipeline to analyze Oxford Nanopore MinION data. I have start from FAST5 files and for some optimizations I will try multiple tools for each step. So I will need several datasets to try. As I see most of…