Results 151 to 160 of about 139,474 (279)

Analysis of viral quasispecies by NGS technologies: quasiflow [PDF]

, 2017
We have developed QuasiFlow, a workflow designed in AutoFlow that takes advantage of NGS technologies to reconstruct quasispecies based in Illumina reads.
Claros-Diaz, Manuel Gonzalo, Díaz-Martínez, Luis, Grande-Perez, Ana, Seoane Zonjic, Pedro, Viguera-Minguez, Enrique   +4 more
core  

Dynamic 16S rRNA Sequencing of the Abdominal Wall Surgical Site Highlights Potential Pathways of Incisional Surgical Site Infection in Colorectal Surgery

ANZ Journal of Surgery, EarlyView.
ABSTRACT Introduction Understanding the microbial changes within the surgical site may enhance our understanding of the origin and subsequent role of microbes in the causation of incisional surgical site infections (SSIs). In this study we used 16S rRNA sequencing to establish the dynamic microbiota of the surgical site in patients undergoing bowel ...
Veral Vishnoi, Emily C. Hoedt, Matthew Watson, Madelyn Gramlick, Michelle Zhao, Natalie Lott, Rosemary Carroll, Peter Pockney, Stephen R. Smith, Simon Keely   +9 more
wiley   +1 more source

Whole-Genome Sequencing of SARS-CoV-2: Assessment of the Ion Torrent AmpliSeq Panel and Comparison with the Illumina MiSeq ARTIC Protocol. [PDF]

J Clin Microbiol, 2021
Plitnick J, Griesemer S, Lasek-Nesselquist E, Singh N, Lamson DM, St George K.   +5 more
europepmc   +1 more source

16S rRNA Amplicon Sequencing of the Intraoperative Surgical Site Demonstrates an Aberrant Microbiota Which Can Predict Colorectal Surgical Site Infection

ANZ Journal of Surgery, EarlyView.
ABSTRACT Introduction Surgical Site Infection (SSI) of an abdominal incision is a dreaded infectious complication following colorectal surgery. Understanding the intraoperative microbiology holds the key to prevention. Genomic sequencing has revolutionised culture‐independent techniques, allowing for a more sensitive tool in microbial detection.
Veral Vishnoi, Emily C. Hoedt, Michelle Zhao, Rosemary Carroll, Shaveen Kanakaratne, Natalie Lott, Peter Pockney, Stephen R. Smith, Simon Keely   +8 more
wiley   +1 more source

Illumina MiSeq Sequencing Reveals Correlations among Fruit Ingredients, Environmental Factors, and AMF Communities in Three Lycium Barbarum Producing Regions of China. [PDF]

Microbiol Spectr, 2022
Chen K, Huang G, Li Y, Zhang X, Lei Y, Li Y, Xiong J, Sun Y.   +7 more
europepmc   +1 more source

Environmental DNA (eDNA) 12S metabarcoding Illumina MiSeq NGS PCR Protocol v1

, 2018
The 12S protocol is aimed at amplifying the hypervariable region of the mitochondrial DNA 12S rRNA gene in eukaryotes. The primers (MiFish-U-F & MiFish-U-R) used in this protocol were developed by Miya et al., 2015 for metabarcoding environmental DNA (eDNA) from fishes.
Collin Closek, Anni Djurhuus, Katie Pitz, Ryan Kelly, Reiko Michisaki, Kristine Walz, Hilary Starks, Francisco Chavez, Alexandria Boehm, Mya Breitbart   +9 more
openaire   +1 more source

Changes in the microbiome and metabolome in captive red kangaroos (Osphranter rufus) affected by macropod progressive periodontal disease

Australian Veterinary Journal, EarlyView.
Macropod progressive periodontal disease (MPPD) is a severe oral condition frequently observed in captive macropods, particularly red kangaroos (Osphranter rufus), yet its underlying biological features remain poorly understood. In this exploratory descriptive study, we investigated oral and fecal microbiomes and metabolomic profiles in captive red ...
Y Yoshimoto, N Nagata, R Inoue, Y Yamamoto, K Nagaoka   +4 more
wiley   +1 more source

Bacterial and eukaryotic microbial communities in urban water systems profiled via Illumina MiSeq platform. [PDF]

3 Biotech, 2021
Ting ASY, Zoqratt MZHM, Tan HS, Hermawan AA, Talei A, Khu ST.   +5 more
europepmc   +1 more source

A Walk in the Park: Influence of Natural Co‐Exposure to Grass Pollen and Fungal Spores on Nasal Mycobiome and Cytokine Responses

Clinical &Experimental Allergy, EarlyView.
Volunteers stayed 3 h indoors and followed 1 h outdoors in a flowering meadow. Nasal mycobiome was analysed and aeroallergen content measured in nasal filters. Airborne fungal spores were quantified and fungal isolates were sequenced. Isolated fungal spores were used for stimulation of nasal epithelial cells.
Annika Eggestein, Denise Rauer, Selina M. Herrmann, Franziska Kolek, Vivien Leier‐Wirtz, Swetlana Urban, Bärbel Foesel, Michael Schloter, Madhumita Bhattacharyya, Ioana Pyrri, Matthias Reiger, Vera Schwierzeck, Claudia Hülpüsch, Claudia Traidl‐Hoffmann, Athanasios Damialis, Stefanie Gilles   +15 more
wiley   +1 more source

An optimized, amplicon-based approach for sequencing of SARS-CoV-2 from patient samples using COVIDSeq assay on Illumina MiSeq sequencing platforms. [PDF]

STAR Protoc, 2021
Bhoyar RC, Senthivel V, Jolly B, Imran M, Jain A, Divakar MK, Scaria V, Sivasubbu S.   +7 more
europepmc   +1 more source