Results 1 to 10 of about 860,088 (184)

Detection of heteroresistance in Mycobacterium tuberculosis using nanopore-based amplicon sequencing and adaptive sampling [PDF]

Scientific Reports
Heteroresistance (HR) in Mycobacterium tuberculosis—the coexistence of drug-susceptible and drug-resistant subpopulations within the same host—poses a major obstacle to effective tuberculosis (TB) diagnosis, treatment, and control.
Diego A. Taquiri-Díaz, Diego M. Ramos-Lette, Omar A. Romero-Rodriguez, Carlos E. Barrios-Tapia, Carla A. Apaza-Quiroz, Benjamin Hurtado, Paul J. D. Avellaneda-Menéndez, Julio Orellana-Montes, Sonia Huaman, Jose L. Perez-Martinez, Katherine Vallejos-Sanchez, Candy León, Robert H. Gilman, Louis Grandjean, Mirko Zimic, Patricia Sheen   +15 more
doaj   +2 more sources

Microbial diagnosis of endophthalmitis using nanopore amplicon sequencing

International Journal of Medical Microbiology, 2021
Objectives: We investigated whether nanopore amplicon sequencing of aqueous humor was capable of rapid pathogen identification in infectious endophthalmitis.
Kang Il Jun, Baek-Lok Oh, Narae Kim, Joo Young Shin, Jangsup Moon   +4 more
doaj   +1 more source

Nanopore-based metagenomic sequencing for the rapid and precise detection of pathogens among immunocompromised cancer patients with suspected infections

Frontiers in Cellular and Infection Microbiology, 2022
Cancer patients are at high risk of infections and infection-related mortality; thereby, prompt diagnosis and precise anti-infectives treatment are critical.
Qingmei Deng, Qingmei Deng, Qingmei Deng, Yongqing Cao, Xiaofeng Wan, Xiaofeng Wan, Bin Wang, Aimin Sun, Aimin Sun, Huanzhong Wang, Huanzhong Wang, Yunfei Wang, Hongzhi Wang, Hongzhi Wang, Hongzhi Wang, Hongcang Gu, Hongcang Gu, Hongcang Gu   +17 more
doaj   +1 more source

Evaluating the Reproducibility of Amplicon Sequencing Data Derived from Deep-Sea Cold Seep Sediment-Associated Microbiota

Microbiology Spectrum, 2023
Benefiting from the rapid developments and wide applications of high-throughput sequencing, great advancements have been made in investigating microbiota, which are highly diverse and play key roles in both element cycling and the energy flow of ...
Jie Kong, Jingchun Feng, Liwei Sun, Si Zhang   +3 more
doaj   +1 more source

Establishment and assessment of an amplicon sequencing method targeting the 16S-ITS-23S rRNA operon for analysis of the equine gut microbiome

Scientific Reports, 2021
Microbial communities are commonly studied by using amplicon sequencing of part of the 16S rRNA gene. Sequencing of the full-length 16S rRNA gene can provide higher taxonomic resolution and accuracy.
Yuta Kinoshita, Hidekazu Niwa, Eri Uchida-Fujii, Toshio Nukada   +3 more
doaj   +1 more source

Predicting environmental stressor levels with machine learning: a comparison between amplicon sequencing, metagenomics, and total RNA sequencing based on taxonomically assigned data

Frontiers in Microbiology, 2023
IntroductionMicrobes are increasingly (re)considered for environmental assessments because they are powerful indicators for the health of ecosystems.
Christopher A. Hempel, Christopher A. Hempel, Dominik Buchner, Leoni Mack, Marie V. Brasseur, Dan Tulpan, Dan Tulpan, Florian Leese, Florian Leese, Dirk Steinke, Dirk Steinke   +10 more
doaj   +1 more source

Ultrahigh-Throughput Multiplexing and Sequencing of >500-Base-Pair Amplicon Regions on the Illumina HiSeq 2500 Platform

mSystems, 2019
Amplification, sequencing, and analysis of the 16S rRNA gene affords characterization of microbial community composition. As this tool has become more popular and amplicon-sequencing applications have grown in the total number of samples, growth in ...
Johanna B. Holm, Michael S. Humphrys, Courtney K. Robinson, Matthew L. Settles, Sandra Ott, Li Fu, Hongqiu Yang, Pawel Gajer, Xin He, Elias McComb, Patti E. Gravitt, Khalil G. Ghanem, Rebecca M. Brotman, Jacques Ravel   +13 more
doaj   +3 more sources

A rapid, cost-effective tailed amplicon method for sequencing SARS-CoV-2

BMC Genomics, 2020
Background The global COVID-19 pandemic has led to an urgent need for scalable methods for clinical diagnostics and viral tracking. Next generation sequencing technologies have enabled large-scale genomic surveillance of SARS-CoV-2 as thousands of ...
Daryl M. Gohl, John Garbe, Patrick Grady, Jerry Daniel, Ray H. B. Watson, Benjamin Auch, Andrew Nelson, Sophia Yohe, Kenneth B. Beckman   +8 more
doaj   +1 more source

Bacterial Contamination of the Surgical Site at the Time of Elective Caesarean Section in Belgian Blue Cows—Part 2: Identified by 16Sr DNA Amplicon Sequencing

Veterinary Sciences, 2023
This study aimed to describe the bacterial composition of the surgical site during elective caesarean sections (CSs) using the 16Sr DNA amplicon sequencing performed in parallel to bacterial culture.
Salem Djebala, Elise Coria, Florian Munaut, Linde Gille, Justine Eppe, Nassim Moula, Bernard Taminiau, Georges Daube, Philippe Bossaert   +8 more
doaj   +1 more source

Nanopore Is Preferable over Illumina for 16S Amplicon Sequencing of the Gut Microbiota When Species-Level Taxonomic Classification, Accurate Estimation of Richness, or Focus on Rare Taxa Is Required

Microorganisms, 2023
Nanopore sequencing is a promising technology used for 16S rRNA gene amplicon sequencing as it can provide full-length 16S reads and has a low up-front cost that allows research groups to set up their own sequencing workflows.
Márton Szoboszlay, Laetitia Schramm, David Pinzauti, Jeanesse Scerri, Anna Sandionigi, Manuele Biazzo   +5 more
doaj   +1 more source