Results 1 to 10 of about 238,366 (195)

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   +3 more sources

Development of a qPCR assay for Fasciola spp. identification and a deep amplicon sequencing method for differentiation of fluke species in UK livestock. [PDF]

PLoS Neglected Tropical Diseases
BackgroundTrematode parasites, or flukes, are a significant economic threat to ruminant production worldwide. Traditional diagnostic methods rely on egg sedimentation from faeces, a time-consuming methodology lacking sensitivity and specificity.
Muhammad Abbas, Kezia Kozel, Olukayode Daramola, Nick Selemetas, Qasim Ali, Shoaib Ashraf, Ibrahim Isah, Inaki Deza-Cruz, Sai Fingerhood, Mark W Robinson, Eric R Morgan, Umer Chaudhry, Martha Betson   +12 more
doaj   +2 more sources

Amplicon-based metagenomic analysis of mixed fungal samples using proton release amplicon sequencing. [PDF]

PLoS ONE, 2014
Next generation sequencing technology has revolutionised microbiology by allowing concurrent analysis of whole microbial communities. Here we developed and verified similar methods for the analysis of fungal communities using a proton release sequencing ...
Daniel P Tonge, Catherine H Pashley, Timothy W Gant   +2 more
doaj   +5 more sources

MHASS: Microbiome HiFi Amplicon Sequencing Simulator. [PDF]

Bioinformatics
Summary: Microbiome HiFi Amplicon Sequence Simulator (MHASS) creates realistic synthetic PacBio HiFi amplicon sequencing datasets for microbiome studies, by integrating genome-aware abundance modeling, realistic dual-barcoding strategies, and empirically derived pass-number distributions from actual sequencing runs.
Howard-Stone R, Măndoiu II.
europepmc   +3 more sources

Multiplex PCR Targeted Amplicon Sequencing (MTA-Seq): Simple, Flexible, and Versatile SNP Genotyping by Highly Multiplexed PCR Amplicon Sequencing [PDF]

Frontiers in Plant Science, 2018
Next-generation sequencing (NGS) technologies have enabled genome re-sequencing for exploring genome-wide polymorphisms among individuals, as well as targeted re-sequencing for the rapid and simultaneous detection of polymorphisms in genes associated ...
Yoshihiko Onda, Yoshihiko Onda, Kotaro Takahagi, Kotaro Takahagi, Kotaro Takahagi, Minami Shimizu, Komaki Inoue, Keiichi Mochida, Keiichi Mochida, Keiichi Mochida   +9 more
doaj   +3 more sources

A Sequel to Sanger: amplicon sequencing that scales [PDF]

BMC Genomics, 2018
Background Although high-throughput sequencers (HTS) have largely displaced their Sanger counterparts, the short read lengths and high error rates of most platforms constrain their utility for amplicon sequencing.
Paul D. N. Hebert, Thomas W. A. Braukmann, Sean W. J. Prosser, Sujeevan Ratnasingham, Jeremy R. deWaard, Natalia V. Ivanova, Daniel H. Janzen, Winnie Hallwachs, Suresh Naik, Jayme E. Sones, Evgeny V. Zakharov   +10 more
doaj   +3 more sources

EasyAmplicon 2: Expanding PacBio and Nanopore Long Amplicon Sequencing Analysis Pipeline for Microbiome [PDF]

Advanced Science
In the past decade, third‐generation sequencing technologies (such as PacBio (Pacific Biosciences) and Nanopore) have become gradually matured and are widely used for microbial taxonomy and quantification.
Hao Luo, Defeng Bai, Zhihao Zhu, Salsabeel Yousuf, Haifei Yang, Jiani Xun, Meiyin Zeng, Yao Wang, Yunyun Gao, Kai Peng, Shanshan Xu, Yuanping Zhou, Tianyuan Zhang, Chuang Ma, Huiyu Hou, Xiulin Wan, Yang Zhou, Baolei Jia, Shi Huang, Renyou Gan, Tao Wen, Tong Chen, Xia Chen, Xiaofang Li, Yong‐Xin Liu   +24 more
doaj   +2 more sources

Adapterama II: universal amplicon sequencing on Illumina platforms (TaggiMatrix) [PDF]

PeerJ, 2019
Next-generation sequencing (NGS) of amplicons is used in a wide variety of contexts. In many cases, NGS amplicon sequencing remains overly expensive and inflexible, with library preparation strategies relying upon the fusion of locus-specific primers to ...
Travis C. Glenn, Todd W. Pierson, Natalia J. Bayona-Vásquez, Troy J. Kieran, Sandra L. Hoffberg, Jesse C. Thomas IV, Daniel E. Lefever, John W. Finger, Bei Gao, Xiaoming Bian, Swarnali Louha, Ramya T. Kolli, Kerin E. Bentley, Julie Rushmore, Kelvin Wong, Timothy I. Shaw, Michael J. Rothrock Jr, Anna M. McKee, Tai L. Guo, Rodney Mauricio, Marirosa Molina, Brian S. Cummings, Lawrence H. Lash, Kun Lu, Gregory S. Gilbert, Stephen P. Hubbell, Brant C. Faircloth   +26 more
doaj   +6 more sources

Rapid intraoperative amplicon sequencing of CNS tumor markers

Computational and Structural Biotechnology Journal
Currently, central nervous system tumors are diagnosed with an integrated diagnostic approach that combines histopathological examination with molecular genetic profiling, which requires days to weeks to achieve a precise and informative classification ...
Maximilian Evers, Björn Brändl, Christian Rohrandt, Carolin Kubelt-Kwamin, Franz-Josef Müller, Dominik Danso, André Maicher, Gaojianyong Wang, Sönke Friedrichsen, Stephan Kolkenbrock   +9 more
doaj   +4 more sources

Genotyping Plasmodium falciparum gametocytes using amplicon deep sequencing

Malaria Journal
Background Understanding the dynamics of gametocyte production in polyclonal Plasmodium falciparum infections requires a genotyping method that detects distinct gametocyte clones and estimates their relative frequencies. Here, a marker was identified and
Jimmy Vareta, Natalie A. Horstman, Matthew Adams, Karl B. Seydel, Robert S. McCann, Lauren M. Cohee, Miriam K. Laufer, Shannon Takala-Harrison   +7 more
doaj   +3 more sources