Results 21 to 30 of about 237,694 (293)

Multiple approaches for massively parallel sequencing of SARS-CoV-2 genomes directly from clinical samples

Genome Medicine, 2020
Background COVID-19 (coronavirus disease 2019) has caused a major epidemic worldwide; however, much is yet to be known about the epidemiology and evolution of the virus partly due to the scarcity of full-length SARS-CoV-2 (severe acute respiratory ...
Minfeng Xiao, Xiaoqing Liu, Jingkai Ji, Min Li, Jiandong Li, Lin Yang, Wanying Sun, Peidi Ren, Guifang Yang, Jincun Zhao, Tianzhu Liang, Huahui Ren, Tian Chen, Huanzi Zhong, Wenchen Song, Yanqun Wang, Ziqing Deng, Yanping Zhao, Zhihua Ou, Daxi Wang, Jielun Cai, Xinyi Cheng, Taiqing Feng, Honglong Wu, Yanping Gong, Huanming Yang, Jian Wang, Xun Xu, Shida Zhu, Fang Chen, Yanyan Zhang, Weijun Chen, Yimin Li, Junhua Li   +33 more
doaj   +1 more source

MinION Sequencing of colorectal cancer tumour microbiomes-A comparison with amplicon-based and RNA-Sequencing.

PLoS ONE, 2020
BACKGROUND:Recent evidence suggests a role for the gut microbiome in the development and progression of many diseases and many studies have been carried out to analyse the microbiome using a variety of methods. In this study, we compare MinION sequencing
William S Taylor, John Pearson, Allison Miller, Sebastian Schmeier, Frank A Frizelle, Rachel V Purcell   +5 more
doaj   +1 more source

Nanoliter-scale next-generation sequencing library-mediated high-throughput 16S rRNA microbial community profiling

BioTechniques, 2020
An ultra-high-throughput workflow for next-generation sequencing library construction at nanoliter scale for amplicon sequencing, termed Smartchip Nanowell Platform for Target Enrichment, was established using a nanodispenser system and a nanoliter-scale
Hui Zhang, Xiangdan Yu, Zhe Zhang, Zhenhua Liu, Cong Tang, Kun Zhao, Shiyan Liu, Yong Sun, Xiang Li, Zijing Xu, Hong Zhang, Keqing Shi, Yan Fu   +12 more
doaj   +1 more source

Taxonomy of anaerobic digestion microbiome reveals biases associated with the applied high throughput sequencing strategies [PDF]

, 2018
In the past few years, many studies investigated the anaerobic digestion microbiome by means of 16S rRNA amplicon sequencing. Results obtained from these studies were compared to each other without taking into consideration the followed procedure for ...
Angelidaki, Irini, Campanaro, Stefano, Kougias, Panagiotis G., Treu, Laura, Zhu, Xinyu   +4 more
core   +3 more sources

High-quality single amplicon sequencing method for illumina MiSeq platform using pool of ‘N’ (0–10) spacer-linked target specific primers without PhiX spike-in

BMC Genomics, 2023
Background Illumina sequencing platform requires base diversity in the initial 11 cycles for efficient cluster identification and colour matrix estimation. This limitation yields low-quality data for amplicon libraries having homogeneous base composition.
Tejali Naik, Mohak Sharda, Lakshminarayanan C P, Kumar Virbhadra, Awadhesh Pandit   +4 more
doaj   +1 more source

Terminal restriction fragment length polymorphism is an “old school” reliable technique for swift microbial community screening in anaerobic digestion [PDF]

, 2018
The microbial community in anaerobic digestion has been analysed through microbial fingerprinting techniques, such as terminal restriction fragment length polymorphism (TRFLP), for decades.
De Vrieze, Jo, Ijaz, Umer Z., Saunders, Aaron M., Theuerl, Susanne   +3 more
core   +6 more sources

A Quantitative Sequencing Framework for Absolute Abundance Measurements of Mucosal and Lumenal Microbial Communities [PDF]

, 2020
A fundamental goal in microbiome studies is determining which microbes affect host physiology. Standard methods for determining changes in microbial taxa measure relative, rather than absolute abundances.
Barlow, Jacob T., Bogatyrev, Said R., Ismagilov, Rustem F.   +2 more
core   +1 more source

Development of an amplicon-based sequencing approach in response to the global emergence of mpox.

PLoS Biology, 2023
The 2022 multicountry mpox outbreak concurrent with the ongoing Coronavirus Disease 2019 (COVID-19) pandemic further highlighted the need for genomic surveillance and rapid pathogen whole-genome sequencing.
Nicholas F G Chen, Chrispin Chaguza, Luc Gagne, Matthew Doucette, Sandra Smole, Erika Buzby, Joshua Hall, Stephanie Ash, Rachel Harrington, Seana Cofsky, Selina Clancy, Curtis J Kapsak, Joel Sevinsky, Kevin Libuit, Daniel J Park, Peera Hemarajata, Jacob M Garrigues, Nicole M Green, Sean Sierra-Patev, Kristin Carpenter-Azevedo, Richard C Huard, Claire Pearson, Kutluhan Incekara, Christina Nishimura, Jian Ping Huang, Emily Gagnon, Ethan Reever, Jafar Razeq, Anthony Muyombwe, Vítor Borges, Rita Ferreira, Daniel Sobral, Silvia Duarte, Daniela Santos, Luís Vieira, João Paulo Gomes, Carly Aquino, Isabella M Savino, Karinda Felton, Moneeb Bajwa, Nyjil Hayward, Holly Miller, Allison Naumann, Ria Allman, Neel Greer, Amary Fall, Heba H Mostafa, Martin P McHugh, Daniel M Maloney, Rebecca Dewar, Juliet Kenicer, Abby Parker, Katharine Mathers, Jonathan Wild, Seb Cotton, Kate E Templeton, George Churchwell, Philip A Lee, Maria Pedrosa, Brenna McGruder, Sarah Schmedes, Matthew R Plumb, Xiong Wang, Regina Bones Barcellos, Fernanda M S Godinho, Richard Steiner Salvato, Aimee Ceniseros, Mallery I Breban, Nathan D Grubaugh, Glen R Gallagher, Chantal B F Vogels   +70 more
doaj   +1 more source

Single genome sequencing of near full-length HIV-1 RNA using a limiting dilution approach [PDF]

, 2019
Sequencing very long stretches of the HIV-1 genome can advance studies on virus evolution and in vivo recombination but remains technically challenging.
Demecheleer, Els, Hardy, Jarryt, Hebberecht, Laura, Mortier, Virginie, Schauvliege, Marlies, Staelens, Delfien, Vancoillie, Leen, Verhofstede, Chris   +7 more
core   +1 more source

Correction: Amplicon–Based Metagenomic Analysis of Mixed Fungal Samples Using Proton Release Amplicon Sequencing

PLoS ONE, 2014
doaj   +5 more sources