Analysing microbial community composition through amplicon sequencing: from sampling to hypothesis testing

LW Hugerth, AF Andersson - Frontiers in microbiology, 2017 - frontiersin.org
Microbial ecology as a scientific field is fundamentally driven by technological advance. The
past decade's revolution in DNA sequencing cost and throughput has made it possible for …

Transcriptome analysis using next-generation sequencing

KO Mutz, A Heilkenbrinker, M Lönne, JG Walter… - Current opinion in …, 2013 - Elsevier
Up to date research in biology, biotechnology, and medicine requires fast genome and
transcriptome analysis technologies for the investigation of cellular state, physiology, and …

Primer, pipelines, parameters: issues in 16S rRNA gene sequencing

I Abellan-Schneyder, MS Matchado, S Reitmeier… - Msphere, 2021 - Am Soc Microbiol
Short-amplicon 16S rRNA gene sequencing is currently the method of choice for studies
investigating microbiomes. However, comparative studies on differences in procedures are …

Tapping the rhizosphere metabolites for the prebiotic control of soil-borne bacterial wilt disease

T Wen, P Xie, H Liu, T Liu, M Zhao, S Yang… - Nature …, 2023 - nature.com
Prebiotics are compounds that selectively stimulate the growth and activity of beneficial
microorganisms. The use of prebiotics is a well-established strategy for managing human …

Network analysis and subsequent culturing reveal keystone taxa involved in microbial litter decomposition dynamics

H Zheng, T Yang, Y Bao, P He, K Yang, X Mei… - Soil Biology and …, 2021 - Elsevier
Plant litter decomposition in the soil is governed by microorganisms such as bacteria and
fungi that colonize lignocellulose residues during the decomposition process, and thus, the …

Human oral microbiome and prospective risk for pancreatic cancer: a population-based nested case-control study

X Fan, AV Alekseyenko, J Wu, BA Peters, EJ Jacobs… - Gut, 2018 - gut.bmj.com
Objective A history of periodontal disease and the presence of circulating antibodies to
selected oral pathogens have been associated with increased risk of pancreatic cancer; …

Cigarette smoking and the oral microbiome in a large study of American adults

J Wu, BA Peters, C Dominianni, Y Zhang, Z Pei… - The ISME …, 2016 - academic.oup.com
Oral microbiome dysbiosis is associated with oral disease and potentially with systemic
diseases; however, the determinants of these microbial imbalances are largely unknown. In …

Alterations of the rhizosphere soil microbial community composition and metabolite profiles of Zea mays by polyethylene-particles of different molecular weights

Q Fu, J Lai, X Ji, Z Luo, G Wu, X Luo - Journal of Hazardous Materials, 2022 - Elsevier
Polyethylene film is the most widely used plastic film in agricultural production activities, and
its depolymerization products are mainly polyethylene-particles (PE-particles) of different …

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

A Klindworth, E Pruesse, T Schweer… - Nucleic acids …, 2013 - academic.oup.com
Abstract 16S ribosomal RNA gene (rDNA) amplicon analysis remains the standard
approach for the cultivation-independent investigation of microbial diversity. The accuracy of …

Cervical microbiome and cytokine profile at various stages of cervical cancer: a pilot study

A Audirac-Chalifour, K Torres-Poveda… - PloS one, 2016 - journals.plos.org
Cervical cancer (CC) is caused by high-risk human papillomavirus persistence due to the
immunosuppressive tumor microenvironment mediated by cytokines. Vaginal microbiota …