Current challenges and best-practice protocols for microbiome analysis

R Bharti, DG Grimm - Briefings in bioinformatics, 2021 - academic.oup.com
Analyzing the microbiome of diverse species and environments using next-generation
sequencing techniques has significantly enhanced our understanding on metabolic …

[HTML][HTML] Next generation and other sequencing technologies in diagnostic microbiology and infectious diseases

EE Hilt, P Ferrieri - Genes, 2022 - mdpi.com
Next-generation sequencing (NGS) technologies have become increasingly available for
use in the clinical microbiology diagnostic environment. There are three main applications of …

Recent advanced technologies for the characterization of xenobiotic-degrading microorganisms and microbial communities

S Mishra, Z Lin, S Pang, W Zhang, P Bhatt… - … in Bioengineering and …, 2021 - frontiersin.org
Global environmental contamination with a complex mixture of xenobiotics has become a
major environmental issue worldwide. Many xenobiotic compounds severely impact the …

Tandem repeats lead to sequence assembly errors and impose multi-level challenges for genome and protein databases

OK Tørresen, B Star, P Mier… - Nucleic acids …, 2019 - academic.oup.com
The widespread occurrence of repetitive stretches of DNA in genomes of organisms across
the tree of life imposes fundamental challenges for sequencing, genome assembly, and …

[HTML][HTML] The sequence of sequencers: The history of sequencing DNA

JM Heather, B Chain - Genomics, 2016 - Elsevier
Determining the order of nucleic acid residues in biological samples is an integral
component of a wide variety of research applications. Over the last fifty years large numbers …

The gut microbiome in human neurological disease: a review

H Tremlett, KC Bauer, S Appel‐Cresswell… - Annals of …, 2017 - Wiley Online Library
Almost half the cells and 1% of the unique genes found in our bodies are human, the rest
are from microbes, predominantly bacteria, archaea, fungi, and viruses. These …

Poultry gut health–microbiome functions, environmental impacts, microbiome engineering and advancements in characterization technologies

CE Aruwa, C Pillay, MM Nyaga, S Sabiu - Journal of Animal Science and …, 2021 - Springer
The gastrointestinal tract (GIT) health impacts animal productivity. The poultry microbiome
has functions which range from protection against pathogens and nutrients production, to …

Meta-analysis reveals reproducible gut microbiome alterations in response to a high-fat diet

JE Bisanz, V Upadhyay, JA Turnbaugh, K Ly… - Cell host & …, 2019 - cell.com
Multiple research groups have shown that diet impacts the gut microbiome; however,
variability in experimental design and quantitative assessment have made it challenging to …

Diversity and activity of communities inhabiting plastic debris in the North Pacific Gyre

JA Bryant, TM Clemente, DA Viviani, AA Fong… - …, 2016 - journals.asm.org
Marine plastic debris has become a significant concern in ocean ecosystems worldwide.
Little is known, however, about its influence on microbial community structure and function …

The road to metagenomics: from microbiology to DNA sequencing technologies and bioinformatics

A Escobar-Zepeda, A Vera-Ponce de León… - Frontiers in …, 2015 - frontiersin.org
The study of microorganisms that pervade each and every part of this planet has
encountered many challenges through time such as the discovery of unknown organisms …