Gut microbiota metagenomics in aquaculture: factors influencing gut microbiome and its physiological role in fish

K Yukgehnaish, P Kumar, P Sivachandran… - Reviews in …, 2020 - Wiley Online Library
Fish gut microbiome confers various effects to the host fish; this includes overall size,
metabolism, feeding behaviour and immune response in the fish. The emergence of …

Microbial biodiversity and bioremediation assessment through omics approaches

H Chandran, M Meena, K Sharma - Frontiers in Environmental …, 2020 - frontiersin.org
Industrialization, population burst, and changing lifestyles have resulted in the genesis of
non-degradable pollutants languishing the environment and human health. Biological …

IDseq—An open source cloud-based pipeline and analysis service for metagenomic pathogen detection and monitoring

KL Kalantar, T Carvalho, CFA de Bourcy… - …, 2020 - academic.oup.com
Background Metagenomic next-generation sequencing (mNGS) has enabled the rapid,
unbiased detection and identification of microbes without pathogen-specific reagents …

Integrating host response and unbiased microbe detection for lower respiratory tract infection diagnosis in critically ill adults

C Langelier, KL Kalantar, F Moazed… - Proceedings of the …, 2018 - National Acad Sciences
Lower respiratory tract infections (LRTIs) lead to more deaths each year than any other
infectious disease category. Despite this, etiologic LRTI pathogens are infrequently …

An introduction to the analysis of shotgun metagenomic data

TJ Sharpton - Frontiers in plant science, 2014 - frontiersin.org
Environmental DNA sequencing has revealed the expansive biodiversity of microorganisms
and clarified the relationship between host-associated microbial communities and host …

Drivers, dynamics, and control of emerging vector-borne zoonotic diseases

AM Kilpatrick, SE Randolph - The Lancet, 2012 - thelancet.com
Emerging vector-borne diseases are an important issue in global health. Many vector-borne
pathogens have appeared in new regions in the past two decades, while many endemic …

African swine fever virus replication and genomics

LK Dixon, DAG Chapman, CL Netherton, C Upton - Virus research, 2013 - Elsevier
African swine fever virus (ASFV) is a large icosahedral DNA virus which replicates
predominantly in the cytoplasm of infected cells. The ASFV double-stranded DNA genome …

FLASH: a next-generation CRISPR diagnostic for multiplexed detection of antimicrobial resistance sequences

J Quan, C Langelier, A Kuchta, J Batson… - Nucleic acids …, 2019 - academic.oup.com
The growing prevalence of deadly microbes with resistance to previously life-saving drug
therapies is a dire threat to human health. Detection of low abundance pathogen sequences …

The bovine milk microbiota: insights and perspectives from-omics studies

MF Addis, A Tanca, S Uzzau, G Oikonomou… - Molecular …, 2016 - pubs.rsc.org
Recent significant progress in culture-independent techniques, together with the parallel
development of-omics technologies and data analysis capabilities, have led to a new …

Going viral: next-generation sequencing applied to phage populations in the human gut

A Reyes, NP Semenkovich, K Whiteson… - Nature Reviews …, 2012 - nature.com
Over the past decade, researchers have begun to characterize viral diversity using
metagenomic methods. These studies have shown that viruses, the majority of which infect …