Metagenomics-a guide from sampling to data analysis

T Thomas, J Gilbert, F Meyer - Microbial informatics and experimentation, 2012 - Springer
Metagenomics applies a suite of genomic technologies and bioinformatics tools to directly
access the genetic content of entire communities of organisms. The field of metagenomics …

Milk microbiota: Characterization methods and role in cheese production

B Tilocca, N Costanzo, VM Morittu, AA Spina… - Journal of …, 2020 - Elsevier
Milk is a complex body fluid aimed at addressing the nutritional and defensive needs of the
mammal's newborns. Harbored microbiota plays a pivotal role throughout the cheesemaking …

Methods for the extraction, storage, amplification and sequencing of DNA from environmental samples

G Lear, I Dickie, J Banks, S Boyer, HL Buckley… - New Zealand Journal of …, 2018 - JSTOR
Advances in the sequencing of DNA extracted from media such as soil and water offer huge
opportunities for biodiversity monitoring and assessment, particularly where the collection or …

Metagenomics: novel enzymes from non-culturable microbes

F Berini, C Casciello, GL Marcone… - FEMS microbiology …, 2017 - academic.oup.com
In the transition to the post-petroleum economy, there is a growing demand for novel
enzymes with high process performances to replace traditional chemistry with a more …

Functional ecology of an Antarctic dry valley

Y Chan, JD Van Nostrand, J Zhou… - Proceedings of the …, 2013 - National Acad Sciences
The McMurdo Dry Valleys are the largest ice-free region in Antarctica and are critically at risk
from climate change. The terrestrial landscape is dominated by oligotrophic mineral soils …

[HTML][HTML] Soil biodiversity and DNA barcodes: opportunities and challenges

A Orgiazzi, MB Dunbar, P Panagos, GA de Groot… - Soil Biology and …, 2015 - Elsevier
Soils encompass a huge diversity of organisms which mostly remains to be characterized
due to a number of methodological and logistical issues. Nonetheless, remarkable progress …

Structure, fluctuation and magnitude of a natural grassland soil metagenome

TO Delmont, E Prestat, KP Keegan… - The ISME …, 2012 - academic.oup.com
The soil ecosystem is critical for human health, affecting aspects of the environment from key
agricultural and edaphic parameters to critical influence on climate change. Soil has more …

The human gut microbiome, a taxonomic conundrum

SA Sankar, JC Lagier, P Pontarotti, D Raoult… - Systematic and applied …, 2015 - Elsevier
From culture to metagenomics, within only 130 years, our knowledge of the human
microbiome has considerably improved. With> 1000 microbial species identified to date, the …

Coming-of-age characterization of soil viruses: a user's guide to virus isolation, detection within metagenomes, and viromics

G Trubl, P Hyman, S Roux, ST Abedon - Soil Systems, 2020 - mdpi.com
The study of soil viruses, though not new, has languished relative to the study of marine
viruses. This is particularly due to challenges associated with separating virions from …

Molecular microbiology methods for environmental diagnosis

T Bouchez, AL Blieux, S Dequiedt, I Domaizon… - Environmental …, 2016 - Springer
To reduce the environmental footprint of human activities, the quality of environmental media
such as water, soil and the atmosphere should be first assessed. Microorganisms are well …