Sequencing and beyond: integrating molecular'omics' for microbial community profiling

EA Franzosa, T Hsu, A Sirota-Madi… - Nature Reviews …, 2015 - nature.com
High-throughput DNA sequencing has proven invaluable for investigating diverse
environmental and host-associated microbial communities. In this Review, we discuss …

[HTML][HTML] Understanding and designing the strategies for the microbe-mediated remediation of environmental contaminants using omics approaches

MA Malla, A Dubey, S Yadav, A Kumar… - Frontiers in …, 2018 - frontiersin.org
Rapid industrialization and population explosion has resulted in the generation and
dumping of various contaminants into the environment. These harmful compounds …

Metagenomic analyses: past and future trends

C Simon, R Daniel - Applied and environmental microbiology, 2011 - Am Soc Microbiol
Metagenomics has revolutionized microbiology by paving the way for a cultivation-
independent assessment and exploitation of microbial communities present in complex …

Ecological genomics of marine picocyanobacteria

DJ Scanlan, M Ostrowski, S Mazard… - Microbiology and …, 2009 - Am Soc Microbiol
Marine picocyanobacteria of the genera Prochlorococcus and Synechococcus numerically
dominate the picophytoplankton of the world ocean, making a key contribution to global …

Gut as a target for cadmium toxicity

AA Tinkov, VA Gritsenko, MG Skalnaya… - Environmental …, 2018 - Elsevier
The primary objective of the present study was to review the impact of Cd exposure on gut
microbiota and intestinal physiology, as well as to estimate whether gut may be considered …

A decade of metaproteomics: where we stand and what the future holds

P Wilmes, A Heintz‐Buschart, PL Bond - Proteomics, 2015 - Wiley Online Library
We are living through exciting times during which we are able to unravel the “microbial dark
matter” in and around us through the application of high‐resolution “meta‐omics” …

Emerging tools for measuring and modeling the in situ activity of soil extracellular enzymes

MD Wallenstein, MN Weintraub - Soil Biology and Biochemistry, 2008 - Elsevier
Current soil enzyme methods measure potential enzyme activities, which are indicative of
overall enzyme concentrations. However, they do not provide insight in the actual rates of …

Transport functions dominate the SAR11 metaproteome at low-nutrient extremes in the Sargasso Sea

SM Sowell, LJ Wilhelm, AD Norbeck… - The ISME …, 2009 - academic.oup.com
Abstract The northwestern Sargasso Sea undergoes annual cycles of productivity with
increased production in spring corresponding to periods of upwelling, and oligotrophy in …

Functional metaproteome analysis of protein extracts from contaminated soil and groundwater

D Benndorf, GU Balcke, H Harms… - The ISME …, 2007 - academic.oup.com
Using proteins from soil or groundwater as functional biomarkers requires efficient
extraction. We developed an extraction method in which the separation of proteins from the …

[HTML][HTML] Metaproteomics: Harnessing the Power of High Performance Mass Spectrometry to Identify the Suite of Proteins That Control Metabolic Activities in Microbial …

RL Hettich, C Pan, K Chourey, RJ Giannone - Analytical chemistry, 2013 - ACS Publications
The availability of extensive genome information for many different microbes, including
unculturable species in mixed communities from environmental samples, has enabled …