References of "Trends in Microbiology"
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See detailHuman Gut Microbiome: Function Matters.
Heintz-Buschart, Anna; Wilmes, Paul UL

in Trends in microbiology (2018), 26(7), 563-574

The human gut microbiome represents a complex ecosystem contributing essential functions to its host. Recent large-scale metagenomic studies have provided insights into its structure and functional ... [more ▼]

The human gut microbiome represents a complex ecosystem contributing essential functions to its host. Recent large-scale metagenomic studies have provided insights into its structure and functional potential. However, the functional repertoire which is actually contributed to human physiology remains largely unexplored. Here, by leveraging recent omics datasets, we challenge current assumptions regarding key attributes of the functional gut microbiome, in particular with respect to its variability. We further argue that the closing of existing gaps in functional knowledge should be addressed by a most-wanted gene list, the development and application of molecular and cellular high-throughput measurements, the development and sensible use of experimental models, as well as the direct study of observable molecular effects in the human host. [less ▲]

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See detailCondensing the omics fog of microbial communities
Muller, Emilie UL; Glaab, Enrico UL; May, Patrick UL et al

in Trends in Microbiology (2013), 21(7), 325333

Natural microbial communities are ubiquitous, complex, heterogeneous and dynamic. Here, we argue that the future standard for their study will require systematic omic measurements of spatially and ... [more ▼]

Natural microbial communities are ubiquitous, complex, heterogeneous and dynamic. Here, we argue that the future standard for their study will require systematic omic measurements of spatially and temporally resolved unique samples in line with a discovery-driven planning approach. Resulting datasets will allow the generation of solid hypotheses about causal relationships and, thereby, will facilitate the discovery of previously unknown traits of specific microbial community members. However, to achieve this, solid wet-lab, bioinformatic and statistical methodologies are required to have the promises of the emerging field of Eco-Systems Biology come to fruition. [less ▲]

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See detailMetaproteomics: studying functional gene expression in microbial ecosystems
Wilmes, Paul UL; Bond, P. L.

in Trends in Microbiology (2006), 14(2), 92-97

The recent availability of extensive metagenomic sequences from various environmental microbial communities has extended the postgenomic era to the field of environmental microbiology. Although still ... [more ▼]

The recent availability of extensive metagenomic sequences from various environmental microbial communities has extended the postgenomic era to the field of environmental microbiology. Although still restricted to a small number of studies, metaproteomic investigations have revealed interesting aspects of functional gene expression within microbial habitats that contain limited microbial diversity. These studies highlight the potential of proteomics for the study of microbial consortia. However, the application of proteomic investigations to complex microbial assemblages such as seawater and soil still presents considerable challenges. Nonetheless, metaproteomics will enhance the understanding of the microbial world and link microbial community composition to function. [less ▲]

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