comparative metaproteomics and diversity analysis of human intestinal microbiota testifies for its temporal stability and expression of core functions比较宏蛋白质组学和人类肠道菌群的多样性分析证明为其核心功能的时间稳定性和表达.pdf

Comparative Metaproteomics and Diversity Analysis of Human Intestinal Microbiota Testifies for Its Temporal Stability and Expression of Core Functions 1 1 ¨ 1,2 2 ¨ ¨ 2 2 Carolin A. Kolmeder *, Mark de Been , Janne Nikkila , Ilja Ritamo , Jaana Matto , Leena Valmu , Jarkko ¨ 1 1 1 1,3 Salojarvi , Airi Palva , Anne Salonen , Willem M. de Vos 1 Department of Veterinary Biosciences, University of Helsinki, Helsinki, Finland, 2 Finnish Red Cross Blood Service, Helsinki, Finland, 3 Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands Abstract The human intestinal tract is colonized by microbial communities that show a subject-specific composition and a high-level temporal stability in healthy adults. To determine whether this is reflected at the functional level, we compared the faecal metaproteomes of healthy subjects over time using a novel high-throughput approach based on denaturing polyacrylamide gel electrophoresis and liquid chromatography–tandem mass spectrometry. The developed robust metaproteomics workflow and identification pipeline was used to study the composition and temporal stability of the intestinal metaproteome using faecal samples collected from 3 healthy subjects over a period of six to twelve months. The same samples were also subjected to DNA extraction and analysed for their microbial composition and diversity using the Human Intestinal Tract Chip, a validated phylogenetic microarray. Using metagenome and single genome sequence data out of the thousands of mass spectra generated pe