Publications

Differential effects of synbiotic delivery route (Feed, water, combined) in broilers challenged with Salmonella Infantis

Victoria Drauch et al. (2025)

Salmonella Infantis presents a persistent and multi-drug-resistant threat to poultry production. This study evaluated the
impact of a S. Infantis infection in broiler chickens across various parameters, including organ colonization, gut microbiota, and immune function. Our findings provide valuable guidance for
optimizing synbiotic use in commercial poultry management, enabling enhanced pathogen control and improved gut health.

You can read the full article on ScienceDirect! https://www.sciencedirect.com/science/article/pii/S0032579125001270?via%3Dihub

Fig. 1. Experimental design of the animal trial administering a synbiotic sup- plement via three routes: feed and water (SynFW_SI), water only (SynW_SI), and feed only (SynF_SI). Control groups included a positive control (SI) and a negative control (control). Broilers were infected with Salmonella Infantis on day 7. Sampling involved cloacal swabs from all birds and necropsy of 5 birds per group on each killing day.

microbetag: simplifying microbial network interpretation through annotation, enrichment tests and metabolic complementarity analysis

Haris Zafeiropoulos et al. (Oct. 2024)

Microbial co-occurrence network inference is often hindered by low accuracy and tool dependency. We introduce microbetag, a comprehensive software ecosystem designed to enhance network annotation. Nodes (taxa) are enriched with phenotypic traits, while edges represent metabolic complementarities, highlighting potential cross-feeding relationships.

You can read the full pre-print on biorxiv. https://doi.org/10.1101/2024.10.01.616208

Fig1: Simplified overview of the microbetagDB-dependent version of microbetag.

Galactoglucomamman fibres promote a beneficial procine gut microbiome

Jenny Merkesvik et al. - presented at ISME19 (Cape Town, South Africa - Aug. 2024)

A Sustainable Suite of Bioinformatic Pipelines for Holo-omics

Jorge Langa et al. - presented at the 23rd European Conference on Computational Biology (Turku, Finland - Sep. 2024) and the 2nd CPH Gut Microbiome Hub Symposium (Copenhagen, Denmark - Nov. 2024)

Fluent Automation Workstation empowers high-throughput processing of microsamples for 3D-spatial metagenomics of the gut microbiome

Jonas Lauritsen et al. - presented at 11th CphLAN (Copenhagen, Denmark - Oct. 2024)

Three-dimensional simulations of host-microbiota and microbiota-microbiota interactions

Nikolai Bykov et al. - presented at the 2nd Applied Hologenomics Conference (Copenhagen, Denmark - Jul. 2024)

This project has received funding from the European Union’s Horizon 2020 Research
and Innovation programme under grant agreement number No. 101000309.
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Coordinator: Antton Alberdi (UCPH)
Data and privacy policy Contact: 3d-omics@sund.ku.dk