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aldas-vargas_etal_bioaugmentation

atashgahi-et-al.-xenobioticreview2018

Codes to reproduce figures from Atashgahi et al., XenobioticReview2018

de-vries-et-al-2020-porcine-study-beta-glucans

This repository contains the codes and files necessary for the analyses of results from the impact of yeast-derived glucans on the porcine gut microbiota and immune system in early life

edwardsj_2019_equine_type_comparison

Sample barcodes, R codes and data used in the analysis presented in the paper.

edwardsj_2019_equinecoremicrobiome

This repository contains codes for analysis done in the research article by Edwards JE, et al (2018) The Core Equine Hindgut Faecal Microbiome: A Broader Perspective. Under review.

gavriilidou_et_al_2021_bioactivity_screening

This repository contains codes for analysis performed in the research article by Gavriilidou A., et al (2021). "Bioactivity Screening and Gene-Trait Matching Across Marine Sponge-Associated Bacteria." Marine Drugs. accepted

gavriilidou_et_al_flavos_comparativegenomics

This repository contains the codes and files for reproducing the results presented in the respective publication. Raw reads and sequences have been deposited in ENA under accession number PRJEB35092.

geervliet-et-al-2022-porcine-study-ecn

gutleben_et.al_cultivation_a.aerophoba_bacteria

This repository contains the codes and files necessary for the analyses of results from cultivation experiments on bacteria derived from the sponge A. aerophoba.

gutleben_et.al_halogenases_aplysinas

Gutleben_et.al_Halogenases_Aplysinas

indraningrat-et-al.-cultivationspongedepths2019

This is the file with codes for analysis done in the research article Cultivation and antimicrobial screening of sponge-associated bacteria from the marine sponges Agelas sventres and Xestospongia muta collected from different depths submitted to Marine Drugs Journal.

indraningrat-et-al.-spongesdepthgradient2021

kers_etal_conserveddevelopment

kerssaccenti-power

mib20306microbialphysiology

Teaching MIB20306: Interactive app created to teach proteomics guided investigation of bacterial metabolism. We use Intestinimonas butyriciproducens as example.

microbial-bioinformatics-introductory-course-material-2018

Course material for OPEN & REPRODUCIBLE MICROBIOME DATA ANALYSIS SPRING SCHOOL

open-reproducible-microbiome-data-analysis-2018

OPEN & REPRODUCIBLE MICROBIOME DATA ANALYSIS SPRING SCHOOL, WAGENINGEN, THE NETHERLANDS, MAY 28-30, 2018

pectin-elderly-intervention

Pectin elderly intervention

peng-et-al-2019

r_for_microbial_ecology

Main webpage with information, tutorial, etc

shetty_et_al_anaerobutyricum_physiology

Codes from study on characterization of physiology of Anaerobutyricum and related species

shetty_et_al_dbmm10

Synthetic gut microbiome with 10-core species

shetty_et_al_mdbmm16

Synthetic gut minimal microbiome with 16-core species

shetty_etal_femsrev2017

Files and codes used for analysis of data reported in the review by Shetty et al. 2016.

standard-reporting-template-for-wur-mib

vaidya_jd_2019_rumendietmicrobiome

Characterization of dairy cow rumen bacterial and archaeal communities

van-der-graaf-et-al-2020-acidic-mine-pit-lakes

Microbiota data and analysis codes from Acidic mine pit lakes as natural bioreactors: in-situ attenuation mediated by biosulfidogenesis