Daniel McDonald

Career Trajectory

Research Cluster Map

Direct collaborators. Node size = influence, colour = community, dashed = past collaboration.

• Multi-omics Analyses of Facial Skin in Acne Identify Distinct Microbial and Metabolic Features at Lesional and Non-lesional Sites

  bioRxiv (Cold Spring Harbor Laboratory) · 2026-02-10

• The Human Diets & Microbiome Initiative: A five-country analysis of geographic and dietary drivers of gut microbiome composition and genomic variationPreprint

  Research Square · 2026-02-06

• Scikit-bio: a fundamental Python library for biological omic data analysis

  Nature Methods · 2025-12-11 · 12 citations

• Effects of intensive lifestyle changes on the progression of mild cognitive impairment or early dementia due to Alzheimer's disease: Extended 40‐week results

  Alzheimer s & Dementia · 2025-12-01

• Environmental and maternal imprints on infant gut metabolic development

  Cell Host & Microbe · 2025-11-26 · 7 citations

• Personalised whole-body modelling links gut microbiota to metabolic perturbations in Alzheimer’s diseasePreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-10-29

• Bladder health and the urogenital microbiome in community-dwelling adult females

  mSystems · 2025-10-16 · 3 citations

• Streamlined extraction of nucleic acids and metabolites from low- and high-biomass samples using isopropanol and matrix tubes

  Microbiology Spectrum · 2025-10-10 · 1 citations

• CaDAVEr: a metagenome-assembled genome catalog of microbial decomposers across vertebrate environments

  Microbiology Resource Announcements · 2025-09-23 · 1 citations

• Versatile wastewater monitoring of pathogens and antimicrobial resistance enabled by metatranscriptomics and long-read metagenomicsPreprint

  Research Square · 2025-09-10

• Chronological age estimation from human microbiomes with transformer-based Robust Principal Component Analysis

  Communications Biology · 2025-08-06 · 7 citations

• Real-time, multi-pathogen wastewater genomic surveillance with Freyja 2Preprint

  medRxiv · 2025-07-27 · 2 citations

• Environmental and Maternal Imprints on Infant Gut Metabolic ProgrammingPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-07-24

• Gut microbiome compositional and functional features associate with Alzheimer's disease pathology

  Alzheimer s & Dementia · 2025-07-01 · 14 citations

• Effects of Early Neonatal Administration of Lactiplantibacillus plantarum ATCC 202195 on the Fecal Microbiota of Infants in Dhaka, Bangladesh

  Current Developments in Nutrition · 2025-05-01

• Abstract 3692: Computational modeling of human microbiome evolution in the context of esophageal adenocarcinoma progression

  Cancer Research · 2025-04-21

• Associations of alcohol with the human gut microbiome and prospective health outcomes in the FINRISK 2002 cohort

  European Journal of Nutrition · 2025-04-11 · 7 citations

• The International Space Station has a unique and extreme microbial and chemical environment driven by use patterns

  Cell · 2025-02-27 · 19 citations

• SARS-CoV-2 infectivity can be modulated through bacterial grooming of the glycocalyx

  mBio · 2025-02-25 · 2 citations

• Correction for Taylor et al., “Depression in Individuals Coinfected with HIV and HCV Is Associated with Systematic Differences in the Gut Microbiome and Metabolome”

  mSystems · 2025-02-03