Publications

Published in peer-reviewed journals

Sorted by newest first. My name or the unit representing my name is underlined.

• Metabolic Capabilities of Key Rumen Microbiota Drive Methane Emissions in Cattle
  W Lai, A Alberdi, AVP de León, CM Kobel, VTE Aho, A Leu, R Roehe, PB Pope, T Hvidsten
  ASM mSystems 2025 [pdf | doi]

• CompareM2 is a genomes-to-report pipeline for comparing microbial genomes
  CM Kobel, VTE Aho, O Øyås, N Nørskov-Lauritsen, BJ Woodcroft, PB Pope
  OUP Bioinformatics 2025 [pdf | doi]

• Protozoal populations drive system-wide variation in the rumen microbiome
  Carl M Kobel, Andy Leu, Arturo Vera-Ponce de León, Ove Øyås, Wanxin Lai, Ianina Altshuler, Live H Hagen, Rasmus D Wollenberg, Mads T Søndergaard, Cassie R Bakshani, William GT Willats, Laura Nicoll, Simon J McIlroy, Torgeir R Hvidsten, Oliver Schmidt, Chris Greening, Gene W Tyson, Rainer Roehe, Velma TE Aho, Phillip B Pope
  Nature Communications 2025 [pdf | doi]

• Integrating host and microbiome biology using holo-omics
  CM Kobel, J Merkesvik, IMT Burgos, W Lai, O Øyås, PB Pope, TR Hvidsten, VTE Aho
  RSC Molecular Omics 2025 [pdf | doi]

• PhD-thesis: Rumen-Centric Assembly of the Cattle Holobiont
  CM Kobel
  Norges Miljø- og Biovitenskapelige Universitet Bibliotek 2025 [pdf | uri]

• First case of bacteraemia caused by Dielma fastidiosa in a patient hospitalized with diverticulitis
  B Forman-Ankjaer, F Hvid-Jensen, CM Kobel, T Greve
  Acta pathologica, microbiologica, et immunologica Scandinavica 2024 [doi]

• Long-read metagenomics and CAZyme discovery
  A Ferrillo, CM Kobel, A Vera-Ponce de León, SL La Rosa, BJ Kunath, PB Pope, LH Hagen
  Humana Carbohydrate-Protein Interactions, Methods in Molecular Biology 2023 [doi]

• Introduction and transmission of SARS-CoV-2 lineage B.1.1.7, Alpha variant, in Denmark
  TY Michaelsen, M Bennedbæk, LE Christiansen, MSF Jørgensen, CH Møller, EA Sørensen, S Knutsson, J Brandt, TBN Jensen, C Chiche-Lapierre, EF Collados, T Sørensen, C Petersen, V Le-Quy, M Sereika, FT Hansen, M Rasmussen, J Fonager, SM Karst, RL Marvig, M Stegger, RN Sieber, R Skov, R Legarth, TG Krause, A Fomsgaard, DCGC (The Danish COVID-19 Genome Consortium), Mads Albertsen
  BMC Genome Medicine 2022 [doi]

• Risk of hospitalisation associated with infection with SARS-CoV-2 lineage B.1.1.7 in Denmark: an observational cohort study
  P Bager, J Wohlfahrt, J Fonager, M Rasmussen, M Albertsen, TY Michaelsen, CH Møller, S Ethelberg, R Legarth, MSF Button, S Gubbels, M Voldstedlund, K Mølbak, R Leo Skov, A Fomsgaard, TG Krause, DCGC (The Danish Covid-19 Genome Consortium)
  The Lancet Infectious Diseases 2021 [doi]

• Haemophilus influenzae one day in Denmark: prevalence, circulating clones, and dismal resistance to aminopenicillins
  N Nørskov-Lauritsen, N Pedersen, JUH Lam, HL Nielsen, CM Kobel, DS Hansen, ODiD Consortium
  European Journal of Clinical Microbiology & Infectious Diseases 2021 [doi]

• Persistent severe acute respiratory syndrome coronavirus 2 infection in immunocompromised host displaying treatment induced viral evolution
  I Monrad, SR Sahlertz, SSF Nielsen, LØ Pedersen, MS Petersen, CM Kobel, IH Tarpgaard, M Storgaard, KL Mortensen, MH Schleimann, M Tolstrup, LK Vibholm
  OUP Open forum infectious diseases 2021 [doi]

• Whole Genome Sequencing of Aggregatibacter actinomycetemcomitans Cultured from Blood Stream Infections Reveals Three Major Phylogenetic Groups Including a Novel Lineage Expressing Serotype a Membrane O Polysaccharide
  S Nedergaard, CM Kobel, MB Nielsen, RT Møller, AB Jensen, N Nørskov-Lauritsen
  MDPI Pathogens 2019 [doi]

Public pre-prints

• OmniCorr: An R-package for visualizing putative host-microbiota interactions using multi-omics data
  Shashank Gupta, Wanxin Lai, Carl M Kobel, Velma TE Aho, Arturo Vera-Ponce de León, Sabina Leanti La Rosa, Simen R Sandve, Phillip B Pope, Torgeir R Hvidsten
  bioRχiv 2025 [doi]

• Predicting microbial genome-scale metabolic networks directly from 16S rRNA gene sequences
  Ove Øyås, Carl M Kobel, Jon Olav Vik, Phillip B Pope
  bioRχiv 2024 [doi]

Scholar also has an up-to-date list of my publications with more stats: scholar.google.com/citations?user=J9G72msAAAAJ