World's Best Scientists 2026 revealed!

D-Index & Metrics

Microbiology

D-Index
99
Citations
38254
World Ranking
432
National Ranking
28

Medicine

D-Index
99
Citations
39219
World Ranking
8542
National Ranking
487

Overview

Stefan Niemann is affiliated with the Research Center Borstel - Leibniz-Center for Medicine and Biosciences in Germany. Their research spans several key areas within medicine and molecular biology, with an emphasis on epidemiology, infectious diseases, and molecular medicine.

The main fields of study associated with their work include:

  • Medicine
  • Biochemistry, Genetics and Molecular Biology

Within these broader fields, they focus on the following subfields:

  • Epidemiology
  • Infectious Diseases
  • Molecular Biology
  • Surgery
  • Molecular Medicine

Their research interests concentrate on several main topics, such as:

  • Tuberculosis Research and Epidemiology
  • Mycobacterium research and diagnosis
  • Pneumonia and Respiratory Infections
  • Genomics and Phylogenetic Studies
  • Diagnosis and treatment of tuberculosis
  • Antibiotic Resistance in Bacteria
  • Infectious Diseases and Tuberculosis

Stefan Niemann has published extensively, with frequent contributions to the following venues:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • Genome Medicine
  • European Respiratory Journal
  • Microbiology Spectrum
  • Emerging infectious diseases

Notable recent papers include:

  • Phylogenomics of Mycobacterium africanum reveals a new lineage and a complex evolutionary history, 2021, Microbial Genomics
  • Library preparation for next generation sequencing: A review of automation strategies, 2020, Biotechnology Advances
  • Population structure, biogeography and transmissibility of Mycobacterium tuberculosis, 2021, Nature Communications
  • The phylogenetic landscape and nosocomial spread of the multidrug-resistant opportunist Stenotrophomonas maltophilia, 2020, Nature Communications
  • Emergence of bedaquiline resistance in a high tuberculosis burden country, 2021, European Respiratory Journal

Frequent collaborators in their research include:

  • Matthias Merker
  • Thomas A. Kohl
  • Christian Utpatel
  • Florian P. Maurer
  • Ivan Barilar

Best Publications

  • Proposal for Standardization of Optimized Mycobacterial Interspersed Repetitive Unit-Variable-Number Tandem Repeat Typing of Mycobacterium tuberculosis

    Philip Supply;Philip Supply;Caroline Allix;Sarah Lesjean;Sarah Lesjean;Mara Cardoso-Oelemann;Mara Cardoso-Oelemann

  • Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpolDB4) for classification, population genetics and epidemiology

    Karine Brudey;Jeffrey R Driscoll;Leen Rigouts;Wolfgang M Prodinger

  • Variable host-pathogen compatibility in Mycobacterium tuberculosis.

    Sebastien Gagneux;Kathryn DeRiemer;Tran Van;Midori Kato-Maeda

  • Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans

    Iñaki Comas;Mireia Coscolla;Mireia Coscolla;Tao Luo;Sonia Borrell;Sonia Borrell

  • Human T cell epitopes of Mycobacterium tuberculosis are evolutionarily hyperconserved

    Iñaki Comas;Jaidip Chakravartti;Peter M Small;James Galagan

  • High functional diversity in Mycobacterium tuberculosis driven by genetic drift and human demography.

    Ruth Hershberg;Mikhail Lipatov;Peter M Small;Peter M Small;Hadar Sheffer

  • The epidemiology, pathogenesis, transmission, diagnosis, and management of multidrug-resistant, extensively drug-resistant, and incurable tuberculosis

    Keertan Dheda;Tawanda Gumbo;Gary Maartens;Kelly E. Dooley

  • Whole-genome sequencing for prediction of Mycobacterium tuberculosis drug susceptibility and resistance: a retrospective cohort study.

    Timothy M Walker;Thomas A Kohl;Shaheed V Omar;Jessica Hedge

  • Whole-genome sequencing of rifampicin-resistant Mycobacterium tuberculosis strains identifies compensatory mutations in RNA polymerase genes.

    Iñaki Comas;Sonia Borrell;Sonia Borrell;Andreas Roetzer;Graham Rose

  • Pre-Columbian mycobacterial genomes reveal seals as a source of New World human tuberculosis

    Kirsten I. Bos;Kelly M. Harkins;Alexander Herbig;Mireia Coscolla

  • Origin, Spread and Demography of the Mycobacterium tuberculosis Complex

    Thierry Wirth;Falk Hildebrand;Caroline Allix-Béguec;Florian Wölbeling

  • Evolutionary history and global spread of the Mycobacterium tuberculosis Beijing lineage

    Matthias Merker;Camille Blin;Stefano Mona;Nicolas Duforet-Frebourg

  • Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis.

    P Bradley;N C Gordon;T M Walker;L Dunn

  • Whole Genome Sequencing versus Traditional Genotyping for Investigation of a Mycobacterium tuberculosis Outbreak: A Longitudinal Molecular Epidemiological Study

    Andreas Roetzer;Roland Diel;Thomas A. Kohl;Christian Rückert

  • Correction: Corrigendum: Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis

    Phelim Bradley;N. Claire Gordon;Timothy M. Walker;Laura Dunn

  • Predictive value of a whole blood IFN-gamma assay for the development of active tuberculosis disease after recent infection with Mycobacterium tuberculosis.

    Roland Diel;Robert Loddenkemper;Karen Meywald-Walter;Stefan Niemann

  • Genotyping of genetically monomorphic bacteria: DNA sequencing in Mycobacterium tuberculosis highlights the limitations of current methodologies.

    Iñaki Comas;Susanne Homolka;Stefan Niemann;Sebastien Gagneux

  • Evaluation and Strategy for Use of MIRU-VNTRplus, a Multifunctional Database for Online Analysis of Genotyping Data and Phylogenetic Identification of Mycobacterium tuberculosis Complex Isolates

    Caroline Allix-Béguec;Dag Harmsen;Thomas Weniger;Philip Supply;Philip Supply

  • Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages.

    David Stucki;David Stucki;Daniela Brites;Daniela Brites;Leïla Jeljeli;Mireia Coscolla;Mireia Coscolla

  • Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing.

    Caroline Allix-Béguec;Irena Arandjelovic

  • MIRU-VNTRplus: a web tool for polyphasic genotyping of Mycobacterium tuberculosis complex bacteria

    Thomas Weniger;Justina Krawczyk;Philip Supply;Stefan Niemann

Frequent Co-Authors

Sabine Rüsch-Gerdes
Sabine Rüsch-Gerdes Kiel University
Sebastien Gagneux
Sebastien Gagneux University of Basel
Elvira Richter
Elvira Richter University of Erlangen-Nuremberg
Daniela M. Cirillo
Daniela M. Cirillo Vita-Salute San Raffaele University
Derrick W. Crook
Derrick W. Crook University of Oxford
Philip Supply
Philip Supply Institut Pasteur
Sonia Borrell
Sonia Borrell Swiss Tropical and Public Health Institute
Helen Cox
Helen Cox University of Cape Town
Robin M. Warren
Robin M. Warren Stellenbosch University
Julian Parkhill
Julian Parkhill University of Cambridge

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