Evidence map›Paper›PMID 29367657›Full record

ArticleNature communications2018

Phylogenomics and antimicrobial resistance of the leprosy bacillus Mycobacterium leprae.

Andrej Benjak, Charlotte Avanzi, Pushpendra Singh, Chloé Loiseau, Selfu Girma, Philippe Busso, Amanda N Brum Fontes, Yuji Miyamoto, Masako Namisato, Kidist Bobosha and 33 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 59 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
59citing papers in PubMed, 1 pooled it
9.8field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

59 citing papers in PubMed, 1 synthesis or guideline pooled it, 122 citations in OpenAlex.

  1. Pooled it
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  12. Unlocking Opportunities forACS infectious diseases · 2024
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  13. Review
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  17. Hansen's disease (leprosy) in Japan, 1947-2020: an epidemiologic study during the declining phase to elimination.International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases · 2022
    Article
  18. Review
  19. Ancient DNA confirmation of lepromatous leprosy in a skeleton with concurrent osteosarcoma, excavated from the leprosarium of St. Mary Magdalen in Winchester, Hants., UK.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2022
    Article
  20. The intracellular pathogenLife science alliance · 2022
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

43 authors at 18 institutions in 12 countries.

Andrej BenjakGlobal Health Institute, Ecole Polytechnique Fédérale de Lausanne, Lausanne, 1015, Switzerland.ORCID http://orcid.org/0000-0003-4522-6575
Charlotte AvanziGlobal Health Institute, Ecole Polytechnique Fédérale de Lausanne, Lausanne, 1015, Switzerland.
Pushpendra SinghGlobal Health Institute, Ecole Polytechnique Fédérale de Lausanne, Lausanne, 1015, Switzerland.
Chloé LoiseauGlobal Health Institute, Ecole Polytechnique Fédérale de Lausanne, Lausanne, 1015, Switzerland.ORCID http://orcid.org/0000-0003-4889-2784
Selfu GirmaArmauer Hansen Research Institute, PO Box 1005, Addis Ababa, 1000, Ethiopia.
Philippe BussoGlobal Health Institute, Ecole Polytechnique Fédérale de Lausanne, Lausanne, 1015, Switzerland.
Amanda N Brum FontesLaboratory of Molecular Biology Applied to Mycobacteria, Oswaldo Cruz Institute, Fiocruz, Rio de Janeiro, 21040-360, Brazil.
Yuji MiyamotoLeprosy Research Center, National Institute of Infectious Diseases, Higashimurayama, Tokyo, 189-0002, Japan.
Masako NamisatoAUEN Polyclinic, Nakatomi, Tokorozawa, 359-0002, Saitama Prefecture, Japan.
Kidist BoboshaArmauer Hansen Research Institute, PO Box 1005, Addis Ababa, 1000, Ethiopia.
Claudio G SalgadoLaboratório de Dermato-Imunologia, Instituto de Ciências Biológicas, Universidade Federal do Pará, Marituba, 67200-000, Pará, Brazil.
Moisés B da SilvaLaboratório de Dermato-Imunologia, Instituto de Ciências Biológicas, Universidade Federal do Pará, Marituba, 67200-000, Pará, Brazil.
Raquel C BouthLaboratório de Dermato-Imunologia, Instituto de Ciências Biológicas, Universidade Federal do Pará, Marituba, 67200-000, Pará, Brazil.
Marco A C FradeDermatology Division, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto, 14049-900, São Paulo, Brazil.
Fred Bernardes FilhoDermatology Division, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto, 14049-900, São Paulo, Brazil.
Josafá G BarretoSpatial Epidemiology Laboratory, Federal University of Pará, Castanhal, 68746-360, Pará, Brazil.
José A C NeryLeprosy Laboratory, Oswaldo Cruz Institute, Fiocruz, Rio de Janeiro, 21040-900, Brazil.
Samira Bührer-SékulaTropical Pathology and Public Health Institute, Federal University of Goiás, Goiânia, 74605-050, Brazil.
Andréanne LupienGlobal Health Institute, Ecole Polytechnique Fédérale de Lausanne, Lausanne, 1015, Switzerland.
Abdul R Al-SamieMinistry of Health and Population, c/o National Leprosy Elimination Programme, Taiz, Yemen.
Yasin Al-QubatiMinistry of Health and Population, c/o National Leprosy Elimination Programme, Taiz, Yemen.
Abdul S AlkubatiMinistry of Health and Population, c/o National Leprosy Elimination Programme, Taiz, Yemen.
Gisela BretzelDivision of Infectious Diseases and Tropical Medicine, University Hospital, Ludwig-Maximilians-University, 80802, Munich, Germany.
Lucio Vera-CabreraLaboratorio Interdisciplinario de Investigación Dermatológica, Servicio de Dermatología, Hospital Universitario, Universidad Autónoma de Nuevo León, 64460, Monterrey, Mexico.
Fatoumata SakhoProgramme National Lèpre de Guinée, Conakry, Guinea.
Christian R JohnsonCentre Interfacultaire de Formation et de Recherche en Environnement pour le Développement Durable, University of Abomey-Calavi, 03 BP 1463, Jericho, Cotonou, Benin.
Mamoudou KodioCentre National d'Appui à la Lutte Contre la Maladie, Bamako, Mali.
Abdoulaye FombaCentre National d'Appui à la Lutte Contre la Maladie, Bamako, Mali.
Samba O SowCentre National d'Appui à la Lutte Contre la Maladie, Bamako, Mali.
Moussa GadoProgramme National de Lutte contre la Lèpre, Ministry of Public Health, Niamey, Niger.
Ousmane KonatéProgramme National de Lutte contre la Lèpre, Ministry of Public Health, Niamey, Niger.
Mariane M A StefaniTropical Pathology and Public Health Institute, Federal University of Goiás, Goiânia, 74605-050, Brazil.
Gerson O PennaTropical Medicine Centre, University of Brasília, Fiocruz, Brasília, 70910-900, Brazil.
Philip N SuffysLaboratory of Molecular Biology Applied to Mycobacteria, Oswaldo Cruz Institute, Fiocruz, Rio de Janeiro, 21040-360, Brazil.
Euzenir Nunes SarnoLeprosy Laboratory, Oswaldo Cruz Institute, Fiocruz, Rio de Janeiro, 21040-900, Brazil.
Milton O MoraesLeprosy Laboratory, Oswaldo Cruz Institute, Fiocruz, Rio de Janeiro, 21040-900, Brazil.
Patricia S RosaLauro Souza Lima Institute, Bauru, 17034-971, São Paulo, Brazil.
Ida M F Dias BaptistaLauro Souza Lima Institute, Bauru, 17034-971, São Paulo, Brazil.
John S SpencerDepartment of Microbiology, Immunology, and Pathology, Colorado State University, Fort Collins, CO, 80523-1682, USA.
Abraham AseffaArmauer Hansen Research Institute, PO Box 1005, Addis Ababa, 1000, Ethiopia.ORCID http://orcid.org/0000-0002-8028-1150
Masanori MatsuokaLeprosy Research Center, National Institute of Infectious Diseases, Higashimurayama, Tokyo, 189-0002, Japan.
Masanori KaiLeprosy Research Center, National Institute of Infectious Diseases, Higashimurayama, Tokyo, 189-0002, Japan.
Stewart T ColeGlobal Health Institute, Ecole Polytechnique Fédérale de Lausanne, Lausanne, 1015, Switzerland. stewart.cole@epfl.ch.
École Polytechnique Fédérale de Lausanne · CHFundação Oswaldo Cruz · BRUniversidade Federal do Pará · BRArmauer Hansen Research Institute · ETCentre Pour le Développement des Vaccins-Mali · MLNational Institute of Infectious Diseases · JPInstituto Lauro de Souza Lima · BRNational Hospital Niamey · NEUniversidade de São Paulo · BRUniversidade Federal de Goiás · BRColorado State University · USLudwig-Maximilians-Universität München · DEMaharaja Sayajirao University of Baroda · INSaitama Prefecture · JPSwiss Tropical and Public Health Institute · CHUniversidad Autónoma de Nuevo León · MXUniversidade de Brasília · BRUniversité d'Abomey-Calavi · BJ

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Leprosy is a chronic human disease caused by the yet-uncultured pathogen Mycobacterium leprae. Although readily curable with multidrug therapy (MDT), over 200,000 new cases are still reported annually. Here, we obtain M. leprae genome sequences from DNA extracted directly from patients' skin biopsies using a customized protocol. Comparative and phylogenetic analysis of 154 genomes from 25 countries provides insight into evolution and antimicrobial resistance, uncovering lineages and phylogeographic trends, with the most ancestral strains linked to the Far East. In addition to known MDT-resistance mutations, we detect other mutations associated with antibiotic resistance, and retrace a potential stepwise emergence of extensive drug resistance in the pre-MDT era. Some of the previously undescribed mutations occur in genes that are apparently subject to positive selection, and two of these (ribD, fadD9) are restricted to drug-resistant strains. Finally, nonsense mutations in the nth excision repair gene are associated with greater sequence diversity and drug resistance.

Indexed as

PhylogenyAnti-Infective AgentsCodon, NonsenseDNA, BacterialDrug Resistance, BacterialGenome, BacterialHumansMicrobial Sensitivity TestsMycobacterium lepraeAnti-Infective AgentsCodon, NonsenseDNA, Bacterial

Identifiers

PMID29367657
PMCPMC5783932
OpenAlexW2791094870

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.