ArticlemBio2012
De novo assembly of the Pneumocystis jirovecii genome from a single bronchoalveolar lavage fluid specimen from a patient.
Article in mBio, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 67 papers.
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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.
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Who cites it
67 citing papers in PubMed, 112 citations in OpenAlex.
- Evolving spectrum of Pneumocystis host specificity, genetic diversity, and evolution.FEMS microbiology reviews · 2025Review
- Metabolic modelling as a powerful tool to identify critical components of Pneumocystis growth medium.PLoS computational biology · 2024Article
- Retracing the evolution ofMicrobiology and molecular biology reviews : MMBR · 2024Review
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- Precision-cut lung slices as anmBio · 2024Article
- Axenic Long-Term Cultivation ofJournal of fungi (Basel, Switzerland) · 2023Article
- Analysis of Pneumocystis Transcription Factor Evolution and Implications for Biology and Lifestyle.mBio · 2023Article
- Apparent Absence of Selective Pressure on Pneumocystis jirovecii Organisms in Patients with Prior Methotrexate Exposure.Antimicrobial agents and chemotherapy · 2022Article
- Targeted NGS-Based Analysis ofJournal of fungi (Basel, Switzerland) · 2022Article
- RNA Polymerase II Transcription inInternational journal of molecular sciences · 2022Article
- Highly ConservedAntimicrobial agents and chemotherapy · 2022Article
- Transmission and Colonization ofJournal of fungi (Basel, Switzerland) · 2021Review
- Selection ofJournal of fungi (Basel, Switzerland) · 2021Article
- Fungal Genomics in Respiratory Medicine: What, How and When?Mycopathologia · 2021Review
- FunOrder: A robust and semi-automated method for the identification of essential biosynthetic genes through computational molecular co-evolution.PLoS computational biology · 2021Article
- Pneumocystis Mating-Type Locus and Sexual Cycle during Infection.Microbiology and molecular biology reviews : MMBR · 2021Review
- Genomic insights into the host specific adaptation of the Pneumocystis genus.Communications biology · 2021Article
- The Promise of Lung Organoids for Growth and Investigation ofFrontiers in fungal biology · 2021Article
- Diagnosing Pneumocystis jirovecii pneumonia: A review of current methods and novel approaches.Medical mycology · 2020Review
- A chromosome-scale assembly of the smallest Dothideomycete genome reveals a unique genome compaction mechanism in filamentous fungi.BMC genomics · 2020Article
7 more citing papers are in PubMed but not listed here.
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
unlabelledPneumocystis jirovecii is a fungus that causes severe pneumonia in immunocompromised patients. However, its study is hindered by the lack of an in vitro culture method. We report here the genome of P. jirovecii that was obtained from a single bronchoalveolar lavage fluid specimen from a patient. The major challenge was the in silico sorting of the reads from a mixture representing the different organisms of the lung microbiome. This genome lacks virulence factors and most amino acid biosynthesis enzymes and presents reduced GC content and size. Together with epidemiological observations, these features suggest that P. jirovecii is an obligate parasite specialized in the colonization of human lungs, which causes disease only in immune-deficient individuals. This genome sequence will boost research on this deadly pathogen. IMPORTANCE: Pneumocystis pneumonia is a major cause of mortality in patients with impaired immune systems. The availability of the P. jirovecii genome sequence allows new analyses to be performed which open avenues to solve critical issues for this deadly human disease. The most important ones are (i) identification of nutritional supplements for development of culture in vitro, which is still lacking 100 years after discovery of the pathogen; (ii) identification of new targets for development of new drugs, given the paucity of present treatments and emerging resistance; and (iii) identification of targets for development of vaccines.
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Registered trials
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.