Molecular epidemiologic analysis of a Pneumocystis pneumonia outbreak among renal transplant patients

Urabe, Naohisa; Ishii, Yoshikazu; Hyodo, Yusuke; Aoki, Kotaro; Yoshizawa, Sadako; Saga, Tomoo; Murayama, Somay Yamagata; Sakai, Kanae; Homma, Sakae; Tateda, Kazuhiro

doi:10.1016/j.cmi.2015.12.017

Cited by 13 publications

(11 citation statements)

References 32 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Although our study revealed new features in P. jirovecii typing, it did not provide evidence for or against features such as diploidy or mitochondrial heteroplasmy of P. jirovecii during PCP ( 32 , 36 ). None of our 32 samples exhibited a clear 50/50 allele repartition, which would have suggested heterozygosity, but the presence of heterozygote stages among the described genotypes cannot be entirely ruled out.…”

Section: Discussioncontrasting

confidence: 87%

Added Value of Next-Generation Sequencing for Multilocus Sequence Typing Analysis of aPneumocystis jiroveciiPneumonia Outbreak1

Charpentier¹,

Garnaud²,

Wintenberger³

et al. 2017

Emerg. Infect. Dis.

View full text Add to dashboard Cite

Pneumocystis jirovecii is a major threat for immunocompromised patients, and clusters of pneumocystis pneumonia (PCP) have been increasingly described in transplant units during the past decade. Exploring an outbreak transmission network requires complementary spatiotemporal and strain-typing approaches. We analyzed a PCP outbreak and demonstrated the added value of next-generation sequencing (NGS) for the multilocus sequence typing (MLST) study of P. jirovecii strains. Thirty-two PCP patients were included. Among the 12 solid organ transplant patients, 5 shared a major and unique genotype that was also found as a minor strain in a sixth patient. A transmission map analysis strengthened the suspicion of nosocomial acquisition of this strain for the 6 patients. NGS-MLST enables accurate determination of subpopulation, which allowed excluding other patients from the transmission network. NGS-MLST genotyping approach was essential to deciphering this outbreak. This innovative approach brings new insights for future epidemiologic studies on this uncultivable opportunistic fungus.

show abstract

Section: Discussioncontrasting

confidence: 87%

Added Value of Next-Generation Sequencing for Multilocus Sequence Typing Analysis of aPneumocystis jiroveciiPneumonia Outbreak1

Charpentier¹,

Garnaud²,

Wintenberger³

et al. 2017

Emerg. Infect. Dis.

View full text Add to dashboard Cite

show abstract

“…Despite the difficulty in using NGS for P. jirovecii whole-genome sequencing, NGS was applied successfully in three studies for targeted sequencing of several commonly used genetic markers for P. jirovecii, including mtLSU, ITS2, dhfr, cob, sod, and ␤-tub (379)(380)(381). In these studies, three or four genetic loci from different clinical samples were amplified by PCR, pooled after barcoding, and then subjected to NGS.…”

Section: Epidemiology Of Pneumocystis Methods For Molecular Typingmentioning

confidence: 99%

A Molecular Window into the Biology and Epidemiology of Pneumocystis spp

2018

View full text Add to dashboard Cite

, a unique atypical fungus with an elusive lifestyle, has had an important medical history. It came to prominence as an opportunistic pathogen that not only can cause life-threatening pneumonia in patients with HIV infection and other immunodeficiencies but also can colonize the lungs of healthy individuals from a very early age. The genus includes a group of closely related but heterogeneous organisms that have a worldwide distribution, have been detected in multiple mammalian species, are highly host species specific, inhabit the lungs almost exclusively, and have never convincingly been cultured, making a fascinating but difficult-to-study organism. Improved molecular biologic methodologies have opened a new window into the biology and epidemiology of. Advances include an improved taxonomic classification, identification of an extremely reduced genome and concomitant inability to metabolize and grow independent of the host lungs, insights into its transmission mode, recognition of its widespread colonization in both immunocompetent and immunodeficient hosts, and utilization of strain variation to study drug resistance, epidemiology, and outbreaks of infection among transplant patients. This review summarizes these advances and also identifies some major questions and challenges that need to be addressed to better understand biology and its relevance to clinical care.

show abstract

“…Recently, few studies have been published using NGS amplicon analysis for P. jirovecii outbreak investigations. In 2016, Urabe et al [89] published an outbreak investigation study using a MLST scheme on four loci: B-tubulin, 26S, SOD, and CYB. The MLST interpretation was limited by the overlapping of certain bases.…”

Section: Next-generation Sequencing (Ngs)mentioning

confidence: 99%

Genotyping Pneumocystis jirovecii: Impacting Our Understanding of Interhuman Transmission

Gits-Muselli¹,

Bretagne²,

Alanio³

2019

obm genet

View full text Add to dashboard Cite

Pneumocystis jirovecii is an atypical fungus transmitted via the airborne route between humans. This fungus is exclusively associated with humans and almost each individual has encountered it at least once before reaching the age of two. P. jirovecii can be cleared and spontaneously resolutive in immunocompetent, whereas it can be responsible for severe Pneumocystis pneumonia (PCP) in immunocompromised patients. In the next decades, the putative increase of the population of immunocompromised patients is likely to lead to the rise of PCP infections. The detection of low fungal loads has been improved with the advances of molecular technologies and polymerase chain reaction (PCR) assays. This improvement in detection raised several questions. Is PCP consecutive of a persistent colonizing strain multiplication or acquisition of a new one? What is the variety of strains in PCP and non-PCP patients? Are outbreaks due to a specific strain? Genotyping approaches could bring some answers. In this review, we reviewed the main typing methods developed

show abstract

Molecular epidemiologic analysis of a Pneumocystis pneumonia outbreak among renal transplant patients

Cited by 13 publications

References 32 publications

Added Value of Next-Generation Sequencing for Multilocus Sequence Typing Analysis of aPneumocystis jiroveciiPneumonia Outbreak1

Added Value of Next-Generation Sequencing for Multilocus Sequence Typing Analysis of aPneumocystis jiroveciiPneumonia Outbreak1

A Molecular Window into the Biology and Epidemiology of Pneumocystis spp

Genotyping Pneumocystis jirovecii: Impacting Our Understanding of Interhuman Transmission

Contact Info

Product

Resources

About