Detection and identification of fungi in bronchoalveolar lavage
fluid from immunocompromised patients using panfungal PCR

J 2019

Detection and identification of fungi in bronchoalveolar lavage fluid from immunocompromised patients using panfungal PCR

ŘÍČNÁ, Dita, Martina LENGEROVÁ, Matěj BEZDÍČEK, Iva KOCMANOVÁ, Lubos DRGONA et. al.

Basic information

Original name

Detection and identification of fungi in bronchoalveolar lavage fluid from immunocompromised patients using panfungal PCR

Authors

ŘÍČNÁ, Dita (203 Czech Republic, belonging to the institution), Martina LENGEROVÁ (203 Czech Republic, belonging to the institution), Matěj BEZDÍČEK (203 Czech Republic, belonging to the institution), Iva KOCMANOVÁ (203 Czech Republic), Lubos DRGONA (703 Slovakia), Barbora WEINBERGEROVÁ (203 Czech Republic, belonging to the institution), Jiří MAYER (203 Czech Republic, belonging to the institution) and Zdeněk RÁČIL (203 Czech Republic, belonging to the institution)

Edition

Folia microbiologica, Dordrecht, Springer, 2019, 0015-5632

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

30204 Oncology

Country of publisher

Netherlands

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

Impact factor

Impact factor: 1.730

RIV identification code

RIV/00216224:14110/19:00108353

Organization unit

Faculty of Medicine

DOI

http://dx.doi.org/10.1007/s12223-018-00669-w

UT WoS

000468847600014

Keywords in English

fungal pneumonia

Abstract

V originále

Rapid diagnostics of fungal pneumonia and initiation of appropriate therapy are still challenging. In this study, we used two panfungal assays to test bronchoalveolar lavage fluid (BALF) samples to prove their ability to confirm invasive fungal disease diagnosis and identify causative agents. Two methods targeting different fungal rDNA regions were used, and the obtained PCR products were sequenced directly or after cloning. In total, 106 BALF samples from 104 patients were tested. After sequencing, we obtained 578 sequences. Four hundred thirty-seven sequences were excluded from further analysis due to duplication (n=335) or similarity with sequences detected in the extraction control sample (n=102); 141 unique sequences were analyzed. Altogether, 23/141 (16%) of the fungi detected belonged to pathogenic species, and 63/141 (45%) were identified as various yeasts; a variety of environmental or very rare fungal human pathogens represented 29/141 (21%) of the total and 26/141 (18%) were described as uncultured fungus. Panfungal PCR detected fungal species that would be missed by specific methods in only one case (probable cryptococcosis). Panfungal PCR followed by sequencing has limited use for testing BALF samples due to frequent commensal or environmental fungal species pickup.

Links

MUNI/A/1105/2018, interní kód MU

Name: Nové přístupy ve výzkumu, diagnostice a terapii hematologických malignit VI (Acronym: VýDiTeHeMA VI)

Investor: Masaryk University, Category A

TE02000058, research and development project

Name: Centrum kompetence pro molekulární diagnostiku a personalizovanou medicínu (Acronym: MOLDIMED)

Investor: Technology Agency of the Czech Republic

Citovat

ŘÍČNÁ, Dita, Martina LENGEROVÁ, Matěj BEZDÍČEK, Iva KOCMANOVÁ, Lubos DRGONA, Barbora WEINBERGEROVÁ, Jiří MAYER and Zdeněk RÁČIL. Detection and identification of fungi in bronchoalveolar lavage fluid from immunocompromised patients using panfungal PCR. Folia microbiologica. Dordrecht: Springer, 2019, vol. 64, No 3, p. 421-428. ISSN 0015-5632. Available from: https://dx.doi.org/10.1007/s12223-018-00669-w.

@article{1545498,
   author = {Říčná, Dita and Lengerová, Martina and Bezdíček, Matěj and Kocmanová, Iva and Drgona, Lubos and Weinbergerová, Barbora and Mayer, Jiří and Ráčil, Zdeněk},
   article_location = {Dordrecht},
   article_number = {3},
   doi = {http://dx.doi.org/10.1007/s12223-018-00669-w},
   keywords = {fungal pneumonia},
   language = {eng},
   issn = {0015-5632},
   journal = {Folia microbiologica},
   title = {Detection and identification of fungi in bronchoalveolar lavage fluid from immunocompromised patients using panfungal PCR},
   url = {http://dx.doi.org/10.1007/s12223-018-00669-w},
   volume = {64},
   year = {2019}
}

TY  - JOUR
ID  - 1545498
AU  - Říčná, Dita - Lengerová, Martina - Bezdíček, Matěj - Kocmanová, Iva - Drgona, Lubos - Weinbergerová, Barbora - Mayer, Jiří - Ráčil, Zdeněk
PY  - 2019
TI  - Detection and identification of fungi in bronchoalveolar lavage fluid from immunocompromised patients using panfungal PCR
JF  - Folia microbiologica
VL  - 64
IS  - 3
SP  - 421-428
EP  - 421-428
PB  - Springer
SN  - 00155632
KW  - fungal pneumonia
UR  - http://dx.doi.org/10.1007/s12223-018-00669-w
L2  - http://dx.doi.org/10.1007/s12223-018-00669-w
N2  - Rapid diagnostics of fungal pneumonia and initiation of appropriate therapy are still challenging. In this study, we used two panfungal assays to test bronchoalveolar lavage fluid (BALF) samples to prove their ability to confirm invasive fungal disease diagnosis and identify causative agents. Two methods targeting different fungal rDNA regions were used, and the obtained PCR products were sequenced directly or after cloning. In total, 106 BALF samples from 104 patients were tested. After sequencing, we obtained 578 sequences. Four hundred thirty-seven sequences were excluded from further analysis due to duplication (n=335) or similarity with sequences detected in the extraction control sample (n=102); 141 unique sequences were analyzed. Altogether, 23/141 (16%) of the fungi detected belonged to pathogenic species, and 63/141 (45%) were identified as various yeasts; a variety of environmental or very rare fungal human pathogens represented 29/141 (21%) of the total and 26/141 (18%) were described as uncultured fungus. Panfungal PCR detected fungal species that would be missed by specific methods in only one case (probable cryptococcosis). Panfungal PCR followed by sequencing has limited use for testing BALF samples due to frequent commensal or environmental fungal species pickup.
ER  -

ŘÍČNÁ, Dita, Martina LENGEROVÁ, Matěj BEZDÍČEK, Iva KOCMANOVÁ, Lubos DRGONA, Barbora WEINBERGEROVÁ, Jiří MAYER and Zdeněk RÁČIL. Detection and identification of fungi in bronchoalveolar lavage fluid from immunocompromised patients using panfungal PCR. \textit{Folia microbiologica}. Dordrecht: Springer, 2019, vol.~64, No~3, p.~421-428. ISSN~0015-5632. Available from: https://dx.doi.org/10.1007/s12223-018-00669-w.

Detailed Information on Publication Record