240
Views
0
CrossRef citations to date
0
Altmetric
Review Article

Fusarium and Neocosmospora: fungal priority pathogens in laboratory diagnosis

, , &
Received 12 Oct 2023, Accepted 11 Jun 2024, Published online: 01 Jul 2024

References

  • Al-Hatmi AM, Hagen F, Menken SB, Meis JF, Hoog GSD. 2016. Global molecular epidemiology and genetic diversity of Fusarium, a significant emerging group of human opportunists from 1958 to 2015. Emerg Microbes Infect. 5(12):e124. doi: 10.1038/emi.2016.126.
  • Al-Hatmi AM, Normand AC, Diepeningen AD, Van Hendrickx M, Hoog GS, De, Piarroux R. 2015. Rapid identification of clinical members of Fusarium fujikuroi complex using MALDI-TOF MS. Future Microbiol. 10(12):1939–1952. doi: 10.2217/fmb.15.108.
  • Al-Hatmi AMS, Meis JF, Hoog GS 2016. Fusarium: molecular diversity and intrinsic drug resistance. PLOS Pathog. 12(4):e1005464. doi: 10.1371/journal.ppat.1005464.
  • Backx M, White PL, Barnes RA. 2014. New fungal diagnostics. Br J Hosp Med. 75(5):271–276. doi: 10.12968/hmed.2014.75.5.271.
  • Bacorn C, Luu KY, Li JY. 2022. Fungal keratitis: diagnostic characteristics of the potassium hydroxide preparation with calcofluor white in northern California. Cornea. 41(3):347–352. doi: 10.1097/ICO.0000000000002907.
  • Bharathi MJ, Ramakrishnan R, Meenakshi R, Mittal S, Shivakumar C, Srinivasan M. 2006. Microbiological diagnosis of infective keratitis: comparative evaluation of direct microscopy and culture results. Br J Ophthalmol. 90(10):1271–1276. doi: 10.1136/bjo.2006.096230.
  • Broutin A, Bigot J, Senghor Y, Moreno-Sabater A, Guitard J, Hennequin C. 2020. In vitro susceptibility of Fusarium to isavuconazole. Antimicrob Agents Chemother. 64(2):1–5. doi: 10.1128/AAC.01621-19.
  • Bukkems LMP, Dommelen L, van Regis M, Heuvel E, van den, Nieuwenhuizen L. 2023. The use of galactomannan antigen assays for the diagnosis of invasive pulmonary aspergillosis in the hematological patient: a systematic review and meta-analysis. J Fungi. 9(6):674. doi: 10.3390/jof9060674.
  • Challa S, Sistla R. 2022. Histopathology diagnosis of filamentous fungi. Curr Fungal Infect Rep. 16(1):17–32. doi: 10.1007/s12281-021-00428-4.
  • Chatterjee S. 2007. Evaluation of impression smears in the diagnosis of fungal keratitis. Indian J Ophthalmol. 55(5):403–404. doi: 10.4103/0301-4738.33843.
  • Chen H, Yin Y, Gao H, Guo Y, Dong Z, Wang X, Zhang Y, Yang S, Peng Q, Liu Y, et al. 2020. Clinical utility of in-house metagenomic next-generation sequencing for the diagnosis of lower respiratory tract infections and analysis of the host immune response. Clin Infect Dis. 71(Suppl 4):S416–S426. doi: 10.1093/cid/ciaa1516.
  • Chethana KWT, Manawasinghe IS, Hurdeal VG, Bhunjun CS, Appadoo MA, Gentekaki E, Raspé O, Promputtha I, Hyde KD. 2021. What are fungal species and how to delineate them? Fungal Divers. 109(1):1–25. doi: 10.1007/s13225-021-00483-9.
  • Crous PW, Lombard L, Sandoval-Denis M, Seifert KA, Schroers H-J, Chaverri P, Gené J, Guarro J, Hirooka Y, Bensch K, et al. 2021. Fusarium: more than a node or a foot-shaped basal cell. Stud Mycol. 98:100116. doi: 10.1016/j.simyco.2021.100116.
  • Dasgupta T, Sahu J. 2012. Origins of the KOH technique. Clin Dermatol. 30(2):238–242. doi: 10.1016/j.clindermatol.2011.11.020.
  • Dellière S, Guitard J, Sabou M, Angebault C, Moniot M, Cornu M, Hamane S, Bougnoux M-E, Imbert S, Pasquier G, et al. 2022. Detection of circulating DNA for the diagnosis of invasive fusariosis: retrospective analysis of 15 proven cases. Med Mycol. 60(9):myac049. doi: 10.1093/mmy/myac049.
  • Gómez-Velásquez JC, Loaiza-Díaz N, Hernández GN, Lima N, Mesa-Arango AC. 2020. Development and validation of an in-house library for filamentous fungi identification by MALDI-TOF MS in a clinical laboratory in Medellin (Colombia). Microorganisms. 8(9):1362. doi: 10.3390/microorganisms8091362.
  • Gómez-Velásquez JC, Mojica-Figueroa IL, Santos C, Lima N, Mesa-Arango AC. 2021. MALDI-TOF MS: foundations and a practical approach to the clinically relevant filamentous fungi identification. Curr Fungal Infect Rep. 15(4):162–170. doi: 10.1007/s12281-021-00423-9.
  • Goshia T, Aralar A, Wiederhold N, Jenks JD, Mehta SR, Karmakar A, E S M, Sharma A, Sun H, Kebadireng R, et al. 2024. Universal digital high resolution melt for the detection of pulmonary mold infections. J Clin Microbiol. 62(6):e0147623. doi: 10.1128/jcm.01476-23.
  • Guarner J, Brandt ME. 2011. Histopathologic diagnosis of fungal infections in the 21st century. Clin Microbiol Rev. 24(2):247–280. doi: 10.1128/CMR.00053-10.
  • Guevara-Suarez M, Cano-Lira JF, Cepero de García MC, Sopo L, De Bedout C, Cano LE, García AM, Motta A, Amézquita A, Cárdenas M, et al. 2016. Genotyping of Fusarium isolates from onychomycoses in Colombia: detection of two new species within the Fusarium solani species complex and in vitro antifungal susceptibility testing. Mycopathologia. 181:165–174.
  • Herkert PF, Al-Hatmi AMS, Oliveira Salvador GLD, Muro MD, Pinheiro RL, Nucci M, Queiroz-Telles F, Hoog GSD, Meis JF. 2019. Molecular characterization and antifungal susceptibility of clinical Fusarium species from Brazil. Front Microbiol. 10:737. doi: 10.3389/fmicb.2019.00737.
  • Hoenigl M, Salmanton-García J, Walsh TJ, Nucci M, Neoh CF, Jenks JD, Lackner M, Sprute R, Al-Hatmi AMS, Bassetti M, et al. 2021. Global guideline for the diagnosis and management of rare mould infections: an initiative of the European Confederation of Medical Mycology in Cooperation with the International Society for Human and Animal Mycology and the American Society for Microbiology. Lancet Infect Dis. 21:e246–e257.
  • Hoffman JJ, Yadav R, Sanyam S, Das Chaudhary P, Roshan A, Singh SK, Arunga S, Hu VH, Macleod D, Leck A, et al. 2022. Diagnosis of fungal keratitis in low-income countries: evaluation of smear microscopy, culture, and in vivo confocal microscopy in Nepal. J Fungi. 8(9):955. doi: 10.3390/jof8090955.
  • Hou TY, Chiang-Ni C, Teng SH. 2019. Current status of MALDI-TOF mass spectrometry in clinical microbiology. J Food Drug Anal. 27(2):404–414. doi: 10.1016/j.jfda.2019.01.001.
  • Huang TE, Ou JH, Hung N, Yeh LK, Ma DHK, Tan HY, Chen HC, Hung KH, Fan YC, Sun PL, et al. 2022. Fusarium keratitis in Taiwan: molecular identification, antifungal susceptibilities, and clinical features. J Fungi. 8(5):476. doi: 10.3390/jof8050476.
  • Infantino A, Grottoli A, Bergamaschi V, Oufensou S, Burgess LW, Balmas V. 2023. FusaHelp: a web site program for the morphological identification of Fusarium species. J Plant Pathol. 105(2):429–436. doi: 10.1007/s42161-023-01349-6.
  • Jenks JD, Miceli MH, Prattes J, Mercier T, Hoenigl M. 2020. The Aspergillus lateral flow assay for the diagnosis of invasive aspergillosis: an update. Curr Fungal Infect Rep. 14(4):378–383. doi: 10.1007/s12281-020-00409-z.
  • Kaufman L, Standard PG, Jalbert M, Kraft DE. 1997. Immunohistologic identification of Aspergillus spp. and other hyaline fungi by using polyclonal fluorescent antibodies. J Clin Microbiol. 35(9):2206–2209. doi: 10.1128/jcm.35.9.2206-2209.1997.
  • Khot PD, Fredrick DN. 2009. PCR-based diagnosis of human fungal infections. Expert Rev Anti Infect Ther. 7(10):1201–1221. doi: 10.1586/eri.09.104.
  • Kidd SE, Abdolrasouli A, Hagen F. 2023. Fungal nomenclature: managing change is the name of the game. Open Forum Infect Dis. 10(1):ofac559. doi: 10.1093/ofid/ofac559.
  • Kidd SE, Chen SCA, Meyer W, Halliday CL. 2019. A new age in molecular diagnostics for invasive fungal disease: are we ready? Front Microbiol. 10:2903. doi: 10.3389/fmicb.2019.02903.
  • Larkin PMK, Lawson KL, Contreras DA, Le CQ, Trejo M, Realegeno S, Hilt EE, Chandrasekaran S, Garner OB, Fishbein GA, et al. 2020. Amplicon-based next-generation sequencing for detection of fungi in formalin-fixed, paraffin-embedded tissues: correlation with histopathology and clinical applications. J Mol Diagn. 22(10):1287–1293. doi: 10.1016/j.jmoldx.2020.06.017.
  • Lass-Flörl C, Mutschlechner W, Aigner M, Grif K, Marth C, Girschikofsky M, Grander W, Greil R, Russ G, Cerkl P, et al. 2013. Utility of PCR in diagnosis of invasive fungal infections: real-life data from a multicenter study. J Clin Microbiol. 51(3):863–868. doi: 10.1128/JCM.02965-12.
  • Leal SM, Rodino KG, Fowler WC, Gilligan PH. 2021. Practical guidance for clinical microbiology laboratories: diagnosis of ocular infections. Clin Microbiol Rev. 34(3):e0007019. doi: 10.1128/CMR.00070-19.
  • Lee H, Oh J, Sung GH, Koo J, Lee MH, Lee HJ, Cho S, Il Choi JS, Park YJ, Shin JH, et al. 2021. Multilaboratory evaluation of the MALDI-TOF mass spectrometry system, MicroIDSys Elite, for the identification of medically important filamentous fungi. Mycopathologia. 186(1):15–26. doi: 10.1007/s11046-020-00507-z.
  • Lee J, Jeong H, Kang HG, Park J, Choi EY, Lee CS, Byeon SH, Kim M. 2023. Rapid pathogen detection in infectious uveitis using nanopore metagenomic next-generation sequencing: a preliminary study. Ocul Immunol Inflamm. 32(4):463–469. doi: 10.1080/09273948.2023.2173243.
  • Leslie JF, Summerell BA. 2006. The Fusarium laboratory manual. Iowa, USA: Blackwell Publishing.
  • Liu HY, Hopping GC, Vaidyanathan U, Ronquillo YC, Hoopes PC, Moshirfar M. 2019. Polymerase chain reaction and its application in the diagnosis of infectious keratitis. Medical hypothesis. Med Hypothesis Discov Innov Ophthalmol. 8(3):152–155.
  • Liu K, Howell DN, Perfect JR, Schell WA. 1998. Morphologic criteria for the preliminary identification of Fusarium, Paecilomyces, and Acremonium species by histopathology. Am J Clin Pathol. 109(1):45–54. doi: 10.1093/ajcp/109.1.45.
  • Mendonça A, Santos H, Franco-Duarte R, Sampaio P. 2022. Fungal infections diagnosis – past, present and future. Res Microbiol. 173(3):103915. doi: 10.1016/j.resmic.2021.103915.
  • Mitchell SL, Simner PJ. 2019. Next-generation sequencing in clinical microbiology: are we there yet? Clin Lab Med. 39(3):405–418. doi: 10.1016/j.cll.2019.05.003.
  • Muhammed M, Coleman JJ, Carneiro HA, Mylonakis E. 2011. The challenge of managing fusariosis. Virulence. 2(2):91–96. doi: 10.4161/viru.2.2.15015.
  • Muraosa Y, Oguchi M, Yahiro M, Watanabe A, Yaguchi T, Kamei K. 2017. Epidemiological study of Fusarium species causing invasive and superficial fusariosis in Japan. Med Mycol J. 58(1):E5–E13. doi: 10.3314/mmj.16-00024.
  • Najafzadeh MJ, Dolatabadi S, de Hoog S, Esfahani MK, Haghani I, Aghili SR, Ghazvini RD, Rezaei-Matehkolaei A, Abastabar M, Al-Hatmi AMS. 2020. Phylogenetic analysis of clinically relevant Fusarium species in Iran. Mycopathologia. 185(3):515–525. doi: 10.1007/s11046-020-00460-x.
  • Nalim FA, Samuels GJ, Wijesundera RL, Geiser DM. 2011. New species from the Fusarium solani species complex derived from perithecia and soil in the Old World tropics. Mycologia. 103(6):1302–1330. doi: 10.3852/10-307.
  • Nelson PE, Dignani MC, Anaissie EJ. 1994. Taxonomy, biology, and clinical aspects of Fusarium species. Clin Microbiol Rev. 7(4):479–504. doi: 10.1128/CMR.7.4.479-504.1994.
  • Nucci M, Anaissie E. 2023. Invasive fusariosis. Clin Microbiol Rev. 36(4):e0015922. doi: 10.1128/cmr.00159-22.
  • Nucci M, Barreiros G, Reis H, Paixão M, Akiti T, Nouér SA. 2019. Performance of 1,3-beta-D-glucan in the diagnosis and monitoring of invasive fusariosis. Mycoses. 62(7):570–575. doi: 10.1111/myc.12918.
  • Nucci M, Jenks J, Thompson GR, Hoenigl M, Dos Santos MC, Forghieri F, Rico JC, Bonuomo V, López-Soria L, Lass-Flörl C, et al. 2021. Do high MICs predict the outcome in invasive fusariosis? J Antimicrob Chemother. 76(4):1063–1069. doi: 10.1093/jac/dkaa516.
  • O’Donnell K, Al-Hatmi AMS, Aoki T, Brankovics B, Cano-Lira JF, Coleman JJ, de Hoog GS, Di Pietro A, Frandsen RJN, Geiser DM, et al. 2020. No to Neocosmospora: phylogenomic and practical reasons for continued inclusion of the Fusarium solani species complex in the genus Fusarium. mSphere. 5(5):1–7. doi: 10.1128/mSphere.00810-20.
  • Odabasi Z, Mattiuzzi G, Estey E, Kantarjian H, Saeki F, Ridge RJ, Ketchum PA, Finkelman MA, Rex JH, Ostrosky-Zeichner L. 2004. β-D-glucan as a diagnostic adjunct for invasive fungal infections: validation, cutoff development, and performance in patients with acute myelogenous leukemia and myelodysplastic syndrome. Clin Infect Dis. 39(2):199–205. doi: 10.1086/421944.
  • Oliveira dos Santos C, Kolwijck E, Rooij J, van Stoutenbeek R, Visser N, Cheng YY, Santana NTY, Verweij PE, Eggink CA. 2020. Epidemiology and clinical management of Fusarium keratitis in the Netherlands, 2005–2016. Front Cell Infect Microbiol. 10:133. doi: 10.3389/fcimb.2020.00133.
  • Patel R. 2019. A moldy application of MALDI: MALDI-ToF mass spectrometry for fungal identification. J Fungi. 5(1):4. doi: 10.3390/jof5010004.
  • Perfect JR. 2013. Fungal diagnosis: how do we do it and can we do better? Curr Med Res Opin. 29 Suppl 4(sup4):3–11. doi: 10.1185/03007995.2012.761134.
  • Rahn S, Schuck A, Kondakci M, Haas R, Neuhausen N, Pfeffer K, Henrich B. 2016. A novel comprehensive set of fungal Real time PCR assays (fuPCR) for the detection of fungi in immunocompromised haematological patients—a pilot study. Int J Med Microbiol. 306(8):611–623. doi: 10.1016/j.ijmm.2016.10.003.
  • Rathi VM, Thakur M, Sharma S, Khanna R, Garg P. 2017. KOH mount as an aid in the management of infectious keratitis at secondary eye care centre. Br J Ophthalmol. 101(11):1447–1450. doi: 10.1136/bjophthalmol-2017-310241.
  • Rosa PD, Ramirez-Castrillon M, Borges R, Aquino V, Meneghello Fuentefria A, Zubaran Goldani L. 2019. Epidemiological aspects and characterization of the resistance profile of Fusarium spp. in patients with invasive fusariosis. J Med Microbiol. 68(10):1489–1496. doi: 10.1099/jmm.0.001059.
  • Rychert J, Slechta ES, Barker AP, Miranda E, Babady NE, Tang YW, Gibas C, Wiederhold N, Sutton DA, Hanson KE. 2018. Multicenter evaluation of the Vitek MS v3.0 system for the identification of filamentous fungi. J Clin Microbiol. 56(2):1–11. doi: 10.1128/JCM.01353-17.
  • Sandoval-Denis M, Crous PW. 2018. Removing chaos from confusion: assigning names to common human and animal pathogens in Neocosmospora. Persoonia. 41(1):109–129. doi: 10.3767/persoonia.2018.41.06.
  • Scharf S, Bartels A, Kondakci M, Haas R, Pfeffer K, Henrich B. 2021. FuPCR as diagnostic method for the detection of rare fungal pathogens, such as Trichosporon, Cryptococcus and Fusarium. Med Mycol. 59(11):1101–1113. doi: 10.1093/mmy/myab045.
  • Schroers H, Samuels GJ, Zhang N, Short DPG, Juba J, Geiser DM, Samuels GJ, Zhang N, Short DPG. 2016. Epitypification of Fusisporium (Fusarium) solani and its assignment to a common phylogenetic species in the Fusarium solani species complex. Mycologia. 108(4):806–819. doi: 10.3852/15-255.
  • Sharma S, Kunimoto DY, Gopinathan U, Athmanathan S, Garg P, Rao GN. 2002. Evaluation of corneal scraping smear examination methods in the diagnosis of bacterial and fungal keratitis: a survey of eight years of laboratory experience. Cornea. 21(7):643–647. doi: 10.1097/00003226-200210000-00002.
  • Sharma S. 2012. Diagnosis of infectious diseases of the eye. Eye. 26(2):177–184. doi: 10.1038/eye.2011.275.
  • Shigeyasu C, Yamada M, Aoki K, Ishii Y, Tateda K, Yaguchi T, Okajima Y, Hori Y. 2018. Metagenomic analysis for detecting Fusarium solani in a case of fungal keratitis. J Infect Chemother. 24(8):664–668. doi: 10.1016/j.jiac.2017.12.019.
  • Song Y, Liu X, Yang Z, Meng X, Xue R, Yu J, Al-Hatmi AMS, Hoog GS, de, Li R. 2021. Molecular and MALDI-ToF MS differentiation and antifungal susceptibility of prevalent clinical Fusarium species in China. Mycoses. 64(10):1261–1271. doi: 10.1111/myc.13345.
  • Springer J, Walther G, Rickerts V, Hamprecht A, Willinger B, Teschner D, Einsele H, Kurzai O, Loeffler J. 2019. Detection of Fusarium species in clinical specimens by probe-based real-time PCR. J Fungi. 5(4):105. doi: 10.3390/jof5040105.
  • Steenwyk JL, Rokas A, Goldman GH. 2023. Know the enemy and know yourself: addressing cryptic fungal pathogens of humans and beyond. PLOS Pathog. 19(10):e1011704. doi: 10.1371/journal.ppat.1011704.
  • Stein M, Tran V, Nichol KA, Lagacé-Wiens P, Pieroni P, Adam HJ, Turenne C, Walkty AJ, Normand AC, Hendrickx M, et al. 2018. Evaluation of three MALDI-TOF mass spectrometry libraries for the identification of filamentous fungi in three clinical microbiology laboratories in Manitoba, Canada. Mycoses. 61(10):743–753. doi: 10.1111/myc.12800.
  • Tabatabaei SA, Soleimani M, Tabatabaei SM, Beheshtnejad AH, Valipour N, Mahmoudi S. 2020. The use of in vivo confocal microscopy to track treatment success in fungal keratitis and to differentiate between Fusarium and Aspergillus keratitis. Int Ophthalmol. 40(2):483–491. doi: 10.1007/s10792-019-01209-2.
  • Tabatabaei SA, Tabatabaei M, Soleimani M, Tafti ZF. 2018. Fungal keratitis caused by rare organisms. J Curr Ophthalmol. 30(1):91–96. doi: 10.1016/j.joco.2017.08.004.
  • Tekpinar AD, Kalmer A. 2019. Utility of various molecular markers in fungal identification and phylogeny. Nova_Hedwigia. 109(1–2):187–224. doi: 10.1127/nova_hedwigia/2019/0528.
  • Theel ES, Doern CD. 2013. β-D-Glucan testing is important for diagnosis of invasive fungal infections. J Clin Microbiol. 51(11):3478–3483. doi: 10.1128/JCM.01737-13.
  • Tortorano AM, Esposto MC, Prigitano A, Grancini A, Ossi C, Cavanna C, Cascio GL. 2012. Cross-reactivity of Fusarium spp. in the Aspergillus galactomannan enzyme-linked immunosorbent assay. J Clin Microbiol. 50(3):1051–1053. doi: 10.1128/JCM.05946-11.
  • van Diepeningen AD, Brankovics B, Iltes J, van der Lee TAJ, Waalwijk C. 2015. Diagnosis of Fusarium infections: approaches to Identification by the Clinical Mycology Laboratory. Curr Fungal Infect Rep. 9(3):135–143. doi: 10.1007/s12281-015-0225-2.
  • Velasquez-Agudelo V, Cardona-Arias JA. 2017. Meta-analysis of the utility of culture, biopsy, and direct KOH examination for the diagnosis of onychomycosis. BMC Infect Dis. 17(1):166. doi: 10.1186/s12879-017-2258-3.
  • Walther G, Stasch S, Kaerger K, Hamprecht A, Roth M, Cornely OA, Geerling G, Mackenzie CR, Kurzai O, Lilienfeld-Toal M, et al. 2017. Fusarium keratitis in Germany. J Clin Microbiol. 55(10):2983–2995. doi: 10.1128/JCM.00649-17.
  • Weinberg JM, Koestenblatt EK, Tutrone WD, Tishler HR, Najarian L. 2003. Comparison of diagnostic methods in the evaluation of onychomycosis. J Am Acad Dermatol. 49(2):193–197. doi: 10.1067/s0190-9622(03)01480-4.
  • Winn RM, Gil-Lamaignere C, Maloukou A, Roilides E, Maglaveras N, Gaustad P, Abrahamsen TG, Denning DW, Meis JFGM, Verweij PE, et al. 2003. Interactions of human phagocytes with moulds Fusarium spp. and Verticillium nigrescens possessing different pathogenicity. Med Mycol. 41(6):503–509. doi: 10.1080/1369378030001615394.
  • World Health Organization. 2022. WHO fungal priority pathogens list to guide research, development and public health action.
  • World Health Organization. 2023a. Disease outbreak news; outbreak of suspected fungal meningitis associated with surgical procedures performed under spinal anaesthesia – the United States of America and Mexico.
  • World Health Organization. 2023b. Global research agenda for antimicrobial resistance in human health: policy brief: background: the global research agenda for antimicrobial resistance in human health prioritizes forty research topics for evidence generation to inform policy by 2030.
  • Yilmaz N, Sandoval-Denis M, Lombard L, Visagie CM, Wingfield BD, Crous PW. 2021. Redefining species limits in the Fusarium fujikuroi species complex. Persoonia. 46:129–162. doi: 10.3767/persoonia.2021.46.05.
  • Zhang W, Yang H, Jiang L, Han L, Wang L. 2010. Use of potassium hydroxide, giemsa and calcofluor white staining techniques in the microscopic evaluation of corneal scrapings for diagnosis of fungal keratitis. J Int Med Res. 38(6):1961–1967. doi: 10.1177/147323001003800609.