Abstract
We present the first whole-genome-sequencing data of a rare fungal species, Candida theae isolated in the context of a Hickman line infection in a patient with juvenile myelomonocytic leukaemia. To our knowledge, this is the first instance of publicly available genomic data for this species. Loci associated with antifungal resistance were referenced against its closely related members of the Candida parapsilosis complex.
Similar content being viewed by others
References
Chang C-F, Lin Y-C, Chen S-F, et al. Candida theae sp. nov., a new anamorphic beverage-associated member of the Lodderomyces clade. Int J Food Microbiol. 2012;153:10–4. https://doi.org/10.1016/j.ijfoodmicro.2011.09.012.
Yang Z, Wu L, Liu X, et al. Epidemiology, species distribution and outcome of nosocomial Candida spp. bloodstream infection in Shanghai. BMC Infect Dis. 2014;14:241. https://doi.org/10.1186/1471-2334-14-241.
White TJ, Bruns S, Lee S, Taylor J. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. PCR Protoc Guid Methods Appl. 1990;18:315–22.
Koren S, Walenz BP, Berlin K, et al. Canu: scalable and accurate long-read assembly via adaptive κ-mer weighting and repeat separation. Genome Res. 2017. https://doi.org/10.1101/gr.215087.116.
Walker BJ, Abeel T, Shea T, et al. Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement. PLoS ONE. 2014. https://doi.org/10.1371/journal.pone.0112963.
Chakraborty M, Baldwin-Brown JG, Long AD, Emerson JJ. Contiguous and accurate de novo assembly of metazoan genomes with modest long read coverage. Nucleic Acids Res. 2016;44:e147. https://doi.org/10.1093/nar/gkw654.
Mikheenko A, Prjibelski A, Saveliev V, et al. Versatile genome assembly evaluation with QUAST-LG. Bioinformatics. 2018;34:i142–50. https://doi.org/10.1093/bioinformatics/bty266.
Richter M, Rossello-Mora R, Oliver Glockner F, Peplies J. JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics. 2016;32:929–31. https://doi.org/10.1093/bioinformatics/btv681.
The European Committee on Antimicrobial Susceptibility Testing. Breakpoint tables for interpretation of MICs for antifungal agents, version 10.0, 2020. http://www.eucast.org/astoffungi/clinicalbreakpointsforantifungals/. The European Committee on Antimic 2020. http://www.eucast.org/astoffungi/clinicalbreakpointsforantifungals/. No Title.
Martí-Carrizosa M, Sánchez-Reus F, March F, et al. Implication of Candida parapsilosis FKS1 and FKS2 mutations in reducing echinocandin susceptibility. Antimicrob Agents Chemother. 2015;59:3570–3. https://doi.org/10.1128/AAC.04922-14.
Edlind TD, Katiyar SK. Mutational analysis of flucytosine resistance in Candida glabrata. Antimicrob Agents Chemother. 2010. https://doi.org/10.1128/AAC.00605-10.
Mac Aogáin M, Chaturvedi V, Chotirmall SH. MycopathologiaGENOMES: the New “Home” for the Publication of Fungal Genomes. Mycopathologia. 2019;184:551–4.
Acknowledgements
This research is supported by the NUHS Internal Grant Funding under the NUHS Seed Fund (NUHSRO/2018/082/RO5+5/Seed-Aug/08).
Author information
Authors and Affiliations
Contributions
KLC, SO, JT conceived and planned the experiments. SO and JT performed genomic analysis. KLC contributed clinical input. KLC took the lead in writing the manuscript. All authors provided critical feedback and helped shape the research, analysis and manuscript.
Corresponding author
Ethics declarations
Conflict of interest
The authors have no conflict of interest to declare.
Additional information
Publisher's Note
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Handling editor: Micheál Mac Aogá.
Electronic supplementary material
Below is the link to the electronic supplementary material.
Rights and permissions
About this article
Cite this article
Chew, K.L., Octavia, S. & Teo, J.W.P. Complete Genome Sequence of Candida theae from Hickman Line Infection in an Immunocompromised Child. Mycopathologia 185, 727–729 (2020). https://doi.org/10.1007/s11046-020-00476-3
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s11046-020-00476-3