Open Access
Volume 30, 2023
Article Number 52
Number of page(s) 7
Published online 28 November 2023
  1. Ardila-Garcia AM, Raghuram N, Sihota P, Fast NM. 2013. Microsporidian diversity in soil, sand, and compost of the Pacific Northwest. Journal of Eukaryotic Microbiology, 60, 601–608. [CrossRef] [PubMed] [Google Scholar]
  2. Baker MD, Vossbrinck CR, Didier ES, Maddox JV, Shadduck JA. 1995. Small subunit ribosomal DNA phylogeny of various microsporidia with emphasis on AIDS related forms. Journal of Eukaryotic Microbiology, 42, 564–570. [CrossRef] [PubMed] [Google Scholar]
  3. Bass D, Christison KW, Stentiford GD, Cook LSJ, Hartikainen H. 2023. Environmental DNA/RNA for pathogen and parasite detection, surveillance, and ecology. Trends in Parasitology, 39, 285–304. [CrossRef] [PubMed] [Google Scholar]
  4. Bass D, Czech L, Williams BAP, Berney C, Dunthorn M, Mahé F, Torruella G, Stentiford GD, Williams TA. 2018. Clarifying the relationships between Microsporidia and Cryptomycota. Journal of Eukaryotic Microbiology, 65, 773–782. [CrossRef] [PubMed] [Google Scholar]
  5. Bojko J, Reinke AW, Stentiford GD, Williams B, Rogers MSJ, Bass D. 2022. Microsporidia: a new taxonomic, evolutionary, and ecological synthesis. Trends in Parasitology, 38, 642–659. [CrossRef] [PubMed] [Google Scholar]
  6. Bru D, Martin-Laurent F, Philippot L. 2008. Quantification of the detrimental effect of a single primer-template mismatch by real-time PCR Using the 16S rRNA gene as an example. Applied and Environmental Microbiology, 74, 1660–1663. [CrossRef] [PubMed] [Google Scholar]
  7. Cali A, Becnel JJ, Takvorian PM. 2017. Microsporidia, in Handbook Protists. Archibald JM, Simpson AGB, Slamovits CH, Editors. Springer International Publishing: Cham. p. 1559–1618. [CrossRef] [Google Scholar]
  8. Doliwa A, Dunthorn M, Rassoshanska E, Mahé F, Bass D, Duarte Ritter C. 2021. Identifying potential hosts of short-branch microsporidia. Microbial Ecology, 82, 549–553. [CrossRef] [PubMed] [Google Scholar]
  9. Dubuffet A, Chauvet M, Moné A, Debroas D, Lepère C. 2021. A phylogenetic framework to investigate the microsporidian communities through metabarcoding and its application to lake ecosystems. Environmental Microbiology, 23, 4344–4359. [CrossRef] [PubMed] [Google Scholar]
  10. Ficetola GF, Coissac E, Zundel S, Riaz T, Shehzad W, Bessière J, Taberlet P, Pompanon F. 2010. An in silico approach for the evaluation of DNA barcodes. BMC Genomics, 11, 434. [CrossRef] [PubMed] [Google Scholar]
  11. Grabner DS, Weigand AM, Leese F, Winking C, Hering D, Tollrian R, Sures B. 2015. Invaders, natives and their enemies: distribution patterns of amphipods and their microsporidian parasites in the Ruhr Metropolis, Germany. Parasites & Vectors, 8, 419. [CrossRef] [PubMed] [Google Scholar]
  12. Ishii K, Fukui M. 2001. Optimization of annealing temperature to reduce bias caused by a primer mismatch in multitemplate PCR. Applied and Environmental Microbiology, 67, 3753–3755. [CrossRef] [PubMed] [Google Scholar]
  13. Kassambara A. 2020. ggpubr: “ggplot2” based publication ready plots. R package version 0.4.0. Available at [Google Scholar]
  14. Larsson A. 2014. AliView: a fast and lightweight alignment viewer and editor for large datasets. Bioinformatics, 30, 3276–3278. [CrossRef] [PubMed] [Google Scholar]
  15. McClymont EH, Dunn AM, Terry RS, Rollinson D, Littlewood DTJ, Smith JE. 2005. Molecular data suggest that microsporidian parasites in freshwater snails are diverse. International Journal for Parasitology, 35, 1071–1078. [CrossRef] [PubMed] [Google Scholar]
  16. Miller CS, Handley KM, Wrighton KC, Frischkorn KR, Thomas BC, Banfield JF. 2013. Short-read assembly of full-length 16S amplicons reveals bacterial diversity in subsurface sediments. PLoS One, 8, e56018. [CrossRef] [PubMed] [Google Scholar]
  17. Neuwirth E. 2014. RColorBrewer: ColorBrewer Palettes. R package version 1.1-2. Available at [Google Scholar]
  18. Paradis E, Schliep K. 2019. ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R. Bioinformatics, 35, 526–528. [CrossRef] [PubMed] [Google Scholar]
  19. Pawlowski J, Audic S, Adl S, Bass D, Belbahri L, Berney C, Bowser SS, Cepicka I, Decelle J, Dunthorn M, Fiore-Donno AM, Gile GH, Holzmann M, Jahn R, Jirků M, Keeling PJ, Kostka M, Kudryavtsev A, Lara E, Lukeš J, Mann DG, Mitchell EAD, Nitsche F, Romeralo M, Saunders GW, Simpson AGB, Smirnov AV, Spouge JL, Stern RF, Stoeck T, Zimmermann J, Schindel D, de Vargas C. 2012. CBOL Protist Working Group: barcoding eukaryotic richness beyond the animal, plant, and fungal kingdoms. PLoS Biology, 10, e1001419. [CrossRef] [PubMed] [Google Scholar]
  20. Pedersen TL. 2021. ggforce: Accelerating “ggplot2.” R package version 0.3.3. Available at [Google Scholar]
  21. R Core Team. 2021. R: a language and environment for statistical computing. R Foundation for Statistical Computing: Vienna, Austria. Available at [Google Scholar]
  22. RStudio Team. 2022. RStudio: Integrated development for R. RStudio, PBC: Boston, MA. Available at [Google Scholar]
  23. Santoferrara L, Burki F, Filker S, Logares R, Dunthorn M, McManus GB. 2020. Perspectives from ten years of protist studies by high-throughput metabarcoding. Journal of Eukaryotic Microbiology, 67, 612–622. [CrossRef] [PubMed] [Google Scholar]
  24. Siddall ME, Fontanella FM, Watson SC, Kvist S, Erséus C. 2009. Barcoding bamboozled by bacteria: convergence to metazoan mitochondrial primer targets by marine microbes. Systematic Biology, 58, 445–451. [CrossRef] [PubMed] [Google Scholar]
  25. Trzebny A, Slodkowicz-Kowalska A, Becnel JJ, Sanscrainte N, Dabert M. 2020. A new method of metabarcoding Microsporidia and their hosts reveals high levels of microsporidian infections in mosquitoes (Culicidae). Molecular Ecology Resources, 20, 1486–1504. [CrossRef] [PubMed] [Google Scholar]
  26. Vaulot D, Geisen S, Mahé F, Bass D. 2021. pr2-primers: An 18S rRNA primer database for protists. Molecular Ecology Resources, 22, 168–179. [Google Scholar]
  27. Vossbrinck CR, Maddox JV, Friedman R, Debrunner-Vossbrinck Woese C. 1987. Ribosomal RNA sequence suggests microsporidia are extremely ancient eukaryotes. Nature, 326, 411–414. [CrossRef] [PubMed] [Google Scholar]
  28. Weigand AM, Kremers J, Grabner DS. 2016. Shared microsporidian profiles between an obligate (Niphargus) and facultative subterranean amphipod population (Gammarus) at sympatry provide indications for underground transmission pathways. Limnologica, 58, 7–10. [CrossRef] [Google Scholar]
  29. Weiss LM, Zhu X, Cali A, Tanowitz HB, Wittner M. 1994. Utility of microsporidian rRNA in diagnosis and phylogeny: a review. Folia Parasitologica, 41, 81–90. [PubMed] [Google Scholar]
  30. Weiss LM, Becnel JJ. 2014. Microsporidia: pathogens of opportunity. Wiley-Blackwell: Oxford, UK. [CrossRef] [Google Scholar]
  31. Wickham H. 2009. ggplot2: elegant graphics for data analysis. Springer: New York. Available at [Google Scholar]
  32. Wickham H. 2011. The split-apply-combine strategy for data analysis. Journal of Statistical Software, 40, 1–29. [CrossRef] [Google Scholar]
  33. Wickham H, Averick M, Bryan J, Chang W, McGowan L, François R, Grolemund G, Hayes A, Henry L, Hester J, Kuhn M, Pedersen T, Miller E, Bache S, Müller K, Ooms J, Robinson D, Seidel D, Spinu V, Takahashi K, Vaughan D, Wilke C, Woo K, Yutani H. 2019. Welcome to the Tidyverse. Journal of Open Source Software, 4, 1686. [CrossRef] [Google Scholar]
  34. Wickham H, Bryan J. 2019. readxl: Read Excel Files. R package version 1.3.1. Available at [Google Scholar]
  35. Wilke CO, Wiernik BM. 2022. ggtext: improved text rendering support for “ggplot2.” R package version 0.1.2. Available at [Google Scholar]
  36. Williams BAP, Hamilton KM, Jones MD, Bass D. 2018. Group-specific environmental sequencing reveals high levels of ecological heterogeneity across the microsporidian radiation. Environmental Microbiology Reports, 10, 328–336. [CrossRef] [PubMed] [Google Scholar]
  37. Zhu X, Wittner M, Tanowitz HB, Kotler D, Cali A, Weiss LM. 1993. Small subunit rRNA Sequence of Enterocytozoon bieneusi and its potential diagnostic role with use of the polymerase chain reaction. Journal of Infectious Diseases, 168, 1570–1575. [CrossRef] [PubMed] [Google Scholar]

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