1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 74, Issue 2

Taxogenomic analyses of f.a, sp. nov. and f.a., sp. nov., two novel species isolated from plant substrates and insects No Access

Abstract

Four yeast isolates collected from flowers from different ecosystems in Brazil, one from fruit of in Argentina, three from flowers of in Chile and one obtained from the proventriculus of a female bumblebee in Canada were demonstred, by analysis of the sequences of the internal transcribed spacer (ITS) region and D1/D2 domains of the large subunit rRNA gene, to represent two novel species of the genus . These species are described here as f.a, sp. nov. (CBS 16166; Mycobank MB 851206) and f.a., sp. nov. (PYCC 8997; Mycobank MB 851207). The results of a phylogenomic analysis using 1037 single-copy orthogroups indicated that is a member of a subclade that contains , and . The results also indicated that is phylogenetically related to . The two isolates of were obtained from flowers in Brazil and were probably vectored by insects that visit these substrates. has a wide geographical distribution having been isolated in flowers from Brazil and Chile, fruit from Argentina and a bumblebee from Canada.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): bumblebee , plants , Starmerella gilliamiae sp. nov , Starmerella monicapupoae sp. nov and taxogenomic analyses
Funding
This study was supported by the:
  • Natural Sciences and Engineering Research Council of Canada
    • Principle Award Recipient: Marc-AndréLachance
  • Fundação de Amparo à Pesquisa do Estado de Minas Gerais (Award APQ-01525–14, APQ-01477–13 and APQ-02552–15)
    • Principle Award Recipient: CarlosA. Rosa
  • Conselho Nacional de Desenvolvimento Científico e Tecnológico (Award 435040/2018 and 408733/2021-7)
    • Principle Award Recipient: CarlosA. Rosa
  • Conselho Nacional de Desenvolvimento Científico e Tecnológico (Award 406564/2022-1)
    • Principle Award Recipient: CarlosA. Rosa
  • Fundação para a Ciência e a Tecnologia
    • Principle Award Recipient: GonçalvesPaulaPontesAna
  • Fundação para a Ciência e a Tecnologia (Award grants UIDB/04378/2020 (UCIBIO), LA/P/0140/2020 (i4HB), PTDC/BIA-EVL/1100/2020 and PTDC/BIA-EVL/0604/2021)
    • Principle Award Recipient: SampaioJosé PauloGonçalvesPaulaGonçalvesCarla
© 2024 The Authors
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.006270
2024-02-26
2024-05-07
Loading full text...

Full text loading...

References

  1. Rosa CA, Lachance MA. The yeast genus Starmerella gen. nov. and Starmerella bombicola sp. nov., the teleomorph of Candida bombicola (Spencer, Gorin & Tullock) Meyer & Yarrow. Int J Syst Bacteriol 1998; 48 Pt 4:1413–1417 [View Article] [PubMed]
     [Google Scholar]
  2. Teixeira ACP, Marini MM, Nicoli JR, Antonini Y, Martins RP et al. Starmerella meliponinorum sp. nov., a novel ascomycetous yeast species associated with stingless bees. Int J Syst Evol Microbiol 2003; 53:339–343 [View Article] [PubMed]
     [Google Scholar]
  3. Santos ARO, Leon MP, Barros KO, Freitas LFD, Hughes AFS et al. Starmerella camargoi f.a., sp. nov., Starmerella ilheusensis f.a., sp. nov., Starmerella litoralis f.a., sp. nov., Starmerella opuntiae f.a., sp. nov., Starmerella roubikii f.a., sp. nov. and Starmerella vitae f.a., sp. nov., isolated from flowers and bees, and transfer of related Candida species to the genus Starmerella as new combinations. Int J Syst Evol Microbiol 2018; 68:1333–1343 [View Article] [PubMed]
     [Google Scholar]
  4. Amoikon TLS, Grondin C, Djéni TN, Jacques N, Casaregola S. Starmerella reginensis f.a., sp. nov. and Starmerella kourouensis f.a., sp. nov., isolated from flowers in French Guiana. Int J Syst Evol Microbiol 2018; 68:2299–2305 [View Article] [PubMed]
     [Google Scholar]
  5. Čadež N, Drumonde-Neves J, Sipiczki M, Dlauchy D, Lima T et al. Starmerella vitis f.a., sp. nov., a yeast species isolated from flowers and grapes. Antonie Van Leeuwenhoek 2020; 113:1289–1298 [View Article] [PubMed]
     [Google Scholar]
  6. Crous PW, Cowan DA, Maggs-Kölling G, Yilmaz N, Thangavel R et al. Fungal Planet description sheets: 1182-1283. Persoonia 2021; 46:313–528 [View Article] [PubMed]
     [Google Scholar]
  7. Kumar S, Verma NK, Basotra SD, Sharma D, Prasad GS et al. Harnessing dual applications of a novel ascomycetes yeast, Starmerella cerana sp. nov., as a biocatalyst for stereoselective ketone reduction and biosurfactant production. Front Bioeng Biotechnol 2023; 11:1264826 [View Article] [PubMed]
     [Google Scholar]
  8. Gonçalves P, Gonçalves C, Brito PH, Sampaio JP. The Wickerhamiella/Starmerella clade-A treasure trove for the study of the evolution of yeast metabolism. Yeast 2020; 37:313–320 [View Article] [PubMed]
     [Google Scholar]
  9. Rosa CA, Lachance MA, Silva JOC, Teixeira ACP, Marini MM et al. Yeast communities associated with stingless bees. FEMS Yeast Res 2003; 4:271–275 [View Article] [PubMed]
     [Google Scholar]
  10. Januário da Costa Neto D, Benevides de Morais P. The vectoring of Starmerella species and other yeasts by stingless bees in a neotropical savanna. Fungal Ecology 2020; 47:100973 [View Article]
     [Google Scholar]
  11. Detry R, Simon-Delso N, Bruneau E, Daniel HM. Specialisation of yeast genera in different phases of bee bread maturation. Microorganisms 2020; 8:1789 [View Article] [PubMed]
     [Google Scholar]
  12. de Paula GT, Menezes C, Pupo MT, Rosa CA. Stingless bees and microbial interactions. Curr Opin Insect Sci 2021; 44:41–47 [View Article] [PubMed]
     [Google Scholar]
  13. Rutkowski D, Weston M, Vannette RL. Bees just wanna have fungi: a review of bee associations with nonpathogenic fungi. FEMS Microbiol Ecol 2023; 99:fiad077 [View Article] [PubMed]
     [Google Scholar]
  14. Rosa CA, Lachance M-A, Limtong S, Santos ARO, Landell MF et al. Yeasts from tropical forests: Biodiversity, ecological interactions, and as sources of bioinnovation. Yeast 2023; 40:511–539 [View Article] [PubMed]
     [Google Scholar]
  15. Thanh VN, Hien DD, Thom TT. Moniliella byzovii sp. nov., a chlamydospore-forming black yeast isolated from flowers. Int J Syst Evol Microbiol 2013; 63:1192–1196 [View Article] [PubMed]
     [Google Scholar]
  16. Fernández NV, Mestre MC, Marchelli P, Fontenla SB. Yeast and yeast-like fungi associated with dry indehiscent fruits of Nothofagus nervosa in Patagonia, Argentina. FEMS Microbiol Ecol 2012; 80:179–192 [View Article] [PubMed]
     [Google Scholar]
  17. Kurtzman CP, Fell JW, Boekhout T, Roberts V. Methods for isolation, phenotypic characterization and maintenance of yeasts. In Kurtzman CP, JW F, Boekout T. eds The Yeasts: A Taxonomic Study Amsterdam: Elsevier Science; 2011 pp 87–110
     [Google Scholar]
  18. Gonçalves C, Coelho MA, Salema-Oom M, Gonçalves P. Stepwise functional evolution in a fungal sugar transporter family. Mol Biol Evol 2016; 33:352–366 [View Article] [PubMed]
     [Google Scholar]
  19. White TJ, Burns T, Lee S, Taylor J. Amplification and sequencing of fungal ribosomal RNA genes for phylogenetics. In Innis MA, Gelfand DH, Snisky JJ, White TJ. eds PCR Protocols. A Guide to Methods and Applications San Diego: Academic Press; 1990 pp 315–322
     [Google Scholar]
  20. O’Donnell K. Fusarium and its near relatives. In Reynolds DR, Taylor JW. eds The Fungal Holomorph: Mitotic, Meiotic and Pleomorphic Speciation in Fungal Systematics Wallingford: CAB International; 1993 pp 225–233
     [Google Scholar]
  21. Kurtzman CP, Robnett CJ. Identification and phylogeny of ascomycetous yeasts from analysis of nuclear large subunit (26S) ribosomal DNA partial sequences. Antonie Van Leeuwenhoek 1998; 73:331–371 [View Article] [PubMed]
     [Google Scholar]
  22. Lachance MA, Bowles JM, Starmer WT, Barker JS. Kodamaea kakaduensis and Candida tolerans, two new ascomycetous yeast species from Australian Hibiscus flowers. Can J Microbiol 1999; 45:172–177 [View Article] [PubMed]
     [Google Scholar]
  23. Lemoine F, Correia D, Lefort V, Doppelt-Azeroual O, Mareuil F et al. NGPhylogeny.fr: new generation phylogenetic services for non-specialists. Nucleic Acids Res 2019; 47:W260–W265 [View Article] [PubMed]
     [Google Scholar]
  24. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 1990; 215:403–410 [View Article] [PubMed]
     [Google Scholar]
  25. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article] [PubMed]
     [Google Scholar]
  26. Lachance MA. Phylogenies in yeast species descriptions: In defense of neighbor-joining. Yeast 2022; 39:513–520 [View Article] [PubMed]
     [Google Scholar]
  27. Gonçalves C, Marques M, Gonçalves P. Contrasting strategies for sucrose utilization in a floral yeast clade. mSphere 2022; 7:e0003522 [View Article] [PubMed]
     [Google Scholar]
  28. Bolger AM, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 2014; 30:2114–2120 [View Article] [PubMed]
     [Google Scholar]
  29. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 2012; 19:455–477 [View Article] [PubMed]
     [Google Scholar]
  30. Gurevich A, Saveliev V, Vyahhi N, Tesler G. QUAST: quality assessment tool for genome assemblies. Bioinformatics 2013; 29:1072–1075 [View Article] [PubMed]
     [Google Scholar]
  31. Stanke M, Schöffmann O, Morgenstern B, Waack S. Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources. BMC Bioinformatics 2006; 7:62 [View Article] [PubMed]
     [Google Scholar]
  32. Emms DM, Kelly S. OrthoFinder: phylogenetic orthology inference for comparative genomics. Genome Biol 2019; 20:238 [View Article] [PubMed]
     [Google Scholar]
  33. Nguyen L-T, Schmidt HA, von Haeseler A, Minh BQ. IQ-TREE: A fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Mol Biol Evol 2015; 32:268–274 [View Article] [PubMed]
     [Google Scholar]
  34. Kalyaanamoorthy S, Minh BQ, Wong TKF, von Haeseler A, Jermiin LS. ModelFinder: fast model selection for accurate phylogenetic estimates. Nat Methods 2017; 14:587–589 [View Article] [PubMed]
     [Google Scholar]
  35. Hoang DT, Chernomor O, von Haeseler A, Minh BQ, Vinh LS. UFBoot2: Improving the Ultrafast Bootstrap Approximation. Mol Biol Evol 2018; 35:518–522 [View Article] [PubMed]
     [Google Scholar]
  36. Lee I, Ouk Kim Y, Park S-C, Chun J. OrthoANI: An improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol 2016; 66:1100–1103 [View Article] [PubMed]
     [Google Scholar]
  37. Yoon S-H, Ha S-M, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie Van Leeuwenhoek 2017; 110:1281–1286 [View Article] [PubMed]
     [Google Scholar]
  38. Rosa CA, Viana EM, Martins RP, Antonini Y, Lachance MA. Candida batistae, a new yeast species associated with solitary digger nesting bees in Brazil. Mycologia 1999; 91:428–433 [View Article]
     [Google Scholar]
  39. Pimentel MRC, Antonini Y, Martins RP, Lachance M-A, Rosa CA. Candida riodocensis and Candida cellae, two new yeast species from the Starmerella clade associated with solitary bees in the Atlantic rain forest of Brazil. FEMS Yeast Res 2005; 5:875–879 [View Article] [PubMed]
     [Google Scholar]
  40. Lachance MA. In defense of yeast sexual life cycles: the forma asexualis-an informal proposal. Yeast Newsl 2012; 61:24–25
     [Google Scholar]
  41. Lachance MA, Lee DK, Hsiang T. Delineating yeast species with genome average nucleotide identity: a calibration of ANI with haplontic, heterothallic Metschnikowia species. Antonie Van Leeuwenhoek 2020; 113:2097–2106 [View Article] [PubMed]
     [Google Scholar]
  42. Gonçalves C, Wisecaver JH, Kominek J, Oom MS, Leandro MJ et al. Evidence for loss and reacquisition of alcoholic fermentation in a fructophilic yeast lineage. Elife 2018; 7:e33034 [View Article] [PubMed]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.006270
Loading
Taxogenomic analyses of Starmerella gilliamiae f.a, sp. nov. and Starmerella monicapupoae f.a., sp. nov., two novel species isolated from plant substrates and insects
Int J Syst Evol Microbiol 74, 006270 (2024); https://doi.org/10.1099/ijsem.0.006270
/content/journal/ijsem/10.1099/ijsem.0.006270
/content/journal/ijsem/10.1099/ijsem.0.006270
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error