1887

Abstract

An inventory of culturable yeasts from the soil and water of natural CO springs (mofettes) in northeast Slovenia is presented. In mofettes, CO of geological origin reaches the soil surface causing temporarily and spatially stable hypoxic environments in soil and water. In total, 142 yeast strains were isolated and identified from high CO and control meadow soil, meadow ground-water, forest pond and stream water. All water locations showed below-ground CO release. They were assigned to six basidiomycetous yeast genera (six species) and 11 ascomycetous genera (18 species). All ascomycetous yeasts, with the exception of , were able to grow under elevated CO and fermented glucose. , and were the dominating species in meadow and forest high CO exposed water. and predominated in high CO exposed soils. Using high dilution plating of a mofette soil sample, four strains of an unknown basidiomycetous species were isolated and are here newly described as based on molecular phylogenetic and phenotypic criteria. The type strain of is EXF-6436[CBS 14611=PYCC 7049, LT594852 (D1/D2), KX929055 (ITS)]. An additional three isolated strains are EXF-6437 (LT594853, KX929056), EXF-6473 (LT594863, KX929057) and EXF-6482 (LT594867, KX929054), as well as a strain reported from previous studies isolated from a leaf of in Portugal (CBS 10223=PYCC 6067), EU002842 (D1/D2), KY308183 (ITS).

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2018-07-01
2024-04-16
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References

  1. Botha A. Yeast in soil. In Rosa CA, Péter G. (editors) The Yeast Handbook Biodiversity and Ecophysiology of Yeasts Berlin: Springer-Verlag; 2006 pp. 221–240
    [Google Scholar]
  2. Botha A. The importance and ecology of yeasts in soil. Soil Biol Biochem 2011; 43:1–8 [View Article]
    [Google Scholar]
  3. França L, Sannino C, Turchetti B, Buzzini P, Margesin R. Seasonal and altitudinal changes of culturable bacterial and yeast diversity in Alpine forest soils. Extremophiles 2016; 20:855–873 [View Article][PubMed]
    [Google Scholar]
  4. Rodrigues F, Ludovico P, Leão C. Sugar metabolism in yeasts: an overview of aerobic and anaerobic glucose catabolism. In Rosa CA, Péter G. (editors) The Yeast Handbook Biodiversity and Ecophysiology of Yeasts Berlin: Springer-Verlag; 2006 pp. 101–122
    [Google Scholar]
  5. Yurkov AM, Kemler M, Begerow D. Assessment of yeast diversity in soils under different management regimes. Fungal Ecol 2012; 5:24–35 [View Article]
    [Google Scholar]
  6. Yurkov AM, Röhl O, Pontes A, Carvalho C, Maldonado C et al. Local climatic conditions constrain soil yeast diversity patterns in Mediterranean forests, woodlands and scrub biome. FEMS Yeast Res 2016; 16:1–11 [View Article][PubMed]
    [Google Scholar]
  7. Connell L, Redman R, Craig S, Scorzetti G, Iszard M et al. Diversity of soil yeasts isolated from South Victoria Land, Antarctica. Microb Ecol 2008; 56:448–459 [View Article][PubMed]
    [Google Scholar]
  8. Vodnik D, Kastelec D, Pfanz H, Maček I, Turk B. Small-scale spatial variation in soil CO2 concentration in a natural carbon dioxide spring and some related plant responses. Geoderma 2006; 133:309–319 [View Article]
    [Google Scholar]
  9. Vodnik D, Videmšek U, Pintar M, Maček I, Pfanz H. The characteristics of soil CO2 fluxes at a site with natural CO2 enrichment. Geoderma 2009; 150:32–37 [View Article]
    [Google Scholar]
  10. Maček I, Dumbrell AJ, Nelson M, Fitter AH, Vodnik D et al. Local adaptation to soil hypoxia determines the structure of an arbuscular mycorrhizal fungal community in roots from natural CO2 springs. Appl Environ Microbiol 2011; 77:4770–4777 [View Article][PubMed]
    [Google Scholar]
  11. Maček I, Kastelec D, Vodnik D. Root colonization with arbuscular mycorrhizal fungi and glomalin-related soil protein (GRSP) concentration in hypoxic soils from natural CO2 springs. Agr Food Sci 2012; 21:62–71
    [Google Scholar]
  12. Maček I, Vodnik D, Pfanz H, Low-Décarie E, Dumbrell AJ. Locally extreme environments as natural long-term experiments in ecology. Adv Ecol Res 2016; 55:283–323
    [Google Scholar]
  13. Šibanc N, Dumbrell AJ, Mandić-Mulec I, Maček I. Impacts of naturally elevated soil CO2 concentrations on communities of soil archaea and bacteria. Soil Biol Biochem 2014; 68:348–356 [View Article]
    [Google Scholar]
  14. Rennert T, Pfanz H. Hypoxic and acidic — soils on mofette fields. Geoderma 2016; 280:73–81 [View Article]
    [Google Scholar]
  15. Maček I. A decade of research in mofette areas has given us new insights into adaptation of soil microorganisms to abiotic stress. Acta Agr Slove 2013; 101:209–217
    [Google Scholar]
  16. Oppermann BI, Michaelis W, Blumenberg M, Frerichs J, Schulz HM et al. Soil microbial community changes as a result of long-term exposure to a natural CO2 vent. Geochim Cosmochim Acta 2010; 74:2697–2716 [View Article]
    [Google Scholar]
  17. Krüger M, Jones D, Frerichs J, Oppermann BI, West J et al. Effects of elevated CO2 concentrations on the vegetation and microbial populations at a terrestrial CO2 vent at Laacher See, Germany. Int J Greenh Gas Con 2011; 5:1093–1098 [View Article]
    [Google Scholar]
  18. Frerichs J, Oppermann BI, Gwosdz S, Möller I, Herrmann M et al. Microbial community changes at a terrestrial volcanic CO2 vent induced by soil acidification and anaerobic microhabitats within the soil column. FEMS Microbiol Ecol 2013; 84:60–74 [View Article][PubMed]
    [Google Scholar]
  19. Beulig F, Heuer VB, Akob DM, Viehweger B, Elvert M et al. Carbon flow from volcanic CO2 into soil microbial communities of a wetland mofette. Isme J 2015; 9:746–759 [View Article][PubMed]
    [Google Scholar]
  20. Jones RP, Greenfield PF. Effect of carbon dioxide on yeast growth and fermentation. Enzyme Microb Technol 1982; 4:210–223 [View Article]
    [Google Scholar]
  21. Quan Y, Han H, Zheng S. Effect of dissolved oxygen concentration (microaerobic and aerobic) on selective enrichment culture for bioaugmentation of acidic industrial wastewater. Bioresour Technol 2012; 120:1–5 [View Article][PubMed]
    [Google Scholar]
  22. McFarland JW, Waldrop MP, Haw M. Extreme CO2 disturbance and the resilience of soil microbial communities. Soil Biol Biochem 2013; 65:274–286 [View Article]
    [Google Scholar]
  23. Merico A, Sulo P, Piskur J, Compagno C. Fermentative lifestyle in yeasts belonging to the Saccharomyces complex. Febs J 2007; 274:976–989 [View Article][PubMed]
    [Google Scholar]
  24. Visser W, Scheffers WA, Batenburg-van der Vegte WH, van Dijken JP. Oxygen requirements of yeasts. Appl Environ Microbiol 1990; 56:3785–3792[PubMed]
    [Google Scholar]
  25. Pezdič J, Žižek D, Wolf M, Trettin R, Stichler W et al. Influence of geogenic carbon dioxide on the plants grow. RMZ-Materials Geoenviron 1998; 45:154–157
    [Google Scholar]
  26. Blume H-P, Felix-Henningsen P. Reductosols: natural soils and technosols under reducing conditions without an aquic moisture regime. J Plant Nutr Soil Sci 2009; 172:808–820 [View Article]
    [Google Scholar]
  27. SIST ISO 10390 Soil Quality – Determination of pH Genève: International Organization for Standardization; 2006
    [Google Scholar]
  28. SIST ISO 13878 Soil Quality – Determination of Total Nitrogen Content after Dry Combustion (“Elemental Analysis”) Genève: International Organization for Standardization; 1999
    [Google Scholar]
  29. Kalra YP, Maynard DG. Methods Manual for Forest Soil and Plant Analysis. Information Report NOR-X-313 Edmonton, Alberta: Northern Forestry Centre; 1991
    [Google Scholar]
  30. Kurtzman CP, Fell JW, Boekhout T. The Yeasts A Taxonomic Study, 5th ed. Amsterdam: Elsevier; 2011
    [Google Scholar]
  31. Pitt JI, Hocking AD. Fungi and Food Spoilage Sydney: Academic Press; 1985
    [Google Scholar]
  32. Vicente VA, Attili-Angelis D, Pie MR, Queiroz-Telles F, Cruz LM et al. Environmental isolation of black yeast-like fungi involved in human infection. Stud Mycol 2008; 61:137–144 [View Article][PubMed]
    [Google Scholar]
  33. O'Donnell K. Fusarium and its near relatives. In Reynolds DR, Taylor JW. (editors) The Fungal Holomorph: Mitotic, Meiotic and Pleomorphic Speciation in Fungal Systematics Wallingford: CAB International; 1993 pp. 225–233
    [Google Scholar]
  34. Fell JW, Boekhout T, Fonseca A, Scorzetti G, Statzell-Tallman A. Biodiversity and systematics of basidiomycetous yeasts as determined by large-subunit rDNA D1/D2 domain sequence analysis. Int J Syst Evol Microbiol 2000; 50:1351–1371 [View Article][PubMed]
    [Google Scholar]
  35. White TJ, Bruns T, Lee S, Taylor WJ. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In Innis MA, Gelfand DH, Ninsky JJ, White TJ. (editors) PCR Protocols: A Guide to Methods and Applications New York: Academic Press Inc; 1990 pp. 315–322
    [Google Scholar]
  36. 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]
  37. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30:2725–2729 [View Article][PubMed]
    [Google Scholar]
  38. Kornerup A, Wanscher JH. Methuen Handbook of Colour, 2nd ed. London, UK: Methuen; 1967
    [Google Scholar]
  39. Viti C, Decorosi F, Marchi E, Galardini M, Giovannetti L et al. High-throughput phenomic. In Mengoni A, Galardini M, Fondi M. (editors) Bacterial Pangenomics: Methods and Protocols New York: Springer; 2015 pp. 99–123
    [Google Scholar]
  40. R Core Team R: A Language and Environment for Statistical Computing Vienna: R Foundation for Statistical Computing; 2014
    [Google Scholar]
  41. Gadanho M, Sampaio JP. Polyphasic taxonomy of the basidiomycetous yeast genus Rhodotorula: Rh. glutinis sensu stricto and Rh. dairenensis comb. nov. FEMS Yeast Res 2002; 2:47–58[PubMed]
    [Google Scholar]
  42. Spirin V, Malysheva V, Yurkov A, Miettinen O, Larsson K-H. Studies in the Phaeotremella foliacea group (Tremellomycetes, Basidiomycota). Mycol Prog 2018; 17:451–466 [View Article]
    [Google Scholar]
  43. McTaggart AR, Shivas RG, Geering AD, Vánky K, Scharaschkin T. A review of the Ustilago-Sporisorium-Macalpinomyces complex. Persoonia 2012; 29:55–62 [View Article][PubMed]
    [Google Scholar]
  44. Lachance MA. Metschnikowia: half tetrads, a regicide and the fountain of youth. Yeast 2016; 33:563–574 [View Article][PubMed]
    [Google Scholar]
  45. Kurtzman CP, Robnett CJ, Blackwell M. Description of Teunomyces gen. nov. for the Candida kruisii clade, Suhomyces gen. nov. for the Candida tanzawaensis clade and Suhomyces kilbournensis sp. nov. FEMS Yeast Res 2016; 16:fow041 [View Article][PubMed]
    [Google Scholar]
  46. Inácio J, Pereira P, de Carvalho M, Fonseca A, Amaral-Collaço MT et al. Estimation and diversity of phylloplane mycobiota on selected plants in a mediterranean-type ecosystem in Portugal. Microb Ecol 2002; 44:344–353 [View Article][PubMed]
    [Google Scholar]
  47. Khunnamwong P, Surussawadee J, Jindamorakot S, Ribeiro JR, Hagler AN et al. Occultifur tropicalis f.a., sp. nov., a novel cystobasidiomycetous yeast species isolated from tropical regions. Int J Syst Evol Microbiol 2015; 65:1578–1582 [View Article][PubMed]
    [Google Scholar]
  48. Gomes FC, Safar SV, Marques AR, Medeiros AO, Santos AR et al. The diversity and extracellular enzymatic activities of yeasts isolated from water tanks of Vriesea minarum, an endangered bromeliad species in Brazil, and the description of Occultifur brasiliensis f.a., sp. nov. Antonie van Leeuwenhoek 2015; 107:597–611 [View Article][PubMed]
    [Google Scholar]
  49. Kurtzman CP, Robnett CJ. Occultifur kilbournensis f.a. sp. nov., a new member of the Cystobasidiales associated with maize (Zea mays) cultivation. Antonie van Leeuwenhoek 2015; 107:1323–1329 [View Article][PubMed]
    [Google Scholar]
  50. Sampaio JP, Bauer R, Begerow D, Oberwinkler F. Occultifur externus sp. nov., a new species of simple-pored auricularioid heterobasidiomycete from plant litter in Portugal. Mycologia 1999; 91:1094–1101 [View Article]
    [Google Scholar]
  51. Vadkertiová R, Dudášová H, Balaščáková M. Yeasts in agricultural and managed soils. In Buzzini P, Lachance M-A, Yurkov A. (editors) Yeasts in Natural Ecosystems: Diversity Cham: Springer; 2017 pp. 117–144
    [Google Scholar]
  52. Polyakova AV, Chernov IY, Panikov NS. Yeast diversity in hydromorphic soils with reference to a grass – sphagnum wetland in Western Siberia and a Hummocky Tundra region at Cape Barrow (Alaska). Microbiology 2001; 70:617–623 [View Article]
    [Google Scholar]
  53. Walker GM. Pichia anomala: cell physiology and biotechnology relative to other yeasts. Antonie van Leeuwenhoek 2011; 99:25–34 [View Article][PubMed]
    [Google Scholar]
  54. Kurtzman CP. Pichia EC. Hansen emend. Kurtzman. In Kurtzman CP, Fell JW. (editors) The Yeasts: a Taxonomic Study, 4th ed. Amsterdam, The Netherlands: Elsevier; 1998 pp. 273–352
    [Google Scholar]
  55. Fredlund E. Central Carbon Metabolism of the Biocontrol Yeast Pichia Anomala–influence of Oxygen Limitation PhD thesis Uppsala: Swedish University of Agricultural Sciences; 2004
    [Google Scholar]
  56. Vishniac HS. Yeast biodiversity in the Antarctic. In Rosa CA, Péter G. (editors) The Yeast Handbook Biodiversity and Ecophysiology of Yeasts Berlin: Springer-Verlag; 2006 pp. 419–440
    [Google Scholar]
  57. Yurkov A. Yeasts in forest soils. In Buzzini P, Lachance M-A, Yurkov A. (editors) Yeasts in Natural Ecosystems: Diversity Cham: Springer; 2017 pp. 87–116
    [Google Scholar]
  58. Yurkov AM. Yeasts of the soil – obscure but precious. Yeast 2018; 35:369–378 [View Article][PubMed]
    [Google Scholar]
  59. Nagahama T. Yeast biodiversity in freshwater, marine and deep-sea environments. In Rosa CA, Péter G. (editors) The Yeast Handbook Biodiversity and Ecophysiology of Yeasts Berlin: Springer-Verlag; 2006 pp. 241–262
    [Google Scholar]
  60. Libkind D, Russo G, van Broock MR. Yeasts from extreme aquatic environments: hyperacidic freshwaters. In Jones EBG, Hyde KD, Pang KL. (editors) Freshwater Fungi and Fungi Like Organisms Berlin/Boston: Walter de Gruyter; 2014 pp. 443–464
    [Google Scholar]
  61. Glushakova AM, Kachalkin AV, Chernov IY. Soil yeast communities under the aggressive invasion of Sosnowsky’s hogweed (Heracleum sosnowskyi). Eurasian Soil Science 2015; 48:201–207 [View Article]
    [Google Scholar]
  62. Deak T. Environmental factors influencing yeasts. In Rosa CA, Péter G. (editors) The Yeast Handbook Biodiversity and Ecophysiology of Yeasts Berlin: Springer-Verlag; 2006 pp. 155–174
    [Google Scholar]
  63. Balloni W, Florenzano G, Mazza G, Polsinelli M. Candida amidevorans sp. nov., a new ascomycetous anamorph yeast from soil. Antonie van Leeuwenhoek 1987; 53:99–106 [View Article][PubMed]
    [Google Scholar]
  64. Jaiboon K, Lertwattanasakul N, Limtong P, Limtong S. Yeasts from peat in a tropical peat swamp forest in Thailand and their ability to produce ethanol, indole-3-acetic acid and extracellular enzymes. Mycol Prog 2016; 15:755–770 [View Article]
    [Google Scholar]
  65. Schimann H, Bach C, Lengelle J, Louisanna E, Barantal S et al. Diversity and structure of fungal communities in neotropical rainforest soils: the effect of host recurrence. Microb Ecol 2017; 73:310–320 [View Article][PubMed]
    [Google Scholar]
  66. Yurkov A, Wehde T, Kahl T, Begerow D. Aboveground deadwood deposition supports development of soil yeasts. Diversity 2012; 4:453–474 [View Article]
    [Google Scholar]
  67. Gadanho M, Libkind D, Sampaio JP. Yeast diversity in the extreme acidic environments of the Iberian Pyrite Belt. Microb Ecol 2006; 52:552–563 [View Article][PubMed]
    [Google Scholar]
  68. Russo G, Libkind D, Sampaio JP, van Broock MR. Yeast diversity in the acidic Rio Agrio-Lake Caviahue volcanic environment (Patagonia, Argentina). FEMS Microbiol Ecol 2008; 65:415–424 [View Article][PubMed]
    [Google Scholar]
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