1887

Abstract

In this study, we describe a new genus and species of yeast with high-salt tolerance. The strain was isolated from the pickling sauce used to make Datoucai, a traditional fermented food made from Brassica juncea in Xiangyang, China. Phylogenetic analysis of sequences from the D1/D2 region of the LSU rRNA gene and from the ITS region demonstrated that the strain, reference HBUAS51001, was most closely related to members of the genera Occultifur and Cystobasidium. However, the greatest similarities between the D1/D2 and ITS nucleotide sequences of strain HBUAS51001 and the most closely related type strains from Occultifur and Cystobasidium were only 91 and 92 %, respectively. This suggests that strain HBUAS51001 does not belong to any currently described species. Strain HBUAS51001 grew readily on media in which xylose was the sole carbon source. The major ubiquinone was Q9. The genome of strain HBUAS51001 was 42.42 Mb with a G+C content of 53.93 mol%. Three candidate genes associated with xylose metabolism were identified. On the basis of genotypic and phenotypic data, strain HBUAS51001 can be considered as both a new species and a new genus, for which the name Halobasidium xiangyangense gen. nov., sp. nov. is proposed. The type strain is HBUAS51001 (=KCTC27810=GDMCC 2.231=CCTCC AY 2018002).

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2019-01-04
2019-12-05
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References

  1. Bauer R, Begerow D, Sampaio JP, Weiβ M, Oberwinkler F. The simple-septate basidiomycetes: a synopsis. Mycol Prog 2006;5:41–66 [CrossRef]
    [Google Scholar]
  2. Laich F, Vaca I, Chávez R. Rhodotorula portillonensis sp. nov., a basidiomycetous yeast isolated from Antarctic shallow-water marine sediment. Int J Syst Evol Microbiol 2013;63:3884–3891 [CrossRef][PubMed]
    [Google Scholar]
  3. Wang QM, Yurkov AM, Göker M, Lumbsch HT, Leavitt SD et al. Phylogenetic classification of yeasts and related taxa within Pucciniomycotina. Stud Mycol 2015;81:149–189 [CrossRef][PubMed]
    [Google Scholar]
  4. Tsuji M, Tsujimoto M, Imura S. Cystobasidium tubakii and Cystobasidium ongulense, new basidiomycetous yeast species isolated from East Ongul Island, East Antarctica. Mycoscience 2016;58:103–110 [CrossRef]
    [Google Scholar]
  5. 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 [CrossRef][PubMed]
    [Google Scholar]
  6. Yurkov AM, Kachalkin AV, Daniel HM, Groenewald M, Libkind D et al. Two yeast species Cystobasidium psychroaquaticum f.a. sp. nov. and Cystobasidium rietchieii f.a. sp. nov. isolated from natural environments, and the transfer of Rhodotorula minuta clade members to the genus Cystobasidium. Antonie van Leeuwenhoek 2015;107:173–185 [CrossRef][PubMed]
    [Google Scholar]
  7. Nagahama T, Hamamoto M, Nakase T, Horikoshi K. Rhodotorula benthica sp. nov. and Rhodotorula calyptogenae sp. nov., novel yeast species from animals collected from the deep-sea floor, and Rhodotorula lysiniphila sp. nov., which is related phylogenetically. Int J Syst Evol Microbiol 2003;53:897–903 [CrossRef][PubMed]
    [Google Scholar]
  8. 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 [CrossRef]
    [Google Scholar]
  9. 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 [CrossRef][PubMed]
    [Google Scholar]
  10. Dakal TC, Solieri L, Giudici P. Adaptive response and tolerance to sugar and salt stress in the food yeast Zygosaccharomyces rouxii. Int J Food Microbiol 2014;185:140–157 [CrossRef][PubMed]
    [Google Scholar]
  11. Musa H, Kasim FH, Nagoor Gunny AA, Gopinath SCB. Salt-adapted moulds and yeasts: Potentials in industrial and environmental biotechnology. Process Biochem 2018;69:33–44 [CrossRef]
    [Google Scholar]
  12. 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]
  13. White TJ, Bruns T, Lee S, Taylor J. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In Innis MA, Gelfaud DH, Sninsky JJ, White TJ. (editors) PCR Protocols. A Guide to Methods and Applications San Diego, Calif: Academic Press; 1990; pp.315–322
    [Google Scholar]
  14. Wang X, Chi Z, Yue L, Li J, Li M et al. A marine killer yeast against the pathogenic yeast strain in crab (Portunus trituberculatus) and an optimization of the toxin production. Microbiol Res 2007;162:77–85 [CrossRef][PubMed]
    [Google Scholar]
  15. Kurtzman CP, Fell JW, Boekhout T, Robert V. Methods for isolation, phenotypic characterization and maintenance of yeasts. In Kurtzman CP, Fell JW, Boeckhout T. (editors) The Yeasts: A Taxonomic Study, 5th ed. Amsterdam: Elsevier Science; 2011; pp.87–111
    [Google Scholar]
  16. Tsukatani M, Takiguchi N, Kawasumi T. Analysis of salt-stress specific genes in Zygosaccharomyces rouxii by differential display. Nippon Nogeikagaku Kaishi 1999;73:511–514 [CrossRef]
    [Google Scholar]
  17. Kuraishi H, Katayama-Fujimura Y, Sugiyama J, Yokoyama T. Ubiquinone systems in fungi I. Distribution of ubiquinones in the major families of ascomycetes basidiomycetes and deuteromycetes and their taxonomic implications. Trans Mycol Soc Japan 1985;26:383–395
    [Google Scholar]
  18. Limtong S, Yongmanitchai W, Tun MM, Kawasaki H, Seki T. Kazachstania siamensis sp. nov., an ascomycetous yeast species from forest soil in Thailand. Int J Syst Evol Microbiol 2007;57:419–422 [CrossRef][PubMed]
    [Google Scholar]
  19. Luo R, Liu B, Xie Y, Li Z, Huang W et al. SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler. Gigascience 2012;1:18 [CrossRef][PubMed]
    [Google Scholar]
  20. Stanke M, Tzvetkova A, Morgenstern B. AUGUSTUS at EGASP: using EST, protein and genomic alignments for improved gene prediction in the human genome. Genome Biol 2006;7:S11 [CrossRef][PubMed]
    [Google Scholar]
  21. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H et al. Gene ontology: tool for the unification of biology. Nat Genet 2000;25:25–29 [CrossRef]
    [Google Scholar]
  22. Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B et al. The COG database: an updated version includes eukaryotes. BMC Bioinformatics 2003;4:41 [CrossRef][PubMed]
    [Google Scholar]
  23. Li W, Jaroszewski L, Godzik A. Tolerating some redundancy significantly speeds up clustering of large protein databases. Bioinformatics 2002;18:77–82 [CrossRef][PubMed]
    [Google Scholar]
  24. Bairoch A, Apweiler R. The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000. Nucleic Acids Res 2000;28:45–48 [CrossRef][PubMed]
    [Google Scholar]
  25. Cantarel BL, Coutinho PM, Rancurel C, Bernard T, Lombard V et al. The Carbohydrate-Active EnZymes database (CAZy): an expert resource for glycogenomics. Nucleic Acids Res 2009;37:D233–D238 [CrossRef][PubMed]
    [Google Scholar]
  26. Blin K, Wolf T, Chevrette MG, Lu X, Schwalen CJ et al. AntiSMASH 4.0-improvements in chemistry prediction and gene cluster boundary identification. Nucleic Acids Res 2017;45:W36–W41 [CrossRef][PubMed]
    [Google Scholar]
  27. Kanehisa M, Goto S, Hattori M, Aoki-Kinoshita KF, Itoh M et al. From genomics to chemical genomics: new developments in KEGG. Nucleic Acids Res 2006;34:D354–D357 [CrossRef][PubMed]
    [Google Scholar]
  28. Veras HCT, Parachin NS, Almeida JRM. Comparative assessment of fermentative capacity of different xylose-consuming yeasts. Microb Cell Fact 2017;16:153 [CrossRef][PubMed]
    [Google Scholar]
  29. Cadete RM, de Las Heras AM, Sandström AG, Ferreira C, Gírio F et al. Exploring xylose metabolism in Spathaspora species: XYL1.2 from Spathaspora passalidarum as the key for efficient anaerobic xylose fermentation in metabolic engineered Saccharomyces cerevisiae. Biotechnol Biofuels 2016;9:167 [CrossRef][PubMed]
    [Google Scholar]
  30. Sharma NK, Behera S, Arora R, Kumar S, Sani RK. Xylose transport in yeast for lignocellulosic ethanol production: current status. J Biosci Bioeng 2018;125:259–267 [CrossRef][PubMed]
    [Google Scholar]
  31. Agbogbo FK, Coward-Kelly G. Cellulosic ethanol production using the naturally occurring xylose-fermenting yeast, Pichia stipitis. Biotechnol Lett 2008;30:1515–1524 [CrossRef][PubMed]
    [Google Scholar]
  32. Jeffries TW, Grigoriev IV, Grimwood J, Laplaza JM, Aerts A et al. Genome sequence of the lignocellulose-bioconverting and xylose-fermenting yeast Pichia stipitis. Nat Biotechnol 2007;25:319–326 [CrossRef][PubMed]
    [Google Scholar]
  33. Urbina H, Frank R, Blackwell M. Scheffersomyces cryptocercus: a new xylose-fermenting yeast associated with the gut of wood roaches and new combinations in the Sugiyamaella yeast clade. Mycologia 2017;105:650–660 [CrossRef][PubMed]
    [Google Scholar]
  34. Jeffries TW. Engineering yeasts for xylose metabolism. Curr Opin Biotechnol 2006;17:320–326 [CrossRef][PubMed]
    [Google Scholar]
  35. 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 [CrossRef][PubMed]
    [Google Scholar]
  36. Khunnamwong P, Ribeiro JRA, Garcia KM, Hagler AN, Takashima M et al. Occultifur plantarum f.a., sp. nov., a novel cystobasidiomycetous yeast species. Int J Syst Evol Microbiol 2017;67:2628–2633 [CrossRef][PubMed]
    [Google Scholar]
  37. Sampaio JP, Oberwinkler F. Cystobasidium (Lagerheim) Neuhoff (1924). In Kurtzman CP, Fell JW, Boekhout T. (editors) The Yeasts: A Taxonomic Study, 5th ed.vol. 3 Amsterdam: Elsevier; 2011; pp.1419–1422
    [Google Scholar]
  38. Zhao JH, Bai FY, Guo LD, Jia JH. Rhodotorula pinicola sp. nov., a basidiomycetous yeast species isolated from xylem of pine twigs. FEMS Yeast Res 2002;2:159–163[PubMed]
    [Google Scholar]
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