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Yeast communities of primary and secondary peat swamp forests in southern Thailand

  • Chanita Boonmak
  • Pannida Khunnamwong
  • Savitree LimtongEmail author
Original Paper

Abstract

Khanthuli peat swamp forest (PSF) is one of a few fertile peat swamp forests that remain in Thailand. It is composed of primary PSF and some areas which have been degraded to secondary PSF due to drought, wildfires and land conversion, which have resulted in a decrease in peat layers and change in the species of the plant community. In this study, diversity of yeasts in peat from both primary and secondary PSF areas of the Khanthuli PSF was determined based on culture-dependent approaches, using dilution plate and enrichment techniques. A total of 66 yeast isolates were identified by the analysis of sequence similarity of the D1/D2 region of the large subunit rRNA gene or the combined analysis of sequence of the D1/D2 region and internal transcribed spacer region and confirmed by phylogenetic analysis of the D1/D2 region to belong to 22 known yeast species and six potential new species in the genera Candida (Kurtzmaniella, Lodderomyces, Ogataea, Pichia and Yamadazyma clades), Clavispora, Cyberlindnera, Galactomyces, Hanseniaspora, Metschnikowia, Saturnispora, Schwanniomyces, Cryptotrichosporon, Pichia, Curvibasidium, Papiliotrema, Rhodotorula, and Saitozyma. The most prevalent yeasts in the primary PSF were Cyberlindnera subsufficiens and Galactomyces candidus, while Saitozyma podzolica was the most frequently found in peat from the secondary PSF. Common yeast species in both, primary and secondary PSF, were Cy. subsufficiens, G. candidus and Rhodotorula mucilaginosa.

Keywords

Peat swamp forests Thailand Yeast diversity 

Notes

Author contributions

CB: Data analysis and wrote the manuscript. PK: Performed experiments and data analysis. SL: Designed study, data discussion and editing the manuscript.

Funding

This work was supported by the Center of Excellence on Biodiversity, Postgraduate Education and Research Development Office (PERDO) through the Project ‘Diversity of yeast in peat swamp forest and their potential in agricultural application’ Grant No. BDC-PG1-160001.

Compliance with ethical standards

Conflicts of interest

The authors declare that there are no conflicts of interest.

Ethical approval

This article does not contain any studies with human participants or animals performed by any of the authors.

Supplementary material

10482_2019_1317_MOESM1_ESM.docx (15 kb)
Supplementary file1 (DOCX 14 kb)

References

  1. Agus F, Hairiah K, Mulyani A (2011) Measuring carbon stock in peat soils: practical guidelines. World Agroforestry Centre (ICRAF) Southeast Asia Regional Program, Indonesian Centre for Agricultural Land Resources Research and Development, BogorGoogle Scholar
  2. Ahearn DG, Roth FJ, Meyers SP (1968) Ecology and characterization of yeasts from aquatic regions of south Florida. Mar Biol 1:291–308CrossRefGoogle Scholar
  3. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402CrossRefPubMedPubMedCentralGoogle Scholar
  4. Am-In S, Limtong S, Yongmanitchai W, Jindamorakot S (2011) Candida andamanensis sp. nov., Candida laemsonensis sp. nov. and Candida ranongensis sp. nov., anamorphic yeast species isolated from estuarine waters in a Thai mangrove forest. Int J Syst Evol Microbiol 61(Pt 2):454–461CrossRefPubMedGoogle Scholar
  5. Andriesse JP (1988) Nature and management of tropical peat soils, 1st edn. FAO, RomeGoogle Scholar
  6. Birkhofer K, Schöning I, Alt F, Herold N, Klarner B, Maraun M, Schrumpf M (2012) General relationships between abiotic soil properties and soil biota across spatial scales and different land-use types. PLoS ONE 7:e43292CrossRefPubMedPubMedCentralGoogle Scholar
  7. Boonmak C, Jindamorakot S, Kawasaki H, Yongmanitchai W, Suwanarit P, Nakase T, Limtong S (2009) Candida siamensis sp. nov., an anamorphic yeast species in the Saturnispora clade isolated in Thailand. FEMS Yeast Res 9(4):668–672CrossRefPubMedGoogle Scholar
  8. Boonyuen N, Sri-Indrasutdhi V, Suetrong S, Sivichai S, Jones EG (2012) Annulatascus aquatorba sp. nov., a lignicolous freshwater ascomycete from Sirindhorn Peat Swamp Forest, Narathiwat. Thailand Mycologia 104:746–757CrossRefPubMedGoogle Scholar
  9. Brown S, Lugo AE (1990) Tropical secondary forests. J Trop Ecol 6(1):1–32CrossRefGoogle Scholar
  10. Buzzini P, Lachance MA, Yurkov A (2017) Yeasts in natural ecosystems: diversity. Springer, SwitzerlandCrossRefGoogle Scholar
  11. Colombo AL, Júnior JNA, Guinea J (2017) Emerging multidrug-resistant Candida species. Curr Opin Infect Dis 30(6):528–538CrossRefPubMedGoogle Scholar
  12. Evers S, Yule CM, Padfield R, O'Reilly P, Varkkey H (2017) Keep wetlands wet: the myth of sustainable development of tropical peatlands—implications for policies and management. Global Change Biol 23(2):534–549CrossRefGoogle Scholar
  13. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791CrossRefGoogle Scholar
  14. Firdaus MS, Gandaseca S, Ahmed OH (2011) Effect of drainage and land clearing on selected peat soil physical properties of secondary peat swamp forest. Int J Phys Sci 6(23):5462–5466Google Scholar
  15. Ghazoul J, Sheil D (2010) Tropical rain forest ecology, diversity, and conservation. Oxford University Press Inc, New YorkGoogle Scholar
  16. Guinea J (2014) Global trends in the distribution of Candida species causing candidemia. Clin Microbiol Infect 20(6):5–10CrossRefPubMedGoogle Scholar
  17. Hadi A, Fatah L, Affandi DN, Bakar RA, Inubushi K (2012) Population and genetic diversities of bacteria related to nitrous oxide and methane in peat soils of South Kalimantan, Indonesia. Malays J Soil Sci 16:121–135Google Scholar
  18. Hagler AN, Mendonça-Hagler LC, Pagnocca FC (2017) Yeasts in aquatic ecotone habitats. In: Buzzini P, Lachance MA, Yurkov A (eds) Yeasts in natural ecosystems: diversity. Springer, Switzerland, pp 70–74Google Scholar
  19. Hankaew MC (2000) Successional trend of peat swamp forests at Phru Toh Daeng and Phru Kuan Kreng, Southern Thailand. Dissertation, Kasetsart UniversityGoogle Scholar
  20. Jackson CR, Liew KC, Yule CM (2009) Structural and functional changes with depth in microbial communities in a tropical Malaysian peat swamp forest. Microb Ecol 57:402–412CrossRefPubMedGoogle Scholar
  21. Jaiboon K, Lertwattanasakul N, Limtong P, Limtong S (2016) 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 15:755–770CrossRefGoogle Scholar
  22. John P, Sherry M, Bruce H, Jan J, John LK, Maurice E, Ann MW, Nancy W (2003) Recommended methods of manure analysis. University of Wisconsin–Madison, MadisonGoogle Scholar
  23. Kachalkin AV, Yurkov AM (2012) Yeast communities in Sphagnum phyllosphere along the temperature-moisture ecocline in the boreal forest-swamp ecosystem and description of Candida sphagnicola sp. nov. Antonie Van Leeuwenhoek 102:29–43CrossRefPubMedGoogle Scholar
  24. Kachalkin AV, Glushakova AM, Yurkov AM, Chernov IY (2008) Characterization of yeast groupings in the phyllosphere of Sphagnum mosses. Microbiology 77:474–481CrossRefGoogle Scholar
  25. Kaewwichian R, Yongmanitchai W, Srisuk N, Fujiyama K, Limtong S (2010) Geotrichum siamensis sp. nov. and Geotrichum phurueaensis sp. nov., two asexual arthroconidial yeast species isolated in Thailand. FEMS Yeast Res 10(2):214–220CrossRefGoogle Scholar
  26. Kaewwichian R, Khunnamwong P, Jindamorakot S, Lertwattanasakul N, Limtong S (2018) Cryptotrichosporon siamense sp. nov., a ballistoconidium-forming yeast species in Trichosporonales isolated in Thailand. Int J Syst Evol Microbiol 68:2473–2477CrossRefPubMedGoogle Scholar
  27. Kanokratana P, Uengwetwanit T, Rattanachomsri U, Bunterngsook B, Nimchua T, Tangphatsornruang S, Plengvidhya V, Champreda V, Eurwilaichitr L (2011) Insights into the phylogeny and metabolic potential of a primary tropical peat swamp forest microbial community by metagenomic analysis. Microb Ecol 61:518–528CrossRefPubMedGoogle Scholar
  28. Keddy PA (2010) Wetland ecology: principles and conversation, 2nd edn. The Cambridge University Press, CambridgeCrossRefGoogle Scholar
  29. Khunnamwong P, Jindamorakot S, Limtong S (2018) Endophytic yeasts diversity in leaf tissue of rice, corn and sugarcane cultivated in Thailand assessed by a culture-dependent approach. Fungal Biol 122:785–799CrossRefPubMedGoogle Scholar
  30. Khunnamwong P, Limtong S (2018) Saturnispora kantuleensis f.a., sp. nov., a novel yeast species isolated from peat in a tropical peat swamp forest in Thailand. Int J Syst Evol Microbiol 68:1160–1164CrossRefPubMedGoogle Scholar
  31. Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33:1870–1874CrossRefPubMedPubMedCentralGoogle Scholar
  32. Kurtzman CP (2011) The yeasts, a taxonomic study, 5th edn. Elsevier, London, pp 521–543CrossRefGoogle Scholar
  33. Limtong S, Kaewwichian R, Yongmanitchai W, Kawasaki H (2014) Diversity of culturable yeasts in phylloplane of sugarcane in Thailand and their capability to produce indole-3-acetic acid. World J Microbiol Biotechnol 30:1785–1796CrossRefPubMedGoogle Scholar
  34. Longman KA, Jenik J (1990) Tropical forest and its environment, 2nd edn. Longman Singapore Publishers (PTE) Ltd, SingaporeGoogle Scholar
  35. Nei M, Kumar S (2000) Molecular evolution and phylogenetics. Oxford University Press, New YorkGoogle Scholar
  36. Nitiyon S, Khunnamwong P, Lertwattanasakul N, Limtong S (2018) Candida kantuleensis sp. nov., a d-xylose-fermenting yeast species isolated from peat in a tropical peat swamp forest. Int J Syst Evol Microbiol 68:2313–2318CrossRefPubMedGoogle Scholar
  37. Nuyim T (2003) Manual on peat swamp forests rehabitation and planting in Thailand. Pikulthong Royal Development Study Centre National Park, NarathiwatGoogle Scholar
  38. Office of Environmental Policy and Planning (2002) Biodiversity in Khanthuli wetland. Ministry of Science and Technology, BangkokGoogle Scholar
  39. Office of Natural Resources and Environmental Policy and Planning (2009) A survey of wetland status in Thailand: swamp. https://chm-thai.onep.go.th/chm/Inlandwater/data/peat%20survey/index.html. Accessed 7 Sept 2018
  40. Page S, Rieley JO, Banks CJ (2011) Global and regional importance of the tropical peatland carbon pool. Global Change Biol 17:798–818CrossRefGoogle Scholar
  41. Pinnoi A, Lumyong S, Hyde KD, Jones EG (2006) Biodiversity of fungi on the palm Eleiodoxa conferta in Sirindhorn peat swamp forest, Narathiwat, Thailand. Fungal Divers 22:205–218Google Scholar
  42. Polburee P, Lertwattanasakul N, Limtong P, Groenewald M, Limtong S (2017) Nakazawaea todaengensis f.a., sp. nov., a yeast isolated from a peat swamp forest in Thailand. Int J Syst Evol Microbiol 67:2377–2382CrossRefPubMedGoogle Scholar
  43. Polyakova AV, Chernov IY, Panikov NS (2001) 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 70:617–622CrossRefGoogle Scholar
  44. Posa MRC, Wijedasa LS, Corlett RT (2011) Biodiversity and conservation of tropical peat swamp forests. Bioscience 61:49–57CrossRefGoogle Scholar
  45. Rieley J, Page S (2016) Tropical peatland of the world. In: Osaki M, Tsuji N (eds) Tropical peatland ecosystems. Springer, Tokyo, pp 3–32CrossRefGoogle Scholar
  46. Sirirattanagon S (1994) Structural characteristics of To Daeng Peat Swamp Forest, Changwat Narathiwat. Dissertation, Kasetsart UniversityGoogle Scholar
  47. Sparks DL, Page AL, Helmke PA, Loeppert RH, Soluanpour PN, Tabatabai MA, Johnston CT, Sumner ME (1996) Method of soil analysis part 3: chemical method. Soil Science Society of America, Inc., American Society of Agronomy and Inc., MadisonGoogle Scholar
  48. Starmer WT, Lachance MA (2011) Yeast ecology. In: Kurtzman CP, Fell JW, Boekhout T (eds) The yeasts, a taxonomic study, 5th edn. Elsevier, London, pp 65–69CrossRefGoogle Scholar
  49. Stivrins N, Ozola I, Gałka M, Kuske E, Alliksaar T, Andersen TJ, Lamentowicz M, Wulf S, Reitalu T (2017) Drivers of peat accumulation rate in a raised bog: impact of drainage, climate, and local vegetation composition. Mires Peat 19(8):1–19Google Scholar
  50. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The Clustal X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 24:4876–4882CrossRefGoogle Scholar
  51. Thormann MN, Rice AV, Beilman DW (2007) Yeasts in peatlands: a review of richness and roles in peat decomposition. Wetlands 27:761–773CrossRefGoogle Scholar
  52. Tiner RW (1999) Wetland indicators: a guide to wetland identification, delineation, classification, and mapping. Lewis publishers, New YorkCrossRefGoogle Scholar
  53. Vijarnsorn P, Suzuki K, Kyuma K, Wada E, Nagano T, Takai Y (1995) A tropical swamp forest ecosystem and its greenhouse gas emission. Nodai Research Institute, TokyoGoogle Scholar
  54. Walkley A, Black IA (1934) An examination of the Degtjareff method for determining soil organic matter and a proposed modification of the chromic acid titration method. Soil Sci 37:29–38CrossRefGoogle Scholar
  55. Wang H, Xu YC, Hsueh PR (2016) Epidemiology of candidemia and antifungal susceptibility in invasive Candida species in the Asia-Pacific region. Future Microbiol 11:1461–1477CrossRefPubMedGoogle Scholar
  56. Whitmore TC (1975) Tropical rain forests of the Far East. Clarendon Press, OxfordGoogle Scholar
  57. Wösten JHM, Van Den Berg J, Van Eijk P, Gevers GJM, Giesen WBJT, Hooijer A, Idris A, Leenman PH, Rais DS, Siderius C, Silvius MJ, Suryadiputra N, Wibisono IT (2006) Interrelationships between hydrology and ecology in fire degraded tropical peat swamp forests. Water Resour Dev 22(1):157–174CrossRefGoogle Scholar
  58. Yurkov AM (2018) Yeasts of the soil: obscure but precious. Yeast 35(5):369–378CrossRefPubMedPubMedCentralGoogle Scholar
  59. Yurkov AM, Kemler M, Begerow D (2012) Assessment of yeast diversity in soils under different management regimes. Fungal Ecol 5(1):24–35CrossRefGoogle Scholar
  60. Zuza-Alves DL, Silva-Rocha WP, Chaves GM (2017) An update on Candida tropicalis based on basic and clinical approaches. Front Microbiol 8:1927CrossRefPubMedPubMedCentralGoogle Scholar

Copyright information

© Springer Nature Switzerland AG 2019

Authors and Affiliations

  • Chanita Boonmak
    • 1
  • Pannida Khunnamwong
    • 1
  • Savitree Limtong
    • 1
    • 2
    Email author
  1. 1.Department of Microbiology, Faculty of ScienceKasetsart UniversityBangkokThailand
  2. 2.Academy of ScienceThe Royal Society of ThailandBangkokThailand

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