Cargando…

Species Accumulation Curves and Incidence-Based Species Richness Estimators to Appraise the Diversity of Cultivable Yeasts from Beech Forest Soils

BACKGROUND: Yeast-like fungi inhabit soils throughout all climatic zones in a great abundance. While recent estimations predicted a plethora of prokaryotic taxa in one gram of soil, similar data are lacking for fungi, especially yeasts. METHODOLOGY/PRINCIPAL FINDINGS: We assessed the diversity of so...

Descripción completa

Detalles Bibliográficos
Autores principales: Yurkov, Andrey M., Kemler, Martin, Begerow, Dominik
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2011
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3155558/
https://www.ncbi.nlm.nih.gov/pubmed/21858201
http://dx.doi.org/10.1371/journal.pone.0023671
_version_ 1782210138932772864
author Yurkov, Andrey M.
Kemler, Martin
Begerow, Dominik
author_facet Yurkov, Andrey M.
Kemler, Martin
Begerow, Dominik
author_sort Yurkov, Andrey M.
collection PubMed
description BACKGROUND: Yeast-like fungi inhabit soils throughout all climatic zones in a great abundance. While recent estimations predicted a plethora of prokaryotic taxa in one gram of soil, similar data are lacking for fungi, especially yeasts. METHODOLOGY/PRINCIPAL FINDINGS: We assessed the diversity of soil yeasts in different forests of central Germany using cultivation-based techniques with subsequent identification based on rDNA sequence data. Based on experiments using various pre-cultivation sample treatment and different cultivation media we obtained the highest number of yeasts by analysing mixed soil samples with a single nutrient-rich medium. Additionally, several species richness estimators were applied to incidence-based data of 165 samples. All of them predicted a similar range of yeast diversity, namely 14 to 16 species. Randomized species richness curves reached saturation in all applied estimators, thus indicating that the majority of species is detected after approximately 30 to 50 samples analysed. CONCLUSIONS/SIGNIFICANCE: In this study we demonstrate that robust species identification as well as mathematical approaches are essential to reliably estimate the sampling effort needed to describe soil yeast communities. This approach has great potential for optimisation of cultivation techniques and allows high throughput analysis in the future.
format Online
Article
Text
id pubmed-3155558
institution National Center for Biotechnology Information
language English
publishDate 2011
publisher Public Library of Science
record_format MEDLINE/PubMed
spelling pubmed-31555582011-08-19 Species Accumulation Curves and Incidence-Based Species Richness Estimators to Appraise the Diversity of Cultivable Yeasts from Beech Forest Soils Yurkov, Andrey M. Kemler, Martin Begerow, Dominik PLoS One Research Article BACKGROUND: Yeast-like fungi inhabit soils throughout all climatic zones in a great abundance. While recent estimations predicted a plethora of prokaryotic taxa in one gram of soil, similar data are lacking for fungi, especially yeasts. METHODOLOGY/PRINCIPAL FINDINGS: We assessed the diversity of soil yeasts in different forests of central Germany using cultivation-based techniques with subsequent identification based on rDNA sequence data. Based on experiments using various pre-cultivation sample treatment and different cultivation media we obtained the highest number of yeasts by analysing mixed soil samples with a single nutrient-rich medium. Additionally, several species richness estimators were applied to incidence-based data of 165 samples. All of them predicted a similar range of yeast diversity, namely 14 to 16 species. Randomized species richness curves reached saturation in all applied estimators, thus indicating that the majority of species is detected after approximately 30 to 50 samples analysed. CONCLUSIONS/SIGNIFICANCE: In this study we demonstrate that robust species identification as well as mathematical approaches are essential to reliably estimate the sampling effort needed to describe soil yeast communities. This approach has great potential for optimisation of cultivation techniques and allows high throughput analysis in the future. Public Library of Science 2011-08-12 /pmc/articles/PMC3155558/ /pubmed/21858201 http://dx.doi.org/10.1371/journal.pone.0023671 Text en Yurkov et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
spellingShingle Research Article
Yurkov, Andrey M.
Kemler, Martin
Begerow, Dominik
Species Accumulation Curves and Incidence-Based Species Richness Estimators to Appraise the Diversity of Cultivable Yeasts from Beech Forest Soils
title Species Accumulation Curves and Incidence-Based Species Richness Estimators to Appraise the Diversity of Cultivable Yeasts from Beech Forest Soils
title_full Species Accumulation Curves and Incidence-Based Species Richness Estimators to Appraise the Diversity of Cultivable Yeasts from Beech Forest Soils
title_fullStr Species Accumulation Curves and Incidence-Based Species Richness Estimators to Appraise the Diversity of Cultivable Yeasts from Beech Forest Soils
title_full_unstemmed Species Accumulation Curves and Incidence-Based Species Richness Estimators to Appraise the Diversity of Cultivable Yeasts from Beech Forest Soils
title_short Species Accumulation Curves and Incidence-Based Species Richness Estimators to Appraise the Diversity of Cultivable Yeasts from Beech Forest Soils
title_sort species accumulation curves and incidence-based species richness estimators to appraise the diversity of cultivable yeasts from beech forest soils
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3155558/
https://www.ncbi.nlm.nih.gov/pubmed/21858201
http://dx.doi.org/10.1371/journal.pone.0023671
work_keys_str_mv AT yurkovandreym speciesaccumulationcurvesandincidencebasedspeciesrichnessestimatorstoappraisethediversityofcultivableyeastsfrombeechforestsoils
AT kemlermartin speciesaccumulationcurvesandincidencebasedspeciesrichnessestimatorstoappraisethediversityofcultivableyeastsfrombeechforestsoils
AT begerowdominik speciesaccumulationcurvesandincidencebasedspeciesrichnessestimatorstoappraisethediversityofcultivableyeastsfrombeechforestsoils