Denaturing gradient gel electrophoresis and multi-SIR profiles of soil microbial communities from a karst doline at Aggt
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ORIGINAL ARTICLE
Denaturing gradient gel electrophoresis and multi-SIR profiles of soil microbial communities from a karst doline at Aggtelek National Park, Hungary Márton Mucsi 1,2
&
Gergely Krett 2 & Tibor Szili-Kovács 1
&
János Móga 3
&
Andrea K. Borsodi 2,4
Received: 1 June 2020 / Accepted: 1 October 2020 # The Author(s) 2020
Abstract Soils play an important role in the ecosystem of karstic landscapes both as a buffer zone and as a source of acidity to belowground water. Although the microbiota of karstic soils is known to have a great effect on karstification processes, the activity and composition of these communities are largely unknown. This study gives a comparative analysis of soil microbial profiles from different parts of a doline located at Aggtelek, Hungary. The aim was to reveal the relationships between the vegetation type and genetic fingerprints and substrate utilisation (multi-SIR) profiles of the soil microbiota. Soil samples were collected in early and late springs along a transect in a doline covered with different types of vegetation. Genetic fingerprints of bacterial communities were examined by denaturing gradient gel electrophoresis (DGGE) based on the 16S rRNA gene, along with multi-SIR profiles of the microbial communities measured by the MicroResp method using 15 different carbon sources. Genetic fingerprinting indicated that vegetation cover had a strong effect on the composition of soil bacterial communities. Procrustean analysis showed only a weak connection between DGGE and multi-SIR profiles, probably due to the high functional redundancy of the communities. Seasonality had a significant effect on substrate usage, which can be an important factor to consider in future studies. Keywords Karst soil . Bacteria . DGGE . Multi-SIR . MicroResp
Introduction Electronic supplementary material The online version of this article (https://doi.org/10.1007/s12223-020-00828-y) contains supplementary material, which is available to authorized users. * Tibor Szili-Kovács [email protected] Márton Mucsi [email protected] 1
Institute for Soil Sciences and Agricultural Chemistry, Centre for Agricultural Research, Herman Ottó út 15, Budapest H-1022, Hungary
2
Department of Microbiology, ELTE Eötvös Loránd University, Pázmány Péter sétány 1/c, Budapest H-1117, Hungary
3
Department of Physical Geography, ELTE Eötvös Loránd University, Pázmány Péter sétány 1/c, Budapest H-1117, Hungary
4
Danube Research Institute, Centre for Ecological Research, Karolina út 29, Budapest H-1113, Hungary
Karstic landscapes provide many ecosystem services, such as the production of drinking water for about 25% of the global population (Ford and Williams 2007). Also, because of their special microclimatic effects, karst dolines provide refugee to many vascular plants (Bátori et al. 2014). In the past few centuries, however, human activities had great impact on karstic ecosystems by influencing both karst forming processes and ecosystem services (Móga et al. 2013; Gutiérrez et al. 2014). The microbia
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