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A Differential Metabarcoding Approach to Describe Taxonomy Profiles of Bacteria and Archaea in the Saltern of Margherita di Savoia (Italy)

Microorganisms inhabiting saline environments are an interesting ecological model for the study of the adaptation of organisms to extreme living conditions and constitute a precious resource of enzymes and bioproducts for biotechnological applications. We analyzed the microbial communities in nine p...

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Autores principales: Leoni, Claudia, Volpicella, Mariateresa, Fosso, Bruno, Manzari, Caterina, Piancone, Elisabetta, Dileo, Maria C. G., Arcadi, Erika, Yakimov, Michail, Pesole, Graziano, Ceci, Luigi R.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7356649/
https://www.ncbi.nlm.nih.gov/pubmed/32580393
http://dx.doi.org/10.3390/microorganisms8060936
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author Leoni, Claudia
Volpicella, Mariateresa
Fosso, Bruno
Manzari, Caterina
Piancone, Elisabetta
Dileo, Maria C. G.
Arcadi, Erika
Yakimov, Michail
Pesole, Graziano
Ceci, Luigi R.
author_facet Leoni, Claudia
Volpicella, Mariateresa
Fosso, Bruno
Manzari, Caterina
Piancone, Elisabetta
Dileo, Maria C. G.
Arcadi, Erika
Yakimov, Michail
Pesole, Graziano
Ceci, Luigi R.
author_sort Leoni, Claudia
collection PubMed
description Microorganisms inhabiting saline environments are an interesting ecological model for the study of the adaptation of organisms to extreme living conditions and constitute a precious resource of enzymes and bioproducts for biotechnological applications. We analyzed the microbial communities in nine ponds with increasing salt concentrations (salinity range 4.9–36.0%) of the Saltern of Margherita di Savoia (Italy), the largest thalassohaline saltern in Europe. A deep-metabarcoding NGS procedure addressing separately the V5-V6 and V3-V4 hypervariable regions of the 16S rRNA gene of Bacteria and Archaea, respectively, and a CARD-FISH (catalyzed reporter deposition fluorescence in situ hybridization) analysis allowed us to profile the dynamics of microbial populations at the different salt concentrations. Both the domains were detected throughout the saltern, even if the low relative abundance of Archaea in the three ponds with the lowest salinities prevented the construction of the relative amplicon libraries. The highest cell counts were recorded at 14.5% salinity for Bacteria and at 24.1% salinity for Archaea. While Bacteria showed the greatest number of genera in the first ponds (salinity range 4.9–14.5%), archaeal genera were more numerous in the last ponds of the saltern (salinity 24.1–36.0%). Among prokaryotes, Salinibacter was the genus with the maximum abundance (~49% at 34.6% salinity). Other genera detected at high abundance were the archaeal Haloquadratum (~43% at 36.0% salinity) and Natronomonas (~18% at 13.1% salinity) and the bacterial “Candidatus Aquiluna” (~19% at 14.5% salinity). Interestingly, “Candidatus Aquiluna” had not been identified before in thalassohaline waters.
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spelling pubmed-73566492020-07-22 A Differential Metabarcoding Approach to Describe Taxonomy Profiles of Bacteria and Archaea in the Saltern of Margherita di Savoia (Italy) Leoni, Claudia Volpicella, Mariateresa Fosso, Bruno Manzari, Caterina Piancone, Elisabetta Dileo, Maria C. G. Arcadi, Erika Yakimov, Michail Pesole, Graziano Ceci, Luigi R. Microorganisms Article Microorganisms inhabiting saline environments are an interesting ecological model for the study of the adaptation of organisms to extreme living conditions and constitute a precious resource of enzymes and bioproducts for biotechnological applications. We analyzed the microbial communities in nine ponds with increasing salt concentrations (salinity range 4.9–36.0%) of the Saltern of Margherita di Savoia (Italy), the largest thalassohaline saltern in Europe. A deep-metabarcoding NGS procedure addressing separately the V5-V6 and V3-V4 hypervariable regions of the 16S rRNA gene of Bacteria and Archaea, respectively, and a CARD-FISH (catalyzed reporter deposition fluorescence in situ hybridization) analysis allowed us to profile the dynamics of microbial populations at the different salt concentrations. Both the domains were detected throughout the saltern, even if the low relative abundance of Archaea in the three ponds with the lowest salinities prevented the construction of the relative amplicon libraries. The highest cell counts were recorded at 14.5% salinity for Bacteria and at 24.1% salinity for Archaea. While Bacteria showed the greatest number of genera in the first ponds (salinity range 4.9–14.5%), archaeal genera were more numerous in the last ponds of the saltern (salinity 24.1–36.0%). Among prokaryotes, Salinibacter was the genus with the maximum abundance (~49% at 34.6% salinity). Other genera detected at high abundance were the archaeal Haloquadratum (~43% at 36.0% salinity) and Natronomonas (~18% at 13.1% salinity) and the bacterial “Candidatus Aquiluna” (~19% at 14.5% salinity). Interestingly, “Candidatus Aquiluna” had not been identified before in thalassohaline waters. MDPI 2020-06-22 /pmc/articles/PMC7356649/ /pubmed/32580393 http://dx.doi.org/10.3390/microorganisms8060936 Text en © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Leoni, Claudia
Volpicella, Mariateresa
Fosso, Bruno
Manzari, Caterina
Piancone, Elisabetta
Dileo, Maria C. G.
Arcadi, Erika
Yakimov, Michail
Pesole, Graziano
Ceci, Luigi R.
A Differential Metabarcoding Approach to Describe Taxonomy Profiles of Bacteria and Archaea in the Saltern of Margherita di Savoia (Italy)
title A Differential Metabarcoding Approach to Describe Taxonomy Profiles of Bacteria and Archaea in the Saltern of Margherita di Savoia (Italy)
title_full A Differential Metabarcoding Approach to Describe Taxonomy Profiles of Bacteria and Archaea in the Saltern of Margherita di Savoia (Italy)
title_fullStr A Differential Metabarcoding Approach to Describe Taxonomy Profiles of Bacteria and Archaea in the Saltern of Margherita di Savoia (Italy)
title_full_unstemmed A Differential Metabarcoding Approach to Describe Taxonomy Profiles of Bacteria and Archaea in the Saltern of Margherita di Savoia (Italy)
title_short A Differential Metabarcoding Approach to Describe Taxonomy Profiles of Bacteria and Archaea in the Saltern of Margherita di Savoia (Italy)
title_sort differential metabarcoding approach to describe taxonomy profiles of bacteria and archaea in the saltern of margherita di savoia (italy)
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7356649/
https://www.ncbi.nlm.nih.gov/pubmed/32580393
http://dx.doi.org/10.3390/microorganisms8060936
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