Environmental DNA: Preliminary Characterization of Microbiota in Three Sicilian Lakes

ABSTRACT Freshwater ecosystems play a key role in biogeochemical cycles and face various anthropogenic impacts. Understanding microbial communities within these ecosystems is crucial for ecosystem management and conservation. This study conducted a metabarcoding analysis of the bacterial 16S rDNA of...

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Published inEcology and evolution Vol. 15; no. 4; pp. e71276 - n/a
Main Authors Mauro, Manuela, Villanova, Valeria, Valvo, Mario Lo, Alduina, Rosa, Radovic, Slobodanka, Vizzini, Aiti, Orecchio, Grazia, Longo, Francesco, Badalamenti, Rosario, Ferrantelli, Vincenzo, Cammilleri, Gaetano, Mauro, Annamaria, Arizza, Vincenzo, Vazzana, Mirella
Format Journal Article
LanguageEnglish
Published England John Wiley & Sons, Inc 01.04.2025
Wiley
Subjects
Anthropogenic factors
Aquatic ecosystems
Biodiversity
Biogeochemical cycles
Biogeochemistry
Climate change
Composition
Conservation
Cyanobacteria
Ecosystem management
eDNA
Environmental DNA
Freshwater ecosystems
Freshwater lakes
Genetic engineering
Human influences
Lakes
metabarcoding analysis
Microbial activity
Microbiomes
Microbiota
Microorganisms
rRNA 16S
Taxonomy
Water conservation
Water shortages
Water supply
microbiota
metabarcoding analysis
eDNA
freshwater ecosystems
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Abstract ABSTRACT Freshwater ecosystems play a key role in biogeochemical cycles and face various anthropogenic impacts. Understanding microbial communities within these ecosystems is crucial for ecosystem management and conservation. This study conducted a metabarcoding analysis of the bacterial 16S rDNA of environmental DNA (eDNA) to investigate the microbial diversity and composition in three Sicilian lakes (Poma, Piana, and Scanzano). The results revealed a common core microbiota in all the lakes, with Poma and Piana showing similar compositions, followed by Scanzano. Key bacterial phyla identified as core members across the sampled sites included Actinobacteriota, Proteobacteria, Bacteroidota, Verrucomicrobiota, Planctomycetota, and Cyanobacteria. Additionally, specific bacterial families such as Comamonadaceae, Burkholderiaceae, Ilumatobacteraceae, and Sporichthyaceae uniquely contributed to the microbial community structures. eDNA demonstrates potential as a quicker and less invasive tool to investigate biodiversity studies for these sites. The findings illuminate the intricate microbial dynamics within Sicilian freshwater ecosystems and emphasize the importance of considering microbial diversity in freshwater conservation and management strategies. Microbial content depends on the origin of the sample. This figure shows the relative abundance of bacteria in three lakes (Poma, Piana, and Scanzano) in Sicily, giving the first insights into microbial communities residing in those environments.
AbstractList ABSTRACT Freshwater ecosystems play a key role in biogeochemical cycles and face various anthropogenic impacts. Understanding microbial communities within these ecosystems is crucial for ecosystem management and conservation. This study conducted a metabarcoding analysis of the bacterial 16S rDNA of environmental DNA (eDNA) to investigate the microbial diversity and composition in three Sicilian lakes (Poma, Piana, and Scanzano). The results revealed a common core microbiota in all the lakes, with Poma and Piana showing similar compositions, followed by Scanzano. Key bacterial phyla identified as core members across the sampled sites included Actinobacteriota, Proteobacteria, Bacteroidota, Verrucomicrobiota, Planctomycetota, and Cyanobacteria. Additionally, specific bacterial families such as Comamonadaceae, Burkholderiaceae, Ilumatobacteraceae, and Sporichthyaceae uniquely contributed to the microbial community structures. eDNA demonstrates potential as a quicker and less invasive tool to investigate biodiversity studies for these sites. The findings illuminate the intricate microbial dynamics within Sicilian freshwater ecosystems and emphasize the importance of considering microbial diversity in freshwater conservation and management strategies. Microbial content depends on the origin of the sample. This figure shows the relative abundance of bacteria in three lakes (Poma, Piana, and Scanzano) in Sicily, giving the first insights into microbial communities residing in those environments.
Freshwater ecosystems play a key role in biogeochemical cycles and face various anthropogenic impacts. Understanding microbial communities within these ecosystems is crucial for ecosystem management and conservation. This study conducted a metabarcoding analysis of the bacterial 16S rDNA of environmental DNA (eDNA) to investigate the microbial diversity and composition in three Sicilian lakes (Poma, Piana, and Scanzano). The results revealed a common core microbiota in all the lakes, with Poma and Piana showing similar compositions, followed by Scanzano. Key bacterial phyla identified as core members across the sampled sites included Actinobacteriota, Proteobacteria, Bacteroidota, Verrucomicrobiota, Planctomycetota, and Cyanobacteria. Additionally, specific bacterial families such as Comamonadaceae, Burkholderiaceae, Ilumatobacteraceae, and Sporichthyaceae uniquely contributed to the microbial community structures. eDNA demonstrates potential as a quicker and less invasive tool to investigate biodiversity studies for these sites. The findings illuminate the intricate microbial dynamics within Sicilian freshwater ecosystems and emphasize the importance of considering microbial diversity in freshwater conservation and management strategies.
Freshwater ecosystems play a key role in biogeochemical cycles and face various anthropogenic impacts. Understanding microbial communities within these ecosystems is crucial for ecosystem management and conservation. This study conducted a metabarcoding analysis of the bacterial 16S rDNA of environmental DNA (eDNA) to investigate the microbial diversity and composition in three Sicilian lakes (Poma, Piana, and Scanzano). The results revealed a common core microbiota in all the lakes, with Poma and Piana showing similar compositions, followed by Scanzano. Key bacterial phyla identified as core members across the sampled sites included Actinobacteriota, Proteobacteria, Bacteroidota, Verrucomicrobiota, Planctomycetota, and Cyanobacteria. Additionally, specific bacterial families such as Comamonadaceae, Burkholderiaceae, Ilumatobacteraceae, and Sporichthyaceae uniquely contributed to the microbial community structures. eDNA demonstrates potential as a quicker and less invasive tool to investigate biodiversity studies for these sites. The findings illuminate the intricate microbial dynamics within Sicilian freshwater ecosystems and emphasize the importance of considering microbial diversity in freshwater conservation and management strategies.Freshwater ecosystems play a key role in biogeochemical cycles and face various anthropogenic impacts. Understanding microbial communities within these ecosystems is crucial for ecosystem management and conservation. This study conducted a metabarcoding analysis of the bacterial 16S rDNA of environmental DNA (eDNA) to investigate the microbial diversity and composition in three Sicilian lakes (Poma, Piana, and Scanzano). The results revealed a common core microbiota in all the lakes, with Poma and Piana showing similar compositions, followed by Scanzano. Key bacterial phyla identified as core members across the sampled sites included Actinobacteriota, Proteobacteria, Bacteroidota, Verrucomicrobiota, Planctomycetota, and Cyanobacteria. Additionally, specific bacterial families such as Comamonadaceae, Burkholderiaceae, Ilumatobacteraceae, and Sporichthyaceae uniquely contributed to the microbial community structures. eDNA demonstrates potential as a quicker and less invasive tool to investigate biodiversity studies for these sites. The findings illuminate the intricate microbial dynamics within Sicilian freshwater ecosystems and emphasize the importance of considering microbial diversity in freshwater conservation and management strategies.
ABSTRACT Freshwater ecosystems play a key role in biogeochemical cycles and face various anthropogenic impacts. Understanding microbial communities within these ecosystems is crucial for ecosystem management and conservation. This study conducted a metabarcoding analysis of the bacterial 16S rDNA of environmental DNA (eDNA) to investigate the microbial diversity and composition in three Sicilian lakes (Poma, Piana, and Scanzano). The results revealed a common core microbiota in all the lakes, with Poma and Piana showing similar compositions, followed by Scanzano. Key bacterial phyla identified as core members across the sampled sites included Actinobacteriota, Proteobacteria, Bacteroidota, Verrucomicrobiota, Planctomycetota, and Cyanobacteria. Additionally, specific bacterial families such as Comamonadaceae, Burkholderiaceae, Ilumatobacteraceae, and Sporichthyaceae uniquely contributed to the microbial community structures. eDNA demonstrates potential as a quicker and less invasive tool to investigate biodiversity studies for these sites. The findings illuminate the intricate microbial dynamics within Sicilian freshwater ecosystems and emphasize the importance of considering microbial diversity in freshwater conservation and management strategies.
Author Mauro, Manuela
Badalamenti, Rosario
Radovic, Slobodanka
Cammilleri, Gaetano
Vazzana, Mirella
Villanova, Valeria
Arizza, Vincenzo
Alduina, Rosa
Vizzini, Aiti
Longo, Francesco
Valvo, Mario Lo
Mauro, Annamaria
Ferrantelli, Vincenzo
Orecchio, Grazia
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  surname: Vazzana
  fullname: Vazzana, Mirella
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Copyright 2025 The Author(s). published by British Ecological Society and John Wiley & Sons Ltd.
2025 The Author(s). Ecology and Evolution published by British Ecological Society and John Wiley & Sons Ltd.
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Issue 4
Keywords microbiota
metabarcoding analysis
eDNA
freshwater ecosystems
Language English
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Notes Funding
This work was supported by the European Union–FESR o FSE, PON Ricerca e Innovazione 2014‐2020–DM 1062/202, by the European Commission—NextGenerationEU, Project SUS‐MIRRI.IT “Strengthening the MIRRI Italian Research Infrastructure for Sustainable Bioscience and Bioeconomy”, code n. IR0000005PO and by the Piano Nazionale Resistenza e Resilienza (PNRR) ‐ Missione 4 Componente 2 Investimento 1.4—Avviso N. 3138 del 16 dicembre 2021 rettificato con D.D. n.3175 del 18 dicembre 2021 del Ministero dell'Università e della Ricerca—CN5 “National Biodiversity Future Center”—NBFC—code n. CN00000033. Moreover, this research was funded also thanks to co‐financing by the Interreg Italia‐Malta, Bythos Extend Project.
Manuela Mauro and Valeria Villanova should be considered joint first authors.
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Snippet ABSTRACT Freshwater ecosystems play a key role in biogeochemical cycles and face various anthropogenic impacts. Understanding microbial communities within...
Freshwater ecosystems play a key role in biogeochemical cycles and face various anthropogenic impacts. Understanding microbial communities within these...
ABSTRACT Freshwater ecosystems play a key role in biogeochemical cycles and face various anthropogenic impacts. Understanding microbial communities within...
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StartPage e71276
SubjectTerms Anthropogenic factors
Aquatic ecosystems
Biodiversity
Biogeochemical cycles
Biogeochemistry
Climate change
Composition
Conservation
Cyanobacteria
Ecosystem management
eDNA
Environmental DNA
Freshwater ecosystems
Freshwater lakes
Genetic engineering
Human influences
Lakes
metabarcoding analysis
Microbial activity
Microbiomes
Microbiota
Microorganisms
rRNA 16S
Taxonomy
Water conservation
Water shortages
Water supply
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Title Environmental DNA: Preliminary Characterization of Microbiota in Three Sicilian Lakes
URI https://onlinelibrary.wiley.com/doi/abs/10.1002%2Fece3.71276
https://www.ncbi.nlm.nih.gov/pubmed/40290376
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Volume 15
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