A georeferenced rRNA amplicon database of aquatic microbiomes from South America.

Bacteria / genetics Databases, Genetic High-Throughput Nucleotide Sequencing Microbiota / genetics RNA, Ribosomal, 16S / genetics South America Water Microbiology

Journal

Scientific data
ISSN: 2052-4463
Titre abrégé: Sci Data
Pays: England
ID NLM: 101640192

Informations de publication

Date de publication:
13 09 2022
Historique:
received: 02 03 2022
accepted: 26 08 2022
entrez: 13 9 2022
pubmed: 14 9 2022
medline: 16 9 2022
Statut: epublish

Résumé

The biogeography of bacterial communities is a key topic in Microbial Ecology. Regarding continental water, most studies are carried out in the northern hemisphere, leaving a gap on microorganism's diversity patterns on a global scale. South America harbours approximately one third of the world's total freshwater resources, and is one of these understudied regions. To fill this gap, we compiled 16S rRNA amplicon sequencing data of microbial communities across South America continental water ecosystems, presenting the first database µSudAqua[db]. The database contains over 866 georeferenced samples from 9 different ecoregions with contextual environmental information. For its integration and validation we constructed a curated database (µSudAqua[db.sp]) using samples sequenced by Illumina MiSeq platform with commonly used prokaryote universal primers. This comprised ~60% of the total georeferenced samples of the µSudAqua[db]. This compilation was carried out in the scope of the µSudAqua collaborative network and represents one of the most complete databases of continental water microbial communities from South America.

Identifiants

DOI: 10.1038/s41597-022-01665-z PMID: 36100598 PMC: PMC9470542
pubmed: 36100598
doi: 10.1038/s41597-022-01665-z
pii: 10.1038/s41597-022-01665-z
pmc: PMC9470542
doi:

Substances chimiques

RNA, Ribosomal, 16S 0

Types de publication

Dataset Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

565

Informations de copyright

© 2022. The Author(s).

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Auteurs

Sebastian Metz (S)

Laboratorio de Ecología Acuática, Instituto Tecnológico de Chascomús (INTECH), UNSAM-CONICET, Av. Intendente Marino Km 8.200, (7130) Chascomús, Buenos Aires, Argentina.
Sorbonne Université, CNRS, UMR7144 Adaptation et Diversité en Milieu Marin, Ecology of Marine Plankton (ECOMAP), Station Biologique de Roscoff SBR, 29680, Roscoff, France.

Paula Huber (P)

Laboratorio de Plancton Instituto Nacional de Limnología (INALI), CONICET-UNL, Ciudad Universitaria, Paraje El Pozo, C. P, 3000, Santa Fe, Argentina.
Laboratory of Microbial Processes & Biodiversity, Departamento de Hydrobiologia, Universidade Federal de São Carlos (UFSCar). Rodovia Washington Luiz, São Carlos, São Paulo, 13565-905, Brazil.

Erick Mateus-Barros (E)

Laboratory of Microbial Processes & Biodiversity, Departamento de Hydrobiologia, Universidade Federal de São Carlos (UFSCar). Rodovia Washington Luiz, São Carlos, São Paulo, 13565-905, Brazil.

Pedro C Junger (PC)

Laboratory of Microbial Processes & Biodiversity, Departamento de Hydrobiologia, Universidade Federal de São Carlos (UFSCar). Rodovia Washington Luiz, São Carlos, São Paulo, 13565-905, Brazil.

Michaela de Melo (M)

Laboratory of Microbial Processes & Biodiversity, Departamento de Hydrobiologia, Universidade Federal de São Carlos (UFSCar). Rodovia Washington Luiz, São Carlos, São Paulo, 13565-905, Brazil.
University of Quebec at Montreal, Department of Biological Science. Centre-Ville, C.P, 8888, Montreal, (Quebec), Canada.

Inessa Lacativa Bagatini (IL)

Laboratório de Ficologia, Departamento de Botânica, Universidade Federal de São Carlos (UFSCar). Rodovia Washington Luiz, São Carlos, São Paulo, 13565-905, Brazil.

Irina Izaguirre (I)

Depto. de Ecología, Genética y Evolución, IEGEBA (UBA-CONICET), Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires (UBA). Intendente Güiraldes 2160, C1428EHA, Buenos Aires, Argentina.

Mariana Câmara Dos Reis (M)

Laboratory of Microbial Processes & Biodiversity, Departamento de Hydrobiologia, Universidade Federal de São Carlos (UFSCar). Rodovia Washington Luiz, São Carlos, São Paulo, 13565-905, Brazil.
Sorbonne Université/Centre National de la Recherche Scientifique, UMR 7144, Adaptation et Diversité en Milieu Marin, Station Biologique de Roscoff, Place Georges Teissier, Roscoff, France.

Maria E Llames (ME)

Laboratorio de Ecología Acuática, Instituto Tecnológico de Chascomús (INTECH), UNSAM-CONICET, Av. Intendente Marino Km 8.200, (7130) Chascomús, Buenos Aires, Argentina.
ORCID: 0000-0001-6984-8016

Victoria Accattatis (V)

Laboratorio de Plancton Instituto Nacional de Limnología (INALI), CONICET-UNL, Ciudad Universitaria, Paraje El Pozo, C. P, 3000, Santa Fe, Argentina.

María Victoria Quiroga (MV)

Laboratorio de Ecología Acuática, Instituto Tecnológico de Chascomús (INTECH), UNSAM-CONICET, Av. Intendente Marino Km 8.200, (7130) Chascomús, Buenos Aires, Argentina.

Melina Devercelli (M)

Laboratorio de Plancton Instituto Nacional de Limnología (INALI), CONICET-UNL, Ciudad Universitaria, Paraje El Pozo, C. P, 3000, Santa Fe, Argentina.
ORCID: 0000-0002-0464-2997

María Romina Schiaffino (MR)

Departamento de Ciencias Básicas y Experimentales, Universidad Nacional del Noroeste de la Provincia de Buenos Aires (UNNOBA), Roque Sáenz Peña 456, 6000, Junín, Argentina.
Centro de Investigaciones y Transferencia del Noroeste de la Provincia de Buenos Aires (CITNOBA) - UNNOBA-UNSAdA-CONICET, Monteagudo 2772, 2700, Buenos Aires, Argentina.

Juan Pablo Niño-García (JP)

Escuela de Microbiología, Universidad de Antioquia, Cl. 67 ##53-108, Medellín, Antioquia, Colombia.

Marcela Bastidas Navarro (M)

Instituto de Investigaciones en Biodiversidad y Medio Ambiente (INIBIOMA), CONICET-Universidad Nacional del Comahue, Quintral 1250, R8400, San Carlos de Bariloche, Río Negro, Argentina.

Beatriz Modenutti (B)

Instituto de Investigaciones en Biodiversidad y Medio Ambiente (INIBIOMA), CONICET-Universidad Nacional del Comahue, Quintral 1250, R8400, San Carlos de Bariloche, Río Negro, Argentina.

Helena Vieira (H)

Laboratório de Ficologia, Departamento de Botânica, Universidade Federal de São Carlos (UFSCar). Rodovia Washington Luiz, São Carlos, São Paulo, 13565-905, Brazil.
Czech Academy of Sciences, Biology Centre, Hydrobiology Institute, Na Sádkách 702/7, 370 05, Ceske Budejovice, Czechia.
ORCID: 0000-0003-2080-5271

Martin Saraceno (M)

Depto. de Ecología, Genética y Evolución, IEGEBA (UBA-CONICET), Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires (UBA). Intendente Güiraldes 2160, C1428EHA, Buenos Aires, Argentina.
ORCID: 0000-0001-5986-2674

Carmen Alejandra Sabio Y García (CA)

Depto. de Ecología, Genética y Evolución, IEGEBA (UBA-CONICET), Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires (UBA). Intendente Güiraldes 2160, C1428EHA, Buenos Aires, Argentina.

Emiliano Pereira (E)

Centro Universitario Regional del Este. Universidad de la República, Ruta nacional N° 9 intersección con ruta N°15, CP 270000, Rocha, Uruguay.

Alvaro González-Revello (A)

Departamento de Ciencia y Tecnología de los Alimentos, Facultad de Veterinaria, UDELAR. Alberto Lasplaces 1620, CP 11600, Montevideo, Uruguay.
Departamento de Genómica, Instituto de Investigaciones Biológicas Clemente Estable, MEC. Av. Italia 3318, 11600, Montevideo, Departamento de Montevideo, Uruguay.

Claudia Piccini (C)

Laboratorio de Ecología Microbiana Acuática, Departamento de Microbiología, Instituto de Investigaciones Biológicas Clemente Estable, MEC. Av. Italia 3318, 11600, Montevideo, Departamento de Montevideo, Uruguay.

Fernando Unrein (F)

Laboratorio de Ecología Acuática, Instituto Tecnológico de Chascomús (INTECH), UNSAM-CONICET, Av. Intendente Marino Km 8.200, (7130) Chascomús, Buenos Aires, Argentina.

Cecilia Alonso (C)

Centro Universitario Regional del Este. Universidad de la República, Ruta nacional N° 9 intersección con ruta N°15, CP 270000, Rocha, Uruguay.

Hugo Sarmento (H)

Laboratory of Microbial Processes & Biodiversity, Departamento de Hydrobiologia, Universidade Federal de São Carlos (UFSCar). Rodovia Washington Luiz, São Carlos, São Paulo, 13565-905, Brazil. hsarmento@ufscar.br.

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questionsmedicales.fr › Bactéries › A georeferenced rRNA amplicon database of...
questionsmedicales.fr › Sciences de l'information › Mémorisation et recherche des informations › Bases de données comme sujet › Bases de données factuelles › Bases de données génétiques › A georeferenced rRNA amplicon database of...
questionsmedicales.fr › Techniques d'investigation › Techniques génétiques › Analyse de séquence › Séquençage nucléotidique à haut débit › A georeferenced rRNA amplicon database of...
questionsmedicales.fr › Environnement et santé publique › Environnement › Écosystème › Biodiversité › Biote › Microbiote › A georeferenced rRNA amplicon database of...
questionsmedicales.fr › Acides nucléiques, nucléotides et nucléosides › Acides nucléiques › ARN › ARN ribosomique › ARN ribosomique 16S › A georeferenced rRNA amplicon database of...
questionsmedicales.fr › Régions géographiques › Amériques › Amérique du Sud › A georeferenced rRNA amplicon database of...
questionsmedicales.fr › Environnement et santé publique › Santé publique › Microbiologie de l'environnement › Microbiologie de l'eau › A georeferenced rRNA amplicon database of...