Metabarcoding protocol – Analysis of Bacteria (including Cyanobacteria) using the 16S rRNA gene and a DADA2 pipeline

Technical challenges in metatranscriptomic studies applied to the bacterial communities of freshwater ecosystems

Pascault, Noémie
Loux, Valentin
Derozier, Sandra
Martin, Véronique
Debroas, Didier
Maloufi, Selma
Humbert, Jean-François
Leloup, Julie

September 2014

Publication onlineInternational audienceMetatranscriptome analysis relates to the transcriptome of m...

Biodiversity of Alpine ecosystems in a changing world (BIOALPEC): the focus on Alpine inland water ecosystems

Vettorazzo, S.
Boscaini, A.
Bruno, M. C.
Cerasino, L.
Obertegger, U.
Tolotti, M.
Salmaso, N.

January 2023

The “Biodiversity of Alpine ecosystems in a changing world” (BIOALPEC) project, carried out within t...

Metabarcoding Cyanobacteria in coastal waters and sediment in central and southern Adriatic Sea

Kolda, Anamarija
Ljubešić, Zrinka
Gavrilović, Ana
Jug-Dujaković, Jurica
Pikelj, Kristina
Kapetanović, Damir

January 2020

Seasonal sampling of the seawater column and sediment in Adriatic coastal areas affected by various ...

Metabarcoding protocol – Analysis of protists using the 18S rRNA gene and a DADA2 pipeline

Nico Salmaso
Giulia Riccioni
Massimo Pindo
Rainer Kurmayer
Valentin Vasselon
Isabelle Domaizon

August 2021

This protocol has been prepared as part of the Interreg Alpine Space project Eco-AlpsWater (ASP569) ...

Metabarcoding Protocol to Analyze Coastal Planktic Communities Collected by Desalination Plant Filters: From Sampling to Bioinformatic Exploratory Analyses.

Cecchetto M.
Di Cesare A.
Eckert E.
Moro I.
Fontaneto D.
Schiaparelli S.

January 2022

The temporal dynamics of coastal planktic communities can be disclosed through DNA metabarcoding on ...

DNA sequence and taxonomic gap analyses to quantify the coverage of aquatic cyanobacteria and eukaryotic microalgae in reference databases: Results of a survey in the Alpine region

Salmaso Nico
Vasselon Valentin
Rimet Frédéric
Vautier Marine
Elersek Tina
Boscaini Adriano
Donati Claudio
Moretto Marco
Pindo Massimo
Riccioni Giulia
Stefani Erika
Capelli Camilla
Lepori Fabio
Kurmayer Rainer
Mischke Ute
Krivograd Klemenčič Aleksandra
Novak Katarina
Greco Claudia
Franzini Giorgio
Fusato Giampaolo
Giacomazzi Federica
Lea Alessia
Menegon Silvia
Zampieri Chiara
Macor Arianna
Virgilio Damiano
Zanut Elisa
Zorza Raffaella
Buzzi Fabio
Domaizon Isabelle

April 2022

This dataset has been prepared as part of the Interreg Alpine Space project Eco-AlpsWater (ASP569) -...

Monitoring Bacterial Community Dynamics in a Drinking Water Treatment Plant: An Integrative Approach Using Metabarcoding and Microbial Indicators in Large Water Volumes

Anna Pinar-Méndez
Owen S. Wangensteen
Kim Præbel
Belén Galofré
Javier Méndez
Anicet R. Blanch
Cristina García-Aljaro

April 2022

Monitoring bacterial communities in a drinking water treatment plant (DWTP) may help to understand t...

Metabarcoding vs. morphological identification for aquatic ecosystem biomonitoring: a case study

Capelli, C.
Domaizon, I.
Eleršek T.
Kurmayer R.
Lepori, F
Dr Mischke
U. Rotta
Vautier, M.
Salmaso, N.

January 2021

Phytoplankton and benthic diatoms are frequently used as biological quality indicators. However, co...

Metabarcoding and environmental sequencing projects

Kandaurova, Ekaterina

January 2023

The thesis explores the use of metabarcoding in projects uncovering biological diversity and its app...

Comparison of environmental and culture-derived bacterial communities through 16S metabarcoding: A powerful tool to assess media selectivity and detect rare taxa

Pédron, Jacques
Guyon, Léa
Lecomte, Amandine
Blottiere, Lydie
Chandeysson, Charlotte
Rochelle-Newall, Emma
Raynaud, Xavier
Berge, Odile
Barny, Marie-Anne

January 2020

International audienceTo compare environmental and culture-derived microbial communities, we perform...

Monitoring bacterial community dynamics in a drinking water treatment plant: an integrative approach using metabarcoding and microbial indicators in large water volumes

Pinar-Méndez, Anna
Wangensteen, Owen S.
Præbel, Kim
Galofré, Belén
Méndez, Javier
Blanch, Anicet R.
García-Aljaro, Cristina

January 2022

Monitoring bacterial communities in a drinking water treatment plant (DWTP) may help to understand t...

BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons

Djemiel, Christophe
Dequiedt, Samuel
Karimi, Battle
Cottin, Aurélien
Girier, Thibault
El Djoudi, Yassin
Wincker, Patrick
Mondy, Samuel
Chemidlin Prévost-Bouré, Nicolas
Maron, Pierre-Alain
Ranjard, Lionel
Terrat, Sébastien

February 2020

Background: The ability to compare samples or studies easily using metabarcoding so as to better in...

Metagenomic approach studying the taxonomic and functional diversity of the bacterial community in a mesotrophic lake (Lac du Bourget--France)

Debroas, D.
Humbert, Jf
Enault, F.
Bronner, G.
Faubladier, M.
Cornillot, E.

September 2009

International audienceThe main goals of this work were to identify the metabolic pathways of the bac...

Comparison of environmental and culture-derived bacterial communities through 16s metabarcoding : a powerful tool to assess media selectivity and detect rare taxa

Pedron, J.
Guyon, L.
Lecomte, A.
Blottiere, L.
Chandeysson, C.
Rochelle-Newall, Emma
Raynaud, X.
Berge, O.
Barny, M. A.

January 2020

To compare environmental and culture-derived microbial communities, we performed 16S metabarcoding o...

Technical challenges in metatranscriptomic studies applied to the bacterial communities of freshwater ecosystems

Pascault, Noémie
Loux, Valentin
Derozier, Sandra
Martin, Véronique
Debroas, Didier
Maloufi, Selma
Humbert, Jean-François
Leloup, Julie

September 2014

Publication onlineInternational audienceMetatranscriptome analysis relates to the transcriptome of m...

Biodiversity of Alpine ecosystems in a changing world (BIOALPEC): the focus on Alpine inland water ecosystems

Vettorazzo, S.
Boscaini, A.
Bruno, M. C.
Cerasino, L.
Obertegger, U.
Tolotti, M.
Salmaso, N.

January 2023

The “Biodiversity of Alpine ecosystems in a changing world” (BIOALPEC) project, carried out within t...

Metabarcoding Cyanobacteria in coastal waters and sediment in central and southern Adriatic Sea

Kolda, Anamarija
Ljubešić, Zrinka
Gavrilović, Ana
Jug-Dujaković, Jurica
Pikelj, Kristina
Kapetanović, Damir

January 2020

Seasonal sampling of the seawater column and sediment in Adriatic coastal areas affected by various ...

Metabarcoding protocol – Analysis of protists using the 18S rRNA gene and a DADA2 pipeline

Nico Salmaso
Giulia Riccioni
Massimo Pindo
Rainer Kurmayer
Valentin Vasselon
Isabelle Domaizon

August 2021

This protocol has been prepared as part of the Interreg Alpine Space project Eco-AlpsWater (ASP569) ...

Metabarcoding Protocol to Analyze Coastal Planktic Communities Collected by Desalination Plant Filters: From Sampling to Bioinformatic Exploratory Analyses.

Cecchetto M.
Di Cesare A.
Eckert E.
Moro I.
Fontaneto D.
Schiaparelli S.

January 2022

The temporal dynamics of coastal planktic communities can be disclosed through DNA metabarcoding on ...

DNA sequence and taxonomic gap analyses to quantify the coverage of aquatic cyanobacteria and eukaryotic microalgae in reference databases: Results of a survey in the Alpine region

Salmaso Nico
Vasselon Valentin
Rimet Frédéric
Vautier Marine
Elersek Tina
Boscaini Adriano
Donati Claudio
Moretto Marco
Pindo Massimo
Riccioni Giulia
Stefani Erika
Capelli Camilla
Lepori Fabio
Kurmayer Rainer
Mischke Ute
Krivograd Klemenčič Aleksandra
Novak Katarina
Greco Claudia
Franzini Giorgio
Fusato Giampaolo
Giacomazzi Federica
Lea Alessia
Menegon Silvia
Zampieri Chiara
Macor Arianna
Virgilio Damiano
Zanut Elisa
Zorza Raffaella
Buzzi Fabio
Domaizon Isabelle

April 2022

This dataset has been prepared as part of the Interreg Alpine Space project Eco-AlpsWater (ASP569) -...

Monitoring Bacterial Community Dynamics in a Drinking Water Treatment Plant: An Integrative Approach Using Metabarcoding and Microbial Indicators in Large Water Volumes

Anna Pinar-Méndez
Owen S. Wangensteen
Kim Præbel
Belén Galofré
Javier Méndez
Anicet R. Blanch
Cristina García-Aljaro

April 2022

Monitoring bacterial communities in a drinking water treatment plant (DWTP) may help to understand t...

Metabarcoding vs. morphological identification for aquatic ecosystem biomonitoring: a case study

Capelli, C.
Domaizon, I.
Eleršek T.
Kurmayer R.
Lepori, F
Dr Mischke
U. Rotta
Vautier, M.
Salmaso, N.

January 2021

Phytoplankton and benthic diatoms are frequently used as biological quality indicators. However, co...

Metabarcoding and environmental sequencing projects

Kandaurova, Ekaterina

January 2023

The thesis explores the use of metabarcoding in projects uncovering biological diversity and its app...

Comparison of environmental and culture-derived bacterial communities through 16S metabarcoding: A powerful tool to assess media selectivity and detect rare taxa

Pédron, Jacques
Guyon, Léa
Lecomte, Amandine
Blottiere, Lydie
Chandeysson, Charlotte
Rochelle-Newall, Emma
Raynaud, Xavier
Berge, Odile
Barny, Marie-Anne

January 2020

International audienceTo compare environmental and culture-derived microbial communities, we perform...

Monitoring bacterial community dynamics in a drinking water treatment plant: an integrative approach using metabarcoding and microbial indicators in large water volumes

Pinar-Méndez, Anna
Wangensteen, Owen S.
Præbel, Kim
Galofré, Belén
Méndez, Javier
Blanch, Anicet R.
García-Aljaro, Cristina

January 2022

Monitoring bacterial communities in a drinking water treatment plant (DWTP) may help to understand t...

BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons

Djemiel, Christophe
Dequiedt, Samuel
Karimi, Battle
Cottin, Aurélien
Girier, Thibault
El Djoudi, Yassin
Wincker, Patrick
Mondy, Samuel
Chemidlin Prévost-Bouré, Nicolas
Maron, Pierre-Alain
Ranjard, Lionel
Terrat, Sébastien

February 2020

Background: The ability to compare samples or studies easily using metabarcoding so as to better in...

Metagenomic approach studying the taxonomic and functional diversity of the bacterial community in a mesotrophic lake (Lac du Bourget--France)

Debroas, D.
Humbert, Jf
Enault, F.
Bronner, G.
Faubladier, M.
Cornillot, E.

September 2009

International audienceThe main goals of this work were to identify the metabolic pathways of the bac...

Comparison of environmental and culture-derived bacterial communities through 16s metabarcoding : a powerful tool to assess media selectivity and detect rare taxa

Pedron, J.
Guyon, L.
Lecomte, A.
Blottiere, L.
Chandeysson, C.
Rochelle-Newall, Emma
Raynaud, X.
Berge, O.
Barny, M. A.

January 2020

To compare environmental and culture-derived microbial communities, we performed 16S metabarcoding o...

Technical challenges in metatranscriptomic studies applied to the bacterial communities of freshwater ecosystems

Pascault, Noémie
Loux, Valentin
Derozier, Sandra
Martin, Véronique
Debroas, Didier
Maloufi, Selma
Humbert, Jean-François
Leloup, Julie

September 2014

Publication onlineInternational audienceMetatranscriptome analysis relates to the transcriptome of m...

Biodiversity of Alpine ecosystems in a changing world (BIOALPEC): the focus on Alpine inland water ecosystems

Vettorazzo, S.
Boscaini, A.
Bruno, M. C.
Cerasino, L.
Obertegger, U.
Tolotti, M.
Salmaso, N.

January 2023

The “Biodiversity of Alpine ecosystems in a changing world” (BIOALPEC) project, carried out within t...

Metabarcoding Cyanobacteria in coastal waters and sediment in central and southern Adriatic Sea

Kolda, Anamarija
Ljubešić, Zrinka
Gavrilović, Ana
Jug-Dujaković, Jurica
Pikelj, Kristina
Kapetanović, Damir

January 2020

Seasonal sampling of the seawater column and sediment in Adriatic coastal areas affected by various ...

Metabarcoding protocol – Analysis of Bacteria (including Cyanobacteria) using the 16S rRNA gene and a DADA2 pipeline

Abstract

Extracted data

Metabarcoding protocol – Analysis of Bacteria (including Cyanobacteria) using the 16S rRNA gene and a DADA2 pipeline

Abstract

Extracted data

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