The objective of this protocol is to provide a reliable and replicable method for the sampling of river micro-phytobenthos and associated microbes in biofilms, to be used in both downstream DNA analysis and algal microscopic counts. The filed protocol is optimized for routine sampling and is in agreement with CEN guidance (NF EN 13946) and CEN technical report (CEN/TR 17245) for the analysis of benthic diatoms from rivers and lakes. The application proposed here in the context of EcoAlpsWater aims in comparing DNA inventories to traditional inventories (microscopy). This protocol is part of the deliverables provided by the WP1 of the Eco-AlpsWater project. All members of the EcoAlpsWater consortium (involving 12 partners : http://www.alpine-space.eu/projects/eco-alpswater/en/home) have contributed to the optimization of this protocol.

Rimet, F.; Vautier, M.; Kurmayer, R.; Salmaso, N.; Capelli, C.; Bouchez, A.; Hufnagl, P.; Domaizon, I. (2020). River biofilms sampling for both downstream DNA analysis and microscopic counts V.1: protocols.io. url: https://protocols.io/view/river-biofilms-sampling-for-both-downstream-dna-an-ben6jdhe.pdf. handle: http://hdl.handle.net/10449/72058

River biofilms sampling for both downstream DNA analysis and microscopic counts V.1

Salmaso, N.;
2020

Abstract

The objective of this protocol is to provide a reliable and replicable method for the sampling of river micro-phytobenthos and associated microbes in biofilms, to be used in both downstream DNA analysis and algal microscopic counts. The filed protocol is optimized for routine sampling and is in agreement with CEN guidance (NF EN 13946) and CEN technical report (CEN/TR 17245) for the analysis of benthic diatoms from rivers and lakes. The application proposed here in the context of EcoAlpsWater aims in comparing DNA inventories to traditional inventories (microscopy). This protocol is part of the deliverables provided by the WP1 of the Eco-AlpsWater project. All members of the EcoAlpsWater consortium (involving 12 partners : http://www.alpine-space.eu/projects/eco-alpswater/en/home) have contributed to the optimization of this protocol.
River biofilm
Sampling methods
Metabarcoding
Rimet, F.; Vautier, M.; Kurmayer, R.; Salmaso, N.; Capelli, C.; Bouchez, A.; Hufnagl, P.; Domaizon, I. (2020). River biofilms sampling for both downstream DNA analysis and microscopic counts V.1: protocols.io. url: https://protocols.io/view/river-biofilms-sampling-for-both-downstream-dna-an-ben6jdhe.pdf. handle: http://hdl.handle.net/10449/72058
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Utilizza questo identificativo per citare o creare un link a questo documento: http://hdl.handle.net/10449/72058
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