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Water samples

Learn how to collect, label and preserve water samples when nucleic acid extraction is performed by our laboratory.

CATEGORY
Shipment preparation and logistics
PROJECT STAGE
03 · Sample preparation and shipping
READING TIME
2 min
LAST UPDATED
6 November 2024
PREPARED BY
weSEQ.IT Technical Team
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Preparing samples for shipment is a critical stage of every study, and the scope of the service may also include nucleic acid extraction from the supplied material for water samples. To prepare samples correctly without risking material loss or sample depletion, follow the instructions below:

Water sample collection instructions

IMPORTANT

Water filters should have a diameter of 4 cm. We recommend using at least 3 filters per sample, with visible coloured deposits on the filters.

01Select representative sampling locations and collection points based on the study objectives.
02We recommend collecting samples from multiple locations while avoiding disturbance of bottom sediments. Do not contaminate the bottle opening with your fingers or other objects.
03Within 4 hours of sample collection (samples should be stored in the dark at 4°C), vacuum-filter and concentrate the microorganisms (parallel samples / biological replicates may be filtered using the same filter). Alternatively, centrifuge the water samples directly at 4°C / 12 000 rpm for 10 minutes, discard the supernatant, freeze the samples in liquid nitrogen and store them at -80°C until shipment on dry ice.
IMPORTANT

Before centrifugation, assess whether the water contains a large number of organisms. If the biological content of the water is low, centrifuge at least 50 ml of water. If the biological content is high, centrifuge an appropriate volume from 2 to 10 ml.

04Store dried and shredded or folded filters containing microorganisms (or the pellet) in sterile Eppendorf tubes with a capacity of 2 ml or 5 ml, and store them at -20°C or -80°C until transport on dry ice.

Additional information

A. For filtering large volumes of low-biomass water samples, use polyethersulfone filters with a pore size of 0.22 μm. Each sample should include at least 1 litre of water.

B. For turbid water samples that filter slowly or are prone to clogging 0.22 μm filters, mixed cellulose ester filters with a pore size of 0.45 μm are recommended (cellulose acetate, cellulose nitrate). Avoid these filters if the water contains insecticides and herbicides. Each sample should contain 0.5-1 litre of water. If clogging occurs, store multiple filters from the same sample in a single tube.

C. If the water sample contains a large number of insoluble particles, use filters with a pore size of 2-5 μm to remove insoluble contaminants, and then use filters with a pore size of 0.22 μm or 0.45 μm to concentrate microorganisms. Each sample should contain 0.5-1 litre of water. If the filters become clogged, store multiple filters from the same sample in a single tube.

D. If the study focuses on viruses, first remove bacteria and other large cells from the water using filters with a pore size of 0.22 μm, and then use positively charged filters, such as Virozorb 1 MDS cartridges or NanoCeram Virus Sampler, to concentrate the viruses. Each sample should contain 20 litres of water.

KEYWORDS
eDNAwater filtration0.22 μm filtersMetagenomic sequencingmicroorganisms in waterwater sample collectionwater samplesmembrane filters
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