Table 3 Correspondence between samples types and their associated events and a summary of the protocol used and targeted analysis. RT: Room temperature, LN: Liquid Nitrogen, MetaB: metabarcoding, MetaG: metagenomic, MetaT: metatranscriptomic, PC: Polycarbonate, PET: Polyethylene.
Analysis category | Sample type | n (samples) | n (rep.) | Material sampled (sample-material_label) | Amount of material | Processing | container | conservative | conservation temperature | Targeted analysis |
|---|---|---|---|---|---|---|---|---|---|---|
Sample protocol label | ||||||||||
SEQ | CS4 | 2703 | 1 | Coral | 4 g | cut coral parts | Falcon 15 ml | DNA/RNA shield | −20 °C | MetaB, metaG, metaT |
SEQ | CS4L | 2651 | 1 | Coral | 4 g | cut coral parts | Falcon 15 ml | DNA/RNA shield + lysing matrix beads | −20 °C | MetaB, metaG, metaT |
SEQ | CS10 | 2738 | 1 | Coral | 10 g | cut coral parts | Whirlpak bag | flash frozen | −20 °C | Metabolomic |
SEQ | CS40 | 2701 | 1 | Coral | 40g | cut coral parts | Whirlpak bag | flash frozen | −20 °C | biomarkers and telomere length |
IMG | CTAX | 2763 | 1 | Coral | 5 g | cut coral parts, dryied, and bleach added for few hours | Falcon 50 ml | Bleach | RT | morphology, taxonomy |
IMG | CREP | 2649 | 1 | Coral | 5 g | cut coral parts | Falcon 50 ml | 3.7% formaldehyde | RT | histological analysis of reproduction |
IMG | CTEM | 2385 | 1 | Coral | 0.1 g | cut coral parts | 2 ml cryotubes | 2% glutaraldehyde | 4°C | transmission electron microscopy analysis |
IMG | PHOTO | 10830 | 2 | Coral, Fish | — | — | — | — | — | morphology, taxonomy |
SEQ | MUC | 1059 | 1 | Fish | — | dissection | coton swab+ 2mL cryotube | DNA/RNA shield | −20 °C | MetaB, metaG |
SEQ | GT | 1059 | 1 | Fish | — | dissection | 2 ml cryotubes | DNA/RNA shield | −20 °C | MetaB, metaG |
SEQ | FIN | 1059 | 1 | Fish | — | dissection | eppendorf | ethanol | RT | population genetic analyses |
IMG | OTO | 1057 | 1 | Fish | — | dissection | eppendorf | — | RT | aging |
SEQ | CDIV | 2628 | 1 | Coral | <0.5 g | cut coral parts | 2 ml cryotubes | DNA/RNA shield | −20 °C | MetaB, metaG |
SEQ | SSED | 351 | 1 | Sediment | 7.5 ml | seawater replaced with DNA/RNA shield or ethanol and homogenized | 15 mL Flacon tubes | DNA/RNA shield or ethanol | −20 °C | MetaB, metaG |
IMG | CORE | 92 | 1 | Coral | 26–126 cm | dried 24–48h | plastic bublle wrap | RT | morphologic and isotopic analysis | |
BGC | MTE-LSCE | 170 | 1 | Seawater | 60 mL | — | 60 mL HTPE vial | — | RT | Trace elements (Li, Bo) isotopes measurements |
BGC | PH | 364 | 2 | Seawater | 5 mL | analysed onboard | 5 ml plastic vial | — | — | pH measurments |
BGC | CARB | 364 | 1 | Seawater | 500 mL | — | 500 mL glass bottle | Hg2Cl2 | RT | Carbonate system measurements |
IMG | BDI | 152 | 1 | benthic dinoflagellates (on brown algae) | 20mL | water from shaken macroalgae | 20 ml scintillation vials | 2% acidic lugol | 4 °C | microscopic count |
SEQ | BDS | 124 | 1 | benthic dinoflagellates (on brown algae) | 100 mL | water from shaken macroalgae | 45 mm 10µm PC filter stored in cryotubes | flash frozen | LN | MetaB, metaG, metaT |
BGC | HPLC | 944 | 2 | Water, pigments | 2L | filtered on a 25mm-diameter, 0.7-µm-pore glass fiber filter | 1.5 ml cryotubes | flash frozen | LN | HPLC pigment analysis |
BGC | NUT | 862 | 2 | Seawater | 20 mL | filtered through a 0.45 µm-pore size cellulose acetate membrane with a syringe | 20 mL polyethylene vials | — | −20 °C | macronutients dosing |
SEQ | S023 | 1104 | 2 | Plankton (0.2–3 µm) | 50 L | Filtration | 5 mL cryotubes | flash frozen | LN | MetaB, metaG, metaT |
SEQ | S320 | 1086 | 2 | Plankton (3–20µm) | 50 L | Filtration | 5 mL cryotubes | flash frozen | LN | MetaB, metaG, metaT |
SEQ | S<02 | 874 | 2 | Water, Viruses (<0.2µm) | 10 L | FeCl3 precipitation and filtration | 5 mL cryotubes | — | 4 °C | Sequencing |
SEQ | S<02> | 127 | 1 | Water, membranes vesicles(<0.2µm) | 80 L | 50 mL Falcon tube | — | −20 °C | Sequencing | |
IMG-SEQ | SCG | 1056 | 1 | Plankton | 4 ml | — | 5 mL cryotubes | 600μl of 48% Glycine Betaine, flash frozen | LN | single cells sequencing |
IMG | FCM | 1078 | 2 | Plankton | 1.48 5mL | mix and incubate 15min at RT | 2 ml cryotubes | 15μL Glutaraldehyde 25%/PoloXamer 10%; flash frozen | LN | Flow cytometry |
IMG | SEM | 566 | 1 | Plankton | 500 mL | filtered onto 47mm 0.22µm PC membranes, dryed 2h at 50°C | petrislides | — | RT | Scaning electron microscopy |
IMG-SEQ | FISH | 562 | 1 | Plankton | 225 mL | incubate 1–24 h with PFA 10x; filter on 25mm, 0.22µm PC filter, rinse with ethanol, dry for 5–10 minutes | petrislides | — | −20 °C | Fluorescent in situ hybridation |
SEQ | S20 | 714 | 2 | Plankton | 1L (250ml per filter) | filtered onto 47mm 10µm PC membranes | 5 mL cryotubes (two filters per tube) | flash frozen | LN | MetaB, metaG, metaT |
IMG | H20 | 422 | 1 | Plankton | 45 mL | — | 50 mL Flacon tubes | 5mL of 10% paraformaldehyde and 500μl of glutaraldehyde 25% EM grade | 4 °C | High througput confocal microscopy |
IMG | LIVE20 | 358 | 1 | Plankton | 50 mL | analysed using Flowcam onboard | — | — | — | Quantitative imaging analysis |
IMG-SEQ | E20 | 444 | 1 | Plankton | 100–250 mL | concentrated onto 20µm sieve, stored in ethanol during 24h before seiving again to change the ethanol | 15 mL Flacon tubes | 95% mollecular grade ethanol | −20 °C | single cells sequencing |
IMG-SEQ | SCG20 | 212 | 1 | Plankton | 4 mL | — | 5 mL cryotubes | 600μl of 48% Glycine Betaine, flash frozen | LN | single cells sequencing |
BGC | SAL | 50 | 1 | Seawater | 250 ml | RT | salinity measurements | |||
IMG | L20 | 243 | 1 | Plankton | 250 mL | concentrated onto 20µm sieve, resuspended using filtered sea water | 50 mL Flacon tubes | 1mL of acidic Lugol solution | 4 °C | microscopic observations |
IMG | F20 | 240 | 1 | Plankton | 45 mL | — | 50 mL Flacon tubes | 1mL of acidic formalin 37%, and filled up to 50mL with sodium teraborate decahydrate buffer | RT | microscopic observations |
IMG | F300 | 510 | 1 | Plankton | 1 L | concentrated onto 200 µm sieve, resuspended using filtered sea water with sodium teraborate decahydrate buffer | 250 mL double closure bottles | 30mL of 37% formalin solution | RT | Quantitative imaging analysis |
SEQ | S300 | 603 | 2 | Plankton | 1L(250 mL per filter) | prefiltered onto 2mm metallic sieve, filtered onto 47mm 10µm PC membranes | 5 mL cryotubes (two filters per tube) | flash frozen | LN | MetaB, metaG, metaT |
IMG | AI | 1323 | 1 | Aerosols | ~21.6 m3 | — | petrislide | dried | RT | microscopic observations |
SEQ | AS | 1300 | 1 | Aerosols | ~21.6 m3 | — | 2 ml cryotubes | flash frozen | LN | MetaB |
SEQ-BGC | ABS | 1306 | 2 | Aerosols | ~21.6 m3 | — | 2 ml cryotubes | flash frozen | LN | MetaB and biogeochemistry |
BGC | MTE-USC | 249 | 1 | Seawater | 125 mL | — | acid cleaned 125 mL low density PET bottle | — | RT | Trace metal analysis |
