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Reintjes, Greta; Tegetmeyer, Halina; Wulf, Jörg; Bürgisser, Miriam; Fuchs, Bernhard M (2017): On-board sequencing of the microbial community of the South Pacific Gyre. PANGAEA, https://doi.org/10.1594/PANGAEA.882015

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Abstract:
Fluorescence in situ hybridization (FISH) with 16S rRNA-targeted oligonucleotide probes was used to investigate the phylogenetic composition of the seven most abundant bacterial clades (determined by 16S rRNA tag sequencing) of the South Pacific Gyre (SPG). Seawater samples were collected aboard the RV Sonne SO-245 "UltraPac"cruise from Antofagasta, Chile (17.12.2015) to Wellington, New Zealand (28.01.2016). A total of 15 stations were sampled at multiple depths from surface (20 m) to ~5000 m. Total cell counts (TCC, by DAPI staining) and FISH were carried out as described in Bennke et al. (2016). DAPI and FISH stained cells were visualised and counted automatically using a fully automated image acquisition and cell enumeration system (Bennke et al., 2016).
The cellular abundance of SAR11 clade, Prochlorococcus, AEGEAN-169 marine group, SAR86, SAR202, SAR324 and SAR406 were enumerated and are shown here in total (cell ml-1) and relative abundance (% TCC). For this study, a new probe specific for the AEGEAN-169 clade was designed and tested, based on the latest SILVA 16S rRNA database (refnr 128). We found that the microbial community within the SPG was highly similar to that of other oceanic gyres and showed a pronounced vertical distribution pattern. Two major differences which we observed, in comparison to previous studies of both the SPG and other oceanic Gyres, was a high abundance of the AEGEAN-169 marine group, a sister group of the SAR11 clade, and a low abundance of Prochlorococcus specifically in the surface waters of the central gyre.
Supplement to:
Reintjes, Greta; Tegetmeyer, Halina E; Bürgisser, Miriam; Orlic, Sandi; Tews, Ivo; Zubkov, Mikhail V; Voß, Daniela; Zielinski, Oliver; Quast, Christian; Glöckner, Frank Oliver; Amann, Rudolf; Ferdelman, Timothy G; Fuchs, Bernhard M (2019): On-Site Analysis of Bacterial Communities of the Ultraoligotrophic South Pacific Gyre. Applied and Environmental Microbiology, 85(14), https://doi.org/10.1128/AEM.00184-19
Coverage:
Median Latitude: -30.101353 * Median Longitude: -121.254259 * South-bound Latitude: -39.310400 * West-bound Longitude: -170.000180 * North-bound Latitude: -23.491900 * East-bound Longitude: -84.562420
Date/Time Start: 2015-12-25T18:03:00 * Date/Time End: 2016-01-24T04:30:00
Minimum DEPTH, water: m * Maximum DEPTH, water: 5125 m
Event(s):
SO245_10-1 * Latitude: -33.500180 * Longitude: -125.999530 * Date/Time: 2016-01-11T01:10:00 * Elevation: -4016.2 m * Location: South Pacific Ocean * Campaign: SO245 (UltraPac, GEOTRACES) * Basis: Sonne_2 * Method/Device: CTD/Rosette (CTD-RO)
SO245_1-1 * Latitude: -23.503170 * Longitude: -84.562420 * Date/Time: 2015-12-25T18:03:00 * Elevation: -2764.4 m * Location: South Pacific Ocean * Campaign: SO245 (UltraPac, GEOTRACES) * Basis: Sonne_2 * Method/Device: CTD/Rosette (CTD-RO)
SO245_11-1 * Latitude: -36.362270 * Longitude: -132.675000 * Date/Time: 2016-01-13T22:07:00 * Elevation: -5069.2 m * Location: South Pacific Ocean * Campaign: SO245 (UltraPac, GEOTRACES) * Basis: Sonne_2 * Method/Device: CTD/Rosette (CTD-RO)
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
1Event labelEventReintjes, Greta
2NumberNoReintjes, Greta
3Station labelStationReintjes, Greta
4DEPTH, waterDepth watermReintjes, GretaGeocode
5SAR11 mix oligonucleotide FISH-probes targeting SAR11 cladeSAR11%Reintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
6Prochlorococcus, targeted with PRO405 oligonucleotide FISH-probePRO405%Reintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
7AEGEAN-169 marine group, targeted with the AEGEAN-169 mix oligonucleotide FISH-probesAEGEAN-169%Reintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
8SAR86 clade, targeted with SAR86-1245 oligonucleotide FISH-probeSAR86-1245%Reintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
9SAR202 clade, targeted with SAR202-312R oligonucleotide FISH-probeSAR202-312R%Reintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
10SAR324 clade, targeted with SAR324-1412 oligonucleotide FISH-probeSAR324-1412%Reintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
11SAR406 clade, targeted with SAR406-97 oligonucleotide FISH-probeSAR406-97%Reintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
12Microbial abundance, cellsMicrobial abund#/mlReintjes, GretaFlow cytometryTotal cell counts (enumerated by DAPI) counted by flow cyctometry (FCM is flow cytometry)
13SAR11 mix oligonucleotide FISH-probes targeting SAR11 cladeSAR11#/mlReintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
14Prochlorococcus, targeted with PRO405 oligonucleotide FISH-probePRO405#/mlReintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
15AEGEAN-169 marine group, targeted with the AEGEAN-169 mix oligonucleotide FISH-probesAEGEAN-169#/mlReintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
16SAR86 clade, targeted with SAR86-1245 oligonucleotide FISH-probeSAR86#/mlReintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
17SAR202 clade, targeted with SAR202-312R oligonucleotide FISH-probeSAR202-312R#/mlReintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
18SAR324 clade, targeted with SAR324-1412 oligonucleotide FISH-probeSAR324#/mlReintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
19SAR406 clade, targeted with SAR406-97 oligonucleotide FISH-probeSAR406#/mlReintjes, GretaCatalysed reporter deposition-fluorescence in situ hybridization (CARD-FISH)
20Accession number, geneticsAccess no genReintjes, Greta
Size:
2922 data points

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