GLORIA — GEOMAR Library Ocean Research Information Access

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CTD profiles of the global Deep-sea Sponge Microbiome Project (2022)

Busch, Kathrin ; Hentschel, Ute

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Publikationsdatum: 2024-03-15

Beschreibung: The Deep-sea Sponge Microbiome Project is a large-scale study, integrating 16S amplicon sequencing data with oceanographic data. The present dataset contains 66 full water conductivity-temperature-depth (CTD) profiles which were recorded in different ocean regions world wide. The profiles were trimmed to a starting depth of 20 m below the ocean surface and reach down to ~ 5 m above the ocean floor.

Schlagwort(e): Angeles Alvarino; ANT-XXXI/2 FROSN; Arctic Ocean; ARK-XXX/3; ARK-XXXI/2; Bay of Biscay; Bleiksdjupet; CTD; CTD/Rosette; CTD1; CTD10; CTD12; CTD13; CTD14; CTD15; CTD2; CTD3; CTD4; CTD5; CTD7; CTD8; CTD9; CTD-RO; Deep-sea; Deep-sea Sponge Grounds Ecosystems of the North Atlantic; Event label; G. O. Sars (2003); GS16A-202; GS2016109A; GS2016109A-16-CTD-04; GS2016109A-27-CTD-10; GS2017110; GS2017110-03-CTD-01; GS2017110-04-CTD-02; GS2017110-11-CTD-03; GS2017110-15-CTD-05; GS2017110-26-CTD-08; GS2017110-42-CTD-16; GS2017110-54-CTD-20; GS2017110-67-CTD-23; GS2017110-76-CTD-25; GS2018108; GS2018108-02-CTD-01; GS2018108-05-CTD-02; GS2018108-12-CTD-03; GS2018108-14-CTD-05; GS2018108-22-CTD-07; GS2018108-30-CTD-10; GS2018108-31-CTD-11; GS2018108-37-CTD-12; GS2018108-48-CTD-13; GS2018108-55-CTD-14; GS2018108-62-CTD-15; GS2018108-66-CTD-16; GS2018108-73-CTD-21; GS2018108-77-CTD-24; HUD16/19_392; HUD2016019; Hudson; LATITUDE; LONGITUDE; Maria S. Merian; Martha L. Black; meta-analysis; MLB2017001; MLB2017001_005; MLB2017001_006; MLB2017001_020; MSM86; MSM86_016; MSM86_067; North Greenland Sea; physical data; Polarstern; Pori Bac NewZ; Pressure, water; Profile; PS101; PS101/088-1; PS101/170-1; PS101/172-1; PS107; PS107_2-1; PS107_33-1; PS96; PS96/009-4; Remote operated platform for oceanography; Remote operated vehicle; ROPOS; ROPOS 2029; ROPOS 2030; ROPOS 2034; ROV; Salinity; Schultz Bank; SO254; SO254_14-1; SO254_18-1; SO254_2-1; SO254_23-1; SO254_33-1; SO254_34-1; SO254_36-1; SO254_76-1; SO254_77-1; SO254_78-1; SO254_8-1; SO254_81-1; SO254_84-1; SO254_85-1; Sognefjord; Sonne_2; South Atlantic Ocean; South Pacific Ocean; SponGES; SponGES_0617; SPONGES_0617_07-CTD1; SPONGES_0617_12-CTD2; SPONGES_0617_13-CTD3; SPONGES_0617_18-CTD4; SPONGES_0617_19-CTD5; SPONGES_0617_27-CTD7; SPONGES_0617_29-CTD8; SPONGES_0617_40-CTD9; SPONGES_0617_42-CTD10; SPONGES_0617_49-CTD12; SPONGES_0617_55-CTD13; SPONGES_0617_58-CTD14; SPONGES_0617_61-CTD15; Station label; Stjernsund; Sula reef; Temperature, water; Tromsoflaket East; Tromsøflaket; Vesteris; Weddell Sea

Materialart: Dataset

Format: text/tab-separated-values, 313568 data points

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Metadata and NCBI-Accession numbers of the global Deep-sea Sponge Microbiome Project (2022)

Busch, Kathrin ; Hentschel, Ute

PANGAEA

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Publikationsdatum: 2024-03-15

Beschreibung: The Deep-sea Sponge Microbiome Project is a large-scale study, integrating 16S amplicon sequencing data of seawater, sediment, and sponges, with a large set of ecological and physical metadata. The present dataset includes NCBI-accession numbers, sample collection details, and diverse measurements, adding up to 50 entries for each of the 1546 covered samples.

Schlagwort(e): Accession number, genetics; Ada Rebikoff; Agassiz Trawl; AGT; Alkalinity, total; Anchor dredge; Angeles Alvarino; ANT-XXXI/2 FROSN; Arctic Ocean; Area/locality; ARK-XXVII/2; ARK-XXX/3; ARK-XXXI/2; Azores2018; Bay of Biscay; BC; BEAM; Beam trawl; Bleiksdjupet; Bottle, Niskin; Bottom trawl; Box corer; BT; Campaign; Carbon, inorganic, particulate; Carbon, organic, dissolved; Carbon, organic, particulate; Carbon dioxide, total; Celtic Voyager; Class; Conductivity; CTD; CTD/Rosette; CTD1; CTD10; CTD11; CTD12; CTD13; CTD14; CTD15; CTD2; CTD3; CTD4; CTD5; CTD6; CTD7; CTD8; CTD9; CTD-RO; CV13012; CV13012_A; DATE/TIME; Deep-sea; Deep-sea Sponge Grounds Ecosystems of the North Atlantic; Density, sigma, in situ; DEPTH, water; derived from MODIS remote sensing data; Distance; Dive_041; Dive_042; Dive_043; Dive_044; Dive_045; Dive_046; DIVER; DR10; DR15; DR4; DR7; DR9; Dredge, chain bag; Dredge, rock; Dredge, triangle; DRG_A; DRG_C; DRG_R; Duse Bay; Event label; extracted from GLODAPv2.2020; extracted from the World Ocean Atlas 2018 (WOA18); Family; G. O. Sars (2003); Gear; Genus; Geological feature; Grab; GRAB; GS16A-202; GS2016109A; GS2016109A-01-CTD-01; GS2016109A-06-ROV-01; GS2016109A-09-BC-01; GS2016109A-10-BC-02; GS2016109A-14-CTD-02; GS2016109A-16-CTD-04; GS2016109A-18-CTD-06; GS2016109A-21-BC-05; GS2016109A-24-CTD-07; GS2016109A-26-CTD-09; GS2016109A-27-CTD-10; GS2016109A-28-CTD-11; GS2016109A-32-ROV-05; GS2016109A-33-AGT-01; GS2017110; GS2017110-02-ROV-02; GS2017110-03-CTD-01; GS2017110-04-CTD-02; GS2017110-05-ROV-03; GS2017110-06-ROV-04; GS2017110-08-ROV-05; GS2017110-09-ROV-6; GS2017110-15-CTD-05; GS2017110-16-ROV8; GS2017110-19-ROV10; GS2017110-22-BC-02; GS2017110-23-ROV12; GS2017110-26-CTD-08; GS2017110-28-CTD-10; GS2017110-30-CTD-12; GS2017110-34-ROV-15; GS2017110-40-ROV-18; GS2017110-41-ROV-19; GS2017110-42-CTD-16; GS2017110-44-BC-1; GS2017110-45-BC-2; GS2017110-46-BC-3; GS2017110-47-BC-4; GS2017110-50-CTD-19; GS2017110-54-CTD-20; GS2017110-57-AGT-01; GS2017110-59-CTD-21; GS2017110-60-BC-5; GS2017110-61-BC-6; GS2017110-62-BC-7; GS2017110-63-ROV-24; GS2017110-67-CTD-23; GS2017110-68-ROV-25; GS2017110-71-BC-8; GS2017110-72-BC-9; GS2017110-73-BC-10; GS2017110-74-ROV-26; GS2018108; GS2018108-01-ROV-01; GS2018108-02-CTD-01; GS2018108-03-ROV-02; GS2018108-04-ROV-03; GS2018108-05-CTD-02; GS2018108-07-ROV-05; GS2018108-08-ROV-06; GS2018108-12-CTD-03; GS2018108-13-CTD-04; GS2018108-14-CTD-05; GS2018108-17-AGT-01; GS2018108-19-ROV-12; GS2018108-22-CTD-07; GS2018108-23-ROV-15; GS2018108-25-ROV-17; GS2018108-29-CTD-09; GS2018108-30-CTD-10; GS2018108-31-CTD-11; GS2018108-34-ROV-22; GS2018108-37-CTD-12; GS2018108-39-ROV-26; GS2018108-43-ROV-30; GS2018108-44-ROV-31; GS2018108-46-ROV-33; GS2018108-48-CTD-13; GS2018108-55-CTD-14; GS2018108-58-ROV-43; GS2018108-62-CTD-15; GS2018108-63-ROV-47; GS2018108-64-ROV-48; GS2018108-66-CTD-16; GS2018108-70-ROV-50; GS2018108-77-CTD-24; GS2018108-78-ROV-52; GS2018108-79-ROV-53; Gulf of Bothnia, Baltic sea; H045_A; Hans Brattström; HB2016952; HB2016952_2; HB2016952_5; HB2016952_6; HB2016952_7; HB2016952_8; HB27102017_A; HB27102017_B; HB27102017_C; HB27102017a; HB27102017b; HUD16/19_010; HUD16/19_012; HUD16/19_013; HUD16/19_018; HUD16/19_020; HUD16/19_383; HUD16/19_387; HUD16/19_391; HUD16/19_392; HUD16/19_395; HUD2016019; Hudson; Identification; James Clark Ross; JR17003A; JR17003A_12; JR17003A_19; JR17003A_42; JR17003A_44; JR17003A_46-1; KB2017610; KB2017610_CTD7; KB2017610_KB-28; KB2017610_KB-32; KB2017610_KB-60; KB2017610_KB-61; KB2017610_ROV9; Korsfjord; Kristine Bonnevie; LATITUDE; LONGITUDE; LULA0718_Dive1; LULA0718_Dive2; LULA0718_Dive3; Malangsgrunnen; Maria S. Merian; Martha L. Black; meta-analysis; microbes; MLB2017001; MLB2017001_004; MLB2017001_005; MLB2017001_006; MLB2017001_015; MLB2017001_017; MLB2017001_020; MOOR; Mooring; MSM86; MSM86_006; MSM86_008; MSM86_009; MSM86_010; MSM86_012; MSM86_013; MSM86_015; MSM86_016; MSM86_019; MSM86_021; MSM86_022; MSM86_027; MSM86_028; MSM86_031; MSM86_032; MSM86_034; MSM86_035; MSM86_036; MSM86_038; MSM86_040; MSM86_041; MSM86_052; MSM86_054; MSM86_061; MSM86_062; MSM86_063; MSM86_067; MSM86_080; MSM86_081; MSM86_083; MSM86_086; MSM86_088; MSM86_090; MSM86_091; MSM86_094; MSM86_101; MSM86_106; Multicorer with television; NIS; Nitrate; Nitrogen, total dissolved; Nitrogen/Phosphorus ratio; North Greenland Sea; ocean; Ocean; Order; OT; OTNMoor_275; Otter trawl; Oxygen, apparent utilization; Oxygen, dissolved; Oxygen saturation; PAA2014007; PAA2014007_003; PAA2014007_056; PAA2014007_068; PAA2014007_070; PAA2014007_078; PAA2014007_079; PAA2014007_088; PAA2014007_110; PAA2014007_120; PAA2014007_123; PAA2014007_124; PAA2014007_125; PAA2014007_131; PAA2014007_133; PAA2014007_136; Paamiut; pH; Phosphate; Phylum; Polarstern; Pori Bac NewZ; Pressure, water; Prince Gustav Channel; Profile; Project; PS101; PS101/088-1; PS101/092-1; PS101/093-1; PS101/094-1; PS101/123-1; PS101/154-1; PS101/155-1; PS101/170-1; PS101/172-1; PS101/193-1; PS101/194-1; PS101/196-1; PS101/197-1; PS101/198-1; PS101/200-1; PS101/208-1; PS101/216-1; PS107; PS107_2-1; PS107_33-1; PS107_47-1; PS107_6-3; PS80; PS80/176-9; PS80/192-1; PS96; PS96/006-1; PS96/009-3; PS96/009-4; Realm; Remote operated platform for oceanography; Remote operated vehicle; ROPOS; ROPOS 2028; ROPOS 2029; ROPOS 2030; ROPOS 2034; ROV; Salinity; Sample type; Sampling by diver; Schultz Bank; Scotia; Scotia_0915S; Scotia_0915S_A; Scotia_0915S_B; Scotia_0915S_C; Scotia_0915S_D; Sea surface chlorophyll a; seawater; sediment; Silicate; Silicon/Phosphorus ratio; SO254; SO254_10-1; SO254_1-1; SO254_14-1; SO254_18-1; SO254_2-1; SO254_22-1; SO254_23-1; SO254_33-1; SO254_34-1; SO254_36-1; SO254_69-1; SO254_76-1; SO254_77-1; SO254_78-1; SO254_79-1; SO254_8-1; SO254_81-1; SO254_84-1; SO254_85-1; SO254_diver; Sognefjord; Sonne_2; South Atlantic Ocean; South Pacific Ocean; Species; sponge; SponGES; SponGES_0617; SPONGES_0617_04-DR4; SPONGES_0617_06-BT2; SPONGES_0617_07-CTD1; SPONGES_0617_09-DR5; SPONGES_0617_10-DR6; SPONGES_0617_12-CTD2; SPONGES_0617_13-CTD3; SPONGES_0617_15-DR7; SPONGES_0617_18-CTD4; SPONGES_0617_19-CTD5; SPONGES_0617_20-BT3; SPONGES_0617_23-DR9; SPONGES_0617_24-CTD6; SPONGES_0617_26-BT4; SPONGES_0617_27-CTD7; SPONGES_0617_28-DR10; SPONGES_0617_29-CTD8; SPONGES_0617_37-DR11; SPONGES_0617_38-DR12; SPONGES_0617_40-CTD9; SPONGES_0617_41-BT5; SPONGES_0617_42-CTD10; SPONGES_0617_43-BC1; SPONGES_0617_45-BC2; SPONGES_0617_46-CTD11; SPONGES_0617_47-BT6; SPONGES_0617_48-DR14; SPONGES_0617_49-CTD12; SPONGES_0617_50-BT7; SPONGES_0617_52-BT9; SPONGES_0617_53-BC3M1; SPONGES_0617_54-BT10; SPONGES_0617_55-CTD13; SPONGES_0617_56-BT11; SPONGES_0617_57-BT12; SPONGES_0617_58-CTD14; SPONGES_0617_59-BC4M1; SPONGES_0617_60-DR15; SPONGES_0617_61-CTD15; SPONGES_0617_63-DR16; Station label; Stjernsund; SUB; Submersible; Sula reef; TAD; Television-Grab; Temperature, water; Tromsoflaket East; Tromsøflaket; TVG; TVMUC; Uniform resource locator/link to reference; Vesteris; Water bodies; Weddell Sea; Zone

Materialart: Dataset

Format: text/tab-separated-values, 54242 data points

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Amplicon sequence variant (ASV) counts of Antarctic deep-water sponges collected for microbiome study during expeditions PS96 and JR17003a in the Weddell Sea (2024)

Busch, Kathrin ; Federwisch, Luisa ; Hentschel, Ute

PANGAEA

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Publikationsdatum: 2024-04-20

Beschreibung: This dataset provides amplicon sequence variant (ASV) counts of Antarctic deep-water sponges (Demospongiae and Hexactinellida), bottom water samples and sediment collected for microbiome analysis during expeditions PS96 (RV Polarstern, 2015/16) and JR17003a (RRS James Clark Ross, 2018) in the Weddell Sea. The microbiome analysis targeted bacteria and was based on 16S rRNA gene sequencing of the V3-V4 variable regions. Sequences were processed using the QIIME2 environment. Amplicon sequence variants (ASVs) were generated with the DADA2 algorithm. The table gives the feature IDs (unique identifier for each ASV), the counts for each ASV in each sample, and total counts for each ASV. The first line includes the sample IDs for sponge, seawater, and sediment samples. Sample IDs for sponges are composed of abbreviations for sponge species: Anoxycalyx joubini (Aj), Inflatella belli (Ib), Isodictya lankesteri (Il), Rossella fibulata (Rf), Rossella nuda (Rn), Rossella racovitzae (Rr), Rossella vanhoeffeni (Rv), Tentorium semisuberites (Ts), and the field ID of each specimen. Sample IDs for seawater (sw) and sediment (sed) indicate the respective station.

Schlagwort(e): 16S rRNA; Agassiz Trawl; AGT; Antarctic; ANT-XXXI/2 FROSN; AWI_BPP; Bentho-Pelagic Processes @ AWI; Bottom trawl; BT; CTD/Rosette; CTD-RO; Demospongiae; Duse Bay; Hexactinellida; James Clark Ross; JR17003a; JR17003A; JR17003A_12; JR17003A_19; JR17003A_42; JR17003A_44; JR17003A_46; microbiome; Polarstern; Prince Gustav Channel; PS96; PS96/006-1; PS96/009-3; PS96/009-4; sequencing; Sponges; Weddell Sea

Materialart: Dataset

Format: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet, 221.5 kBytes

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Metadata and NCBI accession numbers of Antarctic deep-water sponges collected for microbiome study during expeditions PS96 and JR17003a in the Weddell Sea (2024)

Federwisch, Luisa ; Janussen, Dorte ; Linse, Katrin ; [weitere]

PANGAEA

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Publikationsdatum: 2024-04-18

Beschreibung: This dataset provides metadata of Antarctic deep-water sponges (Demospongiae and Hexactinellida) and sediment collected for microbiome analysis during expeditions PS96 (RV Polarstern, 2015/16) and JR17003a (RRS James Clark Ross, 2018) in the Weddell Sea. It includes information on sampling locations, number of bacterial sequences and amplicon sequence variants (ASVs), NCBI accession numbers for raw sequencing data, and SMF collection numbers for the sponges archived in the collection of Senckenberg Museum, Frankfurt am Main, Germany.

Schlagwort(e): Accession number, genetics; Agassiz Trawl; AGT; Antarctic; ANT-XXXI/2 FROSN; AWI_BPP; Bentho-Pelagic Processes @ AWI; Bottom trawl; BT; Class; Comment; Cruise/expedition; DATE/TIME; Demospongiae; DEPTH, water; Event label; Family; Gear; Hexactinellida; Identification; James Clark Ross; JR17003a; JR17003A; JR17003A_38; JR17003A_46; JR17003A_52; LATITUDE; LONGITUDE; microbiome; Number of amplicon sequence variants; Number of sequences; Ocean and sea region; Order; Polarstern; Prince Gustav Channel; PS96; PS96/009-3; Sample comment; Sample ID; Sample type; Site; Species; Species, unique identification (URI); Sponges; Weddell Sea

Materialart: Dataset

Format: text/tab-separated-values, 552 data points

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Environmental data and metadata of water samples collected for microbiome study during expeditions PS96 and JR17003a in the Weddell Sea (2024)

Federwisch, Luisa ; Linse, Katrin ; Hentschel, Ute ; [weitere]

PANGAEA

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Publikationsdatum: 2024-04-18

Beschreibung: This dataset provides metadata of bottom water samples collected for microbiome analysis during expeditions PS96 (RV Polarstern, 2015/16) and JR17003a (RRS James Clark Ross, 2018) in the Weddell Sea, Antarctica, as well as environmental data of the respective stations. It includes information on sampling locations, number of bacterial sequences and amplicon sequence variants (ASVs), and NCBI accession numbers for raw sequencing data. Environmental data of PS96 stations were obtained from: Schröder, Michael; Ryan, Svenja; Wisotzki, Andreas (2016): Physical oceanography measured on water bottle samples during POLARSTERN cruise PS96 (ANT-XXXI/2 FROSN). Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Research, Bremerhaven, PANGAEA, https://doi.org/10.1594/PANGAEA.859035

Schlagwort(e): Accession number, genetics; Antarctic; ANT-XXXI/2 FROSN; AWI_BPP; Bentho-Pelagic Processes @ AWI; Comment; Cruise/expedition; CTD/Rosette; CTD-RO; DATE/TIME; DEPTH, water; Duse Bay; environmental data; Event label; Gear; Height above sea floor/altitude; Identification; James Clark Ross; JR17003a; JR17003A; JR17003A_12; JR17003A_19; JR17003A_42; JR17003A_44; JR17003a_9; LATITUDE; LONGITUDE; microbiome; Number of amplicon sequence variants; Number of sequences; Ocean and sea region; Oxygen; Oxygen saturation; Polarstern; Prince Gustav Channel; PS96; PS96/006-1; PS96/009-4; Salinity; Sample ID; Sample type; Site; Temperature, water; water; Water samples; Weddell Sea

Materialart: Dataset

Format: text/tab-separated-values, 100 data points

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Microbial phyla relative abundance data of Antarctic deep-water sponges collected for microbiome study during expeditions PS96 and JR17003a in the Weddell Sea (2024)

Busch, Kathrin ; Federwisch, Luisa ; Hentschel, Ute

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Publikationsdatum: 2024-04-20

Beschreibung: This dataset provides relative abundances of microbial phyla in Antarctic deep-water sponges (Demospongiae and Hexactinellida), bottom water samples and sediment collected for microbiome analysis during expeditions PS96 (RV Polarstern, 2015/16) and JR17003a (RRS James Clark Ross, 2018) in the Weddell Sea. The microbiome analysis targeted bacteria and was based on 16S rRNA gene sequencing of the V3-V4 variable regions. Sequences were processed using the QIIME2 environment. Amplicon sequence variants (ASVs) were generated with the DADA2 algorithm and classified based on the Silva 132 99% OTUs 16S database. The first column of the table gives the observed microbial phyla; the following columns give the relative abundances of each phylum in each sample (as fraction). The first line includes the sample IDs for sponge, seawater, and sediment samples. Sample IDs for sponges are composed of abbreviations for sponge species: Anoxycalyx joubini (Aj), Inflatella belli (Ib), Isodictya lankesteri (Il), Rossella fibulata (Rf), Rossella nuda (Rn), Rossella racovitzae (Rr), Rossella vanhoeffeni (Rv), Tentorium semisuberites (Ts), and the field ID of each specimen. Sample IDs for seawater (sw) and sediment (sed) indicate the respective station.

Schlagwort(e): 16S rRNA; Agassiz Trawl; AGT; Antarctic; ANT-XXXI/2 FROSN; AWI_BPP; Bentho-Pelagic Processes @ AWI; Bottom trawl; BT; CTD/Rosette; CTD-RO; Demospongiae; Duse Bay; Hexactinellida; James Clark Ross; JR17003a; JR17003A; JR17003A_12; JR17003A_19; JR17003A_42; JR17003A_44; JR17003A_46; microbiome; Polarstern; Prince Gustav Channel; PS96; PS96/006-1; PS96/009-3; PS96/009-4; sequencing; Sponges; Weddell Sea

Materialart: Dataset

Format: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet, 26.1 kBytes

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Images and microbiome data of Antarctic deep-water sponges (Demospongiae and Hexactinellida) collected during expeditions PS96 and JR17003a in the Weddell Sea, Antarctica (2024)

Federwisch, Luisa ; Leys, Sally P ; Janussen, Dorte ; [weitere]

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Publikationsdatum: 2024-04-20

Beschreibung: Sponges (Porifera) host diverse and species-specific communities of microbial symbionts with which they maintain tight interactions. However, knowledge on the microbiomes of sponges from deep waters and remote polar areas is still scarce, especially for the sponge class Hexactinellida. Therefore, our aim was to describe the community composition, richness and density of microbial symbionts of Antarctic deep-water sponges, including several species of hexactinellids, and relate the findings to host ultrastructure and histology. During the Antarctic expeditions PS96 (RV Polarstern, 2015/16, eastern Weddell Sea) and JR17003a (RRS James Clark Ross, 2018, western Weddell Sea), 28 sponge specimens, bottom water and sediment were sampled for molecular analysis of microbial communities. The sponges were collected from deep habitats of 290-845 m by Bottom Trawl or Agassiz Trawl and comprised 19 hexactinellids and 9 demosponges. Bottom water was collected with a CTD rosette sampler which also measured environmental data (temperature, salinity, oxygen) close to the start or end point of the trawls and at four additional stations. Sediment was collected from the Agassiz trawl together with sponge samples during JR17003a. The molecular microbiome analysis targeted bacteria and was based on 16S rRNA gene sequencing of the V3-V4 variable regions. Sequences were processed using the QIIME2 environment. Amplicon sequence variants (ASVs) were generated with the DADA2 algorithm and classified based on the Silva 132 99% OTUs 16S database. Eight sponge specimens collected during JR17003a were further investigated microscopically for microbial symbionts, sponge histology and ultrastructure. Histological sections of 7-30 µm were stained in either Masson's trichrome or Hematoxylin/Eosin and images captured on a Zeiss Axioskop 2 plus with a QiCam camera using Northern Eclipse software. Ultrastructural sections of 60 nm were stained in uranyl acetate and lead citrate and then viewed and photographed with a Philips Morgagni transmission electron microscope equipped with a Gatan CCD camera. This Data Collection includes sampling information, environmental data, NCBI accession numbers and photographs of the analyzed sponges, data on the microbial symbiont communities (amplicon sequence variants and microbial phyla) of sponges, seawater and sediment, as well as micrographs of sponge histology and ultrastructure.

Schlagwort(e): 16S rRNA; Antarctic; AWI_BPP; Bentho-Pelagic Processes @ AWI; Demospongiae; Hexactinellida; Histology; JR17003a; microbes; microbiome; microscopy; PS96; sequencing; Sponges; ultrastructure; Weddell Sea

Materialart: Dataset

Format: application/zip, 8 datasets

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Biodiversity of deep-sea sponge microbiomes in the ecosystem context (2020)

Busch, Kathrin

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Publikationsdatum: 2023-02-08

Beschreibung: The deep-sea is the largest habitat on Earth, but its biodiversity and ecosystem dynamics are still underexplored. Deep-sea sponge grounds (syn. aggregations, gardens) are sponge-dominated ecosystems that are found throughout the world´s oceans. They are considered vulnerable marine ecosystems (VMEs) and warrant protection against human intervention. Deep-sea sponge grounds are considered hotspots of diversity and function in the deep ocean. While a significant body of information has been accrued on shallow-water sponges, our understanding of deep-sea sponges and their associated microbiomes at the beginning of this PhD thesis was still very limited. This PhD thesis therefore aims to provide a first comprehensive overview on the diversity, evolution, biogeography, and ecology of deep-sea sponge microbiomes. The overarching aim was to assess whether the concepts obtained in shallow-water sponge microbiology would also hold in the deep-sea. In addition, novel themes such as biogeochemistry, physical oceanography, and trait-based approaches were integrated and further expand the existing theoretical framework in sponge microbiology. Sampling was conducted during 20 deep-sea expeditions, largely to sponge grounds of the North Atlantic in the context of the EU project “SponGES: Deep-sea sponge grounds ecosystems of the North Atlantic - an integrated approach towards their preservation and sustainable exploitation”. In total 1077 sponge-associated microbiomes were sampled along with 355 seawater microbiomes and 114 sediment microbiomes from 52 sponge ground locations. Microbial diversity was assessed by 16S rRNA gene amplicon sequencing and host taxonomy was determined by a combination of taxonomic and molecular markers. To this end, a state-of-the-art high-throughput 16S amplicon pipeline was established and corresponding metadata workflows were developed. The resulting data were analysed by six specific case studies (of which all were published) and one overarching meta-analysis (manuscript in preparation). The microbial community composition of deep-sea sponges was explored across different scales, from the ecosystem- and biogeography-level, to individual sponge species and to the microbial taxon (Amplicon Single nucleotide Variant; ASV) level. By exploring sponge microbiomes on different levels of integration and by using a nested sampling design, I was able to identify overarching factors, that drive microbiome composition in a statistically proven manner. The main identified environmental drivers of microbial community variability were temperature, salinity, nutrients/oxygen, and depth. It is noteworthy, that these parameters were identified from a total set of 24 environmental parameters. Furthermore, sponge phylogeny, taxonomy, and morphology were found to be related with the microbial community composition. Interestingly, microbial diversity can be predicted based on sponge morphology, which offers exciting opportunities for future studies in respect to imaging or trait-based approaches. My conclusions on the microbiome composition of deep-sea sponge microbiomes are that each deep-sea sponge harbours an individual set of microbes and a large pool of hidden diversity. Furthermore, deep-sea sponge microbiomes are globally not well connected and rather display heterogeneity on local scales. Interestingly, a deep-sea specific sponge microbiome was discovered. Overall, the results of my thesis suggest a strong nestedness of deep-sea sponge microbiomes within their ecological context. In the context of this PhD thesis, I established a baseline of deep-sea sponge-associated microbiomes, discovered a large extent of novel diversity and described patterns of specificity, stability and variability. I further identified the environmental and host-related drivers of sponge microbiome composition. From a methodological point, I have designed and developed a software tool (termed SVAmpEx) that allows the archiving and user-friendly accessibility of deep-sea sponge microbiome baseline data. Since microbiome composition is directly related to sponge health, reference baselines are valuable to monitor the integrity and resilience of deep-sea sponges. The collective information gathered in this PhD thesis provides the scientific basis to improve conservation and management strategies of the vulnerable deep-sea sponge ground ecosystems in the long run.

Materialart: Thesis , NonPeerReviewed

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Microbial strategies for survival in the glass sponge Vazella pourtalesii (2020)

Bayer, Kristina ; Busch, Kathrin ; Kenchington, Ellen ; [weitere]

American Society for Microbiology

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Publikationsdatum: 2023-02-09

Beschreibung: Few studies have thus far explored the microbiomes of glass sponges (Hexactinellida). The present study seeks to elucidate the composition of the microbiota associated with the glass sponge Vazella pourtalesii and the functional strategies of the main symbionts. We combined microscopic approaches with metagenome-guided microbial genome reconstruction and amplicon community profiling towards this goal. Microscopic imaging revealed that the host and microbial cells appeared within dense biomass patches that are presumably syncytial tissue aggregates. Based on abundances in amplicon libraries and metagenomic data, SAR324 bacteria, Crenarchaeota, Patescibacteria and Nanoarchaeota were identified as abundant members of the V. pourtalesii microbiome and their genomic potentials were thus analyzed in detail. A general pattern emerged in that the V. pourtalesii symbionts had very small genome sizes in the range of 0.5-2.2 Mb and low GC contents, even below those of seawater relatives. Based on functional analyses of metagenome-assembled genomes (MAGs), we propose two major microbial strategies: the “givers”, namely Crenarchaeota and SAR324, heterotrophs and facultative anaerobes, produce and partly secrete all required amino acids and vitamins. The “takers”, Nanoarchaeota and Patescibacteria, are anaerobes with reduced genomes that tap into the microbial community for resources, e.g., lipids and DNA, likely using pili-like structures. We posit that the existence of microbial cells in sponge syncytia together with the low-oxygen conditions in the seawater environment are factors that shape the unique compositional and functional properties of the microbial community associated with V. pourtalesii . Importance: We investigated the microbial community of V. pourtalesii that forms globally unique, monospecific sponge grounds under low-oxygen conditions on the Scotian Shelf, where it plays a key role for its vulnerable ecosystem. The microbial community was found to be concentrated within biomass patches and is dominated by small cells (〈1 μm). MAG analyses showed consistently small genome sizes and low GC contents, which is unusual in comparison to known sponge symbionts. These properties as well as the (facultatively) anaerobic metabolism and a high degree of interdependence between the dominant symbionts regarding amino acid and vitamin synthesis are likely adaptations to the unique conditions within the syncytial tissue of their hexactinellid host and the low-oxygen environment.

Materialart: Article , PeerReviewed , info:eu-repo/semantics/article

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Temporal abundance dynamics of sponge-associated bacteria after microbiome manipulation and recolonization (2021)

Schmittmann, Lara ; Busch, Kathrin ; Pita, Lucia ; [weitere]

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Publikationsdatum: 2023-02-07

Materialart: Conference or Workshop Item , NonPeerReviewed

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