Cárdenas, Paco; Moore, Jon A (2016): Collecting information and identification of New England Seamount Geodia species [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.867276, Supplement to: Cárdenas, P; Moore, JA (2017): First records of Geodia demosponges from the New England seamounts, an opportunity to test the use of DNA mini-barcodes on museum specimens. Marine Biodiversity, 12 pp, https://doi.org/10.1007/s12526-017-0775-3
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Abstract:
We report the first records of the sponge genus Geodia (Demospongiae, Tetractinellida, Geodiidae) from the New England Seamounts and Muir Seamount, at lower bathyal depths. Nine specimens collected between 2000 and 2005 belong to two boreal species (Geodia macandrewii and Geodia barretti) and a temperate species (Geodia megastrella). These records extend the distributions of these deep-sea amphi-Atlantic species to the west. Most of these specimens were originally fixed in formalin, which substantially degraded the DNA. We nonetheless managed to sequence two cytochrome c oxidase subunit I (COI) mini-barcodes: the universal mini-barcode at the 5' end of the Folmer barcode (130 bp) and a newly proposed mini-barcode at the 3' end of the Folmer barcode (296 bp). These mini-barcodes unambiguously confirmed our identifications. As an additional test, we also successfully sequenced these two mini-barcodes from the holotype of G. barretti, collected in 1855. We conclude by advocating the use of mini-barcodes on formalin-fixed or old specimens with degraded DNA.
Project(s):
Funding:
Horizon 2020 (H2020), grant/award no. 679849: Deep-sea Sponge Grounds Ecosystems of the North Atlantic
Coverage:
Median Latitude: 39.622396 * Median Longitude: -56.543543 * South-bound Latitude: 33.753300 * West-bound Longitude: -67.480500 * North-bound Latitude: 64.710000 * East-bound Longitude: 10.790000
Date/Time Start: 1855-08-06T00:00:00 * Date/Time End: 2005-10-28T00:00:00
Minimum Elevation: -2838.0 m * Maximum Elevation: 2008.0 m
Event(s):
Alv_3886 * Latitude: 33.757000 * Longitude: -62.601000 * Date/Time: 2003-06-05T00:00:00 * Elevation: -2838.0 m * Campaign: AT07-35 * Basis: Atlantis (1997)
Alv_3904 * Latitude: 38.850100 * Longitude: -63.924000 * Date/Time: 2003-07-16T00:00:00 * Elevation: -2174.0 m * Campaign: AT08-01 * Basis: Atlantis (1997)
ALV-3885 * Latitude: 33.775700 * Longitude: -62.572200 * Date/Time: 2003-06-04T00:00:00 * Elevation: -2066.0 m * Location: New England Mountains * Campaign: AT07-35 * Basis: Atlantis (1997) * Method/Device: Submersible Alvin (ALVIN)
Comment:
This dataset gives the collecting information of New England Seamount Geodia species from the Yale Peabody Museum. Museum numbers, fixation processing and Genbank accession numbers are also given.
Parameter(s):
| # | Name | Short Name | Unit | Principal Investigator | Method/Device | Comment |
|---|---|---|---|---|---|---|
| 1 | Event label | Event | Cárdenas, Paco | |||
| 2 | LATITUDE | Latitude | Cárdenas, Paco | Geocode | ||
| 3 | LONGITUDE | Longitude | Cárdenas, Paco | Geocode | ||
| 4 | Sample comment | Sample comment | Cárdenas, Paco | |||
| 5 | Description | Description | Cárdenas, Paco | |||
| 6 | DATE/TIME | Date/Time | Cárdenas, Paco | Geocode | ||
| 7 | Area/locality | Area | Cárdenas, Paco | |||
| 8 | Campaign | Campaign | Cárdenas, Paco | |||
| 9 | Sample elevation | Elevation | m | Cárdenas, Paco | # = down to 2008 m | |
| 10 | Collection | Collection | Cárdenas, Paco | Museum# | ||
| 11 | Uniform resource locator/link to metadata file | URL meta | Cárdenas, Paco | |||
| 12 | Treatment | Treat | Cárdenas, Paco | fixation | ||
| 13 | Identification | ID | Cárdenas, Paco | COI Genbank# | ||
| 14 | Species | Species | Cárdenas, Paco | |||
| 15 | Investigator | Investigator | Cárdenas, Paco | Species identified by |
License:
Creative Commons Attribution 3.0 Unported (CC-BY-3.0)
Size:
95 data points
Data
| 1 Event | 2 Latitude | 3 Longitude | 4 Sample comment | 5 Description | 6 Date/Time | 7 Area | 8 Campaign | 9 Elevation [m] | 10 Collection | 11 URL meta | 12 Treat | 13 ID | 14 Species | 15 Investigator |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ALV-3885 | 33.77570 | -62.57150 | Alvin Dive #3885, St. 1 | 2003-06-03 | Muir seamount | R/V Atlantis Cruise ATO7-35 | -2027 | YPM 28870 | collections.peabody.yale.edu | formalin>70% EtOH | Geodia megastrella | P. Cárdenas | ||
| ALV-3887 | 33.77330 | -62.58500 | Alvin Dive #3887, St. 5 | 2003-06-06 | Muir seamount | R/V Atlantis Cruise ATO7-35 | -2265 | YPM 28891 | collections.peabody.yale.edu | formalin>70% EtOH | KX982851 | Geodia megastrella | P. Cárdenas | |
| Alv_3904 | 38.85010 | -63.92400 | Alvin Dive #3904, St. 208-1 | 2003-07-16 | Kelvin seamount | R/V Atlantis Cruise ATO8-01 | -1880 | YPM 34730 | collections.peabody.yale.edu | formalin>70% EtOH | Geodia megastrella | P. Cárdenas | ||
| RB04-04_MAN708 | 38.14860 | -61.10180 | ROV Hercules dive #6, St. MAN708 | 2004-05-15 | Manning seamount | R/V Ronald Brown Cruise RB04-04 | -1718 | YPM 36027 | collections.peabody.yale.edu | formalin?>70% EtOH | Geodia megastrella | P. Cárdenas | ||
| ALV-4162 | 39.65230 | -65.94330 | Alvin Dive#4162, St. PIC 104-1 | 2005-10-28 | Picket seamount | R/V Atlantis Cruise AT12-01 | -1995 | YPM 46869 | collections.peabody.yale.edu | formalin>70% EtOH | KX982852 | Geodia megastrella | P. Cárdenas | |
| ALV-3887 | 33.75330 | -62.58500 | Alvin Dive #3887, St.5 | 2003-06-06 | Muir seamount | R/V Atlantis Cruise ATO7-35 | -2265 | YPM 58540 | collections.peabody.yale.edu | formalin>70% EtOH | Geodia megastrella | P. Cárdenas | ||
| Alv_3886 | 33.75700 | -62.60100 | Alvin Dive #3886, St.1 | 2003-06-05 | Muir seamount | R/V Atlantis Cruise ATO7-35 | -2829 | YPM 28886 | collections.peabody.yale.edu | formalin?>70% EtOH | KX982853 | Geodia barretti | P. Cárdenas | |
| DE02-06_46 | 39.88333 | -67.43333 | Yankee 36 otter trawl, St. 46 | 2002-07-29 | Bear seamount | R/V Delaware II Cruise DE02-06 | -1489 | YPM 28261 | collections.peabody.yale.edu | EtOH? | Geodia macandrewii | P. Cárdenas | ||
| DE00-11_17 | 39.92033 | -67.48050 | Yankee 36 otter trawl, St. 17 | 2000-12-05 | Bear seamount | R/V Delaware II Cruise DE00-11 | #-1826 | YPM 27001 | collections.peabody.yale.edu | frozen>70% EtOH | KX982850 | Geodia macandrewii | P. Cárdenas | |
| Vikna_Is | 64.71000 | 10.79000 | Position approximate | Vikna Island, Norway | 1855-08-06 | North Cape Expedition, 1855 | -183 | NHM 1877.5.21.1399, HOLOTYPE | marinespecies.org | dry | KX982854 | Geodia barretti | J. S. Bowerbank |