Dataset: All taxa colonization counts

Name: Counts of colonists collected from colonization plates at the East Pacific Rise (EPR) deep-sea vents (1998-2017)
Published: 2020-08-31
Keywords: biota, oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.733173.2

Spatial Extent: N:9.8421 E:-104.2912 S:9.8387 W:-104.2919

Temporal Extent: 1998-05-15 - 2017-04-29

Project:

Effects of Disturbance and Larval Supply on Communities at Hydrothermal Vents (Larval supply at EPR vents)

Trajectories in functional diversity after disturbance at vents on the East Pacific Rise (EPR Functional Diversity)

Principal Investigator:

Lauren Mullineaux (Woods Hole Oceanographic Institution, WHOI)

BCO-DMO Data Manager:

Nancy Copley (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2020-08-31

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Counts of colonists collected from colonization plates at the East Pacific Rise (EPR) deep-sea vents (1998-2017)

Abstract:

Counts of colonist species and morphogroups on post-eruption sandwiches (at P-vent) and pre-eruption blocks (at East Wall) near 9.8333 N on the East Pacific Rise (EPR). Recovery date (months since January 2006 eruption), deployment habitat zone (H=Hot, W=Warm, C=Cool), sample ID, and recovery temperature (deg C) are presented for each sample. Species and morphogroups were matched to equal or lowest level taxon in the World Register of Marine Species (WoRMS). These data are published in Mullineaux et al (2012).

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Archival Copy

Version Date	Archive	Persistent Identifier (PID)	Date PID Issued
2020-08-31	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.733173.2	2020-09-09
2018-04-11	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.1575/1912/bco-dmo.733173.1	2019-12-11

Description

Counts of colonist species and morphogroups on post-eruption sandwiches (at P-vent) and pre-eruption blocks (at East Wall) near 9°50'N on the East Pacific Rise (EPR). Recovery date (months since January 2006 eruption), deployment habitat zone (H=Hot, W=Warm, C=Cool), sample ID, and recovery temperature (deg C) are presented for each sample. Species and morphogroups were matched to equal or lowest level taxon in the World Register of Marine Species (WoRMS). Data were provided using Darwin Core terms to enable harvesting by the Ocean Biodiversity Information System (OBIS).

Data are also provided in a wide format [see Data Files section] with columns for each sample which indicate monthsSinceEruption - Zone - samplerID - temperatureRecovered, e.g., 9-H-2-26.7 indicates nine months post-eruption, in zone hot, sampler ID 2, recovered at 26.7 deg C. Values in each of these columns indicate counts of individuals identified to that dataProviderName for that sample. Zeroes denote absence.

Spatiotemporal metadata for the samples are provided in Dataset: Colonization sampler log https://www.bco-dmo.org/dataset/733210. These data are published in Mullineaux et al (2012). doi:10.1371/journal.pone.0050015.

Methods & Sampling

Colonists were collected on experimental surfaces (sandwiches) constructed from six 0.7-cm-thick Lexan plastic plates separated by 1 cm spacers, creating a lattice 10 cm on a side (Bayer et al, 2011; note in 1998 colonists were collected on basalt blocks). Sandwiches were deployed and recovered by the submersible Alvin or ROV Jason. Deployment durations were 4, 2, 11, 11, 43, 10, and 29 months respectively for the recoveries at 9, 11, 22, 33, 96, 106, and 135 months after an eruption that took place in January 2006. The thermal environment at the base of each sandwich was measured with the Alvin (or Jason) temperature probe on deployment and recovery for ca 1–2 min until a clear maximum value was obtained.

Species abundance was assessed on three replicate sandwiches for each treatment (e.g., from one habitat within a site at a particular recovery date). On recovery, each sandwich was placed in individual collection compartments for transport back to the ship. On board, sandwiches and their attached colonists were preserved in 80% ethanol, as were any individuals that had become detached in the compartment and were retained on a 63-µm sieve. In the laboratory, each surface was examined under a dissecting microscope and all metazoan colonists (including detached individuals >1 mm) were enumerated and identified to species if possible. Additional identifications based on genetic barcoding are in progress using support from other sources. Those data will be added in future.

Data Processing Description

Data cleaning and merging with taxonomic identifiers were performed with code available on GitHub:
https://github.com/sbeaulieu/EPR-traits/blob/master/Pvent_data_cleaning_BCODMO.R

The *Laminatubus alvini group may include small Protis hydrothermica; thus, the lowest taxonomic match is at family rank.

BCO-DMO Processing Notes:
- added conventional header with dataset name, PI name, version date
- added latitude, longitude, and date, obtained from the sampling log dataset (Colonization sampler log, https://www.bco-dmo.org/dataset/733210)

Data Files

File

EPR colonizer counts. alternate format
filename: Pvent_P-S_135_supptable1_submit_merged_wide_106.csv

(Comma Separated Values (.csv), 13.81 KB)
MD5:224955b17472105a4d958b4aa29b0d46

Wide format with columns for each sample indicate monthsSinceEruption - Zone -  samplerID - temperatureRecovered, e.g., 9-H-2-26.7 indicates nine months post-eruption, in zone hot, sampler ID 2, recovered at 26.7 deg C.  Values in each of these columns indicate counts of individuals identified to that dataProviderName for that sample. Zeroes denote absence.

EPR_counts.csv

(Comma Separated Values (.csv), 477.15 KB)
MD5:66fb32436343871b769592baff0c96b9

Primary data file for dataset ID 733173

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1356738
NSF Division of Ocean Sciences	OCE-1829773

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
AT15-12	LADDER-1	2006-10-24	R/V Atlantis	Andreas Thurnherr (Chief Scientist)	data info
AT15-14	LADDER-2	2006-12-05	R/V Atlantis	James R. Ledwell (Chief Scientist)	data info
AT15-26	LADDER-3	2007-11-13	R/V Atlantis	Lauren Mullineaux (Chief Scientist)	data info
AT15-38	FIX08B	2008-10-13	R/V Atlantis	Stefan M. Sievert (Chief Scientist)	data info
AT26-10		2013-12-29	R/V Atlantis	Stefan M. Sievert (Chief Scientist)	data info
AT26-23	EPR 2014 2014B	2014-11-02	R/V Atlantis	Stefan M. Sievert (Chief Scientist)	data info
AT3-19		1998-05-10	R/V Atlantis	Lauren Mullineaux (Chief Scientist)	data info
AT37-12	Dark Life II	2017-04-24	R/V Atlantis	Stefan M. Sievert (Chief Scientist)	data info

Instruments

colonization substrata

Supplied Name:

Supplied Description:

Lexan plastic 6-plate settlement panel

Instrument Type

Generic Name: colonization substrata

Generic Description:

Natural or artificial materials deployed in a marine or artificial environment for a given period to act as standardised, passive settlement sampling devices (e.g. settlement plates). They are used to determine the extent of colonization and/or the diversity of settled organisms.

Lexan plastic 6-plate settlement panel

Supplied Name: Lexan plastic plates/sandwiches

Supplied Description:

Instrument Type

Generic Name: Lexan plastic 6-plate settlement panel

Acronym: Colonization sandwich

Generic Description:

An artificial colonization substrate, sometimes referred to as a "colonization sandwich", that is made of 6 Lexan plastic sheets separated from each other by spacers. It is used to determine the extent of colonization and/or the diversity of settled organisms in a marine or artificial environment.

Microscope - Optical

Supplied Name: Dissecting microscope

Supplied Description:

Used to identify specimens found on the colonization plates.

Instrument Type

Generic Name: Microscope - Optical

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB05/

Generic Description:

Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of visible light. Includes conventional and inverted instruments. Also called a "light microscope".

ROV Jason

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: ROV Jason

Generic Description:

The Remotely Operated Vehicle (ROV) Jason is operated by the Deep Submergence Laboratory (DSL) at Woods Hole Oceanographic Institution (WHOI). WHOI engineers and scientists designed and built the ROV Jason to give scientists access to the seafloor that didn't require them leaving the deck of the ship. Jason is a two-body ROV system. A 10-kilometer (6-mile) fiber-optic cable delivers electrical power and commands from the ship through Medea and down to Jason, which then returns data and live video imagery. Medea serves as a shock absorber, buffering Jason from the movements of the ship, while providing lighting and a bird’s eye view of the ROV during seafloor operations. During each dive (deployment of the ROV), Jason pilots and scientists work from a control room on the ship to monitor Jason’s instruments and video while maneuvering the vehicle and optionally performing a variety of sampling activities. Jason is equipped with sonar imagers, water samplers, video and still cameras, and lighting gear. Jason’s manipulator arms collect samples of rock, sediment, or marine life and place them in the vehicle’s basket or on "elevator" platforms that float heavier loads to the surface. More information is available from the operator site at URL.

Temperature Logger

Supplied Name: temperature recorders (Hobo)

Supplied Description:

Used to track the in situ temperature during colonization at the vent zones.

Instrument Type

Generic Name: Temperature Logger

Generic Description:

Records temperature data over a period of time.

Parameters

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
dataProviderName	Name used by the data provider to identify the taxon or morphogroup; not necessarily a scientific name.	unitless	taxon
scientificName	Name from World Register of Marine Species (WORMS) at the lowest level that matches the data provider name. This corresponds to Darwin Core term http://rs.tdwg.org/dwc/terms/scientificName.; often the same as dataProviderName minus uncertainty additions such as sp./spp./unk A/etc.	unitless	taxon
scientificNameID	Machine-readable Life Science Identifier (LSID) containing the AphiaID from World Register of Marine Species at the lowest level that matches the data provider name. This corresponds to Darwin Core term http://rs.tdwg.org/dwc/terms/scientificNameID.	unitless	taxon_code
AphiaID	Numerical identifier from World Register of Marine Species at the lowest level that matches the data provider name.	unitless	taxon_code
eventID	Unique identifier for the sample as an Event. This corresponds to Darwin Core term http://rs.tdwg.org/dwc/terms/eventID.	unitless	ev_code
decimalLatitude	sample collection latitude; north is positive	decimal degrees	lat
decimalLongitude	sample collection longitude; east is positive	decimal degrees	lon
eventDate	event date formatted as yyyy-mm-dd	unitless	date
monthsSinceEruption	The number of months since eruption	months	time_elapsed
zone	Deployment habitat zone description: H=hot; W=warm; C=cool	unitless	site_descrip
samplerID	Identification number for each colonization sampler	unitless	inst_serial_numb
temperatureRecovered	temperature at recovery	degrees Celsius	temp
individualCount	The number of individuals recovered from settling plate. This corresponds to Darwin Core term http://rs.tdwg.org/dwc/terms/individualCount.	specimens	count

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Dataset: All taxa colonization counts