Dataset: Community composition separated by native and cryptogenic, and introduced species of each community

Name: Community composition (relative abundance) separated by native and cryptogenic, and introduced species of each community from coastal sites across a geographic gradient spanning the sub-arctic to the tropics from 2015-2017
Published: 2021-04-23
Keywords: abundance, Pacific, introduced, latitudinal gradient, sessile invertebrates, biota, oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.850190.1

Spatial Extent: N:55.47257 E:-79.52183 S:8.91758 W:-131.79698

Temporal Extent: 2015-12 - 2017-06

Project:

Community Effects of Competition and Predation across Latitude and Implications for Species Invasions (Competition and Predation across Latitude)

Principal Investigator:

Amy L. Freestone (Temple University, Temple)

Co-Principal Investigator:

Gregory E. Ruiz (Smithsonian Environmental Research Center, SERC)

Mark E. Torchin (Smithsonian Tropical Research Institute , STRI)

Scientist:

Laura J. Jurgens (Temple University, Temple)

Carmen Schlöder (Smithsonian Tropical Research Institute , STRI)

Student:

Mariana Bonfim (Temple University, Temple)

Diana Paola López (Temple University, Temple)

Michele F. Repetto (Temple University, Temple)

Contact:

Diana Paola López (Temple University, Temple)

BCO-DMO Data Manager:

Amber D. York (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2021-04-23

Restricted:

Release Date:

2021-08-30

Validated:

Yes

Current State:

Final with updates expected

Community composition (relative abundance) separated by native and cryptogenic, and introduced species of each community from coastal sites across a geographic gradient spanning the sub-arctic to the tropics from 2015-2017

Abstract:

Community composition of sessile marine invertebrates from coastal sites across a geographic gradient spanning the sub-arctic to the tropics. Community composition is divided into two data sets. One corresponds to the community composition of the introduced species found in each community, and the other data set corresponds to the community composition of native and cryptogenic species found in each community.

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Archival Copy

Version Date	Archive	Persistent Identifier (PID)	Date PID Issued
2021-04-23	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.850190.1	2021-08-30

Description

The main data table served from this Dataset Metadata Page includes data columns "Species" and "Abundance" (See "Parameters" section for more details about columns in the main data table). An alternate format of this dataset is available in the "Data Files" section which has an abundance column per species with a form of the species name as the column name.

The alternate data format has two separate tables divided by whether it is for introduced species or native and cryptogenic species. That information is included in the main data table for this dataset in column "Species_status_type."

Methods & Sampling

These data were used for the publication Lopez and Freestone (2020) and only include composition for taxa identified to genus or species and represent a subset of the data collected for OCE-1434528.

Location: Ketchikan, AK, San Francisco, CA, La Paz, Mexico, and Panama City, Panama

Methodology: Marine invertebrate communities grew on artificial settlement panels hung on floating docks one-meter below the water surface at local marinas in three coastal sites at each region (locations above).

Sampling and analytical procedures: Marine invertebrates from each community were identified on a 50-point grid to generate a measure of percent cover by taxa. The National Exotic Marine and Estuarine Species Information System (NEMESIS) was used to assign status to confirmed species and complemented status information with published literature.

Data Processing Description

BCO-DMO Data Manager Processing Notes:
* Imported files Rel_Abun_3mo_int_all_latlong.csv and Rel_Abun_3mo_nat_all_latlong.csv into the BCO-DMO data system.
* Combined the two data tables adding a new column to capture the species type (int or nat).
* unpivoted dataset. This transforms from all columns per species containing relative abundance into one column "Species" containing the taxonomic name and one column "Abundance" containing the relative abundance.
* removed underscores in taxonomic names. Added the two data tables before combining and unpivoting to the "Data Files" section of this Dataset Metadata Page.
* changed column names to match BCO-DMO naming conventions (only underscores and a-Z0-9)
* Taxonomic names matched to accepted taxonomic names using the World Register of Marine Species taxa match tool on 2021-04-26. Names were not changed in this dataset. Misspelled and unaccepted synonyms are present in the data. A species list including the matches accepted names, aphiaIDs, and LSIDs attached to this dataset as a supplemental file. For more information see https://www.marinespecies.org/aphia.php?p=match

Data Files

File
comm_comp.csv (Comma Separated Values (.csv), 469.80 KB) MD5:4ce7ac16dc9776120d4112c8e9c3e4c3 Primary data file for dataset ID 850190
Relative abundance of introduced species (alternate data format, species by column) filename: Rel_Abun_3mo_int_all_latlong.csv (Comma Separated Values (.csv), 12.93 KB) MD5:7d382a41e27835d7321cdb095b933ca8 This file contains only data for introduced species of the region. In this data format there is a column for each species' relative abundance (percent cover) . See "Parameters" section of the metadata for information about each column in this data table .
Relative abundance of native and cryptogenic species (alternate data format, species by column) filename: Rel_Abun_3mo_nat_all_latlong.csv (Comma Separated Values (.csv), 12.23 KB) MD5:84021db815321fa40f5ff0193b5e0f1a This file contains only data for native and cryptogenic species. In this data format there is a column for each species' relative abundance (percent cover). See "Parameters" section of the metadata for information about each column in this data table.

Supplemental Files

File

Species list
filename: species_list.csv

(Comma Separated Values (.csv), 6.24 KB)
MD5:d1fa4f271c48a5e6eeb588f965a72230

Species list for BCO-DMO datasets:

Community composition separated by native and cryptogenic, and introduced species of each community

 https://www.bco-dmo.org/dataset/850190

Trait data: native, cryptogenic, introduced species

https://www.bco-dmo.org/dataset/850202

This file contains the exact taxonomic names used in these datasets along with the results of the Taxa Match tool at the World Register of marine species (match performed 2021-04-26).   For more information about match, results see http://www.marinespecies.org/tutorial_taxonmatch.php. 

Parameter (Column names and descriptions):

ScientificName_in_Dataset, The taxonomic name exactly as it appears is in the datasets.

AphiaID, The AphiaID matched with the ScientificName_in_Dataset.

Match type, The ScientificName_in_Dataset's match type to the AphiaID (exact or phonetic).

Taxon status, Whether ScientificName_in_Dataset is the accepted taxonomic name or an unaccepted synonym. 

LSID, Life Science Identifier for the ScientificName_in_Dataset.

AphiaID_accepted, The AphiaID for the accepted taxonomic name matched to the ScientificName_in_Dataset.

ScientificName_accepted, The accepted taxonomic name matched to the ScientificName_in_Dataset.

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1434528

Deployments

None available yet

Instruments

None available yet

Parameters

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

Supplied Name	Supplied description	Supplied Units	Standard Name
Region	Region where each taxon was collected (Alaska, Panama, Mexico, California)	unitless	site_descrip
Site	Unique site abbreviation (two letter code)	unitless	site
Site_name	Complete site name	unitless	site
Deploy_month	Month when experimental communities (panels) were deployed for a 3 month growth period. Numeric month.	unitless	month
Deploy_year	Year when experimental communities (panels) were deployed for a 3 month growth period. Year in format yyyy.	unitless	year
Latitude	Latitude of site were communities were grown	decimal degrees	lat
Longitude	Longitude of site were communities were grown	decimal degrees	lon
Treatment	Treatment description. full =full cage; open = no cage	unitless	treatment
Plate_ID	Unique panel (community) reference number	unitless	sample_descrip
Species_status_type	Invasion status: nat = native or cryptogenic, int = introduced	unitless	sample_descrip
Species	Lower taxonomic information (~genus/species, if available) based on best available information in the field	unitless	taxon
Abundance	Relative abundance of each taxon from a 14 x 14 cm panel and a 50 point grid	percent cover (%)	percent_cover

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Dataset: Community composition separated by native and cryptogenic, and introduced species of each community