Dataset: Nudibranch accession numbers
Deployment: OFoighil_2014

Nudibranch accession numbers

Principal Investigator:

Diarmaid O'Foighil (University of Michigan)

BCO-DMO Data Manager:

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

Project:

Community Phylogeny and Global Phylogeography of the Neuston (Neuston Phylogeny)

Current State:

Final no updates expected

Version:

2014-02-21

Version Date:

2014-02-21

Data URL:

https://osprey.bco-dmo.org/dataset-deployment/505480/data

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Description

This data was published as Table S2 in Celia K. C. Churchill, Alvin Alejandrino, A´ngel Valde´s and Diarmaid O´ Foighil (2013) Parallel changes in genital morphology delineate cryptic diversification of planktonic nudibranchs. Proc R Soc B:280: 20131224. http://dx.doi.org/10.1098/rspb.2013.1224.

Methods & Sampling

Dataset acquisition description

Glaucus atlanticus specimens were collected between 2006 and 2012 either from the beach or in the open ocean via snorkel or scuba. The specimens were then preserved in at least 70% ethanol and morphologically identified. One to five individuals were chosen from each ocean gyre for genetic analysis. Nucleotides from 4 molecular markers were amplified: rRNA-16S, rRNA-28S, Histone-3 and mt-COI. Details of the extraction, amplification and analyses can be found in the methods section of the Churchill (2013).

Data Processing Description

Dataset Processing Description

Relevant References:

Celia K. C. Churchill, Ángel Valdés and Diarmaid Ó Foighil (2014) Afro-Eurasia and the Americas present barriers to gene flow for the cosmopolitan neustonic nudibranch Glaucus atlanticus. Marine Biology DOI 10.1007/s00227-014-2389-7.

Celia K. C. Churchill, Alvin Alejandrino, A´ngel Valde´s and Diarmaid O´ Foighil (2013) Parallel changes in genital morphology delineate cryptic diversification of planktonic nudibranchs. Proc R Soc B:280: 20131224.http://dx.doi.org/10.1098/rspb.2013.1224.

Celia K. C. Churchill, Ellen E. Strong and Diarmaid O´Foighil (2011) Hitchhiking juveniles in the rare neustonic gastropod Recluzia cf. jehennei (Janthinidae). Journal of Molluscan Studies (2011) 0: 1-4. doi:10.1093/mollus/eyr020

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-0850625	NSF Division of Ocean Sciences

Instruments

Automated DNA Sequencer

Supplied Name: Automated Sequencer

Supplied Description:

ABI 3730xl automated sequencer (Applied Biosystems, Inc.)
http://www6.appliedbiosystems.com/products/abi3730xlspecs.cfm

Instrument Type

Generic Name: Automated DNA Sequencer

Acronym: Automated Sequencer

Generic Description:

General term for a laboratory instrument used for deciphering the order of bases in a strand of DNA. Sanger sequencers detect fluorescence from different dyes that are used to identify the A, C, G, and T extension reactions. Contemporary or Pyrosequencer methods are based on detecting the activity of DNA polymerase (a DNA synthesizing enzyme) with another chemoluminescent enzyme. Essentially, the method allows sequencing of a single strand of DNA by synthesizing the complementary strand along it, one base pair at a time, and detecting which base was actually added at each step.

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
species	species of nudibranch Glaucus	unitless	species
isolate	isolate code	unitless	no_bcodmo_term
genus	genus name	unitless	genus
family	taxonomic family	unitless	family
voucher	museum voucher number	unitless	no_bcodmo_term
rRNA_16S	GenBank accession number for rRNA-16S	unitless	no_bcodmo_term
rRNA_28S	GenBank accession number for rRNA-28S	unitless	no_bcodmo_term
Histone_H3	GenBank accession number for nuclear Histone-H3	unitless	no_bcodmo_term
mtCOI	GenBank accession number for mitochondrial cytochrome c oxidase subunit I	unitless	no_bcodmo_term

Database

Contribute Data

Dataset: Nudibranch accession numbers
Deployment: OFoighil_2014

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Nudibranch accession numbersDeployment: OFoighil_2014

Dataset acquisition description

Dataset Processing Description

Dataset: Nudibranch accession numbers
Deployment: OFoighil_2014