http://lod.bco-dmo.org/id/dataset/679901
eng; USA
utf8
dataset
Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
2017-02-01
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Supplemental tables for Krug et al (2015) Syst. Biol. (PLDvFST project)
2017-02-01
publication
2017-02-01
revision
BCO-DMO Linked Data URI
2017-02-01
creation
http://lod.bco-dmo.org/id/dataset/679901
Patrick Krug
California State University Los Angeles
principalInvestigator
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
publisher
Cite this dataset as: Krug, P. (2017) Supplemental tables for Krug et al (2015) Syst. Biol. (PLDvFST project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). Version Date 2017-02-01 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/679901 [access date]
Supplemental tables for Krug et al (2015) Syst. Biol. Dataset Description: <p>BCO-DMO versions downloaded from Dryad on 2017-02-01:</p>
<p>Table S1, Sampled taxa and collection details: <a href="http://dmoserv3.bco-dmo.org/data/PLDvFST/Table_S1_sampled_taxa_collection_details_v6.doc">Table_S1_sampled_taxa_collection_details_v6.doc (323.0 Kb)</a><br />
Species names, sample codes and collection details for sequenced taxa used in phylogenetic analyses. Blank cells reflect missing information for sequence data obtained from a public database.</p>
<p>Table S2, Developmental character data for Sacoglossa: <a href="http://dmoserv3.bco-dmo.org/data/PLDvFST/Table_S2_devel_data_v7_refs.xls">Table_S2_devel_data_v7_refs.xls (94.20 Kb)</a><br />
Developmental character data for Sacoglossa including larval development mode, presence/absence and pattern of extra-capsular yolk (ECY), mean egg diameter (± SD), and mean larval shell width (± SD) at hatching. Taxa are listed alphabetically by traditional family within higher clades, and then by binomial name within family. Generic names in quotation marks denote taxa that do not group with most other members of the genus to which they are traditionally assigned.</p>
<p>Table S3, NCBI accession numbers: <a href="http://dmoserv3.bco-dmo.org/data/PLDvFST/Table_S3_accession_nos.xls">Table_S3_accession_nos.xls (82.94 Kb)</a><br />
Accession numbers from the National Center for Bioinformatics database for sequences generated and/or analyzed in this study.</p>
<p>Table S4, BiSSE model fit using a pruned input tree and global estimate of unsampled taxa: <a href="http://dmoserv3.bco-dmo.org/data/PLDvFST/Table_S4_split_BiSSE_model_fit_pcent_missing_taxa.doc">Table S4_split_BiSSE_model fit_pcent_missin...xa.doc (40.44 Kb)</a><br />
Comparison of BiSSE models correcting for missing data with a pruned input tree and one overall estimate of the percentage of unsampled taxa (69%), with either (a) one rate of character change, or (b) rates of reversal (q10) constrained to be rare (&lt;1%) relative to gains of lecithotrophy (q01).</p>
<p>Table S5, BiSSE parameter estimates using a percentage of unsampled taxa to correct for missing data: <a href="http://dmoserv3.bco-dmo.org/data/PLDvFST/Table_S5_split_BiSSE_params_pcent_missing_taxa.doc">Table_S5_split_BiSSE_params_pcent_missing_taxa.doc (50.17 Kb)</a><br />
Maximum-likelihood parameter estimates for BiSSE models, correcting for missing data using an overall percentage of unsampled taxa (69%). The ML tree (Fig. 3) was pruned of terminals missing character data, and used as the input tree for BiSSE analyses with three phylogenetic partitions across Sacoglossa, and either (A) one rate of character change, or (B) rates of reversal to planktotrophy (q10) constrained to be rare (&lt;1%) relative to forward rates (q01). Estimates from the preferred model are bolded, with alternatives shown in descending order of AIC scores.</p>
<p>Table S6, References cited in Table 4: <a href="http://dmoserv3.bco-dmo.org/data/PLDvFST/Table_S6_references_v2.doc">Table_S6_references_v2.doc (37.88 Kb)</a><br />
References cited in Table 4, from which data on development modes were taken for select clades in Heterobranchia and Caenogastropoda.</p> Methods and Sampling:
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1130072 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1130072
completed
Patrick Krug
California State University Los Angeles
3233432076
5151 State University Drive
Los Angeles
CA
900324221
pkrug@calstatela.edu
pointOfContact
asNeeded
Unknown
suppl_table
table_link
size_kb
description
theme
None, User defined
No BCO-DMO term
file_link
file_size
brief description
featureType
BCO-DMO Standard Parameters
Krug_lab
service
Deployment Activity
lab
place
Locations
otherRestrictions
otherRestrictions
Access Constraints: none. Use Constraints: Please follow guidelines at: http://www.bco-dmo.org/terms-use Distribution liability: Under no circumstances shall BCO-DMO be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use of, or the inability to use, the materials in this data submission. If you are dissatisfied with any materials in this data submission your sole and exclusive remedy is to discontinue use.
Quantifying larval behavior to reconcile genetic connectivity with biophysical model predictions
https://osprey.bco-dmo.org/project/615835
Quantifying larval behavior to reconcile genetic connectivity with biophysical model predictions
<p>Dispersal is a critical life-history trait linking ecological and evolutionary processes. Transport of planktonic larvae affects colonization success and population persistence for benthic animals, and influences genetic subdivision of populations, local adaptation, and speciation. However, recent studies question the long-held assumption that pelagic larval duration (PLD) determines how far larvae are advected. This has applied significance, as oceanographic models used to predict exchange among marine protected areas often use PLD as the key larval parameter. The investigators' data for Caribbean gastropods show genetic breaks that are not congruent with model predictions, and levels of structure that are inconsistent with larval lifespan, highlighting a need for new theory.</p>
<p>This research will integrate molecular and larval ecology to test the link between dispersal and larval duration in a phylogenetic framework, and determine whether Individual Based Models (IBMs) accurately predict exchange for Caribbean reef ecosystems. The PI will collect multi-locus genetic data and quantify larval behavior for 14 related, ecologically similar species of sea slugs with PLDs from 0-30 days. The PI predicts that larval behavior explains why some species are under- or over-dispersed relative to their PLD; this work will reveal key parameters needed for biophysical-coupling models to predict connectivity for coastal invertebrates. The proposal will address 3 inter-related objectives: (1) Are genetic connectivity estimates from mtDNA and nuclear markers congruent, and consistent with model predictions? Data for mitochondrial and nuclear loci will be used to test for selection on mtDNA, estimate rates of gene flow and times of divergence, and assess levels of connectivity within each species. Matrices of model-predicted exchange will be compared with genetic similarity matrices to test whether breaks in gene flow occur where predicted. (2) Are genetic connectivity and PLD correlated? More broadly, the PI will test the assumption that larval period determines dispersal, using comparative methods in a phylogenetic framework to correct for effects of relatedness among species. The PI will compare models of trait evolution with Bayesian Markov chain Monte Carlo (MCMC) methods to determine if gene flow is correlated or uncorrelated with PLD, using a molecular phylogeny and multi-locus genetic data. (3) Does larval behavior explain genetic structure in species with long PLD? At least two of the focal species selected for this study are under-dispersed, with genetically isolated demes despite a 30-day PLD. Conversely, at least one short-PLD species has no genetic structure over large regions of the Caribbean. The PI will build on past work quantifying larval behavior to ask if species-specific differences in larval swimming facilitate local retention, making species deviate from expected connectivity patterns. The PI will also test whether pre-competent larvae respond to habitat cues in a way that influences dispersal, as occurs in fish. This work will reconcile life-history theory, oceanographic models, and genetics by mechanistically explaining breaks in connectivity; the results will deepen our understanding of how larval behavior can determine the pace of divergence among populations.</p>
<p> </p>
PLDvFST
largerWorkCitation
project
eng; USA
oceans
lab
2017-02-01
Florida and Caribbean
0
BCO-DMO catalogue of parameters from Supplemental tables for Krug et al (2015) Syst. Biol. (PLDvFST project)
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
http://lod.bco-dmo.org/id/dataset-parameter/679918.rdf
Name: suppl_table
Units: unitless
Description: <p>Supplemental Table number</p>
http://lod.bco-dmo.org/id/dataset-parameter/679919.rdf
Name: table_link
Units: unitless
Description: <p>link to download file</p>
http://lod.bco-dmo.org/id/dataset-parameter/679920.rdf
Name: size_kb
Units: kilobytes
Description: <p>file size</p>
http://lod.bco-dmo.org/id/dataset-parameter/679921.rdf
Name: description
Units: unitless
Description: <p>description of data in the file</p>
GB/NERC/BODC > British Oceanographic Data Centre, Natural Environment Research Council, United Kingdom
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
871
https://datadocs.bco-dmo.org/file/LAAGOgnCmjrLrk/suppl_tables.csv
suppl_tables.csv
Primary data file for dataset ID 679901
download
https://osprey.bco-dmo.org/dataset/679901/data/download
download
onLine
asNeeded
7.x-1.1
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
Deployment: Krug_lab
Krug_lab
Cal State LA
laboratory
Krug_lab
Patrick Krug
California State University Los Angeles
Cal State LA
laboratory