http://lod.bco-dmo.org/id/dataset/738724
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
2018-06-18
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Data from fish genotyped at 14 and 20 loci at different life stages in the Belizean Barrier Reef in 2013.
2018-06-18
publication
2018-06-18
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2019-06-07
publication
https://doi.org/10.1575/1912/bco-dmo.738724.1
Peter Buston
Boston University
principalInvestigator
Cassidy C. D'Aloia
Woods Hole Oceanographic Institution
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: Buston, P., D'Aloia, C. (2018) Data from fish genotyped at 14 and 20 loci at different life stages in the Belizean Barrier Reef in 2013. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2018-06-18 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.738724.1 [access date]
Data from fish genotyped at 14 and 20 loci at different life stages in the Belizean Barrier Reef in 2013. Dataset Description: <p>Data from fish genotyped at 14 and 20 loci at different life stages. Sampling completed on the Belizean Barrier Reef in 2013.</p> Methods and Sampling: <p>We surveyed a 41 km-long transect of the Belize Barrier reef, centered at Carrie Bow Cay, by SCUBA to conduct a genetic parentage study of the reef fish <em>Elactinus lori</em>. All underwater sampling was conducted using SCUBA at an average (±SD) depth of 16.03 ± 2.19 m. A waypoint was recorded from the boat at the beginning and end of every collection dive, with the midpoint of each dive taken as the location for all individuals sampled on that dive. To collect settlers, we sampled ~ 100 individuals every kilometer. Individuals were collected from the outsides of sponges using slurp guns and placed them in plastic bags. At the surface, settlers were anesthetized with MS-222. For adults, we collected non-lethal tissue samples at three regions along the transect (n ≈ 1,000 per region). Each adult was collected with a slurp gun and restrained in a net; we took a small tissue sample from the caudal fin using scissors. All tissue was stored in 95% EtOH. At each adult collection sponge, we also measured: sponge depth (m, using dive computers), number of tubes per sponge, and length of largest sponge tube (nearest cm, using a tape measure).</p>
<p>For genetic analyses, DNA was extracted using a HotSHOT protocol; fragments were amplified using the Type-It Microsatellite PCR Kit (Qiagen) and screened on an ABI 3730 automated sequencer.</p>
<p>Otoliths were extracted from the 120 settlers that were assigned to parents. Otoliths were dissected, cleared of tissue, immersed in oil for 2-7 days, and rings were counted under a 50× oil immersion lens</p>
<p>Further details on all methods can be found in D’Aloia et al. (2015), <em>PNAS.</em></p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1260424 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1260424
completed
Peter Buston
Boston University
617-358-5412
Department of Biology 5 Cummington Mall
Boston
MA
02215
USA
buston@bu.edu
pointOfContact
Cassidy C. D'Aloia
Woods Hole Oceanographic Institution
508-289-2390
Biology Department MS #34
Woods Hole
MA
02543
USA
cassidy.daloia@gmail.com
pointOfContact
asNeeded
Dataset Version: 1
Unknown
individual_id
year
loci
life_stage
tetB_25745
tetB_25745_2
tetB_29109
tetB_29109_2
triB_1419
triB_1419_2
triG_18144
triG_18144_2
tetG_985
tetG_985_2
tetY_6326
tetY_6326_2
tetR_25632
tetR_25632_2
tetB_6231
tetB_6231_2
triB_23889
triB_23889_2
triG_25362
triG_25362_2
triG_21378
triG_21378_2
tetY_14528
tetY_14528_2
triY_6266
triY_6266_2
tetR_23415
tetR_23415_2
tetB_24561
tetB_24561_2
tetB_5796
tetB_5796_2
tetB_1184
tetB_1184_2
tetG_24777
tetG_24777_2
tetG_26721
tetG_26721_2
tetY_25176
tetY_25176_2
GPSMAP 76Cx (Garmin)
theme
None, User defined
sample identification
year
sample description
stage
count
featureType
BCO-DMO Standard Parameters
GPS receiver
instrument
BCO-DMO Standard Instruments
Belize_2010
service
Deployment Activity
Carrie Bow Caye, Belizean Barrier Reef (16°48’10’’ N 88°05’45” W)
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.
An Integrative Investigation of Population Connectivity Using a Coral Reef Fish
http://people.bu.edu/buston/lab/Welcome.html
An Integrative Investigation of Population Connectivity Using a Coral Reef Fish
<p>Understanding the patterns, causes and consequences of larval dispersal is a major goal of 21st century marine ecology. Patterns of dispersal determine the rates of larval exchange, or connectivity, between populations. Both physical factors (e.g., water movement) and biological factors (e.g., larval behavior) cause variation in population connectivity. Population connectivity, in turn, has major consequences for all aspects of an organism's biology, from individual behavior to metapopulation dynamics, and from evolution within metapopulations to the origin and extinction of species. Further, understanding population connectivity is critical for the design of effective networks of marine reserves, creation of vital tools in conservation, and the development of sustainable fisheries.</p>
<p>Over the last decade, three methods, each of which tells something slightly different, have emerged as leading contenders to provide the greatest insights into population connectivity. First, coupled biophysical models make assumptions regarding water flow, larval behavior and ecology, to predict population connectivity. Second, indirect genetic methods use spatial distributions of allele frequencies to infer population connectivity. Third, direct genetic methods use parentage analyses, tracing recruits to specific adults, to measure population connectivity. Despite advances, lack of integration means that we do not know the predictive skill of biophysical models, or the extent to which patterns of dispersal predict spatial genetic structure. The overall objective of this proposal is to conduct an integrated investigation of population connectivity, using all three methods in one tractable system: the neon goby, Elacatinus lori, on the Belizean Barrier Reef. There are three motives for this choice of study system: i) fourteen highly polymorphic microsatellite loci have been developed, facilitating the assignment of recruits to parents using parentage analyses and the measurement of dispersal; ii) the physical oceanography of the Belizean Barrier Reef is well-studied, facilitating the development and testing of coupled biophysical models; and, iii) E. lori has a relatively small biogeographic range, facilitating analysis of the spatial distribution of allele frequencies throughout its range.</p>
<p>Broader Impacts. The grant will support one postdoc and two graduate students who will be trained in scientific diving, marine fieldwork, population genetics, biophysical modeling, and mathematical modeling, and will gain collaborative research experience. PIs will incorporate research findings in their courses, which cover all these topics. The grant will also broaden participation of under-represented groups by supporting six undergraduates from groups traditionally underrepresented in STEM fields. In each year of the project there will be an All Participants meeting to reinforce the network of participants. A project website will be developed, in English and Spanish, on the theme of larval dispersal and population connectivity. This will include a resource for K-12 marine science educators developed in collaboration with a marine science educator. All PIs will ensure that results are broadly disseminated to the scientific community and general public via appropriate forms of media.</p>
Elacatinus Dispersal I
largerWorkCitation
project
eng; USA
oceans
Carrie Bow Caye, Belizean Barrier Reef (16°48’10’’ N 88°05’45” W)
-88.075833
-88.075833
16.789722
16.789722
2013-06-01
2013-06-30
Belizean Barrier Reef System (16.803 degrees North 88.096 degrees West)
0
BCO-DMO catalogue of parameters from Data from fish genotyped at 14 and 20 loci at different life stages in the Belizean Barrier Reef in 2013.
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/738851.rdf
Name: individual_id
Units: unitless
Description: <p>Unique ID assigned to each fish</p>
http://lod.bco-dmo.org/id/dataset-parameter/738852.rdf
Name: year
Units: unitless
Description: <p>Year of sampling</p>
http://lod.bco-dmo.org/id/dataset-parameter/738853.rdf
Name: loci
Units: unitless
Description: <p>The number of loci individuals were genotyped at; 14 loci or 20 loci. Individuals genotyped at 20 loci were used in the final parentage analysis. Each loci have two columns because each individual has two alleles per locus.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738854.rdf
Name: life_stage
Units: unitless
Description: <p>Whether an individual is a potential offspring (O) or parent (P).</p>
http://lod.bco-dmo.org/id/dataset-parameter/738855.rdf
Name: tetB_25745
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738856.rdf
Name: tetB_25745_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738857.rdf
Name: tetB_29109
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738858.rdf
Name: tetB_29109_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738859.rdf
Name: triB_1419
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738860.rdf
Name: triB_1419_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738861.rdf
Name: triG_18144
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738862.rdf
Name: triG_18144_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738863.rdf
Name: tetG_985
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738864.rdf
Name: tetG_985_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738865.rdf
Name: tetY_6326
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738866.rdf
Name: tetY_6326_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738867.rdf
Name: tetR_25632
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738868.rdf
Name: tetR_25632_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738869.rdf
Name: tetB_6231
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738870.rdf
Name: tetB_6231_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738871.rdf
Name: triB_23889
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738872.rdf
Name: triB_23889_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738873.rdf
Name: triG_25362
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738874.rdf
Name: triG_25362_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738875.rdf
Name: triG_21378
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738876.rdf
Name: triG_21378_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738877.rdf
Name: tetY_14528
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738878.rdf
Name: tetY_14528_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738879.rdf
Name: triY_6266
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738880.rdf
Name: triY_6266_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738881.rdf
Name: tetR_23415
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738882.rdf
Name: tetR_23415_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738883.rdf
Name: tetB_24561
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738884.rdf
Name: tetB_24561_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738885.rdf
Name: tetB_5796
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738886.rdf
Name: tetB_5796_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738887.rdf
Name: tetB_1184
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738888.rdf
Name: tetB_1184_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738889.rdf
Name: tetG_24777
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738890.rdf
Name: tetG_24777_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738891.rdf
Name: tetG_26721
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738892.rdf
Name: tetG_26721_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738893.rdf
Name: tetY_25176
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</p>
http://lod.bco-dmo.org/id/dataset-parameter/738894.rdf
Name: tetY_25176_2
Units: count
Description: <p>The number of reptitive units in the microsatellite allele.</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
1293555
https://darchive.mblwhoilibrary.org/bitstream/1912/24223/1/dataset-738724_data-fish-genotyped-14-and-20-loci__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.738724.1
download
onLine
dataset
<p>We surveyed a 41 km-long transect of the Belize Barrier reef, centered at Carrie Bow Cay, by SCUBA to conduct a genetic parentage study of the reef fish <em>Elactinus lori</em>. All underwater sampling was conducted using SCUBA at an average (±SD) depth of 16.03 ± 2.19 m. A waypoint was recorded from the boat at the beginning and end of every collection dive, with the midpoint of each dive taken as the location for all individuals sampled on that dive. To collect settlers, we sampled ~ 100 individuals every kilometer. Individuals were collected from the outsides of sponges using slurp guns and placed them in plastic bags. At the surface, settlers were anesthetized with MS-222. For adults, we collected non-lethal tissue samples at three regions along the transect (n ≈ 1,000 per region). Each adult was collected with a slurp gun and restrained in a net; we took a small tissue sample from the caudal fin using scissors. All tissue was stored in 95% EtOH. At each adult collection sponge, we also measured: sponge depth (m, using dive computers), number of tubes per sponge, and length of largest sponge tube (nearest cm, using a tape measure).</p>
<p>For genetic analyses, DNA was extracted using a HotSHOT protocol; fragments were amplified using the Type-It Microsatellite PCR Kit (Qiagen) and screened on an ABI 3730 automated sequencer.</p>
<p>Otoliths were extracted from the 120 settlers that were assigned to parents. Otoliths were dissected, cleared of tissue, immersed in oil for 2-7 days, and rings were counted under a 50× oil immersion lens</p>
<p>Further details on all methods can be found in D’Aloia et al. (2015), <em>PNAS.</em></p>
Specified by the Principal Investigator(s)
<p>Alleles were scored using GENEMAPPER v.4.0.</p>
<p><strong>BCO-DMO Data Processing Notes:</strong></p>
<p>-Combined 14 and 20 loci data into one spreadsheet<br />
-Replaced ?&nbsp;with nd<br />
-Added year column, and loci column to identify the number of loci sampled</p>
Specified by the Principal Investigator(s)
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
GPSMAP 76Cx (Garmin)
GPSMAP 76Cx (Garmin)
PI Supplied Instrument Name: GPSMAP 76Cx (Garmin) PI Supplied Instrument Description:Used to collect GPS data Instrument Name: GPS receiver Instrument Short Name: Instrument Description: Acquires satellite signals and tracks your location.
This term has been deprecated. Use instead: https://www.bco-dmo.org/instrument/560
Deployment: Belize_2010
Belize_2010
lab Buston
laboratory
Belize_2010
Peter Buston
Boston University
lab Buston
laboratory