http://lod.bco-dmo.org/id/dataset/893165
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
2023-04-04
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Microsatellite genotypes of marine bryozoan from shallow seagrass habitats in St. Teresa, Florida, USA in June 2017
2023-04-05
publication
2023-04-05
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2023-04-22
publication
https://doi.org/10.26008/1912/bco-dmo.893165.1
Scott Burgess
Florida State University
principalInvestigator
Marília M. Bueno
Florida State University
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: Burgess, S., Powell, J., Bueno, M. M. (2023) Microsatellite genotypes of marine bryozoan from shallow seagrass habitats in St. Teresa, Florida, USA in June 2017. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2023-04-05 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.893165.1 [access date]
Methods and Sampling: <p>At our field sites&nbsp;in the shallow seagrass habitats near the Florida State University Coastal and Marine Laboratory (FSUCML) in St. Teresa, Florida, USA (29° 54' N, 84° 30' W), multiple <em>B. neritina</em> colonies are commonly found attached to the same blade of seagrass, often contacting each other at times of the year when densities are highest. In December 2016, we randomly selected 15 blades of seagrass containing adult colonies within a roughly 10-50 meter area immediately east of the FSUCML. Sampled seagrass blades were roughly 2 – 5 meters from each other. Each sampled blade contained between 2 to 11 adult colonies (median = 4), which were all genotyped at 16 microsatellite loci, following methods described in Burgess et al. (2019). We collected and genotyped an additional 53 randomly selected colonies from the same general area to provide a more precise estimate of the population allele frequencies used to estimate relatedness. In total, there were 127 individuals in the sample, of which 74 were the focal individuals from the 15 blades of seagrass. Our focal populations contain the S1 haplotype of the cytochrome oxidase c subunit I (COI) gene, and do not include cryptic species.</p>
<p>We used the program COLONY (Version 2.0.6.6., Build 20200830) to identify pairs of individuals with a full- or half-sib relationship using a sibship reconstruction analysis. Sibship reconstruction requires no a-priori knowledge of the relationships in the sample of individuals, and uses a clustering algorithm to arrange individuals into families based on Mendelian rules of allele inheritance. Given the time of year and the size of colonies that were collected, the sample was considered to consist of a single cohort (i.e., no parent-offspring relationships in the sample). We used the full sample of 127 individuals to increase the confidence in identifying family clusters, but focus on the 74 individuals sampled from known seagrass blades.</p>
<p>For all runs in COLONY, the parameter settings used were: allele frequency unknown and not updated, monoecious, no inbreeding, diploid, male and female polygamy, no clones, full sibship scaling, weak sibship prior of 1, long length of run, full-likelihood with high precision, allelic drop out and false allele rate of 0.0001. We carried out 5 runs using different seed numbers to check the reliability of the results. Only full- and half-sibs that were equal to or above a certain probability (0.8, 0.9, or 0.95) in all 5 replicate runs were considered to be reliably estimated.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1948788 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1948788
completed
Scott Burgess
Florida State University
850-645-9563
Department of Biological Science 319 Stadium Drive
Tallahassee
FL
32308
USA
sburgess@bio.fsu.edu
pointOfContact
Marília M. Bueno
Florida State University
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Sample
Group
Locus_1323_Allele_1
Locus_1323_Allele_2
Locus_231_Allele_1
Locus_231_Allele_2
Locus_7294_Allele_1
Locus_7294_Allele_2
Locus_4717_Allele_1
Locus_4717_Allele_2
Locus_689_Allele_1
Locus_689_Allele_2
Locus_4166_Allele_1
Locus_4166_Allele_2
Locus_284_Allele_1
Locus_284_Allele_2
Locus_3595_Allele_1
Locus_3595_Allele_2
Locus_157_Allele_1
Locus_157_Allele_2
Locus_2664_Allele_1
Locus_2664_Allele_2
Locus_7402_Allele_1
Locus_7402_Allele_2
Locus_568_Allele_1
Locus_568_Allele_2
Locus_1671_Allele_1
Locus_1671_Allele_2
Locus_590_Allele_1
Locus_590_Allele_2
Locus_12984_Allele_1
Locus_12984_Allele_2
Locus_1314_Allele_1
Locus_1314_Allele_2
theme
None, User defined
sample identification
allele frequency
featureType
BCO-DMO Standard Parameters
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.
Consequences of kin structure in benthic marine systems
https://osprey.bco-dmo.org/project/837564
Consequences of kin structure in benthic marine systems
<p><strong>NSF Award Abstract:</strong><br />
In marine systems, the production, dispersal, and recruitment of larvae are crucial processes that rebuild depleted adult stocks, facilitate changes in species geographic ranges, and modify the potential for adaptation under environmental stress. Traditionally, the tiny larvae of bottom-associated adults were thought to disperse far from their parents and from each other, making interactions among kin improbable. However, emerging evidence is challenging this view: larval dispersal does not always disrupt kin associations at settlement, and a large fraction of invertebrate diversity on the seafloor contains species in which most larvae disperse short distances. Limited dispersal increases the potential for interactions among kin, which has important consequences for individual fitness across many generations, and therefore the productivity of populations and the potential for adaptation. But when these consequences occur, and how exactly they manifest, remains largely unexplained. The key challenge now is to explain and predict when kin associations are likely to occur, and when they are likely to have positive or negative ecological consequences. Therefore, the key questions addressed by this research are: 1) how and when do kin associations arise and persist, and 2) what are the consequences of living with kin for survival, growth, and reproduction. This concept-driven research combines genomic approaches with experimental approaches in lab and field settings using an experimentally-tractable and representative invertebrate species. The project trains and mentors PhD students and a postdoctoral scholar at Florida State University (FSU). Field and laboratory activities are developed and incorporated into K–12 education programs and outreach opportunities at FSU.</p>
<p>The spatial proximity of relatives has fundamentally important consequences at multiple levels of biological organization. These consequences are likely to be particularly important in a large range of benthic marine systems, where competition, facilitation, and mating depend strongly on the proximity and number of neighbors. However, explaining and predicting the occurrence, magnitude, and direction of such effects remains challenging. Emerging evidence suggest that the ecological consequences of kin structure are unlikely to have a straight-forward relationship with dispersal potential. Therefore, it is crucial to discover new reasons for when kinship structure occurs and why it could have positive, negative, or neutral ecological consequences. This research aims to provide a new understanding of how dispersal and post-settlement processes generate spatial kin structure, how population density and relatedness influence post-settlement fitness, and how the relatedness of mating partners influences the number and fitness of their offspring (inbreeding and outbreeding). The research combines genomic approaches, experimental progeny arrays, and manipulative experiments in field and lab settings to test several hypotheses that are broadly applicable across species. By focusing on an experimentally tractable species to test broadly applicable hypotheses, the project achieves generality and a level of integration that has been difficult to achieve in previous work.</p>
Marine kin structure
largerWorkCitation
project
eng; USA
biota
oceans
-84.5
-84.5
29.9
29.9
2016-12-15
2016-12-15
Gulf of Mexico
0
BCO-DMO catalogue of parameters from Microsatellite genotypes of marine bryozoan from shallow seagrass habitats in St. Teresa, Florida, USA in June 2017
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/894258.rdf
Name: Sample
Units: unitless
Description: <p>Unique code for each individual colony</p>
http://lod.bco-dmo.org/id/dataset-parameter/894259.rdf
Name: Group
Units: unitless
Description: <p>Unique code indicating which seagrass blade colonies were sampled from. Blank entries indicate colonies that were randomly sampled, each from different seagrass blades</p>
http://lod.bco-dmo.org/id/dataset-parameter/894260.rdf
Name: Locus_1323_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 1323</p>
http://lod.bco-dmo.org/id/dataset-parameter/894261.rdf
Name: Locus_1323_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 1323</p>
http://lod.bco-dmo.org/id/dataset-parameter/894262.rdf
Name: Locus_231_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 231</p>
http://lod.bco-dmo.org/id/dataset-parameter/894263.rdf
Name: Locus_231_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 231</p>
http://lod.bco-dmo.org/id/dataset-parameter/894264.rdf
Name: Locus_7294_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 7294</p>
http://lod.bco-dmo.org/id/dataset-parameter/894265.rdf
Name: Locus_7294_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 7294</p>
http://lod.bco-dmo.org/id/dataset-parameter/894266.rdf
Name: Locus_4717_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 4717</p>
http://lod.bco-dmo.org/id/dataset-parameter/894267.rdf
Name: Locus_4717_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 4717</p>
http://lod.bco-dmo.org/id/dataset-parameter/894268.rdf
Name: Locus_689_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 689</p>
http://lod.bco-dmo.org/id/dataset-parameter/894269.rdf
Name: Locus_689_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 689</p>
http://lod.bco-dmo.org/id/dataset-parameter/894270.rdf
Name: Locus_4166_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 4166</p>
http://lod.bco-dmo.org/id/dataset-parameter/894271.rdf
Name: Locus_4166_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 4166</p>
http://lod.bco-dmo.org/id/dataset-parameter/894272.rdf
Name: Locus_284_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 284</p>
http://lod.bco-dmo.org/id/dataset-parameter/894273.rdf
Name: Locus_284_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 284</p>
http://lod.bco-dmo.org/id/dataset-parameter/894274.rdf
Name: Locus_3595_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 3595</p>
http://lod.bco-dmo.org/id/dataset-parameter/894275.rdf
Name: Locus_3595_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 3595</p>
http://lod.bco-dmo.org/id/dataset-parameter/894276.rdf
Name: Locus_157_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 157</p>
http://lod.bco-dmo.org/id/dataset-parameter/894277.rdf
Name: Locus_157_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 157</p>
http://lod.bco-dmo.org/id/dataset-parameter/894278.rdf
Name: Locus_2664_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 2664</p>
http://lod.bco-dmo.org/id/dataset-parameter/894279.rdf
Name: Locus_2664_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 2664</p>
http://lod.bco-dmo.org/id/dataset-parameter/894280.rdf
Name: Locus_7402_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 7402</p>
http://lod.bco-dmo.org/id/dataset-parameter/894281.rdf
Name: Locus_7402_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 7402</p>
http://lod.bco-dmo.org/id/dataset-parameter/894282.rdf
Name: Locus_568_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 568</p>
http://lod.bco-dmo.org/id/dataset-parameter/894283.rdf
Name: Locus_568_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 568</p>
http://lod.bco-dmo.org/id/dataset-parameter/894284.rdf
Name: Locus_1671_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 1671</p>
http://lod.bco-dmo.org/id/dataset-parameter/894285.rdf
Name: Locus_1671_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 1671</p>
http://lod.bco-dmo.org/id/dataset-parameter/894286.rdf
Name: Locus_590_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 590</p>
http://lod.bco-dmo.org/id/dataset-parameter/894287.rdf
Name: Locus_590_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 590</p>
http://lod.bco-dmo.org/id/dataset-parameter/894288.rdf
Name: Locus_12984_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 12984</p>
http://lod.bco-dmo.org/id/dataset-parameter/894289.rdf
Name: Locus_12984_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 12984</p>
http://lod.bco-dmo.org/id/dataset-parameter/894290.rdf
Name: Locus_1314_Allele_1
Units: unitless
Description: <p>Allele 1 at locus 1314</p>
http://lod.bco-dmo.org/id/dataset-parameter/894291.rdf
Name: Locus_1314_Allele_2
Units: unitless
Description: <p>Allele 2 at locus 1314</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
17530
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/3a0f0769-5029-42e8-bab1-20363bdfaaa6/content
download
https://doi.org/10.26008/1912/bco-dmo.893165.1
download
onLine
dataset
<p>At our field sites&nbsp;in the shallow seagrass habitats near the Florida State University Coastal and Marine Laboratory (FSUCML) in St. Teresa, Florida, USA (29° 54' N, 84° 30' W), multiple <em>B. neritina</em> colonies are commonly found attached to the same blade of seagrass, often contacting each other at times of the year when densities are highest. In December 2016, we randomly selected 15 blades of seagrass containing adult colonies within a roughly 10-50 meter area immediately east of the FSUCML. Sampled seagrass blades were roughly 2 – 5 meters from each other. Each sampled blade contained between 2 to 11 adult colonies (median = 4), which were all genotyped at 16 microsatellite loci, following methods described in Burgess et al. (2019). We collected and genotyped an additional 53 randomly selected colonies from the same general area to provide a more precise estimate of the population allele frequencies used to estimate relatedness. In total, there were 127 individuals in the sample, of which 74 were the focal individuals from the 15 blades of seagrass. Our focal populations contain the S1 haplotype of the cytochrome oxidase c subunit I (COI) gene, and do not include cryptic species.</p>
<p>We used the program COLONY (Version 2.0.6.6., Build 20200830) to identify pairs of individuals with a full- or half-sib relationship using a sibship reconstruction analysis. Sibship reconstruction requires no a-priori knowledge of the relationships in the sample of individuals, and uses a clustering algorithm to arrange individuals into families based on Mendelian rules of allele inheritance. Given the time of year and the size of colonies that were collected, the sample was considered to consist of a single cohort (i.e., no parent-offspring relationships in the sample). We used the full sample of 127 individuals to increase the confidence in identifying family clusters, but focus on the 74 individuals sampled from known seagrass blades.</p>
<p>For all runs in COLONY, the parameter settings used were: allele frequency unknown and not updated, monoecious, no inbreeding, diploid, male and female polygamy, no clones, full sibship scaling, weak sibship prior of 1, long length of run, full-likelihood with high precision, allelic drop out and false allele rate of 0.0001. We carried out 5 runs using different seed numbers to check the reliability of the results. Only full- and half-sibs that were equal to or above a certain probability (0.8, 0.9, or 0.95) in all 5 replicate runs were considered to be reliably estimated.</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing Description:</strong><br />
- Adjusted field/parameter names to comply with BCO-DMO naming conventions</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