Microsatellite genotype data from Curlew Caye on the Belizean Barrier reef collected in 2011.

Website: https://www.bco-dmo.org/dataset/728239
Data Type: Other Field Results
Version: 2
Version Date: 2018-08-16

Project
» An Integrative Investigation of Population Connectivity Using a Coral Reef Fish (Elacatinus Dispersal I)
ContributorsAffiliationRole
Buston, PeterBoston University (BU)Principal Investigator, Contact
D'Aloia, Cassidy C.Woods Hole Oceanographic Institution (WHOI)Co-Principal Investigator
Ake, HannahWoods Hole Oceanographic Institution (WHOI BCO-DMO)BCO-DMO Data Manager


Coverage

Spatial Extent: N:18.3955 E:-87.1362 S:16.0028 W:-88.6743
Temporal Extent: 2011-05-28 - 2011-08-22

Dataset Description

Geolocation and microsatellite genotype data from fish identified in Curlew Caye. See the related dataset for information on fish identified in these data: https://www.bco-dmo.org/dataset/728230


Methods & Sampling

We surveyed a 500 m long by 125 m wide study area on the reef at Curlew Caye, Belize by SCUBA to map and collect tissue samples from all Elactinus lori individuals, at depths from 10 m to 25 m. We began by fully censusing the focal study area: we marked the location of all host sponges (Aplysina fistularis) and fish (E. lori). GPS data were collected with a Garmin GPSMAP 76Cx unit in an underwater housing. Waypoints are accurate within 5 m. At each sponge we recorded: depth (m, using dive computers), number of tubes per sponge, length of largest sponge tube (nearest cm, using a tape measure). We also counted the number of fish per sponge, and noted which life history stage they fell into: resident ≥ 18 mm standard length (SL) or settler (<18 mm SL).

Next, we collected tissue samples from all residents (n = 425) and settlers (n = 194). Individuals were caught with slurp guns. We took a small clip from the caudal fin from residents; whole-settler specimens were collected and euthanized in MS-222. Additional settler tissue samples were collected from three sites North, and three sites south of the focal study area. (n ≈ 30 per site). All tissue samples were store in 95% EtOH. Microsatellite genotype data were collected based on standard DNA extractions (DNAdvance kit, Beckman Coulter, Inc., USA), multiplex PCR using the Type-It Microsatellite PCR kit (Qiagen, USA), and screening on an ABI 3730 automated sequencer. Further details on all methods can be found in D’Aloia et al. (2013), Molecular Ecology.


Data Processing Description

No data have been processed. All files include original field data.

BCO-DMO Data Processing Notes:

-Reformatted column names to comply with naming standards
-Replaced blank cells with nd
-Columns year, lat and lon were added based on metadata provided by the PI


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Data Files

File
microsatellite_genotypes.csv
(Comma Separated Values (.csv), 105.85 KB)
MD5:856faa307e4b3e985fe2933d45ca396a
Primary data file for dataset ID 728239

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Related Publications

D’Aloia, C. C., Bogdanowicz, S. M., Majoris, J. E., Harrison, R. G., & Buston, P. M. (2013). Self-recruitment in a Caribbean reef fish: a method for approximating dispersal kernels accounting for seascape. Molecular Ecology, 22(9), 2563–2572. doi:10.1111/mec.12274
Methods

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Parameters

ParameterDescriptionUnits
individual_IDUnique ID assigned to fish unitless
locationRegion on reef fish was from unitless
slStandard length of fish millimeters
Locus1_1419triBANumber of repeats in the microsatellite allele. count
Locus1_1419triBBNumber of repeats in the microsatellite allele. count
Locus2_14528tetYANumber of repeats in the microsatellite allele. count
Locus2_14528tetYBNumber of repeats in the microsatellite allele. count
Locus3_18144triGANumber of repeats in the microsatellite allele. count
Locus3_18144triGBNumber of repeats in the microsatellite allele. count
Locus4_21378triGANumber of repeats in the microsatellite allele. count
Locus4_21378triGBNumber of repeats in the microsatellite allele. count
Locus5_23415tetRANumber of repeats in the microsatellite allele. count
Locus5_23415tetRBNumber of repeats in the microsatellite allele. count
Locus6_23889triBANumber of repeats in the microsatellite allele. count
Locus6_23889triBBNumber of repeats in the microsatellite allele. count
Locus7_25362triGANumber of repeats in the microsatellite allele. count
Locus7_25362triGBNumber of repeats in the microsatellite allele. count
Locus8_25632tetRANumber of repeats in the microsatellite allele. count
Locus8_25632tetRBNumber of repeats in the microsatellite allele. count
Locus9_25745tetBANumber of repeats in the microsatellite allele. count
Locus9_25745tetBBNumber of repeats in the microsatellite allele. count
Locus10_29109tetBANumber of repeats in the microsatellite allele. count
Locus10_29109tetBBNumber of repeats in the microsatellite allele. count
Locus11_6231tetBANumber of repeats in the microsatellite allele. count
Locus11_6231tetBBNumber of repeats in the microsatellite allele. count
Locus12_6266triYANumber of repeats in the microsatellite allele. count
Locus12_6266triYBNumber of repeats in the microsatellite allele. count
Locus13_6326tetYANumber of repeats in the microsatellite allele. count
Locus13_6326tetYBNumber of repeats in the microsatellite allele. count
Locus14_985tetGANumber of repeats in the microsatellite allele. count
Locus14_985tetGBNumber of repeats in the microsatellite allele. count
yearYear of sampling unitless
offspring_parentWhether the fish was a potential offspring (O) or parent (P) unitless

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Deployments

Belize_2010

Website
Platform
lab Buston
Description
Buston lab expeditions to Belize beginning in 2010.


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Project Information

An Integrative Investigation of Population Connectivity Using a Coral Reef Fish (Elacatinus Dispersal I)


Coverage: Belizean Barrier Reef System (16.803 degrees North 88.096 degrees West)


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.

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.

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.



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Funding

Funding SourceAward
NSF Division of Ocean Sciences (NSF OCE)

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