| Contributors | Affiliation | Role |
|---|---|---|
| Buston, Peter | Boston University (BU) | Principal Investigator |
| D'Aloia, Cassidy C. | Boston University (BU) | Co-Principal Investigator |
| Biddle, Mathew | Woods Hole Oceanographic Institution (WHOI BCO-DMO) | BCO-DMO Data Manager |
Genotype data for E. lori individuals sequenced at 71 microsatellites.
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 Elactinus lori. 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 genetic analyses, DNA was extracted using a HotSHOT protocol; individuals were sequenced at 71 microsatellite loci using a multiplex PCR protocol for targeted amplicon sequencing. For full details see D’Aloia et al. (2018), Marine Ecology Progress Series.
Genotype data were analyzed using custom Perl scripts as described in D’Aloia et al. (2016), Conservation Genetics.
BCO-DMO Processing Notes:
| File |
|---|
goby_sibship.csv (Comma Separated Values (.csv), 1.33 MB) MD5:50536b3dafed50dbd4d1048c75bbd7be Primary data file for dataset ID 749774 |
| Parameter | Description | Units |
| sample_ID | identifier for the sample | unitless |
| site_id | identifier for the site | unitless |
| individual_ID | identifier for the individual | unitless |
| lat | approximate latitude in degrees north | decimal degrees |
| lon | approximate longitude in degrees east | decimal degrees |
| Elor_564_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_564_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_2975_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_2975_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3015_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3015_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_605_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_605_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_639_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_639_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_7629_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_7629_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_781_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_781_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_8417_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_8417_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_4010_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_4010_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3025_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3025_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_7401_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_7401_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_476_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_476_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5163_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5163_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_a618_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_a618_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_2609_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_2609_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_179_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_179_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_13691_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_13691_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5115_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5115_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1592_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1592_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1698_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1698_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5782_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5782_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_517_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_517_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1687_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1687_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6561_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6561_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_483_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_483_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_4648_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_4648_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5404_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5404_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_2848_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_2848_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_4362_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_4362_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6213_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6213_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_525_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_525_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_905_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_905_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_25488_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_25488_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1556_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1556_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3690_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3690_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5676_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5676_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6085_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6085_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6616_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6616_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_13590_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_13590_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1078_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1078_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5726_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_5726_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_7548_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_7548_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6357_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6357_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_976_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_976_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3103_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3103_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_8832_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_8832_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1161_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1161_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1408_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1408_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_12215_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_12215_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3569_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3569_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_9671_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_9671_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_8933_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_8933_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3013_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3013_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6056_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6056_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_10743_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_10743_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6856_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_6856_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_2023_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_2023_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3612_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3612_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3686_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3686_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3843_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_3843_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_4139_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_4139_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_7908_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_7908_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_533_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_533_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1079_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_1079_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_4622_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_4622_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_8200_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_8200_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_8924_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_8924_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_503_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Elor_503_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Goby14528_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Goby14528_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Goby21378_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Goby21378_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Goby25362_a | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Goby25362_b | field name is the microsatellite locus name. Data is Haplotype id for each microsatellite allele | unitless |
| Dataset-specific Instrument Name | multiplex PCR protocol |
| Generic Instrument Name | Thermal Cycler |
| Dataset-specific Description | individuals were sequenced at 71 microsatellite loci using a multiplex PCR protocol for targeted amplicon sequencing. |
| Generic Instrument Description | A thermal cycler or "thermocycler" is a general term for a type of laboratory apparatus, commonly used for performing polymerase chain reaction (PCR), that is capable of repeatedly altering and maintaining specific temperatures for defined periods of time. The device has a thermal block with holes where tubes with the PCR reaction mixtures can be inserted. The cycler then raises and lowers the temperature of the block in discrete, pre-programmed steps. They can also be used to facilitate other temperature-sensitive reactions, including restriction enzyme digestion or rapid diagnostics.
(adapted from http://serc.carleton.edu/microbelife/research_methods/genomics/pcr.html) |
| Website | |
| Platform | lab Buston |
| Description | Buston lab expeditions to Belize beginning in 2010. |
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.
| Funding Source | Award |
|---|---|
| NSF Division of Ocean Sciences (NSF OCE) |