19:I[42426,["/_next/static/immutable/chunks/1xctgzqre-wsy.js","/_next/static/immutable/chunks/06_-wz6pdtp2b.js","/_next/static/immutable/chunks/30e52g49hg40p.js","/_next/static/immutable/chunks/02yq6tul2z-oh.js","/_next/static/immutable/chunks/10bx_ec2vj7n_.js","/_next/static/immutable/chunks/33bfn03fo8xnt.js","/_next/static/immutable/chunks/0tfjf78scu61b.js","/_next/static/immutable/chunks/31xnvej4n1bi9.js"],"default"] 1a:T8c6,

This dataset contains GenBank accession numbers for various genomic and mtDNA loci sequences from reef fish. The fish were sampled in multiple locations in the Indian Ocean, Pacific Ocean, and the Red Sea between 2005 to 2015.

These data were published in the data sections of the following publications:

Coleman, R.R., J.A. Eble, J.D. DiBattista, L.A. Rocha, J.E. Randall, M.L. Berumen, B.W. Bowen. 2016. Regal phylogeography: range-wide survey of the marine angelfish Pygoplites diacanthus reveals evolutionary partitions between the Red Sea, Indian Ocean, and Pacific Ocean. Molecular Phylogenetics and Evolution 100:243 – 253. doi: 10.1016/j.ympev.2016.04.005.

DiBattista J.D., J. Whitney, M.T. Craig, J.-P. A. Hobbs, L.A. Rocha, K.A. Feldheim, M.L. Berumen, B.W. Bowen. 2016. Surgeons and suture zones: hybridization among four surgeonfish species in the Indo-Pacific with variable evolutionary outcomes. Molecular Phylogenetics and Evolution 101:203 – 215. doi: 10.1016/j.ympev.2016.04.036.

DiBattista, J.D., M.R. Gaither, J.-P. A. Hobbs, L.A. Rocha, B.W. Bowen. 2016. Angelfishes, paper tigers, and the devilish taxonomy of the Centropyge flavissima complex. Journal of Heredity 107:647 – 653. doi: 10.1093/jhered/esw062.

Tenggardjaja, K. A., Bowen, B. W., & Bernardi, G. (2014). Vertical and horizontal genetic connectivity in Chromis verater, an endemic damselfish found on shallow and mesophotic reefs in the Hawaiian Archipelago and adjacent Johnston Atoll. PLoS One, 9 (12), e115493. doi: 10.1371/journal.pone.0115493

Tenggardjaja, K.A., B.W. Bowen, G. Bernardi. 2016. Reef fish dispersal in the Hawaiian Archipelago: comparative phylogeography of three endemic damselfishes. Journal of Marine Biology: Article ID 3251814. doi: 10.1155/2016/3251814.

1b:T1173,Project summary: This research is designed to resolve the origins of Hawaiian reef fishes. All living inhabitants of the Hawaiian archipelago necessarily originate elsewhere, due to the volcanic history of the island arc. Hawaii also has the highest endemism (native species) in the Pacific, with 25% of the 625 near-shore fish species found nowhere else. Where did these fishes come from? Two prominent hypotheses regarding the origins of Hawaiian marine species maintain that colonists arrive either from the south (via the Line Islands and Johnston Atoll) or from the west (via Japan). Previous research has shown that Hawaiian endemic limpets (genus Cellana) colonized from Japan (Bird et al. 2011 Mol. Ecol. 20:2128 – 2141). Andrews et al. (2014; PLoS One 9: e91665) report evidence for a colonization pathway from the south (Johnston Atoll) to the middle of the archipelago in the Papahanaumokuakea Marine National Monument (PMNM). In this project, we will sample locations to the south of Hawaii (Johnston and Line Islands) and to the west of Hawaii (Ogasawara and Ryukyu Islands) for a suite of 20 reef fishes in order to resolve the origins of Hawaiian biodiversity. Advanced rebreather technology allows dives with longer bottom time and more efficient sample collection, and our program is pioneering the applications of this advance diving technology. To test alternate hypotheses in the lab, we will employ both population genetics (shifts in genotype frequencies) and phylogenetics (DNA sequence divergence) for more ancient separations. Restriction-digest associated DNA sequencing (RAD-seq) is the best method for studies of phylogeography, phylogenetics, and population biology because it provides high coverage of homologous portions of the genome from multiple individuals for comparatively low cost and effort. We use the ezRAD approach developed in the shared Bowen-Toonen Lab. Description from NSF award abstract: The Hawaiian Islands are the product of a volcanic hot spot in the middle of the North Pacific. Hence every living thing on this isolated archipelago has origins elsewhere. This project will investigate the origins of Hawaiian reef fishes, which are important both as a food source and a cultural touchstone in native Hawaiian communities. Two prominent hypotheses maintain that marine fish originally arrived from the south (Line Islands and Johnston Atoll) or from the west (Japan). To test these hypotheses, this research will augment existing specimens from Hawaii with expeditions to Johnston Atoll (closest shallow habitat to the south), the northern Line Islands (Palmyra), southern Line Islands (Christmas Island), and Ryukyu Islands and Ogasawara Islands in Japan. Advanced genetic techniques will be used to resolve the closest relatives to the Hawaiian fish species and the pathways by which reef species colonize Hawaii and help establish patterns of biodiversity. In cases where Hawaiian species are closely related to widespread sister species, this project will detect hotspots of genetic divergence. Because this research will reveal the sources of Hawaiian marine biodiversity, results can be used to help define priorities for reef protection. The project will support two graduate students and train at least two more in all aspects of the project from rebreather diving, specimen collection and curation, information management, and advanced genetic techniques. There will be outreach efforts to schools through existing programs, and expedition teams will include a videographer to provide footage for the award-winning Voice of the Sea program, broadcast locally. Expeditions will also include an outreach specialist to handle media reports and promote awareness and concern for reefs in the communities surrounding study sites. The investigators will sample a suite of 20 reef fishes at locations to the south (Johnston and Line Islands) and west (Ogasawara and Ryukyu Islands) of Hawaii to resolve the origins of Hawaiian biodiversity. The investigators will employ both population genetics (shifts in genotype frequencies) and phylogenetics (DNA sequence divergence) for more ancient separations to test their hypotheses. Restriction-digest associated DNA sequencing (RAD-seq) will be employed for the phylogeography, phylogenetics, and population biology studies because it provides high coverage of homologous portions of the genome from multiple individuals for comparatively low cost and effort.6:["$","$L19",null,{"dataset":{"_id":"716806","description":"$1a","problem":"","acquisition":"

Methodology: Various genomic and mtDNA loci were sequenced from reef fishes.

Sampling and analytical procedures: Samples were taken as fine clips, then sequenced and analyzed to detect population structure and evolutionary genetic divergences. Species were collected with scuba gear, nets, and spears.

Raw sequence data was aligned with GENEIOUS R6 (Biomatters, LTD, Auckland, NZ) or GENEIOUS v.8.0.3 (Gene Codes, Ann Arbor, MI, USA). Sequence analyses were performed with BEAST v.2.2.0 and ARLEQUIN v. 3.5.

For details of these analyses, see the references listed in the \"Description\" section of this page.

\n","processing":"

BCO-DMO Data Manager Processing Notes:
\n* added a conventional header with dataset name, PI name, version date
\n* modified parameter names to conform with BCO-DMO naming conventions
\n* added columns for max/min latitude and longitudes for species collections
\n* added column with DOIs for the journal references
\n* modified dataset so each row contains one range of accessions.
\n* replaced commas in the data with semicolons to support .csv format of data

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taxonomic group or entity. This may be a family, class, genus, species, etc.; usually this parameter will contain a mixture of taxonomic entities.

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Sampling site identification.

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Sequence method and instrument

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instrument used to collect or process data, definition is specific to the data set in which it appears

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Range of accession numbers at National Center for Biotechnology Information (NCBI) Genbank

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Database identifier assigned by repository and linked to GenBank or other repository.

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Link to the first accession in the accession range at National Center for Biotechnology Information (NCBI) Genbank

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Link to an external data entry.

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Maximum species collection latitude

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latitude, in decimal degrees, North is positive, negative denotes South; Reported in some datasets as degrees, minutes

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Minimum species collection latitude

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latitude, in decimal degrees, North is positive, negative denotes South; Reported in some datasets as degrees, minutes

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Maximum species collection longitude

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longitude, in decimal degrees, East is positive, negative denotes West; Reported in some datasets as degrees, minutes

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Minimum species collection longitude

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longitude, in decimal degrees, East is positive, negative denotes West; Reported in some datasets as degrees, minutes

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Journal publications these accessions were published in

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A list of papers referred to as a data column, or a publication referenced in a dataset or study.

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Digital object identifier (DOI) for the journal publications these accessions were published in

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A list of papers referred to as a data column, or a publication referenced in a dataset or study.

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