Dataset: Genetic sequence identifiers for Etelis samples collected in the Indo-Pacific Ocean between 1997 and 2012

ValidatedFinal no updates expectedDOI: 10.26008/1912/bco-dmo.873427.1Version 1 (2022-04-21)Dataset Type:Other Field Results

Principal Investigator: Brian Bowen (University of Hawai'i)

Scientist: Kimberly R. Andrews (University of Hawai'i)

BCO-DMO Data Manager: Amber D. York (Woods Hole Oceanographic Institution)

Program: Indo-Pac Research Coordination Network (Indo-Pac RCN)

Project: Origins of Hawaiian Reef Fishes (Hawaiian Fish Origins)

Abstract

Genetic sequence identifiers for Etelis samples collected in the Indo-Pacific Ocean between 1997 and 2012. These data were published in Andrews et al. (2021).

Cite Dataset

The holotype was purchased at Yanbu fish market after being collected by hook and line in a nearby area and was deposited at the National Museum of Marine Biology & Aquarium (NMMB-P). Fifteen paratypes were obtained from Western Australia and deposited at the fish collection of California Academy of Sciences, San Francisco (CAS). These paratypes were part of a previous study using morphological and genetic data which revealed that two morphologically similar species were being identified as E. carbunculus, leading the authors to propose an undescribed species of Etelis (Andrews et al. 2016). That study generated DNA sequence data from cytochrome b (cytb) for the paratypes, and the sequences have been deposited in GenBank (Accession numbers MW151867- MW151881). See "Related Datasets" for links to the NCBI Popsets that contain these sequences.

 [See Related Dataset "Etelis morphology" https://www.bco-dmo.org/dataset/873174 for morphological measurements, meristics for the Etelis samples.  The column "Field_ID" can be used to relate the Etelis genetics and Etelis morphology datasets.]

DNA sequences from cytb and cytochrome oxidase I (COI) were obtained from the E. boweni holotype and four E. radiosus specimens from the Yanbu fish market using previously described protocols (Andrews et al. 2016). The sequences were aligned with sequences used in phylogenetic analyses in Andrews et al. 2016, including cytb and COI sequences from six E. boweni and six E. carbunculus specimens collected across the Indo-Pacific, along with sequences from all other recognized Etelis species (six E. coruscans specimens, seven E. radiosus specimens, five E. oculatus specimens), and one specimen from each of two outgroups (Pristipomoides filamentosus and Aphareus rutilans). All sequences were then trimmed to a common length for each locus, for a total of 375 bp for cytb and 599 bp for COI.

Location: Indo-Pacific

Species List:

ScientificName,AphiaID,LSID
Aphareus rutilans,218468,urn:lsid:marinespecies.org:taxname:218468
Etelis boweni,1536489,urn:lsid:marinespecies.org:taxname:1536489
Etelis carbunculus,212545,urn:lsid:marinespecies.org:taxname:212545
Etelis coruscans,212544,urn:lsid:marinespecies.org:taxname:212544
Etelis oculatus,159789,urn:lsid:marinespecies.org:taxname:159789
Etelis radiosus,276518,urn:lsid:marinespecies.org:taxname:276518
Pristipomoides filamentosus,218511,urn:lsid:marinespecies.org:taxname:218511

Related Datasets

IsRelatedTo
Dataset: Etelis spp. rangewide genetic data
Relationship Description: The Etelis range-wide data set was designed to resolve population structure and management units for Etelis carbunculus. In the course of this population genetic study, it became apparent that the putative Etelis carbunculus actually contained two species, the foundation for the "Etelis genetics" and "Etelis morphology" data sets.
Bowen, B., Andrews, K. R. (2022) Microsatellite genotypes, and cytb sequences for Etelis coruscans, Etelis carbunculus, and Etelis sp. and sample collection information in the Indo-Pacific Ocean from 1997 and 2012. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2022-04-26 doi:10.26008/1912/bco-dmo.873568.1
IsRelatedTo
Dataset: Etelis morphology
Relationship Description: Morphological measurements, meristics for the Etelis samples. The column Field_ID can be used to relate these two datasets.
Bowen, B., Andrews, K. R. (2022) Morphological measurements and meristics for Etelis samples collected in the Indo-Pacific Ocean between 1997 and 2012. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2022-04-14 doi:10.26008/1912/bco-dmo.873174.1
References
Dataset: https://www.ncbi.nlm.nih.gov/popset/2017807418
Andrews,K.R., Fernandez-Silva,I., Randall,J.E. and Ho,H.C. (2021). Etelis boweni cytochrome b (cytb) gene, partial cds; mitochondrial. The National Center for Biotechnology Information PopSet: 2017807418. Available from https://www.ncbi.nlm.nih.gov/popset/2017807418
References
Dataset: https://www.ncbi.nlm.nih.gov/nuccore/MW138047.1/
Andrews,K.R., Fernandez-Silva,I., Randall,J.E. and Ho,H.C. (2021). Etelis boweni voucher YB16 cytochrome c oxidase subunit I (COX1) gene, partial cds; mitochondrial. GenBank accession: MW138047.1. Available from https://www.ncbi.nlm.nih.gov/nuccore/MW138047.1/
References
Dataset: https://www.ncbi.nlm.nih.gov/popset/2017807408
Andrews,K.R., Fernandez-Silva,I., Randall,J.E. and Ho,H.C. (2021). Etelis cytochrome b (cytb) gene, partial cds; mitochondrial. The National Center for Biotechnology Information PopSet: 2017807408. Available from https://www.ncbi.nlm.nih.gov/popset/2017807408

Related Publications

Results
Andrews, K. R., Fernandez‐Silva, I., Randall, J. E., & Ho, H. (2021). Etelis boweni sp. nov., a new cryptic deepwater eteline snapper from the Indo-Pacific (Perciformes: Lutjanidae). Journal of Fish Biology, 99(2), 335–344. Portico. https://doi.org/10.1111/jfb.14720
Methods
Andrews, K. R., Williams, A. J., Fernandez-Silva, I., Newman, S. J., Copus, J. M., Wakefield, C. B., Randall, J. E., & Bowen, B. W. (2016). Phylogeny of deepwater snappers (Genus Etelis) reveals a cryptic species pair in the Indo-Pacific and Pleistocene invasion of the Atlantic. Molecular Phylogenetics and Evolution, 100, 361–371. https://doi.org/10.1016/j.ympev.2016.04.004
Methods
Hubbs CL, Lagler KF (1958). Fishes of the Great Lakes region. Ann Arbor: The University of Michigan Press.
Methods
Stamatakis, A. (2014). RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics, 30(9), 1312–1313. doi:10.1093/bioinformatics/btu033

Bowen, B., Andrews, K. R. (2022) Genetic sequence identifiers for Etelis samples collected in the Indo-Pacific Ocean between 1997 and 2012. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2022-04-21 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.873427.1 [access date]

Terms of Use

This dataset is licensed under Creative Commons Attribution 4.0.


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