Distinction of saffron cod (Eleginus gracilis) from several other gadid species by using microsatellite markers

doi:https://doi.org/10.7755/fb.116.1.6

Title: Distinction of saffron cod ( Eleginus gracilis) from several other gadid species by using microsatellite markers

Abstract

Nine microsatellite loci isolated in saffron cod ( Eleginus gracilis) have potential applications for population genetics. Polymerase chain reaction products of samples of E. gracilis from northwestern Alaska amplified reliably, produced only one or two microsatellite bands, and had no apparent homozygote excess. A collection of E. gracilis sampled in the Gulf of Alaska (GOA) near Kodiak Island did not amplify reliably at one locus, and allele frequency profiles clustered distinctly (with principal component analysis [PCA]) from the northwestern Alaska collection. Northwestern Alaska and GOA E. gracilis collections were genetically different (on the basis of a standardized genetic differentiation measure [ G' _ST]=0.313, chord distance [ D _chord]=0.078, P<0.0001) and differed in expected aver-age heterozygosities at shared loci (0.859 and 0.689, respectively). We tested the microsatellite primers on other gadid species endemic to the northern Pacific Ocean, Bering Sea, and Arctic Ocean for cross-species amplification. Not all loci amplified reliably in navaga ( E. nawaga), Pacific tomcod ( Microgadus proximus), Arctic cod ( Boreogadus saida), Pacific cod ( Gadus macrocephalus), or walleye pollock ( G. chalcogrammus). Reliable loci varied in microsatellite size profiles and produced distinct PCA clusters and accurate genotype assignments that allowed accurate species identification. Furthermore the identificationsmore »« less

Authors:

Sme, Noel ^[1]; Lyon, Sarah ^[1]; Canino, Michael ^[2]; Chernova, Natalia ^[3]; O’Bryhim, Jason ^[4]; Lance, Stacey ^[4]; Jones, Kenneth ^[5]; Mueter, Franz ^[1]; Gharrett, Anthony ^[1]

Univ. of Alaska Fairbanks, Juneau, AK (United States)
NOAA, Seattle, WA (United States)
Zoological Institute of the Russian Academy of Sciences, Saint Petersburg (Russia)
Univ. of Georgia, Aiken, SC (United States)
Univ. of Colorado School of Medicine, Aurora, CO (United States)

Publication Date:: 2017-12-13

Research Org.:: Univ. of Georgia, Athens, GA (United States)

Sponsoring Org.:: USDOE

OSTI Identifier:: 1512504

Grant/Contract Number:: FC09-07SR22506

Resource Type:: Journal Article: Accepted Manuscript

Journal Name:: Fishery Bulletin

Additional Journal Information:: Journal Volume: 116; Journal Issue: 1; Journal ID: ISSN 0090-0656

Publisher:: NOAA Fisheries

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES

Citation Formats


                    Sme, Noel, Lyon, Sarah, Canino, Michael, Chernova, Natalia, O’Bryhim, Jason, Lance, Stacey, Jones, Kenneth, Mueter, Franz, and Gharrett, Anthony. Distinction of saffron cod (Eleginus gracilis) from several other gadid species by using microsatellite markers.  United States: N. p., 2017. 
        Web.  doi:10.7755/fb.116.1.6.

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                    Sme, Noel, Lyon, Sarah, Canino, Michael, Chernova, Natalia, O’Bryhim, Jason, Lance, Stacey, Jones, Kenneth, Mueter, Franz, & Gharrett, Anthony. Distinction of saffron cod (Eleginus gracilis) from several other gadid species by using microsatellite markers.  United States.  https://doi.org/10.7755/fb.116.1.6

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                    Sme, Noel, Lyon, Sarah, Canino, Michael, Chernova, Natalia, O’Bryhim, Jason, Lance, Stacey, Jones, Kenneth, Mueter, Franz, and Gharrett, Anthony. Wed .  
        "Distinction of saffron cod (Eleginus gracilis) from several other gadid species by using microsatellite markers".  United States.  https://doi.org/10.7755/fb.116.1.6.  https://www.osti.gov/servlets/purl/1512504.

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@article{osti_1512504,

  title        = {Distinction of saffron cod (Eleginus gracilis) from several other gadid species by using microsatellite markers},

  author       = {Sme, Noel and Lyon, Sarah and Canino, Michael and Chernova, Natalia and O’Bryhim, Jason and Lance, Stacey and Jones, Kenneth and Mueter, Franz and Gharrett, Anthony},

  abstractNote = {Nine microsatellite loci isolated in saffron cod (Eleginus gracilis) have potential applications for population genetics. Polymerase chain reaction products of samples of E. gracilis from northwestern Alaska amplified reliably, produced only one or two microsatellite bands, and had no apparent homozygote excess. A collection of E. gracilis sampled in the Gulf of Alaska (GOA) near Kodiak Island did not amplify reliably at one locus, and allele frequency profiles clustered distinctly (with principal component analysis [PCA]) from the northwestern Alaska collection. Northwestern Alaska and GOA E. gracilis collections were genetically different (on the basis of a standardized genetic differentiation measure [G'ST]=0.313, chord distance [Dchord]=0.078, P<0.0001) and differed in expected aver-age heterozygosities at shared loci (0.859 and 0.689, respectively). We tested the microsatellite primers on other gadid species endemic to the northern Pacific Ocean, Bering Sea, and Arctic Ocean for cross-species amplification. Not all loci amplified reliably in navaga (E. nawaga), Pacific tomcod (Microgadus proximus), Arctic cod (Boreogadus saida), Pacific cod (Gadus macrocephalus), or walleye pollock (G. chalcogrammus). Reliable loci varied in microsatellite size profiles and produced distinct PCA clusters and accurate genotype assignments that allowed accurate species identification. Furthermore the identifications support previous morphological and genetically determined systematic classifications and distinguished the geographically separated collections of E. gracilis.},

  doi          = {10.7755/fb.116.1.6},

  url          = {https://www.osti.gov/biblio/1512504},
  journal      = {Fishery Bulletin},

  issn         = {0090-0656},

  number       = 1,

  volume       = 116,

  place        = {United States},

  year         = {2017},

  month        = {12}

}

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Journal Article:

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https://doi.org/10.7755/fb.116.1.6

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Cited by: 1 work

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Figures / Tables:

Table 1: Number of samples (n), geographic regions, gear used, collector (when known) and collector’s affiliation for collections of 6 gadid species sampled in this study: saffron cod ( Eleginus gracilis), navaga ( E. nawaga), Pacific tomcod ( Microgadus proximus), Pacific cod ( Gadus macrocephalus), walleye pollock ( G. chalcogrammus),more »

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Works referencing / citing this record:

Examination of saffron cod Eleginus gracilis (Tilesius 1810) population genetic structure
journal, August 2020

Smé, Noël A.; Lyon, Sarah; Mueter, Franz
Polar Biology, Vol. 43, Issue 8
https://doi.org/10.1007/s00300-019-02601-5

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Figures/Tables have been extracted from DOE-funded journal article accepted manuscripts.

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Title: Distinction of saffron cod ( Eleginus gracilis) from several other gadid species by using microsatellite markers

Abstract

Citation Formats

Figures / Tables:

Examination of saffron cod Eleginus gracilis (Tilesius 1810) population genetic structure journal, August 2020

Examination of saffron cod Eleginus gracilis (Tilesius 1810) population genetic structure
journal, August 2020