scholarly journals A real‐world dataset and data simulation algorithm for automated fish species identification

2021 ◽  
Author(s):  
Vaneeda Allken ◽  
Shale Rosen ◽  
Nils Olav Handegard ◽  
Ketil Malde
Keyword(s):  
Species Identification ◽  
Fish Species ◽  
Real World ◽  
Simulation Algorithm ◽  
Data Simulation ◽  
Fish Species Identification

scholarly journals Environmental DNA (eDNA) Metabarcoding in the Fish Market and Nearby Seafood Restaurants in Taiwan Reveals the Underestimation of Fish Species Diversity in Seafood

Biology ◽  
2021 ◽  
Vol 10 (11) ◽  
pp. 1132
Author(s):  
Hung-Tai Lee ◽  
Cheng-Hsin Liao ◽  
Te-Hua Hsu
Keyword(s):  
Species Diversity ◽  
Species Identification ◽  
Fish Species ◽  
Large Scale ◽  
Environmental Dna ◽  
Universal Primers ◽  
Similar Species ◽  
Operational Taxonomic Units ◽  
Fish Market ◽  
Fish Species Identification

Seafood, especially in traditional food Taiwan, is rarely sourced from a fixed species and routinely from similar species depending on their availability. Hence, the species composition of seafood can be complicated. While a DNA-based approach has been routinely utilized for species identification, a large scale of seafood identification in fish markets and restaurants could be challenging (e.g., elevated cost and time-consuming only for a limited number of species identification). In the present study, we aimed to identify the majority of fish species potentially consumed in fish markets and nearby seafood restaurants using environmental DNA (eDNA) metabarcoding. Four eDNA samplings from a local fish market and nearby seafood restaurants were conducted using Sterivex cartridges. Nineteen universal primers previously validated for fish species identification were utilized to amplify the fragments of mitochondrial DNA (12S, COI, ND5) of species in eDNA samples and sequenced with NovaSeq 6000 sequencing. A total of 153 fish species have been identified based on 417 fish related operational taxonomic units (OTUs) generated from 50,534,995 reads. Principal Coordinate Analysis (PCoA) further showed the differences in fish species between the sampling times and sampling sites. Of these fish species, 22 chondrichthyan fish, 14 Anguilliformes species, and 15 Serranidae species were respectively associated with smoked sharks, braised moray eels, and grouper fish soups. To our best knowledge, this work represents the first study to demonstrate the feasibility of a large scale of seafood identification using eDNA metabarcoding approach. Our findings also imply the species diversity in traditional seafood might be seriously underestimated and crucial for the conservation and management of marine resources.

Rapid Fish Species Identification by Agarose Gel Isoelectric Focusing of Sarcoplasmic Proteins

1981 ◽  
Vol 64 (1) ◽  
pp. 38-43
Author(s):  
Ronald C Lundstrom
Keyword(s):  
Species Identification ◽  
Isoelectric Focusing ◽  
Fish Species ◽  
Protein Pattern ◽  
Agarose Gel ◽  
Tissue Fluid ◽  
Protein Patterns ◽  
Fish Species Identification ◽  
Species Specific ◽  
Gel Isoelectric Focusing

Abstract A rapid method is described for fish species identification by agarose gel isoelectric focusing (AGIEF). The AGIEF method can be completed in less than 2 h and gives reproducible species-specific sarcoplasmic protein patterns. Protein patterns are similar using either centrifuged tissue fluid or muscle tissue as the sample. One species, monkfish (Lophius americanus), has a polymorphic protein pattern. A predominant pattern was found in 66.7% of the individuals; 2 variant patterns were equally distributed among the remaining 33.3%. AGIEF offers a more rapid, less expensive alternative to the current AOAC official first action method for fish species identification based on polyacrylamide gel isoelectric focusing.

Collaborative Study of a Rapid Electrophoretic Method for Fish Species Identification

1969 ◽  
Vol 52 (4) ◽  
pp. 703-707
Author(s):  
Robert J Learson
Keyword(s):  
Cellulose Acetate ◽  
Species Identification ◽  
Fish Species ◽  
Collaborative Study ◽  
Correct Identification ◽  
Protein Patterns ◽  
Electrophoretic Method ◽  
Fish Species Identification ◽  
Fish Samples ◽  
Standard Protein

Abstract A rapid electrophoretic method for fish species identification, using cellulose acetate as the supporting medium, was collaboratively studied to determine whether photographs of standard protein patterns from authentic species could he used to identify unknown samples. Twelve collaborators were sent six unknown samples of fish in duplicate to identify from a set of photographs representing standard patterns from nine species of fish. Results obtained from the 10 reporting collaborators indicated that correct identification from photographic standards was extremely difficult. Although the analysts were able to match the duplicates with an accuracy of 90%, only 39% of the unknowns were correctly identified. It is recommended that the method be collaboratively studied using authentic fish samples for standards instead of photographic standards.

Fish species identification by isoelectric focusing of parvalbumins in immobilized pH gradients

1996 ◽  
Vol 17 (8) ◽  
pp. 1380-1385 ◽  
Author(s):  
Josep S. Esteve-Romero ◽  
Ingrid Malmheden Yman ◽  
Alessandra Bossi ◽  
Pier Giorgio Righetti
Keyword(s):  
Species Identification ◽  
Isoelectric Focusing ◽  
Fish Species ◽  
Ph Gradients ◽  
Fish Species Identification

Fish Species Identification by Isoelectric Focusing: Sarcoplasmic Protein Polymorphism in Monkfish (Lophius americanus)

1981 ◽  
Vol 64 (1) ◽  
pp. 32-37
Author(s):  
Ronald C Lundstrom
Keyword(s):  
Species Identification ◽  
Isoelectric Focusing ◽  
Fish Species ◽  
Protein Pattern ◽  
Polyacrylamide Gel ◽  
Protein Patterns ◽  
Fish Species Identification ◽  
Sarcoplasmic Protein ◽  
Gel Isoelectric Focusing ◽  
Agarose Ief

Abstract Monkfish (Lophius americanus) sarcoplasmic protein patterns were found to be polymorphic with respect to separations using isoelectric focusing. Reproducible protein pattern variations were not detected using cellulose acetate or polyacrylamide gel disc electrophoresis. Monkfish sarcoplasmic proteins separated on pH 3.5-9.5 Ampholine PAGplates or on pH 2.5-9.0 agarose IEF gels yielded similar patterns showing 3 distinct, reproducible variations. On close examination, the pH 3.5-9.5 Ampholine PAGplate patterns could be further subdivided into 3 additional variations. A high resolution pH 3.5-5.0 agarose IEF gel was able to resolve a total of 10 different monkfish pattern variations in a sample of 24 individuals. A model was proposed suggesting the existence of 16 distinct variations in the monkfish sarcoplasmic protein pattern, based on the various combinations of 4 protein bands. In identifying samples of monkfish meat, it is necessary to compare the unknown pattern with the possible variant patterns to effect a reliable identification. On recommendation by the Associate Referee, the method for fish species identification based on polyacrylamide gel isoelectric focusing, 18.A01-18.A04, has been adopted official final action with no restrictions as to the species that may be identified.

Development of a COX 1 based PCR-RFLP method for fish species identification

Food Control ◽  
2015 ◽  
Vol 55 ◽  
pp. 39-42 ◽  
Author(s):  
Steffen Mueller ◽  
Sara M. Handy ◽  
Jonathan R. Deeds ◽  
Gideon O. George ◽  
Wendy J. Broadhead ◽  
...  
Keyword(s):  
Species Identification ◽  
Fish Species ◽  
Fish Species Identification ◽  
Pcr Rflp ◽  
Cox 1
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