Metabarcoding analysis of the stomach contents of the Antarctic Toothfish (Dissostichus mawsoni) collected in the Antarctic Ocean
Stomach contents of the Antarctic toothfish, Dissostichus mawsoni, collected from subareas 58.4 and 88.3, were analyzed using next generation sequencing (NGS) technology. After processing the raw reads generated by the MiSeq platform, a total of 131,233 contigs (130 operational taxonomic units [OTUs...
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ftdoajarticles:oai:doaj.org/article:694caef3a6fb443e9abf4f329f93c5df 2024-01-07T09:40:06+01:00 Metabarcoding analysis of the stomach contents of the Antarctic Toothfish (Dissostichus mawsoni) collected in the Antarctic Ocean Tae-Ho Yoon Hye-Eun Kang Soo Rin Lee Jae-Bong Lee Gun Wook Baeck Hyun Park Hyun-Woo Kim 2017-11-01T00:00:00Z https://doi.org/10.7717/peerj.3977 https://doaj.org/article/694caef3a6fb443e9abf4f329f93c5df EN eng PeerJ Inc. https://peerj.com/articles/3977.pdf https://peerj.com/articles/3977/ https://doaj.org/toc/2167-8359 doi:10.7717/peerj.3977 2167-8359 https://doaj.org/article/694caef3a6fb443e9abf4f329f93c5df PeerJ, Vol 5, p e3977 (2017) Metabarcoding Antarctic toothfish Foodweb Stomach contents Antarctica Next-generation sequencing Medicine R Biology (General) QH301-705.5 article 2017 ftdoajarticles https://doi.org/10.7717/peerj.3977 2023-12-10T01:50:12Z Stomach contents of the Antarctic toothfish, Dissostichus mawsoni, collected from subareas 58.4 and 88.3, were analyzed using next generation sequencing (NGS) technology. After processing the raw reads generated by the MiSeq platform, a total of 131,233 contigs (130 operational taxonomic units [OTUs]) were obtained from 163 individuals in subarea 58.4, and 75,961 contigs (105 OTUs) from 164 fish in subarea 88.3. At 98% sequence identity, species names were assigned to most OTUs in this study, indicating the quality of the DNA barcode database for the Antarctic Ocean was sufficient for molecular analysis, especially for fish species. A total of 19 species was identified from the stomach of D. mawsoni in this study, which included 14 fish species and five mollusks. More than 90% of contigs belonged to fish species, supporting the postulate that the major prey of D. mawsoni are fish. Two fish species, Macrourus whitsoni and Chionobathyscus dewitti, were the most important prey items (a finding similar to that of previous studies). We also obtained genotypes of prey items by NGS analysis, identifying an additional 17 representative haplotypes in this study. Comparison with three previous morphological studies and the NGS-based molecular identification in this study extended our knowledge regarding the prey of D. mawsoni, which previously was not possible. These results suggested that NGS-based diet studies are possible, if several current technical limitations, including the quality of the barcode database or the development of precise molecular quantification techniques to link them with morphological values, are overcome. To achieve this, additional studies should be conducted on various marine organisms. Article in Journal/Newspaper Antarc* Antarctic Antarctic Ocean Antarctic Toothfish Antarctica Directory of Open Access Journals: DOAJ Articles Antarctic Antarctic Ocean The Antarctic PeerJ 5 e3977 |
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op_collection_id |
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language |
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topic |
Metabarcoding Antarctic toothfish Foodweb Stomach contents Antarctica Next-generation sequencing Medicine R Biology (General) QH301-705.5 |
spellingShingle |
Metabarcoding Antarctic toothfish Foodweb Stomach contents Antarctica Next-generation sequencing Medicine R Biology (General) QH301-705.5 Tae-Ho Yoon Hye-Eun Kang Soo Rin Lee Jae-Bong Lee Gun Wook Baeck Hyun Park Hyun-Woo Kim Metabarcoding analysis of the stomach contents of the Antarctic Toothfish (Dissostichus mawsoni) collected in the Antarctic Ocean |
topic_facet |
Metabarcoding Antarctic toothfish Foodweb Stomach contents Antarctica Next-generation sequencing Medicine R Biology (General) QH301-705.5 |
description |
Stomach contents of the Antarctic toothfish, Dissostichus mawsoni, collected from subareas 58.4 and 88.3, were analyzed using next generation sequencing (NGS) technology. After processing the raw reads generated by the MiSeq platform, a total of 131,233 contigs (130 operational taxonomic units [OTUs]) were obtained from 163 individuals in subarea 58.4, and 75,961 contigs (105 OTUs) from 164 fish in subarea 88.3. At 98% sequence identity, species names were assigned to most OTUs in this study, indicating the quality of the DNA barcode database for the Antarctic Ocean was sufficient for molecular analysis, especially for fish species. A total of 19 species was identified from the stomach of D. mawsoni in this study, which included 14 fish species and five mollusks. More than 90% of contigs belonged to fish species, supporting the postulate that the major prey of D. mawsoni are fish. Two fish species, Macrourus whitsoni and Chionobathyscus dewitti, were the most important prey items (a finding similar to that of previous studies). We also obtained genotypes of prey items by NGS analysis, identifying an additional 17 representative haplotypes in this study. Comparison with three previous morphological studies and the NGS-based molecular identification in this study extended our knowledge regarding the prey of D. mawsoni, which previously was not possible. These results suggested that NGS-based diet studies are possible, if several current technical limitations, including the quality of the barcode database or the development of precise molecular quantification techniques to link them with morphological values, are overcome. To achieve this, additional studies should be conducted on various marine organisms. |
format |
Article in Journal/Newspaper |
author |
Tae-Ho Yoon Hye-Eun Kang Soo Rin Lee Jae-Bong Lee Gun Wook Baeck Hyun Park Hyun-Woo Kim |
author_facet |
Tae-Ho Yoon Hye-Eun Kang Soo Rin Lee Jae-Bong Lee Gun Wook Baeck Hyun Park Hyun-Woo Kim |
author_sort |
Tae-Ho Yoon |
title |
Metabarcoding analysis of the stomach contents of the Antarctic Toothfish (Dissostichus mawsoni) collected in the Antarctic Ocean |
title_short |
Metabarcoding analysis of the stomach contents of the Antarctic Toothfish (Dissostichus mawsoni) collected in the Antarctic Ocean |
title_full |
Metabarcoding analysis of the stomach contents of the Antarctic Toothfish (Dissostichus mawsoni) collected in the Antarctic Ocean |
title_fullStr |
Metabarcoding analysis of the stomach contents of the Antarctic Toothfish (Dissostichus mawsoni) collected in the Antarctic Ocean |
title_full_unstemmed |
Metabarcoding analysis of the stomach contents of the Antarctic Toothfish (Dissostichus mawsoni) collected in the Antarctic Ocean |
title_sort |
metabarcoding analysis of the stomach contents of the antarctic toothfish (dissostichus mawsoni) collected in the antarctic ocean |
publisher |
PeerJ Inc. |
publishDate |
2017 |
url |
https://doi.org/10.7717/peerj.3977 https://doaj.org/article/694caef3a6fb443e9abf4f329f93c5df |
geographic |
Antarctic Antarctic Ocean The Antarctic |
geographic_facet |
Antarctic Antarctic Ocean The Antarctic |
genre |
Antarc* Antarctic Antarctic Ocean Antarctic Toothfish Antarctica |
genre_facet |
Antarc* Antarctic Antarctic Ocean Antarctic Toothfish Antarctica |
op_source |
PeerJ, Vol 5, p e3977 (2017) |
op_relation |
https://peerj.com/articles/3977.pdf https://peerj.com/articles/3977/ https://doaj.org/toc/2167-8359 doi:10.7717/peerj.3977 2167-8359 https://doaj.org/article/694caef3a6fb443e9abf4f329f93c5df |
op_doi |
https://doi.org/10.7717/peerj.3977 |
container_title |
PeerJ |
container_volume |
5 |
container_start_page |
e3977 |
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1787430511647391744 |