Yoon Tae-Ho, Kang Hye-Eun, Lee Soo Rin, Lee Jae-Bong, Baeck Gun Wook, Park Hyun, Kim Hyun-Woo
Interdisciplinary Program of Biomedical, Mechanical and Electrical Engineering, Pukyong National University, Busan, Republic of Korea.
Department of Marine Biology, Pukyong National University, Busan, Republic of Korea.
PeerJ. 2017 Nov 7;5:e3977. doi: 10.7717/peerj.3977. eCollection 2017.
Stomach contents of the Antarctic toothfish, , 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 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 are fish. Two fish species, and , 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 , 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.
对从58.4和88.3分区采集的南极犬牙鱼的胃内容物，使用下一代测序（NGS）技术进行了分析。在处理由MiSeq平台生成的原始读数后，从58.4分区的163个个体中总共获得了131,233个重叠群（130个操作分类单元[OTU]），从88.3分区的164条鱼中获得了75,961个重叠群（105个OTU）。在98%的序列同一性水平下，本研究为大多数OTU指定了物种名称，这表明南大洋DNA条形码数据库的质量足以进行分子分析，特别是对于鱼类物种。本研究从南极犬牙鱼的胃中总共鉴定出19个物种，其中包括14种鱼类和5种软体动物。超过90%的重叠群属于鱼类物种，这支持了南极犬牙鱼的主要猎物是鱼类的假设。两种鱼类，南极小鳞犬牙南极鱼和鳞头犬牙南极鱼，是最重要的猎物项目（这一发现与之前的研究相似）。我们还通过NGS分析获得了猎物项目的基因型，在本研究中鉴定出另外17个代表性单倍型。将本研究与之前的三项形态学研究以及基于NGS的分子鉴定进行比较，扩展了我们对南极犬牙鱼猎物的认识，而这在以前是不可能的。这些结果表明，如果克服当前的一些技术限制，包括条形码数据库的质量或开发将其与形态学值联系起来的精确分子定量技术，基于NGS的饮食研究是可行的。要实现这一点，应该对各种海洋生物进行更多的研究。
