scholarly journals Population genomics reveals possible genetic evidence for parallel evolution of Sebastiscus marmoratus in the northwestern Pacific Ocean

Open Biology ◽  
2019 ◽  
Vol 9 (9) ◽  
pp. 190028 ◽  
Author(s):  
Shengyong Xu ◽  
Takashi Yanagimoto ◽  
Na Song ◽  
Shanshan Cai ◽  
Tianxiang Gao ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Pacific Ocean ◽  
Parallel Evolution ◽  
Genetic Evidence ◽  
Genetic Homogeneity ◽  
Northwestern Pacific ◽  
Northwestern Pacific Ocean ◽  
Sebastiscus Marmoratus ◽  
Management And Conservation

Understanding patterns of population diversity and structuring among marine populations is of great importance for evolutionary biology, and can also directly inform fisheries management and conservation. In this study, genotyping-by-sequencing was used to assess population genetic diversity and connectivity of Sebastiscus marmoratus . Based on 130 individuals sampled from 10 locations in the northwestern Pacific Ocean, we identified and genotyped 17 653 single-nucleotide polymorphisms. The patterns of genetic diversity and population differentiation suggested that the Okinawa Trough might be the ancestral centre of S. marmoratus after the Last Glacial Maximum. A shallow genetic structure was observed among sampled populations based on the implemented structuring approaches. Surprisingly, we detected genetic homogeneity in two population pairs (i.e. Xiamen–Niigata and Zhuhai–Iki Island), in which populations have large geographical and latitudinal intervals. Population structure and allele frequency distribution based on outlier loci also mirrored the observed genetic homogeneity in the above-mentioned population pairs. Integrated with biological, environmental and genomic data, our results provide possible genetic evidence for parallel evolution. Our study also provides new perspectives on the population structure of S. marmoratus , which could have important implications for sound management and conservation of this fishery species.

scholarly journals DNA barcoding of deep-sea fishes from the northwestern Pacific Ocean: a resource for identifying hidden genetic diversity in deep-sea fishes

2021 ◽  
Author(s):  
Akinori Teramura ◽  
Keita Koeda ◽  
Hiroshi Senou ◽  
Hsuan-Ching Ho ◽  
Kiyoshi Kikuchi ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Pacific Ocean ◽  
Genetic Differentiation ◽  
Dna Barcoding ◽  
Deep Sea ◽  
Northwestern Pacific ◽  
Northwestern Pacific Ocean ◽  
Reference Sequences ◽  
Coi Sequences ◽  
Two Parameter

COI-based DNA barcoding could be an efficient tool for species identification of deep-sea fishes and could lead to the discovery of cryptic species diversity. However, the availability of reference sequences of deep-sea fishes for DNA barcoding is limited, especially for fishes in the northwestern Pacific Ocean. In this study, we performed DNA barcoding of mesopelagic and demersal fish species on the continental shelf and upper slope, collected from deepwater fisheries around Japan and southern Taiwan, to accumulate the reference sequences of deep-sea fishes in the northwestern Pacific Ocean. Overall, we obtained the COI sequences of 123 species from 50 families. Genetic diversity within each species for which COI sequences were obtained from multiple specimens was examined, and we found that Chimaera phantasma (Chimaeridae), Harpadon microchir (Synodontidae), and Pyramodon ventralis (Carapidae) showed high intraspecific genetic differentiation of more than 2% Kimura two-parameter distance. Moreover, for 19 widespread deep-sea fishes, a comparison between our data and previously acquired COI sequence data suggested a high level (more than 2% Kimura two-parameter distance) of genetic differentiation between the northwestern Pacific Ocean and other oceans in each widespread species. These results suggest that many cryptic species or regional populations have not yet been discovered in deep-sea fishes. Alternatively, genetic differentiation was not found worldwide for six species. These results indicate that many taxonomic and biogeographical issues remain for deep-sea fishes, and our DNA barcoding data would provide better understanding of these issues.

scholarly journals Population structure of albacore (Thunnus alalunga) in the Northwestern Pacific Ocean inferred from mitochondrial DNA

2009 ◽  
Vol 95 (1) ◽  
pp. 125-131 ◽  
Author(s):  
Georgiana Cho-Chen Wu ◽  
Hsin-Chieh Chiang ◽  
Kuo-Shu Chen ◽  
Chien-Chung Hsu ◽  
Hsi-Yuan Yang
Keyword(s):  
Mitochondrial Dna ◽  
Population Structure ◽  
Pacific Ocean ◽  
Northwestern Pacific ◽  
Northwestern Pacific Ocean ◽  
Thunnus Alalunga

Major and trace element compositions and resource potential of ferromanganese crust at Takuyo Daigo Seamount, northwestern Pacific Ocean

2016 ◽  
Vol 50 (6) ◽  
pp. 527-537 ◽  
Author(s):  
Tatsuo Nozaki ◽  
Ayaka Tokumaru ◽  
Yutaro Takaya ◽  
Yasuhiro Kato ◽  
Katsuhiko Suzuki ◽  
...  
Keyword(s):  
Pacific Ocean ◽  
Trace Element ◽  
Ferromanganese Crust ◽  
Northwestern Pacific ◽  
Northwestern Pacific Ocean ◽  
Resource Potential

scholarly journals Characterization of Bacterial Communities in Bioaerosols over Northern Chinese Marginal Seas and the Northwestern Pacific Ocean in Spring

2019 ◽  
Vol 58 (4) ◽  
pp. 903-917 ◽  
Author(s):  
Manman Ma ◽  
Yu Zhen ◽  
Tiezhu Mi
Keyword(s):  
Pacific Ocean ◽  
Yellow Sea ◽  
Bacterial Communities ◽  
Bohai Sea ◽  
The Yellow Sea ◽  
Northwestern Pacific ◽  
Particle Sizes ◽  
Marine Aerosols ◽  
Northwestern Pacific Ocean ◽  
The Bohai Sea

AbstractStudies of the community structures of bacteria in marine aerosols of different particle sizes have not been reported. Aerosol samples were collected using a six-stage bioaerosol sampler over the Bohai Sea, the Yellow Sea, and northwestern Pacific Ocean in the spring of 2014. The diversity and composition of these samples were investigated by Illumina high-throughput sequencing, and 130 genera were detected in all of the samples; the most abundant bacterial genus was Bacteroides, followed by Prevotella and Megamonas. The Chao1 and Shannon diversity indices ranged from 193 to 1044 and from 5.44 to 8.33, respectively. The bacterial community structure in coarse particles (diameter larger than 2.1 μm) was more complex and diverse than that in fine particles (diameter less than 2.1 μm) in marine bioaerosols from over the Yellow Sea and northwestern Pacific Ocean, while the opposite trend was observed for samples collected over the Bohai Sea. Although we were sampling over marine regions, the sources of the bioaerosols were mostly continental. Temperature and wind speed significantly influenced the bacterial communities in marine aerosols of different particle sizes. There may be a bacterial background in the atmosphere in the form of several dominant taxa, and the bacterial communities are likely mixed constantly during transmission.

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