Won Kim's research while affiliated with Seoul National University and other places

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Publications (73)


Occurrence of Alpheid Shrimp, Alpheus compressus (Decapoda: Caridea: Alpheidae) in Korea
  • Article

May 2022

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11 Reads

Animal Systematics Evolution and Diversity

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Won Kim
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FIGURE 1 | Characteristics of the Nymphon striatum genome assembly. (A) The length distributions of the gap-closed scaffolds; (B) ab initio predicted repetitive elements and their subclass distributions; (C) a Venn diagram of the orthologous clusters among five chelicerate species; (D) the phylogenetic relationship of N. striatum with other six ecdysozoan species; Caenorhabditis elegans was selected as an outgroup taxon for the analysis. For each node, its bootstrap support value and the posterior probability are indicated at the base of the node.
The First Pycnogonid Draft Genome of Nymphon striatum
  • Article
  • Full-text available

November 2020

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318 Reads

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3 Citations

Frontiers in Ecology and EvolutionFrontiers in Ecology and Evolution
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Biogeography of intertidal and subtidal native and invasive barnacles in Korea in relation to oceanographic current ecoregions and global climatic changes

November 2020

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83 Reads

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13 Citations

Journal of the Marine Biological Association of the UK

The coastline of the Korean Peninsula is influenced by three major oceanographic ecoregions, including the estuarine Yellow Sea ecoregion on the west coast, the warmer and saline East China Sea ecoregion on the south coast, and the cold East Sea ecoregion on the east coast. The influence of these marine ecoregions on the distribution of intertidal barnacles has not been extensively studied. The present study examines the biogeography of thoracican barnacles from intertidal and shallow subtidal zones, along the coasts of Korea. Twenty-one species in seven families were identified, including three species of coral-associated barnacles. Species composition varied significantly in the three marine ecoregions. Multivariate analysis showed barnacle assemblages were significant among the three ecoregions, although there are large overlaps of clusters between the Yellow Sea and East China Sea ecoregions. The estuarine species, Fistulobalanus albicostatus , occurred mainly in the Yellow Sea ecoregion; warm-water species, Tetraclita japonica , and sponge inhabiting barnacles Euacasta dofleini were observed in the East China Sea ecoregion; and cold-water species, Balanus rostratus and Perforatus perforatus , were found in the East Sea ecoregion. Four invasive barnacle species were recorded and the European barnacle Perforatus perforatus expanded its range northward from its recorded distribution nine years earlier. The cold-water species, Chthamalus dalli and Semibalanus cariosus , previously recorded in the East Sea ecoregion, were absent in the present survey. A trend of increasing seawater temperatures in Korean waters may have a significant impact on the distribution of cold-water species and enhance the northward invasion of P . perforatus .


Fig. 3. Cilunculus armatus (Böhm, 1879), male. A, Trunk, dorsal view; B, Trunk, lateral view; C, Left oviger with compound spine; D, Right leg 3. Scale bars: A-D = 1 mm.
Fig. 4. Cilunculus armatus (Böhm, 1879), male. A, Trunk, dorsal view; B, Trunk, anterior view; C, Chela, anterior view; D, Cement gland on leg 4. Scale bars: A, B = 1 mm, C, D = 0.1 mm.
Re-description of sea spider Cilunculus armatus (Pycnogonida: Ammotheidae) from Korea

October 2020

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135 Reads

Animal Systematics Evolution and Diversity

The sea spider genus Cilunculus Loman, 1908 comprises 33 species having short chelifores, separate lateral processes, and a hood structure on the cephalic segment. A pycnogonid species, Cilunculus armatus (Böhm, 1879), was collected from Baekdo Island and Chujado Island, Korea. This species is characterized by having a hood structure on the cephalic segment, separate lateral processes, a low ocular tubercle without eyes, and 3-segmented chelifores. In the examined material, chela shape, arrangement of compound spines on strigilis, and number of heel spines at propodus were different from the previous literatures. Here, we examined C. armatus collected in Korean waters and provided illustrations and pictures in detail.


The complete mitogenome of the Chionoecetes opilio (Crustacea: Decapoda: Oregoniidae) and its unique characteristics

June 2020

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59 Reads

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5 Citations

The complete mitochondrial genome of Chionoecetes opilio is a 16,067 bp long, circular molecule which contains 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), and 2 ribosomal RNA genes (rRNAs). Its gene contents and organization are generally similar to other majoid mitogenomes. However, the mitogenome shows unique characteristics; long terminal amino acids, loss or addition of 3 PCGs, a 1216 bp long putative D-loop region, and peculiar secondary structures of 5 tRNAs. The concatenated amino acid sequences of 13 PCGs were used to analyze the phylogenetic tree, which well supported the monophyly of brachyuran clades of Majoidea, Heterotremata, Thoracotremata, and Eubrachyura.


Figure 2. Comparison of mesozooplankton biodiversity indices in the Marine and Coastal National Park areas of Korea. Boxplots for the mesozooplankton biodiversity indices were calculated using morphological identification and metabarcoding results according to the sea area and location. Statistical differences in the biodiversity indices according to the sea area were calculated using the Wilcoxon rank sum test. As a post hoc analysis, all p-values were corrected using the Benjamini-Hochberg procedure (** p < 0.01, * p < 0.05, N.S. no significance). In the case of location, the significance of biodiversity indices was calculated using the Kruskal-Wallis test. As a post hoc analysis, pairwise comparisons were conducted using Dunn's test. The results for Dunn's test were marked using the same letter for values that were not significantly different from each other. OTUs are operational taxonomic units.
Figure 4. Constrained analysis of principal coordinates (CAP) plots for mesozooplankton communities identified using the morphological identification and metabarcoding methods. CAP analysis for mesozooplankton communities based on Bray-Curtis dissimilarities according to each category and identification method: (a) sea area and morphological identification, (b) sea area and metabarcoding, (c) location and morphological identification, and (d) location and metabarcoding.
Figure 6. The association between spatial, environmental characteristics and mesozooplankton communities. CAP analysis for zooplankton communities based on Bray-Curtis dissimilarities according to each category and identification method: (a) spatial and environmental variables, and morphological identification; (b) spatial and environmental variables, and metabarcoding. The arrows on the CAP plots in (a) and (b) indicate the patterns in response to the spatial and environmental variables for the zooplankton community clusters. Bar plots between zooplankton community clusters formed using (c) morphological identification and (d) metabarcoding according to spatial and environmental variables in CAP analysis.
Average water temperature, salinity, chlorophyll a concentration, and depth according to the sea area and location in the Marine and Coastal National Park areas of Korea. The average values of the environmental variables according to the sea area are presented as means with standard deviation.
The number of taxa analyzed by morphological identification and metabarcoding with mesozooplankton samples collected in the Marine and Coastal National Park areas of Korea.
Biodiversity and Community Structure of Mesozooplankton in the Marine and Coastal National Park Areas of Korea

June 2020

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249 Reads

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10 Citations

Diversity

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Chang-Rae Lee

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Won Kim

Zooplankton communities are useful bioindicators that can provide information on the changes occurring in marine ecosystems. Therefore, investigation of zooplankton communities in marine and coastal national parks is essential. However, the surveys of zooplankton communities using morphological identification require considerable time and labor. Metabarcoding is a practical alternative that can detect various taxa simultaneously. In this study, metabarcoding was newly applied along with the traditional morphological identification to establish a method for zooplankton community survey in the Marine and Coastal National Park areas of Korea. By comparing the results of these two identification methods, the strengths and limitations of metabarcoding were verified with the zooplankton communities appearing in these areas. The sensitive detection capability of metabarcoding enabled the identification of potential bioindicator taxa associated with external factors (e.g., water temperature, salinity, topography, and chlorophyll a concentration) in these national parks. We propose the use of metabarcoding for efficient surveys of mesozooplankton communities in the Marine and Coastal National Parks to establish monitoring of bioindicator taxa. It is also necessary to continuously search for taxa with high research value in these national parks using metabarcoding. Establishing an ongoing monitoring system that employs this approach can provide an effective tool for managing marine ecosystems in the Marine and Coastal National Parks.


Fig. 1. Sakaija japonica (Rathbun, 1932). Male (cl 25.3 mm, pcl 21.6 mm, cw 17.4 mm) (MABIK CR00247261). A, Habitus, dorsal view; B, cephalothorax, anterior thoracic sternum and abdomen, ventral view.
Fig. 3. Schizophroida simodaensis Sakai, 1933. A-B, Male (cl 22.5 mm, pcl 18.7 mm, cw 13.33 mm) (NIBRIV0000104516); C-D, female (cl 21.2 mm, pcl 17.1 mm, cw 11.65 mm) (MABIK CR00247265). A, C, Habitus, dorsal view; B, D, habitus, ventral view.
New records of two spider crabs (Decapoda, Brachyura, Majidae) from Korea

March 2020

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127 Reads

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2 Citations

Crustaceana

Two species of the family Majidae, Sakaija japonica (Rathbun, 1932) and Schizophroida simodaensis Sakai, 1933, are herein newly reported from Korean waters. These are also the first records of Sakaija Ng & Richer de Forges, 2015 and Schizophroida Griffin & Tranter, 1986 in Korea. There are currently 14 majoid species from nine genera in Korea. Herein, diagnoses of Sakaija japonica and Schizophroida simodaensis are provided together with illustrations.


New species of Pycnogonum (Pycnogonida: Pycnogonidae) from Green Island, Taiwan, with an additional note on the holotype of P. spatium

March 2020

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51 Reads

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5 Citations

Zootaxa

We report the discovery of a new species of the genus Pycnogonum Brünnich, 1764 found in the shallow waters of Green Island, Taiwan. Pycnogonum (Nulloviger) granulatum sp. nov. is characterized by the presence of the granular integument, a dorsal tubercle on the proboscis, the transverse ridges on the dorsal surface of the trunk, and the spines on the ventral surface of the tibia, tarsus, and propodus having cleft tips. Because the male gonopores are present and ovigers are absent, the present species belongs to the subgenus Nulloviger. The present species has been compared with P. (N.) moolenbeeki Stock, 1992, P. (N.) lobipes Stock, 1991, P. (N.) tuberculatum Clark, 1963, P. nodulosum Döhrn, 1881, and P. spatium Takahashi, Dick & Mawatari, 2007. Among the congeners, P. spatium is geographically the closest congener, of which type locality is Amami Island, Japan. The holotype of P. spatium was loaned from Hokkaido University Museum (ICHUM) and re–examined. To determine the exact gender of the holotype of P. spatium, additional investigations of the coxal pellicula and gonopores are required.


Assessing Cryptic Invasion State: Fine-Scale Genetic Analysis of Ciona savignyi Population in Putative Native Habitat of the Korean Coast

December 2019

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47 Reads

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3 Citations

Ocean Science Journal

The solitary ascidian, Ciona savignyi (Ascidiacea, Enterogona) is a notorious marine invader still expanding its habitat range worldwide. This species is considered native to the North West Pacific, but its indigeneity in Korean coastal waters has been questioned because of outdated taxonomic records and its inhabitation of oceanographically marginal areas. To clarify their cryptic invasion state, 247 individual C. savignyi samples were collected from 12 harbors and marinas on the Korean coast, and a 744 bp region of mitochondrial DNA (mtDNA) cytochrome c oxidase subunit I gene was sequenced and analyzed. Our analyses of population genetic structure and demographic history provided considerable pieces of evidence supporting their long-term establishment on the Korean coasts: differentiated population genetic structure, sequentially arrayed star-shape haplotype network, neutrality test results of past population expansions, and post-glacial colonization pattern of demography. Consequently, we concluded that C. savignyi populations on the Korean Coast are indigenous rather than exotic. These results could be used as reference data for further phylogeographic and demographic studies of problematic Ciona species, and to clarify and resolve similar cryptic invasion states of the other Korean coastal marine organisms. This study is the first to resolve the cryptic invasion state of Korean marine organisms using genetic analysis.



Citations (56)


... To fill the gap in our knowledge, an extensive examination of three host taxa-Gebiidea, Anomura, and Brachyura-sampled from 28 locations representing three marine ecoregions of (Kim et al., 2020;2022) was performed, building upon previous work of Jung et al. (2019;2021) 1 . Due to the highly degenerated morphological features of rhizocephalan species (Høeg, 1992;Høeg & Lützen, 1995;Øksnebjerg, 2000) that often make species identification very challenging, the author also determined mtDNA cox1 sequences as molecular evidence of their correct identification. ...

Reference:

The host range and distribution pattern of rhizocephalan parasitic barnacles in Korean coasts and their relationship with geographical factors
Biogeography of intertidal and subtidal native and invasive barnacles in Korea in relation to oceanographic current ecoregions and global climatic changes
  • Citing Article
  • November 2020

Journal of the Marine Biological Association of the UK

... Sin embargo, aún existen en discusión algunos grupos internos que no han podido ser clasificados solo por su morfología, a pesar de ser la base para su determinación. Actualmente, se están aplicando herramientas moleculares que ayudan al esclarecimiento de la clasificación (Arango 2002(Arango , 2003aBrenneis et al. 2020;Jeong et al. 2020). ...

The First Pycnogonid Draft Genome of Nymphon striatum

... The overall base composition was 34.61% A, 17.40% C, 10.99% G, and 37.00% T, indicating a strong AT bias, as in other Crustacea An et al. 2021). In addition, the size, composition, and gene arrangement of the complete mitochondrial genome were very similar to that reported for the maternal species, C. opilio (Jeong et al. 2020). ...

The complete mitogenome of the Chionoecetes opilio (Crustacea: Decapoda: Oregoniidae) and its unique characteristics

... Additionally, exploring the deep ocean has added challenges related to sampling at high depths. To date, most studies on mesozooplankton have been carried out at local (Domínguez et al., 2017;Ershova & Kosobokova, 2019;Kim et al., 2020;Pearman & Irigoien, 2015) or regional (Carlotti et al., 2018;Cheng et al., 2022;Feliú et al., studies covered large oceanic transects (Bode et al., 2018;Hirai et al., 2020;Vereshchaka et al., 2017) or global oceanic areas (Fernández de Puelles et al., 2019;Soviadan et al., 2022). Another limitation lies in the taxonomic identification of mesozooplankton being a time-consuming task that greatly depends on often lacking taxonomic expertise and information of the targeted organisms (Hirai & Tsuda, 2015). ...

Biodiversity and Community Structure of Mesozooplankton in the Marine and Coastal National Park Areas of Korea

Diversity

... In the form of the postorbital and hepatic teeth and structure of the G1, S. amicitiae n. sp. closely resembles S. japonica from Japan, Korea and Taiwan (Ng & Richer de Forges, 2015;Lee et al., 2020). Sakaija amicitiae, however, can easily be separated from S. japonica by its ambulatory legs being proportionately much longer (Fig. 2) Sakaija amicitiae also closely resembles S. santo, which occurs in the nearby Vanuatu Islands and has been reported from New Caledonia. ...

New records of two spider crabs (Decapoda, Brachyura, Majidae) from Korea

Crustaceana

... The subgeneric status of three species, P. cataphractum, P. portus, and P. spatium, has not been mentioned. However, there are records that specimens carrying eggs or male gonopores were found without ovigers (Möbius 1902;Barnard 1946;Arnaud and Child 1988;Takahashi et al. 2007;Lee and Kim 2020;Miyazaki 2022). Therefore, these species need to be considered as belonging to the subgenus Nulloviger. ...

New species of Pycnogonum (Pycnogonida: Pycnogonidae) from Green Island, Taiwan, with an additional note on the holotype of P. spatium
  • Citing Article
  • March 2020

Zootaxa

... Nevertheless, the distribution and host relationships of rhizocephalans are largely unknown. Recently, a few studies have contributed to elucidating the distribution and host range of Rhizocephala in Japan and Korea (Yoshida et al., 2014;Jung et al., 2019Jung et al., , 2021. However, these studies, while pioneering, were constrained by their limited examination of specific areas or a few of the host taxa. ...

Diversity of Parasitic Peltogastrid Barnacles (Crustacea: Cirripedia: Rhizocephala) on Hermit Crabs in Korea

Zoological Studies

... In the metabarcoding results of this study, 10 cryptic ascidian species that were not observed in visual surveys were detected. Only two species of Cionidae (Ciona robusta and Ciona savigny) have been reported in South Korea (Lee and Shin, 2014;Park et al., 2018;Yi and Kim, 2020;MABIK, 2021), and four additional cryptic species have been detected with metabarcoding. These four species are presumed to be closely related to the genus Ciona and are considered cryptic. ...

Assessing Cryptic Invasion State: Fine-Scale Genetic Analysis of Ciona savignyi Population in Putative Native Habitat of the Korean Coast
  • Citing Article
  • December 2019

Ocean Science Journal

... Amphibalanus amphitrite (Kim et al., 2019) and Pollicipes (Bernot et al. in Bernot et al., 2022). Other annotated LCPs include larval cement ...

Draft Genome Assembly of a Fouling Barnacle, Amphibalanus amphitrite (Darwin, 1854): The First Reference Genome for Thecostraca

... Studies have shown that hemoglobin is produced in epipodite adipocyte tissues 45 and subsequently transferred via lipid droplets into developing oocytes inside the ovary in the final stages prior to oviposition. 53 Recently, maternal transfer of Ag + and Ag NP was documented via these lipid droplets, 54 and it is conceivable that maternal transfer of U may be facilitated by a similar process; however, further work is needed to investigate these mechanisms. ...

Live observation of the oviposition process in Daphnia magna