Korean Ocean Research and Development Institute

About: Korean Ocean Research and Development Institute is a facility organization based out in Busan, South Korea. It is known for research contribution in the topics: Sea surface temperature & Gene. The organization has 1770 authors who have published 3032 publications receiving 50142 citations.

Symbiodinium spp. associated with high-latitude scleractinian corals from Jeju Island, South Korea

Abstract: Most studies on endosymbiotic dinoflagellate algae (genus Symbiodinium) associated with scleractinian corals focus on tropical and sub-tropical reefs. Their diversity in outlying, non-reef coral communities at high latitudes is still not fully documented. In this study, we analyzed the Symbiodinium diversity associated with five scleractinian species collected at eight sites around Jeju Island (South Korea, 33.4°N) between 5 and 15 m depth. Denaturing gradient gel electrophoresis of amplified internal transcribed spacer region 2 distinguished five Symbiodinium types. We observed a high level of specificity between host genera and Symbiodinium spp. despite existing in an environment with large seasonal oscillations in temperature and light. Psammocora albopicta and Psammocora profundacella were associated with C1 and Montipora millepora with C17. Alveopora japonica was associated exclusively with an unusual F-type, the only known clade F representative functionally important to a scleractinian coral. Oulastrea crispata was associated with Symbiodinium boreum (type D15), occasionally co-occurring with type C3 (in 4 % of specimens). In addition to increasing the knowledge of Symbiodinium diversity in high-latitude coral communities, this study constitutes an important baseline upon which the effects of projected environmental change in the near future can be assessed. A better understanding of high-latitude coral communities is critical for understanding how a warming planet will affect the tempo and mode of shifts in the composition of temperate marine communities.

Screening of a novel strong promoter by RNA sequencing and its application to H2 production in a hyperthermophilic archaeon.

Abstract: A strong promoter increases transcription of the genes of interest and enhances the production of various valuable substances. For a hyperthermophilic archaeon Thermococcus onnurineus NA1, which can produce H2 from carbon monoxide oxidation, we searched for a novel endogenous strong promoter by transcriptome analysis using high-throughput RNA sequencing. Based on the relative transcript abundance, we selected one promoter to encode a hypothetical gene, of which homologs were found only in several Thermococcales strains. This promoter, P TN0510 , was introduced into the front of CO-responsible hydrogenase gene cluster encoding a carbon monoxide dehydrogenase (CODH), a hydrogenase, and a Na+/H+ antiporter. In the resulting mutant strain, KS0510, transcription and translation level of the gene cluster increased by 4- to 14-folds and 1.5- to 1.9-folds, respectively, in comparison with those of the wild-type strain. Additionally, H2 production rate of KS0510 mutant was 4.8-fold higher than that of the wild-type strain. The P TN0510 was identified to be much stronger than the well-known two strong promoters, gdh and slp promoters from Thermococcus strains, through RT-qPCR and Western blotting analyses and kinetics of H2 production. In this study, we demonstrated that the RNA-seq approach is a good strategy to mine novel strong promoters of use to a Thermococcus strain when developed as a biotechnologically promising strain to produce valuable products such as enzymes and metabolites through metabolic engineering.

Complete genome sequence of Novosphingobium pentaromativorans US6-1T

Abstract: Novosphingobium pentaromativorans US6-1T is a species in the family Sphingomonadaceae. According to the phylogenetic analysis based on 16S rRNA gene sequence of the N. pentaromativorans US6-1T and nine genome-sequenced strains in the genus Novosphingobium, the similarity ranged from 93.9 to 99.9 % and the highest similarity was found with Novosphingobium sp. PP1Y (99.9 %), whereas the ANI value based on genomes ranged from 70.9 to 93 % and the highest value was 93 %. This microorganism was isolated from muddy coastal bay sediments where the environment is heavily polluted by polycyclic aromatic hydrocarbons (PAHs). It was previously shown to be capable of degrading multiple PAHs, including benzo[a]pyrene. To further understand the PAH biodegradation pathways the previous draft genome of this microorganism was revised to obtain a complete genome using Illumina MiSeq and PacBio platform. The genome of strain US6-1T consists of 5,457,578 bp, which includes the 3,979,506 bp chromosome and five megaplasmids. It comprises 5110 protein-coding genes and 82 RNA genes. Here, we provide an analysis of the complete genome sequence which enables the identification of new characteristics of this strain.

Acute Toxicity and Sublethal Effects of Nitrite on Selected Hematological Parameters and Tissues in Dark-banded Rockfish, Sebastes inermis

Abstract: Acute toxicity and sublethal effects of nitrite in dark-banded rockfish, Sebastes inermis (83.3 ± 7.2 g), were studied under static conditions for a period of 96 h. The acute toxicity of nitrite evaluated for the 96-h lethal concentration (LC50) was 700 mg/L. The sublethal effects on selected hematological parameters of S. inermis, such as total erythrocyte count (TEC), hemoglobin, plasma glucose, and serum protein content, were measured after 0, 6, 12, 24, 48, 72, and 96 h of exposure to 0, 50, 100, 200, 400, and 700 mg/L of nitrite. Sublethal nitrite caused progressive reduction in the TEC, hemoglobin, and serum protein content in fish depending on the nitrite concentration and exposure period. The 96-h exposure resulted in a 14–42% reduction in TEC and 25–33% reduction in hemoglobin content for 100–700 mg/L of nitrite compared to the control. A dose-related reduction in plasma glucose (25.7–34.2%) was observed for concentrations of 200–700 mg/L of nitrite during 48 h of exposure, followed by an increase through 96 h. A significant reduction in serum protein (7.3–12.6%) was observed for 200–700 mg/L of nitrite after 96 h of exposure. Abnormal histological changes in skin, gill, liver, and kidney tissue were observed in fish exposed to 700 mg/L of nitrite after 96 h of exposure compared to the control. Although no mortality of S. inermis occurred at 500 mg/L of nitrite, all hematological parameters adversely responded to a nitrite dose of 200 mg/L for 96 h. These results showed that although acute toxicity concentration of nitrite in S. inermis is higher than 700 mg/L, sublethal concentrations of nitrite also negatively affect hematological parameters.