• ALGAE
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• v.35 no.3
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• pp.293-301
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• 2020

The applications of DNA barcoding have a wide range of uses, such as in taxonomic studies to help elucidate cryptic species and phylogenetic relationships and analyzing environmental samples for biodiversity monitoring and conservation assessments of species. After obtaining the DNA barcode sequences, sequence similarity-based homology analysis is commonly used. This means that the obtained barcode sequences are compared to the DNA barcode reference databases. This bioinformatic analysis necessarily implies that the overall quantity and quality of the reference databases must be stringently monitored to not have an adverse impact on the accuracy of species identification. With the development of next-generation sequencing techniques, a noticeably large number of DNA barcode sequences have been produced and are stored in online databases, but their degree of validity, accuracy, and reliability have not been extensively investigated. In this study, we investigated the extent to which the amount and types of erroneous barcode sequences were deposited in publicly accessible databases. Over 4.1 million sequences were investigated in three largescale DNA barcode databases (NCBI GenBank, Barcode of Life Data System [BOLD], and Protist Ribosomal Reference database [PR2]) for four major DNA barcodes (cytochrome c oxidase subunit 1 [COI], internal transcribed spacer [ITS], ribulose bisphosphate carboxylase large chain [rbcL], and 18S ribosomal RNA [18S rRNA]); approximately 2% of erroneous barcode sequences were found and their taxonomic distributions were uneven. Consequently, our present findings provide compelling evidence of data quality problems along with insufficient and unreliable annotation of taxonomic data in DNA barcode databases. Therefore, we suggest that if ambiguous taxa are presented during barcoding analysis, further validation with other DNA barcode loci or morphological characters should be mandated.

• ALGAE
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• v.25 no.3
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• pp.133-140
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• 2010

Using chlorophyll fluorescence, the vertical migration of benthic diatoms responding to light intensity and affected by sediment grain size was studied. Minimal fluorescence ($F_o$) of surface sediment was measured by imaging pulse amplitude modulated (Imaging-PAM) fluorometer, and used to monitor diatom biomass variation in surface sediments. The test diatoms, Amphora coffeaeformis (C. Agardh) K$\ddot{u}$tzing and Cylindrotheca closterium (Ehrenberg) Reimann & Lewin, migrated to the sediment surface under irradiance from 50 to 500 ${\mu}mol$ photons $m^{-2}s^{-1}$. However, the diatoms exhibited no evident increase of surface biomass under dark conditions, and even showed slightly decrease of surface biomass under irradiances over 1,000 ${\mu}mol$ photons $m^{-2}s^{-1}$. The light intensity inducing the maximum surface migration of A. coffeaeformis was 100 ${\mu}mol$ photons $m^{-2}s^{-1}$, while the light intensity producing the same effect for C. closterium was 250 ${\mu}mol$ photons $m^{-2}s^{-1}$. C. closterium showed higher motility than A. coffeaeformis. Faster diatom surfacing was observed in larger grain size sediments (125-335 ${\mu}m$) than smaller ones (63-125 ${\mu}m$). This study confirmed the significant influence of light as a main triggering factor behind migration, indicated the distinct effect of different sediment grain size, and highlighted the species-specific migratory ability.

• Ocean and Polar Research
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• v.35 no.4
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• pp.395-405
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• 2013

The aim of this study is to suggest an optimal survey method for coastal habitat monitoring around Weno Island in Chuuk Atoll, Federated States of Micronesia (FSM). This study was carried out to compare and analyze differences between in situ survey (PHOTS) and high spatial satellite imagery (Worldview-2) with regard to the coastal habitat distribution patterns of Weno Island. The in situ field data showed the following coverage of habitat types: sand 42.4%, seagrass 26.1%, algae 14.9%, rubble 8.9%, hard coral 3.5%, soft coral 2.6%, dead coral 1.5%, others 0.1%. The satellite imagery showed the following coverage of habitat types: sand 26.5%, seagrass 23.3%, sand + seagrass 12.3%, coral 18.1%, rubble 19.0%, rock 0.8% (Accuracy 65.2%). According to the visual interpretation of the habitat map by in situ survey, seagrass, sand, coral and rubble distribution were misaligned compared with the satellite imagery. While, the satellite imagery appear to be a plausible results to identify habitat types, it could not classify habitat types under one pixel in images, which in turn overestimated coral and rubble coverage, underestimated algae and sand. The differences appear to arise primarily because of habitat classification scheme, sampling scale and remote sensing reflectance. The implication of these results is that satellite imagery analysis needs to incorporate in situ survey data to accurately identify habitat. We suggest that satellite imagery must correspond with in situ survey in habitat classification and sampling scale. Subsequently habitat sub-segmentation based on the in situ survey data should be applied to satellite imagery.

• Journal of Ecology and Environment
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• v.43 no.1
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• pp.22-30
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• 2019

Background: Piton du Milieu (PdM) impounding reservoir is suspected to be eutrophic based on the elevated level of orthophosphate and nitrate. Water supplies from three adjacent rivers are primarily thought to contribute to the nutrient enrichment of the reservoir. It is also suspected that there is leaching of orthophosphate, nitrate and organic matter into the rivers during rainfall events and also as a result of anthropogenic activities within the catchment area. The aim of this study was to ascertain the impact of nutrient loading on the water quality of PdM water and on the population of freshwater microalgae in the reservoir. The enumeration and identification of algae from PdM were performed by differential interference contrast microscopy. Dissolved oxygen (DO) and pH were determined by electrometric methods, whereas nutrient levels, silica and total organic carbon (TOC) were determined by instrumentation techniques. Results: Annual mean orthophosphate, nitrate and total organic carbon input from the three feeders within the catchment area of PdM reached levels as high as 0.09 mg/L, 0.4 mg/L and 2.62 ppm respectively. Over a 12-month period, mean TOC concentration in the reservoir was 2.32 ppm while the mean algal cell count was 4601 cells/mL. The dominant algal species identified were Oscillatoria, Cyclotella, Navicula and Cosmarium. Conclusion: This study highlights the trophic state of the reservoir water and clearly points to the need for constant monitoring in order to avoid the occurrence of an impending harmful algal bloom.

• ALGAE
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• v.35 no.4
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• pp.361-373
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• 2020

The community dynamics of benthic diatoms in the hypersaline environment are investigated to advance our understanding how salinity impacts marine life. Diatoms were sampled in the two salterns encompassing salt Ponds, ditches, and seawater reservoirs (n = 11), along the salinity gradient (max = 324 psu), and nearby tidal flats (n = 2). The floral assemblages and distributions across sites and stations showed great variations, with a total of 169 identified taxa. First, not surprisingly, higher diversity of benthic diatoms was found at natural tidal flats than salterns. The saltern diatoms generally showed salinity dependent distributions with distinct spatial changes in species composition and dominant taxa. Biota-environment and principal component analysis confirmed that salinity, mud content, and total nitrogen were key factors influencing the overall benthic community structure. Some dominant species, e.g., Nitzschia scalpelliformis and Achnanthes sp. 1, showed salinity tolerance / preference. The number of diatom species at salinity of >100 psu reduced over half and no diatoms were found at maximum salinity of 324 psu. The highest salinity for the observed live diatoms was 205 psu, however, a simple regression indicated a theoretical salinity threshold of ~300 psu on the survival. Finally, the indicator species were identified along the salinity gradient in salterns as well as natural tidal flats. Overall, high species numbers, varying taxa, and euryhaline distributions of saltern diatoms collectively reflected a dynamic saltern ecosystem. The present study would provide backgrounds for biodiversity monitoring of ecologically important microalgal producers in some unique hypersaline environment, and elsewhere.

• ALGAE
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• v.37 no.2
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• pp.105-121
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• 2022

Modern seaweed farming relies heavily on seedlings from natural beds or vegetative cuttings from previous harvests. However, this farming method has some disadvantages, such as physiological variation in the seed stock and decreased genetic variability, which reduces the growth rate, carrageenan yield, and gel strength of the seaweeds. A new method of seedling production that is sustainable, scalable, and produces a large number of high-quality plantlets is needed to support the seaweed farming industry. Recent use of tissue culture and micropropagation techniques in eucheumatoid seaweed production has yielded promising results in increasing seed supply and growing uniform seedlings in large numbers in a shorter time. Several seaweed species have been successfully cultured and regenerated into new plantlets in laboratories using direct regeneration, callus culture, and protoplast culture. The use of biostimulants and plant growth regulators in culture media increases the seedling quality even further. Seedlings produced by micropropagation grew faster and had better biochemical properties than conventionally cultivated seedlings. Before being transferred to a land-based grow-out system or ocean nets for farming, tissue-cultured seedlings were recommended to undergo an acclimatization process to increase their survival rate. Regular monitoring is needed to prevent disease and pest infestations and grazing by herbivorous fish and turtles during the farming process. The current review discusses recent techniques for producing eucheumatoid and other valuable seaweed farming materials, emphasizing the efficiency of micropropagation and the transition from laboratory culture to cultivation in land-based or open-sea grow-out systems to elucidate optimal conditions for sustainable seaweed production.

• Fisheries and Aquatic Sciences
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• v.26 no.4
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• pp.268-281
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• 2023

Coral reef fisheries are prominent for the archipelagic countries' food sufficiency and security. Studies showed that fish abundance and biomass are affected by biophysical variables. The present study determines which biophysical variables are important predictors of fish diversity, abundance, and biomass. The study used available monitoring data from the Indonesian Research Center for Oceanography, the National Board for Research and Innovation. Data were collected from 245 transects in 19 locations distributed across the Indonesian Archipelago, including the eastern Indian Ocean, Sunda Shelf (Karimata Sea), Wallacea (Flores and Banda Seas), and the western Pacific Ocean. Principal component analysis and multiple regression model were administered to 13 biophysical metrics against 11 variables of coral reef fishes, i.e., diversity, abundance, and biomass of coral reef fishes at three trophic levels. The results showed for the first time that the covers of other fauna, coral rubbles, and soft corals were the three most important predictor variables for nearly all coral reef fish variables. Other fauna cover was the important predictor for all 11 coral reef fish variables. Coral rubble cover was the predictor for ten variables, but carnivore fish abundance. Soft coral cover was a good predictor for corallivore, carnivore, and targeted fishes. Despite important predictors for corallivore and carnivore fish variables, hard coral cover was not the critical predictor for herbivore fish variables. The other important predictor variables with a consistent pattern were dead coral covered with algae and rocks. Dead coral covered with algae was an important predictor for herbivore fishes, while the rock was good for only carnivore fishes.

• Journal of Environmental Impact Assessment
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• v.27 no.6
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• pp.674-684
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• 2018

The purpose of this study is to construct ecological pond using LID technique in order to create naturally comfortable community space in urban idle space. The specification of the ecological pond is $110m^2$ of surface area, $0.45{\pm}0.02m$ of average depth, and bed material is composed of gravel (diameter ${\leq}60mm$), sand (diameter ${\leq}2mm$) and bentonite. Rainfall and water depth monitoring were conducted to determine the annual characteristics of inflow of the water for the ecological pond, result of total rainfall was 1,287 mm and showed a seasonal imbalance that accounted for 71.3% (918 mm) during July to August, but the annual mean water depth was kept constant at $0.45{\pm}0.02m$ due to the secondary water source. Annual trends of basic water quality showed a significant changes according to the season, such as water temperature ($5.2{\sim}28.8^{\circ}C$), DO (5.0 ~ 13.8 mg/L), EC ($113{\sim}265{\mu}S/cm$). BOD, COD, TN, and TP in physicochemical water quality tended to increase after October, but the ion parameters such as $NH_3$ and $PO_4{^{3-}}$ were generally low. Phytoplankton indicators Chl-a and BGA (blue green algae) showed a sharp increase from July to August, and green algae (Selenastrum bibraianum, Pediastrum boryanum etc.) and filamentous blue green algae (Phormidium sp.) emerged as a dominant species. The ion parameters ($F^-$, $Na^+$, $K^+$, $Mg^{2+}$, $Ca^{2+}$) were strongly correlated with the $Cl^-$ as a conservative substance (R=0.70~0.97, p<0.05). Water quality was influenced by the ambient environment such as seasonal changes or rainfall, and it was closely related to fluctuation of the inflow of the water. In the future, it is necessary to consider ecological connections by referring to the characteristics surveyed in this study in order to effectively manage the water quality and biodiversity of the ecological pond in idle space.

• Korean Journal of Remote Sensing
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• v.39 no.6_2
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• pp.1615-1633
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• 2023

Sargassum horneri is one of the floating algae in the sea, which breeds in large quantities in the Yellow Sea and East China Sea and then flows into the coast of Republic of Korea, causing various problems such as destroying the environment and damaging fish farms. In order to effectively prevent damage and preserve the coastal environment, the development of Sargassum horneri detection algorithms using satellite-based remote sensing technology has been actively developed. However, incorrect detection information causes an increase in the moving distance of ships collecting Sargassum horneri and confusion in the response of related local governments or institutions,so it is very important to minimize false detections when producing Sargassum horneri spatial information. This study applied technology to automatically remove false detection results using the GOCI-II-based Sargassum horneri detection algorithm of the National Ocean Satellite Center (NOSC) of the Korea Hydrographic and Oceanography Agency (KHOA). Based on the results of analyzing the causes of major false detection results, it includes a process of removing linear and sporadic false detections and green algae that occurs in large quantities along the coast of China in spring and summer by considering them as false detections. The technology to automatically remove false detection was applied to the dates when Sargassum horneri occurred from February 24 to June 25, 2022. Visual assessment results were generated using mid-resolution satellite images, qualitative and quantitative evaluations were performed. Linear false detection results were completely removed, and most of the sporadic and green algae false detection results that affected the distribution were removed. Even after the automatic false detection removal process, it was possible to confirm the distribution area of Sargassum horneri compared to the visual assessment results, and the accuracy and precision calculated using the binary classification model averaged 97.73% and 95.4%, respectively. Recall value was very low at 29.03%, which is presumed to be due to the effect of Sargassum horneri movement due to the observation time discrepancy between GOCI-II and mid-resolution satellite images, differences in spatial resolution, location deviation by orthocorrection, and cloud masking. The results of this study's removal of false detections of Sargassum horneri can determine the spatial distribution status in near real-time, but there are limitations in accurately estimating biomass. Therefore, continuous research on upgrading the Sargassum horneri monitoring system must be conducted to use it as data for establishing future Sargassum horneri response plans.

• Journal of Korean Society of Environmental Engineers
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• v.35 no.12
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• pp.943-952
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• 2013

Algae blooms have soared recently in the lakes across the nation due to eutrophication. Blue-green algae cause unpleasant scene, produce taste and odor problem, and hinder processes in drinking water treatment. Algae toxicity monitoring has been strengthened, because the damages of wild lives and livestocks by algal toxins have been reported. Investigation on the characteristics of cyanobacterial occurrence and concentration distribution of Cyanotoxins in Hoeya reservoir have been conducted. Physical and chemical influences of water environment on cyanobacterial occurrences have also been studied. Movements of four species of Microcystin and five species of Anatoxin-a among Cyanotoxins were observed by LC-MS/MS analysis. Microcystis spp. among the cyanobacteria have mainly dominated in the Hoeya reservoir during the investigating period. The density of cyanobacteria were positively correlated with temperature and pH of water. Highest concentrations of Microcystin-LR and Microcystin-RR were $0.424{\mu}g/L$ and $0.117{\mu}g/L$ at the sampling points. Total concentration of Cyanotoxins in water coming into the water treatment plant was $0.182{\mu}g/L$, and they were not detected in treated water.