• Fisheries and Aquatic Sciences
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• v.22 no.8
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• pp.17.1-17.9
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• 2019

Bacillus is a diverse genus consisting of more than 200 species with extensive genetic diversity. Their beneficial effects in industrial shrimp farming have been well documented. However, little is known about the biodiversity of the Bacillus spp. in this aquaculture system. Taxonomic analysis by 16S rRNA sequencing does not always allow species-level identification of Bacillus spp. In this study, 26 Bacillus isolates from two industrial Litopenaeus vannamei shrimp ponds in Bac Lieu Province, Vietnam, were analyzed for their genetic diversity by multi-locus sequence typing (MLST). A total of 22 sequence types were identified and segregated into four distinct clusters, corresponding to B. subtilis, B. velezensis, B. siamensis, and B. licheniformis. Bacillus subtilis and B. velezensis accounted for more than 73% of the Bacillus isolates. Notably, the MLST scheme exhibited high discriminatory power and might be further simplified to be a convenient method to identify species of the genus Bacillus.

• Journal of Species Research
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• v.11 no.3
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• pp.169-173
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• 2022

Three species belonging to the genus Trapania Pruvot-Fol, 1931 are redescribed from Korea in this paper: Trapania euryeia Gosliner & Fahey, 2008, T. japonica (Baba, 1935), and T. toddi Rudman, 1987. Among these species, T. japonica is newly added to Korean fauna. The genus Trapania is characterized by a pair of extra-rhinophoral appendages on each side of the head, tentacular foot corners, a pair of extra-branchial appendages present around the gill, radula formula N×1.0.1. and consists of denticulated teeth, triaulic reproductive system, and minute spines on the armed penis. Herein, synonyms of the genus Trapania are summarized through a detailed literature review and the diagnostic characters of the genus Trapania are provided. Three species of the genus Trapania from Korea are distinguished from each other based on the color of extra-rhinoporal appendages and extra-branchial appendages, ground color, and distribution range of the brown markings on the dorsal surface. A taxonomic key to the genus Trapania in Korea is provided. In addition, the morphological characteristics of three trapanian nudibranchs in Korea are described and detailed photos of living animal are provided.

• Korean Journal of Plant Taxonomy
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• v.52 no.3
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• pp.127-143
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• 2022

This study was conducted to clarify the phylogenetic position and relationships of Korean Poaceae taxa. A total of 438 taxa including 155 accessions of Korean Poaceae (representing 92% and 72% of Korean Poaceous genera and species, respectively) were employed for phylogeny reconstruction. Sequence data of eight chloroplast DNA markers were used for molecular phylogenetic analyses. The resulted phylogeny was mostly concordant with previous phylogenetic hypotheses, especially in terms of subfamilial and tribal relationships. Several taxa-specific indels were detected in the molecular phylogeny, including a 45 bp deletion in rps3 (PACMAD [Panicoideae, Arundinoideae, Chloridoideae, Micrairoideae, Aristidoideae, Danthonioideae] clade), a 15 bp deletion in ndhF (Oryzeae + Phyllorachideae), a 6 bp deletion in trnLF (Poeae s.l.), and two (17 bp and 378 bp) deletions in atpF-H (Pooideae). The Korean Poaceae members were classified into 23 tribes, representing eight subfamilies. The subfamilial and tribal classifications of the Korean taxa were generally congruent with a recently published system, whereas some subtribes and genera were found to be non-monophyletic. The taxa included in the PACMAD clade (especially Andropogoneae) showed very weak and uncertain phylogenetic relationships, presumably to be due to evolutionary radiation and polyploidization. The reconstructed phylogeny can be utilized to update the taxonomic positions of the newly examined grass accessions.

• Journal of KIISE:Computing Practices and Letters
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• v.16 no.2
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• pp.163-176
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• 2010

The representative method to efficiently manage the organization's data is to avoid data duplication through the promotion of sharing and reusing existing data. The systematic structuring of existing data and efficient searching should be supported in order to promote the sharing and reusing of data. Without regard for these points, the data for the system development would be duplicated, which would deteriorate the quality of the data. Data taxonomy provides some methods that can enable the needed data elements to be searched quickly with a systematic order of managing data. This paper proposes that the Origin data taxonomy method can best maximize data sharing, reusing, and consolidation, and it can be used for Meta Data Registry (MDR) and Semantic Web efficiently. The Origin data taxonomy method constructs the data taxonomy structure built upon the intrinsic nature of data, so it can classify the data with independence from business classification. Also, it shows a deployment method for data elements used in various areas according to the Origin data taxonomy structure with a data taxonomic procedure that supports the proposed taxonomy. Based on this case study, the proposed data taxonomy and taxonomic procedure can be applied to real world data efficiently.

• Journal of Animal Science and Technology
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• v.65 no.6
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• pp.1226-1241
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• 2023

Selenium (Se) is an essential trace mineral that plays an important role in physiological processes by regulating the antioxidant defense system and enhancing immunity. Chromium is an essential mineral involved in carbohydrate and lipid metabolism and also plays a role in maintaining normal insulin function. Based on these advantages, we hypothesized that the addition of selenomethionine (SeMet) and organic chromium (OC) to broiler diets would increase Se deposition, antioxidant capacity and immune response in meat. Therefore, this study analyzed the effects of OC and SeMet on growh performance, nutrients digestibility, blood profiles, intestinal morphology, meat quality characteristics, and taxonomic analysis of broilers. A total of 168 one-day-old broiler chicken (Arbor Acres) were randomly allotted to 3 groups based on the initial body weight of 37.33 ± 0.24 g with 7 replicate per 8 birds (mixed sex). The experiments period was 28 days. Dietary treatments were folloewd: Basal diets based on corn-soybean meal (CON), basal diet supplemented with 0.2 ppm OC and 0.2 ppm SeMet (CS4), and basal diet supplemented with 0.4 ppm OC and 0.4 ppm SeMet (CS8). Supplementation of OC and SeMet did not affect on growth performance, nutrient digestibility. However, CS8 supplementation increased in duodenum villus height and villus height : crypt depth, and increased in breast meat Se deposition. In addition, CS8 group showed higher uric acid and total antioxidant status than CON group. Taxonomic analysis at phylum level revealed that Proteobacteria and Firmicutes of CS4 and CS8 were lower than CON group. In genus level, the relative abundance of fecal Lactobacillus and Enterococcus of CS4 and CS8 groups were higher than CON group. In short, 0.4 ppm OC and 0.4 ppm SeMet supplementation to broiler diet supporitng positive gut microbiome change, also enhancing antioxidant capacity, and Se deposition in breast meat.

• Journal of Wetlands Research
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• v.14 no.3
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• pp.419-428
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• 2012

Taxonomic identification of phytoplankton has been a difficult task, even for the experienced taxonomist. Many non-descript, yet abundant, phytoplanktons do exist without distinguishing features which cause difficulties in morphological identification. Using PCR(polymerase chain reaction)-DGGE(denaturing gradient gel electrophoresis)method, which is known to be a powerfulfingerprinting technique to analyze diversity and dynamics of microbial populations, this study aimed to find the way to overcome the limitation of morphological identification. As a result, a total of 46 bands from samples in five lakes were detected in September and 27 bands in November. Fingerprinting results showed convenient and comparative analyses among each sampling site. In this study, PCR-DGGE method was used to figure out diversity and dynamics of plankton community in the lakes of North-Han River system. Also, the possibility of DGGE technique as an identification tool for phytoplankton was estimated.

• Journal of the Korean earth science society
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• v.26 no.7
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• pp.640-651
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• 2005

This study was to analyze the subject objectives of Middle school 7th grade Science textbooks based on the Korean 7th curriculum by using Klopfer’s taxonomic system and find out how much compatible they were with the requiring objectives of the curriculum. Particularly, this study makes educational objectives for textbooks coherent wit the requiring objectives of the curriculum, through the analysing the problems. The results are follows. The Middle school science educational objective of the 7th curriculum sets up almost of the objectives through all of the domains of the Klopfer’s taxonomy system, except the operational function (Category G.0), and emphasizes on emotionable domain (Category $H.0\~I.0$) more. However, comparing with an encouragement objective rate of NSTA, Middle school Science textbooks based on the 7th curriculum were published putting more importance in a cognitive domain, and the intention objective (Category I.0) was not mentioned.

• Korean Journal of Ecology and Environment
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• v.41 no.3
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• pp.412-421
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• 2008

Nutrient limitation was examined for the Dongbak Lake based on bioassay experiments and analyses of long-term monitoring data. From the results of data analyses, molar ratios of TN/TP and DIN/DIP were higher than 16 : 1 suggesting that phytoplankton growth was potentially limited by phosphorus. Phytoplankton responded to the addition of phosphates in the incubation experiments for all seasons whereas phytoplankton did not respond to other nutrients such as ammonia, nitrate and silicates. Size fraction (net and nano size) of phytoplankton also responded to the addition of phosphorus indicating that phytoplankton growth was limited by phosphorus in the Dongbok Lake. There was also a taxonomic shift from euglenophyceae to bacillariophyceae after addition of phosphate during warm season especially.

• Asian-Australasian Journal of Animal Sciences
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• v.33 no.10
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• pp.1610-1616
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• 2020

Objective: This study was to evaluate the effect of husbandry systems and strains on cecum microbial diversity of Jingyang chickens under the same dietary conditions. Methods: A total of 320 laying hens (body weight, 1.70±0.15 kg; 47 weeks old) were randomly allocated to one of the four treatments: i) Silver-feathered hens in enrichment cages (SEC) with an individual cage (70×60×75 cm), ii) Silver-feathered hens in free range (SFR) with the stocking density of 1.5 chickens per ten square meters, iii) Gold-feathered hens in enrichment cages (GEC), iv) Gold-feathered hens in free range (GFR). The experiment lasted 8 weeks and the cecum fecal samples were collected for 16S rDNA high throughput sequencing at the end of experiment. Results: i) The core microbiota was composed of Bacteroidetes (49% to 60%), Firmicutes (21% to 32%) and Proteobacteria (2% to 4%) at the phylum level. ii) The core bacteria were Bacteroides (26% to 31%), Rikenellaceae (9% to 16%), Parabacteroides (2% to 5%) and Lachnoclostridium (2% to 6%) at the genus level. iii) The indexes of operational taxonomic unit, Shannon, Simpson and observed species were all higher in SFR group than in SEC group while in GEC group than in GFR group, with SFR group showing the greatest diversity of cecum microorganisms among the four groups. iv) The clustering result was consistent with the strain classification, with a similar composition of cecum bacteria in the two strains of laying hens. Conclusion: The core microbiota were not altered by husbandry systems or strains. The free-range system increased the diversity of cecal microbes only for silver feathered hens. However, the cecum microbial composition was similar in two strain treatments under the same dietary conditions.

• Journal of Korean Society on Water Environment
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• v.25 no.6
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• pp.879-885
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• 2009

The present study was carried out to develop biological criteria for water quality assessment using benthic diatoms. Selecting of the indicator diatoms, three parameters were considered: broad distribution (180 taxa occurred over 3% at upper level), species abundance (158 taxa occurred over $1.5{\times}10^5cells/cm^2$), and sensitivity (184 taxa occurred more than once as 1st and 2nd dominant species). Overall, total 208 taxa were selected, including 38 varieties, 170 species, 34 genera, 9 families, 3 orders, and 1 phylum. The most dominant taxonomic group (family) was Naviculaceae (52%), followed by Diatomaceae (15%), Nitzschiaceae (12%) and Achnantaceae (11%). COD and TP were proposed as new water quality standards (draft) to improve the existing BOD standard and to manage and control efficiently non-biodegradable organic pollutants. With this regard, we used TP standard (draft) in developing biological water quality criteria for diatoms. TP standards (draft) proposed as Ia = 0.02 mg/L or less, Ib = 0.05 mg/L or less, II = 0.1 mg/L or less, III = 0.2 mg/L or less, IV = 0.4 mg/L or less, V = 0.6 mg/L or less and VI = above 0.6 mg/L. Biological assessment system (4 class system) was developed and proposed for diatom using modified Tropic Diatom Index (TDI). Biological assessment of TDI appear B grade (Good).