• Korean Journal of Microbiology
• /
• v.50 no.4
• /
• pp.308-312
• /
• 2014

In this study, we conducted a next generation sequencing based microbial community analysis to investigate gut microbiota of the two commercially most available swine breeds, Yorkshire and Landrace. Bacterial 16S rRNA gene was amplified from fecal DNA using universal primer sets designed for V4 regions. Our comparison analysis of the gut microbiota of the two breeds suggested that their gut microbiota changed depending on the growth stages, while the difference between the two breeds was insignificant. However, there was a limited number of genera, the abundance of which was found to be different between the breeds. Those included the genus Xylanibacter in the Yorkshire samples, which was previously reported as a fiber digesting bacteria, likely increasing energy harvesting capacity of swine. In addition, others included opportunistic pathogens mostly found in the Yorkshire samples while the Landrace samples had significantly more prevalent Clostridium_IV species that were known to play a key role in systemic immunity of hosts. While microbial community shifts was found to be associated with growth stages, the difference between the two breeds seemed to be insignificant. However, there were several bacterial genera showing differential abundance, which may affect growth of hosts.

• Journal of Applied Biological Chemistry
• /
• v.59 no.4
• /
• pp.299-304
• /
• 2016

When used for amplicon sequencing, Illumina platforms produce more than hundreds of sequence artefacts, which affects operational taxonomic units based analyses such as differential abundance and network analyses. Nevertheless it has become a major tool for fecal microbial community analysis. In addition, results from sequence-based fecal microbial community analysis vary depending on conditions of samples (i.e., freshness, time of storage and quantity). We investigated if freeze-drying samples could improve quality of sequence data. Our results showed reduced number of possible artefacts while maintaining overall microbial community structure. Therefore, freeze-drying feces prior to DNA extraction is recommended for Illumina-based microbial community analysis.

• Journal of Ecology and Environment
• /
• v.47 no.3
• /
• pp.157-167
• /
• 2023

Background: The most hazardous wastewater sources in the northern part of the Middle Nile Delta, Egypt; receiving a massive amount of agricultural, industrial, and sewage drainage are Kitchener drain which is one of the tallest drainage systems, and Burullus Lake which represents the 2nd largest Egyptian coastal lake. Results: The current work is to determine the abundance and frequency of cyanophytes, chlorophytes, and bacillariophytes and the correlation between them and environmental abiotic components. Among sixty nine microalgal species, 19 species are belong Cyanophyta, 26 belong Chlorophyta and 24 belong Bacillariophyta. Genus Scenedesmus (Chlorophyta) was the most abundant in the study area (13 species), followed by Genus Oscillatoria (9 species) and Genus Navicula (7 species). Nostoc muscorum and Chlorella vulgaris were the most common and recorded in all sites (100% of the locations) under study. The application of the two-way indicator species analysis (TWINSPAN) and detrended correspondence analysis revealed agglomerating of 4 groups (communities) at 4th level of classification and reasonable segregation between these groups. Zinc, cadmium and lead were showed the highest levels (0.26±0.03, 0.26±0.06, and 0.17±0.01 ppm, respectively). Conclusions: The correlation analysis between water and community variables indicated a high negative correlation of total algae richness with nickel (r = -0.936, p < 0.01). Cyanophyta and Bacillariophyta were correlated negatively (r = -0.842, p < 0.01). However, Chlorophyta showed a negative richness with each of Ni and Pb (r = -0.965, -0.873, respectively) on one hand and a high positive correlation was revealed (r = 0.964) with all environmental variables on the other hand.

• Journal of Microbiology and Biotechnology
• /
• v.30 no.8
• /
• pp.1169-1179
• /
• 2020

In this study, two soybean genotypes, i.e., aluminum-tolerant Baxi 10 (BX10) and aluminumsensitive Bendi 2 (BD2), were used as plant materials and acidic red soil was used as growth medium. The soil layers from the inside to the outside of the root are: rhizospheric soil after washing (WRH), rhizospheric soil after brushing (BRH) and rhizospheric soil at two sides (SRH), respectively. The rhizosphere bacterial communities were analyzed by high-throughput sequencing of V4 hypervariable regions of 16S rRNA gene amplicons via Illumina MiSeq. The results of alpha diversity analysis showed that the BRH and SRH of BX10 were significantly lower in community richness than that of BD2, while the WRH exhibited no significant difference between BX10 and BD2. Among the three sampling compartments of the same soybean genotype, WRH had the lowest community richness and diversity while showing the highest coverage. Beta diversity analysis results displayed no significant difference for any compartment between the two genotypes, or among the three different sampling compartments for any same soybean genotype. However, the relative abundance of major bacterial taxa, specifically nitrogen-fixing and/or aluminum-tolerant bacteria, was significantly different in the compartments of the BRH and/or SRH at phylum and genus levels, indicating genotype-dependent variations in rhizosphere bacterial communities. Strikingly, as compared with BRH and SRH, the WRH within the same genotype (BX10 or BD2) always had an enrichment effect on rhizosphere bacteria associated with nitrogen fixation.

• Korean Journal of Ichthyology
• /
• v.30 no.1
• /
• pp.36-45
• /
• 2018

The temporal and depth-related variations in the species composition and abundance of demersal fish assemblage were studied in the coastal waters off Hupo, East Sea. Fish samples were collected seasonally between 2011 and 2017 at two stations of study area using trammel net and bottom gill net. In total, 46 fish species belonging to 17 families were collected during study period, with 36 and 22 species occurring in depths of ~80 m (site A) and ~140 m (site B), respectively. Glyptocephalus stelleri, Cleisthenes pinetorum and Gymnocanthus herzensteini were abundant at shallower site, and Dasycottus setiger at deeper site. The number of species, abundance, biomass and diversity fluctuated with water depth, but not temporally (both seasonally and annually). Analysis of similarity (ANOSIM) revealed that the fish assemblage structures were significantly different with water depth, but not by year or season. Non-metric multidimensional scaling (MDS) ordination plot emphasized visually in spatial difference of fish assemblages, and it was due to differential contributions of dominant species in relation to water depth and temperature.

• Clinical and Experimental Pediatrics
• /
• v.61 no.6
• /
• pp.200-204
• /
• 2018

Atopic dermatitis (AD) is a chronic inflammatory skin disease in children. Patients with AD experience a high rate of colonization of the skin surface by Staphylococcus aureus. Because of a skin barrier defect, there is a potential risk of staphylococcal invasive infection in patients with AD. Here, we present 2 cases of breast abscess caused by S. aureus in 2 adolescent girls with severe AD. Methicillin-sensitive S. aureus was identified from the breast abscess material. They were treated with appropriate antibiotics, however surgical drainage of the abscess was needed in case 1. Identical strains were found from the breast abscess material as well as the lesional and the nonlesional skin of the patients through matrix-assisted laser desorption/ionization time-of-flight analysis. We characterized the differential abundance of Firmicutes phylum in patients' skin in microbiota analysis. In particular, S. aureus, a member of Firmicutes, differed significantly between the lesional and the normal-appearing skin. Our cases demonstrate the potential severity of bacterial deep tissue infection in AD and the dysbiosis of skin microbiota may be involved in inflammation in AD.

• Journal of Animal Science and Technology
• /
• v.53 no.3
• /
• pp.195-202
• /
• 2011

Maintenance of adequate telomere length in developing cells is the most important concern to preserve the integrity of the genome. The length of telomere is strictly regulated by numerous telomere-binding proteins and/or interacting factors. Even though the expression of telomerase in the male reproductive tract has been characterized, developmental expressional profiling of telomerase and other telomere-associated proteins has not been determined in detail. The present study was attempted to examine expression patterns of catalytic subunit (Tert) and RNA component (Terc) of telomerase and two telomerase associated factors, telomerase associated protein 1 (Tep1) and TERF1 (TRF1) interacting nuclear factor 2 (Tinf2) in the testis and seminal vesicle of male rat during postnatal development. The real-time PCR analysis was utilized to quantify mRNA expression of molecules. The abundance of Tep1 mRNA in the testis and seminal vesicle was the highest at 5 months of age. Expressional fluctuation of Tinf2 during postnatal development was found in the testis, while expression of Tinf2 in the seminal vesicle was gradually increased until 5 months of age and then significantly decreased later. mRNA level of Tert gene in the testis was significantly increased at the adult and the elder, while the highest expression of Tert gene in the seminal vesicle was found at 5 months of age. Expression of Terc transcript in the testis and seminal vesicle was the highest at 5 months of age, followed by significant reduction at 1 and 2 years of ages. Such differential gene expression of telomere-associated factors and telomerase components in different male reproductive tissues during postnatal development indicates that maintenance of telomere length would be regulated in tissue- and/or age-specific manners.

• Proceedings of the Korean Society of Crop Science Conference
• /
• 2017.06a
• /
• pp.120-120
• /
• 2017

Since the composition of proteins from the Korean cultivars of Proso millet is unknown; thereby, the present study was conducted to obtain a reference map of millet seed proteins and identify the functional characteristics of the identified proteins. Proteins extracted from the millet seeds of various cultivars, were investigated using proteomic techniques as 2D electrophoresis coupled with mass fingerprinting. The 1152 (differentially expressed) proteins were detected on 2-D gel. Among them, 26 reproducible protein spots were analyzed by MALDI-TOF-TOF mass spectrometry. Out of 26 proteins, 2 proteins were up-regulated towards all cultivars of millet, while 7 proteins were up-regulated and 13 proteins were down-regulated against only one cultivar. However, abundance in most identified protein species, associated with metabolism, transcription and transcription was significantly enhanced, while that of another protein species involved in polysaccharide metabolism, stress response and pathogenesis were severely reduced. Taken together, the results observed from the study suggest that the differential expression of proteins from the four cultivars of millet may be cultivar-specific. Taken together, a proteomic investigation of millet seeds from different cultivars, we sought to better understand the genetic variation of millet cultivars representing the future millet research, and the functional categorization of individual proteins on the basis of their molecular function.

• Fire Science and Engineering
• /
• v.20 no.4 s.64
• /
• pp.72-76
• /
• 2006

Polymer/clay nanocomposites have generated considerable interests in the past decade because adding just tiny amount of clay to the polymer matrix could produce a dramatic enhancement in physical, thermal and mechanical properties. Smectite clays, such as montmorillonite (MMT), are of great industrial value because of their high aspect ratio, plate morphology, intercalative capacity, natural abundance and low cost. In this study, PE/MMT nanocomposites were directly prepared by melt intercalating PE and the modified clay. The nanostructure was verified by X-ray diffraction (XRD) and transmission electron microscopy (TEM), and their flame retardant properties were measured and discussed by limiting oxygen index (LOI), char yield and smoke mass concentration. And their thermal stabilities were measured by differential thermogravimetric (DTG) and thermogravimetric analysis (TGA). The PE/MMT nanocomposites proved more effective the conventional composites in reinforcement. Two functions in the thermal stability of the PE/MMT nanocomposite, one is the barrier effect to improve the thermal stability, and another is catalysis, leading to a decrease of the thermal stability. The flammability was greatly decreased due to the formation of the clay-enriched protective char during the combustion.

• Journal of People, Plants, and Environment
• /
• v.24 no.5
• /
• pp.545-550
• /
• 2021

Background and objective: With increasing land use intensity in urban areas, apartment buildings have been recognized as a typical type of urban residence. In this study, the impacts of different views through a window on health-related responses were investigated using psychological and physiological parameters. Methods: Photos of three different types of views taken on low (2-12 m), middle (28-35 m), and high (over 54 m) floors of dense apartment building areas were used as visual stimuli. Twenty-two healthy adults participated in the indoor experiment. Semantic differential methods and profile of mood states were used as psychological tools. Autonomic nervous activity was evaluated using blood pressures, pulse rate and heart rate variability (HRV). Results: Analytic data showed different characteristics of psychological and physiological outcomes in three different apartment views. In the analysis of psychological parameters, significantly negative responses to the views on middle floors were found in the subscales of tension-anxiety and anger-hostility, compared to low floors. Significantly positive scores in the subscale of vigor were found on low floors with abundance of vegetation and high floors with a view of the sky. A significantly increased value of HF was found on low floors (2,294.96 ± 169.79), compared to the middle(1,553.45 ± 84.66) and high (1,523.02 ± 70.49) floors. Despite the high scores in openness and vigor, high floor views showed significantly higher LF/HF values (1.83 ± 0.09), the indicator of the sympathetic nervous system, than low (1.30 ± 0.07) and middle floor views (1.34 ± 0.06), which might be related to the unconscious fear of heights. Conclusion: Views from different heights in an apartment building can affect the psychological states of residents. Green space through the window may have a positive health outcome by reducing physiological stress.