• Title/Summary/Keyword: Chain alignments

Search Result 16, Processing Time 0.023 seconds

Molecular differentiation of Russian wild ginseng using mitochondrial nad7 intron 3 region

  • Li, Guisheng;Cui, Yan;Wang, Hongtao;Kwon, Woo-Saeng;Yang, Deok-Chun
    • Journal of Ginseng Research
    • /
    • v.41 no.3
    • /
    • pp.326-329
    • /
    • 2017
  • Background: Cultivated ginseng is often introduced as a substitute and adulterant of Russian wild ginseng due to its lower cost or misidentification caused by similarity in appearance with wild ginseng. The aim of this study is to develop a simple and reliable method to differentiate Russian wild ginseng from cultivated ginseng. Methods: The mitochondrial NADH dehydrogenase subunit 7 (nad7) intron 3 regions of Russian wild ginseng and Chinese cultivated ginseng were analyzed. Based on the multiple sequence alignment result, a specific primer for Russian wild ginseng was designed by introducing additional mismatch and allele-specific polymerase chain reaction (PCR) was performed for identification of wild ginseng. Real-time allele-specific PCR with endpoint analysis was used for validation of the developed Russian wild ginseng single nucleotide polymorphism (SNP) marker. Results: An SNP site specific to Russian wild ginseng was exploited by multiple alignments of mitochondrial nad7 intron 3 regions of different ginseng samples. With the SNP-based specific primer, Russian wild ginseng was successfully discriminated from Chinese and Korean cultivated ginseng samples by allele-specific PCR. The reliability and specificity of the SNP marker was validated by checking 20 individuals of Russian wild ginseng samples with real-time allele-specific PCR assay. Conclusion: An effective DNA method for molecular discrimination of Russian wild ginseng from Chinese and Korean cultivated ginseng was developed. The established real-time allele-specific PCR was simple and reliable, and the present method should be a crucial complement of chemical analysis for authentication of Russian wild ginseng.

Molecular Parameters for Assessing Marine Biotoxicity: Gene Expressions of Rockfish (Sebastes schlegeli) Exposed to Polycyclic Aromatic Hydrocarbons

  • Woo, Seon-Ock;Yum, Seung-Shic;Park, Hong-Seog;Jung, Jee-Hyun;Lee, Suk-Chan;Kim, So-Jung;Lee, Taek-Kyun
    • Molecular & Cellular Toxicology
    • /
    • v.3 no.4
    • /
    • pp.267-272
    • /
    • 2007
  • Environmental and anthropogenic changes affect the health and stability of marine ecosystem. In this study we aimed to identify molecular biomarkers for ecotoxicological pollutants risk assessment in the rockfish (Sebastes schlegeli). We designed primers based on conserved sequences by multiple alignments of target genes from related species, and cloned the partial cDNAs of cytochrome P450 (CYP1A1), glutathione S-transferase (GST), metallothionein (MT), superoxide dismutase (SOD), ubiquitin (UB), vitellogenin (VTG) and $\beta$-actin by reverse transcription polymerase chain reaction (RT-PCR) from S. schlegeli. Northern blot results indicated that these six genes expressions were significantly induced by benzo[a]pyrene (BaP, 1 ${\mu}M$) and that the level of each of their transcripts increased in BaP-exposed rockfish in a time-dependent manner. This study suggests that transcriptional changes in these six genes may be used for monitoring environmental exposure to polycyclic aromatic hydrocarbons (PAHs).

In Silico Signature Prediction Modeling in Cytolethal Distending Toxin-Producing Escherichia coli Strains

  • Javadi, Maryam;Oloomi, Mana;Bouzari, Saeid
    • Genomics & Informatics
    • /
    • v.15 no.2
    • /
    • pp.69-80
    • /
    • 2017
  • In this study, cytolethal distending toxin (CDT) producer isolates genome were compared with genome of pathogenic and commensal Escherichia coli strains. Conserved genomic signatures among different types of CDT producer E. coli strains were assessed. It was shown that they could be used as biomarkers for research purposes and clinical diagnosis by polymerase chain reaction, or in vaccine development. cdt genes and several other genetic biomarkers were identified as signature sequences in CDT producer strains. The identified signatures include several individual phage proteins (holins, nucleases, and terminases, and transferases) and multiple members of different protein families (the lambda family, phage-integrase family, phage-tail tape protein family, putative membrane proteins, regulatory proteins, restriction-modification system proteins, tail fiber-assembly proteins, base plate-assembly proteins, and other prophage tail-related proteins). In this study, a sporadic phylogenic pattern was demonstrated in the CDT-producing strains. In conclusion, conserved signature proteins in a wide range of pathogenic bacterial strains can potentially be used in modern vaccine-design strategies.

Liquid crystal alignment on rubbed self-assembled monolayers with fluorinated alkyl chain

  • Oh, Chan-Woo;Hwang, Seok-Gon;Park, Sang-Geon;Park, Hong-Gyu
    • The Journal of Korea Institute of Information, Electronics, and Communication Technology
    • /
    • v.11 no.6
    • /
    • pp.671-677
    • /
    • 2018
  • In this paper, we investigated the vertical alignment characteristics of liquid crystals (LCs) on fluorinated self-assembled monolayers (FSAMs). For comparison, a commercialized homeotropic polyimide (PI) layer was used as an LC alignment layer. We confirmed the successful deposition of FSAMs and the change of FSAMs before and after rubbing treatment through contact angle measurement and atomic force microscopy. The optical transmittance spectrum of the FSAMs is similar to that of the homeotropic PI layer, which is a superior optical characteristic applicable to LC devices. When FSAMs were applied to the vertically aligned (VA) LC cell, uniform and vertical LC alignments were achieved. In addition, the voltage-transmittance characteristic of VA LC cell with FSAMs was superior to that of VA LC cell with the conventional homeotropic PI layers. These results indicate that the FSAMs are suitable as the homeotropic LC alignment layer for enhanced LC devices.

Immediate Effects of Joint Mobilization Techniques on Clinical Measures in Individuals with CAI

  • Kim, Byong Hun;Kim, Chang Young;Kang, Tae Kyu;Cho, Young Jae;Lee, Sae Yong
    • Korean Journal of Applied Biomechanics
    • /
    • v.28 no.4
    • /
    • pp.219-225
    • /
    • 2018
  • Objective: Epidemiological research shows that 47 to 73% of athletes suffer from recurrent ankle sprains. Joint mobilization techniques (JMT) implemented in correcting may be beneficial in the management of ankle injuries. The purpose of this study is to examine the immediate JM on ankle complex as clinical measures in individuals with chronic ankle instability (CAI) through intervention. Method: Thirteen subjects with CAI (8 males and 5 females) participated in this study. Each subject tried total four alignments (Navicular drop test: NDT, Standing rearfoot angle: SRA, Tibia torsion: TT, and dorsiflexion range of motion: DFROM). The participants were performed the 10 meter shuttle run after JMT for post-task. Finally, it was tried to compare between pre-post tasks after shuttle run. Results: SRA and DFROM after intervention showed significant differences. SRA (p=.026), and DFROM (p=.034). Conclusion: We concluded that the JMT has resulted in improvement in SRA, DFROM. Increased DFROM and varus shapes of foot would be closed kinetic chain, indicating that reduce the risk factors of ankle sprain. Future study needs to be conducted in order to measure the effects of prolonged intervention of JMT.

Characteristics of Electrospun Poly(methyl methacrylate) Nanofibers Embedding Multi-Walled Carbon Nanotubes(MWNTs) (다중벽 탄소 나노튜브가 분산된 Poly(methyl methacrylate) 고분자 용액의 전기방사연구)

  • Kim Dong Ouk;Lee Dai-Hoi;Yoon Seong-sik;Lee Sun-Ae;Nam Jae Do
    • Polymer(Korea)
    • /
    • v.30 no.1
    • /
    • pp.90-94
    • /
    • 2006
  • An electrospinning process was used to fabricate poly(methyl methacrylate) (PMMA) nanofibers embedding multi-walled carbon nanotubes(MWNTs). SEM images showed that the nanofiber surface and structural morphology depended on solvent types (dimethyl formamide, chlor-form and toluene) and carbon nanotube contents (0.5 and $3.0\;wt\%$). Nano-fiber alignments could be controlled by adjusting the electrodes configuration at collector sites. Relationship between carbon nanotube and PMMA nanofiber was studied with radius of gyration of polymer chain and carbon nanotube sizes. As the carbon nanotube content ratio increased, the number of bead increased.