CSGM Designer: a platform for designing cross-species intron-spanning genic markers linked with genome information of legumes.

BackgroundGenetic markers are tools that can facilitate molecular breeding, even in species lacking genomic resources. An important class of genetic markers is those based on orthologous genes, because they can guide hypotheses about conserved gene function, a situation that is well documented for a number of agronomic traits. For under-studied species a key bottleneck in gene-based marker development is the need to develop molecular tools (e.g., oligonucleotide primers) that reliably access genes with orthology to the genomes of well-characterized reference species.ResultsHere we report an efficient platform for the design of cross-species gene-derived markers in legumes. The automated platform, named CSGM Designer (URL: http://tgil.donga.ac.kr/CSGMdesigner), facilitates rapid and systematic design of cross-species genic markers. The underlying database is composed of genome data from five legume species whose genomes are substantially characterized. Use of CSGM is enhanced by graphical displays of query results, which we describe as "circular viewer" and "search-within-results" functions. CSGM provides a virtual PCR representation (eHT-PCR) that predicts the specificity of each primer pair simultaneously in multiple genomes. CSGM Designer output was experimentally validated for the amplification of orthologous genes using 16 genotypes representing 12 crop and model legume species, distributed among the galegoid and phaseoloid clades. Successful cross-species amplification was obtained for 85.3% of PCR primer combinations.ConclusionCSGM Designer spans the divide between well-characterized crop and model legume species and their less well-characterized relatives. The outcome is PCR primers that target highly conserved genes for polymorphism discovery, enabling functional inferences and ultimately facilitating trait-associated molecular breeding

Korean Nova Records in A.D. 1073 and A.D. 1074: R Aquarii

R Aqr is known to be a symbiotic binary system with an associated extended emission nebula, possibly produced by a historic outburst. To find the associated historic records, we searched for and compiled all 'Guest Star' and 'Peculiar Star' records in three Korean 'official' history books that cover almost two thousand years, Samguksagi, Goryeosa, Joseonwangjosillok. In addition to the record of A.D. 1073, previously noted by Li (1985), we have found in Goryeosa another candidate record of A.D. 1074, which has the same positional description as that of A.D. 1073 with an additional brightness description. We examined various aspects of the two records and conclude that they both are likely to be the records of outburst of R Aqr. This means that there were two successive outbursts in A.D. 1073 and in A.D. 1074, separated by approximately one year. Based on these records, we estimate the distance to R Aqr to be 273 pc if the expansion of the nebula has been at a constant rate. The brightness record of A.D. 1074 corresponds to the absolute magnitude at outburst of M_(outburst) = -6.2 mag. ~ -5.2 mag. at this distance. The two Korean records associated with R Aqr may provide astronomically meaningful constraints to the outburst model of R Aqr and the formative process of its nebulosity.Comment: 10 pages, 2 figures, 1 appendix. To appear in Astronomy and Astrophysic

A Case of Gastritis Associated with Gastric Capillariasis

This report is about the case of gastritis associated with capillariasis. The patient was a 52-yr-old Korean woman who occasionally ate raw fish and chicken. She complained of mild abdominal pain and nausea, but not diarrhea. An endoscopic examination revealed an exudative flat erosive change on the gastric mucosa of the antrum. She was microscopically diagnosed as chronic gastritis with numerous eosinophil infiltrations. The sectioned worms and eggs in mucosa were morphologically regarded as belonging to the genus Capillaria. This is the first case of gastric capillariasis reported in the Republic of Korea

Bucillamine prevents cisplatin-induced ototoxicity through induction of glutathione and antioxidant genes.

Bucillamine is used for the treatment of rheumatoid arthritis. This study investigated the protective effects of bucillamine against cisplatin-induced damage in auditory cells, the organ of Corti from postnatal rats (P2) and adult Balb/C mice. Cisplatin increases the catalytic activity of caspase-3 and caspase-8 proteases and the production of free radicals, which were significantly suppressed by pretreatment with bucillamine. Bucillamine induces the intranuclear translocation of Nrf2 and thereby increases the expression of γ-glutamylcysteine synthetase (γ-GCS) and glutathione synthetase (GSS), which further induces intracellular antioxidant glutathione (GSH), heme oxygenase 1 (HO-1) and superoxide dismutase 2 (SOD2). However, knockdown studies of HO-1 and SOD2 suggest that the protective effect of bucillamine against cisplatin is independent of the enzymatic activity of HO-1 and SOD. Furthermore, pretreatment with bucillamine protects sensory hair cells on organ of Corti explants from cisplatin-induced cytotoxicity concomitantly with inhibition of caspase-3 activation. The auditory-brainstem-evoked response of cisplatin-injected mice shows marked increases in hearing threshold shifts, which was markedly suppressed by pretreatment with bucillamine in vivo. Taken together, bucillamine protects sensory hair cells from cisplatin through a scavenging effect on itself, as well as the induction of intracellular GSH

Accelerating ID-based Encryption based on Trapdoor DL using Pre-computation

The existing identity-based encryption (IBE) schemes based on pairings require pairing computations in encryption or decryption algorithm and it is a burden to each entity which has restricted computing resources in mobile computing environments. An IBE scheme (MY-IBE) based on a trapdoor DL group for RSA setting is one of good alternatives for applying to mobile computing environments. However, it has a drawback for practical use, that the key generation algorithm spends a long time for generating a user\u27s private key since the key generation center has to solve a discrete logarithm problem. In this paper, we suggest a method to reduce the key generation time of the MY-IBE scheme, applying modified Pollard rho algorithm using significant pre-computation (mPAP). We also provide a rigorous analysis of the mPAP for more precise estimation of the key generation time and consider the parallelization and applying the tag tracing technique to reduce the wall-clock running time of the key generation algorithm. Finally, we give a parameter setup method for an efficient key generation algorithm and estimate key generation time for practical parameters from our theoretical analysis and experimental results on small parameters. Our estimation shows that it takes about two minutes using pre-computation for about 50 days with 27 GB storage to generate one user\u27s private key using the parallelized mPAP enhanced by the tag tracing technique with 100 processors

Establishment of an experimental model of ovalbumin-induced atopic dermatitis in canines

IntroductionA reliable standard model is required to evaluate the efficacy of new drugs for companion animals, especially dogs. Canine atopic dermatitis (cAD), also known as allergic inflammatory skin disease, is a common condition. Currently, the house dust mite animal model is used in the research of cAD; however, this model exhibits significant individual variation and is difficult to standardize. In this study, we used ovalbumin as an antigen to sensitize and stimulate dogs, thereby establishing a stable model mimicking the T-helper 2 (Th2) response seen in cAD. Our objective was to create a cAD model that could be employed to evaluate the efficacy of novel drugs and mimic the Th2 dominant allergic response observed in the pathogenesis of atopic dermatitis of dogs.MethodsIn this study, six beagles were used. Normal saline was applied to two animals, and ovalbumin to four, on their dorsal skin.ResultsThe ovalbumin-treated groups exhibited clinical cAD symptoms, such as pruritus and erythema. Moreover, plasma levels of the cAD markers immunoglobulin E and CCL17 chemokine were higher in the ovalbumin-treated group than in the vehicle control group. The skin thickness of the epidermis was significantly increased in the ovalbumin-treated group, with infiltration of inflammatory cells observed in the thickened dermis region. In conclusion, treatment of canine skin with an optimal concentration of ovalbumin induced typical cAD-like symptoms, and histological and molecular analyses confirmed an enhanced Th2-related immune response.ConclusionTherefore, we successfully established a suitable Th2-dominant response mimicking cAD, which will facilitate targeted research of atopic dermatitis in dogs