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Analysis of Mammalian rDNA Internal Transcribed Spacers  [PDF]
Annette W. Coleman
PLOS ONE , 2013, DOI: 10.1371/journal.pone.0079122
Abstract: Nuclear rDNA Internal Transcribed Spacers, ITS1 and ITS2, are widely used for eukaryote phylogenetic studies from the ordinal level to the species level, and there is even a database for ITS2 sequences. However, ITS regions have been ignored in mammalian phylogenetic studies, and only a few rodent and ape sequences are represented in GenBank. The reasons for this dearth, and the remedies, are described here. We have recovered these sequences, mostly >1 kb in length, for 36 mammalian species. Sequence alignment and transcript folding comparisons reveal the rRNA transcript secondary structure. Mammalian ITS regions, though quite long, still fold into the recognizable secondary structure of other eukaryotes. The ITS2 in particular bears the four standard helix loops, and loops II and III have the hallmark characters universal to eukaryotes. Both sequence and insertions/deletions of transcript secondary structure helices observed here support the four superorder taxonomy of Placentalia. On the family level, major unique indels, neatly excising entire helices, will be useful when additional species are represented, resulting in significant further understanding of the details of mammalian evolutionary history. Furthermore, the identification of a highly conserved element of ITS1 common to warm-blooded vertebrates may aid in deciphering the complex mechanism of RNA transcript processing. This is the last major group of terrestrial vertebrates for which rRNA ITS secondary structure has been resolved.
Genetic identification of internal transcribed spacers sequence in rDNA of Artemisis iwayomogi Kitam. and other two Artemisia species  [cached]
KIM Sung-Yong,CHEN Jian-Wei
Zhong Xi Yi Jie He Xue Bao , 2004,
Abstract: Objective: To make an useful identification method for the molecule of DNA on 3 herbs of Artemisia genus and compare the differences of the genes of Korean and Chinese species of Artemisia. Methods: Sequence of 3 herbs (Artemisia sacrorum Ledeb., Artemisia iwayomogi Kitam. and Artemisia capillaris Thunb.) was determined by PCR sequence system. DNA was extracted from rDNA/ITS (internal transcribed spacers) and 5.8 s. The analysis was based on the amplification through DNA sequence system. Results: There were profound differences between the Korean Artemisia and Artemisia sacrorum L.. These 2 herbs had a difference in the PCR amplifications of the agarose gel electrophoresis. There was a slight difference in the analysis of the DNA sequence system, and the substitution percentage for ITS gene fragments sequence was 3.96%. Conclusion: Analytic identification method on sequence system of ITS in rDNA is effective for these 3 herbs.
Use of Single-Enzyme PCR-Restriction Digestion Barcode Targeting the Internal Transcribed Spacers (ITS rDNA) to Identify Dermatophyte Species
A Rezaei-Matehkolaei,K Makimura,MR Shidfar,F Zaini
Iranian Journal of Public Health , 2012,
Abstract: Background: Dermatophytes are the most common causative agents of superficial mycoses. Species identification of these fungi is important from therapeutic and epidemiological point of wive. Traditional approaches for identification of dermatophytes at the species level, relying on macroscopic and microscopic features of the colonies, usually are time-consuming and unreliable in many circumstances. Recently a broad varieties of rapid and accurate DNA-based techniques were successfuly utilized for species delineation of dermatophytes.Methods: The ITS1-5.8S-ITS2 region of rDNA from various reference strains of dermatophyte species were amplified using the universal fungal primers ITS1 and ITS4.The PCR products were digested by a single restriction enzyme, MvaI. The enzyme was evaluated in both in silico and practical PCR-RFLP assay to find the exact differentiating restriction profiles for each species. To validate the standardized PCR-RFLP system, all tested strains were subjected to sequencing and sequence analysis.Results: The obtained RFLP patterns were specific for many species including T. interdigitale, T. rubrum, T. violaceum, M. persicolor, M. audouinii, M. nanum (A. obtusum) and E. floccosum but were similar for some closely related species such as M. canis / M. ferrugineum. Sequencing of the ITS1-5.8S-ITS2 fragment from all type strains affirmed the RFLP findings.Conclusion: It was practically revealed that the ITS-PCR followed by MvaI-RFLP is a useful and reliable schema for identification and differentiation of several pathogenic species and can be used for rapid screening of even closely related species of dermatophytes in clinical and epidemiological settings.
On Mixing Constructions with Algebraic Spacers  [PDF]
V. V. Ryzhikov
Mathematics , 2011,
Abstract: We recall a proof of the mixing for almost all Ornstein's stochastic rank one constructions, replace stochastic spacers by special algebraic ones and prove the mixing in this new situation.


菌物学报 , 2002,
Abstract: The internal transcribed spacers of the nuclear ribosomal DNA of eighteen Pleurotus taxa (52 isolates), together with outgroups A. bisporus, L. edodes, H. serotina, were amplified using PCR and then digested with seven restriction endonucleases. PCR-RFLP results showed that AluI, Hae III, HinfI, TaqI, HhaI, MspI could divide 52 isolates into 6, 5, 5, 4, 2, 2 groups respectively and distinguish P. citrinopileatus from the other Pleurotus. No restriction site was observed for BamHI in all isolates. Dendrogram based on PCR-RFLP suggested that seven groups were distinguishable for Pleurotus on 93% similarity coefficient, i.e. P. ostreatus complex (including P. ostreatus, P. florida, P. sapidus, P. corticatus, P. cornucopiae, P. columbinus, P. spodoleucus, P. ferulae, P. nebrodensis and P. sp.), P. eryngii, P. pulmonarius-P. sajor-caju, P. tuber-regium, P. abalonus-P. cystiodisus, P. djamor- P. salmoneostramineus and P. citrinopileatus. The phylogenetic relationships between P.citrinopileatus and the other Pleurotus were more distant than L. edodes, A. bisporus and the other Pleurotus.
The PANDA Detector at FAIR  [PDF]
S. Marcello
Physics , 2008,
Abstract: The PANDA detector is under design to be installed at the HESR storage ring for antiproton of the future FAIR facility in Darmstadt, Germany. Fundamental questions of hadron and nuclear physics interactions of antiprotons with nucleons and nuclei will be pursued using a multipurpose set-up which includes innovative detectors. Here, the FAIR facility and the PANDA detector are described.
Status and Perspectives of PANDA  [PDF]
Kai-Thomas Brinkmann
Physics , 2013,
Abstract: Physics with antiprotons in the charmonium mass region will play a major role at the future PANDA experiment at the FAIR facility in Darmstadt. At PANDA, an antiproton beam with momenta up to 15 GeV/c circulating in the high-energy storage ring HESR will interact with a hydrogen target. High interaction rates and unprecedented momentum precision will allow experiments addressing, among a variety of other physics goals, hidden and open charm spectroscopy. The detector system of PANDA is optimized to meet the challenges of high-resolution spectroscopy of charmonium states of any quantum number in formation and production with very good background suppression. At the same time, emphasis is placed on meeting the requirements of other parts of the physics program as, e.g. spectroscopy of hypernuclei, with a flexible setup of detector components. This contribution discusses the layout of the PANDA detector. Apart from a description of the overall layout of the experiment, several novel detector developments will be described.
Prospects for PANDA in Charmonium and Charm Physics  [PDF]
Marc Pelizaeus
Physics , 2012,
Abstract: The prospects of the future PANDA experiment at FAIR in Darmstadt/Germany in the field of charmonium and charm spectroscopy are discussed.
Plans for PANDA Online Computing  [PDF]
Jens Soeren Lange,Dapeng Jin,Daniel Kirschner,Andreas Kopp,Wolfgang Kuehn,Johannes Lang,Lu Li,Ming Liu,ZhenAn Liu,David Muenchow,Tiago Perez,Johannes Roskoss,Qiang Wang,Hao Xu,Shuo Yang
Physics , 2009, DOI: 10.1088/1748-0221/4/11/P11001
Abstract: The PANDA experiment will not use any hardware trigger, i.e. all raw data are streaming in the data acquisition with a bandwidth of ~280 GB/s. The PANDA Online System is designed to perform data reduction by a factor of ~800 by reconstruction algorithms programmed in VHDL (Very High Speed Integrated Circuit Hardware Description Language) on FPGAs (Field Programmable Gate Arrays).
金堆城地区熊耳群火山岩系的构造背景及地球化学论据  [PDF]
大地构造与成矿学 , 1992,
Abstract: 熊耳群一直被认为是地台盖层.近年来依板块观点,又被认为是安第斯型活动大陆边缘的安山岩建造.通过对金堆城熊耳群的地质、岩石化学、稳定微量元素(包括稀土)等方面的综合研究,证明熊耳群是产在华北古陆边缘水下裂谷的火山岩系.属地槽构造层.
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