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| Registros recuperados: 1.312 | |
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| Yu-bao,Cui; Zhou,Ying; Weihong,Shi; Guifang,Ma; Yang,Li; Yungang,Wang. |
| To obtain the recombinant group 2 allergen product of Dermatophagoides farinae (Der f 2), the Der f 2 gene was synthesized by RT-PCR. The full-length cDNA comprised 441 nucleotides and was 99.3% identical to the reference sequence (GenBank AB195580). The cDNA was bound to vector pET28a to construct plasmid pET28a(+)-Der f 2, which was transformed into E. coli BL21 and induced by IPTG. SDS-PAGE showed a specific band of about 14kDa in the hole cell lysate. s estiated by chroatography, about 3.86 g of the recobinant product as obtained, which conjugated with serum IgE from asthmatic children. The protein had a signal peptide of 17 amino acids. Its secondary structure comprised an alpha helix (19.86%), an extended strand (30.82%), and a random coil (49.32%).... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Dermatophagoides farinae; House-dust-mite allergy; Mite allergens; Der f 2; Allergen engineering; Immunotherapy; Bioinformatics. |
| Ano: 2010 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0001-37652010000400017 |
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| Shen,Wenlong; Wang,Dong; Ye,Bingyu; Shi,Minglei; Zhang,Yan; Zhao,Zhihu. |
| BACKGROUND: The CCCTC-binding factor (CTCF) is a highly conserved insulator protein that plays various roles in many cellular processes. CTCF is one of the main architecture proteins in higher eukaryotes, and in combination with other architecture proteins and regulators, also shapes the three-dimensional organization of a genome. Experiments show CTCF partially remains associated with chromatin during mitosis. However, the role of CTCF in the maintenance and propagation of genome architectures throughout the cell cycle remains elusive. RESULTS: We performed a comprehensive bioinformatics analysis on public datasets of Drosophila CTCF (dCTCF). We characterized dCTCF-binding sites according to their occupancy status during the cell cycle, and identified... |
| Tipo: Journal article |
Palavras-chave: DCTCF; Cell cycle; Chromatin domains; Mitotic bookmarking; Bioinformatics. |
| Ano: 2015 |
URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602015000100027 |
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| González-Nilo,Fernando; Pérez-Acle,Tomás; Guínez-Molinos,Sergio; Geraldo,Daniela A; Sandoval,Claudia; Yévenes,Alejandro; Santos,Leonardo S; Laurie,V. Felipe; Mendoza,Hegaly; Cachau,Raúl E. |
| After the progress made during the genomics era, bioinformatics was tasked with supporting the flow of information generated by nanobiotechnology efforts. This challenge requires adapting classical bioinformatic and computational chemistry tools to store, standardize, analyze, and visualize nanobiotechnological information. Thus, old and new bioinformatic and computational chemistry tools have been merged into a new sub-discipline: nanoinformatics. This review takes a second look at the development of this new and exciting area as seen from the perspective of the evolution of nanobiotechnology applied to the life sciences. The knowledge obtained at the nano-scale level implies answers to new questions and the development of new concepts in different... |
| Tipo: Journal article |
Palavras-chave: Bioinformatics; Molecular simulation; Nanobiotechnology; Nanoinformatics; Nanomedicine. |
| Ano: 2011 |
URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602011000100006 |
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| Menezes,Alana Manoela Fraga; Cavalcanti Junior,Edilton de Albuquerque; Martins,Luiza Suely Semen; Moraes Filho,Rômulo Maciel de. |
| Abstract Root-knot nematodes are a group of endoparasites species that induce the formation of giant cells in the hosts, by which they guarantee their feeding and development. Meloidogyne species infect over 2000 plant species, and are highly destructive, causing damage to many crops around the world. M. enterolobii is considered the most aggressive species in tropical regions, such as Africa and South America. Phytonematodes are able to penetrate and migrate within plant tissues, establishing a sophisticated interaction with their hosts through parasitism factors, which include a series of cell wall degradation enzymes and plant cell modification. Among the parasitism factors documented in the M. enterolobii species, cellulose binding protein (CBP), a... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Bioinformatics; Phytonematodes; Parasitism Factors; Cell wall degrading enzymes; Homology modeling; Protein function prediction. |
| Ano: 2019 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-89132019000100201 |
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| Cui,Y.; Zhou,P.; Peng,J.; Peng,M.; Zhou,Y.; Lin,Y.; Liu,L.. |
| Our objective was to clone, express and characterize adult Dermatophagoides farinae group 1 (Der f 1) allergens to further produce recombinant allergens for future clinical applications in order to eliminate side reactions from crude extracts of mites. Based on GenBank data, we designed primers and amplified the cDNA fragment coding for Der f 1 by nested-PCR. After purification and recovery, the cDNA fragment was cloned into the pMD19-T vector. The fragment was then sequenced, subcloned into the plasmid pET28a(+), expressed in Escherichia coli BL21 and identified by Western blotting. The cDNA coding for Der f 1 was cloned, sequenced and expressed successfully. Sequence analysis showed the presence of an open reading frame containing 966 bp that encodes a... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Dermatophagoides farinae; Der f 1; Recombinant allergens; Cloning; Expression; Bioinformatics. |
| Ano: 2008 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-879X2008000500006 |
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| Cui,Yubao; Zhou,Ying; Ma,Guifang; Yang,Li; Wang,Yungang; Shi,Weihong. |
| Crude extracts of house dust mites are used clinically for diagnosis and immunotherapy of allergic diseases, including bronchial asthma, perennial rhinitis, and atopic dermatitis. However, crude extracts are complexes with non-allergenic antigens and lack effective concentrations of important allergens, resulting in several side effects. Dermatophagoides farinae (Hughes; Acari: Pyroglyphidae) is one of the predominant sources of dust mite allergens, which has more than 30 groups of allergen. The cDNA coding for the group 5 allergen of D. farinae from China was cloned, sequenced and expressed. According to alignment using the VECTOR NTI 9.0 software, there were eight mismatched nucleotides in five cDNA clones resulting in seven incompatible amino acid... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Dermatophagoides farinae (Hughes); Der f 5; Cloning; Expression; Bioinformatics. |
| Ano: 2012 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-879X2012000800009 |
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| Hassan,Mariam; Essam,Tamer; Megahed,Salwa. |
| Abstract In this study, the development and assessment of a modified, efficient, and cost-efficient protocol for mDNA (metagenomic DNA) extraction from contaminated water samples was attempted. The efficiency of the developed protocol was investigated in comparison to a well-established commercial kit (Epicentre, Metagenomic DNA Isolation Kit for Water). The comparison was in terms of degree of shearing, yield, purity, duration, suitability for polymerase chain reaction and next-generation sequencing in addition to the quality of next-generation sequencing data. The DNA yield obtained from the developed protocol was 2.6 folds higher than that of the commercial kit. No significant difference in the alpha (Observed species, Chao1, Simpson and PD whole tree)... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Bioinformatics; Method; Microbiome; Next-generation sequencing; QIIME. |
| Ano: 2018 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822018000500001 |
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| Naveed,Muhammad; Ahmed,Iftikhar; Khalid,Nauman; Mumtaz,Abdul Samad. |
| Glucose dehydrogenase (GDH; EC 1.1. 5.2) is the member of quinoproteins group that use the redox cofactor pyrroloquinoline quinoine, calcium ions and glucose as substrate for its activity. In present study, Leclercia sp. QAU-66, isolated from rhizosphere of Vigna mungo, was characterized for phosphate solubilization and the role of GDH in plant growth promotion of Phaseolus vulgaris. The strain QAU-66 had ability to solubilize phosphorus and significantly (p < 0.05) promoted the shoot and root lengths of Phaseolus vulgaris. The structural determination of GDH protein was carried out using bioinformatics tools like Pfam, InterProScan, I-TASSER and COFACTOR. These tools predicted the structural based functional homology of pyrroloquinoline quinone domains... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Glucose dehydrogenase; Pyrroloquinoline quinone; Leclercia sp; PGPR; Bioinformatics. |
| Ano: 2014 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822014000200031 |
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| Xu-Guang,Liu; Fu-Ping,Song; Si-Yuan,Wen; Sheng-Qi,Wang; Da-Fang,Huang; Jie,Zhang. |
| We have developed a parallel, rapid, high-throughput oligonucleotide microarray-based assay for the reliable detection and genotyping of three cry genes (cry1, cry2 and cry9) in Bacillus thuringiensis (Bt). After the non-polymerase chain reaction (PCR), amplified Bt genomic DNA were fluorescent-labeled using a random primer. The corresponding oligonucleotide probes were designed for the different cry genes that can hybridize Bt genomic DNA after cluster analysis and were printed on glass slides. This microarray has unambiguously detected and identified the cry genes in 10 isolates and reference Bt. Our data demonstrates that the microarray assay is simple and rapid for the detection and genotyping of genes. This type of assay is also a potentially... |
| Tipo: Journal article |
Palavras-chave: Oligonucleotide microarray; Cry genes; Genotyping; Random primer labeling; Bioinformatics. |
| Ano: 2010 |
URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0718-58392010000200004 |
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| Ramírez Sánchez, Obed. |
| Los factores de transcripción (FTs) son proteínas que incrementan o disminuyen la tasa transcripcional de uno o varios genes. Los FTs desempeñan un papel fundamental en el control de casi todos los procesos biológicos: crecimiento, metabolismo, respuesta a factores ambientales, etc. En plantas cultivadas, son de particular importancia aquellos relacionados con la respuesta al estrés (sequía, salinidad, bajas temperaturas, plagas, enfermedades, etc.). La identificación de FTs, su posterior anotación y la construcción de bases de datos públicas constituye un importante recurso para el estudio de los procesos que controlan la expresión génica. Se construyó la base de datos FT-MTS que contiene información de 13,975 genes identificados como FTs en los genomas... |
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Palavras-chave: Regulación transcripcional; Anotación funcional; Bioinformática; Transcriptional regulation; Functional annotation; Bioinformatics; Cómputo aplicado; Maestría. |
| Ano: 2012 |
URL: http://hdl.handle.net/10521/689 |
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| Riaño Pachón, Diego Mauricio; González Estrada, Elizabeth; Alexa, Adrian; Ramírez, Fidel; Vischi Winck, Flavia; Gómez Merino, Fernando, Coord.; Silva Rojas, Hilda Victoria, Coord.; Pérez Rodríguez, Paulino, Coord.. |
| En esta publicación intitulada “Bioinformática: aplicaciones a la genómica y proteómica” se detallan algunos de los avances más sobresalientes de los temas de genómica y proteómica, derivados de un curso internacional sobre el tema, organizado por el Colegio de Postgraduados. Estos avances incluyen aspectos de las dos ciencias ómicas, incluyendo genómica y biología estructural, código R, análisis comparativo y evolución, agrupamiento y minería de datos en R, redes de interacciones entre proteínas y proteómica bioinformática. BIOINFORMATICS : APPLICATIONS TO GENOMICS AND PROTEOMICS. ABSTRACT : In this publication entitled "Bioinformatics: applications to genomics and proteomics" are some of the most salient issues of genomics and proteomics, derived from an... |
| Tipo: Libro |
Palavras-chave: Bioinformática; Proteómica; Genómica; ADN; Proteínas; Modelación; Simulación; Análisis de genómas; Biología estructural; Código R; Análisis comparativo; Minería de datos; Computación aplicada; Bioinformatics; Proteomics; DNA; Proteins; Models; Genomics; Simulation; R Code; Data mining; Computing; Genome analysis. |
| Ano: 2010 |
URL: http://hdl.handle.net/10521/313 |
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| Shan,Shi-hua; Zhang,Ting-ting; Li,Chun-juan; Yang,Chen; Yan,Cai-xia; Wan,Shu-bo. |
| Background: Based on the conserved sequences of a known NBS resistance gene, a pair of degenerate primers was designed to amplify the NBS-LRR resistance gene from peanut using PCR and RACE methods. Results: Analyzing the amino acid sequence by BLAST on NCBI, which was deduced from the 1088bp-long gene named PnAG1-2, showed that it had a certain homology with some resistance proteins, among which Arachis cardenasii resistance protein gene had the highest homology (66%). Relative quantification PCR analysis indicated that PnAG1-2 gene expresses more in J11 (an A. flavus-resistant variety) than in JH1012 (an A. flavus-susceptible variety) when the harvest time was coming. Conclusions: In this study, the NBS-LRR resistance sequence was successfully cloned from... |
| Tipo: Journal article |
Palavras-chave: Bioinformatics; NBS-LRR; Peanut; Real-time fluorescence quantitative PCR. |
| Ano: 2011 |
URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582011000600006 |
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| Boulila,Moncef. |
| A detailed study of putative recombination events and their evolution frequency in the whole genome of the currently known members of the family Tombusviridae, comprising 79 accessions retrieved from the international databases, was carried out by using the RECCO and RDP version 3.31β algorithms. The first program allowed the detection of potential recombination sites in seven out of eight virus genera (Aureusvirus, Avenavirus, Carmovirus, Dianthovirus, Necrovirus, Panicovirus, and Tombusvirus), the second program provided the same results except for genus Dianthovirus. On the other hand, both methods failed to detect recombination breakpoints in the genome of members of genus Machlomovirus. Furthermore, based on Fisher's Exact Test of Neutrality, positive... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Bioinformatics; Phylogeny; Recombination; Positive selection; Tombusviridae; Sequence; Taxonomy. |
| Ano: 2011 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572011000400018 |
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| Guimarães-Dias,Fábia; Neves-Borges,Anna Cristina; Viana,Antonio Americo Barbosa; Mesquita,Rosilene Oliveira; Romano,Eduardo; Grossi-de-Sá,Maria de Fátima; Nepomuceno,Alexandre Lima; Loureiro,Marcelo Ehlers; Alves-Ferreira,Márcio. |
| Metabolomics analysis of wild type Arabidopsis thaliana plants, under control and drought stress conditions revealed several metabolic pathways that are induced under water deficit. The metabolic response to drought stress is also associated with ABA dependent and independent pathways, allowing a better understanding of the molecular mechanisms in this model plant. Through combining an in silico approach and gene expression analysis by quantitative real-time PCR, the present work aims at identifying genes of soybean metabolic pathways potentially associated with water deficit. Digital expression patterns of Arabidopsis genes, which were selected based on the basis of literature reports, were evaluated under drought stress condition by Genevestigator. Genes... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Glycine max; Drought resistance; QPCR; Metabolic pathway; Bioinformatics. |
| Ano: 2012 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000200004 |
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| Registros recuperados: 1.312 | |
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