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Id: biblio-1223238
Autor: Li, Xianjun; Wang, Junhuan; Wu, Wei; Jia, Yang; Fan, Shuanghu; Su Hlaing, Thet; Khokhar, Ibatsam; Yan, Yanchun.
Título: Cometabolic biodegradation of quizalofop-p-ethyl by Methylobacterium populi YC-XJ1 and identification of QPEH1 esterase
Fonte: Electron. j. biotechnol;46:38-49, jul. 2020. ilus, graf.
Idioma: en.
Projeto: National Natural Science Foundation of China; . Basic Research Fund of Chinese Academy of Agricultural Sciences.
Resumo: BACKGROUND: Quizalofop-p-ethyl (QPE), a unitary R configuration aromatic oxyphenoxypropionic acid ester (AOPP) herbicide, was widely used and had led to detrimental environmental effects. For finding the QPEdegrading bacteria and promoting the biodegradation of QPE, a series of studies were carried out. RESULTS: A QPE-degrading bacterial strain YC-XJ1 was isolated from desert soil and identified as Methylobacterium populi, which could degrade QPE with methanol by cometabolism. Ninety-seven percent of QPE (50 mg/L) could be degraded within 72 h under optimum biodegradation condition of 35°C and pH 8.0. The maximum degradation rate of QPE was 1.4 mg/L/h, and the strain YC-XJ1 exhibited some certain salinity tolerance. Two novel metabolites, 2-hydroxy-6-chloroquinoxaline and quinoxaline, were found by high-performance liquid chromatography/mass spectroscopy analysis. The metabolic pathway of QPE was predicted. The catalytic efficiency of strain YC-XJ1 toward different AOPPs herbicides in descending order was as follows: haloxyfop-pmethyl ≈ diclofop-methyl ≈ fluazifop-p-butyl N clodinafop-propargyl N cyhalofop-butyl N quizalofop-p-ethyl N fenoxaprop-p-ethyl N propaquizafop N quizalofop-p-tefuryl. The genome of strain YC-XJ1 was sequenced using a combination of PacBio RS II and Illumina platforms. According to the annotation result, one α/ß hydrolase gene was selected and named qpeh1, for which QPE-degrading function has obtained validation. Based on the phylogenetic analysis and multiple sequence alignment with other QPE-degrading esterases reported previously, the QPEH1 was clustered with esterase family V. CONCLUSION: M. populi YC-XJ1 could degrade QPE with a novel pathway, and the qpeh1 gene was identified as one of QPE-degrading esterase gene.
Descritores: Propionatos/metabolismo
Quinoxalinas/metabolismo
Methylobacterium/metabolismo
-Microbiologia do Solo
Biodegradação Ambiental
Methylobacterium/enzimologia
Methylobacterium/genética
Análise de Sequência de Proteína
Esterases/análise
Esterases/metabolismo
Herbicidas
Hidrolases/análise
Hidrolases/metabolismo
Hidrólise
Responsável: CL1.1 - Biblioteca Central


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Texto completo SciELO Chile
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Id: biblio-950799
Autor: Ali, Shabana Kouser; George Priya Doss, C; Thirumal Kumar, D; Zhu, Hailong.
Título: CoagVDb: a comprehensive database for coagulation factors and their associated SAPs
Fonte: Biol. Res;48:1-8, 2015. graf.
Idioma: en.
Projeto: Research Grants Council of Hong Kong; . Grants Council of Hong Kong.
Resumo: The current state of the art in medical genetics is to identify and classify the functional (deleterious) or non-functional (neutral) single amino acid substitutions (SAPs), also known as non-synonymous SNPs (nsSNPs). The primary goal is to elucidate the mechanisms through which functional SAPs exert their effects, and ultimately interrogating this information for association with complex phenotypes. This work focuses on coagulation factors involved in the coagulation cascade pathway which plays a vital role in the maintenance of homeostasis in the human system. We developed an integrated coagulation variation database, CoagVDb, which makes use of the biological information from various public databases such as NCBI, OMIM, UniProt, PDB and SAPs (rsIDs/variant). CoagVDb enriched with computational prediction scores classify SAPs as either deleterious or tolerated. Also, various other properties are incorporated such as amino acid composition, secondary structure elements, solvent accessibility, ordered/disordered regions, conservation, and the presence of disulfide bonds. This specialized database provides integration of various prediction scores from different computational methods along with gene, protein, and disease information. We hope our database will act as a useful reference resource for hematologists to reveal protein structure-function relationship and disease genotype-phenotype correlation.
Descritores: Fatores de Coagulação Sanguínea/genética
Biologia Computacional
Substituição de Aminoácidos/genética
Análise de Sequência de Proteína
Polimorfismo de Nucleotídeo Único
-Fenótipo
Bases de Dados Factuais
Genótipo
Limites: Humanos
Tipo de Publ: Research Support, Non-U.S. Gov't
Responsável: CL1.1 - Biblioteca Central


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Id: biblio-950841
Autor: Salazar, Claudia; Valdivia, Gonzalo; Ardiles, Álvaro O; Ewer, John; Palacios, Adrian G.
Título: Genetic variants associated with neurodegenerative Alzheimer disease in natural models
Fonte: Biol. Res;49:1-9, 2016. graf, tab.
Idioma: en.
Projeto: FONDECYT; . Millennium Institute; . Pontificia Universidad Católica de Valparaiso. Instituto de Quimica.
Resumo: The use of transgenic models for the study of neurodegenerative diseases has made valuable contributions to the field. However, some important limitations, including protein overexpression and general systemic compensation for the missing genes, has caused researchers to seek natural models that show the main biomarkers of neurodegenerative diseases during aging. Here we review some of these models-most of them rodents, focusing especially on the genetic variations in biomarkers for Alzheimer diseases, in order to explain their relationships with variants associated with the occurrence of the disease in humans.
Descritores: Variação Genética
Modelos Animais de Doenças
Doença de Alzheimer/genética
-Envelhecimento/genética
Animais Geneticamente Modificados
Análise de Sequência de Proteína
Código de Barras de DNA Taxonômico
Limites: Humanos
Animais
Cobaias
Camundongos
Ratos
Tipo de Publ: Research Support, Non-U.S. Gov't
Revisão
Responsável: CL1.1 - Biblioteca Central


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Id: biblio-950870
Autor: Pérez-Ibave, Diana Cristina; González-Alvarez, Rafael; Martinez-Fierro, Margarita de La Luz; Ruiz-Ayma, Gabriel; Luna-Munoz, Maricela; Martínez-De-Villarreal, Laura Elia; Garza-Rodríguez, María De Lourdes; Reséndez-Pérez, Diana; Mohamed-Noriega, Jibran; Garza-Guajardo, Raquel; Bautista-De-Lucío, Victor Manuel; Mohamed-Noriega, Karim; Barboza-Quintana, Oralia; Arámburo-De-La-Hoz, Carlos; Barrera-Saldana, Hugo Alberto; Rodríguez-Sánchez, Irám Pablo.
Título: Olfactomedin-like 2 A and B (OLFML2A and OLFML2B) expression profile in primates (human and baboon)
Fonte: Biol. Res;49:1-12, 2016. ilus, graf, tab.
Idioma: en.
Projeto: Mexican Council of Science and Technology.
Resumo: BACKGROUND: The olfactomedin-like domain (OLFML) is present in at least four families of proteins, including OLFML2A and OLFML2B, which are expressed in adult rat retina cells. However, no expression of their orthologous has ever been reported in human and baboon. OBJECTIVE: The aim of this study was to investigate the expression of OLFML2A and OLFML2B in ocular tissues of baboons (Papio hamadryas) and humans, as a key to elucidate OLFML function in eye physiology. METHODS: OLFML2A and OLFML2B cDNA detection in ocular tissues of these species was performed by RT-PCR. The amplicons were cloned and sequenced, phylogenetically analyzed and their proteins products were confirmed by immunofluorescence assays. RESULTS: OLFML2A and OLFML2B transcripts were found in human cornea, lens and retina and in baboon cornea, lens, iris and retina. The baboon OLFML2A and OLFML2B ORF sequences have 96% similarity with their human's orthologous. OLFML2A and OLFML2B evolution fits the hypothesis of purifying selection. Phylogenetic analysis shows clear orthology in OLFML2A genes, while OLFML2B orthology is not clear. CONCLUSIONS: Expression of OLFML2A and OLFML2B in human and baboon ocular tissues, including their high similarity, make the baboon a powerful model to deduce the physiological and/or metabolic function of these proteins in the eye.
Descritores: Glicoproteínas/metabolismo
Proteínas da Matriz Extracelular/metabolismo
Olho/metabolismo
Proteínas de Membrana/metabolismo
-Papio
Valores de Referência
Glicoproteínas/análise
Glicoproteínas/genética
Proteínas da Matriz Extracelular/análise
Proteínas da Matriz Extracelular/genética
Imunofluorescência/métodos
Evolução Molecular
Reação em Cadeia da Polimerase Via Transcriptase Reversa
Análise de Sequência de Proteína
Transcrição Reversa
Olho/química
Código de Barras de DNA Taxonômico
Proteínas de Membrana/análise
Proteínas de Membrana/genética
Fenômenos Fisiológicos Oculares
Limites: Humanos
Animais
Responsável: CL1.1 - Biblioteca Central


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Id: biblio-889085
Autor: Teng, Feixiang; Sun, Jinxia; Yu, Lili; Li, Qisong; Cui, Yubao.
Título: Homology modeling and epitope prediction of Der f 33
Fonte: Braz. j. med. biol. res = Rev. bras. pesqui. méd. biol;51(5):e6213, 2018. tab, graf.
Idioma: en.
Projeto: National Natural Sciences Foundation; . Key Program of Wuxi health and Family Planning Commission; . 333 project of Jiangsu Province.
Resumo: Dermatophagoides farinae (Der f), one of the main species of house dust mites, produces more than 30 allergens. A recently identified allergen belonging to the alpha-tubulin protein family, Der f 33, has not been characterized in detail. In this study, we used bioinformatics tools to construct the secondary and tertiary structures and predict the B and T cell epitopes of Der f 33. First, protein attribution, protein patterns, and physicochemical properties were predicted. Then, a reasonable tertiary structure was constructed by homology modeling. In addition, six B cell epitopes (amino acid positions 34-45, 63-67, 103-108, 224-230, 308-316, and 365-377) and four T cell epitopes (positions 178-186, 241-249, 335-343, and 402-410) were predicted. These results established a theoretical basis for further studies and eventual epitope-based vaccine design against Der f 33.
Descritores: Tubulina (Proteína)/química
Alérgenos/química
Epitopos de Linfócito T/química
Epitopos de Linfócito B/química
Dermatophagoides farinae/química
Antígenos de Dermatophagoides/química
-Tubulina (Proteína)/genética
Tubulina (Proteína)/imunologia
Alérgenos/genética
Alérgenos/imunologia
Estrutura Molecular
Estrutura Terciária de Proteína
Mapeamento de Epitopos
Epitopos de Linfócito T/genética
Epitopos de Linfócito B/genética
Biologia Computacional
Análise de Sequência de Proteína
Dermatophagoides farinae/genética
Dermatophagoides farinae/imunologia
Antígenos de Dermatophagoides/genética
Antígenos de Dermatophagoides/imunologia
Limites: Animais
Responsável: BR1.1 - BIREME


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Id: biblio-841780
Autor: Sodero, Ana Carolina Rennó; Abrahim-Vieira, Bárbara; Torres, Pedro Henrique Monteiro; Pascutti, Pedro Geraldo; Garcia, Célia RS; Ferreira, Vitor Francisco; Rocha, David Rodrigues da; Ferreira, Sabrina Baptista; Silva Jr, Floriano Paes.
Título: Insights into cytochrome bc1 complex binding mode of antimalarial 2-hydroxy-1, 4-naphthoquinones through molecular modelling
Fonte: Mem. Inst. Oswaldo Cruz;112(4):299-308, Apr. 2017. tab, graf.
Idioma: en.
Projeto: FAPESP.
Resumo: BACKGROUND Malaria persists as a major public health problem. Atovaquone is a drug that inhibits the respiratory chain of Plasmodium falciparum, but with serious limitations like known resistance, low bioavailability and high plasma protein binding. OBJECTIVES The aim of this work was to perform molecular modelling studies of 2-hydroxy-1,4-naphthoquinones analogues of atovaquone on the Qo site of P. falciparum cytochrome bc1 complex (Pfbc1) to suggest structural modifications that could improve their antimalarial activity. METHODS We have built the homology model of the cytochrome b (CYB) and Rieske iron-sulfur protein (ISP) subunits from Pfbc1 and performed the molecular docking of 41 2-hydroxy-1,4-naphthoquinones with known in vitro antimalarial activity and predicted to act on this target. FINDINGS Results suggest that large hydrophobic R2 substituents may be important for filling the deep hydrophobic Qo site pocket. Moreover, our analysis indicates that the H-donor 2-hydroxyl group may not be crucial for efficient binding and inhibition of Pfbc1 by these atovaquone analogues. The C1 carbonyl group (H-acceptor) is more frequently involved in the important hydrogen bonding interaction with His152 of the Rieske ISP subunit. MAIN CONCLUSIONS Additional interactions involving residues such as Ile258 and residues required for efficient catalysis (e.g., Glu261) could be explored in drug design to avoid development of drug resistance by the parasite.
Descritores: Plasmodium falciparum/efeitos dos fármacos
Complexo III da Cadeia de Transporte de Elétrons/química
Antimaláricos/farmacologia
Antimaláricos/química
-Naftoquinonas/química
Análise de Sequência de Proteína
Responsável: BR1.1 - BIREME


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Id: lil-633044
Autor: Duboscq, Cristina; Kordich, Lucía.
Título: Influencia de las variables preanalíticas en la determinación de proteína S / Influence of preanalytical variables in S protein determination
Fonte: Acta bioquím. clín. latinoam;42(1):89-93, ene.-mar. 2008. graf.
Idioma: es.
Resumo: La proteína S (PS) regula el sistema de coagulación mostrando actividad de cofactor de la Proteína C activada (PCa) con la cual forma un complejo equimolecular. En presencia de iones calcio este complejo inactiva por proteólisis los factores V y VIII activados por trombina. La proteína S plasmática circula 40% libre (fracción que presenta actividad de cofactor de la PCa) y 60% unida al C4-BP (proteína ligante de la fracción C4 del complemento). El objetivo fue comparar el dosaje de PS realizado por método coagulable e inmunoturbidimétrico e investigar cómo las variables preanalíticas afectan los niveles de PS determinados. Se obtuvieron los siguientes resultados: método coagulable: CV intra ensayo: (n=20): 4%, CV interensayo (n=20, 3 días): 3,4%. Método inmunoturbidimétrico: CV intraensayo (n=20): 3,7%.CV Inter. ensayo (n=20,3 días): 4,5%. Existe buena correlación (R2=0,94) entre ambos métodos, cuando la calibración por el método coagulable se realiza en la misma corrida analítica que las muestras. Cuando se realizó el estudio de Bland y Altman los dos métodos mostraron ser comparables en todos los niveles de PS estudiados. No se observaron diferencias significativas entre las muestras determinadas frescas y conservadas a -20 y -80 °C descongeladas solo una vez.

Protein S has an essential anticoagulant function acting as activated Protein C cofactor and forming an equimolecular complex with it. In the presence of calcium this complex regulates the coagulation process inactivating thrombin activated factors V and VIII by proteolysis. In plasma there are two different forms: a) free Protein S which acts as the cofactor of activated protein C (representing about 40% of total Protein S) and b) C4-BP(C4 binding protein) bound protein S which exhibits no activity as cofactor of activated Protein C (representing about 60% of total PS). The objetive was to compare the PS dosage determination by two methods: immunoturbidimetric and clotting, and to investigate how pre-analytical variables affect the results. The following results were obtained: Clotting method: CV intra assay: (n=20): 4%, CV interassay (n=20, 3 days): 3.4%; immunoturbidimetric method CV intra assay (n=20): 3.7%: CV inter assay (n=20.3 days): 4.5%. There is a good correlation (R2 = 0.94) between both methods; when the clotting method is calibrated in batch with the samples. There is significant difference between fresh and frozen ( -20 °C and -80 °C) samples when the latter have been desfrozen only once.
Descritores: Proteína S/análise
Análise de Sequência de Proteína/métodos
-Valores de Referência
Proteína C
Controle Analítico de Qualidade/métodos
Limites: Humanos
Tipo de Publ: Estudo Comparativo
Responsável: AR1.2 - Instituto de Investigaciónes Epidemiológicas


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Id: lil-729793
Autor: Fu, Chunyun; Chen, Shaoke; Chen, Rongyu; Fan, Xin; Luo, Jingsi; Li, Chuan; Qian, Jiale.
Título: Mutation screening of the sodium iodide symporter gene in a cohort of 105 China patients with congenital hypothyroidism / Análise de mutações no gene simportador sódio/iodeto em coorte de 105 pacientes chineses com hipotireoidismo congênito
Fonte: Arq. bras. endocrinol. metab;58(8):828-832, 11/2014. tab, graf.
Idioma: en.
Projeto: National Natural Science Foundation of China; . Guangxi Natural Science Foundation Program.
Resumo: Objective Dyshormonogenetic congenital hypothyroidism (CH) was reported to be associated with a mutation in the sodium iodide symporter (NIS) gene. The present study was undertaken in the Guangxi Zhuang Autonomous Region of China, to determine the nature and frequency of NIS gene mutations among patients with CH due to dyshormonogenesis. Subjects and methods: Blood samples were collected from 105 dyshormonogenetic CH patients in Guangxi Zhuang Autonomous Region, China, and genomic DNA was extracted from peripheral blood leukocytes. All exons of the NIS gene together with their exon-intron boundaries were screened by next-generation sequencing. Results Two silent variations (T221T and T557T) and one missense variation (M435L), as well as two polymorphisms (rs200587561 and rs117626343) were found. Conclusions Our results indicate that the NIS mutation rate is very low in the Guangxi Zhuang Autonomous Region, China, and it is necessary to study mutations of other genes that have major effects on thyroid dyshormonogenesis and have not as yet been studied in this population. .

Objetivo O hipotireoidismo congênito disormonogenético (CH) foi relatado como associado a uma mutação no gene simportador sódio/iodeto (NIS). O presente estudo foi feito na região autônoma de Guangxi Zhuang na China para se determinar a natureza e a frequência das mutações no gene NIS entre pacientes com CH causado por disormonogênese. Sujeitos e métodos: Amostras de sangue foram coletadas de 105 pacientes com CH disormonogenéticos e o DNA genômico foi extraído de leucócitos do sangue periférico. Todos os éxons do gene NIS, junto com seus limites éxon-íntron, foram analisados por sequenciamento de nova geração. Resultados Foram encontradas duas variações silenciosas (T221T e T557T) e uma variação missense (M435L), assim como dois polimorfismos (rs200587561 e rs117626343). Conclusões Nossos resultados indicam que a taxa de mutação em NIS é muito baixa na região de Guangxi Zhuang. É necessário estudar mutações de outros genes que tenham efeitos maiores na disormonogênese da tiroide e que ainda não tenham sido estudados nesta população. .
Descritores: Hipotireoidismo Congênito/genética
Frequência do Gene/genética
Mutação
Simportadores/genética
-China
Estudos de Coortes
DNA
Éxons/genética
Triagem Neonatal
Reação em Cadeia da Polimerase
Polimorfismo Genético/genética
Análise de Sequência de Proteína/métodos
Simportadores/química
Limites: Humanos
Recém-Nascido
Tipo de Publ: Research Support, Non-U.S. Gov't
Responsável: BR1.1 - BIREME


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Id: lil-728810
Autor: Arêas, Glauber P; Schuab, Rôde BB; Neves, Felipe PG; Barros, Rosana R.
Título: Antimicrobial susceptibility patterns, emm type distribution and genetic diversity of Streptococcus pyogenes recovered in Brazil
Fonte: Mem. Inst. Oswaldo Cruz;109(7):935-939, 11/2014. tab, graf.
Idioma: en.
Resumo: Streptococcus pyogenes is responsible for a variety of infectious diseases and immunological complications. In this study, 91 isolates of S. pyogenes recovered from oropharynx secretions were submitted to antimicrobial susceptibility testing, emm typing and pulsed-field gel electrophoresis (PFGE) analysis. All isolates were susceptible to ceftriaxone, levofloxacin, penicillin G and vancomycin. Resistance to erythromycin and clindamycin was 15.4%, which is higher than previous reports from this area, while 20.9% of the isolates were not susceptible to tetracycline. The macrolide resistance phenotypes were cMLSB (10) and iMLSB (4). The ermB gene was predominant, followed by the ermA gene. Thirty-two emm types and subtypes were found, but five (emm1, emm4, emm12, emm22, emm81) were detected in 48% of the isolates. Three new emm subtypes were identified (emm1.74, emm58.14, emm76.7). There was a strong association between emm type and PFGE clustering. A variety of PFGE profiles as well as emm types were found among tetracycline and erythromycin-resistant isolates, demonstrating that antimicrobial resistant strains do not result from the expansion of one or a few clones. This study provides epidemiological data that contribute to the development of suitable strategies for the prevention and treatment of such infections in a poorly studied area.
Descritores: Variação Genética/genética
Resistência às Penicilinas/genética
Infecções Estreptocócicas/epidemiologia
Streptococcus pyogenes/efeitos dos fármacos
Streptococcus pyogenes/genética
Resistência a Vancomicina/genética
-Antibacterianos/farmacologia
Técnicas de Tipagem Bacteriana
Brasil/epidemiologia
Eritromicina/farmacologia
Genótipo
Macrolídeos/farmacologia
Orofaringe
Fenótipo
Análise de Sequência de Proteína/métodos
Infecções Estreptocócicas/prevenção & controle
Streptococcus pyogenes/classificação
Limites: Adolescente
Adulto
Criança
Pré-Escolar
Feminino
Humanos
Masculino
Pessoa de Meia-Idade
Adulto Jovem
Responsável: BR1.1 - BIREME


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Id: lil-717174
Autor: Falcón Almeida, Yadira; Quesada Leyva, Lidyce; Sosa Mendoza, Odalys; Fernández Torres, Sandra; Ruiz Hunt, Zaddys; García Chaviano, Ludmila.
Título: Estabilidad de un suero control para proteínas totales como controlador bioquímico en los laboratorios clínicos / Stability of a control serum for total proteins used as a biochemical controller in clinical laboratories
Fonte: Arch. méd. Camaguey;18(4):401-414, jul.-ago. 2014. graf.
Idioma: es.
Resumo: FUNDAMENTO: una de las vías fundamentales para garantizar la calidad en los laboratorios clínicos es mediante el uso del suero control o controlador. El alto costo de estos productos en el mercado nacional es una problemática hoy en día. OBJETIVO: evaluar la estabilidad de un suero bovino adulto para proteínas totales como controlador bioquímico en los laboratorios clínicos. MÉTODO: se realizó un estudio cuasiexperimental, mediante muestreo probabilístico durante tres años (enero de 2010-diciembre de 2012). Se evaluó la estabilidad a tiempo real del suero enriquecido con proteínas totales durante 12 meses a dos temperaturas (refrigeración y congelación). El estudio quedó diseñado para tres lotes por mes y tres determinaciones por lote, para un número total de muestra del estudio (N=63). RESULTADOS: se obtuvo un suero control líquido para proteínas totales. La concentración de proteínas totales, en el producto obtenido en condiciones de refrigeración y congelación se mantuvieron estables por un tiempo de 12 meses. El producto obtenido al compararse con el suero control de la firma OLYMPUS, mostró fluctuaciones similares con respecto a la concentración de proteínas totales. CONCLUSIONES: se logró un material de referencia como controlador estable por un período de 12 meses.

BACKGROUND: one of the main ways to guarantee the quality in clinical labs is by using a control serum or controller. A problem we face is the lack of these products in the domestic market due to their high cost. OBJECTIVE: to evaluate the stability of an adult bovine serum for total proteins as a biochemical controller in clinical labs. METHOD: a quasiexperiment was conducted during three years (January 2010- December 2012) through a probabilistic sampling. The stability in real time of the serum enriched with total proteins was evaluated during 12 months under two temperatures (refrigeration and freezing). The study was designed for three batches per month and three determinations per batch, for a total number of sample of the study (N=63). RESULTS: a liquid control serum for total proteins was obtained. The concentration of total proteins in the product obtained under refrigeration and freezing conditions kept stable for 12 months. The obtained product, when compared to the control serum from the company OLYMPUS, showed similar fluctuations regarding the concentration of total proteins. CONCLUSIONS: a reference material was obtained as a stable controller for a period of 12 months..
Descritores: Controle de Qualidade
Padrões de Referência
Análise de Sequência de Proteína
Soro/química
-Epidemiologia Experimental
Limites: Humanos
Responsável: CU1.1 - Biblioteca Médica Nacional



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