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2.
J Biosci ; 44(4)2019 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-31502558

RESUMO

Accumulating evidence suggest that microRNAs play crucial roles in the development and progression of bladder cancer (BC). Here, we found that miR-212-3p was significantly down-regulated and negatively correlated with nuclear factor IA (NFIA) in human BC tissues. Bioinformatics analysis predicted that NFIA was a target gene of miR-212-3p. Then BC cell lines, T24 and J82 cells were transfected with miR-212-3p mimics or siNFIA to obtain miR-212-3p overexpression or NFIA knockdown cell lines, respectively. Quantitative real-time PCR was used to determine the expression of miR-212-3p and NFIA. Western blot analysis was utilized to detect NFIA expression. MTT assay showed either miR-212-3 overexpression or NFIA knockdown significantly inhibited the BC cell proliferation. Double staining with Annexin V-APC and 7-AAD showed the total number of apoptotic BC cells were remarkably increased after miR-212-3p overexpression or NFIA knockdown. Collectively, our results indicated that miR-212-3p targeting NFIA might serve as a promising target for BC.

3.
Nat Plants ; 5(8): 822-832, 2019 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-31383969

RESUMO

The non-random three-dimensional (3D) organization of the genome in the nucleus is critical to gene regulation and genome function. Using high-throughput chromatin conformation capture, we generated chromatin interaction maps for Brassica rapa and Brassica oleracea at a high resolution and characterized the conservation and divergence of chromatin organization in these two species. Large-scale chromatin structures, including A/B compartments and topologically associating domains, are notably conserved between B. rapa and B. oleracea, yet their KNOT structures are highly divergent. We found that genes retained in less fractionated subgenomes exhibited stronger interaction strengths, and diploidization-resistant duplicates retained in pairs or triplets are more likely to be colocalized in both B. rapa and B. oleracea. These observations suggest that spatial constraint in duplicated genes is correlated to their biased retention in the diploidization process. In addition, we found strong similarities in the epigenetic modification and Gene Ontology terms of colocalized paralogues, which were largely conserved across B. rapa and B. oleracea, indicating functional constraints on their 3D positioning in the nucleus. This study presents an investigation of the spatial organization of genomes in Brassica and provides insights on the role of 3D organization in the genome evolution of this genus.

4.
Biomed Res Int ; 2019: 1603712, 2019.
Artigo em Inglês | MEDLINE | ID: mdl-31223611

RESUMO

Objectives: To build a guideline for the individual treatment of Tetralogy of Fallot (TOF) with major aortopulmonary collaterals (MAPCAs) and tentatively establish the occlusion index of MAPCAs. Methods: According to the diameter of the aortopulmonary collaterals (R: mm) and the bodyweight of the children (weight: kg), K= ((∑R 2)/Wt) was set as the occlusion index of TOF with MAPCAs. A retrospective study was initially performed in 171 patients who suffered from TOF with MAPCAs and underwent cardiac malformation repair to investigate the intervals of the K value: K≥2, 1

5.
Arch Virol ; 164(8): 2119-2129, 2019 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-31147766

RESUMO

Rabies is a fatal disease caused by infection with rabies virus (RABV), and human rabies is still a critical public-health concern in China. Although there have been some phylogenetic studies about RABV transmission patterns, with the accumulation of more rabies sequences in recent years, there is an urgent need to update and clarify the spatial and temporal patterns of RABV circulating in China on a national scale. In this study, we collected all available RABV nucleoprotein gene sequences from China and its neighboring countries and performed comparative analysis. We identified six significant subclades of RABV circulating in China and found that each of them has a specific geographical distribution, reflecting possible physical barriers to gene flow. The phylogeographic analysis revealed minimal viral movement among different geographical locations. An analysis using Bayesian coalescent methods indicated that the current RABV strains in China may come from a common ancestor about 400 years ago, and currently, China is amid the second event of increasing RABV population since the 1950s, but the population has decreased gradually. We did not detect any evidence of recombination in the sequence dataset, nor did we find any evidence for positive selection during the expansion of RABV. Overall, geographic location and neutral genetic drift may be the main factors in shaping the phylogeography of RABV transmission in China.


Assuntos
Vírus da Raiva/genética , Raiva/transmissão , Animais , Teorema de Bayes , China , Evolução Molecular , Humanos , Epidemiologia Molecular/métodos , Nucleoproteínas/genética , Filogenia , Filogeografia/métodos , RNA Viral/genética , Raiva/virologia , Análise de Sequência de DNA/métodos
6.
Mol Genet Genomic Med ; 7(8): e778, 2019 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-31228357

RESUMO

BACKGROUND: MIR155HG plays an important role in malignant tumors, but it is rarely reported in the occurrence and development of colorectal cancer (CRC). This study investigated the effects of MIR155HG polymorphisms on CRC susceptibility from the perspective of molecular genetics. METHODS: Eight SNPs in MIR155HG were selected and genotyped among 514 CRC cases and 510 healthy controls using the Agena MassARRAY platform. The associations between these SNPs and the CRC risk were evaluated under genetic models using conditional logistic regression analysis. The HaploReg v4.1 database was used for SNPs functional prediction. RESULTS: The allele "C" of rs12482371 (p = 0.047), allele "C" of rs1893650 (p = 0.025), and the allele "A" of rs928883 (p = 0.037) in MIR155HG were significantly associated with CRC risk. Genetic model analysis revealed that rs12482371 and rs1893650 increased CRC risk; whereas rs928883 was associated with reduced CRC risk. Stratification analysis showed that rs9383938 was a protective factor in CRC patients under 60 years old. Rs12482371 and rs1893650 were associated with the CRC risk in females. Rs11911469 and rs34904192 may affect the clinical stage and lymph node metastasis. Moreover, the haplotypes CTT and GTC of LD block rs4143370|rs77218221|rs12482371, and the haplotypes CATGA and CACGG of LD block rs77699734|rs11911469|rs1893650|rs34904192|rs928883 were significantly associated with CRC risk. CONCLUSION: This study revealed that MIR155HG SNPs were associated with CRC susceptibility and could be predictive biomarkers for CRC risk.

7.
J Comput Biol ; 26(5): 473-484, 2019 May.
Artigo em Inglês | MEDLINE | ID: mdl-30977675

RESUMO

Karyotype analysis has important clinical significance in the diagnosis, treatment, and prognosis of diseases such as birth defects and hematological tumors. Identifying chromosomes and their structure variations from G-banded metaphase images is an important process in karyotyping, and also is the most difficult one. Automatic chromosome classification becomes urgent in recent years since more and more samples of patients are subject to medical test such as bone marrow biopsy. With the development of artificial intelligence, convolutional neural networks (CNNs) have shown good performance in image recognition. In this study, a CNN with 6 convolutional layers, 3 pooling layers, 4 dropout layers, and 2 fully connected layers was trained using the labeled data set to classify chromosomes into 24 classes through softmax activation function mapping. The classifier gave an accuracy of 93.79% for chromosome identification. The result demonstrated that the CNN has potential application value in chromosome classification and will contribute to the construction of an automatic karyotyping platform.

8.
BMC Genomics ; 20(1): 317, 2019 Apr 25.
Artigo em Inglês | MEDLINE | ID: mdl-31023229

RESUMO

BACKGROUND: WUSCHEL-related homeobox (WOX) genes encoding plant-specific homeobox (HB) transcription factors play important roles in the growth and development of plants. To date, WOX genes has been identified and analyzed in many polyploids (such as cotton and tobacco), but the evolutionary analysis of them during polyploidization is rare. With the completion of genome sequencing, allotetraploid Brassica napus and its diploid progenitors (B. rapa and B. oleracea) are a good system for studying this question. RESULTS: In this study, 52, 25 and 29 WOX genes were identified in allotetraploid B. napus (2n = 4x = 38, AnCn), the An genome donor B. rapa (2n = 2x = 20, Ar) and the Cn genome donor B. oleracea (2n = 2x = 18, Co), respectively. All identified WOX genes in B. napus and its diploid progenitors were divided into three clades, and these genes were selected to perform gene structure and chromosome location analysis. The results showed that at least 70 and 67% of WOX genes maintained the same gene structure and relative position on chromosomes, respectively, indicating that WOX genes in B. napus were highly conserved at the DNA level during polyploidization. In addition, the analysis of duplicated genes and transposable elements (TEs) near WOX genes showed that whole-genome triplication (WGT) events, segmental duplication and abundant TEs played important roles in the expansion of the WOX gene family in B. napus. Moreover, the analysis of the expression profiles of WOX gene pairs with evolutionary relationships suggested that the WOX gene family may have changed at the transcriptional regulation level during polyploidization. CONCLUSIONS: The results of this study increased our understanding of the WOX genes in B. napus and its diploid progenitors, providing a rich resource for further study of WOX genes in these species. In addition, the changes in WOX genes during the process of polyploidization were discussed from the aspects of gene number, gene structure, gene relative location and gene expression, which provides a reference for future polyploidization analysis.


Assuntos
Brassica napus/genética , Genoma de Planta , Proteínas de Homeodomínio/genética , Mapeamento Cromossômico , Elementos de DNA Transponíveis/genética , Diploide , Regulação da Expressão Gênica de Plantas , Proteínas de Homeodomínio/classificação , Família Multigênica , Filogenia , Poliploidia
9.
BMC Plant Biol ; 19(1): 110, 2019 Mar 21.
Artigo em Inglês | MEDLINE | ID: mdl-30898097

RESUMO

BACKGROUND: Polyploidization is a common event in the evolutionary history of angiosperms, and there will be some changes in the genomes of plants other than a simple genomic doubling after polyploidization. Allotetraploid Brassica napus and its diploid progenitors (B. rapa and B. oleracea) are a good group for studying the problems associated with polyploidization. On the other hand, the EIN3/EIL gene family is an important gene family in plants, all members of which are key genes in the ethylene signaling pathway. Until now, the EIN3/EIL gene family in B. napus and its diploid progenitors have been largely unknown, so it is necessary to comprehensively identify and analyze this gene family. RESULTS: In this study, 13, 7 and 7 EIN3/EIL genes were identified in B. napus (2n = 4x = 38, AnCn), B. rapa (2n = 2x = 20, Ar) and B. oleracea (2n = 2x = 18, Co). All of the identified EIN3/EIL proteins were divided into 3 clades and further divided into 8 sub-clades. Ka/Ks analysis showed that all identified EIN3/EIL genes underwent purifying selection after the duplication events. Moreover, gene structure analysis showed that some EIN3/EIL genes in B. napus acquired introns during polyploidization, and homolog expression bias analysis showed that B. napus was biased towards its diploid progenitor B. rapa. The promoters of the EIN3/EIL genes in B. napus contained more cis-acting elements, which were mainly involved in endosperm gene expression and light responsiveness, than its diploid progenitors. Thus, B. napus might have potential advantages in some biological aspects. CONCLUSIONS: The results indicated allotetraploid B. napus might have potential advantages in some biological aspects. Moreover, our results can increase the understanding of the evolution of the EIN3/EIL gene family in B. napus, and provided more reference for future research about polyploidization.


Assuntos
Brassica napus/genética , Genoma de Planta , Filogenia , Proteínas de Plantas/genética , Poliploidia , Sequência de Aminoácidos , Mapeamento Cromossômico , Sequência Conservada , Duplicação Gênica , Regulação da Expressão Gênica de Plantas , Família Multigênica , Proteínas de Plantas/metabolismo , Regiões Promotoras Genéticas , Sintenia
10.
Angew Chem Int Ed Engl ; 58(19): 6400-6404, 2019 May 06.
Artigo em Inglês | MEDLINE | ID: mdl-30815962

RESUMO

An efficient and divergent approach toward the synthesis of all four de-O-sulfonated sulfonium type α-glucosidase inhibitors, originally isolated from plants of genus Salacia, is reported for the first time. The key strategy features a coupling reaction between thiol derivatives and a diiodide counterpart. The newly designed thiol coupling partner presents high chemical stability, while the diiodide partner could be easily obtained with increased overall yields compared with conventional routes. The intermolecular nucleophilic substitution reaction followed by a diastereoselective intramolecular cyclization provided the target five-member sulfonium salt structure, which was connected in an α-orientation to a polyhydroxylated side-chain moiety.

11.
Food Chem ; 286: 322-328, 2019 Jul 15.
Artigo em Inglês | MEDLINE | ID: mdl-30827614

RESUMO

Benzenethiols are a class of flavoring ingredients used in the food, pharmaceutical, cosmetics and chemical industries. A rapid and visible colorimetric fluorescent probe was developed for the detection of benzenethiol flavors. It provides rapid quantitative detection of benzenethiols at low levels, down to a limit of 10 nM. Test paper containing the probe changes color according to benzenethiol concentration (from colorless to pink, visible with the naked eye). The probe was also successfully used to test benzenethiol concentrations in real food samples. This study demonstrates that this novel probe can be employed as a benzenethiol testing tool.


Assuntos
Colorimetria/métodos , Aromatizantes/análise , Corantes Fluorescentes/química , Fenóis/análise , Compostos de Sulfidrila/análise , Análise de Alimentos
12.
Food Chem ; 284: 23-27, 2019 Jun 30.
Artigo em Inglês | MEDLINE | ID: mdl-30744851

RESUMO

A novel coumarin-based fluorescent probe (probe 1) for the detection of copper(II) was developed. The fluorescence intensity of probe 1 showed a linear relationship with the concentration of copper(II) in the range 0-16 µM (0-1.02 mg/L) and the limit of detection was 62 nM (3.94 µg/L). The luminescence of probe 1 at the maximum allowable amounts of copper(II) in wine and water could be observed with the naked eye under a 365-nm ultraviolet lamp. Moreover, probe 1 was successfully used for the qualitative and quantitative detection of copper(II) in wine.


Assuntos
Cobre/análise , Cumarínicos , Corantes Fluorescentes , Vinho/análise , Fluorescência , Limite de Detecção , Espectrometria de Fluorescência , Água/química
13.
Artigo em Inglês | MEDLINE | ID: mdl-30762564

RESUMO

Fusion peptide (FP) is a pivotal domain for the entry of retrovirus into host cells to continue self-replication. The crucial role indicates that FP is a promising drug target for therapeutic intervention. A FP model proposed in our previous work is relatively not efficient to predict FP in retroviruses. Thus in this work, we come up with a new computational model to predict FP domains in all the retroviruses. It basically predicts FP domains through recognizing their start and end sites separately with SVM method combing the hydrophobicity knowledge of the subdomain around furin cleavage site. The classification accuracy rates are 91.91%, 91.20% and 89.13% respectively corresponding to jack-knife, 10-fold cross-validation and 5-fold cross-validation test. Secondly, this model discovered 69,753 and 493 putative FPs after scanning amino acid sequences and HERV DNA sequences both without FP annotations. Subsequently, a statistical analysis was performed on the 69,753 putative FP sequences, which confirms that FP is a hydrophobic domain. Lastly, we depicted the distribution of the 493 putative FP sequences on each human chromosome and each HERV family, which shows that FP of HERV probably has chromosome and family preference.

14.
Molecules ; 24(3)2019 Feb 06.
Artigo em Inglês | MEDLINE | ID: mdl-30736379

RESUMO

A group of nitrate derivatives of naturally occurring sauropunol A and B were designed and synthesized. Nitric oxide (NO) releasing capacity and vasodilatory capacity studies were performed to explore the structure-activity relationship of resulted nitrates. Biological evaluation of these compounds revealed that most of the synthesized mononitrate derivatives demonstrated superior releasing capacity than isosorbide mononitrate (ISMN), and 2MNS-6 even demonstrated stronger NO releasing capacity than isosorbide dinitrate (ISDN). Two dinitrates, DNS-1 and DNS-2, showed higher NO releasing capacity than ISDN. Evaluation of inhibitory activities to the contractions in mesenteric artery rings revealed that 2MNS-8 and DNS-2 showed stronger vasorelaxation activities than ISDN. High level of NO and soluble guanylyl cyclase (sGC) may be essential for the potent vasodilatory effect of DNS-2. The vasodilatory effects of DNS-2 may result from cellular signal transduction of NO-sGC-cGMP. DNS-2 was found to be the most potent sauropunol-derived nitrate vasodilatory agent for further pharmaceutical investigation against cardiovascular diseases.


Assuntos
Desenho de Drogas , Nitratos/química , Nitratos/farmacologia , Vasodilatadores/química , Vasodilatadores/farmacologia , Animais , Técnicas de Química Sintética , Técnicas In Vitro , Artérias Mesentéricas/efeitos dos fármacos , Estrutura Molecular , Nitratos/síntese química , Óxido Nítrico/química , Ratos , Relação Estrutura-Atividade , Vasodilatadores/síntese química
15.
Plant Mol Biol ; 99(3): 237-249, 2019 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-30632049

RESUMO

KEY MESSAGE: We provided a chromosome-length assembly of B. nigra and show the comprehensive chromosome-scale variations among Brassica genomes. Chromosome-level assembly of the Brassica species, which include many important crops, is essential for the agricultural and evolutionary studies. While the present B. nigra chromosomes was connected with genetic map of B. juncea, hindering the comparative analysis of the B chromosomes. Here we present a chromosome-length B. nigra assembly constructed with Hi-C connections and its variations on chromosome level compared with other Brassica species. We produced an assembly of 484 Mb annotated with 51,829 genes, of which 393 Mb were anchored onto 8 chromosomes, taking 81.26% of the assembly. Comparison of the B chromosomes shows high concordance of the two B. nigra assemblies and reveals comprehensive variations of the B chromosomes after polyploidization and gene loss in syntenic regions. Chromosome blocks with variations have lower gene density and higher TE content. Furthermore, we compared the chromosomes of the three major Brassica diploids, which showed that most of the variations between B and A/C had completed before A/C divergence and there are more variations on C chromosomes after their divergence. In summary, our work presents a chromosome-length assembly of B. nigra and comprehensive comparative analysis of the Brassica chromosomes, which provides a useful reference for other studies and comprehensive information of Brassica chromosome evolution.


Assuntos
Brassica/genética , Cromossomos de Plantas , Tamanho do Genoma , Genoma de Planta/genética , Brassica/classificação , Mapeamento Cromossômico , Elementos de DNA Transponíveis , Diploide , Evolução Molecular , Frequência do Gene , Genes de Plantas/genética , Alinhamento de Sequência , Análise de Sequência de DNA , Sintenia , Sequenciamento Completo do Genoma
16.
Genes (Basel) ; 10(1)2019 01 17.
Artigo em Inglês | MEDLINE | ID: mdl-30658516

RESUMO

The GH3 gene family plays a vital role in the phytohormone-related growth and developmental processes. The effects of allopolyploidization on GH3 gene structures and expression levels have not been reported. In this study, a total of 38, 25, and 66 GH3 genes were identified in Brassica rapa (ArAr), Brassica oleracea (CoCo), and Brassica napus (AnACnCn), respectively. BnaGH3 genes were unevenly distributed on chromosomes with 39 on An and 27 on Cn, in which six BnaGH3 genes may appear as new genes. The whole genome triplication allowed the GH3 gene family to expand in diploid ancestors, and allopolyploidization made the GH3 gene family re-expand in B. napus. For most BnaGH3 genes, the exon-intron compositions were similar to diploid ancestors, while the cis-element distributions were obviously different from its ancestors. After allopolyploidization, the expression patterns of GH3 genes from ancestor species changed greatly in B. napus, and the orthologous gene pairs between An/Ar and Cn/Co had diverged expression patterns across four tissues. Our study provides a comprehensive analysis of the GH3 gene family in B. napus, and these results could contribute to identifying genes with vital roles in phytohormone-related growth and developmental processes.

17.
Int Orthop ; 43(6): 1429-1434, 2019 06.
Artigo em Inglês | MEDLINE | ID: mdl-30666347

RESUMO

PURPOSE: To radiographically characterize the relationship between inferior displacement of great tuberosity (GT) fracture and associated occult or minor displaced humeral neck fracture. METHODS: Thirty patients with inferior displacement of the GT on the initial anterior-posterior (AP) view X-ray were included in this study. Twenty-four patients received further computed tomography (CT) scans. One patient with negative CT scans underwent MRI. Radiographic indexes included the cervico-diaphyseal angle, the distance of the inferior displacement of the GT fracture, the apex-tuberosity distance, and the direction of the GT shift on the 3D-CT scan. The measurement reliability was analyzed by calculating intra-class correlation (ICC) coefficients. The relationships between the parameters were revealed using Pearson correlation analysis. RESULTS: In the 30 cases, humeral neck fractures were detected by AP view X-ray (6 cases), CT (23 cases), and MRI (1 case). The mean cervico-diaphyseal angle was 146.7° ± 8.9°. The mean inferior displacement of the GT fracture was 13.4 ± 5.9 mm. The mean apex-tuberosity distance was 11.8 ± 2.8 mm. Posterior/inferior displacement of the GT fractures was observed in 24 patients via CT scan. All the evaluated parameters presented correlations among methods, indicating intra-rater and inter-rater reliability. The Pearson correlation analysis revealed that inferior displacement of GT fracture was correlated with the cervico-diaphyseal angle (P < 0.05). CONCLUSION: The inferior displacement of GT fracture on AP view X-ray is a useful diagnostic clue for the early recognition of occult humeral neck fracture and may indicate the need for further CT/MRI examination.

18.
J BUON ; 23(4): 1055-1060, 2018 Jul-Aug.
Artigo em Inglês | MEDLINE | ID: mdl-30358211

RESUMO

PURPOSE: Prostate cancer is a deadly malignancy and is responsible for significant cancer-related mortality in men. The incidence of prostate cancer is continuously increasing across the globe and the existing treatment options for this disease are limited and associated with a lot of side effects. Therefore there is an urgent need to identify novel and efficient therapeutic agents for the management of prostate cancer. In the current study we evaluated the anticancer activity of royleanone diterpenoid against prostate cancer LNCaP cell line. METHODS: The anticancer activity of royleanone was determined by CCK8 assay. Apoptosis was detected by acridine orange and ethidium bromide as well as by annexin V/ propidium iodide (PI) staining. Mitochondrial membrane potential (MMP) and cell cycle analysis were investigated by flow cytometry and protein expression by western blotting. RESULTS: The results showed that royleanone exerts potent anticancer activity on LNCaP prostate cancer cells with an IC50 of 12.5 µM at 48 hrs of incubation. The anticancer activity of royleanone was due to induction of cell cycle arrest and mitochondrial-mediated apoptosis. Moreover, royleanone could also suppress the cell migration potential and inhibited the mTOR/ PI3/AKT signalling pathway in LNCaP prostate cancer cells. CONCLUSIONS: Taken together, we propose that royleanone could prove to be an important anticancer lead molecule for the treatment and overall management of prostate cancer, provided further in vivo studies are carried out.

19.
ACS Med Chem Lett ; 9(10): 1030-1034, 2018 Oct 11.
Artigo em Inglês | MEDLINE | ID: mdl-30344912

RESUMO

23-Hydroxybetulinic acid (23-HBA) is a complex lupane triterpenoid, which has attracted increasing attention as an anticancer agent. However, its detailed mechanism of anticancer action remains elusive so far. To reveal its anticancer mode of action, a series of fluorescent 23-HBA derivatives conjugated with coumarin dyes were designed, synthesized, and evaluated for their antiproliferative activities. Subcellular localization and uptake profile studies of representative fluorescent 23-HBA probe 26c were performed in B16F10 cells, and the results suggested that probe 26c was rapidly taken up into B10F10 cells in a dose-dependent manner and mitochondrion was the main site of its accumulation. Further mode of action studies implied that the mitochondrial pathway was involved in 23-HBA-mediated apoptosis. Together, our results provided new clues for revealing the molecular mechanism of natural product 23-HBA for its further development into an antitumor agent.

20.
Anal Sci ; 34(11): 1297-1302, 2018 Nov 10.
Artigo em Inglês | MEDLINE | ID: mdl-30058602

RESUMO

A new highly selective and visible colorimetric fluorescent probe (probe 1) was developed to detect hydrazine (N2H4) concentration in real water samples. As different concentrations of N2H4 were added, the color of the probe solution was graded gradually from colorless to pink, which could be observed by the naked eye under UV light at 365 nm. Our research indicates that probe 1 offers a certain practical significance for use as a visible detection agent to detect N2H4 efficiently by distinct color response. Furthermore, our work showed that probe 1 can be successfully applied to detect N2H4 concentrations in real water samples.

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