Navegando por Autor "Lopes, Katia de Paiva"
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Artigo Role of miRNAs in sigmoid colon cancer: a search for potential biomarkers(MDPI, 2020-11-10) Correa, Romualdo da Silva; Marques, Diego; Costa, Layse Raynara Ferreira; Costa, Lorenna Larissa Ferreira; Oliveira, Ana Beatriz Bezerra; Ramos, Carlos Cesar de Oliveira; Sandoval, Tatiana Vinasco; Lopes, Katia de Paiva; Vialle, Ricardo Assunção; Vidal, Amanda Ferreira; Silbiger, Vivian Nogueira; Santos, Ândrea Ribeiro dosThe aberrant expression of microRNAs in known to play a crucial role in carcinogenesis. Here, we evaluated the miRNA expression profile of sigmoid colon cancer (SCC) compared to adjacent-to-tumor (ADJ) and sigmoid colon healthy (SCH) tissues obtained from colon biopsy extracted from Brazilian patients. Comparisons were performed between each group separately, considering as significant p-values < 0.05 and |Log2(Fold-Change)| > 2. We found 20 differentially expressed miRNAs (DEmiRNAs) in all comparisons, two of which were shared between SCC vs. ADJ and SCC vs. SCH. We used miRTarBase, and miRTargetLink to identify target-genes of the differentially expressed miRNAs, and DAVID and REACTOME databases for gene enrichment analysis. We also used TCGA and GTEx databases to build miRNA-gene regulatory networks and check for the reproducibility in our results. As findings, in addition to previously known miRNAs associated with colorectal cancer, we identified three potential novel biomarkers. We showed that the three types of colon tissue could be clearly distinguished using a panel composed by the 20 DEmiRNAs. Additionally, we found enriched pathways related to the carcinogenic process in which miRNA could be involved, indicating that adjacent-to-tumor tissues may be already altered and cannot be considered as healthy tissues. Overall, we expect that these findings may help in the search for biomarkers to prevent cancer progression or, at least, allow its early detection, however, more studies are needed to confirm our results.Artigo Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades(2018-07-05) Vialle, Ricardo Assunção; Souza, Jorge Estefano Santana de; Lopes, Katia de Paiva; Teixeira, Diego Gomes; Alves Sobrinho, Pitágoras de Azevedo; Ribeiro-dos-Santos, André M.; Furtado, Carolina; Sakamoto, Tetsu; Silva, Fábio Augusto Oliveira; Oliveira, Edivaldo Herculano Corrêa de; Hamoy, Igor Guerreiro; Assumpção, Paulo Pimentel; Ribeiro-dos-Santos, Ândrea; Lima, João Paulo Matos Santos; Seuánez, Héctor N.; Souza, Sandro José de; Santos, SidneyThe Pirarucu (Arapaima gigas) is one of the world's largest freshwater fishes and member of the superorder Osteoglossomorpha (bonytongues), one of the oldest lineages of ray-finned fishes. This species is an obligate air-breather found in the basin of the Amazon River with an attractive potential for aquaculture. Its phylogenetic position among bony fishes makes the Pirarucu a relevant subject for evolutionary studies of early teleost diversification. Here, we present, for the first time, a draft genome version of the A. gigas genome, providing useful information for further functional and evolutionary studies. The A. gigas genome was assembled with 103 Gb raw reads sequenced in an Illumina platform. The final draft genome assembly was approximately 661 Mb, with a contig N50 equal to 51.23 kb and scaffold N50 of 668 kb. Repeat sequences accounted for 21.69% of the whole genome, and a total of 24,655 protein-coding genes were predicted from the genome assembly, with an average of 9 exons per gene. Phylogenomic analysis based on 24 fish species supported the postulation that Osteoglossomorpha and Elopomorpha (eels, tarpons and bonefishes) are sister groups, both forming a sister lineage with respect to Clupeocephala (remaining teleosts). Divergence time estimations suggested that Osteoglossomorpha and Elopomorpha lineages emerged independently in a period of approximately 30 million years in the Jurassic. The draft genome of A. gigas provides a valuable genetic resource for further investigations of evolutionary studies and may also offer a valuable data for economic applications.