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| Registros recuperados: 16 | |
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| GARCÍA RUÍZ,Daniela; GUTIÉRREZ SÁNCHEZ,Pablo; MARÍN MONTOYA,Mauricio. |
| En este estudio se determinaron las relaciones filogenéticas y los niveles de variación de aislamientos de PVX obtenidos en tejidos foliares de plantas de Solanum tuberosum subsp. andigena var. Diacol-Capiro y S. phureja var. Criolla Colombia en Antioquia, utilizando métodos de secuenciación de nueva generación (NGS) y de Sanger. Inicialmente, se detectó el PVX mediante DAS-ELISA (Agdia-PSA10000), confirmándose su presencia en ocho de las muestras por Inmunocaptura-RT-PCR en tiempo real (IC-RT-qPCR). Los resultados de las pruebas serológicas indicaron la infección de PVX en 14,7 % y 13,3 % de las muestras de Diacol-Capiro y Criolla Colombia, respectivamente. Su identidad fue confirmada por IC-RT-qPCR, con valores de ciclo umbral (Ct) de 15,04 a 27,59 y dos... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: DAS-ELISA; NGS; Potexvirus; RT-qPCR; Solanum spp; Variantes. |
| Ano: 2016 |
URL: http://www.scielo.org.co/scielo.php?script=sci_arttext&pid=S0120-548X2016000100011 |
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| FAJARDO, T. V. M.; NHANI JUNIOR, A.; NICKEL, O.. |
| Grapevines (Vitis sp.) can host up to 86 virus species, some of which affect plant vigor, production and fruit quality. In 2019, cv. BRS Bibiana, a hybrid vine showing mild leafroll symptoms, collected in an experimental field in Canoinhas-SC, Brazil, was investigated for viruses. |
| Tipo: Anais e Proceedings de eventos |
Palavras-chave: HTS; NGS; Viroid; Vírus; Vines. |
| Ano: 2021 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1134786 |
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| El-Husny,Antonette; Raiol-Moraes,Milene; Amador,Marcos; Ribeiro-dos-Santos,André M.; Montagnini,André; Barbosa,Silvanira; Silva,Artur; Assumpção,Paulo; Ishak,Geraldo; Santos,Sidney; Pinto,Pablo; Cruz,Aline; Ribeiro-dos-Santos,Ândrea. |
| Abstract Gastric cancer is considered to be the fifth highest incident tumor worldwide and the third leading cause of cancer deaths. Developing regions report a higher number of sporadic cases, but there are only a few local studies related to hereditary cases of gastric cancer in Brazil to confirm this fact. CDH1 germline mutations have been described both in familial and sporadic cases, but there is only one recent molecular description of individuals from Brazil. In this study we performed Next Generation Sequencing (NGS) to assess CDH1 germline mutations in individuals who match the clinical criteria for Hereditary Diffuse Gastric Cancer (HDGC), or who exhibit very early diagnosis of gastric cancer. Among five probands we detected CDH1 germline... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: CDH1; Germline mutations; HDGC; Gastric Cancer; NGS. |
| Ano: 2016 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572016000200189 |
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| FAJARDO, T. V. M.; Bertocchi, A. A.; NICKEL, O.. |
| Among grapevine (Vitis spp.) pathogens, viruses stand out, considering that this fruit plant is broadly susceptible to them and that they cause several diseases, reducing quality and yield of grape production. However, detecting and identifying viral infections in grapevines can be challenging. The objectives of this study were to detect grapevine viral pathogens by high-throughput sequencing (HTS) and identify grapevine viruses associated with plant propagation material from different origins. A comprehensive picture of a vine exhibiting virus-related symptoms was generated. The detected virome included four different pathogens and their variants. In addition, the incidence of seven viral pathogens was determined in samples collected in three vineyards of... |
| Tipo: Artigo de periódico |
Palavras-chave: RT-qPCR; HTS; NGS; Indexing; Survey; Grapevine (Vitis spp); Vitis; Pathogens; Viruses. |
| Ano: 2020 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1122194 |
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| Silbande, Adele; Adenet, Sandra; Chopin, Christine; Cornet, Josiane; Smith-ravin, Juliette; Rochefort, Katia; Leroi, Francoise. |
| Aims The effect of vacuum (VP – 4 °C) and CO2/N2–atmosphere (MAP – 4 °C) packaging on the quality of red drum fillets compared with whole gutted iced fish was investigated. Methods and results A metagenomic approach, bacterial enumeration and isolation, biochemical and sensory analyses were carried out. The organoleptic rejection of whole fish was observed at day 15 whereas VP and MAP fillets appeared unacceptable only after 29 days. At these dates, total mesophilic counts reached 107–108 CFU g− 1. According to Illumina MiSeq sequencing, Arthrobacter, Chryseobacterium, Brevibacterium, Staphylococcus and Kocuria were the main genera of the fresh red drum fillets. At the sensory rejection time, lactic acid bacteria (LAB), particularly Carnobacterium sp.,... |
| Tipo: Text |
Palavras-chave: Seafood; Biogenic amine; VP; MAP; NGS; 16S rRNA gene. |
| Ano: 2018 |
URL: https://archimer.ifremer.fr/doc/00407/51858/52468.pdf |
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| Brandão,Paulo E.; Hora,Aline S.; Silva,Sheila O. S.; Taniwaki,Sueli A.; Berg,Mikael. |
| Abstract Avian coronavirus (AvCoV) is ubiquitously present on poultry as a multitude of virus lineages. Studies on AvCoV phenotypic traits are dependent on the isolation of field strains in chicken embryonated eggs, but the mutant spectrum on each isolate is not considered. This manuscript reports the previously unknown HTS (high throughput sequencing)-based complete genome haplotyping of AvCoV isolates after passages of two field strains in chicken embryonated eggs. For the first and third passages of strain 23/2013, virus loads were 6.699 log copies/ μL and 6 log copies/ μL and, for 38/2013, 5.699 log copies/μL and 2.699 log copies/μL of reaction, respectively. The first passage of strain 23/2013 contained no variant haplotype, while, for the third... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Avian coronavirus; Haplotype; Mutant spectrum; NGS; Evolution. |
| Ano: 2020 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572020000400202 |
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| Riviere, Guillaume; Klopp, Christophe; Ibouniyamine, Nabihoudine; Huvet, Arnaud; Boudry, Pierre; Favrel, Pascal. |
| Background: The Pacific oyster, Crassostrea gigas, is one of the most important aquaculture shellfish resources worldwide. Important efforts have been undertaken towards a better knowledge of its genome and transcriptome, which makes now C. gigas becoming a model organism among lophotrochozoans, the under-described sister clade of ecdysozoans within protostomes. These massive sequencing efforts offer the opportunity to assemble gene expression data and make such resource accessible and exploitable for the scientific community. Therefore, we undertook this assembly into an up-to-date publicly available transcriptome database: the GigaTON (Gigas TranscriptOme pipeliNe) database. Description: We assembled 2204 million sequences obtained from 114 publicly... |
| Tipo: Text |
Palavras-chave: Oyster; Transcriptome; Development; Stress; Tissues; NGS. |
| Ano: 2015 |
URL: https://archimer.ifremer.fr/doc/00302/41321/40520.pdf |
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| FAJARDO, T. V. M.; SILVA, F. N.; EIRAS, M.; NICKEL, O.. |
| The application of high-throughput sequencing technologies (HTS) enables the recovery of many nucleotide sequence fragments from diseased plants and may help in pathogen identification. This study was designed to identify viruses infecting 15 grapevine (Vitis spp.) samples collected from experimental fields and vine collections and assess the genetic variability of the identified viruses. The virus-enriched dsRNAs were extracted from bark scrapings and sequenced using an Illumina platform. The paired-end reads were analyzed, assembled contigs were generated and identified as related to viruses. Contigs of 14 viruses have been identified, some of them covering large extensions of viral genomes or resulting in assembly of near-complete or complete genomes.... |
| Tipo: Artigo de periódico |
Palavras-chave: Diagnosis; HTS; Next-generation sequencing; NGS; Vitis; Variability. |
| Ano: 2017 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1077833 |
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| Lapunzina,Pablo; López,Rocío Ortiz; Rodríguez-Laguna,Lara; García-Miguel,Purificación; Martínez,Augusto Rojas; Martínez-Glez,Víctor. |
| The increased speed and decreasing cost of sequencing, along with an understanding of the clinical relevance of emerging information for patient management, has led to an explosion of potential applications in healthcare. Currently, SNP arrays and Next-Generation Sequencing (NGS) technologies are relatively new techniques used to scan genomes for gains and losses, losses of heterozygosity (LOH), SNPs, and indel variants as well as to perform complete sequencing of a panel of candidate genes, the entire exome (whole exome sequencing) or even the whole genome. As a result, these new high-throughput technologies have facilitated progress in the understanding and diagnosis of genetic syndromes and cancers, two disorders traditionally considered to be separate... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: NGS; New technologies; Developmental syndrome; Cancer predisposition. |
| Ano: 2014 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572014000200010 |
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| Dauchy Silbande, Adele; Adenet, Sandra; Smith-ravin, Juliette; Joffraud, Jean-jacques; Rochefort, Katia; Leroi, Francoise. |
| Metagenomic, microbial, chemical and sensory analyses of Thunnus albacares from Martinique and stored in ice (AIR – 0 °C), vacuum (VP – 4/8 °C) and modified atmosphere packaging (MAP – 4/8 °C) (70% CO2 – 30% O2) were carried out. The organoleptic rejection of AIR tuna was observed at day 13 when total bacterial counts equaled 106–107 CFU g−1. No extension of shelf-life was provided by VP and MAP. According to 16S rRNA gene sequence analyzed by Illumina MiSeq and PCR-TTGE, Rhodanobacter terrae was the main species of the freshly caught tuna. At the sensory rejection time, Brochothrix thermosphacta and Pseudomonas dominated the AIR products while B. thermosphacta alone or a mix of B. thermosphacta, Enterobacteriaceae and lactic acid bacteria (LAB) dominated... |
| Tipo: Text |
Palavras-chave: Seafood; Fish; Microbiology; Sensory; NGS; 16S rRNA gene. |
| Ano: 2016 |
URL: https://archimer.ifremer.fr/doc/00344/45504/45056.pdf |
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| Rodríguez Fuerte,Verónica; Marín Montoya,Mauricio; Morales Osorio,Juan Gonzalo; Cotes Torres,José Miguel; Gutiérrez Sánchez,Pablo Andrés. |
| Con el fin de contribuir a un mejor conocimiento de los mecanismos que rigen la interacción entre Solanum phureja Juz. et. Buk. y Spongospora subterranea (Wallr.) Lagerh, agente causal de la sarna polvosa de la papa, se realizó en esta investigación el análisis del transcriptoma de dos cultivares: Criolla Colombia (susceptible) y Criolla Latina (tolerante), mediante pirosecuenciación 454. Los resultados indicaron diferencias entre los genes sobreexpresados en cada cultivar ante la infección con el patógeno. En el cultivar susceptible, la respuesta ocurre a partir de la activación transcripcional de genes asociados a la integridad de la pared celular, transducción de señales y genes involucrados en la respuesta a diferentes tipos de estrés. Los genes que... |
| Tipo: Journal article |
Palavras-chave: NGS; PCR en tiempo real; Sarna polvosa; Transcriptoma. |
| Ano: 2014 |
URL: http://scielo.sld.cu/scielo.php?script=sci_arttext&pid=S1010-27522014000100003 |
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| Registros recuperados: 16 | |
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