Search results for "Sequencing"

Failure to differentiate Cryptosporidium parvum from C. meleagridis based on PCR amplification of eight DNA sequences.

1998

ABSTRACT In order to determine the specificities of PCR-based assays used for detecting Cryptosporidium parvum DNA, eight pairs of previously described PCR primers targeting six distinct regions of the Cryptosporidium genome were evaluated for the detection of C. parvum , the agent of human cryptosporidiosis, and C. muris , C. baileyi , and C. meleagridis , three Cryptosporidium species that infect birds or mammals but are not considered to be human pathogens. The four Cryptosporidium species were divided into two groups: C. parvum and C. meleagridis , which gave the same-sized fragments with all the reactions, and C. muris and C. baileyi , which gave positive results with primer pairs targ…

Globin genes are present in Ciona intestinalis.

2003

The key position of the Ciona intestinalis basal to the vertebrate phylogenetic tree brings up the question of which respiratory proteins are used by the tunicate to facilitate oxygen transport and storage. The publication of the Ciona draft genome sequence suggests that globin genes are completely missing and that-like some molluscs and arthropods-the sea squirt uses hemocyanin instead of hemoglobin for respiration. However, we report here the presence and expression of at least four distinct globin gene/protein sequences in Ciona. This finding is in agreement with the ancestral phylogeny of the vertebrate globins. Moreover, it seems likely that the Ciona hemocyanin-like sequences have enz…

Pyrosequencing survey of intestinal microbiota diversity in cultured sea bass (Dicentrarchus labrax) fed functional diets.

2014

The routine use of chemotherapy to control bacterial diseases in aquatic populations has resulted in the development and spread of antibiotic resistance. The inclusion of immunostimulants in fish diets (functional diets) is one of the main strategies to solve this threat. This study aimed to analyse the intestinal microbiota of cultured European sea bass (Dicentrarchus labrax) fed two functional diets applying pyrosequencing of PCR-amplified 16S rRNA gene. Quality-filtered reads were assigned to family and genus taxonomic levels using the Ribosomal Database Project classifier. The autochthonous intestinal microbiota of sea bass consisted of two dominant bacterial genera: Dysgonomonas (Bacte…

Pole-to-Pole Connections : Similarities between Arctic and Antarctic Microbiomes and Their Vulnerability to Environmental Change

2017

The global biogeography of microorganisms remains poorly resolved, which limits the current understanding of microbial resilience toward environmental changes. Using high-throughput 16S rRNA gene amplicon sequencing, we characterized the microbial diversity of terrestrial and lacustrine biofilms from the Arctic, Antarctic and temperate regions. Our analyses suggest that bacterial community compositions at the poles are more similar to each other than they are to geographically closer temperate habitats, with 32% of all operational taxonomic units (OTUs) co-occurring in both polar regions. While specific microbial taxa were confined to distinct regions, representing potentially endemic popul…

Identification and characterization of DNA sequences with ars-activity from the small eukaryote Nanochlorum eucaryotum

1988

DNA barcoding for Arecaceae and Fabaceae species identification of two plant collections

2021

DNA barcoding is a well-known technique that enable species identification by using universal DNA sequences from a small fragment of the genome. In this work, the effectiveness of DNA barcoding approach was evaluated in order to identify different taxonomic groups among two families (Arecaceae and Fabaceae) from two flowering plant collections: some were economically important taxa from nursery production and Mediterranean plants with ornamental attitude for possible new introduction. Three chloroplast DNA barcode regions (matK, rbcL and trnH-psbA) proposed by the Consortium for the Barcode of Life (CBOL) were tested in 22 Arecaceae species and in eight Fabaceae species, including Ceratonia…

A method for taxonomic determination ofCandida albicans with DNA probes

1993

Determination of Candida species represents an important problem derived from the clinical implications of the species belonging to this genus. DNA probes have already been used for the epidemiology of Candida albicans, as well as for taxonomic analysis of Candida and other genera, although these probes are based on non-species-specific DNA sequences. In this work we carried out a 48-h assay, allowing the identification of C. albicans from clinical isolates, using DNA probes based on C. albicans LEU2 and URA3 genes. Another probe related to C. albicans SEC18 gene was shown not to be C. albicans specific.

The complete nucleotide sequence of an isolate of Tomato yellow leaf curl Sardinia virus found in Sicily

2010

Partial sequences of Tomato yellow leaf curl Sardinia virus (TYLCSV) derived from tomato samples collected in Sicily in 1999, 2002 and 2004 indicated the presence of a TYLCSV different from the one previously described as the Sic strain. Here, we report a complete DNA sequence that is classified as belonging to the TYLCSV type strain (Sar strain), confirming the co-existence in Sicily of virus populations of both strains. Moreover, comparisons between this new sequence and those of the two recombinants recently described in Sicily revealed unequivocally (99% identity) that their TYLCSV-derived portion originated from the Sar strain. © 2010 Springer-Verlag.

Detection and prevention of enhanced biological phosphorus removal deterioration caused by Zoogloea overabundance.

2008

A sequencing batch reactor was operated in the conventional anaerobic-aerobic mode for enhanced biological phosphorus removal using acetate as the sole substrate. Despite the nutrients concentrations in the influent being high enough to satisfy the biological requirements, Zoogloea ramigera managed to grow in the system until it had negative effects on the process performance. The excess of exocellular polymeric material produced by this microorganism contributed to a viscous bulking phenomenon and caused important settling problems. The examination of the sludge under the microscope was a valuable tool to diagnose the cause of the imbalance in the process. The strategy adopted to avoid the…

Tecnologías de secuenciación masiva y PCR digital en la detección de ADN tumoral procedente de tejido y plasma en pacientes de colon localizado

2022

El cáncer de colon se sitúa como uno de los tumores más relevantes a nivel social, con una tasa de entre el 30 y 50% de recaídas tras la resección. Como herramienta de estudio en este tumor, la biopsia líquida se ha abierto paso en diferentes ámbitos, tales como la detección de la heterogeneidad tumoral o la enfermedad mínima residual (EMR). El fundamento de esta estrategia es detectar el ADN tumoral circulante (ctDNA), que se encuentra diluido en el ADN libre circulante (cfDNA), siendo necesario el uso de tecnologías aptas para la detección a frecuencias bajo el 1%. La hipótesis de esta tesis se apoya en variantes somáticas para detectar el ctDNA y definir la heterogeneidad tumoral, la EMR…