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1.
Microb Ecol ; 81(1): 67-77, 2021 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-32561945

RESUMEN

Shiga toxin-producing Escherichia coli (STEC) are foodborne bacterial pathogens, with cattle a significant reservoir for human infection. This study evaluated environmental reservoirs, intermediate hosts and key pathways that could drive the presence of Top 7 STEC (O157:H7, O26, O45, O103, O111, O121 and O145) on pasture-based dairy herds, using molecular and culture-based methods. A total of 235 composite environmental samples (including soil, bedding, pasture, stock drinking water, bird droppings and flies and faecal samples of dairy animals) were collected from two dairy farms, with four sampling events on each farm. Molecular detection revealed O26, O45, O103 and O121 as the most common O-serogroups, with the greatest occurrence in dairy animal faeces (> 91%), environments freshly contaminated with faeces (> 73%) and birds and flies (> 71%). STEC (79 isolates) were a minor population within the target O-serogroups in all sample types but were widespread in the farm environment in the summer samplings. Phylogenetic analysis of whole genome sequence data targeting single nucleotide polymorphisms revealed the presence of several clonal strains on a farm; a single STEC clonal strain could be found in several sample types concurrently, indicating the existence of more than one possible route for transmission to dairy animals and a high rate of transmission of STEC between dairy animals and wildlife. Overall, the findings improved the understanding of the ecology of the Top 7 STEC in open farm environments, which is required to develop on-farm intervention strategies controlling these zoonoses.


Asunto(s)
Infecciones por Escherichia coli/transmisión , Enfermedades Transmitidas por los Alimentos/microbiología , Escherichia coli Shiga-Toxigénica/aislamiento & purificación , Animales , Animales Salvajes/microbiología , Bovinos , Industria Lechera , Granjas , Heces/microbiología , Tipificación Molecular/métodos , Filogenia , Polimorfismo de Nucleótido Simple/genética , Escherichia coli Shiga-Toxigénica/genética
2.
Lett Appl Microbiol ; 68(2): 112-119, 2019 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-30411807

RESUMEN

Shiga toxin-producing Escherichia coli strains (STEC) are food-borne pathogens. While E. coli O157:H7 is commonly associated with cattle, less is known about the prevalence of non-O157 STEC serogroups in bovines. This study evaluated the prevalence and virulence status of O157:H7 and six E. coli O-serogroups (O26, O103, O45, O145, O121, O111) in New Zealand dairy farms using molecular as well as culture-based methods. Fresh farm dairy effluent (FDE) (n = 36) and composite calf faeces (n = 12) were collected over three samplings from 12 dairy farms. All seven target serogroups were detected through molecular techniques. Of the 202 isolates which were serologically confirmed following traditional culturing and immunomagnetic separation (IMS), O103, O26, O45 and O121 were the most common serogroups, being found in 81, 47, 42 and 32% of the FDE and in 17, 33, 25 and 9% of the calf faeces respectively. The majority (157/202) of the isolates were negative for stx and eae virulence genes. The prevalence of the seven target STEC was low, and only nine O26 isolates (4%) were recovered from four of the farms. The study has highlighted the need for improving the isolation of Top 7 STEC from the stx-negative populations present in fresh dairy effluent and calf faeces. SIGNIFICANCE AND IMPACT OF THE STUDY: Shiga toxin-producing Escherichia coli (STEC) are important food-borne pathogens that can cause severe illness in humans. Cattle are asymptomatic reservoirs for STEC, and transmission to humans can be by consumption of food products or water contaminated with cattle faeces. Our study investigated the prevalence of O157:H7 and six E. coli serogroups of STEC (O26, O103, O45, O145, O121, O111) over time in the dairy reservoir and increases the knowledge and understanding of these pathogens on pasture-based farms. Such information is required to develop risk-assessment models aiming at limiting transmission of these STEC to human.


Asunto(s)
Adhesinas Bacterianas/genética , Infecciones por Escherichia coli/veterinaria , Escherichia coli O157/aislamiento & purificación , Escherichia coli O157/patogenicidad , Proteínas de Escherichia coli/genética , Toxina Shiga/genética , Animales , Bovinos , Industria Lechera , Escherichia coli O157/clasificación , Granjas , Heces/microbiología , Enfermedades Transmitidas por los Alimentos/microbiología , Humanos , Separación Inmunomagnética , Nueva Zelanda , Prevalencia , Serogrupo , Virulencia
3.
Epidemiol Infect ; 146(9): 1089-1100, 2018 07.
Artículo en Inglés | MEDLINE | ID: mdl-29789035

RESUMEN

The effect of transportation and lairage on the faecal shedding and post-slaughter contamination of carcasses with Escherichia coli O157 and O26 in young calves (4-7-day-old) was assessed in a cohort study at a regional calf-processing plant in the North Island of New Zealand, following 60 calves as cohorts from six dairy farms to slaughter. Multiple samples from each animal at pre-slaughter (recto-anal mucosal swab) and carcass at post-slaughter (sponge swab) were collected and screened using real-time PCR and culture isolation methods for the presence of E. coli O157 and O26 (Shiga toxin-producing E. coli (STEC) and non-STEC). Genotype analysis of E. coli O157 and O26 isolates provided little evidence of faecal-oral transmission of infection between calves during transportation and lairage. Increased cross-contamination of hides and carcasses with E. coli O157 and O26 between co-transported calves was confirmed at pre-hide removal and post-evisceration stages but not at pre-boning (at the end of dressing prior to chilling), indicating that good hygiene practices and application of an approved intervention effectively controlled carcass contamination. This study was the first of its kind to assess the impact of transportation and lairage on the faecal carriage and post-harvest contamination of carcasses with E. coli O157 and O26 in very young calves.


Asunto(s)
Mataderos , Derrame de Bacterias , Bovinos/microbiología , Escherichia coli O157/aislamiento & purificación , Microbiología de Alimentos , Carne/microbiología , Transportes , Animales , Nueva Zelanda
4.
J Appl Microbiol ; 125(1): 142-147, 2018 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-29495109

RESUMEN

AIMS: To investigate the transmission route of Carnobacterium from the farm environment to the meat-manufacturing plant and potential risk for meat spoilage. METHODS AND RESULTS: A sheep farm-level survey of Carnobacterium, consisting of 150 environmental and animal (no 100) associated samples, was carried out on two farms. A further 20 lamb carcass samples were taken from an abattoir servicing one of the farms. The majority of Carnobacterium maltaromaticum isolates were associated with fleece followed by hard sheep contact surfaces, rectal-anal mucosal swabs and carcasses. Enterobacterial repetitive intergenic consenus PCR (ERIC-PCR) profiling revealed four distinct ERIC types. Each ERIC type was found on both farms, three of which were also found on lamb carcasses. CONCLUSIONS: Enterobacterial repetitive intergenic consenus PCR was effective at demonstrating within-species variability in C. maltaromaticum. This study provides initial information showing that farm sources maybe an important transmission route of Carnobacterium for contamination of lamb carcasses and subsequently the meat processing environment. SIGNIFICANCE AND IMPACT OF THE STUDY: Data on distribution, diversity, sources and transmission routes for meat product contamination is limited for spoilage bacteria. This study highlights the importance of good hygienic slaughter practices and cleaning routines to remove accumulated detritus from the handling of animals that may lead to cross-contamination.


Asunto(s)
Mataderos , Carnobacterium/aislamiento & purificación , Granjas , Carne/microbiología , Ovinos , Animales , Microbiología de Alimentos
5.
Lett Appl Microbiol ; 53(1): 92-7, 2011 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-21535048

RESUMEN

AIMS: To determine germination triggers of Clostridium frigidicarnis, an important spoilage bacterium of chilled vacuum-packed meat. METHODS AND RESULTS: Germination of Cl. frigidicarnis spores in the presence of a range of potential nutrient and non-nutrient germinants was tested by monitoring the fall in optical density and by phase-contrast microscopy. The amino acid L-valine induced strong germination when paired with L-lactate in sodium phosphate under anaerobic conditions. Several other amino acids promoted germination when paired with L-lactate in sodium phosphate and the co-germinants NaHCO3 and L-cysteine. Heat activation, while not necessary for germination, increased the rate of germination. Spore germination was not observed when spores were incubated aerobically. CONCLUSIONS: Spores of psychrotolerant Cl. frigidicarnis germinated in the presence of L-valine in combination with L-lactate in sodium phosphate buffer under anaerobic conditions. SIGNIFICANCE AND IMPACT OF THE STUDY: Anaerobic conditions, L-valine and L-lactate, have been identified as triggering germination in Cl. frigidicarnis, and are all present in packs of fresh, vacuum-packaged, red meat. This new information adds to what is known about red meat spoilage by cold tolerant clostridia and can be used to develop intervention strategies to prevent meat spoilage.


Asunto(s)
Clostridium/crecimiento & desarrollo , Clostridium/fisiología , Carne/microbiología , Esporas Bacterianas/fisiología , Anaerobiosis , Técnicas Bacteriológicas , Cisteína , Contaminación de Alimentos/prevención & control , Calor , Ácido Láctico/metabolismo , Vacio , Valina/metabolismo
6.
Lett Appl Microbiol ; 50(6): 591-6, 2010 Jun 01.
Artículo en Inglés | MEDLINE | ID: mdl-20406381

RESUMEN

AIMS: To determine the contamination levels of Cl. estertheticum spores that result in gaseous spoilage of vacuum-packaged chilled meats, beef and lamb, stored at two different temperatures, -1.5 and 2 degrees C. METHODS AND RESULTS: The study consisted of two separate trials using the same processing parameters applied to beef and lamb at two different storage temperatures and six different inoculation concentrations of Cl. estertheticum. A threshold for pack blowing of c. 1 spore per vacuum pack was seen with both beef and lamb stored at -1.5 and 2 degrees C. These results highlight the detrimental effect that increasing Cl. estertheticum spore inoculum concentration has on the onset of blown pack spoilage for both meat species stored at -1.5 and 2 degrees C. CONCLUSIONS: This study demonstrates that storage temperature is an extremely important parameter influencing the onset of blown pack spoilage and that storing meat at -1.5 degrees C significantly delays the onset of blown pack spoilage in comparison with storage at 2 degrees C. SIGNIFICANCE AND IMPACT OF STUDY: The results of this study indicate that 1 Cl. estertheticum spore may present a risk of spoilage, and thus hygienic carcass dressing is critical to keep contamination to a minimum and maximize storage life of the vacuum-packed chilled product.


Asunto(s)
Clostridium/crecimiento & desarrollo , Contaminación de Alimentos/análisis , Embalaje de Alimentos , Carne/microbiología , Animales , Bovinos , Clostridium/genética , Clostridium/aislamiento & purificación , Manipulación de Alimentos , Ovinos , Esporas Bacterianas/genética , Esporas Bacterianas/crecimiento & desarrollo , Esporas Bacterianas/aislamiento & purificación
7.
J Appl Microbiol ; 107(1): 178-86, 2009 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-19302329

RESUMEN

AIMS: To determine possible preslaughter and processing sources of psychrophilic and psychrotolerant clostridia causing spoilage of vacuum-packed chilled meats. METHODS AND RESULTS: Molecular methods based on the polymerase chain reaction (PCR) amplification of specific 16S rDNA fragments were used to detect the presence of Clostridium gasigenes, Clostridium estertheticum, Clostridium algidicarnis and Clostridium putrefaciens in a total of 357 samples collected from ten slaughter stock supply farms, slaughter stock, two lamb-processing plants, their environments, dressed carcasses and final vacuum-packed meat stored at -0.5 degrees C for 5(1/2) weeks. Clostridium gasigenes, C. estertheticum and C. algidicarnis/C. putrefaciens were commonly detected in farm, faeces, fleece and processing environmental samples collected at the slaughter floor operations prior to fleece removal, but all these micro-organisms were detected in only 4 out of 26 cooling floor and chiller environmental samples. One out of 42 boning room environmental samples tested positive for the presence of C. gasigenes and C. estertheticum, but 25 out of 42 of these samples were positive for C. algidicarnis/C. putrefaciens. Nearly all of the 31 faecal samples tested positive for the presence of C. gasigenes and C. estertheticum; however, only two of these samples were positive for C. algidicarnis and/or C. putrefaciens. Clostridial species that were subject to this investigation were frequently detected on chilled dressed carcasses. CONCLUSIONS: The major qualitative and quantitative differences between the results of PCR detection obtained with the primers specific for 'blown pack' -causing clostridia (C. gasigenes and C. estertheticum) and those obtained with primers specific for C. algidicarnis and C. putrefaciens suggest that the control of meat spoilage caused by different groups of meat clostridia is best approached individually for each group. SIGNIFICANCE AND IMPACT OF THE STUDY: This paper provides information significant for controlling meat spoilage-causing clostridia in the meat-processing plants.


Asunto(s)
Clostridium/aislamiento & purificación , Contaminación de Alimentos/análisis , Embalaje de Alimentos/métodos , Carne/microbiología , Mataderos , Animales , Clostridium/genética , ADN Bacteriano/análisis , Monitoreo del Ambiente , Heces/microbiología , Manipulación de Alimentos , Reacción en Cadena de la Polimerasa/métodos , ARN Ribosómico 16S/genética , Análisis de Secuencia de ADN , Ovinos/microbiología , Vacio , Lana/microbiología
8.
Hum Mutat ; 28(12): 1216-24, 2007 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-17674408

RESUMEN

In its expanded form, the fragile X triplet repeat at Xq27.3 gives rise to the most common form of inherited mental retardation, fragile X syndrome. This high population frequency persists despite strong selective pressure against mutation-bearing chromosomes. Males carrying the full mutation rarely reproduce and females heterozygous for the premutation allele are at risk of premature ovarian failure. Our diagnostic facility and previous research have provided a large databank of X chromosomes that have been tested for the FRAXA allele. Using this resource, we have conducted a detailed genetic association study of the FRAXA region to determine any cis-acting factors that predispose to expansion of the CGG triplet repeat. We have genotyped SNP variants across a 650-kb tract centered on FRAXA in a sample of 877 expanded and normal X chromosomes. These chromosomes were selected to be representative of the haplotypic diversity encountered in our population. We found expansion status to be strongly associated with a approximately 50-kb region proximal to the fragile site. Subsequent detailed analyses of this region revealed no specific genetic determinants for the whole population. However, stratification of chromosomes by risk subgroups enabled us to identify a common SNP variant which cosegregates with the subset of D group haplotypes at highest risk of expansion (chi(1)(2)=17.84, p=0.00002). We have verified that this SNP acts as a marker of repeat expansion in three independent samples.


Asunto(s)
Proteína de la Discapacidad Intelectual del Síndrome del Cromosoma X Frágil/genética , Síndrome del Cromosoma X Frágil/genética , Haplotipos , Expansión de Repetición de Trinucleótido , Cromosomas Humanos X/genética , Femenino , Predisposición Genética a la Enfermedad , Genotipo , Humanos , Escala de Lod , Masculino , Polimorfismo de Nucleótido Simple/genética
9.
J Food Prot ; 70(6): 1434-9, 2007 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-17612074

RESUMEN

"Blown pack" spoilage is an increasingly reported spoilage condition of vacuum-packed chilled meats. This spoilage condition is primarily caused by a psychrophilic obligately anaerobic microorganism, Clostridium estertheticum. The present study investigated whether peroxyacetic acid (POAA)-based carcass rinse can delay the onset of gas production in chilled vacuum-packed beef artificially inoculated with C. estertheticum spores. The variables studied were (i) two prepackaging meat rinses (water and POAA-based rinse); (ii) three levels of C. estertheticum spores (0, 4, and 40 spores per cm2); and (iii) three postpackaging storage temperatures (-1.5, 0, and 2 degrees C). Treatment with POAA-based rinse marginally delayed the onset of pack blowing in packs carrying high numbers of C. estertheticum spores but not in packs carrying low levels of inoculum or in uninoculated controls. The presence of as few as 4 spores per cm2 of meat surface effectively decreased by two-thirds the nominal shelf life of vacuum-packed chilled beef. Increasing the inoculum by 10-fold to 40 spores per cm2 resulted in the additional acceleration of the onset of pack blowing. The onset of gas production was significantly delayed by storing the packaged product at -1.5 degrees C rather than at 0 degrees C. The results of this study indicate that the POAA-based rinse tested will not eliminate the spoilage threat posed by clostridial blown pack spoilage spores present on meat surfaces. POAA-based rinse can be used alone to achieve some extension of shelf life of beef cuts heavily contaminated with C. estertheticum spores. Alternatively, the rinse may offer an opportunity for a more substantial extension of shelf life of contaminated cuts when used with additional hurdles.


Asunto(s)
Clostridium/efectos de los fármacos , Desinfectantes/farmacología , Embalaje de Alimentos/métodos , Conservación de Alimentos/métodos , Carne/microbiología , Ácido Peracético/farmacología , Animales , Bovinos , Clostridium/crecimiento & desarrollo , Clostridium/fisiología , Recuento de Colonia Microbiana , Relación Dosis-Respuesta a Droga , Contaminación de Alimentos/prevención & control , Humanos , Esporas Bacterianas , Vacio
10.
Ann Hum Genet ; 70(Pt 2): 170-80, 2006 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-16626328

RESUMEN

The FRAXA trinucleotide repeat at Xq27.3 gives rise to fragile X syndrome when fully expanded, and both premature ovarian failure (POF) and fragile X tremor and ataxia syndrome (FXTAS) when in the premutation range. Reports of phenotypic effects extending into the intermediate repeat range are inconsistent but some studies suggest that these smaller expansions predispose to special educational needs (SEN). This study utilises the Avon Longitudinal Study of Parents and Children (ALSPAC) cohort to investigate cognitive and behavioural variables that might be associated with FRAXA intermediate alleles. The current study failed to find any strong evidence of association of FRAXA intermediate alleles with SEN, behavioural problems or cognitive difficulties. However, our findings illustrate some of the difficulties encountered in identifying individuals with SEN. The power to identify specific components of cognitive and behavioural difficulties was reduced due to elective drop-out, which is characteristic of longitudinal studies. Our findings demonstrate the non-random loss of participants from this cohort and highlight problems that may arise when such data are used in genetic association studies.


Asunto(s)
Alelos , Proteína de la Discapacidad Intelectual del Síndrome del Cromosoma X Frágil/genética , Humanos , Estudios Longitudinales , Masculino , Fenotipo
11.
Int J Food Microbiol ; 107(2): 192-201, 2006 Mar 15.
Artículo en Inglés | MEDLINE | ID: mdl-16310270

RESUMEN

This study evaluated the use of PFGE and single enzyme AFLP techniques for the determination of the genetic relationships between Staphyloccocus aureus isolates from human, bovine, ovine and food related sources and reports the prevalence of 'classic' (sea to see) and 'new' (seg, seh, sei, sej, sem, sen and seo) staphylococcal enterotoxin (se) genes in 92 S. aureus strains. A sub-set of the se genotyping results was confirmed by ELISA and the presence of SE toxin determined in isolates from different sources. A 100% correlation was observed, between detection of enterotoxin genes sea-see and expression of corresponding enterotoxin proteins in vitro. The se genotyping data generated from 90 of the S. aureus isolates showed that many of the S. aureus strains producing identical se genotypes correlated with both AFLP and PFGE pattern types. However, single enzyme AFLP technique did not possess the discriminatory power of the PFGE method, but similar clonal relationships were observed by both techniques in many of the isolates tested. Results reported here include the first comprehensive study using a single enzyme AFLP technique to investigate the genetic background of S. aureus isolates from a wide distribution including animal, human and food related sources.


Asunto(s)
Enterotoxinas/genética , Microbiología de Alimentos , Staphylococcus aureus/clasificación , Staphylococcus aureus/aislamiento & purificación , Animales , Bovinos , Electroforesis en Gel de Campo Pulsado/métodos , Genotipo , Humanos , Filogenia , Polimorfismo de Longitud del Fragmento de Restricción , Ovinos , Staphylococcus aureus/patogenicidad
12.
Mol Cell Probes ; 16(4): 297-305, 2002 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-12270271

RESUMEN

Microsatellites have been used extensively in gene mapping, linkage and association studies but with the near completion of the human genome project (HGP) single nucleotide polymorphisms (SNP) have become the marker of choice. However, for association studies to be useful large numbers of SNPs must be analysed. To make these studies cost effective a simple and non-labour intensive method for SNP genotyping is essential. This work describes a single-tube modification of the amplification refractory mutation system (Biallelic-ARMS). Control amplimers flanking the SNP were amplified in a single-tube multiplex PCR with two SNP specific primers that prime in opposite directions. The SNP allele was identified on the basis of PCR product size after gel electrophoresis. Biallelic-ARMS was used to analyse six SNPs within 300 kb of the FRAXA repeat, two from the HGP SNP Database (ATL1 and FMRb) and four novel SNPs (WEX1, WEX10, WEX17 and WEX28). The study population consisted of 649 males with a range of FRAXA (10 to >200) repeat sizes. Each SNP correlated with distinct haplogroups, as identified by DXS548, FRAXAC1 and FRAXAC2 flanking microsatellite repeat patterns and confirmed the initial choice of haplogroups for FRAXA repeat stability defined by Enniset al.


Asunto(s)
Síndrome del Cromosoma X Frágil/genética , Reacción en Cadena de la Polimerasa/métodos , Polimorfismo de Nucleótido Simple/genética , Alelos , Cromosomas Humanos X , Cartilla de ADN , Electroforesis en Gel de Agar , Genotipo , Haplotipos , Humanos , Masculino , Repeticiones de Microsatélite , Secuencias Repetitivas de Ácidos Nucleicos , Factores de Tiempo
13.
Genome Res ; 11(8): 1382-91, 2001 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-11483579

RESUMEN

The human genome provides a reference sequence, which is a template for resequencing studies that aim to discover and interpret the record of common ancestry that exists in extant genomes. To understand the nature and pattern of variation and linkage disequilibrium comprising this history, we present a study of approximately 31 kb spanning an approximately 70 kb region of FMR1, sequenced in a sample of 20 humans (worldwide sample) and four great apes (chimp, bonobo, and gorilla). Twenty-five polymorphic sites and two insertion/deletions, distributed in 11 unique haplotypes, were identified among humans. Africans are the only geographic group that do not share any haplotypes with other groups. Parsimony analysis reveals two main clades and suggests that the four major human geographic groups are distributed throughout the phylogenetic tree and within each major clade. An African sample appears to be most closely related to the common ancestor shared with the three other geographic groups. Nucleotide diversity, pi, for this sample is 2.63 +/- 6.28 x 10(-4). The mutation rate, mu is 6.48 x 10(-10) per base pair per year, giving an ancestral population size of approximately 6200 and a time to the most recent common ancestor of approximately 320,000 +/- 72,000 per base pair per year. Linkage disequilibrium (LD) at the FMR1 locus, evaluated by conventional LD analysis and by the length of segment shared between any two chromosomes, is extensive across the region.


Asunto(s)
Variación Genética/genética , Proteínas del Tejido Nervioso/genética , Animales , Proteína de la Discapacidad Intelectual del Síndrome del Cromosoma X Frágil , Síndrome del Cromosoma X Frágil/genética , Marcadores Genéticos/genética , Gorilla gorilla , Humanos , Desequilibrio de Ligamiento/genética , Masculino , Repeticiones de Microsatélite/genética , Pan paniscus , Pan troglodytes , Filogenia , Polimorfismo Genético/genética , Proteínas de Unión al ARN/genética , Recombinación Genética/genética
14.
Mol Cell Probes ; 14(5): 269-83, 2000 Oct.
Artículo en Inglés | MEDLINE | ID: mdl-11040090

RESUMEN

The unique ability of homopyrimidine peptide nucleic acid (PNA) to strand invade homopurine sites of duplex DNA offers a potential alternative to existing techniques for rapid detection of PCR products. From gel shift studies, PNA was found to specifically strand invade homopurine sites that had been incorporated into an amplicon during the PCR cycle. This was achieved by adding a homopyrimidine sequence to the 5'-terminus of a PCR primer. The position of the strand invasion sites at the termini of the DNA duplex offers kinetic advantages for PNA strand invasion, since the termini of DNA duplexes are known to be unwound. This unwound state was demonstrated using a novel assay that determined single-stranded regions within the amplicon. The presence of the PNA moiety in strand invasion complexes was confirmed by a novel electroblot, an Enzyme Linked Nucleic Acid assay and by an increase in stability as demonstrated by T(m)studies with the Idaho RapidCycler. Since the strand invasion sites can be controlled through selection of the homopurine sequence there is great flexibility for designing strand invasion motifs unique to a particular PCR amplicon, thus providing a huge potential for differentiating and detecting multiplex PCR products.


Asunto(s)
Ácidos Nucleicos de Péptidos/química , Reacción en Cadena de la Polimerasa/métodos , Secuencia de Bases , ADN/química , Sondas de ADN/química , Datos de Secuencia Molecular , Ácidos Nucleicos de Péptidos/análisis , Purinas/química , Pirimidinas/química
15.
J Appl Microbiol ; 87(2): 218-23, 1999 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-10475953

RESUMEN

Speed is a key area in our development of PCR assays for Bacillus anthracis. We believe that the strand specific detection of amplicons within 10 min is a realistic goal and that this will be achieved through fluorescent in-tube assays. We have used the Idaho LightCycler to study and develop candidate assays for B. anthracis. New strand specific fluorescent methods have been developed and a number of formats have been studied for speed and sensitivity. Internal controls have been developed as a method of improving our assay confidence. In this communication we will introduce the field of rapid PCR whilst discussing previous work in the areas described above, the development of our own rapid assay and a novel internal control system for B. anthracis. This work used PCR assays and hardware that are either commercially available, or have been previously described in open literature publications.


Asunto(s)
Carbunco/microbiología , Bacillus anthracis/aislamiento & purificación , Reacción en Cadena de la Polimerasa/métodos , Animales , Bacillus anthracis/clasificación , Bacillus anthracis/genética , Técnicas de Tipificación Bacteriana , Humanos , Sensibilidad y Especificidad , Factores de Tiempo
16.
Mol Cell Probes ; 12(6): 367-77, 1998 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-9843654

RESUMEN

This work describes the development and evaluation of a multiplex polymerase chain reaction (PCR) for the detection of Bacillus anthracis strains harbouring plasmid pX02. The multiplex also incorporated an internal control (IC) to avoid false negative reactions. Internal controls consisted of plasmids containing modified PCR target sequences, corresponding to the capC and BA813 genes of B. anthracis, which were then co-amplified with the original target sequences using the same set of amplimers. The initial IC construct comprised of an internally deleted form of the genomic target sequence cloned into pUC19. A series of nested DNA fragments corresponding to the 23S rRNA sequences of Bacillus cereus were then subcloned into the point of deletion, producing a number of IC constructs with similar sequences but increasing product size on PCR amplification. Neither the presence of IC DNA template or IC PCR product size affected the specificity or non-specific cross-reactivity of the original PCR assay. The concentration of IC was critical, too much IC DNA template would out compete the genomic DNA template, thus giving a false negative result. However, when the concentration of IC was optimal assay sensitivity was not compromised.


Asunto(s)
Bacillus anthracis/genética , Reacción en Cadena de la Polimerasa/métodos , Bacillus anthracis/química , Proteínas Bacterianas/genética , Medios de Cultivo/farmacología , Cartilla de ADN , ADN Bacteriano/análisis , ADN Bacteriano/efectos de los fármacos , ADN Bacteriano/genética , Electroforesis en Gel de Agar , Reacción en Cadena de la Polimerasa/normas , Control de Calidad , Estándares de Referencia , Sensibilidad y Especificidad
17.
Arch Virol ; 143(4): 731-42, 1998.
Artículo en Inglés | MEDLINE | ID: mdl-9638144

RESUMEN

Rt-PCR probes targeted to different gene sequences of VEE (Venezuelan equine encephalitis) virus strain TC-83 were assessed for their sensitivity, specificity and non-specific cross-reactivity. A generic VEE virus amplimer (VNSP4F2/VNSP4R2), targeted against nsP4 was identified, which was sensitive (detected at least 10 pfu) and robust (worked over a wide range of salt concentrations and annealing temperatures). An E2 amplimer designed against TC-83, (VE2F/VE2R), identified VEE strains TRD (1AB), P676 (1C), 3880 (1D) Everglades (2) vRNA whilst a second E2 primer pair designed against strain 68U201, (68UF/68UR), identified all the remaining VEE viruses in the sero-complex. This would suggest that the VEE virus E2 gene can be sub-divided at the genetic level into two separate groups making it a useful target for differentiation of serosubtypes 1 and 2 from the other VEE virus subtypes. Using a panel of amplimers targeted to different VEE genes and strains it was possible to distinguish between most of the serotypes, but most importantly, we were able to detect the epizootic strains TRD and P676 as well as other VEE viruses implicated in human disease (sero-subtypes 1D and 1E).


Asunto(s)
Virus de la Encefalitis Equina Venezolana/aislamiento & purificación , Genes Virales , Reacción en Cadena de la Polimerasa/métodos , Animales , Chlorocebus aethiops , Sondas de ADN , Virus de la Encefalitis Equina Venezolana/genética , Estudios de Evaluación como Asunto , Humanos , Sensibilidad y Especificidad , Células Vero
18.
Melanoma Res ; 8(1): 2-10, 1998 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-9508370

RESUMEN

Reversible oxidation sensitivity of N-Oct-3 DNA binding activity was seen when melanoma extracts and recombinant Brn-2 protein were treated with a variety of metals, hydrogen peroxide and the cysteine disulphide bond forming agent diamide. Western blot analysis of diamide-oxidized N-Oct-3 protein indicated that this was likely to be due to intramolecular disulphide bonding. The potential role of oxidative loss of N-Oct-3 DNA binding activity is discussed in relation to redox changes that may occur during the early phase of apoptosis in neuronal cell lines and tissues. Brn-2 C-terminal antibody Western blot analysis of melanoma cell line nuclear extracts prepared using a combination of sodium dodecyl sulphate and NP-40 detergent cell lysis procedures demonstrated the formation of N-Oct-5 DNA binding activity via N-terminal proteolytic clipping of Brn-2/N-Oct-3.


Asunto(s)
ADN de Neoplasias/metabolismo , Proteínas de Unión al ADN/metabolismo , Regulación Neoplásica de la Expresión Génica , Melanoma Experimental/genética , Melanoma/genética , Factores de Transcripción/metabolismo , Animales , Western Blotting , Células COS , Núcleo Celular/química , Núcleo Celular/genética , ADN de Neoplasias/aislamiento & purificación , Diamida/farmacología , Regulación Neoplásica de la Expresión Génica/efectos de los fármacos , Células HeLa , Proteínas de Homeodominio , Humanos , Peróxido de Hidrógeno/farmacología , Metales , Ratones , Oxidación-Reducción , Factores del Dominio POU , Conejos , Células Tumorales Cultivadas
19.
Gene ; 194(1): 115-23, 1997 Jul 18.
Artículo en Inglés | MEDLINE | ID: mdl-9266680

RESUMEN

Cytomegalovirus-based mammalian expression vectors are widely used to drive the expression of transfected genes in cultured cells. Immunofluorescent staining of the WT1 protein in 3T3 and 293 cell clones, stably transfected with a cyomegalovirus (CMV) expression vector carrying a cDNA coding for the tumour suppressor protein WT1, showed extreme cell to cell variation in the amount of recombinant protein expressed, indicative of cell cycle dependence. This was investigated further by Western blot and FACS analysis which showed that WT1 protein expression was highest in S phase and almost absent in G0/G1. Northern blot analysis of cell clones expressing sense or antisense WT1 cDNAs regulated by the CMV promoter/enhancer showed that RNA expression was also cell cycle-dependent. Western blotting of cells expressing a luciferase reporter gene driven by the CMV promoter/enhancer also showed apparent cell cycle-dependent expression. We further demonstrated that the expression of these gene constructs was serum responsive with a 10-fold increase in expression occurring 2 h after the addition of serum. These results show that the CMV promoter/enhancer system varied in its response to serum and the cell cycle state. Therefore, care must be taken when interpreting any phenotypic alterations (or lack of them) produced in cells transfected with CMV-based expression vectors.


Asunto(s)
Ciclo Celular , Citomegalovirus , Proteínas de Unión al ADN/biosíntesis , Genes del Tumor de Wilms , Vectores Genéticos , Proteínas Recombinantes de Fusión/biosíntesis , Factores de Transcripción/biosíntesis , Transfección/métodos , Células 3T3 , Animales , Sangre , Línea Celular Transformada , Células Clonales , Medios de Cultivo , Proteínas de Unión al ADN/genética , Genes Reporteros , Humanos , Riñón , Luciferasas/biosíntesis , Mamíferos , Ratones , Factores de Transcripción/genética , Proteínas WT1
20.
Mol Plant Microbe Interact ; 8(5): 747-54, 1995.
Artículo en Inglés | MEDLINE | ID: mdl-7579618

RESUMEN

Four exo mutants of Agrobacterium radiobacter, defective in the synthesis of acidic exopolysaccharide were complemented by a gene from that species, which is similar to the transcriptional regulator, ros, of A. tumefaciens. It was confirmed that this A. radiobacter gene, which we term rosAR, like ros, repressed its own transcription as well as that of virC and virD, two loci involved in tumorigenesis. The sequence of RosAR suggested that it might bind to a transition metal and its repressor abilities were shown to require Fe in the medium; repression was also enhanced with increasing levels of glucose. Certain rosAR mutants, in which its 3' end was removed were dominant; i.e., when plasmids containing such mutant forms of the gene were introduced into wild-type A. radiobacter, the transconjugants were nonmucoid. Such effects were also seen in a wide range of bacteria, including Escherichia coli and Xanthomonas. Several mutants that were complementd by rosAR also accumulated protoporphyrin, suggesting a defect in haem synthesis.


Asunto(s)
Proteínas Bacterianas/genética , Proteínas de Unión al ADN/genética , Genes Reguladores , Glucosa/metabolismo , Hierro/metabolismo , Proteínas Represoras/genética , Rhizobium/genética , Alelos , Secuencia de Aminoácidos , Proteínas Bacterianas/metabolismo , Secuencia de Bases , ADN Bacteriano , Proteínas de Unión al ADN/metabolismo , Genes Dominantes , Datos de Secuencia Molecular , Mutación , Protoporfirinas/metabolismo , Proteínas Represoras/metabolismo , Rhizobium/metabolismo
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