An empirical approach to target DNA quantification in environmental samples using real-time polymerase chain reactions     

Robert H. Gulden  David Levy-Booth  Jeff R. Powell  Kari E. Dunfield  K. Peter Pauls  Clarence J. Swanton 《Soil biology & biochemistry》2007,39(8):1956-1967

Recent advances in molecular techniques have allowed for the routine examination of nucleic acids in environmental samples. Although current methodologies are very sensitive, accurate target DNA quantification from environmental samples remains challenging. To facilitate high-throughput DNA quantification from environmental samples, we developed a novel DNA quantification method based on a non-linear curve-fitting approach to extract additional information from quantitative PCR amplification curves and used the fitted parameters to develop multiple regression standard equations for target DNA quantification. A 3-parameter sigmoidal function performed superior to a 4-parameter Weibull function for generating the multiple regression standard equations. In a verification experiment, target DNA was quantified in a series of ‘unknown’ samples in three soils using this approach and the results were compared to target DNA values determined using corrected and uncorrected Ct-based (threshold cycle) methods. For each method, the deviations from the expected target DNA content were determined. Results clearly showed that over all DNA concentrations, target DNA content determined by the non-linear curve-fitting method was more accurate and more precise than values predicted by all other methods. Analysis of variance conducted on the predicted DNA contents also revealed fewer statistical artifacts with the non-linear curve fitting method compared to the conventional Ct-based methods. The novel approach described here is accurate, inexpensive, and very amenable for automation and high-throughput applications.  相似文献   

Surplus killing by introduced predators in Australia—evidence for ineffective anti-predator adaptations in native prey species?     

Jeff Short  J.E. KinnearAlan Robley 《Biological conservation》2002,103(3):283-301

Australian examples of surplus killing by mammalian predators were collated. These included surplus killing of native mammals and birds by foxes (Vulpes vulpes) and stock, native mammals and native birds by dingoes (Canis lupus dingo). We found no examples of surplus killing by feral cats (Felis catus). Incidents collated include historical anecdotes of surplus killing by foxes as they colonised the Australian mainland, recent examples where foxes killed threatened native species at sites despite intensive management to exclude foxes, and recent examples of the killing of native species on formerly fox-free islands to which foxes gained entry. Episodes of surplus killings by foxes, other than predation on captive or closely confined animals, appeared different in kind and frequency to those documented for co-evolved predator-prey systems on the large continental landmasses. They did not appear to be uncommon events associated with synchronised births of prey species, unusual or extreme weather that disadvantaged prey species, or seasonal food caching by a predator. Rather, surplus killing events appeared to reflect ineffective anti-predator defences by prey species when encountering a novel and efficient predator to which they have had no evolutionary exposure. We suggest that surplus killing by foxes may have been a feature of, and major contributor to, the rapid mainland extinction or contraction in range of many native species in Australia. In contrast to foxes, examples of surplus killing by dingoes relate mostly to domestic stock (calves and sheep). The arrival of dingoes to the Australian continent preceded that of foxes by 3500-4000 years, but they appear not to have had the dire impact on native mammals that we attribute to foxes. This may be due to fundamental differences in hunting styles and prey size and to their sparse populations in pre-European Australia. Active persecution of non-commensal dingoes by Aborigines, the lack of free-water, and the absence of European rabbits (Oryctolagus cuniculus) as an alternative food supply would have limited their numbers and their impact on native mammals.  相似文献   

Effect of tillage and rotation on organic carbon forms of chernozemic soils in Saskatchewan     

Tianyun Wu  Jeff J. Schoenau  Fengmin Li  Peiyuan Qian  Sukhdev S. Malhi  Yuanchun Shi 《植物养料与土壤学杂志》2003,166(3):328-335

The effects of selected tillage and rotation systems on soil organic carbon and its fractions were studied on Chernozemic soils in south‐western and east‐central Saskatchewan. After practicing a no‐till fallow unfertilized‐wheat rotation for 7 years on an Orthic Brown Chernozem in south‐western Saskatchewan, total soil organic carbon (TOC) in the 0 – 5 cm and 5 – 10 cm layers was slightly lower than the tillage fallow‐unfertilized wheat comparable treatment. However, light fraction of organic carbon (LFOC) was similar in the two treatments. Comparison of the tillage fallow‐unfertilized wheat to a treatment involving conversion to a fertilized continuous cropping system for 10 years showed TOC increased slightly in the two depths and LFOC increased by 24 % and 29 % in the 0 – 5 cm and 5 – 10 cm layer, respectively, of the continuous cropping treatment. Microbial biomass carbon (MB‐C) was increased significantly at the 5 – 10 cm depth. After conversion of fallow‐wheat to alfalfa as perennial forage for 10 years, TOC increased by 80 % and 27 %, LFOC by 245 % and 286 %, and HFOC by 63 % and 20 % at 0 – 5 cm and 5 – 10 cm depths, respectively, compared to the tilled cereal‐fallow system. Meanwhile, water soluble organic carbon (WSOC) was not affected but MB‐C increased significantly. In an Orthic Black Chernozem in east‐central Saskatchewan, the depletion and restoration of organic carbon was observed when native sod was changed into cropland and then back to grassland. For example, the TOC of cropland under cereal‐fallow rotation for 62 years decreased by 42 % and 33 % at 0 – 5 cm and 5 – 10 cm depths, respectively, compared to native sod. The LFOC decreased by 79 % and 74 % in the layers, and reductions in WSOC and MB‐C were even greater. After cropland was re‐seeded to grassland for 12 years, the concentration of total organic carbon was increased by 16 % and 22 % while the mass of organic carbon was the same as the cropland in the two layers. The LFOC and MB‐C amounts in the grass seed‐down were double that of the cropped land, but the amounts of TOC, LFOC, and MB‐C in grass seed‐down were still significantly lower than the native sod.  相似文献   

Generation of a Mixolab Profile After the Evaluation of the Functionality of Different Commercial Wheat Flours for Hot‐Press Tortilla Production     

Elieser S. Posner  Ana A. Chew‐Guevara  Marcelo Mitre‐Dieste  Esther Perez‐Carrillo  Erick Heredia‐Olea  Jeff D. Wilson  Sergio O. Serna‐Saldivar 《Cereal Chemistry》2014,91(2):139-145

Refined wheat flours commercially produced by five different U.S. and Mexican wheat blends intended for tortilla production were tested for quality and then processed into tortillas through the hot‐press forming procedure. Tortilla‐making qualities of the flour samples were evaluated during dough handling, hot pressing, baking, and the first five days on the shelf at room temperature. The predominant variables that affected the flour tortilla performance were wet gluten content, alveograph W (220–303) and P/L (0.70–0.94) parameters, farinograph water absorption (57%) and stability (10.8–18.7 min), starch damage (5.43–6.71%), and size distribution curves (uniform particle distribution). Flours produced from a blend of Dark Northern Spring (80%) and Mexican Rayon (20%) wheat had the highest water absorption, and tortillas obtained from this blend showed the highest diameter and lowest thickness. The whitest and best textured tortillas were obtained from the flour milled from three hard types of Mexican wheat blend. A Mixolab profile was generated from the best tortilla flours, those produced by mills 3 and 4. The Mixolab profile showed that a good flour for hot‐press tortillas had a relatively lower absorption and short dough mix time compared with a bread flour and should have a significantly higher gluten compared with an all‐purpose flour. Compared with bread flour, the tortilla flour had higher retrogradation and viscosity values. The Mixolab profile proved to be a good preliminary test to evaluate flours for hot‐press tortillas.  相似文献   

SNOMED representation of explanatory knowledge in veterinary clinical pathology     

Zimmerman KL  Wilcke JR  Robertson JL  Feldman BF  Kaur T  Rees LR  Spackman KA 《Veterinary clinical pathology / American Society for Veterinary Clinical Pathology》2005,34(1):7-16

BACKGROUND: The Systematized Nomenclature of Medicine (SNOMED) is an established standard nomenclature for the expression of human and veterinary medical concepts. Nomenclature standards ease sharing of medical information, create common points of understanding, and improve data aggregation and analysis. OBJECTIVES: The objective of this study was to determine whether SNOMED adequately represented concepts relevant to veterinary clinical pathology. METHODS: Concepts were isolated from 3 different types of clinical pathology documents: 1) a textbook (Textbook), 2) the Results sections of industry pathology reports (Findings), and Discussion sections from industry pathology reports (Discussion). Concepts were matched (mapped) by 2 reviewers to semantically-equivalent SNOMED concepts. A quality score of 3 (good match), 2 (problem match), or 1 (no match) was recorded along with the SNOMED hierarchical location of each mapped concept. Results were analyzed using Cohen's Kappa statistic to assess reviewer agreement and chi-square tests to evaluate association between document type and quality score. RESULTS: The percentage of good matches was 48.3% for the Textbook, 45.4% for Findings, and 47.5% for Discussion documents, with no significant difference among documents. Of remaining concepts, 40% were partially expressed by SNOMED and 14% did not match. Mean reviewer agreement on quality score assignments was 76.8%. CONCLUSIONS: Although SNOMED representation of veterinary clinical pathology content was limited, missing and problem concepts were confined to a relatively small area of terminology. This limitation should be addressed in revisions of SNOMED to optimize SNOMED for veterinary clinical pathology applications.  相似文献   

Prevalence and risk factors associated with outcome of surgical removal of pedunculated lipomas in horses: 102 cases (1987-2002)     

Garcia-Seco E  Wilson DA  Kramer J  Keegan KG  Branson KR  Johnson PJ  Tyler JW 《Journal of the American Veterinary Medical Association》2005,226(9):1529-1537

OBJECTIVE: To determine the prevalence of pedunculated lipomas and identify risk factors affecting postoperative complications and survival in horses at a veterinary teaching hospital undergoing surgery for colic caused by pedunculated lipomas. DESIGN: Retrospective study. ANIMALS: 102 horses with a diagnosis of pedunculated lipoma. PROCEDURE: Age, breed, weight, and sex of horses with pedunculated lipomas were compared with the total equine hospital population and the population of horses admitted for abdominal surgery during the same period. Follow-up information was obtained by reevaluation or contact with owners via telephone or written request. RESULTS: Prevalence of pedunculated lipomas as a reason for abdominal surgery in horses, compared with the population of horses with and without lipomas admitted for abdominal surgery, was 10%. Castrated male Saddlebred and Arabian horses > 14 years old were identified as being at risk for developing pedunculated lipomas. Postoperative complications were detected in 72% of horses with pedunculated lipomas. Variables associated with low survival rates included surgery before 1992, heart rate > 80 beats/min, abnormal color of abdominal fluid, pale mucous membranes, surgery requiring intestinal resection, and inability to attain a mean arterial pressure > or = 100 mm Hg. Horses undergoing surgery from 1992 to 1996, weighing < 409 kg (900 lb), or requiring jejunojejunal anastomosis had a high survival rate. CONCLUSIONS AND CLINICAL RELEVANCE: Although many of the variables reflected the health of the horse at the time of surgery, results may help veterinarians recognize risk factors associated with development of pedunculated lipomas and better predict the outcome of horses undergoing surgery for colic caused by pedunculated lipomas.  相似文献   

Effects of supplemental lactoferrin on serum lactoferrin and IgG concentrations and neutrophil oxidative metabolism in Holstein calves     

Dawes ME  Lakritz J  Tyler JW  Cockrell M  Marsh AE  Estes DM  Larson RL  Steevens B 《Journal of veterinary internal medicine / American College of Veterinary Internal Medicine》2004,18(1):104-108

Lactoferrin (LF) is an iron-binding protein present in both colostrum and secondary granules of polymorphonuclear neutrophils (PMNs). We hypothesized that supplemental LF enhances neutrophil function in neonatal calves. Newborn calves were assigned to receive colostrum (C), colostrum + LF (CLF, 1 g/kg), or milk replacer + LF (MRLF, 1 g/kg). Serum (LF and IgG) and whole blood (neutrophil isolation) samples were obtained prior to treatment (day 0) and at 24 hours and 9 days of age. Serum IgG concentrations (mean +/- SD) in C, CLF, and MRLF calves at 24 hours were 1,911 +/- 994 mg/dL, 2,181 +/- 625 mg/dL, and 0 mg/ dL, respectively. Serum LF concentrations in C, CLF, and MRLF calves on day 0 were 324 +/- 334 ng/mL (range 0-863 ng/mL), 135 +/- 158 ng/mL (range 0-429 ng/mL), and 318 +/- 337 ng/mL (range 0-964 ng/mL), respectively. LF concentrations in C, CLF, and MRLF calves at 24 hours were significantly higher (P < .05), at 1,564 +/- 1,114 ng/mL (range 335-3,628 ng/mL, 2,237 +/- 936 ng/mL (range 31-3,287 ng/mL), and 3,189 +/- 926 ng/mL (range 1,736-4,120 ng/mL), respectively. Cytochrome c reduction in opsonized zymosan-treated or phorbol ester-treated cells was not significantly affected by supplemental LF provided at birth. Oral LF is absorbed in calves but does not alter PMN superoxide production and does not alter IgG absorption.  相似文献   

Survey of purebred dogs in the UK     

Herrtage M  Sampson J  Wood J 《The Veterinary record》2004,154(2):64

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Pharmacokinetics, stability, and retrospective analysis of use of an oral gel formulation of the bovine injectable enrofloxacin in horses     

Epstein K  Cohen N  Boothe D  Nieuwoudt C  Chandler J 《Veterinary therapeutics : research in applied veterinary medicine》2004,5(2):155-167

In many cases of equine infectious disease, long-term administration of antimicrobial drugs is required. Oral agents are preferred because of the relative ease of administration compared with other routes. Enrofloxacin has been shown to be effective against a variety of equine pathogens, but oral administration of this drug has proved difficult in horses. An oral gel formulation made from the injectable cattle product produces blood levels sufficient to resolve infections caused by a variety of common equine pathogens.  相似文献   

Hepatitis in English springer spaniels in the UK and Norway     

Watson P  Skancke E  Farstad W  Sampson J  Bloomfield L  Scott L 《The Veterinary record》2006,158(9):311

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