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Background
Identification of Staphylococci to species level in veterinary microbiology is important to inform therapeutic intervention and management. We report on the efficacy of three routinely used commercial phenotypic methods for staphylococcal species identification, namely API Staph 32 (bioMérieux), RapID (Remel) and Staph-Zym (Rosco Diagnostica) compared to genotyping as a reference method to identify 52 staphylococcal clinical isolates (23 coagulase positive; 29 coagulase negative) from companion animals in Irish veterinary hospitals.Results
Genotyping of a 412 bp fragment of the staphylococcal tuf gene and coagulase testing were carried out on all 52 veterinary samples along with 7 reference strains. In addition, genotyping of the staphylococcal rpoB gene, as well as PCR-RFLP of the pta gene, were performed to definitively identify members of the Staphylococcus intermedius group (SIG). The API Staph 32 correctly identified all S. aureus isolates (11/11), 83% (10/12) of the SIG species, and 66% (19/29) of the coagulase negative species. RapID and Staph-Zym correctly identified 61% (14/23) and 0% (0/23) respectively of the coagulase-positives, and 10% (3/29) and 3% (1/29) respectively of the coagulase-negative species.Conclusions
Commercially available phenotypic species identification tests are inadequate for the correct identification of both coagulase negative and coagulase positive staphylococcal species from companion animals. Genotyping using the tuf gene sequence is superior to phenotyping for identification of staphylococcal species of animal origin. However, use of PCR-RFLP of pta gene or rpoB sequencing is recommended as a confirmatory method for discriminating between SIG isolates. 相似文献Sediment dynamics in most large river basins are influenced by a variety of different natural and anthropogenic pressures, and disentangling these cumulative effects remains a challenge. This study determined the contemporary and historical sources of fine-grained (<?63-μm) sediment in a large, regulated river basin and linked changes in sources to activities in the basin. The river has seen declines in chinook salmon, sockeye salmon, and the endangered Nechako white sturgeon populations, and sediment (both fine-grained and sands) transport and deposition have been identified as potential causes of these declines.
Materials and methodsSamples of suspended sediment and potential source materials were collected from numerous sites distributed throughout the upper Nechako River Basin in British Columbia, Canada. A floodplain sediment core was also collected in order to reconstruct sediment sources over the last ~?70 years. Discriminating fingerprint properties were used within the MixSIAR model to apportion sources among sub-basins and land-use types. Results were compared to records of precipitation and Nechako River discharge trends, and to changes in landscape development.
Results and discussionContributions from the erosion of channel banks dominated the suspended sediment load at most sites. Changes in sediment sources during the 2015 field season reflected snowmelt and patterns of water release from the Nechako Reservoir that affected the sediment-carrying capacity of tributaries and the Nechako River main stem. Spatial variations in 2015 also reflected the distribution of land use (e.g., forested or agricultural land) as well as topography (e.g., slope steepness). Over the last ~?70 years, variations in sediment sources and the characteristics of the sediment (e.g., organic matter content and particle size composition) were linked to the construction of the Kenney Dam (operational in 1954) and the impacts of deforestation by the forestry and agricultural industries. Superimposed on these have been wildfires and a major mountain pine beetle infestation leading to higher erosion rates in the affected areas.
ConclusionsThe sediment source fingerprinting technique, in combination with historical information on the hydrometeorology and the land use and river management in the basin, has provided valuable information with which to understand sediment dynamics in the Nechako River Basin. Such an approach can help to disentangle how large river systems respond to a combination of natural and anthropogenic pressures.
相似文献Methods: This was a longitudinal study following two groups of young pasture-fed Holstein and Jersey bulls from northwest Tasmania, Australia. Individual scrotal circumference, bodyweight and semen characteristics were recorded at 6–8 weekly intervals, from 6–18 months of age. Classification and regression tree analyses were used to predict the probability that a bull had ≥70% normal sperm morphology based on scrotal circumference and bodyweight measurements.
Results: Overall 1,661 scrotal circumference and bodyweight measurements were obtained, and 518 semen samples from 356 bulls were assessed for sperm morphology, from 16 examination sessions that took place between 29 May 2015 and 17 August 2016. Classification and regression tree analyses generated a decision tree for Holstein bulls with four node endpoints, and for Jersey bulls with three node endpoints. Diagnostic test performance showed that for Holstein bulls, using the node endpoints of scrotal circumference ≥27?cm and bodyweight ≥349?kg, 98% had ≥70% normal sperm (positive likelihood ratio 10.4; 95% CI?=?2.7–41), and using the node endpoints of scrotal circumference ≥27?cm and bodyweight between 282–349?kg, 89% had ≥70% normal sperm (positive likelihood ratio 1.6; 95% CI?=?0.9–2.6). For Jersey bulls, using the node endpoints of bodyweight ≥259?kg and scrotal circumference ≥29?cm, 88% had ≥70% normal sperm (positive likelihood ratio 3.4; 95% CI?=?1.6–7.0).
Conclusions: This study provides a set of relatively simple decision rules based on bodyweight and scrotal circumference measurements that allows herd managers to assess the likelihood that juvenile bulls are ready for BBSE or breeding.
Abbreviations: BBSE: Bull breeding soundness evaluation; BRT: Boosted regression tree 相似文献