Terraces in phylogenetic tree space     

Sanderson MJ  McMahon MM  Steel M 《Science (New York, N.Y.)》2011,333(6041):448-450

A key step in assembling the tree of life is the construction of species-rich phylogenies from multilocus--but often incomplete--sequence data sets. We describe previously unknown structure in the landscape of solutions to the tree reconstruction problem, comprising sometimes vast "terraces" of trees with identical quality, arranged on islands of phylogenetically similar trees. Phylogenetic ambiguity within a terrace can be characterized efficiently and then ameliorated by new algorithms for obtaining a terrace's maximum-agreement subtree or by identifying the smallest set of new targets for additional sequencing. Algorithms to find optimal trees or estimate Bayesian posterior tree distributions may need to navigate strategically in the neighborhood of large terraces in tree space.  相似文献   

Weak effect of edges on avian nesting success in fragmented and forested landscapes in Ontario,Canada     

Karla J. Falk  Erica Nol  Dawn M. Burke 《Landscape Ecology》2011,26(2):239-251

We studied the effects of anthropogenic edges on predation and parasitism of forest bird nests in an agriculturally fragmented landscape and a continuously forested landscape in Ontario, Canada. Nesting data were collected at 1937 nests across 10 species in the fragmented landscape from 2002–2008, and 464 nests across 4 species in the continuously forested landscape from 2006–2008. Brood parasitism only occurred in the fragmented landscape, and was positively related to the proportion of rural grassland and row crop habitats within 500-m of nests. Daily nest survival was negatively related to the density of roads within 500-m of nests in the fragmented landscape, but was not influenced by distance to anthropogenic edge in either landscape. Predation rates were higher in the fragmented landscape for Ovenbird and Rose-breasted Grosbeak nests, but did not differ between landscapes for Veery and American Redstart nests. Uniformly high predation in the fragmented landscape may be a result of (1) matrix predators that penetrate deep (>300 m) into the forest interior, or (2) the additive effect of forest-dependent and matrix-associated predators that results in high predation pressure in both edge and interior habitats. Further research focused on the identification of nest predators, their population dynamics, and habitat use is required to understand the underlying mechanisms leading to uniformly high nest predation in fragmented landscapes.  相似文献   

Effect of dextransucrase cellobiose acceptor products on the growth of human gut bacteria     

Ruiz-Matute AI  Brokl M  Sanz ML  Soria AC  Côté GL  Collins ME  Rastall RA 《Journal of agricultural and food chemistry》2011,59(8):3693-3700

The selective fermentation by human gut bacteria of gluco-oligosaccharides obtained from the reaction between the glucosyl group of sucrose and cellobiose, catalyzed by dextransucrases (DSR) from Leuconostoc mesenteroides , has been evaluated. Oligosaccharides were fractionated according to their molecular weight, and their effect on the growth of different bacterial groups was studied. To determine the structure (position and configuration of glycosidic linkages)-function relationship, their properties were compared to those of DSR maltose acceptor products (DSRMal) and of recognized prebiotic carbohydrates (fructo-oligosaccharides, FOS). Cellobiose acceptor products (DSRCel) showed bifidogenic properties similar to those of FOS. However, no significant differences related to molecular weight or isomeric configurations were found for DSRCel and DSRMal products.  相似文献   

Evaluation of modified techniques for immobilization of wild ring-tailed lemurs (Lemur catta)     

Larsen RS  Sauther ML  Cuozzo FP 《Journal of zoo and wildlife medicine》2011,42(4):623-633

Wild ring-tailed lemurs (Lemur catta) can be anesthetized with Telazol via blow dart, but improved techniques are needed so that each lemur is reliably induced with a single dart. Medetomidine-butorphanol (MB) is a good supplemental protocol to be administered once the lemurs are captured, but other protocols may provide longer periods of sedation and immobility. One possible way of increasing the efficacy of each dart is to increase the time it is retained in the leg. In this investigation, a "double-sleeve" technique was used to try to increase the time of dart retention. This technique used a standard silicone sleeve on the needle, along with a second sleeve at the needle hub. Induction values were compared between lemurs darted with double-sleeve needles and those induced with needles that each had a single silicone sleeve. Once the lemurs were induced, supplementation with MB (0.04 mg/kg and 0.2 mg/kg) was compared with supplementation with ketamine-medetomidine (KM) (10 mg/ kg and 0.04 mg/kg). Twenty-three lemurs were darted with Telazol by using single-sleeve needles, and 24 were darted with double-sleeve needles. The number of darts per lemur and number of escapes were not different between animals darted with a single sleeve compared with a double-sleeve; thus, there were no significant improvements in induction success with the double-sleeve technique. Adequate sedation and muscle relaxation were achieved with both MB and KM; however, lemurs that received MB were more relaxed and needed fewer additional supplements that those that received KM. Single-sleeve dart needles are recommended for Telazol induction of ring-tailed lemurs via blow dart and MB is preferable to KM for supplemental sedation and muscle relaxation.  相似文献   

Detecting interaction(s) and assessing the impact of component subsets in a chemical mixture using fixed-ratio mixture ray designs     

Michelle Casey  Chris Gennings  W. Hans Carter  Virginia C. Moser  Jane Ellen Simmons 《Journal of Agricultural, Biological & Environmental Statistics》2004,9(3):339-361

An important environmental and regulatory issue is the protection of human health from potential adverse effects of cumulative exposure to multiple chemicals. Earlier literature suggested restricting inference to specific fixed-ratio rays of interest. Based on appropriate definitions of additivity, single chemical data are used to predict the relationship among the chemicals under the zero-interaction case. Parametric comparisons between the additivity model and the model fit along the fixed-ratio ray(s) are used to detect departure from additivity. Collection of data along reduced fixed-ratio rays, where subsets of chemicals of interest are removed from the mixture and the remaining compounds are at the same relative ratios as considered in the full ray, allow researchers to make inference about the effect of the removed chemicals. Methods for fitting simultaneous confidence bands about the difference between the best fitting model and the model predicted under additivity are developed to identify regions along the rays where significant interactions occur. This general approach is termed the “single chemicals required” (SCR) method of analysis. A second approach, termed “single chemicals not required” (SCNR) method of analysis, is based on underlying assumptions about the parameterization of the response surface. Under general assumptions, polynomial terms for models fit along fixed-ratio rays are associated with interaction terms. Consideration is given to the case where only data along the mixture rays are available. Tests of hypotheses, which consider interactions due to subsets of chemicals, are also developed.  相似文献   

Nutritional value of a highly digestible sorghum cultivar for meat-type chickens     

Elkin RG  Arthur E  Hamaker BR  Axtell JD  Douglas MW  Parsons CM 《Journal of agricultural and food chemistry》2002,50(14):4146-4150

The nutritional value of a newly discovered sorghum mutant cultivar (P851171), with high in vitro protein digestibility, was compared to those of corn and two normal sorghums (P721N and 611Y) in two chick feeding trials. Although 8-20 day protein efficiency ratios and net protein ratios of all three sorghums were inferior to those of corn, P851171 and 611Y had markedly greater mean true amino acid digestibilities (TAAD) than either corn or P721N. In a subsequent 42-day experiment, all three sorghums supported weight gains equal to those of the corn-fed chicks. Feeding suboptimal levels of dietary protein resulted in reduced weight gains and no observed benefits of P851171 or 611Y. Furthermore, chicks fed P851171 exhibited poorer feed/gain values as compared to those fed the other cereals. It is possible that the starch content/carbohydrate profile of P851171 was inferior to that of the other sorghums, which offset its superior TAAD and resulted in poorer broiler performance.  相似文献   

Treatment of clinical mastitis. Using antimicrobial susceptibility profiles for treatment decisions.     

Peter D Constable  Dawn E Morin 《Veterinary Clinics of North America: Food Animal Practice》2003,19(1):139-155

Antibiotic susceptibility of clinical mastitis pathogens has traditionally been determined using the agar diffusion method that was designed to reflect the antibiotic concentration in serum and interstitial fluid of human patients after receiving oral or intravenous administration. The validity of applying agar diffusion susceptibility breakpoints derived from humans to the treatment of bovine mastitis has not been established and is extremely questionable because (1) bovine milk pH and electrolyte, fat, protein, and leukocyte concentrations, growth factor composition, and pharmacokinetic profiles are different than those for human plasma and (2) human bacterial pathogens are often different from bovine mastitis pathogens. Also, antibiotics are distributed unevenly in an inflamed gland, and high antibiotic concentrations can alter neutrophil morphology or function in vitro and thereby inhibit bacterial clearance in vivo. The current cost of antibiotic susceptibility testing is $12 to $20 per test. Because the dairy industry is economically driven, any diagnostic test should be validated, have appropriate sensitivity and specificity, and have an acceptable economic return on the cost of testing before it can be routinely recommended. In the authors' opinion, antimicrobial susceptibility testing of mastitis pathogens has not been adequately validated for most mastitis pathogens and antibiotics; therefore, the authors do not currently recommend the use of susceptibility testing to guide treatment decisions for individual cows. Additional research is needed to further define the role, if any, that antimicrobial susceptibility testing should play in the treatment of clinical mastitis.  相似文献   

The interactive effects of UV-B and insecticide exposure on tadpole survival, growth and development     

Christine M. Bridges  Michelle D. Boone 《Biological conservation》2003,113(1):49-54

Because declines within amphibian populations can seldom be attributed to a single cause, it is important to focus on multiple stressors, both natural and anthropogenic. Variables such as UV-B radiation and chemical contamination can interact with one another in ways that might not be predicted from single-factor studies. We exposed southern leopard frog (Rana sphenocephala) tadpoles to the insecticide carbaryl and varying intensities of UV-B radiation in artificial ponds and examined their effects on survival, size at metamorphosis, and the duration of the larval period. Tadpole survival to metamorphosis was positively influenced by UV-B intensity. Tadpoles in ponds exposed to carbaryl contained over three times more algae and yielded larger metamorphs than control ponds. Although previous laboratory studies have indicated carbaryl becomes more toxic in the presence of UV-B, we did not find such an effect, perhaps because of the protection afforded by dissolved organic carbon within the ponds. Our research emphasizes the importance of conducting field studies to more accurately predict what occurs under a natural setting.  相似文献   

Lethal and sub-lethal effects of spinosad on bumble bees (Bombus impatiens Cresson)   总被引：2，自引：0，他引：2  

Morandin LA  Winston ML  Franklin MT  Abbott VA 《Pest management science》2005,61(7):619-626

Recent developments of new families of pesticides and growing awareness of the importance of wild pollinators for crop pollination have stimulated interest in potential effects of novel pesticides on wild bees. Yet pesticide toxicity studies on wild bees remain rare, and few studies have included long-term monitoring of bumble bee colonies or testing of foraging ability after pesticide exposure. Larval bees feeding on exogenous pollen and exposed to pesticides during development may result in lethal or sub-lethal effects during the adult stage. We tested the effects of a naturally derived biopesticide, spinosad, on bumble bee (Bombus impatiens Cresson) colony health, including adult mortality, brood development, weights of emerging bees and foraging efficiency of adults that underwent larval development during exposure to spinosad. We monitored colonies from an early stage, over a 10-week period, and fed spinosad to colonies in pollen at four levels: control, 0.2, 0.8 and 8.0 mg kg(-1), during weeks 2 through 5 of the experiment. At concentrations that bees would likely encounter in pollen in the wild (0.2-0.8 mg kg(-1)) we detected minimal negative effects to bumble bee colonies. Brood and adult mortality was high at 8.0 mg kg(-1) spinosad, about twice the level that bees would be exposed to in a 'worst case' field scenario, resulting in colony death two to four weeks after initial pesticide exposure. At more realistic concentrations there were potentially important sub-lethal effects. Adult worker bees exposed to spinosad during larval development at 0.8 mg kg(-1) were slower foragers on artificial complex flower arrays than bees from low or no spinosad treated colonies. Inclusion of similar sub-lethal assays to detect effects of pesticides on pollinators would aid in development of environmentally responsible pest management strategies.  相似文献   

Vancomycin for multi-drug resistant Enterococcus faecium cholangiohepatitis in a cat     

Pressel MA  Fox LE  Apley MD  Simutis FJ 《Journal of Feline Medicine and Surgery》2005,7(5):317-321

A 12-year-old, neutered male domestic shorthair cat was evaluated with a life-long history of intermittent, predominantly small bowel diarrhea and a 3 day history of hematochezia. At presentation, the cat had increased liver enzyme activities and an inflammatory leukogram. Histopathology demonstrated inflammatory bowel disease (IBD), cholangiohepatitis and pancreatitis. The cholangiohepatitis was associated with a multi-drug resistant Enterococcus faecium. Gallbladder agenesis was also documented. Treatment with vancomycin was safely instituted for 10 days. Clinical signs resolved, however, cure of the bacterial cholangiohepatitis was not achieved. The risk of vancomycin resistant enterococci (VRE) in human and veterinary medicine is discussed.  相似文献