Method to estimate genotype probabilities at individual loci in farm livestock

Summary A Bayesian method to estimate genotype probabilities at a single locus using information on the individual and all its relatives and their mates has been developed. The method uses data over several generations, can deal with large numbers of individuals in large livestock families and allows for missing information. It can be extended to multiple alleles and can be used for autosomal or sex-linked loci. The allele frequencies and the form of expression (dominance, penetrance) must be specified. An algorithm using the method and involving an iterative procedure has been developed to calculate the genotype probabilities for practical use in livestock breeding. The method and algorithm were used to determine the accuracy of estimating genotype probabilities of sires for a female sex-limited trait, such as genetic variants of milk proteins. Data were similated and genotype probabilities estimated for 100 sires (20 replicates) with 3, 6 and 12 female offspring per sire, for different population frequencies, for additive and dominance gene action and for variable genotypic expression. Such simulation is useful in the design of testing systems for the use of information on specific genetic loci in selection.Prepared during a leave at Centre for Genetic Improvement of Livestock, Guelph, Canada     

Occupational health problems among migrant and seasonal farm workers.

Migrant and seasonal farm workers are one of the most underserved and understudied populations in the United States. The total US population of such farm workers has been estimated at 5 million, of whom about 20% live or work in California. Farm workers perform strenuous tasks and are exposed to a wide variety of occupational risks and hazards. Low socioeconomic status and poor access to health care also contribute to existing health problems in this population. Potential farm work-related health problems include accidents, pesticide-related illnesses, musculoskeletal and soft-tissue disorders, dermatitis, noninfectious respiratory conditions, reproductive health problems, health problems of children of farm workers, climate-caused illnesses, communicable diseases, bladder and kidney disorders, and eye and ear problems. Few epidemiologic studies exist of these occupational health problems. No comprehensive epidemiologic studies have assessed the magnitude of occupational health problems among migrant and seasonal farm workers and their dependents. Although the migratory nature of this population makes long-term studies difficult, the development of standardized data collection instruments for health consequences and scientific assessment of farm work exposures and working conditions are vital to characterize and reduce the occupational health risks in farm workers.     

矿区废弃地土壤动物研究进展

土壤动物的侵入与定居是矿区废弃地群落结构形成的重要途径.随着矿区废弃地废弃时间的增加,土壤动物群落结构不断改变,这对于矿区废弃地生态系统演替与生态恢复具有重要的作用.本文综述了矿区废弃地土壤动物生态环境、土壤动物迁居与群落演替、土壤动物活动对土壤过程的影响、土壤动物对矿区废弃地环境的响应及其指示意义等方面的研究进展.在对已有成果进行综合分析的基础上,就目前矿区废弃地土壤动物研究中亟待解决的一些问题进行了探讨,并提出今后应加强研究的方向.     

Extremal problems for topological indices in combinatorial chemistry.

Topological indices of molecular graphs are related to several physicochemical characteristics; recently, the inverse problem for some of these indices has been studied, and it has some applications in the design of combinatorial libraries for drug discovery. It is thus very natural to study also extremal problems for these indices, i.e., finding graphs having minimal or maximal index. In this paper, these questions will be discussed for three different indices, namely the sigma-index, the c-index and the Z-index, with emphasis on the sigma-index.     

Analyses of livestock production, waste storage, and pathogen levels and prevalences in farm manures

Survey results describing the levels and prevalences of zoonotic agents in 1,549 livestock waste samples were analyzed for significance with livestock husbandry and farm waste management practices. Statistical analyses of survey data showed that livestock groups containing calves of <3 months of age, piglets, or lambs had higher prevalences and levels of Campylobacter spp. and Escherichia coli O157 in their wastes. Younger calves that were still receiving milk, however, had significantly lower levels and prevalence of E. coli O157. Furthermore, when wastes contained any form of bedding, they had lowered prevalences and levels of both pathogenic Listeria spp. and Campylobacter spp. Livestock wastes generated by stock consuming a diet composed principally of grass were less likely to harbor E. coli O157 or Salmonella spp. Stocking density did not appear to influence either the levels or prevalences of bacterial pathogens. Significant seasonal differences in prevalences were detected in cattle wastes; Listeria spp. were more likely to be isolated in March to June, and E. coli O157 was more likely to be found in May and June. Factors such as livestock diet and age also had significant influence on the levels and prevalences of some zoonotic agents in livestock wastes. A number of the correlations identified could be used as the basis of a best-practice disposal document for farmers, thereby lowering the microbiological risks associated with applying manures of contaminated livestock to land.     

The biology and chemistry of antifungal agents: A review

In recent years their has been an increased use of antifungal agents and has resulted in the development of resistance to drugs. Currently, use of standard antifungal therapies can be limited because of toxicity, low efficacy rates. Different types of mechanisms contribute to the development of resistance to antifungals. This has given raise to search for a new heterocycle with distinct action or multitargeted combination therapy. This review addresses the areas such as the underlying mechanisms, eight different targets such as ergosterol synthesis, chitin synthesis, ergosterol disruptors, glucan synthesis, squalene epoxidase, nucleic acid synthesis, protein synthesis, microtubules synthesis. The clinically employed drugs along with the current research work going on worldwide on different heterocycles are discussed. In recent advances various heterocycles including imidazole, benzimidazole etc., twenty three scaffolds and their lead identification are discussed.     

Seasonal and physiological variations in serum chemistry and mineral concentrations in cattle

The present study reports the seasonal and physiological variations of copper, zinc, magnesium, iron sodium chlorine, potassium, calcium, phosphorus, urea, alkaline phosphatase (ALP), creatinine (CR), aspartate aminotransfrase (AST), alanine aminotransferase (ALT), cholesterol, albumin, globulin, lactate dehydrogenase (LDH), and total protein concentrations in cattle. Two groups of mated (n=14) and nonmated (n=10), healthy cows were selected for the study. Serum samples were collected at each of four periods: (1) early pregnancy (May), (2) midpregnancy (August), (3) late pregnancy (October), and (4) lactation (February). Physiological variations result in changes of cholesterol, calcium, LDH, and total protein concentrations. Phosphorus varies only with seasonal but not physiological changes, whereas ALP, copper, magnesium, and potassium concentrations change with physiological and seasonal conditions. The copper concentration is increased through the pregnancy. Neither the seasonal nor the physiologic variations affect zinc, iron, sodium, chlorine, calcium, urea, creatinine, albumin, and globulin values in both groups in all periods. Thus, these values can be used as reference for both mater and nonmated bovines. The measured total protein might not reflect its true value because of dehydration during the hot season. These observations suggest that seasonal and physiologic variations have to be taken into consideration for the correct interpretation of serum chemistry and elements status in cattle. Nutritional supplements are required for cattle during certain periods to avoid a decline of their performance, which would then represent consequent economic loses.     

Detecting autocorrelation problems from GPS collar data in livestock studies

Uneven use of grasslands and savannas by livestock has a significant impact on ecosystem productivity, biodiversity, and function. In studies of livestock distribution, global positioning systems (GPS) collars are frequently used and the rapid rate of technological improvement has brought new opportunities to collect extremely large amounts of very accurate spatial information. However, these advances also pose statistical challenges associated with the analysis of large, temporally correlated, datasets. Our main goal was to find the optimal sampling time intervals for GPS collar schedules when studying livestock distribution in semi-arid ecosystems. The schedule must provide maximum spatio-temporal information while avoiding problems of autocorrelation of sequential locations to provide a methodology that is both practical and statistically valid. We used GPS collar data collected in the Southwestern region of the United States. In each study cattle were tracked and data were recorded every 5 min. Location information from the 5-min GPS fixes were subsampled into 10, 20, 30, 60, 90, 120, 150, 180, 240, 300, 360, and 420-min regular intervals. We calculated the Euclidean distance between pairs of successive locations then conducted correlation analyses to determine the degree of similarity between successive traveled distances. We then selected two correlated and two non-correlated time-interval datasets to compare estimates of kernel home range and minimum convex polygon areas. Successive Euclidean distances between GPS locations were significantly correlated when time intervals were <120 min. The calculated distance traveled was significantly reduced as time intervals between successive locations increased. Kernel home range values were smaller in correlated than in non-correlated datasets yet minimum convex polygon values were greater in correlated data than in non-correlated data sets. Our study shows the importance of considering different livestock sampling time intervals using GPS to achieve accurate and meaningful results on animal distributions especially in semi-arid ecosystems. Circumstances in which researchers may elect to use short-time interval autocorrelated data sets are also discussed.     

The inverse problems for some topological indices in combinatorial chemistry.

In the original paper, Goldman et al. (2000) launched the study of the inverse problems in combinatorial chemistry, which is closely related to the design of combinatorial libraries for drug discovery. Following their ideas, we investigate four other topological indices, i.e., the sigma-index, the c-index, the Z-index, and the M(1)-index, with a special emphasis on the sigma-index. Like the Wiener index, these four indices are very popular in combinatorial chemistry and reflect many chemical and physical properties. We give algorithmic and analytical solutions for the inverse problems of the four indices. We also show that the SUBTREEVALUE reconstruction problem for the sigma-index is NP-hard.     

Immunity to adult cestodes: basic knowledge and vaccination problems. A review.

Immunity in mammals to intestinal cestodes has been reviewed using the normal final host infected with the tapeworms Hymenolepis diminuta in rats and H. microstoma and H. nana in mice as a model. Primary infections up to a certain level continue to live as long the host, while most worms in infections with larger doses are destrobilated and expelled. It has been argued that concomitant immunity against a superimposed infection exists in rats and mice infected with H. diminuta and H. microstoma, respectively, and suggested that it also takes place in humans infected with Taenia spp. Immunity to secondary infections after expulsion of a primary infection occurs, but immunological memory is rather short-lived, although depression of worm growth occurs for at least two third of the rat's life. Serum antibodies have been shown to produce a direct precipitate on the surface of cestodes in vitro, but a direct effect of antibodies in vivo or the relationship with e.g. host effector cells, like mast cells and eosinophils, is unknown. It has been shown that peritoneal exudate cells from rats are able to kill H. diminuta in vitro. Very little is known about the mechanisms of tapeworms to counteract host immunological responses, but the tegumental glycoconjugates and discoidal secretory bodies are possible candidates. Passive transfer of immunity by mesenteric lymph node cells has only been successful using cells from H. nana egg-infected mice and has shown that only short-lived proliferating cells are responsible for transferring immunity. Vaccination procedures and problems are discussed with special reference to E. granulosus in dogs.     

Aspects of the chemistry and toxicology of indole-diterpenoid mycotoxins involved in tremorganic disorder of livestock

A method for the large-scale extraction ofNeotyphodium lolii (formerlyAcremonium lolii) infectedLolium perenne (perennial ryegrass) seed was optimized so as to efficiently obtain lolitrem B, the tremorgenic indole-diterpenoid compound thought to be the principal causative agent of the neurotoxic disorder ryegrass staggers. In a period of two weeks, 30 kg of seed could be processed yielding 125mg of pure, crystalline lolitrem B. In addition to lolitrem B, fifteen lolitrem analogues were isolated from the seed extracts and their structures determined by mass spectrometry and one- and two-dimensional NMR techniques. All but one of these analogues were previously unknown. Furthermore, three compounds related to paxilline, thought to be a precursor of lolitrem B were isolated fromPenicillium paxilli cultures. The isolation of the lolitrem and paxilline analogues provided much information on the likely pathways of lolitrem biosynthesis, and a detailed pathway is proposed. Paspaline was identified as the crucial intermediate in indole-diterpenoid biosynthesis, rather than paxilline, as previously thought. It is proposed that new endophyte incapable of biosynthesizing this substance will not produce any indole-diterpenoid tremorgens. Many of the lolitrem and paxilline derivatives isolated in the course of this study were tested for tremorgenic action in mice. These studies have identified a number of strucural features which are necessary for tremorgenic effect. Slow onset and long-duration tremors are characteristic of lolitrem compounds. For this effect, the acetal-linked isoprene unit and the stereochemistry at the A/B ring junction were identified as important. In contrast, paxilline compounds induce fast-onset and short-duration tremors. For this effect a C-13 α-orientated hydroxyl group is essential and the C-10 functionality is important. The extensive study of structure-activity relationships described in this thesis also suggests that lolitrem and paxilline compounds may exert their effects by binding to different target sites. Others have proposed that the more readily available paxilline be used as a model for the lolitrems in trials to select for animals resistant to ryegrass staggers, but the above observations suggest, however, that such an approach would not be successful.     

Purified lignin: Nutritional and health impacts on farm animals—A review

Lignin, the second most abundant natural compound after cellulose (Boudet and Grima-Pettenati, 1996), is a high-molecular weight polymer of phenolic compounds that occurs naturally in plants. It is mostly present in the cell wall, conferring structural support, impermeability and resistance to microbial attack. Commercial purified lignin is produced as a by-product of the paper industry, separated from wood by chemical pulping processes. These purified lignins are low molecular weight mono-phenolic fragments that have biological characteristics that differ from those of native lignin. Different chemical treatments during wood-pulping processes yield diverse types of purified lignin, such as Alcell lignin and Kraft lignin. Although these phenolic fragments may potentially have important applications in animal agriculture, research with purified lignin has not received much attention and there are few published results. In contrast to native lignin, purified lignin does not represent a barrier to digestion in monogastric or ruminant animals. Several in vitro and in vivo studies have demonstrated antimicrobial properties of the phenolic fragments in purified lignin. Recently, purified Alcell lignin has been shown to exhibit prebiotic effects in chickens, favouring growth of beneficial bacteria and improving the morphological structures of the intestines, as measured by increased villi height and goblet cell number. These findings suggest that purified lignin may exert health benefits in monogastric animals and could potentially be considered as a natural feed additive. Based on the few published studies, animal responses to purified lignin seem dependent on dosage, animal species and type and source of the lignin product. More research is required before establishing conclusive benefits of purified lignin on animal performance and health.     

A review of some recent developments in the chemistry of the gastrins

An account is presented of the history, distribution, and chemistry of the several forms and fragments of the gastric hormone gastrin and gastrin-like peptides which have been identified in gastric, intestinal, nervous, and tumor (gastrinoma) tissues, and also in the circulation.