Environmental epigenetics and epigenetic inheritance in domestic farm animals.

Epigenetics refers to molecular factors and processes around DNA that can affect genome activity and gene expression independent of DNA sequence. Epigenetic mechanisms drive developmental processes and have also been shown to be tied to disease development. Many epigenetic studies have been done using plants, rodent, and human models, but fewer have focused on domestic livestock species. The goal of this review is to present current epigenetic findings in livestock species (cattle, pigs, sheep and poultry). Much of this research examined epigenetic effects following exposure to toxicants, nutritional changes or infectious disease in those animals directly exposed, or in the offspring they produced. A limited number of studies in domestic animals have examined epigenetic transgenerational inheritance in the absence of continued exposures. One example used a porcine model to investigate the effect that feeding males a diet supplemented with micronutrients had on liver DNA methylation and muscle mass in grand-offspring (the transgenerational F2 generation). Further research into how epigenetic mechanisms affect the health and production traits of domestic livestock and their offspring is important to elucidate.

Differences in aromatase expression and steroid hormone concentrations in the reproductive tissues of male domestic turkeys (Meleagris gallopavo) with white and yellow semen.

1. To show hormonal differences between male turkeys with yellow semen syndrome (YSS) and white, normal semen (WNS), the expression of aromatase, oestrogen receptor α (ERα), and oestrogen receptor ß (ERß) as well as testosterone and oestradiol concentrations in YSS and WNS testes, epididymis, and ductus deferens were examined. 2. To measure gene expression levels of aromatase and oestrogen receptors (ERs), three complementary techniques (real-time PCR, Western blot, and immunohistochemistry) were used, whereas steroid hormone levels were determined radio-immunologically. 3. Upregulation of aromatase and ERα mRNAs in YSS testes (P < 0.05; P < 0.01), epididymis (P < 0.001; P < 0.001), and ductus deferens (P < 0.05; P < 0.01) compared to those of WNS tissues was detected. Significant increases in the levels of aromatase and ERα proteins were detected in YSS testes (P < 0.001; P < 0.05), epididymis (P < 0.001; P < 0.001), and ductus deferens (P < 0.001; P < 0.05). The expression of ERß mRNA and protein level was upregulated in the testes (P < 0.05; P < 0.01) and epididymis (P < 0.001; P < 0.01) but not in ductus deferens where it was downregulated (P < 0.01; P < 0.01). Increased intensity of immunoreactive proteins in YSS versus WNS reproductive tissues corroborated gene expression results. 4. Testosterone concentration diminished in YSS epididymis (P < 0.05) and ductus deferens (P < 0.05), but not in the testes, remaining at high level (P < 0.05) compared to WNS values. Concomitantly, increased oestradiol concentration was found in YSS testes (P < 0.05) and epididymis (P < 0.05) but decreased in the ductus deferens (P < 0.05). 5. From the published literature, this study is the first to demonstrate the ability for androgen aromatisation in the turkey reproductive tissues and to show the cellular targets for locally produced oestrogens. The data suggested that the androgen/oestrogen ratio is a mechanistic basis for amplification of differences between turkeys with white and yellow semen and that these results can have a relevance in applied sciences to widen the knowledge on domestic bird reproduction.

Earliest evidence for commensal processes of cat domestication.

Domestic cats are one of the most popular pets globally, but the process of their domestication is not well understood. Near Eastern wildcats are thought to have been attracted to food sources in early agricultural settlements, following a commensal pathway to domestication. Early evidence for close human-cat relationships comes from a wildcat interred near a human on Cyprus ca. 9,500 y ago, but the earliest domestic cats are known only from Egyptian art dating to 4,000 y ago. Evidence is lacking from the key period of cat domestication 9,500-4,000 y ago. We report on the presence of cats directly dated between 5560-5280 cal B.P. in the early agricultural village of Quanhucun in Shaanxi, China. These cats were outside the wild range of Near Eastern wildcats and biometrically smaller, but within the size-range of domestic cats. The δ(13)C and δ(15)N values of human and animal bone collagen revealed substantial consumption of millet-based foods by humans, rodents, and cats. Ceramic storage containers designed to exclude rodents indicated a threat to stored grain in Yangshao villages. Taken together, isotopic and archaeological data demonstrate that cats were advantageous for ancient farmers. Isotopic data also show that one cat ate less meat and consumed more millet-based foods than expected, indicating that it scavenged among or was fed by people. This study offers fresh perspectives on cat domestication, providing the earliest known evidence for commensal relationships between people and cats.

Overview of differences between microbial feed additives and probiotics for food regarding regulation, growth promotion effects and health properties and consequences for extrapolation of farm animal results to humans.

For many years, microbial adjuncts have been used to supplement the diets of farm animals and humans. They have evolved since the 1990s to become known as probiotics, i.e. functional food with health benefits. After the discovery of a possible link between manipulation of gut microflora in mice and obesity, a focus on the use of these beneficial microbes that act on gut microflora in animal farming was undertaken and compared with the use of probiotics for food. Beneficial microbes added to feed are classified at a regulatory level as zootechnical additives, in the category of gut flora stabilizers for healthy animals and are regulated up to strain level in Europe. Intended effects are improvement of performance characteristics, which are strain dependent and growth enhancement is not a prerequisite. In fact, increase of body weight is not commonly reported and its frequency is around 25% of the published data examined here. However, when a Body Weight Gain (BWG) was found in the literature, it was generally moderate (lower than or close to 10%) and this over a reduced period of their short industrial life. When it was higher than 10%, it could be explained as an indirect consequence of the alleviation of the weight losses linked to stressful intensive rearing conditions or health deficiency. However, regulations on feed do not consider the health effects because animals are supposed to be healthy, so there is no requirement for reporting healthy effects in the standard European dossier. The regulations governing the addition of beneficial microorganisms to food are less stringent than for feed and no dossier is required if a species has a Qualified Presumption of Safety status. The microbial strain marketed is not submitted to any regulation and its properties (including BWG) do not need to be studied. Only claims for functional or healthy properties are regulated and again growth effect is not included. However, recent studies on probiotic effects showed that BWG could also be observed in humans, or not, according to species and strains. Determining the significance of farm animal results for extrapolation to humans, especially regarding body weight improvement, was not easy because they do not use the same microbial strains nor always the same species. Furthermore, the framework for the management of microbials added to feed or to food differ, especially with regard to goal, timescale and lifestyle. So no one can exclude the possibility that beneficial microorganisms having probiotic effects may have long-term effects in humans that cannot be seen to date in animals, where short-term use is the rule. A possible link to obesity cannot be excluded in relation to timescale, species and strain specificity. To conclude, beneficial microorganisms added in feed are key factors stringently regulated for short-term improvement of zootechnical performances in animals and their use does not entirely parallel that of human probiotics. So extrapolation of farm animal results to humans is biased and not sufficient to be conclusive regarding the existence or not of a link between probiotics and obesity. From a toxicological and nutritional point of view and considering recent findings on a link between antibiotic use in early life and excessive risk of becoming overweight, one suggestion is to study the at-risk population in Europe, pregnant women and their babies before and after birth and during early childhood, in an epidemiological long-term cohort survey.

Prospects from agroecology and industrial ecology for animal production in the 21st century.

Agroecology and industrial ecology can be viewed as complementary means for reducing the environmental footprint of animal farming systems: agroecology mainly by stimulating natural processes to reduce inputs, and industrial ecology by closing system loops, thereby reducing demand for raw materials, lowering pollution and saving on waste treatment. Surprisingly, animal farming systems have so far been ignored in most agroecological thinking. On the basis of a study by Altieri, who identified the key ecological processes to be optimized, we propose five principles for the design of sustainable animal production systems: (i) adopting management practices aiming to improve animal health, (ii) decreasing the inputs needed for production, (iii) decreasing pollution by optimizing the metabolic functioning of farming systems, (iv) enhancing diversity within animal production systems to strengthen their resilience and (v) preserving biological diversity in agroecosystems by adapting management practices. We then discuss how these different principles combine to generate environmental, social and economic performance in six animal production systems (ruminants, pigs, rabbits and aquaculture) covering a long gradient of intensification. The two principles concerning economy of inputs and reduction of pollution emerged in nearly all the case studies, a finding that can be explained by the economic and regulatory constraints affecting animal production. Integrated management of animal health was seldom mobilized, as alternatives to chemical drugs have only recently been investigated, and the results are not yet transferable to farming practices. A number of ecological functions and ecosystem services (recycling of nutrients, forage yield, pollination, resistance to weed invasion, etc.) are closely linked to biodiversity, and their persistence depends largely on maintaining biological diversity in agroecosystems. We conclude that the development of such ecology-based alternatives for animal production implies changes in the positions adopted by technicians and extension services, researchers and policymakers. Animal production systems should not only be considered holistically, but also in the diversity of their local and regional conditions. The ability of farmers to make their own decisions on the basis of the close monitoring of system performance is most important to ensure system sustainability.

Tracing the history of goat pastoralism: new clues from mitochondrial and Y chromosome DNA in North Africa.

Valuable insights into the history of human populations have been obtained by studying the genetic composition of their domesticated species. Here we address some of the long-standing questions about the origin and subsequent movements of goat pastoralism in Northern Africa. We present the first study combining results from mitochondrial DNA (mtDNA) and Y chromosome loci for the genetic characterization of a domestic goat population. Our analyses indicate a remarkably high diversity of maternal and paternal lineages in a sample of indigenous goats from the northwestern fringe of the African continent. Median-joining networks and a multidimensional scaling of ours and almost 2000 published mtDNA sequences revealed a considerable genetic affinity between goat populations from the Maghreb (Northwest Africa) and the Near East. It has been previously shown that goats have a weak phylogeographic structure compatible with high levels of gene flow, as demonstrated by the worldwide dispersal of the predominant mtDNA haplogroup A. In contrast, our results revealed a strong correlation between genetic and geographical distances in 20 populations from different regions of the world. The distribution of Y chromosome haplotypes in Maghrebi goats indicates a common origin for goat patrilines in both Mediterranean coastal regions. Taken together, these results suggest that the colonization and subsequent dispersal of domestic goats in Northern Africa was influenced by the maritime diffusion throughout the Mediterranean Sea and its coastal regions of pastoralist societies whose economy included goat herding. Finally, we also detected traces of gene flow between goat populations from the Maghreb and the Iberian Peninsula corroborating evidence of past cultural and commercial contacts across the Strait of Gibraltar.

How chicory fructans contribute to zootechnical performance and well-being in livestock and companion animals.

Animalia typically have a digestive tract for digestion of food and absorption of water. The intestinal tract is a nutrient-rich environment, as the digestive system of the host often lacks enzymes necessary to degrade certain food components. Other sources of nutrients originate from the high turnover of epithelial cells covering the intestinal surface and from the production of mucus. As the lining of the intestine is continuous with the skin, the interior intestinal space (chyme) of the intestine is external environment. There, as a consequence, is a continuous contamination pressure by bacteria that during evolution proved to be useful for further metabolism of nutrients, which the host failed to utilize. Intestinal flora coevolved with its host and the selection was driven by the intestinal architecture (morphology and transit scheme) and dietary habits of the host. Different animal species have different typical profiles of intestinal bacterial populations. The pertinently existing inter-individual differences between members of certain species are a variation on this typical profile. Animals in general seem not to be able to hydrolyze beta-glycoside bonds, such as the chicory inulin beta(2-1) bond. Chicory fructans were shown to be prebiotic (selectively interacting with intestinal bacterial ecosystem) (1) in humans and in animals, including livestock and pets. This article describes how prebiotic feeding contributes to zootechnical performance of livestock (pig, calf, horse, broiler, laying hen, and fish), which is driven by intestinal functioning, and to animal well-being (mainly pets but also livestock,) which has intestinal but also derived systemic origins.

Isoflavonic phytoestrogens--new prebiotics for farm animals: a review on research in China.

Isoflavones are recognized to be estrogenic compounds that are often associated with a reduced risk of cancers. The estrogenic activity can be enhanced after metabolization to more active compounds such as genistein and daidzein by gut microorganisms. The direct use of these metabolites has been investigated in laboratory rats and farm animals over the last decade. This paper reviews the research progress on the effect of isoflavonic compounds including metabolites on the physiology, gut microbiology and performance of farm animals in China.

"Clean, green and ethical" animal production. Case study: reproductive efficiency in small ruminants.

In response to changes in society and thus the marketplace, we need a vision for the future of our animal industries, including both on-farm and off-farm activities, that is "clean, green and ethical". Using small ruminants as a case study, we describe three "clean, green and ethical" strategies that farmers could use to improve reproductive performance. The first allows control of the timing of reproductive events by using socio-sexual signals (the "male effect") to induce synchronised ovulation in females. The second strategy, "focus feeding", is based on using short periods of nutritional supplements that are precisely timed and specifically designed for each event in the reproductive process (eg, gamete production, embryo survival, fetal programming, colostrum production). The third strategy aims to maximize offspring survival by a combination of management, nutrition and genetic selection for behaviour (temperament). All of these approaches involve non-pharmacological manipulation of the endogenous control systems of the animals and complement the detailed information from ultrasound that is now becoming available. Importantly, these approaches all have a solid foundation in reproductive biology. In several cases, they are currently used in commercial practice, but there is still room for improvement through both basic and applied research. Ultimately, these "clean, green and ethical" tools can be cost-effective, increase productivity and, at the same time, greatly improve the image of meat and milk industries in society and the marketplace.

Psychophysiological effects of human-animal interaction: theoretical issues and long-term interaction effects.

This paper reviews literature published on the psychophysiological effects of long-term human-animal interaction (i.e., pet ownership, pet adoption). A literature search was conducted using PsycInfo and Medline databases. Although the available evidence is far from being consistent, it can be concluded that, in some cases, long-term relationships with animals may moderate baseline physiological variables, particularly blood pressure. Results proved more coherent in studies where animals were adopted by owners as part of the procedure. This paper examines existing hypotheses seeking to account for these effects and the supporting evidence. Two major hypotheses have been suggested to explain the psychophysiological effects of long-term interaction, namely (1) stress-buffering effects of noncritical social support provided by pets; and (2) classical conditioning of relaxation. These mechanisms may partially account for the long-term health outcomes observed in a number of human-animal interaction studies.

Chronic incidental lead ingestion in a group of captive-reared alligators (Alligator mississippiensis): possible contribution to reproductive failure.

An American alligator (Alligator mississippiensis) breeding facility using male and female alligators raised from artificially incubated eggs was established in 1975. These alligators first reproduced at 6 years of age as compared to 10-12 years in wild alligators, but the eggs produced showed a lower hatching rate than those collected from the wild. By age 21 reproduction had failed almost completely. The alligators were sacrificed and tissues collected at necropsy from 44 captive and 15 wild animals and assayed for metals. Results showed that captive alligators had significantly higher tissue levels of lead than wild alligators. Cadmium did not differ between wild and captive and selenium was 50% higher in wild than captive alligator kidneys. Bone lead in captive alligators was 252,443 +/- 20,462 ng/g. High yolk lead was suggested as a probable cause for early embryonic death in alligator eggs. The high tissue lead levels in captive alligators was attributed to long-term consumption of nutria (Myocastor coypus) meat contaminated with lead shot. Liver, ovary, and testis were assayed for lipid peroxidation using the thiobarbituric acid (TBA) test. Captive alligators had 3.6 fold increased TBA-reactive materials in the liver tissue compared to wild. Lipid peroxidation was strongly suspected as having been enhanced by consumption of rancid nutria meat containing lead.

Cattle domestication in the Near East was followed by hybridization with aurochs bulls in Europe.

Domesticated cattle were one of the cornerstones of European Neolithisation and are thought to have been introduced to Europe from areas of aurochs domestication in the Near East. This is consistent with mitochondrial DNA (mtDNA) data, where a clear separation exists between modern European cattle and ancient specimens of British aurochsen. However, we show that Y chromosome haplotypes of north European cattle breeds are more similar to haplotypes from ancient specimens of European aurochsen, than to contemporary cattle breeds from southern Europe and the Near East. There is a sharp north-south gradient across Europe among modern cattle breeds in the frequencies of two distinct Y chromosome haplotypes; the northern haplotype is found in 20 out of 21 European aurochsen or early domestic cattle dated 9500-1000 BC. This indicates that local hybridization with male aurochsen has left a paternal imprint on the genetic composition of modern central and north European breeds. Surreptitious mating between aurochs bulls and domestic cows may have been hard to avoid, or may have occurred intentionally to improve the breeding stock. Rather than originating from a few geographical areas only, as indicated by mtDNA, our data suggest that the origin of domestic cattle may be far more complex than previously thought.

Animal management to reduce phosphorus losses to the environment.

Water quality in the United States is threatened by contamination with nutrients, primarily nitrogen and phosphorus. Animal manure can be a valuable resource for farmers, providing nutrients, improving soil structure, and increasing vegetative cover to decrease erosion potential. At the same time, application of manure nutrients in excess of crop requirements can result in environmental contamination. Environmental concerns with P are primarily associated with pollution of surface water (streams, lakes, rivers). This pollution may be caused by runoff of P when application to land is in excess of crop requirements. Increased specialization and concentration of livestock and crop production has led to the net export of nutrients from major crop-producing areas of the country to areas with a high concentration of animal agriculture. Concentrated animal agriculture has been identified as a significant source of P contamination of surface water. Areas facing the dilemma of an economically important livestock industry concentrated in an environmentally sensitive area have few options. If agricultural practices continue as they have in the past, continued damage to water resources and a loss of fishing and recreational activity are inevitable. If agricultural productivity is decreased, however, the maintenance of a stable farm economy, a viable rural economy, and a reliable domestic food supply are seriously threatened. Decreasing the P content of manure through nutrition is a powerful, cost-effective approach to reducing P losses from livestock farms and will help farmers meet increasingly stringent environmental regulations. This paper reviews opportunities available to reduce the P content of livestock manure, including more accurate interpretation of the published P requirements of animals, improved diet formulation and group-feeding strategies to more precisely meet requirements, and approaches to improve availability of feed P for monogastric and ruminant species.

Water quality and the grazing animal.

Grazing animals and pasture production can affect water quality both positively and negatively. Good management practices for forage production protect the soil surface from erosion compared with conventionally produced crops. Grazing animals and pasture production can negatively affect water quality through erosion and sediment transport into surface waters, through nutrients from urine and feces dropped by the animals and fertility practices associated with production of high-quality pasture, and through pathogens from the wastes. Erosion and sediment transport is primarily associated with high-density stocking and/or poor forage stands. The two nutrients of primary concern relating to animal production are N and P. Nitrogen is of concern because high concentrations in drinking water in the NO(3) form cause methemoglobinemia (blue baby disease), whereas other forms of N (primarily nitrite, NO(2)) are considered to be potentially carcinogenic. Phosphorus in the PO(4) form is of concern because it causes eutrophication of surface water bodies. The effect of grazing animals on soil and water quality must be evaluated at both the field and watershed scales. Such evaluation must account for both direct input of animal wastes from the grazing animal and also applications of inorganic fertilizers to produce quality pastures. Watershed-scale studies have primarily used the approach of nutrient loadings per land area and nutrient removals as livestock harvests. A number of studies have measured nutrient loads in surface runoff from grazed land and compared loads with other land uses, including row crop agriculture and forestry. Concentrations in discharge have been regressed against standard grazing animal units per land area. Watersheds with concentrated livestock populations have been shown to discharge as much as 5 to 10 times more nutrients than watersheds in cropland or forestry. The other major water quality concern with grazing animals is pathogens, which may move from the wastes into surface water bodies or ground water. Major surface water quality problems associated with pathogens have been associated with grazing animals, particularly when they are not fenced out from streams and farm ponds. This paper presents an overview of water quality issues relating to grazing animals.

Role of leptin in the regulation of gonadotropin secretion in farm animals.

The recently discovered protein, leptin, which is secreted by fat cells, has been implicated in regulation of feed intake or energy balance and the neuroendocrine axis in rodents, humans and large domestic animals. Leptin was first identified as the gene product found to be deficient in the obese (ob/ob) mouse. Administration of leptin to ob/ob mice restored reproduction as well as reducing feed intake and causing weight loss. The leptin receptor (LR) which has been cloned and is a member of the class 1 cytokine family of receptors, is found in the brain and pituitary of all species studied to date. Neuropeptide Y has been proposed as the primary mediator of leptin action in the hypothalamus to regulate luteinizing hormone (LH) and growth hormone (GH) secretion. In vitro studies using both hypothalamic explants and pituitary cell culture provided evidence that supports a direct action of leptin at the level of brain and pituitary gland in the pig, but only the pituitary in cattle. Central administration of leptin increased LH secretion in the fasted cow and ewe, but not in control fed animals, indicating that metabolic state is an important factor in modulating the hypothalamic-pituitary response to leptin. Changing serum leptin concentrations and leptin mRNA expression were associated with onset of puberty in heifers and gilts. Thus, leptin appears to be an important link between metabolic status and the neuroendocrine axis.

Effect of selection for behavior on pituitary-adrenal axis and proopiomelanocortin gene expression in silver foxes (Vulpes vulpes).

Silver foxes from a commercial population (farm bred or unselected for behavior control) and from populations selected for tame behavior and enhanced aggressiveness towards man have been investigated. Plasma cortisol and adrenocorticotropic hormone (ACTH) levels, pituitary ACTH levels, POMC gene expression in the anterior pituitary, and corticotropin-releasing factor (CRF) gene expression in the hypothalamus were assessed. The results indicate that the males from the tame-behavior group have lower plasma cortisol and ACTH levels and POMC gene expression in the anterior pituitary in response to capture and handling in comparison with unselected ones. Foxes from the aggressive behavior group also have lower POMC expression, although plasma cortisol and ACTH levels remain the same as in unselected ones. The three groups of animals show no significant changes in the ACTH level in the pituitary and CRF expression in the hypothalamus.

Nutritional responses to the presence of inulin and oligofructose in the diets of domesticated animals: a review.

Inulin and oligofructose are prebiotic oligosaccharides fermented in the large intestine. This article provides an extensive review of the effects of these oligosaccharides on gastrointestinal characteristics (microflora, pathogen control, epithelial cell proliferation, putrefactive compound production, fecal characteristics, and nutrient digestibility) and systemic metabolism of carbohydrates, nitrogen, lipids, and minerals in dogs, cats, horses, calves, pigs, poultry, and rabbits. In addition, intake of inulin and oligofructose and considerations in their supplementation to animal diets are discussed. Growth performance and meat production in livestock in response to inulin and oligofructose supplementation are addressed. Finally, the possible substitution of antibiotics with fructans in animal diets and directions for future research are presented.

Biological rhythm in livestock.

The animal time structure is a basic fact of life, no matter if one wants to study it or not. The time-dependent, mostly rhythmic, and thus to a certain degree predictable, variations of biochemical and physiological functions and of sensitivity and resistance to many environmental agents are often quite large and offer not only new insight into animal physiology and pathology but also diagnostic possibilities and therapeutic advantages. Chronobiology, chronophysiology and its subspecialities, like chronopharmacology and chronotherapy, will certainly play an important role in the clinical medicine of the future. Successful application of chronobiology to veterinary clinical medicine, however, depends critically on a thorough knowledge of its basic principles.

Biological Rhythm in Livestock

The animal time structure is a basic fact of life, no matter if one wants to study it or not. The time- dependent, mostly rhythmic, and thus to a certain degree predictable, variations of biochemical and physiological functions and of sensitivity and resistance to many environmental agents are often quite large and offer not only new insight into animal physiology and pathology but also diagnostic possibilities and therapeutic advantages. Chronobiology, chronophysiology and its subspecialities, like chronopharmacology and chronotherapy, will certainly play an important role in the clinical medicine of the future. Successful application of chronobiology to veterinary clinical medicine, however, depends critically on a thorough knowledge of its basic principles.