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Gastrointestinal nematodes (GINs), Haemonchus contortus, are a major health problem in goat production. Resistance to H. contortus, the most prevalent GIN in Uganda, was studied among three indigenous goat breeds to assess their differences. Twelve male goats of each breed approximately 7 months old of small East African (SEA), Mubende, and Kigezi goats from smallholder farmers in Arua, Mubende, and Kabale were assembled for the study. At the station, they were dewormed with a combination therapy of the broad-spectrum dewormers closantel and albendazole to free the goats of gastrointestinal parasites. During experimentation, the goats were kept indoors and ad libitum fed on clean banana peels and napier grass. On attainment of zero-worm-egg status, the goats were artificially infected with 18,000 third-stage (L3) larvae of H. contortus prepared according to Baermann's procedure. Data were collected on fecal egg count (FEC), packed cell volume (PCV), and body weight (BW) on a 2-week basis until 12 weeks post infection and carcass weight and total worm count (WC) in the abomasum at termination of the experiment. The data on FEC, PCV, and BW were subjected to repeated-measure analysis of variance and the others by one-way analysis of variance. FEC between breeds was only significantly different at 12 weeks post infection ( p = 0.04). Generally, higher FEC was recorded in Kigezi compared to SEA and Mubende goats. Carcass weight was significantly different among breeds ( p < 0.05), with Mubende having the highest carcass weight, followed by Kigezi and SEA. PCV and daily weight gains were significantly different between breeds ( p < 0.05). WC was not significantly different between the breeds. FEC and PCV were weakly significant at later stages of the experiment with higher parasite burden suggesting potential variation in resistance to H. contortus. These differences could be exploited in designing breeding programs with disease resistance in indigenous goat breeds. [ABSTRACT FROM AUTHOR]

Hygienic behavior is an economically beneficial, heritable trait, which has evolved to limit the impact of honeybee pathogens. Selecting and breeding colonies with high levels of hygienic behavior has become a feasible and environmentally friendly strategy to control brood diseases in honeybee colonies worldwide. The identification of genes involved in the expression of this character may not only unravel molecular and biochemical pathways underlying hygienic behavior, but also serve as a practical approach to select disease resistance biomarkers useful for honeybee breeding programs. In the present work, we evaluated, at genetic level, Apis mellifera stocks selected for hygienic behavior, widely used for commercial apiculture in Argentina. We analyzed the expression profiles of five genes previously identified as candidates associated with hygienic behavior both in QTL and global gene expression studies in honeybees, more precisely, involved in perception and processing of olfactory information. We validated the differential expression of these genes as potentially responsible for behavioral differences in our selected stocks. Our results indicate that four of them (octopamine receptor, smell-impaired, odorant-binding protein 3, and odorant-binding protein 4) were differentially expressed between hygienic and non-hygienic bees within our highly hygienic colonies. The present findings improve our understanding of the molecular mechanisms underlying the differentiation of middle-age worker bees in their genetic propensity to perform hygienic behavior. This progress towards the genetic characterization of highly hygienic colonies that are commercially used in Argentine apiculture lays the groundwork for future development of targets for marker-assisted selection of disease-resistant honeybee stocks. [ABSTRACT FROM AUTHOR]

Background: The efficiency of breeding programs partly relies on the accuracy of the estimated breeding values which decreases when pedigrees are incomplete. Two reproduction techniques are mainly used by sheep breeders to identify the sires of lambs: animal insemination and natural matings with a single ram per group of ewes. Both methods have major drawbacks, notably time-consuming tasks for breeders, and are thus used at varying levels in breeding programs. As a consequence, the percentage of known sires can be very low in some breeds and results in less accurate estimated breeding values. Results: In order to address this issue and offer an alternative strategy for obtaining parentage information, we designed a set of 249 SNPs for parentage assignment in French sheep breeds and tested its efficiency in one breed. The set was derived from the 54 K SNP chip that was used to genotype the thirty main French sheep populations. Only SNPs in Hardy-Weinberg equilibrium, displaying the highest Minor Allele Frequency across all the thirty populations and not associated with Mendelian errors in verified family trios were selected. The panel of 249 SNPs was successfully used in an on-farm test in the BMC breed and resulted in more than 95% of lambs being assigned to a unique sire. Conclusion: In this study we developed a SNP panel for assignment that achieved good results in the on-farm testing. We also raised some conditions for optimal use of this panel: at least 180 SNPs should be used and a minute preparation of the list of candidate sires. Our panel also displays high levels of MAF in the SheepHapMap breeds, particularly in the South West European breeds. [ABSTRACT FROM AUTHOR]

Throughout evolution, plants have developed diverse mechanisms of defense that "prime" their innate immune system for more robust and active induction of defense responses against different types of stress. Nowadays there are numerous reports concerning the molecular bases of priming, as well as the generational priming mechanisms. Information concerning transgenerational priming, however, remains deficient. Some reports have indicated, nonetheless, that the priming status of a plant can be inherited to its offspring. Here, we show that the priming agent b-aminobutyric acid induced resistance to Pseudomonas syringae pv. phaseolicola infection in the common bean (Phaseolus vulgaris L.) We have analyzed the transgenerational patterns of gene expression of the PvPR1 gene (Phaseolus vulgaris PR1), a highly responsive gene to priming, and show that a transgenerational priming response against pathogen attack can last for at least two generations. We hypothesize that a defense-resistant phenotype and easily identifiable, generational and transgenerational, "primed patterns" of gene expression are excellent indicators of the priming response in crop plants. Furthermore, we propose here that modern plant breeding methods and crop improvement efforts must include the use of elicitors to prime induced resistance in the field and, above all, to select for induced heritable states in progeny that is primed for defense. [ABSTRACT FROM AUTHOR]

The objective of this study was to estimate genetic parameters of rubber yield and morphological traits of the plant and structural system laticiferous in open pollinated progeny of rubber tree [ Hevea brasiliensis (Wild. ex Adr. Juss.) Muell. Arg.; Euphorbiaceae] for indirect selection effect. The progeny was obtained from 22 clones from Asia and Africa by phenotypic selection aiming at yield and vigor of a population of rubber tree established at Central Experimental Center in Campinas, Agronomy Institute. Progeny trials were installed in experimental stations from Jaú, Pindorama and Votuporanga, in a randomized block design, five replications and 10 plants per plot, spaced 2.0 × 2.0 m. Fourteen traits have been evaluated such as rubber yield, girth, morphological and laticiferous system traits at three years old. The genetic parameters were estimated using the software Selegen-Reml/Blup. The progeny has showed genetic variability for most traits, desirable situation in breeding programs. Progeny means heritability lead to high accuracies for most traits, which infers greater estimates reliability. Girth has a high relative variation coefficient indicating fair chances of better results with the selection of vigor for that trait. [ABSTRACT FROM AUTHOR]

In this study, genetic diversity was assayed among 16 accessions and five cultivars of Persian walnut (Juglans regia L.) using morphological traits and nine simple sequence repeat (SSR) markers. Samples were collected from Agriculture Research Center of Urmia city (North West Iran). Study on important morphological traits revealed genetic similarity of -0.6 to 0.99 based on CORR coefficient. The microsatellite marker system produced 34 alleles in range of 160-290 bp. The minimum (2) and maximum (7) number of alleles were obtained from WGA71 and WGA202 genetic loci, respectively. The mean number of alleles per locus was 4.25. Jaccard’s similarity coefficient ranged from 0.13 to 0.76. The results of this paper indicate high diversity among these genotypes which could be used for breeding management.

Genotype by environment interactions (GxE) are very common in livestock and hamper genetic improvement. On the other hand, GxE is a source of genetic variation: genetic variation in response to environment, e.g. environmental perturbations such as heat stress or disease. In livestock breeding, there is tendency to ignore GxE because of increased complexity of models for genetic evaluations and lack of accuracy in extreme environments. GxE, however, creates opportunities to increase resilience of animals towards environmental perturbations. The main aim of the paper is to investigate to which extent GxE can be exploited with traditional and genomic selection methods. Furthermore, we investigated the benefit of reaction norm models compared to conventional methods ignoring GxE. The questions were addressed with selection index theory. GxE was modelled according to a linear reaction norm model in which the environmental gradient is the contemporary group mean. Economic values were based on linear and non-linear profit equations.Accuracies of environment-specific (G)EBV were highest in intermediate environments and lowest in extreme environments. Reaction norm models had higher accuracies of (G)EBV in extreme environments than conventional models ignoring GxE. Genomic selection always resulted in higher response to selection in all environments than sib or progeny testing schemes. The increase in response was with genomic selection between 9% and 140% compared to sib testing and between 11% and 114% compared to progeny testing when the reference population consisted of 1 million animals across all environments. When the aim was to decrease environmental sensitivity, the response in slope of the reaction norm model with genomic selection was between 1.09 and 319 times larger than with sib or progeny testing and in the right direction in contrast to sib and progeny testing that still increased environmental sensitivity. This shows that genomic selection with large reference populations offers great opportunities to exploit GxE to increase resilience of animals.

Although infectious diseases impose a heavy economic burden on the cattle industry, the etiology of many disorders that affect livestock is not fully elucidated, and effective countermeasures are often lacking. The main tools available until now have been vaccines, antibiotics and antiparasitic drugs. Although these have been very successful in some cases, the appearance of parasite and microbial resistance to these treatments is a cause of concern. This review describes the rapid gains achieved to track disease progression, identify the pathogens involved, and map pathogen interactions with the host. Next-generation sequencing provides important opportunities to tackle problems associated with pathogenic illnesses. Use of novel genomic tools subsequently aids in treatment development, as well as successful creation of breeding programs aimed towards less susceptible livestock. These may be important tools for mitigating the long term effects of combating infection and helping reduce the reliance on antibiotic treatment.

O Brasil é um dos maiores produtores de milho do mundo e possui grande potencial para a produção de milho verde. Além de agregar valor ao produto, a comercialização de milho verde cresceu muito nos últimos anos. Há escassez de informações sobre a avaliação e a obtenção de cultivares destinadas à produção de milho-verde e também sobre estudos genéticos das características envolvidas nessa produção. Objetivou-se, neste trabalho, estimar parâmetros genéticos e fenotípicos, a correlação genética, classificar e identificar híbridos de milho verde promissores ao mercado consumidor e avaliar a eficiência dos pesos econômicos atribuídos. Os resultados determinaram que a seleção terá sucesso, para as diferentes características de milho-verde, pois, a herdabilidade foi de alta magnitude para as características avaliadas. A avaliação da produtividade de espigas empalhadas (PEE) é suficiente para definir quais os híbridos apresentam o melhor desempenho para a produtividade de espigas comerciais (PEC), diâmetro (DIAM) e comprimento de espigas (COMP). Isso indica que as características PEC, DIAM e COMP podem ser descartadas da avaliação em programas de melhoramento de milho-verde. Os híbridos HS48, HS27, HS24, HS25, HS12 e HS45 acumularam um maior número de características desejadas em um único genótipo, com base no índice de seleção baseado na soma de postos, sendo os mais promissores para a produção de milho-verde. Os pesos econômicos utilizados foram capazes de distinguir e identificar os híbridos mais promissores para a produção de milho- verde e podem ser utilizados como critério de seleção em programas de melhoramento de milho-verde.Brazil is one of the largest producers of corn of the world and it possesses great potential for vegetable corn production. Besides adding value to the product, the commercialization of vegetable corn increased in the last years. There is shortage of information about the evaluation and the acquisition of genotypes destined to the production of vegetable corn and also on genetic studies of the traits involved in this production. The objective of this work was to estimate the genetic and phenotypic parameters, and the genetic correlation, and to classify and identify hybrids of promising vegetable corn to the consumer market and to evaluate the efficiency of the attributed economical weights. The results determined that the selection will succeed, for the different traits of vegetable corn, because the heritability was of high magnitude to the appraised traits. Evaluation of husked ears yield (PEE) was enough to define which hybrid presents better commercial ear productivity, diameter and corn ear length. This indicates that those traits could be discarded in the selection process of genotypes of breeding programs for vegetable corn production. The hybrids HS48, HS27, HS24, HS25 and HS12 accumulated the largest number of desirable traits in a single genotype based on the sum of rank index. The used economical weights were efficient to distinguish and identify the most promising hybrid for vegetable corn production and they can be used as a selection criterion in programs of breeding of vegetable corn.

O trabalho teve como objetivo a caracterização física de frutos de pequizeiros (Caryocar coriaceum Wittm.) nativos da Chapada do Araripe, sul do Estado do Ceará, a fim de quantificar a variabilidade entre as plantas e identificar materiais de interesse agroindustrial e para melhoramento genético. Frutos de 35 plantas foram caracterizados através de 24 parâmetros físicos no fruto inteiro, casca, amêndoa, polpa e semente. Os resultados (média de 25 frutos) foram avaliados via estatísticas descritivas (medidas de tendência central e variabilidade dos dados) e métodos de análise multivariada (análise de agrupamento e análise de componentes principais). os frutos provenientes das plantas 01; 02; 03; 05; 07; 14; 22 e 26 apresentaram as melhores características para processamento. A análise de agrupamento resultou na identificação de cinco grupos de plantas com características fenotípicas similares. os resultados mostraram a existência de considerável variabilidade na espécie.The study aimed to characterize physically pequi fruits (Caryocar coriaceum Wittm.) of native trees from Chapada do Araripe, situated south of the state of Ceará, in order to quantify the variability among plants and identify genotypes to food industry and breeding programs. Fruits of 35 plants were characterized for 24 physical parameters in the whole fruit, rind, almonds, pulp and seeds. The results (average of 25 fruits) were evaluated via descriptive statistics (measures of central trend and data variability) and methods of multivariate analysis (cluster analysis and main component analysis). The fruits from the plants numbers: 01, 02, 03, 05, 07; 14, 22 and 26 showed the best characteristics for processing. The cluster analysis resulted in the identification of five groups of plants with similar phenotypic characteristics. The results showed that there is considerable variability in the specie.

Genetic variability is the basis of plant breeding. In corn, a large and diverse genetic pool permits manipulation of different genotypes, but the genetic diversity of tropical germplasm has been little studied. With the objective of analyzing the amplitude of the genetic variability in 15 hybrids released in different periods by three different seed companies, phenotypic and molecular characterization was carried out in three environments and at two plant densities. The phenotypic assessment showed great similarity among the hybrids, suggesting that the breeding programs have developed genotypes with similar phenotypic traits. The dendogram of the molecular analysis showed clustering according with the different companies suggesting that each corn breeding program make use of different germoplasms. However, although the germplasm was different, it could be inferred that the selection pressure used by the breeders followed the same traits such as plant height, number of rows per ear and kernel weight among others analyzed in the present study, that contributed to the phenotypic uniformity of the genotype.O acesso e o uso da variabilidade genética de uma cultura são as bases do melhoramento de plantas. Em milho, um grande e diverso pool gênico permite a manipulação de diferentes genótipos. No entanto, a diversidade genética do germoplasma tropical ainda é pouco estudada. Com o objetivo de analisar a amplitude da variabilidade genética em 15 híbridos lançados em diferentes épocas e provenientes de três diferentes empresas de sementes, foi realizada a caracterização fenotípica e molecular dos genótipos em três ambientes e em duas densidades de semeadura. A avaliação fenotípica revelou uma grande similaridade entre os híbridos, sugerindo que os programas de melhoramento têm desenvolvido genótipos com caracteres fenotípicos semelhantes. A análise molecular, por sua vez, sugere que os programas de melhoramento de milho exploram germoplasma distinto, uma vez que o dendograma mostrou um agrupamento conforme as empresas. Entretanto, apesar de o germoplasma ser distinto, é possível inferir que a pressão de seleção utilizada pelos melhoristas tem seguido a mesma linha, isto é, há uma pressão de seleção por parte das empresas em relação a caracteres, tais como estatura de planta, número de fileiras de grãos e peso de grãos, entre outros analisados no presente trabalho, o que contribuiu para a uniformidade fenotípica dos genótipos.

This study aimed to estimate genetic parameters of tomato for reaction to bacterial spot in six parents andfifteen hybrids to identify resistant genotypes and indicate breeding programs for satisfactory genetic gains. The genotypeswere evaluated in a complete randomized block design with three replications and six plants per plot in a greenhouse. Theresistance to bacterial spot was evaluated on three bases: on a grade scale (GS), based on the area under the diseaseprogresscurve (AUDPC) and on the incubation period (IPR) of the races T1, T2 and T3, at 103 CFU mL-1. UENF 157 wasresistant to races T1, T2 and T3 and UENF 158 to race T2. The bulk method can be recommended for better results inrecombined inbred lines for T1-resistance, while the pedigree method is proposed for T2 and T3.

This article reviews the concept of Lamarckian inheritance and the use of the term epigenetics in the field of animal genetics. Epigenetics was first coined by Conrad Hal Waddington (1905-1975), who derived the term from the Aristotelian word epigenesis. There exists some controversy around the word epigenetics and its broad definition. It includes any modification of the expression of genes due to factors other than mutation in the DNA sequence. This involves DNA methylation, post-translational modification of histones, but also linked to regulation of gene expression by non-coding RNAs, genome instabilities or any other force that could modify a phenotype. There is little evidence of the existence of transgenerational epigenetic inheritance in mammals, which may commonly be confounded with environmental forces acting simultaneously on an individual, her developing fetus and the germ cell lines of the latter, although it could have an important role in the cellular energetic status of cells. Finally, we review some of the scarce literature on the use of epigenetics in animal breeding programs.

This study used simulation to evaluate the performance of alternative selection index configurations in the context of a breeding programme where a trait with a non-linear economic value is approaching an economic optimum. The simulation used a simple population structure that approximately mimics selection in dual purpose sheep flocks in New Zealand ( NZ). In the NZ dual purpose sheep population, number of lambs born is a genetic trait that is approaching an economic optimum, while genetically correlated growth traits have linear economic values and are not approaching any optimum. The predominant view among theoretical livestock geneticists is that the optimal approach to select for nonlinear profit traits is to use a linear selection index and to update it regularly. However, there are some nonlinear index approaches that have not been evaluated. This study assessed the efficiency of the following four alternative selection index approaches in terms of genetic progress relative to each other: (i) a linear index, (ii) a linear index updated regularly, (iii) a nonlinear (quadratic) index, and (iv) a NLF index (nonlinear index below the optimum and then flat). The NLF approach does not reward or penalize animals for additional genetic merit beyond the trait optimum. It was found to be at least comparable in efficiency to the approach of regularly updating the linear index with short (15 year) and long (30 year) time frames. The relative efficiency of this approach was slightly reduced when the current average value of the nonlinear trait was close to the optimum. Finally, practical issues of industry application of indexes are considered and some potential practical benefits of efficient deployment of a NLF index in highly heterogeneous industries (breeds, flocks and production environments) such as in the NZ dual purpose sheep population are discussed. [ABSTRACT FROM AUTHOR]

Spain is among the main seafood consumer countries in the world and an important aquaculture industry has been developed to satisfy its demands. Rearing facilities of aquatic species exist in Spain since Roman times, and in the Middle Age more sophisticated hatcheries were developed in Monasteries and Abbeys for freshwater species. Galicia (NW Spain) is the main productive region due to the special characteristics of its coasts. Different fish and mollusk species are produced in intensive or semi-extensive systems in this region. The leader species of Spanish aquaculture is the Mediterranean mussel ( Mytillus galloprovincialis ), and within fish, sea bream ( Sparus aurata ), sea bass ( Dicentrarchus labrax ), rainbow trout ( Oncorhynchus mykiss ) and turbot ( Scopthalmus maximus ). Breeding programs started in the 90's in turbot, currently in the fifth generation of selection, and more recently in sea bass and sea bream. Microsatellite traceability tools have been developed to assist breeding programs and to estimate heritabilities for potential selective traits in fish and, to a minor extent, in mollusks. Genomic resources and tools arrive to Spanish aquaculture through flatfish (turbot and Senegalese sole, Solea senegalensis ) and later, this know-how has been transferred to other fish and mollusk species. The first transcriptomic databases, microarrays and genetic maps were developed in turbot and Senegalese sole. The last main achievement has been the whole assembling of turbot genome, which is being used as reference for new genotyping (RAD-seq) and gene expression (RNA-seq) methodologies. It is time to apply the huge amount of information accumulated in broad multidisciplinary research consortia to boost production to a higher level in collaboration with industry. Statement of relevance Main genomics advances for boosting Spanish aquaculture. [ABSTRACT FROM AUTHOR]

Genotype by environment interactions (GxE) are very common in livestock and hamper genetic improvement. On the other hand, GxE is a source of genetic variation: genetic variation in response to environment, e.g., environmental perturbations such as heat stress or disease. In livestock breeding, there is tendency to ignore GxE because of increased complexity of models for genetic evaluations and lack of accuracy in extreme environments. GxE, however, creates opportunities to increase resilience of animals toward environmental perturbations. The main aim of the paper is to investigate to which extent GxE can be exploited with traditional and genomic selection methods. Furthermore, we investigated the benefit of reaction norm (RN) models compared to conventional methods ignoring GxE. The questions were addressed with selection index theory. GxE was modeled according to a linear RN model in which the environmental gradient is the contemporary group mean. Economic values were based on linear and non-linear profit equations. Accuracies of environment-specific (G)EBV were highest in intermediate environments and lowest in extreme environments. RN models had higher accuracies of (G)EBV in extreme environments than conventional models ignoring GxE. Genomic selection always resulted in higher response to selection in all environments than sib or progeny testing schemes. The increase in response was with genomic selection between 9 and 140% compared to sib testing and between 11 and 114% compared to progeny testing when the reference population consisted of 1 million animals across all environments. When the aim was to decrease environmental sensitivity, the response in slope of the RN model with genomic selection was between 1.09 and 319 times larger than with sib or progeny testing and in the right direction in contrast to sib and progeny testing that still increased environmental sensitivity. This shows that genomic selection with large reference populations offers great opportunities to exploit GxE to increase resilience of animals. [ABSTRACT FROM AUTHOR]

In sheep and goat breeding programs, the proportion of females for which the sire is known (known paternity rate [KPR]) can be very low. In this context, paternity assignment using SNP is an attractive tool. The annual genetic gain (AGG) is impacted by the accuracy of the EBV. In populations with a low KPR, the number of known relatives for a given individual is low, and the EBV that are based on this information are imprecise. However, the impact of partially known paternal filiations, in terms of potential genetic and economic losses, has never been quantitatively evaluated in situations where natural mating is the main reproductive mode. A deterministic model was developed to assess, for a panel of real breeding programs, the influence of the female KPR on the AGG and economic benefit. First, males were divided into categories according to their status (natural mating or AI sire) and breeding cycle and females according to parity, sire status (including unknown sire), and breeding cycle of the sire. Second, a demographic model described, for each category, the accumulation of known records for individuals and their close relatives. The output from this model was used to compute the average accuracy of the EBV per category. Then, a genetic model based on the gene flow between categories over time was described. Using the average accuracy of EBV per category, it provided the asymptotic AGG of the nucleus given its KPR. In the economic studies, changes to the mean genetic values in the nucleus and the commercial population after an increase in KPR and various gain:cost ratios (monetary gain due to an extra genetic SD of the selected trait divided by the cost of 1 assignment) were considered. Relative profit and payback periods were computed. We showed that SNP-based parentage assignment aimed at increasing the female KPR was not always profitable and that the type of breeding program and the size of the commercial population should be taken into consideration. Notably, achieving a profit was largely dependent on obtaining a favorable gain:cost ratio. The maximum supplementary AGG (16.9%) was obtained for breeding programs using only natural mating. In such programs without AI, a gain:cost ratio of 5 was needed to make assignment profitable at the nucleus level whereas a gain:cost ratio of 2 was sufficient if the nucleus represented a third of the total population. [ABSTRACT FROM AUTHOR]

In a recent manuscript published by our group we analyzed the reproductive biology of the grass Paspalum malacophyllum by using traditional embryological techniques combined with current cytological and molecular methods. Our findings confirmed apparent contradictions regarding the reproductive behavior of P. malacophyllum from six independently published reports over the past six decades. Herein we summarize the main findings, conclusions, and validations of all previous studies, highlighting the need for multiple approaches to characterize reproductive systems when using apomictic plants in a breeding program. [ABSTRACT FROM AUTHOR]

Background: Transmissible spongiform encephalopathies (TSE) are fatal neurodegenerative diseases of several mammalian species, including humans. In Italy, the active surveillance through rapid tests on brain stem from small ruminants started in 2002 on randomly selected samples of healthy slaughtered animals. Sampling number was proportionally related to the regional small ruminant population. Of the twenty Italian regions, Sicily has the second largest population of small ruminants which is mainly constituted by crossbreed animals (>70%). Sicily contains also three native sheep breeds Pinzirita, Comisana and Valle del Belice. Native goat breeds are Girgentana, Messinese, Argentata dell'Etna, Maltese and Rossa Mediterranea. The polymorphisms of prion protein gene (PRNP) may influence disease susceptibility and breeding programs for genetic TSE resistance are being applied in sheep. Protective alleles have been recently reported for goats also. These differ from those in sheep and may allow breeding programs in the near future. In this paper the data of active surveillance for scrapie control in general population of small ruminants in Sicily are reported together with the analysis on the polymorphism of PRNP in a number of Sicilian autochthonous breeds. The evaluation of the frequency of protective alleles is fundamental for the implementation of a TSE resistance breeding program. Results: TSE surveillance in small ruminants in Sicily showed a of total fifty seven scrapie outbreaks from 1997 to 2014 involving mainly crossbreed animals. The PRNP polymorphism analysis in autochthonous breeds showed protective allele frequencies of 30-40% ARR in sheep and 12-18% K222 in three of the four goat breeds; these breeds are distributed over limited areas of the island. Conclusion: The study on PRNP polymorphisms in Sicilian small ruminant population showed higher frequency of the protective alleles compared to most other European breeds. Our results suggest that PRNP genetic variety in Sicilian sheep and goats can be a resource for TSE resistance breeding programmes while maintaining the conservation of endangered breeds and valorisation of their typical food products. [ABSTRACT FROM AUTHOR]

Recent genomic evaluation studies using real data and predicting genetic gain by modeling breeding programs have reported moderate expected benefits from the replacement of classic selection schemes by genomic selection (GS) in small ruminants. The objectives of this study were to compare the cost, monetary genetic gain and economic efficiency of classic selection and GS schemes in the meat sheep industry. Deterministic methods were used to model selection based on multi-trait indices from a sheep meat breeding program. Decisional variables related to male selection candidates and progeny testing were optimized to maximize the annual monetary genetic gain (AMGG), that is, a weighted sum of meat and maternal traits annual genetic gains. For GS, a reference population of 2000 individuals was assumed and genomic information was available for evaluation of male candidates only. In the classic selection scheme, males breeding values were estimated from own and offspring phenotypes. In GS, different scenarios were considered, differing by the information used to select males (genomic only, genomic+own performance, genomic+offspring phenotypes). The results showed that all GS scenarios were associated with higher total variable costs than classic selection (if the cost of genotyping was 123 euros/animal). In terms of AMGG and economic returns, GS scenarios were found to be superior to classic selection only if genomic information was combined with their own meat phenotypes (GS-Pheno) or with their progeny test information. The predicted economic efficiency, defined as returns (proportional to number of expressions of AMGG in the nucleus and commercial flocks) minus total variable costs, showed that the best GS scenario (GS-Pheno) was up to 15% more efficient than classic selection. For all selection scenarios, optimization increased the overall AMGG, returns and economic efficiency. As a conclusion, our study shows that some forms of GS strategies are more advantageous than classic selection, provided that GS is already initiated (i.e. the initial reference population is available). Optimizing decisional variables of the classic selection scheme could be of greater benefit than including genomic information in optimized designs. [ABSTRACT FROM PUBLISHER]

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Although infectious diseases impose a heavy economic burden on the cattle industry, the etiology of many disorders that affect livestock is not fully elucidated, and effective countermeasures are often lacking. The main tools available until now have been vaccines, antibiotics and antiparasitic drugs. Although these have been very successful in some cases, the appearance of parasite and microbial resistance to these treatments is a cause of concern. Next-generation sequencing provides important opportunities to tackle problems associated with pathogenic illnesses. This review describes the rapid gains achieved to track disease progression, identify the pathogens involved, and map pathogen interactions with the host. Use of novel genomic tools subsequently aids in treatment development, as well as successful creation of breeding programs aimed toward less susceptible livestock. These may be important tools for mitigating the long term effects of combating infection and helping reduce the reliance on antibiotic treatment. [ABSTRACT FROM AUTHOR]

Infectious and parasitic diseases generate large economic losses in salmon farming. A feasible and sustainable alternative to prevent disease outbreaks may be represented by genetic improvement for disease resistance. To include disease resistance into the breeding goal, prior knowledge of the levels of genetic variation for these traits is required. Furthermore, the information from the genetic architecture and molecular factors involved in resistance against diseases may be used to accelerate the genetic progress for these traits. In this regard, marker assisted selection and genomic selection are approaches which incorporate molecular information to increase the accuracy when predicting the genetic merit of selection candidates. In this article we review and discuss key aspects related to disease resistance in salmonid species, from both a genetic and genomic perspective, with emphasis in the applicability of disease resistance traits into breeding programs in salmonids.

Genetic progress of crop plants is required to face human population growth and guarantee production stability in increasingly unstable environmental conditions. Breeding is accompanied by a loss in genetic diversity, which hinders sustainable genetic gain. Methodologies based on molecular marker information have been developed to manage diversity and proved effective in increasing long-term genetic gain. However, with realistic plant breeding population sizes, diversity depletion in closed programs appears ineluctable, calling for the introduction of relevant diversity donors. Although maintained with significant efforts, genetic resource collections remain underutilized, due to a large performance gap with elite germplasm. Bridging populations created by crossing genetic resources to elite lines prior to introduction into elite programs can manage this gap efficiently. To improve this strategy, we explored with simulations different genomic prediction and genetic diversity management options for a global program involving a bridging and an elite component. We analyzed the dynamics of quantitative trait loci fixation and followed the fate of allele donors after their introduction into the breeding program. Allocating 25% of total experimental resources to create a bridging component appears highly beneficial. We showed that potential diversity donors should be selected based on their phenotype rather than genomic predictions calibrated with the ongoing breeding program. We recommend incorporating improved donors into the elite program using a global calibration of the genomic prediction model and optimal cross selection maintaining a constant diversity. These approaches use efficiently genetic resources to sustain genetic gain and maintain neutral diversity, improving the flexibility to address future breeding objectives.

The article presents a commentary on a research article titled "Past, present, and future of epigenetics applied to livestock breeding" by González-Recio et al in 2015, which reviews Lamarckian inheritance and epigenetics in animal genetics.

Winter wheat is cultivated at 13.1 ha in Russia. Volume of the domestic seed market is estimated at $2 bln, while the share of commercial seeds is $1 bln. The highest yields (about 5 tons per ha) are harvested by farmers of Southern region. Production risks are much higher in Central part, and Middle Volga. There are 292 winter wheat varieties listed in the National Register in 2015; 98% of them are local ones. Krasnodar Institute is on the top of winter wheat breeder's rating list, out of about 50 domestic breeders. SWOT analysis of national breeding programs showed, their strengths are reach gene pool, and traditional selection methods. Institution network in range of zones, varieties adaptation especially in low-, and average income segments;, intellectual property IP rights similarity to European ones, and others are also strengths. Weaknesses are old infrastructure and equipment's; limited access to modern technologies; autocratic management; poor breeders motivation etc. Opportunities are possible collaboration development; trailing in different climate zones; seed market potential growth, etc. Realty as subject of raiders attacks; agricultural policy unpredictability; "dyeing" some breeding programs due to cost; erosion of genetic resources; mutual sanctions; availability of know-how and hi-tech in breeding are threats. Full life cycle of variety lasts from 26 to 30 years. Royalty market of winter wheat certified seeds are assessed as $3.4 m. [ABSTRACT FROM AUTHOR]

This article reviews the concept of Lamarckian inheritance and the use of the term epigenetics in the field of animal genetics. Epigenetics was first coined by Conrad Hal Waddington (1905-1975), who derived the term from the Aristotelian word epigenesis. There exists some controversy around the word epigenetics and its broad definition. It includes any modification of the expression of genes due to factors other than mutation in the DNA sequence. This involves DNA methylation, post-translational modification of histones, but also linked to regulation of gene expression by non-coding RNAs, genome instabilities or any other force that could modify a phenotype. There is little evidence of the existence of transgenerational epigenetic inheritance in mammals, which may commonly be confounded with environmental forces acting simultaneously on an individual, her developing fetus and the germ cell lines of the latter, although it could have an important role in the cellular energetic status of cells. Finally, we review some of the scarce literature on the use of epigenetics in animal breeding programs. [ABSTRACT FROM AUTHOR]

Breeding for scrapie resistance in sheep, has being implemented in Europe as an efficient eradication policy. In goats, in contrast, the analysis on prion gene (PRNP) polymorphisms showed that some polymorphic variants can be protective for the disease but their prevalence in different breeds is still under investigation. Currently, in the presence of positive goats a complete cull of the herd is performed with a great economic loss and a serious threat of extinction for the endangered breeds. A polymorphism that seems related to caprine scrapie resistance is present at the codon 222 of the PRNP, with a lysine (K) instead of glutamine (Q) but this variant is not present in several widely diffused goat breeds in different countries. To evaluate the prevalence of the K222 variant in local goats we studied the “Girgentana ”, an endangered autochthon dairy breed. The dairy products from the milk of this breed, with an excellent balance between fat and proteins are very typical and considered a “Slow Food” presidium. The results showed that K222 variant is common in Girgentana breed (18,7%) suggesting a rapid realization of a breeding plan for scrapie resistance based on K222 allele, in contrast to commercially widely used alpine breeds such as Saanen , that have a lower prevalence of this allele. The results suggest that genetic biodiversity might be a great resource for the selection of scrapie resistance, for the conservation of endangered breeds and their typical food productions. [ABSTRACT FROM AUTHOR]

Almond production in Iran occupies an important place in worldwide production and is of considerable importance in terms of providing genetic resources. In this study, 90 almond genotypes were evaluated using 60 morphological and agronomic characters. Results reflected a significant diversity in the assayed almond germplasm. All traits showed large differences between the studied almonds especially the nut and kernel dimensions, weight, flowering and ripening dates, kernel yield and percentage of double kernels. Furthermore, most of the agronomic traits were correlated, although the correlation coefficients were higher than 0.50 only in some cases. Morphological traits were categorized by principal components analysis (PCA) into 17 components which explained 77 % of the total variation. An unweighted pair-group method of arithmetic average dendrogram and a scatter plot of PCA scores showed high variation between almond genotypes, indicating that the studied germplasm can be considered a good gene pool for breeding programs. Some genotypes could be good genitors for increasing kernel size or can be considered unique, promising types for breeding or commercial growing. Also, some were late-flowering, and so can be used in breeding for later flowering. [ABSTRACT FROM AUTHOR]

Infectious and parasitic diseases generate large economic losses in salmon farming. A feasible and sustainable alternative to prevent disease outbreaks may be represented by genetic improvement for disease resistance. To include disease resistance into the breeding goal, prior knowledge of the levels of genetic variation for these traits is required. Furthermore, the information from the genetic architecture and molecular factors involved in resistance against diseases may be used to accelerate the genetic progress for these traits. In this regard, marker assisted selection and genomic selection are approaches which incorporate molecular information to increase the accuracy when predicting the genetic merit of selection candidates. In this article we review and discuss key aspects related to disease resistance in salmonid species, from both a genetic and genomic perspective, with emphasis in the applicability of disease resistance traits into breeding programs in salmonids. [ABSTRACT FROM AUTHOR]

Village- and central nucleus-based schemes were simulated and evaluated for their relative bio-economic efficiencies, using Ethiopia's Menz sheep as example. The schemes were: village-based 2-tier (Scheme-1) and 1-tier (Scheme-2) cooperative village breeding schemes, dispersed village-based nuclei scheme (Scheme-3), conventional 2-tier central nucleus-based scheme (Scheme-4), and schemes linking a central nucleus and village multiplier nuclei with selection in central nucleus (Scheme-5) or in both central and village nuclei (Scheme-6). Among village-based schemes, Scheme-1 gave the highest genetic progress, while Scheme-2 was economically the most efficient with genetic gain in the breeding objective of Birr 5.6 and a profit of Birr 37.2/ewe/year. The central nucleus schemes were more efficient than the village schemes. Scheme-4 was the most efficient with genetic gain in the breeding objective of Birr 13.5 and a profit of Birr 71.2, but is operationally more difficult as it requires a very large central nucleus. The choice between village and central nucleus-based schemes would depend on local conditions (availability of infrastructure, logistics and technical knowhow and support). Linking central nucleus with village-based nuclei (Scheme-6) would be a feasible option to overcome the operational difficulties of the conventional central nucleus scheme. If a village-based breeding program is envisaged as should be the 1st step in most low-input systems, then Scheme-2 is the most efficient. To scale out to an entire Menz breed level, Scheme-3 would be recommended. [ABSTRACT FROM AUTHOR]

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In small ruminant local breeds of Southern Europe genetic selection is often constrained by small population sizes, poor animal identification, inadequate animal performance and pedigree recording, and organizational shortcomings. Under these conditions nucleus breeding schemes can offer practical and cost effective solutions. The paper investigated genetic gain in stochastically simulated dairy small ruminant nuclei of 100, 200 and 400 females, supporting commercial populations from 500 to 5000 females. In the nucleus, a young sire selection scheme was used, with optimum contribution selection on a dairy trait, at an annual inbreeding rate of 0.3%, corresponding to a generation inbreeding rate of 0.001. Sires, both selected and not-select as sires of sires, after 1 year of use in the nucleus were utilized in the commercial population for one, or alternatively, 2 years. Annual genetic gain ranged from a minimum of 0.073 SD with 100 females nucleus supporting a commercial population of 500 females, to a maximum of 0.138 SD with a 400 females nucleus supporting a commercial population of 5000 females. Negligible differences in genetic gain were observed between nuclei and corresponding commercial populations. When sires were used for only 1 year in the commercial population, we observed 7.7 years of genetic lag with the nucleus, that increased to 8.2 years when sires were used for 2 years. Results showed that there are opportunities for selection even in populations of a few hundreds of females. Considering a specific breeds, or a specific farming area, a cost benefit analysis should be carried out to orientate the choice of nucleus size and strategy of use of sires. [ABSTRACT FROM AUTHOR]