About the inconvenience of handling mixed-breed herds; aspects of social behavior as a potential source of stress and economic losses.

The objective of this study was to assess aspects of the social behavior of a mixed-breed herd of beef cows as a potential source for stress and economic losses. Angus (AN; N = 10), Brahman (BR; N = 10), and Senepol (SE; N = 10) cows were assigned to two groups (N = 15 each containing equal breed numbers) on separate pastures. Agonistic interactions (win/loss) during feeding were recorded daily for 45 days. Dominance values were estimated as the proportion of individuals dominated to total herdmates. From this, individuals were placed into social categories based upon linear ranking as follows: dominants (D), intermediate (I), and subordinates (S). Breed influenced (P < 0.01) social category, with SE cows being dominants (P < 0.05) over AN and BR cows. Interactions between AN and BR cows were less (P < 0.0005) than interactions between AN and SE (53 vs 140, respectively). Within breeds, BR (152) and SE (182) cows had more (P < 0.0005) agonistic interactions than AN (107) cows. Although apparently influenced by breed, agonistic interactions occurred more frequently (P < 0.005) between social categories than within social categories (814 vs 310, respectively). Dominant cows were involved in more agonistic interactions with cows from different social categories than were intermediate and subordinate cows (P < 0.0005). However, intermediate (100) and subordinate (157) cows generated more (P < 0.0005) agonistic interactions within their own social category than dominant cows (53). It was concluded that, in mixed-breed herds, breed influences both social organization and agonistic interactions which could be considered as potential sources of stress and economic losses.

Accuracies of genomic prediction for twenty economically important traits in Chinese Simmental beef cattle.

Genomic prediction has been widely utilized to estimate genomic breeding values (GEBVs) in farm animals. In this study, we conducted genomic prediction for 20 economically important traits including growth, carcass and meat quality traits in Chinese Simmental beef cattle. Five approaches (GBLUP, BayesA, BayesB, BayesCπ and BayesR) were used to estimate the genomic breeding values. The predictive accuracies ranged from 0.159 (lean meat percentage estimated by BayesCπ) to 0.518 (striploin weight estimated by BayesR). Moreover, we found that the average predictive accuracies across 20 traits were 0.361, 0.361, 0.367, 0.367 and 0.378, and the averaged regression coefficients were 0.89, 0.86, 0.89, 0.94 and 0.95 for GBLUP, BayesA, BayesB, BayesCπ and BayesR respectively. The genomic prediction accuracies were mostly moderate and high for growth and carcass traits, whereas meat quality traits showed relatively low accuracies. We concluded that Bayesian regression approaches, especially for BayesR and BayesCπ, were slightly superior to GBLUP for most traits. Increasing with the sizes of reference population, these two approaches are feasible for future application of genomic selection in Chinese beef cattle.

Economic performance evaluation of Brangus and Nellore cattle breed naturally infested with Rhipicephalus microplus in an extensive production system in Central-West Brazil.

The objective of the present study was to evaluate the performance of Brangus and Nellore cattle in an extensive production system. Sixty growing bulls, 30 of the Brangus and 30 of the Nellore breeds that were naturally infested with Rhipicephalus microplus were subdivided into four groups: control Nellore (15 animals), treated Nellore (15), control Brangus (15), and treated Brangus (15). The animals in the treated groups underwent acaricidal treatments for 1 year. Tick counts, acaricidal treatments and animal weighing were performed every 18 days, and the costs of acaricidal, anti-myiasis, and preventive treatments for tick fever were recorded for cost evaluation. The treated Brangus and Nellore groups did not show a significant difference in weight gain, whereas Nellore weight gain was superior in the control groups. The cost of acaricidal treatment throughout the experimental period was $494 US. The costs of the preventive treatment for tick fever and myiasis were $98 US and $15 US, respectively. The highest rates of tick infestation were found in the control group of the Brangus animals, which served as the basis for the suggested implementation of a strategic control program for animals in the growth phase. Nellore animals showed low rates of infestation. Under the conditions of this study, the Nellore animals were more efficient than the Brangus animals because they achieved satisfactory weight gain, similar to the Brangus, and a low tick count even in the control group. This finding demonstrates that expenses related to the acaricidal, anti-myiasis and tick fever treatments are unnecessary in Nellore cattle, making these animals more profitable.

Milk production of Holstein-Friesian cows of divergent Economic Breeding Index evaluated under seasonal pasture-based management.

The objective of this study was to validate the effect of genetic improvement using the Irish genetic merit index, the Economic Breeding Index (EBI), on total lactation performance and lactation profiles for milk yield, milk solids yield (fat plus protein; kg), and milk fat, protein, and lactose content within 3 pasture-based feeding treatments (FT) and to investigate whether an interaction exists between genetic group (GG) of Holstein-Friesian and pasture-based FT. The 2 GG were (1) extremely high EBI representative of the top 5% nationally (referred to as the elite group) and (2) representative of the national average EBI (referred to as the NA group). Cows from each GG were randomly allocated each year to 1 of 3 pasture-based FT: control, lower grass allowance, and high concentrate. The effects of GG, FT, year, parity, and the interaction between GG and FT adjusted for calving day of year on milk and milk solids (fat plus protein; kg) production across lactation were studied using mixed models. Cow was nested within GG to account for repeated cow records across years. The overall and stage of lactation-specific responses to concentrate supplementation (high concentrate vs. control) and reduced pasture allowance (lower grass allowance vs. control) were tested. Profiles of daily milk yield, milk solids yield, and milk fat, protein, and lactose content for each week of lactation for the elite and NA groups within each FT and for each parity group within the elite and NA groups were generated. Phenotypic performance was regressed against individual cow genetic potential based on predicted transmitting ability. The NA cows produced the highest milk yield. Milk fat and protein content was higher for the elite group and consequently yield of solids-corrected milk was similar, whereas yield of milk solids tended to be higher for the elite group compared with the NA group. Milk lactose content did not differ between GG. Responses to concentrate supplementation or reduced pasture allowance did not differ between GG. Milk production profiles illustrated that elite cows maintained higher production but with lower persistency than NA cows. Regression of phenotypic performance against predicted transmitting ability illustrated that performance was broadly in line with expectation. The results illustrate that the superiority of high-EBI cattle is consistent across diverse pasture-based FT. The results also highlight the success of the EBI to deliver production performance in line with the national breeding objective: lower milk volume with higher fat and protein content.

A Bayesian approach for analysis of ordered categorical responses subject to misclassification.

Ordinal categorical responses are frequently collected in survey studies, human medicine, and animal and plant improvement programs, just to mention a few. Errors in this type of data are neither rare nor easy to detect. These errors tend to bias the inference, reduce the statistical power and ultimately the efficiency of the decision-making process. Contrarily to the binary situation where misclassification occurs between two response classes, noise in ordinal categorical data is more complex due to the increased number of categories, diversity and asymmetry of errors. Although several approaches have been presented for dealing with misclassification in binary data, only limited practical methods have been proposed to analyze noisy categorical responses. A latent variable model implemented within a Bayesian framework was proposed to analyze ordinal categorical data subject to misclassification using simulated and real datasets. The simulated scenario consisted of a discrete response with three categories and a symmetric error rate of 5% between any two classes. The real data consisted of calving ease records of beef cows. Using real and simulated data, ignoring misclassification resulted in substantial bias in the estimation of genetic parameters and reduction of the accuracy of predicted breeding values. Using our proposed approach, a significant reduction in bias and increase in accuracy ranging from 11% to 17% was observed. Furthermore, most of the misclassified observations (in the simulated data) were identified with a substantially higher probability. Similar results were observed for a scenario with asymmetric misclassification. While the extension to traits with more categories between adjacent classes is straightforward, it could be computationally costly. For traits with high heritability, the performance of the methodology would be expected to improve.

Genetic parameters for milk fatty acids, milk yield and quality traits of a Holstein cattle population reared under tropical conditions.

Information about genetic parameters is essential for selection decisions and genetic evaluation. These estimates are population specific; however, there are few studies with dairy cattle populations reared under tropical and sub-tropical conditions. Thus, the aim was to obtain estimates of heritability and genetic correlations for milk yield and quality traits using pedigree and genomic information from a Holstein population maintained in a tropical environment. Phenotypic records (n = 36 457) of 4203 cows as well as the genotypes for 57 368 single nucleotide polymorphisms from 755 of these cows were used. Covariance components were estimated using the restricted maximum likelihood method under a mixed animal model, considering a pedigree-based relationship matrix or a combined pedigree-genomic matrix. High heritabilities (around 0.30) were estimated for lactose and protein content in milk whereas moderate values (between 0.19 and 0.26) were obtained for percentages of fat, saturated fatty acids and palmitic acid in milk. Genetic correlations ranging from -0.38 to -0.13 were determined between milk yield and composition traits. The smaller estimates compared to other similar studies can be due to poor environmental conditions, which may reduce genetic variability. These results highlight the importance in using genetic parameters estimated in the population under evaluation for selection decisions.

Feeding, production, and efficiency of Holstein-Friesian, Jersey, and mixed-breed lactating dairy cows in commercial Danish herds.

The objective of this paper was to compare efficiency measures, milk production, and feed intake for lactating cows in commercial herds using different breeds and production and milking systems. To accomplish this, we used all feed evaluations made by the Danish extension service during the period November 2012 to April 2013 for 779 herds, of which 508 were Holstein-Friesian (HOL); 100 were Jersey (JER); and 171 herds were a mixture of these 2 breeds, other dairy breeds, and crossbreeds (OTH). The annually recorded, herd-average energy-corrected milk (ECM) yield was 8,716kg (JER) and 9,606kg (HOL); and average herd size was 197 cows (HOL) and 224 cows (JER). All cows were fed a total mixed or partial mixed ration supplemented with concentrate from feeding stations, housed in loose housing systems with a slatted floor, and milked in either a parlor milking unit or an automatic milking system. Energy efficiency was calculated as net energy efficiency defined as total energy demand as a percentage of energy intake and as residual feed intake defined as energy intake (net energy for lactation; NEL) minus energy requirement. Production efficiency was expressed as kilograms of ECM per kilogram of dry matter intake (DMI), kilograms of ECM per 10 MJ of net energy intake (NEL), kilograms of ECM per 100kg of BW, and kilograms of DMI per 100kg of BW. Environmental efficiency was expressed by the nitrogen efficiency calculated as N in milk and meat as a percentage of N in intake, and as enteric emission of methane expressed as kilograms of ECM per megajoule of CH4. Mean milk yield for lactating cows was 30.4kg of ECM in HOL and 3kg less in JER, with OTH herds in between. Mean NEL intake was 122 MJ in JER, increasing to 147 MJ in HOL, whereas ration energy density between breeds did not differ (6.4-6.5 MJ of NEL per kg of DMI). The NEL intake and DMI explained 56 and 47%, respectively, of variation in production (ECM) for HOL herds but only 44 and 27% for JER. Jersey had a higher efficiency than HOL and OTH, except in nitrogen efficiency, where no significant difference between breeds existed. Most of the efficiency measures were internally significantly correlated and in general highly positively correlated with milk production, whereas the correlation to DMI was less positive and for JER negative for net energy efficiency, kilograms of ECM per kilogram of DMI, and nitrogen efficiency. Only little of the variation in efficiency between herds could be explained by differences in nutrient or roughage content of DMI. This could be explained by the fact that data were collected from herds purchasing feed planning and evaluation from the extension service.

Viabilidade econômica da terceira ordenha em sistemas de produção de leite com ordenhadeira tipo circuito aberto / Economic viability of the third milking in milk production systems using open circuit type milking mechanics

Objetivou-se analisar a viabilidade econômica da terceira ordenha em sistemas de produção de leite que utilizam ordenhadeira mecânica, do tipo circuito aberto, visando fornecer aos técnicos e pecuaristas informações que os auxiliem no processo de tomada de decisões. Especificamente pretendeu-se ainda: a) estimar o custo de uma ordenha; b) estimar, por meio de simulação, o custo da terceira ordenha; c) desenvolver uma equação matemática que permita estimar a quantidade mínima de leite produzido em duas ordenhas, a partir da qual será viável economicamente a realização da terceira ordenha. Os dados foram coletados em três sistemas de produção de leite, em uma rotina de duas ordenhas diárias, sendo realizadas três coletas de dados em cada um, perfazendo um total de nove. Considerando-se os dados médios, seria viável a realização da terceira ordenha se a produtividade média diária das vacas em lactação em duas ordenhas fosse igual ou superior a 38,13kg de leite. A equação matemática desenvolvida pode auxiliar o técnico e o pecuarista a estimarem a quantidade mínima de leite produzido por uma vaca em duas ordenhas, a partir da qual será viável economicamente a realização da terceira ordenha, com precisão e considerável rapidez.

This study aims to analyze the economic viability of the third milking in milk production systems using open circuit milking mechanics, aiming to provide technicians and farmers with information to help in the decision-making process. Specifically intend to a) estimate the cost of a milking; (b) estimate, by means of simulation, the cost of the third milking; (c) develop a mathematical equation that allows estimating the minimum amount of milk produced in two milkings, from which it will be economically feasible to hold the third milking. The data were collected in three milk production systems, in a routine of two milkings per day, with three collections of data in each, a total of nine collections. Considering the average data, it would be feasible to hold the third milking if the productivity of daily average lactating cows is equal or greater than 38.13 kg of milk. The mathematical equation developed may help the technician and the farmer to estimate the minimum quantity of milk produced by a cow in two milkings, from which it will be economically feasible to hold the third milking with precision and considerable speed.

Inferring demography from runs of homozygosity in whole-genome sequence, with correction for sequence errors.

Whole-genome sequence is potentially the richest source of genetic data for inferring ancestral demography. However, full sequence also presents significant challenges to fully utilize such large data sets and to ensure that sequencing errors do not introduce bias into the inferred demography. Using whole-genome sequence data from two Holstein cattle, we demonstrate a new method to correct for bias caused by hidden errors and then infer stepwise changes in ancestral demography up to present. There was a strong upward bias in estimates of recent effective population size (Ne) if the correction method was not applied to the data, both for our method and the Li and Durbin (Inference of human population history from individual whole-genome sequences. Nature 475:493-496) pairwise sequentially Markovian coalescent method. To infer demography, we use an analytical predictor of multiloci linkage disequilibrium (LD) based on a simple coalescent model that allows for changes in Ne. The LD statistic summarizes the distribution of runs of homozygosity for any given demography. We infer a best fit demography as one that predicts a match with the observed distribution of runs of homozygosity in the corrected sequence data. We use multiloci LD because it potentially holds more information about ancestral demography than pairwise LD. The inferred demography indicates a strong reduction in the Ne around 170,000 years ago, possibly related to the divergence of African and European Bos taurus cattle. This is followed by a further reduction coinciding with the period of cattle domestication, with Ne of between 3,500 and 6,000. The most recent reduction of Ne to approximately 100 in the Holstein breed agrees well with estimates from pedigrees. Our approach can be applied to whole-genome sequence from any diploid species and can be scaled up to use sequence from multiple individuals.

Levantamento da prevalência da babesiose bovina no município de Umuarama, Paraná, Brasil / Assessment of bovine babesiosis, prevalence in the municipality of Umuarama, Paraná, Brazil / Levantamiento de prevalencia de babesiosis bovina en el município de Umuarama, Paraná, Brasil

A babesiose bovina é uma hemoparasitose causada por duas espécies de protozoários, Babesia bovis e Babesia bigemina, que atinge os rebanhos de bovinos em praticamente todo território nacional, sendo responsável por grandes perdas na produtividade dos rebanhos. A transmissão ocorre, principalmente, pelo carrapato Rhipicephalus Boophillus microplus. Os sinais clínicos se caracterizam por anemia intensa, por hemólise extravascular, febre, hemoglobinúria, icterícia e morte. O diagnóstico da babesiose pode ser por meio do exame microscópico de esfregaços de sangue periférico. O objetivo desse trabalho foi estudar a prevalência da babesiose bovina no município de Umuarama. Foram analisados 325 prontuários clí-nicos de bovinos provenientes do município de Umuarama atendidos no Hospital Veterinário da Universidade Paranaense no período de janeiro de 2003 a dezembro de 2010. A análise revelou que 32,4% foram positivos e 68,6% foram negativos para Babesia spp. Em relação ao sexo dos animais, 30,5% das fêmeas (n=243) e 34,1% dos machos (n=82) foram positivos. Segundo a aptidão zootecnica 27,4% dos bovinos com aptidão para corte (n=164) e 35,4% dos bovinos com aptidão para leite (n=161) foram positivos. Não houve diferença significativa entre os sexos e entre as aptidões (p>0,05). Segundo a subespécie bovina, 23% dos bovinos Bos taurus indicus (n=107) e 37,4% dos bovinos Bos taurus taurus (n=179) foram positivos. Houve diferença significativa entre as subespécies (p<0,05), ocorrendo maior prevalência de babesiose nos Bos taurus taurus. De acordo com os resultados encontrados pode-se concluir que nao houve diferença na prevalência de babesiose quando se comparou o sexo e a aptidão zootécnica. Foi observada uma maior prevalÇencia de babesiose em Bos taurus quando comparado com Bos indicus.

Bovine babesiois is a hemoparasitosis, this disease is caused by two protozoa species, Babesia bovis and Babesiabigemina, and afflicts bovine herds on the entire country, being, responsible for great losses in productivity of the herds.Transmission happens mainly by the tick Rhipicephalus Boophilus microplus. Clinical signs are intense anemia by extravascularhemolysis, fever, hemoglobinuria, jaundice and death. The diagnosis for babesiosis may be through microscopic examinationof peripheral blood smears. It is a disease of great importance for bovine production. The aim of this paper was to studythe prevalence of babesiosis in the municipality of Umuarama. It was analyzed 325 clinical charts from Umuarama, treatedat the Universidade Paranaense (UNIPAR) Veterinary Hospital, from January 2003 to December 2010. The analysis showedthat 32.4% were positive and 68.6% were negative for Babesia spp. Considering gender, 30.5% of the female (n=243) and34.1% of male (n=82) were positive. Concerning productive aptitude 27.4% of the bovines with beef aptitude (n=164) and35.4% of bovines with dairy aptitude (n=161) were positive. There was no significant difference between genders and aptitude(p>0.05). Concerning bovine subspecies 23% of Bos taurus indicus (n=107) and 37.4% of Bos taurus taurus (n=179) werepositive. There was significant difference between subspecies (p<0,05), with greater prevalence of babesiosis in Bos taurustaurus.. According to the results found, it is possible to conclude that there was no difference in the prevalence of babesiosiswhen compared gender and productive aptitude. It was observed a higher prevalence of babesiosis in Bos taurus taurus whencompared to Bos indicus.

Detection of signatures of selective sweeps in the Blonde d'Aquitaine cattle breed.

Identifying recent positive selection signatures in domesticated animals could provide information on genome response to strong directional selection from domestication and artificial selection and therefore could help in identifying mutations responsible for improved traits. We used genotyping data generated using Illumina's BovineSNP50 Genotyping BeadChips to identify selection signatures in the Blonde d'Aquitaine breed, a well-muscled French beef breed. For this purpose, we employed a hidden Markov model-based test, which detects selection by studying local variations in the allele frequency spectrum along the genome, within a single population. Three regions containing selective sweeps were identified. Annotation of genes located within these regions revealed interesting candidate genes. For example, myostatin (also known as GDF8), a known muscle growth factor inhibitor, is located within the selection signature region found on chromosome 2. In addition, we have identified chromosomal regions that show some evidence of selection within QTL regions for economically important traits. The results of this study could help to better understand the mechanisms related to the selection of the Blonde d'Aquitaine breed.

Prediction of breed composition in an admixed cattle population.

Swiss Fleckvieh was established in 1970 as a composite of Simmental (SI) and Red Holstein Friesian (RHF) cattle. Breed composition is currently reported based on pedigree information. Information on a large number of molecular markers potentially provides more accurate information. For the analysis, we used Illumina BovineSNP50 Genotyping Beadchip data for 90 pure SI, 100 pure RHF and 305 admixed bulls. The scope of the study was to compare the performance of hidden Markov models, as implemented in structure software, with methods conventionally used in genomic selection [BayesB, partial least squares regression (PLSR), least absolute shrinkage and selection operator (LASSO) variable selection)] for predicting breed composition. We checked the performance of algorithms for a set of 40 492 single nucleotide polymorphisms (SNPs), subsets of evenly distributed SNPs and subsets with different allele frequencies in the pure populations, using F(ST) as an indicator. Key results are correlations of admixture levels estimated with the various algorithms with admixture based on pedigree information. For the full set, PLSR, BayesB and structure performed in a very similar manner (correlations of 0.97), whereas the correlation of LASSO and pedigree admixture was lower (0.93). With decreasing number of SNPs, correlations decreased substantially only for 5% or 1% of all SNPs. With SNPs chosen according to F(ST) , results were similar to results obtained with the full set. Only when using 96 and 48 SNPs with the highest F(ST) , correlations dropped to 0.92 and 0.90 respectively. Reducing the number of pure animals in training sets to 50, 20 and 10 each did not cause a drop in the correlation with pedigree admixture.

Desempenho de vacas leiteiras em pastagem de alfafa suplementada com silagem de milho e concentrado e viabilidade econômica do sistema / Performance of dairy cows on alfalfa pasture supplemented with corn silage and concentrate and its economic viability

Avaliou-se o efeito da substituição parcial de silagem de milho por pastagem de alfafa no desempenho de vacas leiteiras e na viabilidade econômica do sistema. Utilizaram-se 24 vacas da raça Holandesa, em estádio médio de lactação, em delineamento em blocos ao acaso. Os tratamentos foram: dieta à base de silagem de milho em confinamento, silagem de milho substituída parcialmente por pastejo restrito (PR) e pastejo irrestrito (PI) de alfafa. O sistema de pastejo foi rotacionado, e a quantidade de concentrado igual em todos os tratamentos. A massa de forragem foi de 2.338 e de 1.878kg de MS/ha, e a oferta de 1,8 e 4,2kg de MS/100kg de peso vivo, nos tratamentos PR e PI, respectivamente. A produção de leite não diferiu entre os tratamentos, cujas médias foram de 25,9; 25,8 e 25,2 litros por vaca por dia no confinamento, no PR e no PI, respectivamente. A produção diária de leite por área foi de 59,3L/ha no PR e de 63,0L/ha no PI, enquanto no confinamento foi de 45,7L/ha. A substituição parcial de silagem de milho por alfafa em pastejo não limitou o desempenho produtivo dos animais e mostrou-se economicamente vantajosa em relação ao confinamento.

The effect of partial replacement of corn silage for alfafa grazing on dairy cows performance and profitability was evaluated. Twenty-four Holstein dairy cows in mid-lactation were used in a randomized block design. Treatments were: a corn silage-based diet fed on drylot, or partial replacement of corn silage for either restricted alfalfa grazing or unrestricted grazing. A rotational grazing system was used and the amount of concentrate fed was the same in all treatments. Forage availabilities were 2,338 and 1,878kg/ha of dry matter (DM) and offered at 1.8 and 4.2kg of DM/100kg of live weight under restricted and unrestricted grazing, respectively. No difference in milk production was observed among treatments, averaging 25.9, 25.8, and 25.2 liters per cow on feedlot, restricted grazing, or unrestricted grazing, respectively. Milk production per hectare was 59.3L/day on restricted grazing and 63L/day on unrestricted grazing, whereas it was 45.7L/day on drylot. Partial replacement of corn silage for alfalfa grazing did not limit animal performance and it would be economically advantageous as compared to drylot feeding.

Viabilidade financeira da utilização de quatro ordenhas nos primeiros 21 dias da lactação em vacas mestiças F1 Holandês/Zebu / Financial viability analyses of four milkings in the first 21 days of lactation in F1 crossbred Holstein-Zebu cows

Avaliou-se financeiramente o efeito de quatro ordenhas diárias nos primeiros 21 dias da lactação, seguidas de duas ordenhas diárias, com ou sem a sucção de leite pelo bezerro em um dos tetos durante a ordenha. Foram utilizadas 53 vacas F1 Holandês/Zebu multíparas. A produção e a composição do leite foram mensuradas a cada quatro dias até o 33º dia da lactação e, posteriormente, a cada 15 dias. Como indicador do desempenho financeiro dos diferentes grupos, foi utilizada a margem bruta. O experimento foi desenvolvido em delineamento inteiramente ao acaso, em arranjo fatorial 2x2. As produções médias de leite foram 16,7, 17,2, 19,0 e 18,9kg/d (PÂ0,01) para vacas ordenhadas duas e quatro vezes por dia, com ou sem a sucção do leite pelo bezerro durante a ordenha, respectivamente. O aumento da frequência de ordenhas nos primeiros 21 dias da lactação proporcionou incremento na produção de dois litros/dia e 17,3 por cento na margem bruta estimada com a venda de leite.

Fifty-three F1 crossbred Holstein-Zebu cows were used to evaluate financially the effects of four daily milkings until lactation day 21, and after this day two milkings, with or without suckling by the calf in one teat during milking. Milk production and composition were measured each four days until lactation day 33, and then each 15 days until the end of lactation. The experiment followed a completely randomized design in a 2x2 factorial. To analyze the financial viability of the different groups, the gross margin was used, as financial indicator. Milk productions were 16.7, 17.2, 19.0, and 18.9kg/day (PÂ0.01) for cows milked twice or four times a day with or without suckling by the calf, respectively. The rise of milking frequency increased milk production in two liters per day, and in 17.3 percent of estimated gross margin from the sale of milk.

Breed and trait preferences of Sheko cattle keepers in southwestern Ethiopia.

Like their smallholder subsistence counterparts in developing countries, breed and trait preferences of Sheko cattle keepers have broad perspectives. Our study has documented breed and trait preferences of Sheko cattle keepers in southwestern Ethiopia--the natural breeding tract of Sheko cattle. Our results showed that due to their multifunctionality, cattle are the most preferred livestock species. Overall, farmers showed slightly more preference to local Zebus over Sheko breed. This is due to voracious feeding behavior of Sheko cattle, which make them less preferable in the face of worsening feed shortage, and due to aggressive temperament of Sheko cattle. This is despite Sheko's outperforming potential over local Zebus in their milk production, draft power, and hardiness. At trait level, overall milk production was consistently reported as the most preferred trait followed by fertility and traction. This trait preference rank has matched with the reported frequency count ranks for Sheko cattle use. However, breed preference rank has not matched with reported trait preference ranks because Sheko excels local Zebus in all the three most preferred traits, but it was ranked second. Therefore, to minimize these conflicting interests, breed management plans for Sheko cattle should target on strategies that help to solve feed shortage problem and to improve feeding practices, and on selection of less aggressive Sheko cattle. Therefore, these strategies should be considered in line with Sheko cattle conservation and genetic improvement programs.

Extensive long-range and nonsyntenic linkage disequilibrium in livestock populations: deconstruction of a conundrum.

Great interest was aroused by reports, based on microsatellite markers, of high levels of statistically significant long-range and nonsyntenic linkage disequilibrium (LD) in livestock. Simulation studies showed that this could result from population family structure. In contrast, recent SNP-based studies of livestock populations report much lower levels of LD. In this study we show, on the basis of microsatellite data from four cattle populations, that high levels of long-range LD are indeed obtained when using the multi-allelic D' measure of LD. Long-range and nonsyntenic LD are exceedingly low, however, when evaluated by the standardized chi-square measure of LD, which stands in relation to the predictive ability of LD. Furthermore, specially constructed study populations provided no evidence for appreciable LD resulting from family structure at the grandparent level. We propose that the high statistical significance and family structure effects observed in the earlier studies are due to the use of large sample sizes, which accord high statistical significance to even slight deviations from asymptotic expectations under the null hypothesis. Nevertheless, even after taking sample size into account, our results indicate that microsatellites testify to the presence of usable LD at considerably wider separation distances than SNPs, suggesting that use of SNP haplotypes may considerably increase the usefulness of a given fixed SNP array.

Body condition assessment using digital images.

This project assessed the ability to assign a body condition score (BCS) to a dairy cow from digital photographs or videos. Images were taken from the rear of the cow at a 0 to 20 degrees angle relative to the tail head. Four observers assigned a BCS to each of 57 cows at a farm visit (live, farm 1) and later from a photograph (photo). Means +/- standard deviations of BCS by method and observer were as follows: live = 3.25 +/- 0.51, 3.42 +/- 0.49, 3.32 +/- 0.58, 3.13 +/- 0.62; photo = 3.36 +/- 0.52, 3.32 +/- 0.43, 3.44 +/- 0.62, 3.14 +/- 0.6 for observers 1 to 4, respectively. Body condition score means differed across observers for live (observer 2 higher and observer 4 lower, compared with observers 1 and 3) and photo methods (observer 3 lower, compared with observers 1, 2, and 3); however, within observer, the mean live BCS did not differ from the mean photo BCS. Correlation coefficients between BCS assigned live and from photos were 0.84, 0.82, 0.82, and 0.90 for observers 1 to 4, respectively. Subsequently, observer 1 visited 2 farms, assigned a live BCS, and digitally photographed 187 cows (56 and 131 cows from farms 2 and 3, respectively). Observers 2, 3, and 4 assigned a BCS from the photographs. Means +/- standard deviations of BCS by observer (method) were 1 (live) 3.35 +/- 0.55; 2 (photo) 3.33 +/- 0.49; 3 (photo) 3.60 +/- 0.54; and 4 (photo) 3.26 +/- 0.62. The mean BCS for observer 3 was higher and that for observer 4 was lower than for observers 1 and 2. Correlation coefficients between observer 1 and observers 2 through 4 were 0.78, 0.76, and 0.79, respectively. Observer 1 assigned a BCS to 41 cows at a farm visit and 3 wk later assessed the BCS of cows from a video taken at a farm visit by a different individual. Cows were restrained in headlocks at a feed bunk when assessing BCS and for video production. No difference was detected for the mean BCS, for the standard deviation of the mean BCS, or in the distribution of BCS between the live and video assessments. Mean and SD for 17 groups of Holstein cows from 20 farms were used to generate 10,000 random samples of BCS. Groups of 25, 50, 100, and 150 cows were created from the random samples, and estimates of mean BCS were determined by sampling 3 to 80% of the group. Estimates of mean BCS with a sample size of 30% or more from a group of cows fell within the 95% confidence limit of the true mean more than 98% of the time. Digital photographs provide adequate imaging for assessment of BCS. Sampling 30% of a group should be adequate to assess the mean BCS. Video imaging allowed a rapid assessment of BCS but did not permit identification of individual cows.

Optimum allocation of conservation funds and choice of conservation programs for a set of African cattle breeds.

Although funds for livestock conservation are limited there is little known about the optimal allocation of conservation funds. A new algorithm was used to allocate Mio US dollar 1, 2, 3, 5 or unlimited funds, discounted over 50 years, on 23 African cattle breeds conserved with four different possible conservation programs. Additionally, Mio US dollar 1 was preferably allocated to breeds with special traits. The conceptional in situ conservation programs strongly involve breeders and give them part of the responsibility for the conservation of the breed. Therefore, the pure in situ conservation was more efficient than cryoconservation or combined in situ and cryoconservation. The average annual discounted conservation cost for a breed can be as low as US dollar 1000 to US dollar 4400 depending on the design of the conservation program and the economic situation of the country of conservation. The choice of the breeds and the optimal conservation program and the amount of money allocated to each breed depend on many factors such as the amount of funds available, the conservation potential of each breed, the effects of the conservation program as well as its cost. With Mio US dollar 1, 64% of the present diversity could be maintained over 50 years, which is 13% more than would be maintained if no conservation measures were implemented. Special traits could be conserved with a rather small amount of the total funds. Diversity can not be conserved completely, not even with unlimited funds. A maximum of 92% of the present diversity could be conserved with Mio US dollar 10, leaving 8% of the diversity to unpredictable happenings. The suggested algorithm proved to be useful for optimal allocation of conservation funds. It allocated the funds optimally among breeds by identifying the most suited conservation program for each breed, also accounting for differences in currency exchange rates between the different countries.