Important Cattle Breeds Research Articles

Low levels of taurine introgression in the current Brazilian Nelore and Gir indicine cattle populations.

BackgroundNelore and Gir are the two most important indicine cattle breeds for production of beef and milk in Brazil. Historical records state that these breeds were introduced in Brazil from the Indian subcontinent, crossed to local taurine cattle in order to quickly increase the population size, and then backcrossed to the original breeds to recover indicine adaptive and productive traits. Previous investigations based on sparse DNA markers detected taurine admixture in these breeds. High-density genome-wide analyses can provide high-resolution information on the genetic composition of current Nelore and Gir populations, estimate more precisely the levels and nature of taurine introgression, and shed light on their history and the strategies that were used to expand these breeds.ResultsWe used the high-density Illumina BovineHD BeadChip with more than 777 K single nucleotide polymorphisms (SNPs) that were reduced to 697 115 after quality control filtering to investigate the structure of Nelore and Gir populations and seven other worldwide populations for comparison. Multidimensional scaling and model-based ancestry estimation clearly separated the indicine, European taurine and African taurine ancestries. The average level of taurine introgression in the autosomal genome of Nelore and Gir breeds was less than 1% but was 9% for the Brahman breed. Analyses based on the mitochondrial SNPs present in the Illumina BovineHD BeadChip did not clearly differentiate taurine and indicine haplotype groupings.ConclusionsThe low level of taurine ancestry observed for both Nelore and Gir breeds confirms the historical records of crossbreeding and supports a strong directional selection against taurine haplotypes via backcrossing. Random sampling in production herds across the country and subsequent genotyping would be useful for a more complete view of the admixture levels in the commercial Nelore and Gir populations.Electronic supplementary materialThe online version of this article (doi:10.1186/s12711-015-0109-5) contains supplementary material, which is available to authorized users.

Towards sequence-based genomic selection of cattle.

An international effort, the 1000 bull genomes project, aims to resequence the genomes of a large number of key ancestor bulls of the most important domestic cattle breeds. A new study reports on the first results of this important initiative based on the analysis of the first 234 bovine whole-genome sequences.

Whole-genome analyses of Korean native and Holstein cattle breeds by massively parallel sequencing.

A main goal of cattle genomics is to identify DNA differences that account for variations in economically important traits. In this study, we performed whole-genome analyses of three important cattle breeds in Korea—Hanwoo, Jeju Heugu, and Korean Holstein—using the Illumina HiSeq 2000 sequencing platform. We achieved 25.5-, 29.6-, and 29.5-fold coverage of the Hanwoo, Jeju Heugu, and Korean Holstein genomes, respectively, and identified a total of 10.4 million single nucleotide polymorphisms (SNPs), of which 54.12% were found to be novel. We also detected 1,063,267 insertions–deletions (InDels) across the genomes (78.92% novel). Annotations of the datasets identified a total of 31,503 nonsynonymous SNPs and 859 frameshift InDels that could affect phenotypic variations in traits of interest. Furthermore, genome-wide copy number variation regions (CNVRs) were detected by comparing the Hanwoo, Jeju Heugu, and previously published Chikso genomes against that of Korean Holstein. A total of 992, 284, and 1881 CNVRs, respectively, were detected throughout the genome. Moreover, 53, 65, 45, and 82 putative regions of homozygosity (ROH) were identified in Hanwoo, Jeju Heugu, Chikso, and Korean Holstein respectively. The results of this study provide a valuable foundation for further investigations to dissect the molecular mechanisms underlying variation in economically important traits in cattle and to develop genetic markers for use in cattle breeding.

337 NONMEIOTIC INTROGRESSION OF QUANTITATIVE TRAIT NUCLEOTIDES AND CORRECTION OF CONGENITAL MUTATIONS IN LIVESTOCK WITH TRANSCRIPTION ACTIVATOR-LIKE EFFECTOR NUCLEASES

Genetic enhancement of livestock productivity and welfare are major goals of breeding and genetics programs. However, the introgression of desirable alleles across breeds is slow and inaccurate. The development of gene editing technologies would provide the opportunity to accelerate the genetic improvement of a diversity of livestock breeds. Transcription activator-like effector nucleases (TALEN) are programmable nucleases that join the modular DNA binding domain of transcription activator-like (TAL) effectors with FokI endonuclease. We found that TALEN could be easily manufactured and that 64% displayed activity in swine and cattle primary fibroblasts, with cleavage of 1.5 to 45% of chromosomes in cell populations, as measured by Surveyor assay. Clonal isolation and sequencing revealed that up to 84% of cells contained at least one modified allele, with up to 24% of cells containing biallelic or homozygous chromosomal modification. Co-transfection of a customized TALEN pair with a template containing a specific allele was effective at the nonmeiotic introgression of quantitative trait into naïve cattle breeds. We will also describe the repair of 2 recently described embryonic lethal mutations that are segregating in important dairy cattle breeds (JH1 and HH1). Injection of TALEN mRNA into the cytoplasm of pig and cattle zygotes was capable of inducing gene knockout (KO) in 27 to 75% of embryos analysed (n = 4–59), nearly half of which (8/19) harbored biallelic modification. We will present data describing efforts towards gene conversion by direct injection of livestock embryos. Finally, we will present alternative strategies for the incorporation of gene editing in livestock production systems by cloning or embryo treatment.

Constraints on haplotype structure and variable gene frequencies suggest a functional hierarchy within cattle MHC class I

Six major histocompatibility complex (MHC) classical class I genes have been identified in cattle, and up to three of these are expressed in variable combinations on different haplotypes. The origin and functional significance of this genetic complexity is unknown. However, an improved assembly of the cattle genome, an expanded database of full-length cDNA sequences and high-resolution frequency data concerning expressed class I genes in an economically important cattle breed combine to provide a new opportunity to study the significance of cattle MHC class I diversity. Analysis of these new data supports assignment of alleles to six discrete genes and further shows that all these classical genes share a common ancestor with a single non-classical gene, NC1. While haplotype structure is variable, with thirteen gene configurations identified, there are nevertheless clear constraints relating to both the number and combination of genes. Haplotypes expressing two classical genes are most frequently observed, and the classical class I gene 2 is almost invariably present. The frequency data support the dominance of gene 2, showing that close to 100% of individuals carry at least one copy. This indicates a hierarchy in the functional importance of particular genes and haplotype structures. Haplotype frequency in cattle populations is therefore likely to impact on differential disease susceptibilities. This knowledge will be important for development of informed breeding strategies aimed at increasing the ability of cattle to survive in the face of future unpredictable pathogen exposure.

Perspectives on improvement of reproduction in cattle during heat stress in a future Japan

Heat stress (HS) causes hyperthermia, and at its most severe form, can lead to death. More commonly, HS reduces feed intake, milk yield, growth rate and reproductive function in many mammals and birds, including the important cattle breeds in Japan. Rectal temperatures greater than 39.0°C and respiration rates greater than 60/min indicate cows are undergoing HS sufficient to affect milk yield and fertility. HS compromises oocyte quality and embryonic development, reduces expression of estrus and changes secretion of several reproductive hormones. One of the most effective ways to reduce the magnitude of HS is embryo transfer, which bypasses the inhibitory effects of HS on the oocyte and early embryo. It may also be possible to select for genetic resistance to HS. Cooling can also improve reproductive performance in cows and heifers, and probably, the most effective cooling systems currently in use are those that couple evaporative cooling with tunnel ventilation or cross ventilation. Its effect on improving reproductive performance in Japan remains to be evaluated.

Effect of cattle breed on finishing performance, carcass characteristics and economic benefits under typical beef production system in China

This study compared the finishing performance carcass characteristics and economic benefits of two imported (Limousin and Simmental) and three local (Luxi, Jinnan and Qinchuan) cattle breeds slaughtered at 18.5 months of age under thetypical Chinese beef production system. All cattle (n=71) were reared under the same production system and fed the same finishing diet for 105 days. Eight bulls from each breed were randomly selected for slaughtering. Compared with the three local breeds, the two imported breeds had higher average daily gain, dry matter intake and gain efficiency. Regarding carcass characteristics, the two imported breeds had higher carcass weight, bone weight, net meat weight, and ribeye area (P<0.001). However, the local breeds had higher (P<0.01) marbling scores than the imported breeds. The imported breeds showed higher economic benefits (P<0.001) than the local breeds. In conclusion, the imported cattle breeds had better growth performance, carcass traits and economic benefits compared with the local cattle breeds at 18.5 months old under the typical Chinese feeding conditions whereas, in this study, the local breeds may have some advantage in terms of meat quality.

Polymorphisms and Allele Distribution of Novel Indel Markers in Jeju Black Cattle, Hanwoo and Imported Cattle Breeds

Polymorphisms and Allele Distribution of Novel Indel Markers in Jeju Black Cattle, Hanwoo and Imported Cattle Breeds

Association of the Ile-442-Met substitution in &amp;lt;i&amp;gt;NCAPG&amp;lt;/i&amp;gt; with birth weight in German Angus and German Simmental cattle (Brief Report)

Abstract. The optimal birth weight (BW) of a calf is important and an indicator of the chance to survive and performing later in life (Maltecca et al. 2009). The search for the genetic background of BW in cattle on BTA6 is in the focus of many studies. One QTL at 1 cM was described in an Angus × Brahman cross population (Kim et al. 2003). Three QTL for BW had been identified at BTA6 at 10 cM, 35-49 cM and 83-86 cM in a commercial line of Bos taurus (Kneeland et al. 2004). One of these was confirmed in a Jersey × Holstein cross population as a putative QTL at 41 cM (Maltecca et al. 2009). In a Holstein × Charolais cross cattle population a highly significant QTL for BW was detected on BTA6 in the same region between BM1329 and DIK1054 (Gutierrez-GIL et al. 2009). In another study with Holstein × Charolais the QTL was confirmed and the SNP in this QTL with the strongest effect on BW was in non-SMC condensing I complex, subunit G (NCAPG 1326T/G) (Eberlein et al. 2009). This SNP induced a Ile-442-Met substitution in the amino acid sequence. It was the aim of this study to validate this SNP by analysing the effect of the Ile-442-Met substitution in NCAPG on birth weight in two important beef cattle breeds in Germany.

Characterization of bovine transcripts preferentially expressed in testis and with a putative role in spermatogenesis

Although the number of genes known to be associated with bovine spermatogenesis has increased in the past few years, regulation of this biological process remains poorly understood. Therefore, discovery of new male fertility genetic markers is of great value for assisted selection in commercially important cattle breeds, e.g., Nelore, that have delayed reproductive maturation and low fertility rates. The objective of the present study was to identify sequences associated with spermatogenesis that could be used as fertility markers. With RT-PCR, the following five transcripts preferentially expressed in adult testis were detected: TET656 detected only in adult testis; TET868 and TET515 expressed preferentially in adult testis but also detected in fetal gonads of both sexes; and TET456 and TET262, expressed primarily in the testis, but also present in very low amounts in somatic tissues. Based on their homologies and expression profiles, we inferred that they had putative roles in spermatogenesis. Detection of sequences differentially expressed in testis, ovary, or both, was a useful approach for identifying new genes related to bovine spermatogenesis. The data reported here contributed to discovery of gene pathways involved in bovine spermatogenesis, with potential for prediction of fertility.

History of registered Gyr breed in Brazilian Northeast: population structure and genetic improvement of growth traits

This paper provides an evaluation of the population structure, phenotype and genetic trends of registered Gyr herd cattle in northeast Brazil. The study provides important baseline information for the management, conservation and potential population expansion of this economically and culturally important cattle breed. Pedigree data were analyzed for individuals born between 1964 and 2006. Body weight values were adjusted to 205 and 365 days of age for animals born between 1978 and 2006. Phenotypic change of zebu Gyr in northeast Brazil is solely due to environmental improvement. However, there is potential for artificial selection for weight gain in young cattle. Effective population size decreased during the 1990s and the average inbreeding coefficient increased during the studied period. An increase of the effective population size of Gyr in northeast Brazil is strongly recommended, along with an increase in the management of the mating process to prevent inbreeding and to maintain the genetic variability of the breed.

Analysis of STR Markers Reveals High Genetic Structure in Portuguese Native Cattle

Genetic structure and diversity of 13 Portuguese native and 3 imported cattle breeds were assessed with 39 microsatellites. Allelic richness per locus was high, with an overall average of 8.3 +/- 2.5. The mean observed and expected heterozygosities were 0.673 +/- 0.043 and 0.691 +/- 0.034, respectively. The mean number of alleles per breed ranged between 5.36 +/- 1.27 and 7.87 +/- 2.66. Brava de Lide and Mirandesa breeds had the lowest genetic diversity, whereas Minhota, Arouquesa, and Mertolenga had the highest. Significant (P < 0.05) heterozygote deficit was detected in all breeds except Garvonesa, Marinhoa, Minhota, and Limousin. Hardy-Weinberg deviations are most probably due to inbreeding, particularly in Alentejana, Brava de Lide, Mertolenga, and Ramo Grande (F(is) > 0, P < 0.0001). Based on the principal component and the Neighbor-Net analyses, Mirandesa was the most genetically distinct breed. Even though admixture was detected across all breeds (6.7%, q < 0.800), the molecular structure was consistent with original breed designations, with the exception of Cachena that had a clear influence of Barrosã (K = 15). Mertolenga showed substructure with independent clustering of red speckled animals. The percentage animals correctly assigned was >or=90 in all breeds except Cachena, Garvonesa, and Preta (q >or= 0.800). The results obtained here confirmed that high levels of genetic diversity exist within Portuguese native cattle and that the breeds are highly structured. Conservation measures should be implemented for all native breeds to minimize inbreeding.

Establishment and characterization of a fibroblast line from Simmental cattle

A fibroblast line (named SCF36) from ear marginal tissue of Simmental cattle was established successfully by direct culture of explants and cell cryopreservation techniques. Biological analysis showed that the population doubling time of the thawed cells was 42.8 h. The average viability of the cells was 96.8% before freezing and 91.5% after thawing. Measurements of lactic dehydrogenase and malic dehydrogenase isoenzymes showed no cross-contamination of this cell line with other species. Karyotyping showed that the frequency of cells with chromosome number 2 n = 60 was more than 90%. Tests for bacteria, fungi, viruses and mycoplasmas were negative. The efficiencies of expression of enhanced green, yellow and red fluorescent protein genes (pEGFP-N 3, pEYFP-N 1 and pDsRed1-N 1) were between 11.3% and 28.8% after transfection; fluorescence was well distributed in the cytoplasm and nucleus except for some cryptomeric vesicles. This Simmental cattle fibroblast line not only contains the germline of this important cattle breed, which is preserved at the cellular level, but valuable material has also been provided for genomic, postgenomic and somatic cloning research. Moreover, the establishment of these methods may provide both technical and theoretical support for preserving the genetic resources of other livestock and poultry at the cellular level.

A Defective SERCA1 Protein Is Responsible for Congenital Pseudomyotonia in Chianina Cattle

Recently, a muscular disorder defined as "congenital pseudomyotonia" was described in Chianina cattle, one of the most important Italian cattle breeds for quality meat and leather. The clinical phenotype of this disease is characterized by an exercise-induced muscle contracture that prevents animals from performing muscular activities. On the basis of clinical symptoms, Chianina pseudomyotonia appeared related to human Brody's disease, a rare inherited disorder of skeletal muscle function that results from a sarcoplasmic reticulum Ca(2+)-ATPase (SERCA1) deficiency caused by a defect in the ATP2A1 gene that encodes SERCA1. SERCA1 is involved in transporting calcium from the cytosol to the lumen of the sarcoplasmic reticulum. Recently, we identified the genetic defect underlying Chianina cattle pseudomyotonia. A missense mutation in exon 6 of the ATP2A1 gene, leading to an R164H substitution in the SERCA1 protein, was found. In this study, we provide biochemical evidence for a selective deficiency in SERCA1 protein levels in sarcoplasmic reticulum membranes from affected muscles, although mRNA levels are unaffected. The reduction of SERCA1 levels accounts for the reduced Ca(2+)-ATPase activity without any significant change in Ca(2+)-dependency. The loss of SERCA1 is not compensated for by the expression of the SERCA2 isoform. We believe that Chianina cattle pseudomyotonia might, therefore, be the true counterpart of human Brody's disease, and that bovine species might be used as a suitable animal model.

Conserving what's important: Using choice model scenarios to value local cattle breeds in East Africa

The Borana cattle in southern Ethiopia and northern Kenya have unique traits that make them suitable for the harsh environment in the lowlands and have long formed a part of their livestock-keepers' cultural identity. However, genetic erosion of this important cattle breed has been occurring at an accelerating rate for the last few decades. Conservation initiatives for the Borana breed are required and in this context, this study provides empirical evidence for the high economic value of the Borana breed and its different subtypes, measured by their distinct attributes. This evaluation, firstly, strengthens conservation justification and provides guidance regarding cost-efficient conservation approaches and, secondly, provides a better understanding of breeding values. The analysis presented is based on a choice model (CM) with 370 local livestock-keepers. The results of the CM indicate that the preferences for some cattle attributes (in particular for cultural traits such as body size and horn conditions) and Borana subtypes vary largely between Kenya and Ethiopia and that high monetary values are placed on adaptive traits, fertility and traction suitability. We further conclude that it is most cost-effective to conserve in-situ the Ethiopian Borana subtype in Ethiopia and the Somali Borana subtype in Kenya.

Tuberculose bovine au Mali : résultats d’une enquête épidémiologique dans les élevages laitiers de la zone périurbaine du district de Bamako

L’enquête a été réalisée dans 36 troupeaux bovins laitiers repartis dans 19 sites localisés dans la zone périurbaine du district de Bamako. Au total 1 087 sujets ont subi le test d’intradermoréaction comparative avec 202 (18,58 p. 100) cas de réaction positive. La prévalence au sein des troupeaux a été évaluée à 94,44 p. 100 (34 troupeaux positifs au test d’intradermoréaction sur 36 testés). Les résultats ont montré que, dans les troupeaux visités, la prévalence intradermo comparative individuelle positive a varié selon l’âge et la race des animaux testés : elle a été plus élevée chez les adultes âgés de plus de 10 ans (44,18 p. 100) et les sujets appartenant aux races bovines importées et ceux issus de croisement (22,42 p. 100).