Genomic Analysis Revealed a Convergent Evolution of LINE-1 in Coat Color: A Case Study in Water Buffaloes (Bubalus bubalis).

Visible pigmentation phenotypes can be used to explore the regulation of gene expression and the evolution of coat color patterns in animals. Here, we performed whole-genome and RNA sequencing and applied genome-wide association study, comparative population genomics and biological experiments to show that the 2,809-bp-long LINE-1 insertion in the ASIP (agouti signaling protein) gene is the causative mutation for the white coat phenotype in swamp buffalo (Bubalus bubalis). This LINE-1 insertion (3' truncated and containing only 5' UTR) functions as a strong proximal promoter that leads to a 10-fold increase in the transcription of ASIP in white buffalo skin.

Administering an appeasing substance to optimize performance and health responses in feedlot receiving cattle.

This experiment evaluated the impacts of administering a bovine appeasing substance (BAS) at feedlot entry to receiving cattle. Angus-influenced steers (n = 342) from 16 sources were purchased from an auction yard on day -1, and transported (12 hr; 4 trucks) to the feedlot. Upon arrival on day 0, shrunk body weight (BW; 240 ± 1 kg) was recorded and steers were ranked by load, shrunk BW, and source and assigned to receive BAS (IRSEA Group, Quartier Salignan, France; n = 171) or placebo (diethylene glycol monoethyl ether; CON; n = 171).

Estimation of genetic parameters for growth traits and Kleiber ratios in Boer x Central Highland goat.

Accurate performance evaluation and genetic parameters estimation are the prerequisites for any successful genetic improvement program. This study was conducted to estimate genetic parameters for growth and Kleiber ratio traits in Boer x Central Highland goats. On-station data collected from 2009 to 2018 were utilized for the study.

Effect of Feeding Improved Grass Hays and Straw Silage on Milk Yield, Nitrogen Utilization, and Methane Emission of Lactating Fogera Dairy Cows in Ethiopia.

The nutritionally imbalanced poor-quality diet feeding is the major constraint of dairy production in tropical regions. Hence, alternative high-quality roughage-based diets are required to improve milk yield and reduce methane emission (CH4). Thus, we tested the effects of feeding natural pasture hay, improved forage grass hays (Napier and Hybrid), and treated crop residues ( straw) on nutrient digestibility, milk yield, nitrogen balance, and methane emission.

Beef cattle responses to pre-grazing sward height and low level of energy supplementation on tropical pastures.

The objective of this study was to investigate the effects of energy supplementation and pre-grazing sward height on grazing behavior, nutrient intake, digestion, and metabolism of cattle in tropical pastures managed as a rotational grazing system. Eight rumen-cannulated Nellore steers (24 mo of age; 300 ± 6.0 kg body weight [BW]) were used in a replicated 4 × 4 Latin square design.

Survival analysis and reproductive performance of Dorper x Tumele sheep.

Productivity and profitability of sheep farming are highly influenced by lamb survival and ewe reproductive performance. Thus, this study was conducted to evaluate the survival and reproductive performance of crossbred sheep. Data collected from 2009 to 2018 from Sirinka sheep breeding stations were utilized for this study.

Notice of RETRACTION: Changes in rumen fermentation, bacterial community, and predicted functional pathway in Holstein cows with and without subacute ruminal acidosis during the periparturient period.

The authors have elected to retract this paper in accordance with the following points. The article as written contains misleading information and omits important details. Cows in this study were assigned to groups based on the current definition of subacute ruminal acidosis; they were housed on two different farms and fed two different sets of rations in this study.

Descriptive Sensory Traits of Cooked Eggs Laid from Hens Fed Rice Grain.

Descriptive sensory characteristics of eggs produced by conventional corn-based feeding and unhulled whole rice grain-feeding were compared in two cooking procedures using a trained panel. Rice-feeding significantly decreased brothy and roasted odor in eggs cooked into half-cooked egg yolks, and decreased the creamy odor, smoothness and moisture of eggs cooked into custard puddings. However, a statistical interaction between rice-feeding and production farm was not observed in every sensory attribute.

Assessment of the dynamics of sensory perception of Wagyu beef strip loin prepared with different cooking methods and fattening periods using the temporal dominance of sensations.

In this study, we assessed the relative sensory perception of Wagyu beef using temporal dominance of sensations (TDS), which is a dynamic sensory method that captures the "dominance of sensation" throughout food consumption. In addition, we checked the integrity of the TDS by comparing the TDS results with a physicochemical analysis. Strip loins were obtained from 24- and 28-month-old Japanese Black cattle ("Wagyu") and were cooked by grilling () or boiling ().

Mitigating the anti-nutritional effect of polyphenols on in vitro digestibility and fermentation characteristics of browse species in north western Ethiopia.

Browse species are important sources of forage for livestock in Ethiopia, especially during the dry season, when the quality and quantity of green herbage is limited. However, browse species have anti-nutritional factors, such as polyphenols. This study evaluated the extent to which polyethylene glycol (PEG) can reduce the anti-nutritional effects of polyphenols whose extent is expected to vary depending on the species type and season on the in vitro fermentation of these plant samples.

Decomposition characteristics of indigenous organic fertilisers and introduced quick compost and their short-term nitrogen availability in the semi-arid Ethiopian Rift Valley.

Case studies on the assessment of local organic fertilisers (OFs) in their quality (decomposition characteristics and nutrient availability for crops) are few in sub-Saharan Africa (SSA). This study assessed the quality of local OFs from the Ethiopian Rift Valley. The decomposition characteristics were assessed by acid detergent fibre analysis methods, while the short-term nitrogen availability was assessed by a combination of laboratory incubations and inorganic nitrogen and acid detergent soluble nitrogen determinations.

Genotypes and allele frequencies of buried SNPs in a bovine single-nucleotide polymorphism array in Japanese Black cattle.

Single nucleotide polymorphism (SNP) arrays are widely used for genetic and genomic analyses in cattle breeding; thus, data derived from SNP arrays have accumulated on a large scale nationwide. Commercial SNP arrays contain a considerable number of unassigned SNPs on the chromosome/position on the genome; these SNPs are excluded in subsequent analyses. Notably, the position-unassigned SNPs, or "buried SNPs" include some of the markers associated with genetic disease.

Impacts of intensifying or expanding cereal cropping in sub-Saharan Africa on greenhouse gas emissions and food security.

Cropping is responsible for substantial emissions of greenhouse gasses (GHGs) worldwide through the use of fertilizers and through expansion of agricultural land and associated carbon losses. Especially in sub-Saharan Africa (SSA), GHG emissions from these processes might increase steeply in coming decades, due to tripling demand for food until 2050 to match the steep population growth. This study assesses the impact of achieving cereal self-sufficiency by the year 2050 for 10 SSA countries on GHG emissions related to different scenarios of increasing cereal production, ranging from intensifying production to agricultural area expansion.

Comparative evaluation of the cost and efficiency of four types of sexing methods for the production of dairy female calves.

This study was conducted to evaluate and compare the economic benefits of different embryo sexing methods, based on the cost per female dairy calf produced. Female calves were produced from four kinds of female embryos: (1) those collected from superstimulated donors at 7-8 days after artificial insemination (AI) with X-sorted semen; (2) those sex-determined by loop-mediated isothermal amplification assay of a biopsy sample of embryos collected from superstimulated donors after AI with conventional unsorted semen; (3) those obtained by invitro embryo production (IVEP), using X-sorted semen and in vitro-matured oocytes collected from donors by ovum pick-up (OPU); and (4) those obtained by IVEP, using X-sorted semen and oocytes collected by OPU after dominant follicle ablation and follicle growth stimulation of the donors. The respective productivities of female calves per technical service and the total production cost per female calf of each sexing method were compared.

Age-related changes in DNA methylation levels at CpG sites in bull spermatozoa and in vitro fertilization-derived blastocyst-stage embryos revealed by combined bisulfite restriction analysis.

Age-associated methylation changes in genomic DNA have been recently reported in spermatozoa, and these changes can contribute to decline in fertility. In a previous study, we analyzed the genome-wide DNA methylation profiles of bull spermatozoa using a human DNA methylation microarray and identified one CpG site (CpG-1) that potentially reflects age-related methylation changes. In the present study, cryopreserved semen samples from a Japanese Black bull were collected at five different ages, which were referred to as JD1-5: 14, 19, 28, 54, and 162 months, respectively, and were used for genome-wide DNA methylation analysis and in vitro fertilization (IVF).

Mild hypothermia promotes the viability of in vitro-produced bovine blastocysts and their transcriptional expression of the cold-inducible transcription factor Rbm3 during in vitro culture.

In this study, we evaluated the effects of holding in vitro-produced bovine blastocysts under mild hypothermia (33°C or 35°C), by examining viability and hatching rates of day 7 blastocysts (day 0: in vitro fertilization) cultured for 6 days and transcriptional expression of cold-inducible transcription factors Cirp and Rbm3, implicated in mild hypothermia-induced cellular protection against various types of stress. In the normothermic control (38.5°C), viability of the embryos decreased rapidly after day 10, and most samples were degenerated on day 13.

High prevalence of hepatitis E virus infection among domestic pigs in Ibaraki Prefecture, Japan.

Background: Hepatitis E virus (HEV) is prevalent in pigs and may serve as a reservoir for human infection. However, data on HEV infections in pigs in Ibaraki Prefecture, Japan, are limited. Here, we clarified the process and course of HEV in naturally infected pigs.

Effects of rumen-protected methionine on milk production in early lactation dairy cattle fed with a diet containing 14.5% crude protein.

We evaluated the influence on milk production of feeding early lactation cows a diet that included 14.5% crude protein (CP) and that did not meet methionine (Met) requirements or that met them by supplying rumen-protected Met (RPMet). Thirty-nine multiparous Holstein cows were allocated into two groups.

Correction to: Changes in free amino acid content and hardness of beef while dry-aging with .

[This corrects the article DOI: 10.1186/s40781-018-0176-6.].

Changes in free amino acids and hardness in round of Okinawan delivered cow beef during dry- and wet-aging processes.

Background: Aging trials are conducted to determine characteristics associated with dry- and wet-aging processes of beef from delivered cows grown in Okinawa, i.e., dams that have finished giving birth (Okinawan delivered cow beef).