Holstein-Friesian Cows Research Articles

420 Automated identification and behavioral estrus detection in freestall-housed dairy cows using computer vision and machine learning: A two-layered algorithm approach

Abstract A critical aspect of dairy management involves maintaining accurate records of individual animals and promptly detecting estrus behavior, which is vital for successful breeding and reproductive outcomes. Recent advancements in precision livestock management, utilizing computer vision and machine learning technologies, have paved the way for automated and precise solutions in these areas. The objective of this study is to investigate the application of computer vision and machine learning for animal identification and behavioral estrus detection in dairy cows housed in freestall settings, employing a two-layered algorithmic approach. The research was conducted at the Joe Bearden Dairy Research Center, where a total of 10 lactating Holstein-Friesian cows were assessed across a 7-d trial period. For synchronization efforts, cows were provided a single injection of Prostaglandin F2α at trial initiation with expected estrus behaviors to be exhibited within the following 56 h. Continuous video was captured in 4k resolution using a five-camera closed caption media recording system strategically placed in the pen corners and over the feed bunk alleyway to capture multiple perspectives. Video data extrapolated into frames and manual annotation was utilized to generate the machine learning algorithm’s training data. Frames were randomly selected from a scattering of 56 h of video across all five camera viewpoints and down sampled to 384 x 640 p for both layers. A two-layer approach was employed utilizing an algorithm for each aspect of the study with the first model detecting the behavior, and the second model using the detected region of interest to identify specific cows. The first layer was trained on 682 frames and validated against 123 manually annotated frames. The second layer was trained on 102 frames and validated against 16 frames manually annotated for individual animals. Results demonstrated that the model used for mounting behavior identification has high precision (0.819) and recall (0.89), achieving a 0.926 mAP at an IoU of 0.5. This model achieved an F1 score of 0.86 at a confidence threshold of 0.268. The results demonstrated that the model used for individual animal identification across different classes achieved high precision (0.861) and recall (0.842), with a mAP of 0.897 at an IoU of 0.5. The F1 score for all classes was 0.89 at a confidence threshold of 0.788. In conclusion, these promising findings underscore the potential of computer vision and machine learning technologies to revolutionize dairy cow management practices. This innovative approach not only has potential to enhance operational efficiency, but also contributes significantly to improved reproductive management, thereby advancing precision and productivity in dairy operations.

Exploring the Catrina, an autochthonous cattle breed of the Azores, for a comparative analysis of methane emissions with Holstein-Friesian dairy cows

Exploring the Catrina, an autochthonous cattle breed of the Azores, for a comparative analysis of methane emissions with Holstein-Friesian dairy cows

Effects of Summer Cooling Strategies on Post-Summer Cow Welfare: Evaluating Lameness and Behavior

The study aimed to compare the effect of different summer cooling strategies on post-summer lameness prevalence and behavior in Holstein Friesian cows. Twenty-one milking cows were randomly subjected to three different cooling strategies including: 1) a traditional approach (TRD), where cows were continuously cooled using a sprinkler during the daytime; 2) a reduced cooling strategy (2CS), which involved two cooling sessions of one hour each; and 3) increased cooling sessions strategy (4CS), with four cooling sessions daily. Each cooling session lasted for 1 h with a 12 min cycle (3 min water on and 9 min off) with a sprinkler flow rate of 1.25 L/min. The cows' lameness scores, lying behavior, standing behavior, and step counts were assessed during the post-summer period. The results revealed that the 4CS group had lower lameness prevalence compared to the TRD and 2CS groups (p = 0.015). Furthermore, the TRD and 2CS groups exhibited higher lying times and lower standing times during post-summer (p < 0.05), potentially indicating lameness pain and discomfort. Additionally, the step counts were lowest in the TRD group, fol-lowed by the 2CS and 4CS groups (p < 0.001). In conclusion, the continuous sprinkling (TRD) as a cooling strategy during summer showed potential negative consequences on post-summer cow welfare. The study highlights the significant influence of cooling strategies on post-summer cow welfare, emphasizing the need for considering long-term effects beyond the summer season.

Milk component ratios and their associations with energy balance indicators and serum calcium concentration in early-lactation spring-calving pasture-based dairy cows

Indirect assessment of metabolic status using milk samples provides a non-invasive and objective tool for cow-level health monitoring. Milk fat-to-protein ratio (FPR) has been commonly evaluated as an indirect measure for negative energy balance (EB) in confined dairy cows. However, milk component ratios have not been explored for their association with pasture-based cows' metabolic status. The objectives of this observational study were to 1) describe milk component ratios from 0 to 45 d postpartum, 2) evaluate the associations between milk component ratios [FPR, fat-to-lactose (FLR), protein-to-lactose (PLR)] and indicators of EB (serum β-hydroxybutyrate (BHB) concentration at 5-45 d postpartum and body condition score (BCS) change during the transition period), and 3) evaluate the associations between milk component ratios and serum Ca concentration 0-4 d postpartum in spring-calving dairy cows from pasture-based commercial farms. Milk component ratios were determined on samples collected before AM or PM milkings from 548 cows at 0-45 d postpartum (n = 970). Serum BHB and Ca determinations were performed in blood samples collected at the time of milk sample collection at 5-45 d postpartum (n = 918) and 0-4 d postpartum (n = 50), respectively; and BCS change was calculated using BCS assigned between 29 d prepartum and 45 d postpartum (n = 851). Cows' calving date, parity (1st, 2nd-3rd or ≥ 4th) and breed (Holstein-Friesian or dairy crossbred) information was obtained from the farm records. Data was analyzed by multiple linear regression. Average milk FPR, FLR and PLR were 0.70, 0.53 and 0.72, respectively. Milk FPR linearly increased while milk FLR linearly decreased postpartum both at a rate of 0.004 units per day; milk PLR decreased 0.05 units per day for the first 30 d postpartum and moderately increased afterward. Milk FPR and FLR were 0.71 and 0.52 units lower before AM than PM milking, respectively; while milk PLR was similar before AM and PM milking. Milk FPR and FLR were 0.07 to 0.10 units higher for 2nd-3rd compared with 1st and ≥ 4th parity cows. Milk PLR was 0.03 units greater for ≥ 4th compared with 2nd-3rd and 1st parity cows. Further, crossbred cows had 0.07, 0.08 and 0.03 higher milk FPR, FLR and PLR than Holstein-Friesian cows, respectively. Moderate to high P-values along with moderate to small estimated slopes and wide 95% confidence intervals were observed for the associations between milk component ratios and indicators of EB. A positive linear association was observed between milk FPR and serum Ca concentration within 4 d postpartum; milk FPR increased 0.31 units per each mmol/L increase in serum Ca concentration. Cows with low serum Ca concentration within 4 d postpartum had 0.27 units lower milk FPR compared with cows at or above the threshold (2.12 mmol/L), and tended to have 0.15 units lower milk FPR compared with cows at or above the threshold (2.00 mmol/L). In conclusion, further research is needed to reach conclusions on the association between milk component ratios determined before milking and EB indicators. The potential of milk FPR for monitoring blood Ca status warrants further investigation in early-lactation pasture-based dairy cows.

Incidence and timing of pregnancy loss following timed artificial insemination or timed embryo transfer with a fresh or frozen in vitro-produced embryo

The aim of this study was to characterize the incidence and timing of pregnancy loss from service event (timed artificial insemination or timed embryo transfer) to parturition. Lactating Holstein-Friesian cows were randomly assigned to receive either artificial insemination (AI, n = 243) or embryo transfer (ET, n = 863) with a fresh or frozen in vitro-produced blastocyst derived from oocytes collected from the ovaries of elite dairy donors (n = 14 Holstein Friesian and n = 8 Jersey) and elite beef donors (n = 21 Angus) using transvaginal ovum pick-up. In addition, oocytes were collected from the ovaries of beef heifers of known pedigree following slaughter at a commercial abattoir (n = 119). Blood samples were collected on d 7 from all cows to determine progesterone concentration and from subsets of cows on d 18 (n = 524) and d 25 (n = 378) to determine mRNA abundance of interferon-stimulated gene-15 and pregnancy-specific protein B concentration, respectively, to provide an early pregnancy diagnosis. Transrectal ultrasonography was conducted to determine pregnancy status on d 32, d 62 and d 125 after synchronized ovulation. Parturition date was recorded for all cows that reached a term delivery. The predicted probability of pregnancy (%) varied at each time point (d7, 18, 25, 32, 62, 125, parturition) depending on treatment (AI: 77.0, 60.2, 52.3, 48.8, 47.0, 44.6, 44.0; fresh ET: 100.0, 69.5, 60.3, 56.1, 48.4, 46.8, 45.5; frozen ET: 100.0, 61.7, 52.2, 41.6, 32.9, 31.8, 30.2). Irrespective of treatment, the largest proportion of pregnancy loss occurred in the period from service event (AI on d 0 or ET on d 7) to d 18, with minimal loss occurring between d 62 and parturition (AI: 1.8%, fresh ET: 1.9%, frozen ET: 3.5%). Treatment differences in the predicted probability of pregnancy per service event were detected between fresh ET vs frozen ET on d 32 and both AI and fresh ET vs frozen ET on d 62, 125 and at parturition. There was greater probability of pregnancy loss between d 32 and 62 following ET (Fresh: 11.3%, Frozen: 18.0%) than AI (4.0%). The percentage of cows that calved following transfer of a fresh embryo (45.5%) was similar to AI (44.0%), but less when a frozen embryo was transferred (30.2%). In conclusion, AI and fresh ET led to a greater probability of a cow becoming pregnant and maintaining the pregnancy to term than frozen ET. Cows that were still pregnant on d 62 had a very strong likelihood of maintaining the pregnancy to full-term parturition, irrespective of treatment. Further work is required to improve the likelihood of pregnancy establishment and reduce embryonic and fetal mortality following transfer of a cryopreserved in vitro-produced embryo.

Increasing concentrations of low SMCO swedes in the diet of dairy cows improves performance and ruminal metabolism without affecting dairy cow health

This study aimed to determine dry matter intake, ruminal fermentation, health-related blood metabolites, and production responses of early-lactation dairy cows fed two inclusion levels (30 and 45 %) of low SMCO swedes in the diet. Twelve pregnant multiparous lactating Holstein-Friesian dairy cows (24.1 ± 0.72 kg milk/d, 540 ± 7.3 kg BW, and 142 ± 3.9 DIM at the start of the study) were used in this study. Cows were randomly allocated to three dietary treatments in a replicated 3 ×3 Latin square design. The experiment lasted 63 d and was divided into three 21-d periods. Inclusion of swedes at 30 and 45 % in the diet had no effect on DMI, but increased milk, protein and fat yields, as well as CP concentration in milk. This was due to changes in VFA patterns with greater molar proportions of propionate and butyrate, as well as a greater utilisation of dietary N that was converted to microbial N. No negative effects on haematological and biochemical blood parameters, except for increased BHB concentrations. Fatty acids composition in milk was modified, with a greater proportion of saturated FA and lower n-3 FA. Overall, low SMCO swedes can be included up to 45 % in the diet of pasture fed dairy cows during winter.

Population Genetic Features of Calving Interval of Holstein-Friesian Cows Bred in Hungary.

Calving interval (CI) data (N = 37,263) from 17,319 cows born 2008-2018 in six herds were assessed. The data were made available by the National Association of Hungarian Holstein Friesian Breeders in Hungary. The effects of some genetic and environmental factors, population genetic parameters, breeding value (BV) of sires, and phenotypic and genetic trends of the CI were estimated. The GLM method was used for studying different effects on the CI. BLUP animal model was used for heritability (h2) and BV estimation. Linear regression analyses were applied for the trend calculation. The mean of the CI was 412.2 ± 2.0 days. The h2 of the CI proved to be low (0.07 ± 0.01 and 0.08 ± 0.01). There were relatively high differences among the sires in the estimated BV. Based on the phenotypic trend calculation, the CI of cows showed decreasing direction by an average of 1.80 days per year (R2 = 0.94; p < 0.01). In the case of genetic trend calculation, the average BV of sires in the CI has decreased -4.94 and -0.31 days per year (R2 = 0.91 and 0.41; p < 0.01).

A New Approach to Recording Rumination Behavior in Dairy Cows.

Rumination behavior in cattle can provide valuable information for monitoring health status and animal welfare, but continuous monitoring is essential to detect changes in rumination behavior. In a previous study validating the use of a respiration rate sensor equipped with a triaxial accelerometer, the regurgitation process was also clearly visible in the pressure and accelerometer data. The aim of the present study, therefore, was to measure the individual lengths of rumination cycles and to validate whether the sensor data showed the same number of regurgitations as those counted visually (video or direct observation). For this purpose, 19 Holstein Friesian cows equipped with a respiration rate sensor were observed for two years, with a focus on rumination behavior. The results showed a mean duration of 59.27 ± 9.01 s (mean ± SD) per rumination cycle and good agreement (sensitivity: 99.1-100%, specificity: 87.8-95%) between the two methods (sensor and visual observations). However, the frequency of data streaming (continuously or every 30 s) from the sensor to the data storage system strongly influenced the classification performance. In the future, an algorithm and a data cache will be integrated into the sensor to provide rumination time as an additional output.

Connections between Endometrial Health Status, Fatty Liver and Expression of Endocannabinoid System Genes in Endometrium of Postpartum Dairy Cows.

The endocannabinoid system (ECS) plays a crucial role in reproductive health, but its function in postpartum dairy cows remains poorly understood. This study investigated the expression patterns of ECS-related genes in the endometrium of postpartum dairy cows and their associations with endometrial health and the presence of fatty liver. Endometrial biopsies were collected from 22 Holstein Friesian cows at 4 and 7 weeks postpartum. Gene expression was analyzed using RT-qPCR, focusing on key ECS components including CNR2, MGLL, FAAH1, NAAA, NAPEPLD, PADI4 and PTGDS. The results reveal dynamic changes in ECS gene expression associated with endometritis and fatty liver. MGLL expression was significantly upregulated in cows with endometritis at 7 weeks postpartum, while NAAA expression was consistently downregulated in cows with fatty liver. CNR2 showed a time-dependent pattern in endometritis, and PTGDS expression was elevated in clinical endometritis at 4 weeks postpartum. The presence of fatty liver was associated with altered expression patterns of several ECS genes, suggesting a link between metabolic stress and endometrial ECS function. These findings indicate a potential role for the ECS in postpartum uterine health and recovery, offering new insights into the molecular mechanisms underlying reproductive disorders in dairy cows and paving the way for novel therapeutic approaches.

Response of bovine endometrium to interferon tau in the presence of lipopolysaccharide

We recently demonstrated that conceptus-derived interferon tau (IFNT), responsible for maternal recognition in cattle, acts on the uterus in a dose- and time-dependent manner by upregulating key interferon-stimulated genes (ISGs) in the endometrium. In high producing dairy cows, postpartum uterine infection is a major factor influencing fertility and pregnancy outcome. Lipopolysaccharide (LPS), an endotoxin of Gram-negative bacteria such as Escherichia coli, generates an altered uterine environment by inducing excessive inflammation at the maternal-conceptus interface. Thus, we aimed to investigate whether the endometrial response to IFNT is altered in the presence of LPS. Endometrial explants were isolated from uteri collected at a local abattoir from Holstein Friesian cows (n = 8) during the mid-luteal stage of the estrous cycle, and cultured in RPMI medium for 24 h in 5 % CO2 in humidified air without (control), or with IFNT (100 ng/mL), a single Day 15 conceptus, LPS (1 μg/mL), both IFNT and LPS, or both a Day 15 conceptus and LPS. Incubation with IFNT and a Day 15 conceptus up-regulated (P < 0.05) well-known classical ISGs (ISG15, OAS1, MX1 and MX2) as well as other candidate ISGs (CMPK2, IFI35, TRIM38 and TNFSF10) and down-regulated expression of IL1B in endometrial explants. Incubation with LPS increased (P < 0.05) abundance of NFKB1 (a key transcription factor involved in inflammatory and immune response), TNFA, IL1B and IL6 (pro-inflammatory cytokines), IL10 (anti-inflammatory cytokine), IL8, CXCL1, CXCL3 and CCL2 (chemokines), and, to a lesser extent, classical ISGs in endometrial explants. However, LPS did not alter endometrial response to IFNT, irrespective of IFNT concentration (1, 10 or 100 ng/mL). Results suggest that the expression of ISGs, up-regulated by conceptus-derived IFNT, is not altered in the endometrium in the presence of LPS; however, the increased expression of inflammation-related genes induced by LPS indicate an altered endometrial immune response that may be associated with compromised pregnancy establishment or pregnancy failure.

Effects of partial or full replacement of soybean meal with urea or coated urea on intake, performance, and plasma urea concentrations in lactating dairy cows.

We expected mitigation of the hypophagic effects of urea (U) with a coated urea (CU) product that aimed to partially shift urea supply to the post-ruminal gastrointestinal tract. Ruminal release and post-ruminal digestibility of CU was evaluated in vitro, followed by a randomised complete block experiment (54 Holstein-Friesian cows; 177 ± 72 days in milk). Soybean meal (SBM) was partially (PR) or fully (FR) replaced on an isonitrogenous basis by beet pulp and U or CU. Urea sources were included at 12 (U-PR, CU-PR) and 19 (U-FR, CU-FR) g/kg dietary dry matter (DM). Hypophagic effects were similar for U-PR and CU-PR (-11% vs. -7%), and for U-FR and CU-FR (-13% vs. -12%) compared with SBM (average 25.8 kg DM intake/d). Compared with SBM, U-PR and CU-PR reduced yields of milk (-8%) and protein (-12%), U-PR reduced yield of fat (-9%) and fat- and protein-corrected-milk (FPCM; -9%), and CU-PR tended to reduce FPCM yield (-5%). Compared with SBM, U-FR and CU-FR respectively reduced yields of milk (-21%, -22%), protein (-25%, -26%), fat (both -14%), lactose (-20%, -21%), and FPCM (-17%, -19%), and lowered N (-15%, -12%) and feed (-8%, trend, -9%) efficiency. Human-edible protein efficiency approximately doubled with U-PR and CU-PR and approximately tripled with U-FR and CU-FR compared with SBM. Milk composition and plasma urea concentration were similar between U and CU, except for a trend for a greater plasma urea concentration with U-PR compared with CU-PR. Dry matter intake patterns differed for CU-PR compared with U-PR and for CU-FR compared with U-FR, suggesting effects of urea release rate or location on feeding behaviour. Overall, replacing SBM with U or CU reduced DM intake and milk production and affected nutrient efficiencies. Coated urea influenced DM intake pattern but did not affect total DM intake or milk production compared with U.

Structural Characterization and Abundance of Sialylated Milk Oligosaccharides in Holstein Cows during Early Lactation.

Among other bioactive molecules, milk contains high amounts of sialylated milk oligosaccharides (MOs) that influence numerous processes in the offspring. For instance, sialylated MOs inhibit the invasion of pathogens and positively influence the gut microbiome to support the optimal development of the offspring. For these reasons, sialylated MOs are also used in infant formula as well as food supplements and are potential therapeutic substances for humans and animals. Because of the high interest in sialylated bovine MOs (bMOs), we used several analytical approaches, such as gas and liquid chromatography in combination with mass spectrometry, to investigate in detail the profile of sialylated bMOs in the milk of Holstein Friesian cows during early lactation. Most of the 40 MOs identified in this study were sialylated, and a rapid decrease in all detected sialylated bMOs took place during the first day of lactation. Remarkably, we observed a high variance within the sialylation level during the first two days after calving. Therefore, our results suggest that the content of sialylated MOs might be an additional quality marker for the bioactivity of colostrum and transitional milk to ensure its optimized application for the production of milk replacer and food supplements.

Early prediction of milk yield from Holstein-Friesian cow lactation in Querétaro, Mexico

Objective: To obtain a machine learning (ML) model to predict the milk yield adjusted to 305 d (MY305) from the same lactation period. Design/methodology/approach: A database of test days (TD) was used, made up by 11,892 records of daily milk production from cows with more than 150 days in milk (DIM), from 19 barns in Querétaro, Mexico. The milk production was standardized to specific DIMs (5, 10, 20, 30 and 40) and estimations of MY305 were obtained with these, using ML models. The following were incorporated as explicative variables of the herd: month of birth of the cow, month of start of lactation, number of lactation, number of days for three daily milking events, and the two first linear scores of somatic cells. Results: The best goodness of fit was achieved with ensemble models, obtaining a deviance of 1503584 in the training with 80% of data chosen randomly, while with 20% of the data reserved to evaluate the deviance model it was 1576776. The rate between data observed and predictions of MY305 of the ensemble models had a coefficient of determination of r2 = 0.79 and RMSE of 1256. In the best individual model (deviance of 2281420) of ‘deep learning’ type, the most important variables were daily milk production of 30, 10, 5 and 20 DIM (19.9, 16.6, 16.2 and 12.8%, respectively). Limitations on study/implications: The value of RMSE is high, although the TD databases are generated systematically and usually there are not many barns represented. Findings/conclusions: For the database examined, milk production in the early phase of lactation together with a set of automatic learning models resulted in an adequate prediction of MY305.

The Influence of Selected Environmental Factors on the Number of Somatic Cells in Cistern and Alveolar Milk of Polish Holstein-Friesian Cows.

The aim of the study was to evaluate the influence of the milking phase on somatic cell count (SCC) in milk obtained from the cisternal and alveolar parts of udders of selected Polish Holstein-Friesian cows. The study also assessed the impact of other genetic and environmental factors on SCC variability in cisternal and alveolar milk, including: the individual cow, lactation stage, age of cow, production level, milking speed, fat-to-protein ratio, and milking type. The research included 15 cows of Polish Holstein-Friesian breed at different ages, lactation stages, and with varying daily milk yield. A total of 210 milk observations were conducted, including 105 for 1 min milking and 105 for 8 min milking. The results obtained in the study indicated that milk obtained during two different milking phases exhibited similar SCC levels (F for LOGSCC = 0.79). The average actual SCC in milk produced by 15 cows in 105 observations for 1 min milking was 219,000 cells/mL, while for 8 min milking it was 229,000 cells/mL. The results were inconclusive, suggesting that SCC in cisternal and alveolar milk must be influenced by factors other than the milking phase. The analysis of variance conducted for this purpose provided the basis for stating a highly statistically significant effect of the individual cow (F for LOGSCC = 147.9), lactation stage (F for LOGSCC = 54.64), age of cow (F for LOGSCC = 12.39), daily production level (F for LOGSCC = 34.49), milking speed (F for LOGSCC = 17.56), and fat-to-protein ratio (F for LOGSCC = 22.99) on the variability of characteristics defining SCC in milk. In summary, SCC is characterized by high variability, influenced by a range of environmental and genetic factors such as the individual cow, lactation stage, age of cow, milking speed, and dietary fat-to-protein ratio. The influence of milking phase (1 min or 8 min) and milking type (morning or evening) should be considered inconclusive based on the entire population studied. For half of the cows, SCC in cisternal milk was higher than in alveolar milk, while for the other half, the situation was reversed. Further observations are required to confirm the hypothesis regarding the extent to which cows' immunological response to bacterial infections is concentrated in the cisternal or alveolar part of the udder under national environmental conditions.

Efficiency of Utilizing Bulls with High Immune Response (HIR) in Terms of Reproductive Traits of PHF Cows.

Reproductive traits in dairy cattle are crucial for herd productivity and profitability. This study investigates the influence of relatedness to high immune response (HIR) Immunity+ sires on reproductive performance indicators in Polish Holstein-Friesian cows. A total of 5094 cows were analyzed, categorized based on their relatedness to HIR Immunity+ sires, and assessed for various reproductive parameters, including age at first insemination, gestation length, days open, calving interval, and calving ease. The results showed that the level of relatedness to HIR Immunity+ sires influenced certain reproductive traits, such as service period, gestation length, and age at first and second calving. Additionally, cows related to HIR Immunity+ sires exhibited a higher frequency of twin pregnancies and more complicated births. While some benefits were observed in certain reproductive traits among cows related to HIR Immunity+ sires, such as reduced age at first insemination and shortened gestation length, the overall impact on reproductive efficiency remains inconclusive. Further studies are needed to fully elucidate the effects of using semen from HIR Immunity+ sires on reproductive performance in dairy cattle.

Mammary fat globules as a source of mRNA to model alterations in the expression of some milk component genes during lactation in bovines

BackgroundThe milk's nutritional value is determined by its constituents, including fat, protein, carbohydrates, and minerals. The mammary gland's ability to produce milk is controlled by a complex network of genes.Thereby, the fat, protein, and lactose synthesis must be boost in milk to increase milk production efficiency. This can be accomplished by fusing genetic advancements with proper management practices. Therefore, this study aimed to investigate the association between the Lipoprotein lipase (LPL), kappa casein CSN3, and Glucose transporter 1 (GLUT1) genes expression levels and such milk components as fat, protein, and lactose in different dairy breeds during different stages of lactation.MethodsTo achieve such a purpose, 94 milk samples were collected (72 samples from 36 multiparous black-white and red-white Holstein–Friesian (HF) cows and 22 milk samples from 11 Egyptian buffaloes) during the early and peak lactation stages. The milk samples were utilized for milk analysis and genes expressions analyses using non- invasive approach in obtaining milk fat globules (MFGs) as a source of Ribonucleic acid (RNA).ResultsLPL and CSN3 genes expressions levels were found to be significantly higher in Egyptian buffalo than Holstein–Friesian (HF) cows as well as fat and protein percentages. On the other hand, GLUT1 gene expression level was shown to be significantly higher during peak lactation than early lactation. Moreover, lactose % showed a significant difference in peak lactation phase compared to early lactation phase. Also, fat and protein percentages were significantly higher in early lactation period than peak lactation period but lactose% showed the opposite pattern of Egyptian buffalo.ConclusionTotal RNA can be successfully obtained from MFGs. The results suggest that these genes play a role in glucose absorption and lactose synthesis in bovine mammary epithelial cells during lactation. Also, these results provide light on the differential expression of these genes among distinct Holstein–Friesian cow breeds and Egyptian buffalo subspecies throughout various lactation phases.

Exploring the impact of sequence context on errors in SNP genotype calling with whole genome sequencing data using AI-based autoencoder approach.

A critical step in the analysis of whole genome sequencing data is variant calling. Despite its importance, variant calling is prone to errors. Our study investigated the association between incorrect single nucleotide polymorphism (SNP) calls and variant quality metrics and nucleotide context. In our study, incorrect SNPs were defined in 20 Holstein-Friesian cows by comparing their SNPs genotypes identified by whole genome sequencing with the IlluminaNovaSeq6000 and the EuroGMD50K genotyping microarray. The dataset was divided into the correct SNP set (666 333 SNPs) and the incorrect SNP set (4 557 SNPs). The training dataset consisted of only the correct SNPs, while the test dataset contained a balanced mix of all the incorrectly and correctly called SNPs. An autoencoder was constructed to identify systematically incorrect SNPs that were marked as outliers by a one-class support vector machine and isolation forest algorithms. The results showed that 59.53% (±0.39%) of the incorrect SNPs had systematic patterns, with the remainder being random errors. The frequent occurrence of the CGC 3-mer was due to mislabelling a call for C. Incorrect T instead of A call was associated with the presence of T in the neighbouring downstream position. These errors may arise due to the fluorescence patterns of nucleotide labelling.

Multispecies pasture diet and cow breed impacts on milk composition and quality in a seasonal spring-calving dairy production system

In recent years, there has been significant emphasis on the composition of pasture-based cow feed and the potential benefits of incorporating multispecies swards to improve sustainability and biodiversity. This study compared the effects of a conventional perennial ryegrass (PRG) monoculture supported by high chemical nitrogen (N) usage with a low chemical N application multispecies sward system (MSS) on the composition and quality of milk across lactation using spring-calving Holstein-Friesian (HF) and Jersey Holstein-Friesian (JFX) cows. Bulk milk samples (n = 144) were collected from each group at morning and evening milking on a weekly basis (n = 36) throughout lactation and analyzed for gross composition and physico-chemical properties. Cow breed had a significant impact on milk profile, with milk from HF cows having significantly smaller milk fat globule (MFG) size, higher instability index values, higher yield, and lower total solids levels, compared with JFX cows. Notably, HF cows had increased milk total solids and fat levels when fed on MSS, as opposed to the PRG-fed HF cows. Feeding MSS pasture increased creaming velocity values in mid and late lactation, and resulted in similar milk gross composition to PRG. In comparison to PRG, MSS-fed groups showed significantly increased total solids yield, including higher levels of protein and fat yield. In late lactation, MSS feeding was associated with reduced MFG size. All physicochemical properties studied (MFG size, creaming velocity, instability index) showed decreasing values from early to late lactation stage. Overall, these findings demonstrate the significant effects of cow diet, breed and stage of lactation on compositional and physico-chemical characteristics of milk, with important implications for milk processing and dairy product quality.

Proteomic profile in plasma as a biomarker of pregnancy in cows.

Pregnancy has its own protein dynamics, reflecting the hormonal profile. Quantitative and qualitative changes in plasma protein profile may provide useful information about this condition. Any alterations may be a signal heralding clinical or subclinical pathology. The objective of our study was to compare the plasma protein profile between selected months of pregnancy in cows for a better understanding gestation course. For this purpose, we collected blood from healthy pregnant (n = 30; n = 6 for each pregnancy stage) and non-pregnant (C; n = 6) Holstein-Friesian cows during a routine veterinary examination. Collected samples were selected according to pregnancy month (first, second, third, sixth, and ninth), prepared, and separated by two-dimensional electrophoresis. The Delta-2D program compared and statistically evaluated scanned gel images from the appropriate months. The mean volume of the spots was considered. The MALDI TOF/TOF spectrometer was used to identify statistically significant proteins. There were 11 distinct proteins found, including peptidyl-prolyl cis-trans isomerase F, oligoribonuclease, and PRELI domain-containing protein 3B (all of them have the lowest abundance in the C group), alpha-1B-glycoprotein, L-gulonolactone oxidase, hemopexin (first month with higher abundance than control), alpha-2-HS-glycoprotein (significantly higher abundance in the first month than in remaining groups), ermin (absent in the first month and lower abundance in the third and sixth months than in the remaining groups and control), endophilin-A2 (significant differences between the control and the second, third, sixth, and ninth months), apolipoprotein A-I (significant difference between control and the first and sixth months), alpha-1-antiproteinase (significant difference between control and the ninth month). The study demonstrated the distinctions between plasma protein composition and alterations during the pregnancy course which may potentially serve as diagnostic tools.

Potential relationships between apelin and metabolic-associated indices in transition dairy cows.

Metabolic disorders pose significant challenges in transition dairy cows. Numerous parameters have been investigated in this context, and apelin has recently emerged as a potential metabolic indicator. Accordingly, this study aimed to assess the associations between this hormone and other metabolic parameters. Twenty-two adult Holstein-Friesian dairy cows, 21 days before their expected calving date, were selected for blood sampling and serum separation at four time points: 21 and 10 days before calving and 10 and 21 days after parturition. Serum concentrations of apelin, leptin, insulin, cortisol, T3, T4, non-esterified fatty acids, glucose, total protein, albumin, globulin, aspartate aminotransferase, alanine transaminase, triglycerides, cholesterol, high, low and very low-density lipoproteins, total, direct and indirect bilirubin were measured in these samples. Surrogate indices for insulin resistance, body condition score, and milk production were also evaluated. Throughout the transition period, a significant increase in apelin levels was observed. Various models were employed to identify associations between apelin and the studied metabolic parameters. Notably, significant correlations between apelin and Leptin, Insulin, Cortisol, T3, T4, NEFA, Cholesterol, LDL, VLDL, Total Protein, Albumin, Globulin, Total Bilirubin, Direct Bilirubin and Indirect Bilirubin were observed, with some being immediate while others developed over time. These findings indicate a mutual influence between apelin and specific metabolic indices. Changes in any component of the metabolic profile at one stage can lead to alterations in apelin levels in subsequent stages. The correlations uncovered between apelin and other components of the metabolic profile in transitioning dairy cows offer valuable insights, contributing to a better understanding of the potential effects of apelin on the studied indicators and vice versa.