Effects of changing diet on rumen fermentation parameters, bacterial community composition, and transcriptome profiles were determined in three rumen-cannulated Holstein Friesian cows using a 3 × 4 cross-over design. Treatments include HF-1 (first high-forage diet), HC-1 (first high-concentrate diet), HC-2 (succeeding high-concentrate diet), and HF-2 (second high-forage diet as a recovery period). Animal diets contained Klein grass and concentrate at ratios of 8:2, 2:8, 2:8, and 8:2 (two weeks each), respectively. Ammonia-nitrogen and individual and total volatile fatty acid concentrations were increased significantly during HC-1 and HC-2. Rumen species richness significantly increased for HF-1 and HF-2. Bacteroidetes were dominant for all treatments, while phylum Firmicutes significantly increased during the HC period. Prevotella, Erysipelothrix, and Galbibacter significantly differed between HF and HC diet periods. Ruminococcus abundance was lower during HF feeding and tended to increase during successive HC feeding periods. Prevotellaruminicola was the predominant species for all diets. The RNA sequence analysis revealed the keratin gene as differentially expressed during the HF diet, while carbonic-anhydrase I and S100 calcium-binding protein were expressed in the HC diet. Most of these genes were highly expressed for HC-1 and HC-2. These results suggested that ruminal bacterial community composition, transcriptome profile, and rumen fermentation characteristics were altered by the diet transitions in dairy cows.

Seasonal effects on rumen microbiome and enteric methane (CH₄) emissions are poorly documented. In this study, 6 Holstein and 6 Jersey steers were fed the same total mixed ration diet during winter, spring, and summer seasons under a 2 × 3 factorial arrangement for 30 days per season. The dry matter intake (DMI), rumen fermentation characteristics, enteric CH₄ emissions and rumen microbiota were analyzed. Holstein had higher total DMI than Jersey steers regardless of season. However, Holstein steers had the lowest metabolic DMI during summer, while Jersey steers had the lowest total DMI during winter. Jersey steers had higher CH₄ yields and intensities than Holstein steers regardless of season. The pH was decreased, while ammonia nitrogen concentration was increased in summer regardless of breed. Total volatile fatty acids concentration and propionate proportions were the highest in winter, while acetate and butyrate proportion were the highest in spring and in summer, respectively, regardless of breed. Moreover, Holstein steers produced a higher proportion of propionate, while Jersey steers produced a higher proportion of butyrate regardless of season. Metataxonomic analysis of rumen microbiota showed that operational taxonomic units and Chao 1 estimates were lower and highly unstable during summer, while winter had the lowest Shannon diversity. Beta diversity analysis suggested that the overall rumen microbiota was shifted according to seasonal changes in both breeds. In winter, the rumen microbiota was dominated by Carnobacterium jeotgali and Ruminococcus bromii, while in summer, Paludibacter propionicigenes was predominant. In Jersey steers, Capnocytophaga cynodegmi, Barnesiella viscericola and Flintibacter butyricus were predominant, whereas in Holstein steers, Succinivibrio dextrinosolvens and Gilliamella bombicola were predominant. Overall results suggest that seasonal changes alter rumen microbiota and fermentation characteristics of both breeds; however, CH₄ emissions from steers were significantly influenced by breeds, not by seasons.

Korean native goats (Capra hircus coreanae) (KNG) and Hanwoo (Bos taurus coreanae) are indigenous breeds inhabiting Korea. This study compared the in vitro rumen fermentation characteristics, dry matter (DM) degradation, and ruminal microbial communities of Korean native goats and Hanwoo steers consuming rice hay (RH) and cotton fiber (CF). The pH, ammonia-nitrogen (NH₃-N), and total volatile fatty acids (VFAs) production significantly differ (p < 0.05) across species in all incubation times. After 24 h, the pH, NH₃-N, and total VFAs production were higher in Korean native goats than in Hanwoo steers. Total gas, molar proportion of propionate, and total VFAs were higher (p < 0.05) in RH than in CF for both ruminant species. DM digestibility of both substrates were higher (p < 0.05) in Hanwoo steers than in KNG. Both treatments in KNG produced higher (p < 0.01) microbial DNA copies of general bacteria than those in Hanwoo steers. Butyrivibrio fibrisolvens and Fibrobacter succinogenes had significantly higher DNA copies under RH and CF in Hanwoo steers than in Korean native goats. B. fibrisolvens, Ruminococcus albus, and Ruminococcus flavifaciens after 24 h of incubation had a higher abundance (p < 0.05) in RH than in CF. Overall results suggested that rumen bacteria had host-specific and substrate-specific action for fiber digestion and contribute to improving ruminal functions of forage utilization between ruminant species.

Two experiments were conducted to examine eating preference of beef cattle for diets with or without the investigative enteric methane inhibitor 3-nitrooxypropanol (3-NOP). Nine beef steers were housed in individual stalls, each equipped with two feed bunks. The first experiment (Exp. 1) was conducted with a high forage diet and each animal received a diet without 3-NOP (CON) in one bunk and a diet with 3-NOP (dNOP) in the other bunk. The second study (Exp. 2) was conducted with the same animals about 6 months after Exp. 1 where a high grain diet without (CON) or with 3-NOP (dNOP) was offered. In Exp. 1, animals initially preferred CON compared with dNOP. Feed consumption from 0 to 3, 3 to 6, and 6 to 12 h after feeding was lower for dNOP compared with CON. However, dry matter intake (DMI) and feed consumption of dNOP gradually increased during Exp. 1 such that there was no preference between CON and dNOP on day 7. In Exp. 2, there was no preference for or against dNOP. Average DMI was greater for dNOP vs. CON, but interactions between diet and day for DMI and feed consumption rates indicated that daily preference between CON and dNOP was variable. In conclusion, beef steers initially detected a difference between CON and dNOP and selected in favor of CON rather than dNOP when they had not previously been exposed to 3-NOP. However, the animals rapidly acclimatized to a diet with 3-NOP (Exp. 1) and showed no eating preference between CON and dNOP within 7 days. This lack of preference was maintained throughout Exp. 2 when the same animals were fed a high grain diet.

The objective of the present study was to identify changes in fecal microbiota and predict the functional features of healthy calves and those infected with rotavirus over time. Six Holstein calves (average body weight 43.63 ± 1.19 kg, age-matched within 5–7 d) were randomly selected and distributed into two groups which contained three calves each. Fecal samples were taken 3 days before inoculation and on days 1 and 7 post-inoculation. The 16S rRNA gene amplicon sequencing was performed. Bacterial diversity tended to decrease in the rota group, as indicated by the alpha (evenness, p = 0.074 and Shannon, p = 0.055) and beta (Bray–Curtis dissimilarity, p = 0.099) diversity at 1 day post-inoculation. Differences in the bacterial taxa between healthy and rota-infected calves were detected using a linear discriminant analysis effect size (LDA > 2.0, p < 0.05). Rota calves had a higher abundance of certain bacterial taxa, such as Enterococcus, Streptococcus, and Escherichia-Shigella, and a lower abundance of bacteria that contribute to the production of short-chain fatty acids, such as Alistipes, Faecalibacterium, Pseudoflavonifractor, Subdoligranulum, Alloprevotella, Butyricicoccus, and Ruminococcus, compared to the healthy calves. The observed changes in the fecal microbiota of the rota-infected group compared to the healthy group indicated potential dysbiosis. This was further supported by significant differences in the predicted functional metagenomic profiles of these microbial communities. We suggest that calves infected with bovine rotavirus had bacterial dysbiosis, which was characterized by lower diversity and fewer observed genera than the fecal microbiota of healthy calves.

This study investigated the impact of feeding systems on the determination of enteric methane (CH₄) emissions factor in cattle. Real-time feed intake data, a crucial CH₄ conversion rate (Y_m value) parameter, were obtained using a roughage intake control (RIC) unit within a smart farm system. Greenhouse gas (GHG) emissions, including CH₄ and carbon dioxide (CO₂), from Holstein steers were monitored using a GreenFeed (GF) 344 unit. The results revealed satisfactory body weight (383 ± 57.19 kg) and daily weight gain (2.00 ± 0.83 kg), which are crucial factors. CO₂ production exhibited positive correlations with the initial body weight (r = 0.72, p = 0.027), feed intake (r = 0.71, p = 0.029), and feed conversion ratio (r = 0.69, p = 0.036). Five different emission factors (EFs), EF_A (New Equation 10.21A) and Equation 10.21 (EF_B, EF_C, EF_D, and EF_E), were used for GHG calculations following the Intergovernmental Panel on Climate Change (IPCC) Tier 2 approach. The estimated CH₄ EFs using these equations were 69.91, 69.91, 91.79, 67.26, and 42.60 kg CH₄/head/year. These findings highlight the potential for further exploration and adoption of smart farming technology, which has the potential to enhance prediction accuracy and reduce the uncertainty in Y_m values tailored to specific countries or regions.