MATERIALS AND METHODS
Animals and experimental design
This study was conducted at the Ruoergai Yak Breeding Ranch No. 1 (33.58°N, 102.95°E) in Sichuan, China. The average temperature during the experimental period was 15.8°C, the average rainfall was 110–120 mm, and the average elevation was 3,406 m.
A total of twenty-four healthy male yaks (with the same genetic background; age = 5±0.5 years old, BW = 217.62±5.74 kg) were selected, dewormed prior to the experiment, and randomly assigned to two groups. The yaks were randomly assigned into two experimental groups, each containing 12 individuals as biological replicates. The sample size was chosen based on the expected effect size, ensuring sufficient statistical power to detect significant differences in key variables such as BW gain, meat quality, and nutritional composition. The yaks were randomly assigned into two experimental groups, with each group containing 12 individuals as biological replicates. The grazing group (G): yaks were grazed on natural pasture without supplements. The grazing and supplementary feeding group (GS): yaks were grazed on natural pastures and fed supplementary concentrate mix after grazing. The amount of concentrate mix was adjusted according to BW, with daily intake monitored by recording feed offered and refusals. Adjustments were made weekly to ensure nutritional requirements were met.
The supplementary concentrate mix was formulated on a dry matter (DM) basis and primarily consisted of 63.5% corn grain, 11.5% rapeseed meal, 10% wheat bran, 8% cottonseed meal, 3.5% soybean meal, 1.5% calcium hydrogen phosphate, 1% sodium chloride, and 1% mineral–vitamin premix. Its nutrient composition included 91% DM, 17.1% crude protein (CP), 2.7% ether extract (EE), 29.4% neutral detergent fiber (NDF), 16.7% acid detergent fiber (ADF), 0.7% calcium (Ca), and 0.4% phosphorus (P). As the experiment was conducted in July, the forage quality was at its peak. The nutrient composition of the alpine pasture included 91.9% DM, 9.7% CP, 2.2% EE, 54.4% NDF, 34.5% ADF, 1.6% Ca, and 0.5% P. All yaks had free access to grazing and water throughout the study period.
Sample collection
Feed
At the beginning and end of the experiment, 50 g of experimental feed was homogenized, dried at 60°C for 48 h, pulverized using a high-speed grinder, and passed through a 2 mm sieve. The processed sample was then immediately vacuum-sealed and frozen at −20°C for subsequent chemical analysis.
Body weight
The experimental yaks were weighed at the start, mid-point (30 d), and end (60 d) of the experiment to calculate the average daily gain (ADG) for each individual.
Meat
At the end of the experiment, all yaks were humanely slaughtered by certified technicians in accordance with the relevant regulations outlined in the Animal Epidemic Prevention Law and the Food Safety Law of the People’s Republic of China, at a licensed commercial slaughterhouse certified by local authorities, ensuring compliance with local animal welfare standards. The yaks were fasted for 13 h prior to slaughter to ensure a standardized pre-slaughter condition and minimize the influence of digestive contents on meat quality. Longissimus dorsi (LD) samples were obtained from the 12 to 13th intercostal space on the left side of the carcass immediately post-slaughter. LD sample was divided into three 3-cm-thick sub-samples. One sub-sample was stored in a plastic container wrapped with polyethylene film for the evaluation of meat color, pH, water-holding capacity, and shear force, while another sub-sample was designated for shelf-life assessment. The storage conditions were closely monitored using calibrated temperature sensors to ensure consistent environmental control. The third sub-sample was vacuum-packed and frozen at −20°C for long-term biochemical analysis. Freezing at this temperature effectively prevents enzymatic and microbial activity, preserving the integrity of the sample for subsequent tests.
Faece
50 g fecal samples were collected on the day before slaughter. Samples were immediately transferred to a portable cooler with ice packs and transported to the laboratory within 2 h. They were then stored at −20°C for subsequent microbiological and chemical analyses.
Determination of nutrients in feed, meat and faeces
Meat and fecal samples were dried at 65°C for 72 h using a forced-air drying oven and ground to pass through a 1 mm sieve using a Wiley mill. DM was determined by drying feed samples at 105°C for 24 h in a drying oven. Organic matter content was measured after combustion at 550°C for 8 h in a muffle furnace, ensuring complete oxidation. Total N content was analyzed using the micro-Kjeldahl method, involving digestion with concentrated sulfuric acid and copper sulfate as a catalyst, followed by steam distillation and titration with 0.01 N HCl. CP was calculated as N×6.25, with calibration performed using a N standard (ammonium sulfate). NDF and ADF were determined using the AOAC method [
9]. Samples were sequentially treated with neutral detergent solution and acid detergent solution, followed by ashing at 550°C to correct for ash content. EE content was measured using a Soxhlet extraction system with petroleum ether (boiling range: 40°C–60°C) at 90°C for 1 h. All analyses were conducted in triplicate to ensure accuracy and reproducibility, with standard materials and procedural blanks included for quality control.
Meat quality determination
For pH measurement, each sample’s pH was determined at 45 min and 24 h post-slaughter at 4°C using a portable pH meter with a glass electrode (model XYZ). The pH meter was calibrated with standard buffer solutions (pH 7.0) prior to each use. Meat color was assessed at the same time using a CR-400 colorimeter, recording L* (lightness), a* (redness), and b* (yellowness). Samples were exposed to air for 30 min at 4°C before recording L*, a*, and b* values at three locations per sample. Cooking loss was measured as the percentage weight difference before and after cooking samples in an 80°C water bath for 30 min, following Chinese National Standard NY/T 821-2019. Drip loss was calculated from the weight difference of LD muscle samples stored at 4°C on days 1 and 6, with samples suspended in airtight containers to prevent reabsorption. Shear force was determined using a Warner-Bratzler shear force device at a crosshead speed of 2 mm/s on 1 cm×1 cm×3 cm strips, aligned parallel to the muscle fibers. Each measurement was performed in triplicate, with mean values used for analysis.
Shelf-life determination
Shelf life of meat was determined by measuring total volatile basic nitrogen (TVB-N) content using an automatic Kjeldahl nitrogen analyzer (model K9840; Hanon). The analyzer was calibrated with ammonium sulfate standards prior to each batch. At each time point (24, 48, 72, 96, and 120 h), independent samples were analyzed in triplicate to avoid cross-contamination. Samples were homogenized, and 10 g aliquots were treated with magnesium oxide and distilled water before distillation. Volatile nitrogen in the distillate was titrated with 0.01 N sulfuric acid, and results were expressed as mg TVB-N per 100 g of meat. Samples were stored in a ventilated cold room maintained at 4°C with 85% relative humidity to simulate typical refrigerated conditions. The specific detection procedure followed Bai et al [
10], which involved standard Kjeldahl nitrogen distillation and titration techniques. All measurements were performed in triplicate, with mean values and standard errors reported.
Faeces volatile fatty acids in the faeces
The concentrations of fecal volatile fatty acids (VFA) were determined according to Liu et al [
11]. The analysis was performed using gas chromatography equipped with a capillary column (AT-FFAP; 30 m×0.32 mm×0.5 μm).
Amino acids in the longissimus dorsi muscle
Based on the method described by Vopálenský et al [
12], the amino acid (AA) content was determined using an automatic AA analyzer (model L-8900; Hitachi). This method relied on the colorimetric reaction between AAs and the oxidizing agent ninhydrin. Amino acids in the DM of the samples were quantified after acidic hydrolysis in 6 N HCl for 24 h under controlled conditions.
Fatty acids in the longissimus dorsi muscle
Determination of the absolute content of fatty acids (FAs) in yak LD: (1) Lipids were extracted from yak LD using Soxhlet extraction with chloroform–methanol (2:1, v/v) three times and dried under nitrogen. (2) Extracted lipids were hydrolyzed to free FAs using a sodium hydroxide–methanol solution. (3) FAs were esterified with a boron fluoride–methanol solution to form fatty acid methyl esters (FAME). FAMEs were extracted with n–heptane, dried under nitrogen, redissolved, and analyzed using gas chromatography. Analytes were identified by comparing retention times with standards. Absolute FA content was calculated from FAMEs, and relative content was determined as:
Fecal microorganism DNA extraction and polymerase chain reaction amplification
Microbial DNA was extracted from feces using the E.Z.N.A. Soil DNA Kit (Omega Bio-tek). DNA quality was verified via agarose gel electrophoresis and quantified using NanoDrop 2000. The V3-V4 region of the 16S rRNA gene was amplified with barcoded primers (338F and 806R). Polymerase chain reaction conditions included 27 cycles of denaturation, annealing, and extension, with products purified using a gel extraction kit and quantified with Qubit 4.0. Sequencing data were processed via fastp and FLASH for QC, merging, and filtering. DADA2 in QIIME2 was used for denoising, and taxonomy was assigned using the SILVA database (v138). PICRUSt2 was employed to predict functional pathways based on 16S rRNA data.
Statistical analysis
The experimental data in this study were statistically analyzed using SPSS 26.0 (IBM). For comparisons between groups, an independent-samples t-test was used. Growth performance data with repeated measurements were analyzed using a linear mixed-effects model, in which group and time were treated as fixed effects, and individual yak was treated as a random effect. Time was also specified as the repeated measure. The individual yak was considered the experimental unit. All data are presented as means±standard error of the mean (SEM). Statistical significance was set at p<0.05. In addition, effect sizes were calculated using Cohen’s d, defined as the difference between the two group means divided by the pooled standard deviation.
DISCUSSION
One of the objectives of this study was to examine the effects of different farming modes on growth performance, meat quality, and fecal status of yaks. Growth performance is an important indicator reflecting the level of livestock production [
13]. Chikwanha et al [
14] reported that livestock growth and slaughter performance improve with increased dietary nutrient levels. Wang et al [
7] found that higher dietary concentrate-to-coarse ratios improved growth and slaughter performance in Tibetan sheep. In this study, the nutritional composition (e.g., CP and EE) of supplementary feed was significantly better than that of natural forage, and the nutrient intake of the yaks in GS group was significantly higher than that of yaks in G group. This suggests that when the daily nutrient intake of livestock is sufficient, they can better convert the excess nutrients into growth and slaughter performance beyond the basic metabolism needed to maintain daily activities.
Tenderness, a key beef quality characteristic, is measured by shear force, with lower values indicating better tenderness [
15]. Nuernberg et al [
16] showed that animals fed a concentrate mix have lower shear force values compared to those fed grass-based diets. Keller et al [
17] also observed that concentrate-fed cattle exhibited higher intramuscular fat (IMF) levels, which could enhance meat tenderness by improving fat deposition in muscle tissue, making the meat softer and easier to chew. This finding is consistent with our study, where yaks supplemented with concentrate mix exhibited significantly lower shear force compared to the yaks in G group. This suggests that concentrate mix supplementation positively affects meat tenderness. The improvement in shear force may be attributed to the enhanced deposition of IMF, as the protein, fat, and other energy-rich components of the concentrate mix may promote the production of glycerol and FAs, leading to greater IMF accumulation in muscle tissue and a corresponding decrease in shear force.
Meat color is a crucial indicator of meat’s appearance and product value. Lipid oxidation, closely associated with meat color, generates free radicals that increase ferrimyoglobin formation, thereby reducing color stability [
18]. In this study, concentrate mix supplementation elevated a* and b* values without altering the L* value. This could be attributed to the enhancement of muscle antioxidant function by vitamin E and flavonoids in the feed, which increase antioxidant activity. Vitamin E mitigates lipoperoxide formation and inhibits oxidation of PUFAS. Carotenoids, which deposit in fat tissue, enhance the yellow hue of meat [
19].
TVB-N is a key indicator of meat freshness, with higher levels indicating shorter shelf life due to bacterial proliferation [
20]. In this study, yaks in the GS group had a longer shelf life than the yaks in G group by approximately 3.4 h. This aligns with Wood et al [
21], who found that feed composition influences meat quality and shelf life. The addition of concentrate mix likely altered the FAs composition, increasing UFA and reducing saturated ones, thus improving oxidative stability. In addition, concentrates rich in antioxidants, such as vitamin E, play a crucial role in slowing the oxidation rate of beef, as antioxidants are known to inhibit lipid peroxidation [
22]. This antioxidant effect may be a key factor in the observed extension of shelf life.
The type and content of free amino acids (FAA) in muscle tissue profoundly influence its nutritional value and flavor. Higher FAA content enriches the nutritional value of food. For instance, Glutamate (Glu) and Cysteine (Cys) are essential for metabolic processes [
23,
24]. This study found increased concentrations of EAA and functional AAs (Asp, Glu) of the yaks in GS group, suggesting that supplemental concentrate mix enhances yak meat’s nutritional quality. Additionally, AAs like Asp and Glu, which participate in the Maillard reaction, are crucial for meat flavor [
25]. Glycine enhances meat-like taste by reacting with reducing sugars [
26]. Consistent with the findings of Zhang et al [
27], our study also demonstrated that the supplementation of concentrate mix significantly increased the concentration of AAs in yak meat. However, unlike their findings on AA concentrations, the difference in our results lie in the higher concentration of Asp and Ile, which may be attributed to differences in the composition of the concentrate mix. The higher levels of Asp could be attributed to the increased N availability provided by the concentrate mix in the GS group, which likely supported AA synthesis. Similarly, the increased Iso concentration may reflect enhanced protein metabolism associated with the higher energy intake from supplementary feeding, improving muscle protein synthesis and AA profiles in the yak meat. The concentrate mix improved flavor-related AAs in yak muscle, enhancing marbling and taste. This suggests that concentrate mix can enhance FAA enrichment and meat quality by affecting nitrogenous compound utilization and protein conversion.
FAs in muscle significantly influence meat flavor and human health. Beef FAs are mainly classified into SFA, MUFA, and PUFA [
28]. Key SFAs in ruminant meat include myristic (C14:0), palmitic (C16:0), and stearic (C18:0) acids [
29]. Consumption of long-chain SFAs (C12:0 to C18:0) is linked to higher coronary heart disease risk. Lauric acid (C12:0) raises LDL cholesterol levels, while myristic (C14:0) and palmitic (C16:0) acids similarly affect cholesterol concentrations [
30]. Stearic acid (C18:0) is metabolized into oleic acid (C18:1 n-9), which does not adversely impact cardiovascular risk [
31]. Grass-fed beef typically has higher stearic acid levels but overall more favorable SFA composition [
32,
33]. Our study found that yaks supplemented with concentrate mix had significantly lower total SFAs compared to grass-fed yaks. MUFA has cardioprotective effects and regulates blood lipids, while PUFA reduces blood lipids, inhibits platelet aggregation, and supports growth [
25]. This study showed that concentrate mix increased MUFA and PUFA levels in yak LD muscle. Grain feeding lowers rumen pH, reducing UFAs through biohydrogenation, thus increasing MUFA production [
34]. Grass-fed beef’s lower fat content explains its lower PUFA levels [
33]. Antioxidant components in the concentrate mix, such as flavonoids and polysaccharides, may protect UFAs and enhance FA profiles in yak meat. Carbonero et al [
24] suggested that concentrate mix can improve the nutritional quality and flavor of yak meat by enhancing the FA profile, contributing to better dietary health benefits.
The interaction between pastures and grazing animals is critical for the health and sustainability of alpine grassland ecosystems. Soil, acting as the substrate for plant growth, stores essential N and P nutrients, influencing soil properties and regulating the ecological structure, function, and productivity of grasslands [
35]. Nitrogen, a limiting factor for plant and microbial growth, primarily originates from soil N supply and atmospheric deposition in the Qinghai-Tibet Plateau, with fecal reflux as a significant source [
36]. Yaks play a crucial role in the plateau’s N cycle. N in their feces can leach into the soil, influencing soil N processes, vegetation growth, and soil quality. Yang et al [
37] found that supplementing with oat hay increased litter production and fecal reflux, enhancing soil N input. Our study corroborates this, showing that concentrate mix supplementation significantly elevated N content in feces. This suggests that concentrate mix enhances N retention and processing within the digestive system, reducing N excretion per unit of feed intake and increasing N concentration in manure. Consequently, more N is made available to the soil when manure is applied, enhancing N cycling efficiency and potentially increasing plant N availability.
However, P levels in feces did not show significant changes, which may be due to the more efficient recycling of P in ruminants. Unlike N, P is less likely to be excreted in excess due to its tight regulation in the digestive system and its limited bioavailability in plant-based feeds [
38,
39]. Furthermore, while N is highly influenced by dietary supplementation, P levels tend to be more stable, as it is often recycled through the rumen and retained by the animal [
40]. This suggests that concentrate mix may not significantly alter P excretion, in contrast to its effect on N cycling. Additionally, we observed that Ca levels in feces increased with concentrate mix supplementation, potentially due to the higher mineral content in the concentrate. This suggests that dietary supplementation not only affects N cycling but also has implications for other mineral balances. Further studies are needed to explore the dynamics of P and Ca, as well as their interaction with different feed types in ruminant systems.
The microbial composition and diversity of bacteria in yak feces may be related to pasture environment, pasture quality, and species. Henderson et al [
41] concluded that the dominance of
Firmicutes and
Bacteroidetes may result from changes in diet and climate. In this study,
Firmicutes and
Bacteroidetes were the dominant bacterial groups in both yak groups, indicating their significant roles in the yak posterior gut.
Proteobacteria serve as a microbial signature of ecological dysbiosis in the gut microbiota. Shin et al [
42] reported that a high relative abundance of
Proteobacteria might cause gut inflammation. In our study, the relative abundance of
Proteobacteria was higher in yaks in GS group than in the G group. This increase may be due to the concentrate mix altering nutrient availability and pH, favoring
Proteobacteria growth. Specific compounds in the concentrate mix, such as readily fermentable carbohydrates, could promote the growth of certain bacterial groups. At the same time, grass with high fiber content may promote the growth of beneficial bacteria such as lactic acid bacteria and fiber decomposing bacteria, and inhibit the growth of some potential pathogenic bacteria such as
Proteobacteria [
41].
At the genus level, Liu et al [
43] reported that
unclassified Ruminococcaceae UCG-005 and
Lachnospiraceae were predominant in yak feces, while [
44] identified
Ruminococcaceae UCG-005 and
uncultured Bacteroides as the main bacteria. This aligns with our findings, where
Ruminococcaceae_UCG_005 and
uncultured_bacterium were predominant. Differences from Liu et al [
43] may relate to breed, age, and diet.
Ruminococcaceae_UCG_005 is involved in cellulose degradation and starch digestion, contributing to fiber breakdown and feed efficiency [
45].
Rikenellaceae_RC9_gut_group promotes gut health by inhibiting harmful bacteria and supporting beneficial ones.
Alistipes, which decompose cellulose and complex carbohydrates to generate short-chain FAs, were more abundant in the yaks in GS group, potentially explaining their higher FA levels [
45].
Family_XIII_UCG-001 is a bacterium associated with fiber degradation and short-chain FA production. Its abundance typically was increased with the amount of fiber, especially in relation to the fermentable components in pasture [
46]. Therefore, in this study, the higher abundance of
Family_XIII_UCG-001 in the G group may be due to the animals primarily obtaining fiber from natural pasture, ensuring sufficient fiber for this bacterial group to utilize.
Erysipelatoclostridium with other bacteria promotes the breakdown of complex carbohydrates, aiding nutrient absorption and maintaining intestinal integrity [
47]. In this study, the GS group exhibited a higher abundance of
Erysipelatoclostridium compared to the G group. This discrepancy could be attributed to the additional supplementation in the GS group. Furthermore, the higher N availability in the GS group might have supported the growth of nitrogen-utilizing bacteria, promoting a more efficient nutrient absorption process.
Tuzzerella was associated with nitrogen metabolism, particularly in promoting the utilization of proteins and AAs in the body. Its activity supports effective nutrient absorption and enhances metabolic health by improving fiber degradation and N utilization in ruminants [
48,
49]. In this study,
Tuzzerella was found to be significantly more abundant in the GS group compared to the G group. This increased abundance was likely due to the supplementation of concentrate mix in the GS group, which provided additional fermentable carbohydrates and N. The availability of these nutrients likely supported the growth of
Tuzzerella and other fiber-degrading bacteria, thereby enhancing fiber digestion.
Clostridium ferments complex carbohydrates and fibers into VFA like acetate and propionate, key energy sources for cattle. Pinnell et al [
50] reported a higher relative abundance of the genus
UCG-009 in the gut of cattle with high feed efficiency. Our results showed that the content of
UCG-009 bacteria in the yaks in GS group was significantly higher than that in the yaks in G group, which was consistent with the growth performance data.
In this study, no significant differences were observed in the fecal diversity indices. This might have been attributed to the stability of the gut microbial community, where short-term supplementary feeding did not significantly affect microbial richness or evenness [
51]. Although supplementary feeding may have altered the structure of the microbial community, its impact on overall diversity was likely insufficient to induce detectable changes in these indices. Further research with longer durations or more intensive feeding protocols is needed to elucidate the long-term effects of supplementary feeding on gut microbiota diversity [
52].
In this study, norank_f__
Oscillospiraceae exhibited a significant negative correlation with Ca, P, and N, potentially due to its impact on intestinal pH. Gut microbiota ferment dietary substrates, producing short-chain FAs that lower luminal pH and affect mineral solubility. Excessive acidification can precipitate insoluble mineral complexes, reducing Ca and P bioavailability [
53]. Additionally, norank_f__
Oscillospiraceae may compromise intestinal epithelial integrity and immune responses. The gut barrier is essential for nutrient absorption, and certain bacterial taxa influence epithelial permeability and inflammatory signaling [
54]. If norank_f__
Oscillospiraceae induces low-grade inflammation or disrupts tight junctions, it may impair mineral transport across the epithelium. Kim et al [
55] demonstrated that chronic inflammation downregulates key mineral transporters. These factors may explain the negative correlation observed in this study between norank_f__
Oscillospiraceae and Ca, P, and N. Prevotellaceae_UCG-004 exhibited a significant positive correlation with butyric acid and isovaleric acid. Prevotellaceae are well known for their ability to degrade complex carbohydrates, particularly plant-derived fibers, converting them into fermentation end-products such as SCFAs. Butyrate, a major SCFA, serves as a primary energy source for colonic epithelial cells, enhances intestinal barrier integrity, and exhibits anti-inflammatory properties [
56]. The observed positive correlation between Prevotellaceae_UCG-004 and butyrate suggests that this bacterium may contribute to butyrate biosynthesis, either directly or through cross-feeding interactions with other microbial species. Additionally, the positive correlation with isovaleric acid indicates that Prevotellaceae_UCG-004 may also be involved in protein fermentation. Isovaleric acid, a branched-chain SCFA, is derived from the microbial degradation of branched-chain AAs. This suggests that, in addition to fiber fermentation, Prevotellaceae_UCG-004 may also be involved in protein degradation or microbial biomass turnover.
Christensenellaceae_R-7_group exhibited a significant negative correlation with butyrate, suggesting that this bacterium may interfere with the activity of other microbes involved in fiber fermentation, particularly those producing butyrate, such as
Faecalibacterium prausnitzii and
Roseburia spp. [
57]. If Christensenellaceae_R-7_group competes with or suppresses the growth of these butyrate-producing bacteria, it could lead to a reduction in butyrate production [
58]. The observed negative correlation may also arise from metabolic cross-talk between Christensenellaceae_R-7_group and other microbial taxa [
59]. Given the prevalence of cross-feeding in gut microbiota, Christensenellaceae_R-7_group may secrete metabolites that suppress the growth or activity of butyrate-producing microbes. Another potential explanation is that Christensenellaceae_R-7_group may influence the regulation of gut pH, a critical factor in SCFA production. Certain bacteria alter luminal pH through their metabolic activities, affecting the solubility and bioavailability of substrates for butyrate-producing bacteria. A lower pH may favor the growth of other microbial types while inhibiting butyrate producers. Candidatus_
Soleaferrea exhibited a significant negative correlation with isobutyric acid, a branched-chain short-chain fatty acid (BCFA) typically produced during the microbial degradation of branched-chain AAs [
60]. These findings suggest that Candidatus_
Soleaferrea may modulate isobutyric acid levels by inhibiting key microbial producers or altering associated fermentation pathways. Candidatus_
Soleaferrea may compete with other microbes involved in protein fermentation, thereby reducing isobutyric acid production. Many gut microbes, particularly those from the
Firmicutes and
Bacteroidetes phyla, contribute to protein fermentation and subsequent BCFA production. If Candidatus_
Soleaferrea interacts with or suppresses the growth of these protein-fermenting bacteria, it could lead to a shift in the microbial fermentation pattern, resulting in a decrease in isobutyric acid levels. Additionally, Candidatus_
Soleaferrea may influence the microbial community structure in a way that indirectly reduces isobutyric acid production. By promoting the growth of other bacterial groups that produce other SCFAs, Candidatus_
Soleaferrea can alter the overall fermentation product profile in the gut, potentially displacing isobutyric acid-producing bacteria and reducing their activity.