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Fourier Transform Mid-Infrared Spectroscopy (FT-MIRS) can be used for quantitative detection of milk components. Here, milk samples of 458 Chinese Holstein cows from 11 provinces in China were collected and we established a total of 22 quantitative prediction models in milk fatty acids by FT-MIRS. The coefficient of determination of the validation set ranged from 0.59 (C18:0) to 0.76 (C4:0). The models were adopted to predict the milk fatty acids from 2138 cows and a new high-throughput computing software HiBLUP was employed to construct a multi-trait model to estimate and analyze genetic parameters in dairy cows. Finally, genome-wide association analysis was performed and seven novel SNPs significantly associated with fatty acid content were selected, investigated, and verified with the FarmCPU method, which stands for “Fixed and random model Circulating Probability Unification”. The findings of this study lay a foundation and offer technical support for the study of fatty acid trait breeding and the screening and grouping of characteristic dairy cows in China with rich, high-quality fatty acids. It is hoped that in the future, the method established in this study will be able to screen milk sources rich in high-quality fatty acids.

Milk spectral data on 2118 cows from nine herds located in northern China were used to access the association of days open (DO). Meanwhile, the parity and calving season of dairy cows were also studied to characterize the difference in DO between groups of these two cow-level factors. The result of the linear mixed-effects model revealed that no significant differences were observed between the parity groups. However, a significant difference in DO exists between calving season groups. The interaction between parity and calving season presented that primiparous cows always exhibit lower DO among all calving season groups, and the variation in DO among parity groups was especially clearer in winter. Survival analysis revealed that the difference in DO between calving season groups might be caused by the different P/AI at the first TAI. In addition, the summer group had a higher chance of conception in the subsequent services than other groups, implying that the micro-environment featured by season played a critical role in P/AI. A weak linkage between DO and wavenumbers ranging in the mid-infrared region was detected. In summary, our study revealed that the calving season of dairy cows can be used to optimize the reproduction management. The potential application of mid-infrared spectroscopy in dairy cows needs to be further developed.

Milk produced by dairy cows is a complex combination of many components. However, at present, changes in only a few milk components (e.g., fat, protein, and lactose) during the estrus cycle in dairy cows have been documented. Mid-infrared (MIR) spectroscopy is a worldwide method routinely used for milk analysis, as MIR spectra reflect the global composition of milk. Therefore, this study aimed to investigate the changes in milk MIR spectra and milk production traits (fat, protein, lactose, urea, total solids (TS), and solid not fat (SnF)) due to estrus. Cows that were successfully inseminated, leading to conception, were included. Cows confirmed to be pregnant were considered to be in estrus at the day of insemination (day 0). A general linear mixed model, which included the random effect of cows, the fixed classification effects of parity number, days in relation to estrus, as well as the interaction between parity number and days in relation to estrus, was applied to investigate the changes in milk production traits and 1060 milk infrared wavenumbers, ranging from 925 to 5011 cm−1, of 371 records from 162 Holstein cows on the days before (day −3, day −2, and day −1) and on the day of estrus (day 0). The days in relation to estrus had a significant effect on fat, protein, urea, TS, and SnF, whose contents increased from day −3 to day 0. Lactose did not seem to be significantly influenced by the occurrence of estrus. The days in relation to estrus had significant effects on the majority of the wavenumbers. Besides, we found that some of the wavenumbers in the water absorption regions were significantly changed on the days before and on the day of estrus. This suggests that these wavenumbers may contain useful information. In conclusion, the changes in the milk composition due to estrus can be observed through the analysis of the milk MIR spectrum. Further analyses are warranted to more deeply explore the potential use of milk MIR spectra in the detection of estrus.