A genome-wide scan of copy number variants in three Iranian indigenous river buffaloes.

BACKGROUND: In Iran, river buffalo is of great importance. It plays an important role in the economy of the Country, because its adaptation to harsh climate conditions and long productive lifespan permitting its farming across the Country and to convert low-quality feed into valuable milk. The genetic variability in Iranian buffalo breeds have been recently studied using SNPs genotyping data, but a whole genome Copy Number Variants (CNVs) mapping was not available. The aim of this study was to perform a genome wide CNV scan in 361 buffaloes of the three Iranian river breeds (Azeri, Khuzestani and Mazandarani) through the analysis of data obtained using the Axiom® Buffalo Genotyping Array 90 K. RESULTS: CNVs detection resulted in a total of 9550 CNVs and 302 CNVRs identified in at least 5% of samples within breed, covering around 1.97% of the buffalo genome. and A total of 22 CNVRs were identified in all breeds and a different proportion of regions were in common among the three populations. Within the more represented CNVRs (n = 302) mapped a total of 409 buffalo genes, some of which resulted associated with morphological, healthy, milk, meat and reproductive traits, according to Animal Genome Cattle database. CONCLUSIONS: This work provides a step forward in the interpretation of genomic variation within and among the buffalo populations, releasing a first map of CNVs and providing insights about their recent selection and adaptation to environment. The presence of the set of genes and QTL traits harbored in the CNVRs could be possibly linked with the buffalo's natural adaptive history together to a recent selection for milk used as primary food source from this species.

Approach to Selective Dry Cow Therapy in Early Adopter Italian Dairy Farms: Why Compliance Is So Important.

Selective dry-cow therapy (SDCT) became mandatory in Italy on 28 January 2022. During 2020, a group of farms involved in a milk quality program began a pilot experiment with SDCT in order to understand its challenges and to identify areas for procedural improvements. The aim of this study was to describe the challenges and results of the SDCT in early adopters' herds with a special focus on treatment compliance. Retrospective data from 1911 cows from 11 dairy herds were evaluated. Somatic cell counts, clinical mastitis (CM) history, and the California Mastitis Test (CMT) were used as criteria for SDCT. Based on the dairy herd improvement test results and CM history, 48% of all cows should have received antibiotic treatments and internal teat sealants. Adding the CMT at dry-off increased the percentage of antibiotic-treated cows to 62%, with relevant variation among farms. Concerning treatment compliance, 21% of the cows were "non-compliant", suggesting the importance of monitoring treatment compliance. In conclusion, even if commonly used selection criteria for antibiotic treatments were used, the need for more education and in-depth monitoring of the SDCT adoption process was clearly identified. Close collaboration and agreement between veterinarians and farmers are key for SDCT adoption success.