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Background Hybridisation and introgression play key roles in the evolutionary history of animal species. They are commonly observed within several orders in wild birds. The domestic chicken Gallus gallus domesticus is the most common livestock species. More than 65 billion chickens are raised annually to produce meat and 80 million metric tons of egg for global human consumption by the commercial sector. Unravelling the origin of its genetic diversity has major application for sustainable breeding improvement programmes. Results In this study, we report genome-wide analyses for signatures of introgression between indigenous domestic village chicken and the four wild Gallus species. We first assess the genome-wide phylogeny and divergence time across the genus Gallus. Genome-wide sequence divergence analysis supports a sister relationship between the Grey junglefowl G. sonneratii and Ceylon junglefowl G. lafayettii. Both species form a clade that is sister to the Red junglefowl G. gallus, with the Green junglefowl G. varius the most ancient lineage within the genus. We reveal extensive bidirectional introgression between the Grey junglefowl and the domestic chicken and to a much lesser extent with the Ceylon junglefowl. We identify a single case of Green junglefowl introgression. These introgressed regions include genes with biological functions related to development and immune system. Conclusions Our study shows that while the Red junglefowl is the main ancestral species, introgressive hybridisation episodes have impacted the genome and contributed to the diversity of the domestic chicken, although likely at different levels across its geographic range.

The red junglefowl Gallus gallus is the main progenitor of domestic chicken, the commonest livestock species, outnumbering humans by an approximate ratio of six to one. The genetic control for production traits have been well studied in commercial chicken, but the selection pressures underlying unique adaptation and production to local environments remain largely unknown in indigenous village chicken. Likewise, the genome regions under positive selection in the wild red junglefowl remain untapped. Here, using the pool heterozygosity approach, we analyzed indigenous village chicken populations from Ethiopia, Saudi Arabia, and Sri Lanka, alongside six red junglefowl, for signatures of positive selection across the autosomes. Two red junglefowl candidate selected regions were shared with all domestic chicken populations. Four candidates sweep regions, unique to and shared among all indigenous domestic chicken, were detected. Only one region includes annotated genes (TSHR and GTF2A1). Candidate regions that were unique to each domestic chicken population with functions relating to adaptation to temperature gradient, production, reproduction and immunity were identified. Our results provide new insights on the consequence of the selection pressures that followed domestication on the genome landscape of the domestic village chicken.

A total of 22 dairy dromedary camels under intensive conditions in late lactation (275±24 days) were used to study the relationship between external and internal udder morphology and machine milking performances. Measurements of udder and teat morphology were obtained immediately before milking and in duplicate. Individual milk yield, lag time and total milking time were recorded during milking, and milk samples were collected and analyzed for milk composition thereafter. Cisternal and alveolar milk volumes and composition were evaluated at 9 h milking interval. Results revealed that dairy camels had well developed udders and milk veins, with medium sized teats. On average, milk yield as well as milk fat and protein contents were 4.80±0.50 L d-1, 2.61±0.16% and 3.08±0.05%, respectively. The low fat values observed indicated incomplete milk letdown during machine milking. Lag time, and total milking time were 3.0±0.3, and 120.0±8.9s, on average, respectively. Positive correlations (p<0.05) were observed between milk yield and udder depth (r=0.37), distance between teats (r=0.57) and milk vein diameter (r=0.28), while a negative correlation was found with udder height (r=-0.25, p<0.05). Cisternal milk accounted for 11% of the total udder milk. Positive correlations were observed between total milk yield and volume of alveolar milk (r=0.98; p<0.001) as well as with volume of cisternal milk (r=0.63, p<0.05). Despite the low udder milk storage capacity observed in dairy camels, our study concluded that the evaluated dromedary sample had adequate udder morphology for machine milking. Finally, positive relationships were detected between milk yield and udder morphology traits of dairy camels.

The purpose of this study was to determine the prevalence of subclinical mastitis in camels in Riyadh, Saudi Arabia and the factors influencing its incidence. A total of 740 quarter milk samples were collected from 47 camel herds belonging to Majahim, Maghatir, Shu'l, and Sufer breeds. California mastitis test (CMT) was used as a screening test for subclinical mastitis. Samples giving negative or trace CMT scores (0) were assigned to healthy quarters, while those giving positive scores of 1+ to 3+ were assigned to subclinically affected quarters. Logistic regression was used to assess the association of breed, parity, and stage of lactation with the prevalence of subclinical mastitis. Milk fat, protein, lactose, solid nonfat percentages and Na, Ca, and K concentrations were compared in CMT-positive versus healthy quarters. One third (33%) of tested quarters had subclinical mastitis based on CMT. The estimated probability of subclinical mastitis with the combined effects of breed, parity, and stage of lactation ranged from 15.8% to 54.6%. The risk of subclinical mastitis increased significantly with parity and with the early stage of lactation. The Shu'l breed had significantly higher prevalence of subclinical mastitis than other breeds. Significant decreases in protein, lactose, and solid nonfat, Ca and K concentrations and increase in Na concentrations were associated with subclinical mastitis. In conclusion, subclinical mastitis is prevalent in Saudi camels, and its incidence is influenced by breed, parity, and stage of lactation.