Monitoring post-release behavioural activity of captive-bred urial (Ovis vignei punjabiensis) at Togh Managara Safari Park Khyber Pakhtunkhwa, Pakistan

The Punjab urial (Ovis vignei punjabiensis) is a globally threatened wild sheep species. In Pakistan the species is legally protected and bred in captivity to release into natural habitats to reinforce wild populations. Vigilance and feeding are critical to survival, though the degree to which captive-bred animals exhibit these behaviours post-release has rarely been investigated. We monitored the daily behaviours of five adult urial after release and classifying behaviours from 0600 hrs to 1800 hrs, replicating each one-hour period twice and recording four observations of each animal per hour. At the herd level, vigilance and feeding behaviours were exhibited equally. Males and females invested equal time in feeding, males were more vigilant (p = 0.001) and more aggressive (p = 0.010), and females were more restful (p = 0.019) or engaged in grooming (p = 0.044) or locomotion (p = 0.002). Females spent more time feeding than being vigilant (p = 0.002). Males maintained high levels of vigilance throughout the day. Patterns of resting 1300 hrs to 1500 hrs and feeding in early morning and late afternoon were common for both sexes. Behaviours classified as ‘other’ were exhibited equally between sexes. Our results reveal positive indications of captive-bred urial balancing threat detection and energy acquisition post-release and exhibiting natural behaviours and activity patterns. We encourage assessment of survivorship to evaluate long-term effectiveness of captive breeding and release as a candidate restoration programme.

Growth, weights, and measurements of female wild sheep from Iran

Wild sheep (Ovis spp.) are of conservation concern throughout the Middle East. Little is known, however, about the natural history or ecology of this taxon. To better understand size relationships among wild sheep occupying Iran, we analyzed results from 120 females collected from widely separated ecosystems. Morphometrics and body weights for all age categories of females occupying the Khosh-Yeilagh Wildlife Refuge in northeastern Iran were larger than those for the same age classes of females occupying Bamou National Park in southwestern Iran. Females from Bamou National Park, however, obtained adult body weight (x‾ = 25.8 ± 2.47 [SD] kg) at an earlier age than those from the Khosh-Yeilagh Wildlife Refuge (x‾ = 36.6 ± 3.21 kg). Ecological differences between these two areas suggest that net primary productivity, which is a function of numerous climatic and geographical factors, has been a primary force contributing to these results. Weights and measurements reported here provide the basic information for additional, more detailed research necessary to fully understand the evolutionary significance and management implications of these differences in body size and emphasize the conservation value of even the most basic natural history information.

The first sheep graph pan-genome reveals the spectrum of structural variations and their effects on different tail phenotypes

Structural variations (SVs) are a major contributor of genetic diversity and phenotypic variations, however their prevalence and functions in domestic animals are largely unexplored. Here, we assembled 26 haplotype-resolved genome assemblies from 13 genetically diverse sheep breeds using PacBio HiFi sequencing. We then constructed an ovine graph pan-genome and demonstrated its advantage in discovering 142,593 biallelic SVs (Insertions and deletions), 7,028 divergent alleles and 13,419 multiallelic variations with high accuracy and sensitivity. To link the SVs to genotypes, we genotyped the SVs in 687 resequenced individuals of domestic and wild sheep using a graph-based approach and identified numerous population-stratified variants, of which expression-associated SVs were detected by integrating RNA-seq data. Taking the varying sheep tail morphology as example, we located a putative causative insertion in HOXB13 gene responsible for the long tail and reported multiple large SVs associated with the fat tail. Beyond generating a benchmark resource for ovine structural variants, our study also highlighted that the population genetics analysis based on graph pan-genome rather than reference genome will greatly benefit the animal genetic research.

Whole-genome sequence analysis unveils different origins of European and Asiatic mouflon and domestication-related genes in sheep

The domestication and subsequent development of sheep are crucial events in the history of human civilization and the agricultural revolution. However, the impact of interspecific introgression on the genomic regions under domestication and subsequent selection remains unclear. Here, we analyze the whole genomes of domestic sheep and their wild relative species. We found introgression from wild sheep such as the snow sheep and its American relatives (bighorn and thinhorn sheep) into urial, Asiatic and European mouflons. We observed independent events of adaptive introgression from wild sheep into the Asiatic and European mouflons, as well as shared introgressed regions from both snow sheep and argali into Asiatic mouflon before or during the domestication process. We revealed European mouflons might arise through hybridization events between a now extinct sheep in Europe and feral domesticated sheep around 6000–5000 years BP. We also unveiled later introgressions from wild sheep to their sympatric domestic sheep after domestication. Several of the introgression events contain loci with candidate domestication genes (e.g., PAPPA2, NR6A1, SH3GL3, RFX3 and CAMK4), associated with morphological, immune, reproduction or production traits (wool/meat/milk). We also detected introgression events that introduced genes related to nervous response (NEURL1), neurogenesis (PRUNE2), hearing ability (USH2A), and placental viability (PAG11 and PAG3) into domestic sheep and their ancestral wild species from other wild species.

Evidence for independent domestication of sheep mtDNA lineage A in India and introduction of lineage B through Arabian sea route

India ranks the second in the world in terms of its sheep population with approximately 74.26 million represented by 44 well-described breeds in addition to several non-descript populations. Genetic diversity and phylogeography of Indian sheep breeds remain poorly understood, particularly for south Indian breeds. To have a comprehensive view of the domestication history of Indian sheep, we sequenced the mitochondrial DNA (mtDNA) control region (D-loop) and cytochrome b gene (CYTB) of 16 Indian domestic sheep breeds, most of them (13) from the south India. We analysed these sequences along with published data of domestic and wild sheep from different countries, including India. The haplotype diversity was relatively high in Indian sheep, which were classified into the three known mtDNA lineages, namely A, B and C. Lineage A was predominant among Indian sheep whereas lineages B and C were observed at low frequencies but C was restricted to the breeds of north and east India. The median joining network showed five major expanding haplogroups of lineage A (A1–A5). Out of which, A2, A4 and A5 were more frequent in Indian sheep in contrast to breeds from other parts of the world. Among the 27 Indian sheep breeds analysed, Mandya and Sonadi breeds were significantly different from other Indian breeds in the MDS analyses. This was explained by a very high contribution of lineage B into these two breeds. The Approximate Bayesian Computation (ABC) provided evidence for the domestication of lineage A sheep in the Indian subcontinent. Contrary to the current knowledge, we also found strong support for the introduction of lineage B into Indian subcontinent through sea route rather than from the Mongolian Plateau. The neighbour-joining tree of domestic and wild sheep revealed the close genetic relationship of Indian domestic sheep with Pakistani wild sheep O. vignei blanfordi. Based on our analyses and archaeological evidences, we suggest the Indian subcontinent as one of the domestication centres of the lineage A sheep, while lineage B sheep might have arrived into India from elsewhere via Arabian sea route. To the best of our knowledge, this is the first comprehensive study on Indian sheep where we have analysed more than 740 animals belonging to 27 sheep breeds raised in various regions of India. Our study provides insight into the understanding of the origin and migratory history of Indian sheep.

Pastoralism in Africa

To find the origins of African pastoralism it is important archaeologists look for the wild progenitors of animals. The wild sheep of Africa (Ammotragus lervia) were never domesticated, so all domestic sheep and goats came from the Near East. There has been some debate over whether there was an independent domestication of African cattle, because wild cattle (Bos primigenius) remains have been found in the Nile Valley. Genetic evidence shows that the source of African domesticated cattle was the Levant, some 8,000 years ago. Cattle spread across the Sahara as the environment was conducive to pastoralism, being well watered at this time. This lasted until after 5000 bp when the Intertropical Convergence Zone (ITCZ) retreated and the Sahara dried up to its present condition. The tsetse barrier also retreated at this time, allowing pastoralists to move south into West Africa and, via the Ethiopian highlands, to East Africa, arriving c.4500 bp, although it took another 1,000 years for them to fully adapt to the grasslands of southern Kenya and Tanzania. Domestic stock then went on to southern Africa via a tsetse-free corridor, arriving around 2000 bp. The effect of herding societies on local hunters throughout Africa appears to have been an initial rapprochement, with a later hardening of relations. In East Africa, this was probably due to the need to learn about the new environment with the help of local hunters and to adjust to new epizootic diseases. In southern Africa, the first pastoralists were primarily sheep herders during the 1st millennium bce, with few cattle bones being found from this time. Pastoralists only became fully fledged cattle herdsmen around 1000 bp when they developed the attributes of the historic Khoekhoen. A further debate existed in southern Africa over whether pastoralism there was the result of immigrant herders who arrived in the northern Kalahari and then spread to the Cape, or if local hunters took up sheep herding.

Hostile Interactions of Punjab Urial (Ovis vignei punjabiensis) towards Indian Gazelle (Gazella bennettii) during Feeding Sessions in Captive Breeding Settings

Natural wildlife habitats are regularly subjected to anthropogenic pressures for different purposes, which are heading the biodiversity towards drastic decline. Several endangered wild species are raised in captivity with the aim of re-introduction. In some instances, mixed herds’ rearing approach in captivity is adopted for providing social enrichment to captive stocks; however, the impacts of species on each other are least documented. We tested our prediction that keeping mixed herds of captive wild sheep and antelopes provides adequate social enrichment to the captive stocks: if interspecific interactions are balanced. In the current study, we studied the interspecific competition between mixed herds of captive Punjab urial (Ovis vignei punjabiensis) and Indian gazelle (Gazella bennettii) at Manglot Wildlife Park, Nowshera District, Khyber Pakhtunkhwa Province, Pakistan. We documented the negative effects of behavioural interference by Punjab urial on the feeding behaviour of Indian gazelle. The outcome of the current study revealed that Punjab urial are highly intolerant towards Indian gazelle, with high interference during feeding. Out of the total aggressive events, 77% (N = 1259) of events ended up with win/loss, in which Punjab urial dominated the Indian gazelle 3.5 times. Moreover, lopsided dominance by Punjab urial resulted in increased intraspecific competition among Indian gazelle (p < 0.001). Current study divulged Indian gazelle to be the subordinate species, with less intake of food. Instead of providing social enrichment by heterospecifics, the Punjab urial is negatively affecting the Indian gazelle, therefore, the results of our study discourage the practice of admix captive breeding for wild sheep and antelopes.

Palaeoproteomics confirm earliest domesticated sheep in southern Africa ca. 2000 BP

We used palaeoproteomics and peptide mass fingerprinting to obtain secure species identifications of key specimens of early domesticated fauna from South Africa, dating to ca. 2000 BP. It can be difficult to distinguish fragmentary remains of early domesticates (sheep) from similar-sized local wild bovids (grey duiker, grey rhebok, springbok—southern Africa lacks wild sheep) based on morphology alone. Our analysis revealed a Zooarchaeology by Mass Spectrometry (ZooMS) marker (m/z 1532) present in wild bovids and we demonstrate through LC–MS/MS that it is capable of discriminating between wild bovids and caprine domesticates. We confirm that the Spoegrivier specimen dated to 2105 ± 65 BP is indeed a sheep. This is the earliest directly dated evidence of domesticated animals in southern Africa. As well as the traditional method of analysing bone fragments, we show the utility of minimally destructive sampling methods such as PVC eraser and polishing films for successful ZooMS identification. We also show that collagen extracted more than 25 years ago for the purpose of radiocarbon dating can yield successful ZooMS identification. Our study demonstrates the importance of developing appropriate regional frameworks of comparison for future research using ZooMS as a method of biomolecular species identification.