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Domestication of the dog

The domestication of the dog was the process which led to the domestic dog. This included the dog's genetic divergence from the wolf, its domestication, and the emergence of the first dogs. Genetic studies suggest that all ancient and modern dogs share a common ancestry, descending from an ancient, now-extinct wolf population – or closely related wolf populations – which was distinct from the modern wolf lineage. The dog's similarity to the grey wolf is the result of substantial dog-into-wolf gene flow, with the modern grey wolf being the dog's nearest living relative. An extinct Late Pleistocene wolf may have been the ancestor of the dog.

Divergence from wolves
Genetic studies indicate that the grey wolf is the closest living relative of the dog. In 2017, a literature review found that this East Asian study sampled only east Asian indigenous dogs and compared their patterns of genetic diversity to those of breed dogs from other geographic regions. As it is known that the genetic bottlenecks associated with formation of breeds strongly reduce genetic diversity, this was not an appropriate comparison. Proposed dual ancestry of the domestic dogs of West Asia, Africa and southern Europe More recent research analysing the genomes of 72 ancient wolves, specimens from Europe, Siberia and North America spanning the past 100,000 years has confirmed that both early and modern dogs are more similar genetically to ancient wolves from Asia than from Europe. This suggests that domestication occurred in the East. The research also found evidence that dogs have a dual ancestry, meaning that two separate populations of wolves contributed DNA to dogs. Early dogs from northeastern Europe, Siberia and the Americas appear to have a single, shared origin from the eastern source. But early dogs from the Middle East, Africa and southern Europe appear to have some ancestry from another source related to wolves in the Middle East, in addition to the eastern source. It is possible that wolves underwent domestication more than once, with different populations then mixing together. Or, that domestication happened once only, and that dual ancestry is related to early dogs then mixing with wild wolves. The research also demonstrated how wolf DNA changed during the 30,000 generations that were represented in their 100,000-year timeline. This identified the effects of natural selection as particular genes spread within wolf populations. One gene variant, over a period of around 10,000 years, went from being very rare to being present in every wolf, and it is still present in all wolves and dogs today. The variant affects a gene, IFT88, which is involved in the development of bones in the skull and jaw. It is possible that the spread of this variant could have been driven by a change in the types of prey available during the Ice Age, giving an advantage to wolves with a certain head shape. "This is the first time scientists have directly tracked natural selection in a large animal [the wolf] over a time-scale of 100,000 years, seeing evolution play out in real time rather than trying to reconstruct it from DNA today," said study senior author Pontus Skoglund. ==Dog domestication==
Dog domestication
Animal domestication is a coevolutionary process in which a population responds to selective pressure while adapting to a novel niche that included another species with evolving behaviours. Commensal pathway site, Ukraine The dog is a classic example of a domestic animal that likely traveled a commensal pathway into domestication. Wolves were probably attracted to human campfires by the smell of meat being cooked and discarded refuse in the vicinity, first loosely attaching themselves and then considering these as part of their home territory where their warning growls would alert humans to the approach of outsiders. Migratory wolves theory On the mammoth steppe the wolf's ability to hunt in packs, to share risk fairly among pack members, and to cooperate moved them to the top of the food chain above lions, hyenas and bears. Some wolves followed the great reindeer herds, eliminating the unfit, the weaklings, the sick and the aged, and therefore improved the herd. These wolves had become the first pastoralists hundreds of thousands of years before humans also took to this role. The wolves' advantage over their competitors was that they were able to keep pace with the herds, move fast and enduringly, and make the most efficient use of their kill by their ability to eat a large part of their quarry before other predators had detected the kill. One study proposed that during the Last Glacial Maximum, some humans teamed up with those pastoralist wolves and learned their techniques. Many early humans remained gatherers and scavengers, or specialized as fish-hunters, hunter-gatherers, and hunter-gardeners. However, some adopted the pastoralist wolves' lifestyle as herd followers and herders of reindeer, horses, and other hoofed animals. They harvested the best stock for themselves while the wolves kept the herd strong, and this group of humans was to become the first herders and this group of wolves was to become the first dogs. The remains of large carcasses left by human hunter-gatherers may have led some wolves into entering a migratory relationship with humans. This could have led to their divergence from those wolves that remained in the one territory. A closer relationship between these wolves – or proto-dogs – and humans may have then developed, such as hunting together and mutual defence from other carnivores and other humans. A maternal mDNA, paternal yDNA, and microsatellite assessment of two wolf populations in North America and combined with satellite telemetry data revealed significant genetic and morphological differences between one population that migrated with and preyed upon caribou, and another territorial ecotype population that remained in a boreal coniferous forest. Though these two populations spend a period of the year in the same place, and though there was evidence of gene flow between them, the difference in prey–habitat specialization has been sufficient to maintain genetic and even colouration divergence. A study has identified the remains of a population of extinct Pleistocene Beringian wolves with unique mDNA signatures. The skull shape, tooth wear, and isotopic signatures suggested these were specialist megafauna hunters and scavengers that became extinct while less specialized wolf ecotypes survived. Analogous to the modern wolf ecotype that has evolved to track and prey upon caribou, a Pleistocene wolf population could have begun following mobile hunter-gatherers, thus slowly acquiring genetic and phenotypic differences that would have allowed them to more successfully adapt to the human habitat. Food partitioning theory Dogs were the only animal to be domesticated by mobile hunter-gatherers. Humans and wolves were both persistent pack hunters of large prey, were competing in overlapping territory, and are both capable of killing each other. One study proposes how humans may have domesticated such a dangerous competitor. Humans and wolves are members of the large carnivore guild, and when there is abundant game the top members leave carcasses for the other members to scavenge. When game is scarce there is often conflict. Humans are unusual members of this guild because they are primates, therefore their ability to process meat is limited by the capacity of the liver to metabolize protein, and they can derive only 20% of their energy requirements from protein. High protein consumption in humans can lead to illness. During the harsh winters of the Last Glacial Maximum plant foods would have not been available, and meat would not be the favoured food but fat and grease would be, as is prized by some high-latitude dwelling peoples in modern times. Game meat would have been devoid of fat, but the limbs and crania contain fat deposits, and limb bones contain fatty oils. There is evidence of such processing during this period. Wolves are typical carnivores and can survive on a protein-based diet for months. Calculations of the lipid content of arctic and subarctic game available across the cold steppe environment at this time and today shows that in order to gain the necessary quantity of fat and oils, there would have been enough excess animal calories to feed either proto-dogs or wolves with no need for competition. Hunting together and protection from other predators would have been advantageous to both species, leading to domestication. Genetic changes – grey wolf and chihuahua skulls (Italian mastiff) and a Yorkshire terrier is over 30-fold, yet both are members of the same species. The Yellow Dog Study Domestic dogs exhibit diverse coat colours and patterns. In many mammals, different colour patterns are the result of the regulation of the Agouti gene, which can cause hair follicles to switch from making black or brown pigments to yellow or nearly white pigments. The most common coat pattern found in modern wolves is agouti, in which the upperside of the body has banded hairs and the underside exhibits lighter shading. The colour yellow is dominant to the colour black and is found in dogs across much of the world and the dingo in Australia. In 2021, a study of whole genome sequences taken from dogs and wolves focused on the genetic relationships between them based on coat colour. The study found that most dog colour haplotypes were similar to most wolf haplotypes, however dominant yellow in dogs was closely related to white in arctic wolves from North America. This result suggests a common origin for dominant yellow in dogs and white in wolves but without recent gene flow, because this light colour clade was found to be basal to the golden jackal and genetically distinct from all other canids. The most recent common ancestor of the golden jackal and the wolf lineage dates back to 2 million YBP. The study proposes that 35,000 YBP there was genetic introgression into the Late Pleistocene grey wolf from a ghost population of an extinct canid which had diverged from the grey wolf lineage over 2 million YBP. This colour diversity could be found 35,000 YBP in wolves and 9,500 YBP in dogs. A closely related haplotype exists among those wolves of Tibet which possess yellow shading in their coats. The study explains the colour relationships between modern dogs and wolves, white wolves from North America, yellow dogs, and yellowish wolves from Tibet. The study concludes that during the Late Pleistocene, natural selection laid the genetic foundation for modern coat colour diversity in dogs and wolves. Dietary adaptation Selection appears to have acted on the dog's metabolic functions to cope with changes in dietary fat, followed later with a dietary increase in starch associated with a more commensal lifestyle. The dog genome compared to the wolf genome shows signs of having undergone positive selection, these include genes relating to brain function and behaviour, and to lipid metabolism. This ability to process lipids indicates a dietary target of selection that was important when proto-dogs hunted and fed alongside hunter-gatherers. The evolution of the dietary metabolism genes may have helped process the increased lipid content of early dog diets as they scavenged on the remains of carcasses left by hunter-gatherers. Prey capture rates may have increased in comparison to wolves and with it the amount of lipid consumed by the assisting proto-dogs. A unique dietary selection pressure may have evolved both from the amount consumed, and the shifting composition of, tissues that were available to proto-dogs once humans had removed the most desirable parts of the carcass for themselves. A study of the mammal biomass during modern human expansion into the northern Mammoth steppe found that it had occurred under conditions of unlimited resources, and that many of the animals were killed with only a small part consumed or were left unused. :See further: Dietary phenotypic plasticity Behaviour The key phase in domestication appears to have been changes in social behaviour and its corresponding oxytocin receptor genes and neural-related genes. Behaviour differences between dogs and wolves may be contributed by structural variation in the genes that are associated with human Williams-Beuren syndrome. This syndrome causes increased hyper-sociability, which may have been important during domestication. In 2014, a whole genome study of the DNA differences between wolves and dogs found that the dogs' tameness was not a reduced fear response but did show greater synaptic plasticity. Synaptic plasticity is widely believed to be the cellular correlate of learning and memory. The study proposes that the improved learning and memory abilities of dogs also helped to lower their level of fear around humans. Unlike other domestic species which were primarily selected for production-related traits, dogs were initially selected for their behaviours. In 2016, a study found that there were only 11 fixed genes that showed variation between wolves and dogs. These gene variations were unlikely to have been the result of natural evolution, and indicate selection on both morphology and behaviour during dog domestication. There was evidence of selection during dog domestication of genes that affect the adrenaline and noradrenaline biosynthesis pathway. These genes are involved in the synthesis, transport and degradation of a variety of neurotransmitters, particularly the catecholamines, which include dopamine and noradrenaline. Recurrent selection on this pathway and its role in emotional processing and the fight-or-flight response suggests that the behavioural changes we see in dogs compared to wolves may be due to changes in this pathway, leading to tameness and an emotional processing ability. Dogs generally show reduced fear and aggression compared to wolves. Some of these genes have been associated with aggression in some dog breeds, indicating their importance in both the initial domestication and then later in breed formation. Role of epigenetics Differences in hormonal expression that are associated with domestication syndrome may be linked to epigenetic modifications. A recent study that compared the methylation patterns of dogs with those of wolves found 68 significantly different methylated sites. These included sites which are linked to two neurotransmitter genes associated with cognition. There is a direct association between the dog's social behaviour and OXTR, which is a receptor for the neurotransmitter oxytocin, and this has been caused through the epigenetic methylation of the OXTR gene. DNA methylation differences have been found between wolves and dogs, and between different dog breeds. This implies that epigenetic factors may have been important for both dog domestication and the divergence of dog breeds. Similar to humans, wolves show strong social and emotional bonds within their groupings, and this relationship might have been the foundation for the evolution of dog-human bonding. In 2019, a literature review led to a new theory named Active Social Domestication, in which the social environment of the dog ancestor induced neuro-physiological changes that caused an epigenetic cascade, which led to the rapid development of domestication syndrome. Dog and human coevolution Parallel evolution Being the first domesticated species by humans has created a strong bond between dogs and humans and entwined their histories. Dogs accompanied humans when they first migrated into new environments and show similar adaptations – such as to high altitude, low oxygen conditions. There is an extensive list of genes showing signatures of parallel evolution in dogs and humans. This has led to the study of the coevolution of gene function. 311 genes under positive selection in dogs are related to a large number of overlapping loci which show the same patterns in humans. These genes are involved in traits ranging from digestion and neurological processes to some cancers. For example, it has been inferred from genes which act on the serotonergic system in the brain that coevolution has led to less aggressive behaviour when living in crowded environments. Dogs also suffer from many of the same common diseases as humans – including cancer, diabetes, heart disease, and neurological disorders. The underlying disease pathologies are similar to those in humans, as are their responses to treatment and resultant outcomes. Behavioural evidence Convergent evolution is when distantly related species independently evolve similar solutions to the same problem. For example, penguins and dolphins have each separately evolved flippers as a solution to the problem of moving through the water. What has been found between dogs and humans is something less frequently demonstrated: psychological convergence. Dogs have independently evolved to be cognitively more similar to humans than we are to our closest genetic relatives. Dogs have evolved specialized skills for reading human social and communicative behaviour. These skills seem more flexible – and possibly more human-like – than those of other animals more closely related to humans phylogenetically, such as chimpanzees, bonobos and other great apes. This raises the possibility that convergent evolution has occurred: both Canis familiaris and Homo sapiens might have evolved some similar (although obviously not identical) social-communicative skills – in both cases adapted for certain kinds of social and communicative interactions with human beings. Studies support coevolution in that dogs can follow the human pointing gesture, discriminate the emotional expressions of human faces, and that most people can tell from a bark whether a dog is alone, being approached by a stranger, playing, or being aggressive, and can tell from a growl how big the dog is. In 2015, a study found that when dogs and their owners interact, extended eye contact (mutual gaze) increases oxytocin levels in both the dog and its owner. As oxytocin is known for its role in maternal bonding, it is considered likely that this effect has supported the coevolution of human–dog bonding. Human adoption of some wolf behaviours In 2002, a study proposed that immediate human ancestors and wolves may have domesticated each other through a strategic alliance that would change both respectively into humans and dogs. The effects of human psychology, hunting practices, territoriality and social behaviour would have been profound. Early humans moved from scavenging and small-game hunting to big-game hunting by living in larger, socially more-complex groups, learning to hunt in packs, and developing powers of cooperation and negotiation in complex situations. As these are characteristics of wolves, dogs and humans, it can be argued that these behaviours were enhanced once wolves and humans began to cohabit. Communal hunting led to communal defense. Wolves actively patrol and defend their scent-marked territory, and perhaps humans had their sense of territoriality enhanced by living with wolves. One of the keys to recent human survival has been the forming of partnerships. Strong bonds exist between same-sex wolves, dogs and humans, and these bonds are stronger than exist between other same-sex animal pairs. Today, the most widespread form of inter-species bonding occurs between humans and dogs. The concept of friendship has ancient origins, but it may have been enhanced through the inter-species relationship to give a survival advantage. In 2003, a study compared the behaviour and ethics of chimpanzees, wolves and humans. Cooperation among humans' closest genetic relative is limited to occasional hunting episodes or the persecution of a competitor for personal advantage, which had to be tempered if humans were to become domesticated. One might therefore argue that the closest approximation to human morality that can be found in nature is that of the grey wolf. Wolves are among the most gregarious and cooperative of animals on the planet, and their ability to cooperate in well-coordinated drives to hunt prey, carry items too heavy for an individual, provisioning not only their own young but also the other pack members, babysitting etc. are rivaled only by that of human societies. Similar forms of cooperation are observed in two closely related canids, the African wild dog and the Asian dhole, therefore it is reasonable to assume that canid sociality and cooperation are old traits that in terms of evolution predate human sociality and cooperation. Today's wolves may even be less social than their ancestors, as they have lost access to large herds of ungulates and now tend more toward a lifestyle similar to coyotes, jackals, and even foxes. Social sharing within families may be a trait that early humans learned from wolves, and, with wolves digging dens long before humans constructed huts, it is not clear who domesticated whom. ==First dogs==
First dogs
Dogs domesticated in East Asia Savolainen looking at mitochondrial DNA shows that an initial phase of dog domestication began in China or Southeast Asia 33,000 years ago, and a second phase 18,000 years later in which the dog migrated out of Southeast Asia towards Africa and the Middle East. Arriving in Europe, around 10,000 years ago, giving rise to modern dog breeds. Savolainen pointed out that many studies that contradicted the origin of dog domestication from China or elsewhere in Southeast Asia, did not include wolf or dog samples from China or Southeast Asia. Dogs domesticated in Siberia 23,000 years ago Locating the origin of dogs is made difficult by the lack of data on extinct Pleistocene wolves, the small morphological changes that occurred between wild and domestic populations during the first phases of domestication, and the lack of an accompanying human material culture at this time. The oldest archaeological remains of dogs in Island Southeast Asia and Oceania is a dog burial in Timor and dingo remains in Australia, both of which are dated to around 3,500 BP. The former are believed to have been part of the second wave and the latter from the first wave. Austronesian dogs like the Taiwan dog were deeply valued as hunting companions (particularly for wild boar). From Island Southeast Asia, they were carried by Austronesian voyagers into Near Oceania. Thus Austronesian dogs were "lost" during the early colonization of Near Oceania. This caused a marked discontinuity in the genes of domesticated dogs, as well as the terms for "dog", among Austronesians in the Pacific Islands and Island Melanesia, in comparison to other Austronesian regions in Island Southeast Asia. However, dogs were later reintroduced from neighboring Papuan groups and were subsequently carried eastward into Polynesia by post-Lapita Austronesian migrations, reaching as far as Hawaii and Aotearoa. Though these dogs were treated as food animals, rather than hunting companions. Genetic studies have confirmed this, showing that Polynesian dogs are descended from the first wave of dog introductions and are not related to the dogs originating from Taiwan and the Philippines. Dogs from the Near East enter Africa In 2020, the sequencing of ancient dog genomes indicated that the lineage of modern dogs in sub-Sahara Africa shares a single origin from the Levant, where an ancestral specimen was dated to 7,000 YBP. This finding mirrors the gene flow of humans from the Levant into Africa during the Neolithic, along with cattle. Since then, there has been limited gene flow into African dogs until the past few hundred years. The descendants of a dog from Iran dated 5,800 YBP and dogs from Europe completely replaced the Levant dog lineage 2,300 YBP. This was associated with human migration from Iran and some minor migration from Europe. Today all Near Eastern dogs show 81% ancient Iranian and 19% Neolithic European ancestry. The oldest dog remains to be found in Africa date 5,900 YBP and were discovered at the Merimde Beni-Salame Neolithic site in the Nile Delta, Egypt. The next oldest remains date 5,500 YBP and were found at Esh Shareinab on the Nile in Sudan. This suggests that the dog arrived from Asia at the same time as domestic sheep and goats. The dog then spread north to south down Africa beside livestock herders, with remains found in archaeological sites dated 925–1,055 YBP at Ntusi in Uganda, dated 950–1,000 YBP at Kalomo in Zambia, and then at sites south of the Limpopo River and into southern Africa. In 2020, the sequencing of ancient dog genomes indicates that the southern African Rhodesian Ridgeback retains 4% pre-colonial ancestry. ==See also==
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