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{{good article}}{{short description|Selective breeding of plants and animals to serve humans}}{{Use mdy dates|date=September 2020}}File:Murgjo Sharr Mountain Dog Nedi Limani.jpg|thumb|upright=1.5|Dogs and sheepsheepFile:1962-05 1962年 海南岛乐东县 黎族民众插秧.jpg|thumb|upright=1.5|RiceRiceDomestication is a multi-generational mutualistic relationship in which an animal species, such as humans or leafcutter ants, takes over control and care of another species, such as sheep or fungi, so as to obtain from them a steady supply of resources, such as meat, milk, or labor. The process is gradual and geographically diffuse, based on trial and error. The first animal to be domesticated by humans was the dog, as a commensal, at least 15,000 years ago. Other animals including goats, sheep, and cows were domesticated starting around 11,000 years ago. Among birds, the chicken was first domesticated in East Asia, seemingly for cockfighting, some 7,000 years ago. The horse came under domestication around 5,500 years ago in central Asia as a working animal. Among invertebrates, the silkworm and the western honey bee were domesticated over 5,000 years ago for silk and honey, respectively.The domestication of plants began around 13,000–11,000 years ago with cereals such as wheat and barley in the Middle East, alongside crops such as lentil, pea, chickpea, and flax. Rice was first cultivated in China some 13,500 to 8,200 years ago. Beginning around 10,000 years ago, Indigenous peoples in the Americas began to cultivate peanuts, squash, maize, potatoes, cotton, and cassava. In Africa, crops such as sorghum were domesticated. Agriculture developed in some 13 centres around the world, domesticating different crops and animals.Domestication affected genes for behavior in animals, making them less aggressive. In plants, domestication affected genes for morphology, such as increasing seed size and stopping the shattering of seed-heads such as in wheat. Such changes both make domesticated organisms easier to handle, and reduce their ability to survive in the wild.

Definitions

Domestication (not to be confused with the taming of an individual animalBOOK, Price, Edward O., 2008, Principles and applications of domestic animal behavior: an introductory text, Cambridge University Press,books.google.com/books?id=Ww07sIWTYAAC&q=%22taming+is%22+animal&pg=PA228, January 21, 2016, 9781780640556, JOURNAL, 10.1073/pnas.0901586106, From wild animals to domestic pets, an evolutionary view of domestication, Proceedings of the National Academy of Sciences, 106, 9971–9978, 2009, Driscoll, C. A., MacDonald, D. W., O’Brien, S. J., Supplement 1, 19528637, 2702791, 2009PNAS..106.9971D, free, BOOK, Jared, Diamond, Jared Diamond, Gepts, P., 2012, Biodiversity in Agriculture: Domestication, Evolution, and Sustainability, Cambridge University Press, Chapter 1, 13, ), is from the Latin , ‘belonging to the house’.WEB, Domesticate, Oxford Dictionaries, Oxford University Press, 2014,www.oxforddictionaries.com/definition/english/domesticate,oxforddictionaries.com/definition/english/domesticate," title="web.archive.org/web/20120720025116oxforddictionaries.com/definition/english/domesticate,">web.archive.org/web/20120720025116oxforddictionaries.com/definition/english/domesticate, dead, July 20, 2012, The term remained loosely defined until the 21st century, when the American archaeologist Melinda A. Zeder defined it as a long-term relationship in which humans take over control and care of another organism to gain a predictable supply of a resource, resulting in mutual benefits. She noted further that it is not synonymous with agriculture, since agriculture depends on domesticated organisms, but does not automatically result from domestication.JOURNAL, Zeder, Melinda A., Melinda A. Zeder, 2015, Core questions in domestication Research, Proceedings of the National Academy of Sciences of the United States of America, 112, 11, 3191–3198, 10.1073/pnas.1501711112, 25713127, 4371924, 2015PNAS..112.3191Z, free, File:Domestication.svg|thumb|upright=2|Diagram of the process of domestication as a process where one species actively manages another to obtain resources or services, as defined by Michael D. PuruggananMichael D. PuruggananMichael D. Purugganan notes that domestication has been hard to define, despite the “instinctual consensus” that that it means “the plants and animals found under the care of humans that provide us with benefits and which have evolved under our control.” He comments that insects such as termites, ambrosia beetles, and leafcutter ants have domesticated some species of fungi, and notes further that other groups such as weeds and commensals have wrongly been called domesticated. Starting from Zeder’s definition, Purugganan proposes a “broad” definition: “a coevolutionary process that arises from a mutualism, in which one species (the domesticator) constructs an environment where it actively manages both the survival and reproduction of another species (the domesticate) in order to provide the former with resources and/or services.” He comments that this adds niche construction to the activities of the domesticator.JOURNAL, Purugganan, Michael D., Michael Purugganan, 2022, What is domestication?, Trends in Ecology & Evolution, 37, 8, 663–671, 10.1016/j.tree.2022.04.006, 35534288, free, Domestication syndrome is the suite of phenotypic traits which arose during the initial domestication process, and which distinguish crops from their wild ancestors.JOURNAL, Hammer, K., 1984, Das Domestikationssyndrom, German, Kulturpflanze, 32, 11–34, 10.1007/bf02098682, 42389667, It can also mean a set of differences now observed in domesticated animals, not necessarily reflecting the initial domestication process. The changes include increased docility and tameness, coat coloration, reductions in tooth size, craniofacial morphology, ear and tail form (e.g., floppy ears), estrus cycles, levels of adrenocorticotropic hormone and neurotransmitters, prolongations in juvenile behavior, and reductions in brain size and of particular brain regions.JOURNAL, Wilkins, Adam S., Wrangham, Richard W., Fitch, W. Tecumseh, July 2014, The ‘Domestication Syndrome’ in Mammals: A Unified Explanation Based on Neural Crest Cell Behavior and Genetics, 10.1534/genetics.114.165423, Genetics (journal), Genetics, 197, 3, 795–808, 25024034, 4096361,dash.harvard.edu/bitstream/handle/1/12717449/4096361.pdf?sequence=1, {{anchor|History of domestication}}

Cause and timing

{{further|Neolithic transition}}The domestication of animals and plants was triggered by the climatic and environmental changes that occurred after the peak of the Last Glacial Maximum and which continue to this present day. These changes made obtaining food by hunting and gathering difficult.JOURNAL, Zalloua, Pierre A., Matisoo-Smith, Elizabeth, Mapping Post-Glacial expansions: The Peopling of Southwest Asia, Scientific Reports, January 6, 2017, 7, 40338, 10.1038/srep40338, 28059138, 2045-2322, 2017NatSR...740338P, 5216412, The first animal to be domesticated was the dog at least 15,000 years ago.JOURNAL, MacHugh, David E., Larson, Greger, Orlando, Ludovic, Taming the Past: Ancient DNA and the Study of Animal Domestication, 10.1146/annurev-animal-022516-022747, Annual Review of Animal Biosciences, 5, 2017, 21991146, 27813680, 329–351, The Younger Dryas 12,900 years ago was a period of intense cold and aridity that put pressure on humans to intensify their foraging strategies but did not favour agriculture. By the beginning of the Holocene 11,700 years ago, a warmer climate and increasing human populations led to small-scale animal and plant domestication, and an increased supply of food.JOURNAL, McHugo, Gillian P., Dover, Michael J., MacHugh, David E., 2019-12-02, Unlocking the origins and biology of domestic animals using ancient DNA and paleogenomics, BMC Biology, 17, 1, 98, 10.1186/s12915-019-0724-7, 6889691, 31791340, free, {| class=“wikitable” style="margin:1em auto;“|+ Timeline of some major domestication events! Event !! Centre of origin !! Purpose !! Date/years ago

Foraging for wild grains >		| > 23,000

Dog >		Commensalism>Commensal	> 15,000

Rice >		| 13,500–8,200

Wheat, Barley >		| 13,000–11,000

Flax	Near East	Textiles	13,000–11,000{{sfn	Hopf	2012|p=139}}

Goat, Sheep, Pig, Cow >		| 11,000–10,000

Chicken >		Cockfighting >| 7,000

Horse >		Pack animal>Draft, Equestrianism	>| 5,500

The appearance of the domestic dog in the archaeological record, at least 15,000 years ago, was followed by domestication of livestock and of crops such as wheat and barley, the invention of agriculture, and the transition of humans from foraging to farming in different places and times across the planet.JOURNAL, 10.1080/00438243.2011.624747, Cultivation and domestication had multiple origins: Arguments against the core area hypothesis for the origins of agriculture in the Near East, World Archaeology, 43, 4, 628–652, 2011, Fuller, Dorian Q., Willcox, George, Allaby, Robin G., 56437102, BOOK, Zeder, Melinda A., Melinda A. Zeder, 2006, Archaeological approaches to documenting animal domestication, Documenting Domestication: New Genetic and Archaeological Paradigms, M. A., Zeder, D. G., Bradley, E., Emshwiller, B. D., Smith, 209–227, Berkeley, University of California Press, JOURNAL, Galibert, Francis, Quignon, Pascale, Hitte, Christophe, André, Catherine, 2011-03-01, Toward understanding dog evolutionary and domestication history,www.sciencedirect.com/science/article/pii/S1631069110003008, Comptes Rendus Biologies, On the trail of domestications, migrations and invasions in agriculture, 334, 3, 190–196, 10.1016/j.crvi.2010.12.011, 21377613, For instance, small-scale trial cultivation of cereals began some 28,000 years ago at the Ohalo II site in Israel.JOURNAL, Snir, Ainit, Nadel, Dani, Groman-Yaroslavski, Iris, Melamed, Yoel, Sternberg, Marcelo, Bar-Yosef, Ofer, Weiss, Ehud, The Origin of Cultivation and Proto-Weeds, Long Before Neolithic Farming, PLOS ONE, 10, 7, 2015-07-22, 26200895, 4511808, 10.1371/journal.pone.0131422, free, e0131422, In the Fertile Crescent 11,000–10,000 years ago, zooarchaeology indicates that goats, pigs, sheep, and taurine cattle were the first livestock to be domesticated. Two thousand years later, humped zebu cattle were domesticated in what is today Baluchistan in Pakistan. In East Asia 8,000 years ago, pigs were domesticated from wild boar genetically different from those found in the Fertile Crescent. The cat was domesticated in the Fertile Crescent, perhaps 10,000 years ago,JOURNAL, Driscoll, Carlos, 2009, The Taming of the Cat. Genetic and Archaeological findings hint that wildcats became housecats earlier- and in different place- than previously thought, Scientific American, 300, 6, 68–75, 10.1038/scientificamerican0609-68, April 14, 2024, 19485091, 5790555, 2009SciAm.300f..68D, from European wildcats, possibly to control rodents that were damaging stored food.JOURNAL, Driscoll, Carlos A., Menotti-Raymond, Marilyn, Roca, Alfred L., Hupe, Karsten, Johnson, Warren E., Geffen, Eli, Harley, Eric H., Delibes, Miguel, Pontier, Dominique, Kitchener, Andrew C., Yamaguchi, Nobuyuki, O’Brien, Stephen J., Macdonald, David W., 5, 2007-07-27, The Near Eastern Origin of Cat Domestication, Science, 317, 5837, 519–523, 10.1126/science.1139518, 5612713, 17600185, 2007Sci...317..519D, File:Centres of origin and spread of agriculture labelled.svg|thumb|center|upright=2.5|Centres of origin and spread of agriculture in the (Neolithic revolution]] as understood in 2003JOURNAL, 10.1126/science.1078208, Diamond, Jared, Jared Diamond, Bellwood, P., Farmers and Their Languages: The First Expansions, Science, 300, 5619, 597–603, 2003, 12714734, 2003Sci...300..597D, 10.1.1.1013.4523, 13350469, )

Animals

Desirable traits

{{further|Domestication of vertebrates}}File:Unnatural selection, 2 heads, one species.jpg |thumb |Domesticated animals tend to be smaller and less aggressive than their wild counterparts; many have other domestication syndrome traits like shorter muzzles. Skulls of grey wolf (left), chihuahua dog (right) ]]The domestication of animals is the relationship between non-human animals and humans who have influence on their care and reproduction. In his 1868 book The Variation of Animals and Plants Under Domestication, Charles Darwin recognized the small number of traits that made domestic species different from their wild ancestors. He was also the first to recognize the difference between conscious selective breeding in which humans directly select for desirable traits, and unconscious selection in which traits evolve as a by-product of natural selection or from selection on other traits.BOOK, Darwin, Charles, Charles Darwin, 1868, The Variation of Animals and Plants Under Domestication, London, John Murray, 156100686, The Variation of Animals and Plants Under Domestication, {{sfn|Diamond|2005|p=130}}JOURNAL, 10.1073/pnas.1323964111, Current perspectives and the future of domestication studies, Proceedings of the National Academy of Sciences, 111, 17, 6139–6146, 2014, Larson, G., Piperno, D. R., Allaby, R. G., Purugganan, M. D., Andersson, L., Arroyo-Kalin, M., Barton, L., Climer Vigueira, C., Denham, T., Dobney, K., Doust, A. N., Gepts, P., Gilbert, M. T. P., Gremillion, K. J., Lucas, L., Lukens, L., Marshall, F. B., Olsen, K. M., Pires, J. C., Richerson, P. J., Rubio De Casas, R., Sanjur, O. I., Thomas, M. G., Fuller, D. Q., 5, 24757054, 4035915, 2014PNAS..111.6139L, free, There is a difference between domestic and wild populations; some of these differences constitute the domestication syndrome, traits presumed essential in the early stages of domestication, while others represent later improvement traits.JOURNAL, Olsen, K. M., Wendel, J. F., 727983, 2013, A bountiful harvest: genomic insights into crop domestication phenotypes, Annual Review of Plant Biology, 64, 47–70, 10.1146/annurev-arplant-050312-120048, 23451788, JOURNAL, Doust, A. N., Lukens, L., Olsen, K. M., Mauro-Herrera, M., Meyer, A., Rogers, K., Beyond the single gene: How epistasis and gene-by-environment effects influence crop domestication, Proceedings of the National Academy of Sciences, 111, 17, 6178–6183, 2014, 10.1073/pnas.1308940110, 24753598, 4035984, 2014PNAS..111.6178D, free, Domesticated animals tend to be smaller and less aggressive than their wild counterparts; other common traits are floppy ears, a smaller brain, and a shorter muzzle.JOURNAL, Frantz, Laurent A. F., Bradley, Daniel G., Larson, Greger, Orlando, Ludovic, Animal domestication in the era of ancient genomics, 2020, Nature Reviews Genetics, 21, 8, 449–460, 10.1038/s41576-020-0225-0, 32265525, 214809393,qmro.qmul.ac.uk/xmlui/handle/123456789/66726, Domestication traits are generally fixed within all domesticates, and were selected during the initial episode of domestication of that animal or plant, whereas improvement traits are present only in a proportion of domesticates, though they may be fixed in individual breeds or regional populations.JOURNAL, 10.1038/nrg3605, 24240513, Evolution of crop species: Genetics of domestication and diversification, Nature Reviews Genetics, 14, 12, 840–852, 2013, Meyer, Rachel S., Purugganan, Michael D., 529535, Certain animal species, and certain individuals within those species, make better candidates for domestication because of their behavioral characteristics:JOURNAL, Zeder, Melinda A., Melinda A. Zeder, 2012, The domestication of animals, Journal of Anthropological Research, 68, 2, 161–190, 10.3998/jar.0521004.0068.201, 85348232, BOOK, Hale, E. B., 1969, Domestication and the evolution of behavior, The Behavior of Domestic Animals, 2nd, E. S. E., Hafez, 22–42, London, Bailliere, Tindall, and Cassell, JOURNAL, Price, Edward O., 1984, Behavioral aspects of animal domestication, Quarterly Review of Biology, 59, 1, 1–32, 2827868, 10.1086/413673, 83908518, BOOK, Price, Edward O., 2002, Animal Domestication and Behavior, Wallingford, UK, CABI Publishing,www.uesc.br/cursos/pos_graduacao/mestrado/animal/bibliografia2012/selene_artigo1_animal.pdf, February 29, 2016,www.uesc.br/cursos/pos_graduacao/mestrado/animal/bibliografia2012/selene_artigo1_animal.pdf," title="web.archive.org/web/20170517133013www.uesc.br/cursos/pos_graduacao/mestrado/animal/bibliografia2012/selene_artigo1_animal.pdf,">web.archive.org/web/20170517133013www.uesc.br/cursos/pos_graduacao/mestrado/animal/bibliografia2012/selene_artigo1_animal.pdf, May 17, 2017, dead,

1. The size and organization of their social structure
2. The availability and the degree of selectivity in their choice of mates
3. The ease and speed with which the parents bond with their young, and the maturity and mobility of the young at birth
4. The degree of flexibility in diet and habitat tolerance
5. Responses to humans and new environments, including reduced flight response and reactivity to external stimuli.

Mammals

{{further|List of domesticated animals}}File:Tibet ~ Camel Caravan (3747098653) (cropped).jpg|thumb|While dogs were commensals, and sheep were kept for food, camels, like horses and donkeys, were domesticated as working animals.]]The beginnings of animal domestication involved a protracted coevolutionary process with multiple stages along different pathways. There are three proposed major pathways that most animal domesticates followed into domestication:

1. commensals, adapted to a human niche (e.g., dogs, cats, possibly pigs)
2. prey animals sought for food (e.g., sheep, goats, cattle, water buffalo, yak, pig, reindeer, llama and alpaca)
3. animals targeted for draft and riding (e.g., horse, donkey, camel).

Humans did not intend to domesticate animals from either the commensal or prey pathways, or at least they did not envision a domesticated animal would result from it. In both of those cases, humans became entangled with these species as the relationship between them intensified, and humans’ role in their survival and reproduction led gradually to formalised animal husbandry. Although the directed pathway for draft and riding animals proceeded from capture to taming, the other two pathways are not as goal-oriented, and archaeological records suggest that they took place over much longer time frames.JOURNAL, Larson, Greger, 2013, A population genetics view of animal domestication, Trends in Genetics, 29, 4, 197–205, 10.1016/j.tig.2013.01.003, 23415592,www.palaeobarn.com/sites/domestication.org.uk/files/downloads/98.pdf, January 2, 2016, June 8, 2019,www.palaeobarn.com/sites/domestication.org.uk/files/downloads/98.pdf," title="web.archive.org/web/20190608065300www.palaeobarn.com/sites/domestication.org.uk/files/downloads/98.pdf,">web.archive.org/web/20190608065300www.palaeobarn.com/sites/domestication.org.uk/files/downloads/98.pdf, dead, Unlike other domestic species selected primarily for production-related traits, dogs were initially selected for their behaviors.BOOK, Serpell, J., Duffy, D., Dog Breeds and Their Behavior, Domestic Dog Cognition and Behavior, Alexandra, Horowitz, Berlin / Heidelberg, Springer, 2014, JOURNAL, Cagan, Alex, Blass, Torsten, Identification of genomic variants putatively targeted by selection during dog domestication, BMC Evolutionary Biology, 16, 10, 2016, 1, 10.1186/s12862-015-0579-7, 26754411, 4710014, 2016BMCEE..16...10C, free, The dog was domesticated long before other animals,JOURNAL, Perri, Angela, A wolf in dog’s clothing: Initial dog domestication and Pleistocene wolf variation, Journal of Archaeological Science, 68, 1–4, 2016, 10.1016/j.jas.2016.02.003, 2016JArSc..68....1P, becoming established across Eurasia before the end of the Late Pleistocene era, well before agriculture.JOURNAL, Larson, Greger, 2012, Rethinking dog domestication by integrating genetics, archeology, and biogeography, Proceedings of the National Academy of Sciences of the United States of America, 109, 23, 8878–8883, 22615366, 3384140, 10.1073/pnas.1203005109, 2012PNAS..109.8878L, free, The archaeological and genetic data suggest that long-term bidirectional gene flow between wild and domestic stocks – such as in donkeys, horses, New and Old World camelids, goats, sheep, and pigs – was common.JOURNAL, Larson, Greger, Fuller, Dorian Q., 2014, The Evolution of Animal Domestication, Annual Review of Ecology, Evolution, and Systematics, 45, 115–136,www.palaeobarn.com/sites/domestication.org.uk/files/downloads/112.pdf, 10.1146/annurev-ecolsys-110512-135813, 56381833, January 19, 2016, May 13, 2019,www.palaeobarn.com/sites/domestication.org.uk/files/downloads/112.pdf," title="web.archive.org/web/20190513194442www.palaeobarn.com/sites/domestication.org.uk/files/downloads/112.pdf,">web.archive.org/web/20190513194442www.palaeobarn.com/sites/domestication.org.uk/files/downloads/112.pdf, dead, JOURNAL, Marshall, F., 2013, Evaluating the roles of directed breeding and gene flow in animal domestication, Proceedings of the National Academy of Sciences of the United States of America, 111, 17, 6153–6158, 10.1073/pnas.1312984110, 24753599, 4035985, 2014PNAS..111.6153M, free, Human selection for domestic traits likely counteracted the homogenizing effect of gene flow from wild boars into pigs, and created domestication islands in the genome. The same process may apply to other domesticated animals.JOURNAL, Frantz, L., 205350534, 2015, Evidence of long-term gene flow and selection during domestication from analyses of Eurasian wild and domestic pig genomes, Nature Genetics, 47, 10, 1141–1148, 10.1038/ng.3394, 26323058, JOURNAL, Pennisi, E., Elizabeth Pennisi, 2015, The taming of the pig took some wild turns, Science, 10.1126/science.aad1692, The 2023 parasite-mediated domestication hypothesis suggests that endoparasites such as helminths and protozoa could have mediated the domestication of mammals. Domestication involves taming, which has an endocrine component; and parasites can modify endocrine activity and microRNAs. Genes for resistance to parasites might be linked to those for the domestication syndrome; it is predicted that domestic animals are less resistant to parasites than their wild relatives.JOURNAL, Skok, J., 2023a, The Parasite-Mediated Domestication Hypothesis, Agricultura Scientia, 10.18690/agricsci.20.1.1, 20, 1, 1–7, free, JOURNAL, Skok, J., 2023b, Addendum to “The parasite-mediated domestication hypothesis”, OSF, 10.31219/osf.io/f92aj, free, {{anchor|Insects}}

Birds

{{multiple image|footer=The chicken was domesticated from the red junglefowl, apparently for cockfighting, some 7,000 years ago.|total_width=400px|image1=COCK FIGHT.JPG|caption1=Cockfight in Tamil Nadu, 2011|image2=Red Junglefowl (male) - Thailand.jpg|caption2=Red junglefowl of Southeast Asia }}Domesticated birds principally mean poultry, raised for meat and eggs:DICTIONARY, Poultry, The American Heritage: Dictionary of the English Language, 4th, Houghton Mifflin Company, 2009,www.thefreedictionary.com/poultry, some Galliformes (chicken, turkey, guineafowl) and Anseriformes (waterfowl: ducks, geese, and swans). Also widely domesticated are cagebirds such as songbirds and parrots; these are kept both for pleasure and for use in research.WEB,asabirds.org/history/, Our History, Avicultural Society of America, 3 December 2023, The domestic pigeon has been used both for food and as a means of communication between far-flung places through the exploitation of the pigeon’s homing instinct; research suggests it was domesticated as early as 10,000 years ago.BOOK, Blechman, Andrew, Pigeons – The fascinating saga of the world’s most revered and reviled bird, University of Queensland Press, 2007,andrewblechman.com/pigeons/learn_more.html, 9780702236419, Chicken fossils in China have been dated to 7,400 years ago. The chicken’s wild ancestor is Gallus gallus, the red junglefowl of Southeast Asia. The species appears to have been kept initially for cockfighting rather than for food.JOURNAL, Lawler, Andrew, Adler, Jerry, How the Chicken Conquered the World,www.smithsonianmag.com/history/how-the-chicken-conquered-the-world-87583657/, Smithsonian Magazine, June 2012, June 2012,

Invertebrates

{{Further|Domestication of bees|Beekeeping|Sericulture}}Two insects, the silkworm and the western honey bee, have been domesticated for over 5,000 years, often for commercial use. The silkworm is raised for the silk threads wound around its pupal cocoon; the western honey bee, for honey, and, from the 20th century, for pollination of crops.JOURNAL, Aizen, Marcelo A., Harder, Lawrence D., The Global Stock of Domesticated Honey Bees Is Growing Slower Than Agricultural Demand for Pollination, Current Biology, 2009, 19, 11, 915–918, 10.1016/j.cub.2009.03.071, 19427214, 12353259, free, JOURNAL, Potts, Simon G., etal, Global pollinator declines: Trends, impacts and drivers, Trends in Ecology & Evolution, 2010, 25, 6, 345–353, 10.1016/j.tree.2010.01.007,www.researchgate.net/publication/41621021, 20188434, 10.1.1.693.292, Several other invertebrates have been domesticated, both terrestrial and aquatic, including some such as Drosophila melanogaster fruit flies and the freshwater cnidarian Hydra for research into genetics and physiology. Few have a long history of domestication. Most are used for food or other products such as shellac and cochineal. The phyla involved are Cnidaria, Platyhelminthes (for biological pest control), Annelida, Mollusca, Arthropoda (marine crustaceans as well as insects and spiders), and Echinodermata. While many marine molluscs are used for food, only a few have been domesticated, including squid, cuttlefish and octopus, all used in research on behaviour and neurology. Terrestrial snails in the genera Helix are raised for food. Several parasitic or parasitoidal insects including the fly Eucelatoria, the beetle Chrysolina, and the wasp Aphytis are raised for biological control. Conscious or unconscious artificial selection has many effects on species under domestication; variability can readily be lost by inbreeding, selection against undesired traits, or genetic drift, while in Drosophila, variability in eclosion time (when adults emerge) has increased.JOURNAL, Gon III, Samuel M., Price, Edward O., Invertebrate Domestication: Behavioral Considerations, BioScience, October 1984, 34, 9, 575–579, 10.2307/1309600, 1309600,www.researchgate.net/profile/Edward-Price-6/publication/240297283_Invertebrate_Domestication_Behavioral_Considerations/links/5d608a0892851c619d720388/Invertebrate-Domestication-Behavioral-Considerations.pdf, File:Cueva arana.svg|A honey hunter in a cave painting at Cuevas de la Araña, Spain, c. 8,000–6,000 BCFile:Sericuturist.jpg|Sericulturalists preparing silkworms for spinning of the silk File:02-Indian-Insect-Life - Harold Maxwell-Lefroy - Kerria-Lacca.jpg|The lac bug Kerria lacca has been kept for shellac resin.File:Snails for Sale - Djermaa el-Fna (Central Square) - Medina (Old City) - Marrakesh - Morocco.jpg|Snails being sold as food{{anchor|Plants}}

Plants

{{further|History of agriculture|List of domesticated plants}}Humans foraged for wild cereals, seeds and nuts thousands of years before they were domesticated; wild wheat and barley, for example, were gathered in the Levant at least 23,000 years ago.Weiss, E., Kislev, M.E., Simchoni, O. & Nadel, D. Small-grained wild grasses as staple food at the 23000 year old site of Ohalo II Economic Botany 58:s125-s134. Neolithic societies in West Asia first began to cultivate and then domesticate some of these plants around 13,000 to 11,000 years ago. The founder crops of the West Asian Neolithic included cereals (emmer, einkorn wheat, barley), pulses (lentil, pea, chickpea, bitter vetch), and flax.{{sfn|Zohary|Hopf|Weiss|2012|p=139}}{{sfn|Banning|2002}} Other plants were independently domesticated in 13 centers of origin (subdivided into 24 areas) of the Americas, Africa, and Asia (the Middle East, South Asia, the Far East, and New Guinea and Wallacea); in some thirteen of these regions people began to cultivate grasses and grains.{{sfn|Zohary|Hopf|Weiss|2012|p=}}BOOK, Harris, David R., The Origin and Spread of Agriculture and Pastoralism in Eurasia, London, University College London Press, 1996, 142–158, 9781857285376, Rice was first cultivated in East Asia.JOURNAL, Normile, Dennis, 1997, Yangtze seen as earliest rice site, Science, 275, 5298, 309–310, 10.1126/science.275.5298.309, 140691699, “New Archaeobotanic Data for the Study of the Origins of Agriculture in China”, Zhijun Zhao, Current Anthropology Vol. 52, No. S4, (October 2011), pp. S295-S306 Sorghum was widely cultivated in sub-Saharan Africa,BOOK, Carney, Judith, In the Shadow of Slavery, University of California Press, 2009, 9780520269965, Berkeley and Los Angeles, California, 16, while peanuts,JOURNAL, Dillehay, Tom D., Rossen, Jack, Andres, Thomas C., Williams, David E., Preceramic Adoption of Peanut, Squash, and Cotton in Northern Peru, Science, American Association for the Advancement of Science (AAAS), 316, 5833, 29 June 2007, 0036-8075, 10.1126/science.1141395, 1890–1893, 17600214, 2007Sci...316.1890D, 43033764, squash,JOURNAL, Smith, Bruce D., 15 August 2006, Eastern North America as an Independent Center of Plant Domestication, Proceedings of the National Academy of Sciences of the United States of America, 103, 33, 12223–12228, 2006PNAS..10312223S, 10.1073/pnas.0604335103, 1567861, 16894156, free, cotton, maize,JOURNAL, Piperno, Dolores R., The Origins of Plant Cultivation and Domestication in the New World Tropics: Patterns, Process, and New Developments, Current Anthropology, October 2011, 52, S4, S453–S470, 10.1086/659998, 83061925, the Central Balsas River Valley of Mexico, maize’s postulated cradle of origin ... dispersed into lower Central America by 7600 BP, potatoes,JOURNAL, Spooner, David M., McLean, Karen, Ramsay, Gavin, Waugh, Robbie, Bryan, Glenn J., 29 September 2005, A single domestication for potato based on multilocus amplified fragment length polymorphism genotyping, Proceedings of the National Academy of Sciences, 16203994, 102, 41, 1253605, 14694–14699, 10.1073/pnas.0507400102, 2005PNAS..10214694S, free, and cassavaJOURNAL, Olsen, Kenneth M., Schaal, Barbara A., Evidence on the origin of cassava: Phylogeography of Manihot esculenta, Proceedings of the National Academy of Sciences, 96, 10, 1999-05-11, 0027-8424, 10.1073/pnas.96.10.5586, 5586–5591, 10318928, 21904, 1999PNAS...96.5586O, free, were domesticated in the Americas.Continued domestication was gradual and geographically diffuse – happening in many small steps and spread over a wide area – on the evidence of both archaeology and genetics.JOURNAL, Gross, Briana L., Olsen, Kenneth M., Genetic perspectives on crop domestication, Trends in Plant Science, 15, 9, 2010, 1360-1385, 10.1016/j.tplants.2010.05.008, 529–537, 20541451, 2939243, It was a process of intermittent trial and error, and often resulted in diverging traits and characteristics.JOURNAL, Hughes, Aoife, Oliveira, H. R., Fradgley, N., Corke, F., Cockram, J., Doonan, J. H., Nibau, C., March 14, 2019, μCT trait analysis reveals morphometric differences between domesticated temperate small grain cereals and their wild relatives, The Plant Journal, 99, 1, 98–111, 10.1111/tpj.14312, 6618119, 30868647, Whereas domestication of animals impacted most on the genes that controlled behavior, that of plants impacted most on the genes that controlled morphology (seed size, plant architecture, dispersal mechanisms) and physiology (timing of germination or ripening), as in the domestication of wheat. Wild wheat shatters and falls to the ground to reseed itself when ripe, but domesticated wheat stays on the stem for easier harvesting. This change was possible because of a random mutation in the wild populations at the beginning of wheat’s cultivation. Wheat with this mutation was harvested more frequently and became the seed for the next crop. Therefore, without realizing, early farmers selected for this mutation. The result is domesticated wheat, which relies on farmers for its reproduction and dissemination.JOURNAL, Purugganan, Michael D., Fuller, Dorian Q., The nature of selection during plant domestication, Nature, 457, 7231, February 1, 2009, 0028-0836, 10.1038/nature07895,www.researchgate.net/profile/Dorian-Fuller/publication/24003450_Purugganan_MD_Fuller_DQ_The_nature_of_selection_during_plant_domestication_Nature_457_843-848/links/0912f508156a26ca22000000/Purugganan-MD-Fuller-DQ-The-nature-of-selection-during-plant-domestication-Nature-457-843-848.pdf, 843–848, 19212403, 2009Natur.457..843P, 205216444, File:Maler der Grabkammer des Menna 012.jpg|Farmers with wheat and cattle – Ancient Egyptian art 3,400 years agoFile:Harold f Weston - Iran11.jpg|Wild wheat ears shatter when ripe, but domesticated wheat has to be threshed and winnowed (as shown) to release and separate the grain. Photograph by Harold Weston, Iran, 1920s

Differences from wild plants

File:Usdaeinkorn1 Triticum monococcum.jpg|thumb|upright=0.8|Einkorn wheat shatters into individual spikelets, making harvesting difficult. Domesticated cereals do not (Shattering (agriculture)|shatter]].Snir, Ainit and Weiss, Ehud 2014 A novel morphometric method for differentiating wild and domesticated barley through intra-rachis measurements, Journal of Archaeological Science 44: 69-75,doi.org/10.1016/j.jas.2014.01.014)Domesticated plants differ from their wild relatives in many ways, including

• lack of shattering such as of cereal ears (ripe heads), loss of fruit abscission
• less efficient breeding system (e.g. without normal pollinating organs, making human intervention a requirement), larger seeds with lower success in the wild, or even sterility (e.g. seedless fruits) and therefore only vegetative reproductionBOOK, Agusti, Manuel, Primo-Millo, Eduardo, 2020, The Genus Citrus,www.sciencedirect.com/science/article/pii/B9780128121634000115, Woodhead Publishing, 219–244, 978-0-12-812163-4, JOURNAL, Perrier, Xavier, Bakry, Frédéric, Carreel, Françoise, Jenny, Christophe, Horry, Jean-Pierre, Lebot, Vincent, Hippolyte, Isabelle, 3, Combining Biological Approaches to Shed Light on the Evolution of Edible Bananas, Ethnobotany Research & Applications, 2009, 7, 199–216,journals.sfu.ca/era/index.php/era/article/download/362/231, 10.17348/era.7.0.199-216, 10125/12515, October 27, 2019, November 16, 2019,journals.sfu.ca/era/index.php/era/article/download/362/231," title="web.archive.org/web/20191116055142journals.sfu.ca/era/index.php/era/article/download/362/231,">web.archive.org/web/20191116055142journals.sfu.ca/era/index.php/era/article/download/362/231, live, free, free,
• better palatability (e.g. higher sugar content, reduced bitterness), better smell, and lower toxicityJOURNAL, Wu, Yuye, Guo, Tingting, Mu, Qi, Wang, Jinyu, Li, Xin, Wu, Yun, Tian, Bin, Wang, Ming Li, Bai, Guihua, Perumal, Ramasamy, Trick, Harold N., 3, December 2019, Allelochemicals targeted to balance competing selections in African agroecosystems,www.nature.com/articles/s41477-019-0563-0, Nature Plants, 5, 12, 1229–1236, 10.1038/s41477-019-0563-0, 31792396, 208539527, 2055-0278,
• edible part larger, e.g. cereal grainsJOURNAL, Kantar, Michael B., Tyl, Catrin E., Dorn, Kevin M., Zhang, Xiaofei, Jungers, Jacob M., Kaser, Joe M., Schendel, Rachel R., Eckberg, James O., Runck, Bryan C., Bunzel, Mirko, Jordan, Nick R., Stupar, Robert M., Marks, M. David, Anderson, James A., Johnson, Gregg A., Sheaffer, Craig C., Schoenfuss, Tonya C., Ismail, Baraem, Heimpel, George E., Wyse, Donald L., 3, Perennial Grain and Oilseed Crops, Annual Review of Plant Biology, Annual Reviews (publisher), Annual Reviews, 67, 1, 2016-04-29, 1543-5008, 10.1146/annurev-arplant-043015-112311, 703–729, 26789233, free, or fruitsJOURNAL, Lenser, Teresa, Theißen, Günter, Molecular mechanisms involved in convergent crop domestication, Trends in Plant Science, Cell Press, 18, 12, 2013, 1360-1385, 10.1016/j.tplants.2013.08.007, 704–714, 24035234,
• edible part more easily separated from non-edible part
• increased number of fruits or grains
• altered color, taste, and texture
• daylength independence
• determinate growth
• reduced or no vernalization
• less seed dormancy.

Plant defences against herbivory, such as thorns, spines, and prickles, poison, protective coverings and sturdiness, may have been reduced in domesticated plants. This would make them more likely to be eaten by herbivores unless protected by humans, but there is only weak support for most of this. Farmers did select for reduced bitterness and lower toxicity, and for food quality, which likely increased crop palatability to herbivores as to humans.JOURNAL, Milla, Rubén, Osborne, Colin P., Turcotte, Martin M., Violle, Cyrille, Plant domestication through an ecological lens, Trends in Ecology & Evolution, Elsevier BV, 30, 8, 2015, 0169-5347, 10.1016/j.tree.2015.06.006, 463–469, 26138385, However survey of 29 plant domestications found that crops were as well-defended against two major insect pests (beet armyworm and green peach aphid) both chemically (e.g. with bitter substances) and morphologically (e.g. with toughness) as their wild ancestors.JOURNAL, Turcotte, Martin M., Turley, Nash E., Johnson, Marc T. J., The impact of domestication on resistance to two generalist herbivores across 29 independent domestication events, New Phytologist, Wiley, 204, 3, 18 July 2014, 0028-646X, 10.1111/nph.12935, 671–681, 25039644, free,

Changes to plant genome

File:Polyploid wheat origins.svg|thumb|upright=2|Domesticated wheat evolved by repeated hybridization and polyploidypolyploidyDuring domestication, crop species undergo intense artificial selection that alters their genomes, establishing core traits that define them as domesticated, such as increased grain size.JOURNAL, Gepts, Paul, Crop Domestication as a long-term selection experiment, Plant Breeding Reviews, 2004, 24, 2,www.plantsciences.ucdavis.edu/gepts/LTS.pdf, Comparison of the coding DNA of chromosome 8 in rice between fragrant and non-fragrant varieties showed that aromatic and fragrant rices, including basmati and jasmine, are derived from an ancestral rice domesticate that suffered a deletion in exon 7 which altered the coding for betaine aldehyde dehydrogenase (BADH2).JOURNAL, Shao, G., A., Tang, S. Q., Tang, J., Luo, G. A., Jiao, J. L., Wu, P. S., Hu, A new deletion mutation of fragrant gene and the development of three molecular markers for fragrance in rice, Plant Breeding, April 2011, 130, 2, 2, 10.1111/j.1439-0523.2009.01764.x, 172–176, Comparison of the potato genome with that of other plants located genes for resistance to potato blight caused by Phytophthora infestans.JOURNAL, The Potato Genome Sequencing Consortium, Genome sequence and analysis of the tuber crop potato, Nature, July 2011, 475, 10.1038/nature10158, 7355, 21743474, 189–195, free, In coconut, genomic analysis of 10 microsatellite loci (of noncoding DNA) found two episodes of domestication based on differences between individuals in the Indian Ocean and those in the Pacific Ocean.JOURNAL, Gunn, Bee, Luc, Baudouin, Kenneth M., Olsen, Independent Origins of Cultivated Coconut (Cocos nucifera L.) in the Old World Tropics, PLOS ONE, 2011, 6, 6, 10.1371/journal.pone.0021143, 21731660, 3120816, e21143, 2011PLoSO...621143G, free, JOURNAL, Zeder, Melinda, Eve, Emshwiller, Bruce D., Smith, Daniel G., Bradley, Documenting domestication: the intersection of genetics and archaeology, Trends in Genetics, March 2006, 22, 3, 10.1016/j.tig.2006.01.007,www.cell.com/trends/genetics/abstract/S0168-9525(06)00026-6, 28 November 2011, 16458995, 139–55, The coconut experienced a founder effect, where a small number of individuals with low diversity founded the modern population, permanently losing much of the genetic variation of the wild population. Population bottlenecks which reduced variation throughout the genome at some later date after domestication are evident in crops such as pearl millet, cotton, common bean and lima bean.In wheat, domestication involved repeated hybridization and polyploidy. These steps are large and essentially instantaneous changes to the genome and the epigenome, enabling a rapid evolutionary response to artificial selection. Polyploidy increases the number of chromosomes, bringing new combinations of genes and alleles, which in turn enable further changes such as by chromosomal crossover.JOURNAL, Golovnina, K. A., Glushkov, S. A., Blinov, A. G., Mayorov, V. I., Adkison, L. R., Goncharov, N. P., Molecular phylogeny of the genus Triticum L, Plant Systematics and Evolution, Springer, 264, 3–4, 2007-02-12, 0378-2697, 10.1007/s00606-006-0478-x, 195–216, 2007PSyEv.264..195G, 39102602,

Impact on plant microbiome

The microbiome, the collection of microorganisms inhabiting the surface and internal tissue of plants, is affected by domestication. This includes changes in microbial species compositionJOURNAL, Mutch, Lesley A., Young, J. Peter W., 2004, Diversity and specificity of Rhizobium leguminosarum biovar viciae on wild and cultivated legumes,onlinelibrary.wiley.com/doi/abs/10.1111/j.1365-294X.2004.02259.x, Molecular Ecology, 13, 8, 2435–2444, 10.1111/j.1365-294X.2004.02259.x, 15245415, 2004MolEc..13.2435M, 1123490, 1365-294X, JOURNAL, Kiers, E. Toby, Hutton, Mark G., Denison, R. Ford, December 22, 2007, Human selection and the relaxation of legume defences against ineffective rhizobia, Proceedings of the Royal Society B: Biological Sciences, 274, 1629, 3119–3126, 10.1098/rspb.2007.1187, 2293947, 17939985, JOURNAL, Abdelfattah, Ahmed, Tack, Ayco J. M., Wasserman, Birgit, Liu, Jia, Berg, Gabriele, Norelli, John, Droby, Samir, Wisniewski, Michael, 5, Evidence for host–microbiome co-evolution in apple, New Phytologist, 2021, 234, 6, 2088–2100, 10.1111/nph.17820, 34823272, 9299473, 244661193, 1469-8137, and diversity.JOURNAL, Coleman-Derr, Devin, Desgarennes, Damaris, Fonseca-Garcia, Citlali, Gross, Stephen, Clingenpeel, Scott, Woyke, Tanja, North, Gretchen, Visel, Axel, Partida-Martinez, Laila P., Tringe, Susannah G., 5, 2016, Plant compartment and biogeography affect microbiome composition in cultivated and native Agave species, New Phytologist, 209, 2, 798–811, 10.1111/nph.13697, 1469-8137, 5057366, 26467257, Plant lineage, including speciation, domestication, and breeding, have shaped plant endophytes (phylosymbiosis) in similar patterns as plant genes.JOURNAL, Bouffaud, Marie-Lara, Poirier, Marie-Andrée, Muller, Daniel, Moënne-Loccoz, Yvan, 3, 2014, Root microbiome relates to plant host evolution in maize and other Poaceae,onlinelibrary.wiley.com/doi/abs/10.1111/1462-2920.12442, Environmental Microbiology, 16, 9, 2804–2814, 10.1111/1462-2920.12442, 24588973, 2014EnvMi..16.2804B, 1462-2920, JOURNAL, Abdullaeva, Yulduzkhon, Ambika Manirajan, Binoy, Honermeier, Bernd, Schnell, Sylvia, Cardinale, Massimiliano, 3, July 1, 2021, Domestication affects the composition, diversity, and co-occurrence of the cereal seed microbiota, Journal of Advanced Research, 31, 75–86, 34194833, 10.1016/j.jare.2020.12.008, 8240117, 2090-1232, JOURNAL, Favela, Alonso, O. Bohn, Martin, D. Kent, Angela, August 2021, Maize germplasm chronosequence shows crop breeding history impacts recruitment of the rhizosphere microbiome, The ISME Journal, 15, 8, 2454–2464, 10.1038/s41396-021-00923-z, 33692487, 8319409, 2021ISMEJ..15.2454F, 1751-7370,

Fungi

{{further|List of domesticated fungi and microorganisms}}File:20161028-AMS-LSC-0500 (30202109333).jpg|thumb|Cultivated mushrooms are widely grown for food.]]Several species of fungi have been domesticated for use directly as food, or in fermentation to produce foods and drugs. The cultivated mushroom Agaricus bisporus is widely grown for food.WEB,www.mushroomexpert.com/agaricus_bisporus.html, Agaricus bisporus: The Button Mushroom, MushroomExpert.com, March 25, 2017, The yeast Saccharomyces cerevisiae have been used for thousands of years to ferment beer and wine, and to leaven bread.JOURNAL, Legras, Jean-Luc, Merdinoglu, Didier, Cornuet, Jean-Marie, Karst, Francis, Bread, beer and wine: Saccharomyces cerevisiae diversity reflects human history, Molecular Ecology, 16, 10, 2091–2102, 2007, 10.1111/j.1365-294X.2007.03266.x, 17498234, 2007MolEc..16.2091L, 13157807, Mould fungi including Penicillium are used to mature cheeses and other dairy products, as well as to make drugs such as antibiotics.WEB,www.acs.org/content/acs/en/pressroom/newsreleases/2008/june/pfizers-work-on-penicillin-for-world-war-ii-becomes-a-national-historic-chemical-landmark.html, June 12, 2008, Pfizer’s work on penicillin for World War II becomes a National Historic Chemical Landmark, American Chemical Society,

Effects

On domestic animals

Selection of animals for visible traits may have undesired consequences for the genetics of domestic animals.BOOK, Berry, R. J., The Genetical Implications of Domestication in Animals, Ucko, Peter J., Dimbleby, G. W., The Domestication and Exploitation of Plants and Animals, Aldine, Chicago, 1969, 207–217, A side effect of domestication has been zoonotic diseases. For example, cattle have given humanity various viral poxes, measles, and tuberculosis; pigs and ducks have contributed influenza; and horses have brought the rhinoviruses. Many parasites, too, have their origins in domestic animals.{{sfn|Diamond|2005|pp=198, 213}} Alongside these, the advent of domestication resulted in denser human populations which provided ripe conditions for pathogens to reproduce, mutate, spread, and eventually find a new host in humans.JOURNAL, Caldararo, Niccolo Leo, 87639702, 2012, Evolutionary Aspects of Disease Avoidance: The Role of Disease in the Development of Complex Society, SSRN Working Paper Series,www.ssrn.com/abstract=2001098, 10.2139/ssrn.2001098, 1556-5068,

On society

Scholars have expressed widely differing viewpoints on domestication’s effects on society. Anarcho-primitivism critiques domestication as destroying the supposed primitive state of harmony with nature in hunter-gatherer societies, and replacing it, possibly violently or by enslavement, with a social hierarchy as property and power emerged.JOURNAL, Boyden, Stephen Vickers, ES&T Books, Environmental Science & Technology, 8, 1992, supplement 173, 665, 10.1021/es00028a604, 1992EnST...26..665., The dialectal naturalist Murray Bookchin has argued that domestication of animals in turn meant the domestication of humanity, both parties being unavoidably altered by their relationship with each other.BOOK, Bookchin, Murray, The Philosophy of Social Ecology, AK Press, 2022, 3rd, 9781849354400, 85–87, The sociologist David Nibert asserts that the domestication of animals involved violence against animals and damage to the environment. This in turn, he argues, corrupted human ethics, and paved the way for “conquest, extermination, displacement, repression, coerced and enslaved servitude, gender subordination and sexual exploitation, and hunger.“BOOK, Nibert, David, 2013, Animal Oppression and Human Violence: Domesecration, Capitalism, and Global Conflict,cup.columbia.edu/book/animal-oppression-and-human-violence/9780231151894, Columbia University Press, 1–5, 9780231151894,

On diversity

{{further|Sustainable agriculture}}(File:Wheat harvest.jpg|thumb|Industrialized agriculture on land with a simplified ecosystem)Domesticated ecosystems provide food, reduce predator and natural dangers, and promote commerce, but their creation has resulted in habitat alteration or loss, and multiple extinctions commencing in the Late Pleistocene.JOURNAL, Boivin, Nicole L., Zeder, Melinda A., Fuller, Dorian Q., Crowther, Alison, Larson, Greger, Erlandson, Jon M., Denham, Tim, Petraglia, Michael D., 3, Ecological consequences of human niche construction: Examining long-term anthropogenic shaping of global species distributions, Proceedings of the National Academy of Sciences, 113, 23, 6388–6396, 2016, 10.1073/pnas.1525200113, 27274046, 4988612, 2016PNAS..113.6388B, free, Domestication reduces genetic diversity of the domesticated population, especially of alleles of genes targeted by selection.JOURNAL, Flint-Garcia, Sherry A., 2013-09-04, Genetics and Consequences of Crop Domestication,pubs.acs.org/doi/10.1021/jf305511d, Journal of Agricultural and Food Chemistry, 61, 35, 8267–8276, 10.1021/jf305511d, 23718780, 0021-8561, One reason is a population bottleneck created by artificially selecting the most desirable individuals to breed from. Most of the domesticated strain is then born from just a few ancestors, creating a situation similar to the founder effect.JOURNAL, Brown, Terence A., April 2019, Is the domestication bottleneck a myth?,www.nature.com/articles/s41477-019-0404-1, Nature Plants, 5, 4, 337–338, 10.1038/s41477-019-0404-1, 30962526, 102353100, Domesticated populations such as of dogs, rice, sunflowers, maize, and horses have an increased mutation load, as expected in a population bottleneck where genetic drift is enhanced by the small population size. Mutations can also be fixed in a population by a selective sweep.JOURNAL, Allaby, Robin G., Ware, Roselyn L., Kistler, Logan, January 2019, A re-evaluation of the domestication bottleneck from archaeogenomic evidence, Evolutionary Applications, 12, 1, 29–37, 10.1111/eva.12680, 6304682, 30622633, 2019EvApp..12...29A, JOURNAL, Shepherd, Lara D., Lange, Peter J. de, Cox, Simon, McLenachan, Patricia A., Roskruge, Nick R., Lockhart, Peter J., 2016-03-24, Evidence of a Strong Domestication Bottleneck in the Recently Cultivated New Zealand Endemic Root Crop, Arthropodium cirratum (Asparagaceae), PLOS ONE, 11, 3, e0152455, 10.1371/journal.pone.0152455, 4806853, 27011209, 2016PLoSO..1152455S, free, Mutational load can be increased by reduced selective pressure against moderately harmful traitswhen reproductive fitness is controlled by human management. However, there is evidence against a bottleneck in crops, such as barley, maize, and sorghum, where genetic diversity slowly declined rather than showing a rapid initial fall at the point of domestication. Further, genetic diversity of these crops was regularly replenished from the natural population. Similar evidence exists for horses, pigs, cows, and goats.

Domestication by insects

At least three groups of insects, namely ambrosia beetles, leafcutter ants, and termites, have domesticated species of fungi.

Ambrosia beetles

{{further|Ambrosia beetle}}Ambrosia betles in the weevil subfamilies Scolytinae and Platypodinae excavate tunnels in dead or stressed trees into which they introduce fungal gardens, their sole source of nutrition. After landing on a suitable tree, an ambrosia beetle excavates a tunnel in which it releases its fungal symbiont. The fungus penetrates the plant’s xylem tissue, extracts nutrients from it, and concentrates the nutrients on and near the surface of the beetle gallery. Ambrosia fungi are typically poor wood degraders, and instead utilize less demanding nutrients.JOURNAL, Kasson, Matthew T., Wickert, Kristen L., Stauder, Cameron M., Macias, Angie M., Berger, Matthew C., Simmons, D. Rabern, Short, Dylan P. G., DeVallance, David B., Hulcr, Jiri, Mutualism with aggressive wood-degrading Flavodon ambrosius (Polyporales) facilitates niche expansion and communal social structure in Ambrosiophilus ambrosia beetles, Fungal Ecology, October 2016, 23, 86–96, 10.1016/j.funeco.2016.07.002, free, Symbiotic fungi produce and detoxify ethanol, which is an attractant for ambrosia beetles and likely prevents growth of antagonistic pathogens and selects for other beneficial symbionts.JOURNAL, Ranger, Christopher M., Biedermann, Peter H. W., Phuntumart, Vipaporn, Beligala, Gayathri U., Ghosh, Satyaki, Palmquist, Debra E., Mueller, Robert, Barnett, Jenny, Schultz, Peter B., Reding, Michael E., Benz, J. Philipp, Symbiont selection via alcohol benefits fungus farming by ambrosia beetles, Proceedings of the National Academy of Sciences, 24 April 2018, 115, 17, 4447–4452, 10.1073/pnas.1716852115, 5924889, 29632193, 2018PNAS..115.4447R, free, Ambrosia beetles mainly colonise wood of recently dead trees.JOURNAL, Hulcr, Jiri, Stelinski, Lukasz L., The Ambrosia Symbiosis: From Evolutionary Ecology to Practical Management, Annual Review of Entomology, 31 January 2017, 62, 285–303, 10.1146/annurev-ento-031616-035105, 27860522, free,

Leafcutter ants

{{further|Leafcutter ant}}The leafcutter ants are any of some 47 species of leaf-chewing ant in the genera Acromyrmex and Atta. The ants carry the discs of leaves that they have cut back to their nest, where they feed the leaf material to the fungi that they tend. Some of these fungi are not fully domesticated: the fungi farmed by Mycocepurus smithii constantly produce spores which are not useful to the ants, which eat fungal hyphae instead. The process of domestication by Atta ants, on the other hand, is complete; it took 30 million years.JOURNAL, Shik, Jonathan Z., Gomez, Ernesto B., Kooij, Pepijn W., Santos, Juan C., Wcislo, William T., Boomsma, Jacobus J., Nutrition mediates the expression of cultivar–farmer conflict in a fungus-growing ant, Proceedings of the National Academy of Sciences, 113, 36, 6 September 2016, 0027-8424, 27551065, 5018747, 10.1073/pnas.1606128113, 10121–10126,

Termites

{{further|Termite}}Termites eat decaying plant material such as wood, leaf litter, and soil humus. Many species of termite have a specialised midgut with enzymes able to break down cellulose fibre.JOURNAL, Tokuda, G., Watanabe, H., Matsumoto, T., Noda, H., Cellulose digestion in the wood-eating higher termite, Nasutitermes takasagoensis (Shiraki): distribution of cellulases and properties of endo-beta-1,4-glucanase, Zoological Science, 1997, 14, 1, 83–93, 10.2108/zsj.14.83, 9200983, 2877588, free, Termites rely primarily upon a symbiotic microbial community that includes bacteria, flagellate protists such as metamonads and hypermastigids. This community provides the enzymes that digests the cellulose, allowing the insects to absorb the end products for their own use.JOURNAL, Ikeda-Ohtsubo, W., Brune, A., Cospeciation of termite gut flagellates and their bacterial endosymbionts: Trichonympha species and Candidatus Endomicrobium trichonymphae, Molecular Ecology, 2009, 18, 2, 332–342, 10.1111/j.1365-294X.2008.04029.x, 19192183, 2009MolEc..18..332I, 28048145, JOURNAL, Slaytor, M., Cellulose digestion in termites and cockroaches: What role do symbionts play?, Comparative Biochemistry and Physiology B, 1992, 103, 4, 775–784, 10.1016/0305-0491(92)90194-V, File:Xylosandrus crassiusculus galleryR.jpg|Gallery of the ambrosia beetle Xylosandrus crassiusculus split open, with pupae and black fungus. The fungus decomposes materials in the wood, providing food for the beetles.File:leaf cutter ants arp.jpg|Leafcutter ants Atta cephalotes carrying discs of leaf material back to their nest to feed to their domesticated fungusFile:Reticulitermes speratus Colony01.jpg|Nest of the wood-eating termite ReticulitermesFile:Prot flag trichonymphid 2 reticulotermes.jpg|Trichonymphid flagellate from the gut of the termite Reticulitermes assists with the digestion of wood.

See also

{{colbegin}}

• Anthrozoology
• De novo domestication
• Domestication theory
• Experimental evolution
• Genetic erosion
• Self-domestication
• Timeline of agriculture and food technology

{{colend}}{{-}}

References

{{reflist|30em}}

Sources

• ENCYCLOPEDIA, Banning, Edward B., 2002, Aceramic Neolithic, Encyclopedia of Prehistory, Volume 8: South and Southwest Asia, Kluwer Academic/Plenum Publishers, Peregrine, Peter N., Ember, Melvin,
• BOOK, Diamond, Jared, Jared Diamond, Guns, Germs, and Steel: A short history of everybody for the last 13,000 years, 2005, 1997, Chatto & Windus, London, 9780099302780, Guns, Germs, and Steel,
• MAGAZINE, Hare, Brian, Brian Hare, Vanessa Woods, Woods, Vanessa, Survival of the Friendliest: Natural selection for hypersocial traits enabled Earth’s apex species to best Neandertals and other competitors, Scientific American, 323, 2, August 2020, 58–63, none,
• JOURNAL, Hayden, Brian, 162526285, 2003, Were luxury foods the first domesticates? Ethnoarchaeological perspectives from Southeast Asia, World Archaeology, 34, 3, 458–469, 10.1080/0043824021000026459a, none,
• BOOK, Marciniak, Arkadiusz, 2005, Placing Animals in the Neolithic: Social Zooarchaeology of Prehistoric Farming Communities,books.google.com/books?id=UnQwyhdi64oC&pg=PA1RDAN, London, UCL Press, 9781844720927, none,
• BOOK, Zohary, Daniel, Daniel Zohary, Hopf, Maria, Weiss, Ehud, 2012, Domestication of Plants in the Old World, 4, Oxford, Oxford University Press, 10.1093/acprof:osobl/9780199549061.001.0001, 9780199549061,

External links

• Crop Wild Relative Inventory and Gap Analysis: reliable information source on where and what to conserve ex-situ, for crop genepools of global importance
• Discussion of animal domestication with Jared Diamond
• The Initial Domestication of Cucurbita pepo in the Americas 10,000 Years Ago
• Cattle domestication diagram {{Webarchive |url=https://web.archive.org/web/20101219082134www.geochembio.com/biology/organisms/cattle/ |date=December 19, 2010}}
• Major topic ‘domestication’: free full-text articles (more than 100 plus reviews) in National Library of Medicine

{{Prehistoric technology}}{{Animal domestication}}{{Authority control}}