Abstract
The organism is one of the fundamental concepts of biology and has been at the center of many discussions about biological individuality, yet what exactly it is can be confusing. The definition that we find generally useful is that an organism is a unit in which all the subunits have evolved to be highly cooperative, with very little conflict. We focus on how often organisms evolve from two or more formerly independent organisms. Two canonical transitions of this type—replicators clustered in cells and endosymbiotic organelles within host cells—demonstrate the reality of this kind of evolutionary transition and suggest conditions that can favor it. These conditions include co-transmission of the partners across generations and rules that strongly regulate and limit conflict, such as a fair meiosis. Recently, much attention has been given to associations of animals with microbes involved in their nutrition. These range from tight endosymbiotic associations like those between aphids and Buchnera bacteria, to the complex communities in animal intestines. Here, starting with a reflection about identity through time (which we call “Theseus’s fish”), we consider the distinctions between these kinds of animal–bacteria interactions and describe the criteria by which a few can be considered jointly organismal but most cannot.
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References
Ahmed MZ et al (2015) The intracellular bacterium Wolbachia uses parasitoid wasps as phoretic vectors for efficient horizontal transmission. PLoS Pathog 11:e1004672
Archibald JM (2015) Endosymbiosis and eukaryotic cell evolution. Curr Biol 25:R911–R921
Beekman M, Ratnieks FLW (2003) Power over reproduction in social Hymenoptera. Phil Trans R Soc Lond B 358:1741–1753
Bordenstein SR, Theis KR (2015) Host biology in light of the microbiome: ten principles of holobionts and hologenomes. PLoS Biol 13:e1002226
Bosch TC, Miller DJ (2016) The holobiont imperative: perspectives from early emerging animals. Springer, Vienna
Brandvain Y, Coop G (2015) Sperm should evolve to make female meiosis fair. Evolution 69:1004–1014
Bronstein JL (1998) The contribution of ant-plant protection studies to our understanding of mutualism. Biotropica 30:150–161
Bronstein JL (2015) Mutualism. Oxford University Press, Oxford
Brusca RC, Gilligan MR (1983) Tongue replacement in a marine fish (Lutjanus guttatus) by a parasitic isopod (Crustacea: Isopoda). Copeia 1983:813–816
Bull JJ, Rice WR (1991) Distinguishing mechanisms for the evolution of cooperation. J Theor Biol 149:63–74
Burns AR, Stephens WZ, Stagaman K, Wong S, Rawls JF, Guillemin K, Bohannan BJ (2016) Contribution of neutral processes to the assembly of gut microbial communities in the zebrafish over host development. ISME J 10:655–664
Burt A, Trivers R (2006) Genes in conflict: the biology of selfish genetic elements. Belknap Press of Harvard University Press, Cambridge
Buss LW (1987) The evolution of individuality. Princeton University Press, Princeton
Chapuisat M, Sundström L, Keller L (1997) Sex-ratio regulation: the economics of fratricide in ants. Proc R Soc Lond B 264:1255–1260
Chase CD (2007) Cytoplasmic male sterility: a window to the world of plant mitochondrial–nuclear interactions. Trends Genet 23:81–90
Connor RC (1986) Pseudo-reciprocity: investing in mutualism. Anim Behav 34:1562–1584
Coyte KZ, Schluter J, Foster KR (2015) The ecology of the microbiome: networks, competition, and stability. Science 350:663–666
Czechowski W, Godzińska E (2015) Enslaved ants: not as helpless as they were thought to be. Insect Soc 62:9–22
Dale C, Moran NA (2006) Molecular interactions between bacterial symbionts and their hosts. Cell 126:453–465
David LA et al (2014) Diet rapidly and reproducibly alters the human gut microbiome. Nature 505:559–563
Davies NB (2010) Cuckoos, cowbirds and other cheats. A&C Black, London
Douglas AE (2008) Conflict, cheats and the persistence of symbioses. New Phytol 177:849–858
Douglas AE (2010) The symbiotic habit. Princeton University Press, Princeton
Douglas AE, Werren JH (2016) Holes in the hologenome: why host-microbe symbioses are not holobionts. mBio 7:e02099-15
Estrela S, Kerr B, Morris JJ (2016) Transitions in individuality through symbiosis. Curr Opin Microbiol 31:191–198
Foster KR (2011) The sociobiology of molecular systems. Nat Rev Genet 12:193–203
Foster KR, Wenseleers T (2006) A general model for the evolution of mutualisms. J Evol Biol 19:1283–1293
Godfrey-Smith P (2013) Darwinian individuals. In: Bouchard F, Huneman P (eds) From groups to individuals: evolution and emerging individuality. MIT Press, Cambridge, pp 17–36
Gordon J, Knowlton N, Relman DA, Rohwer F, Youle M (2010) Superorganisms and holobionts. Microbe 8:152–153
Gray MW (1993) Origin and evolution of organelle genomes. Curr Opin Gen Evol 3:884–890
Grosberg RK, Strathmann RR (2007) The evolution of multicellularity: a minor major transition. An Rev Ecol Evol Syst 38:621–654
Herre E, Knowlton N, Mueller U, Rehner S (1999) The evolution of mutualisms: exploring the paths between conflict and cooperation. Trends Ecol Evol 14:49–53
Hester ER, Barott KL, Nulton J, Vermeij MJ, Rohwer FL (2016) Stable and sporadic symbiotic communities of coral and algal holobionts. ISME J 10:1157–1169
Hughes W, Oldroyd B, Beekman M, Ratnieks F (2008) Ancestral monogamy shows kin selection is key to the evolution of eusociality. Science 320:1213–1216
Hull DL (1978) A matter of individuality. Philos Sci 45:335–360
Joca LK, Leray VL, Zigler KS, Brusca RC (2015) A new host and reproduction at a small size for the “snapper-choking isopod” Cymothoa excisa (Isopoda: Cymothoidae). J Crustacean Biol 35:292–294
Kaltenpoth M, Goettler W, Koehler S, Strohm E (2010) Life cycle and population dynamics of a protective insect symbiont reveal severe bottlenecks during vertical transmission. Evol Ecol 24:463–477
Khosravi A, Mazmanian SK (2013) Disruption of the gut microbiome as a risk factor for microbial infections. Cur Opin Microbiol 16:221–227
Kiers ET, Rousseau RA, West SA, Denison RF (2003) Host sanctions and the legume-Rhizobiium mutualism. Nature 425:78–81
Langmore N et al (2005) The evolution of egg rejection by cuckoo hosts in Australia and Europe. Behav Ecol 16:686–692
Leggat W et al (2007) The hologenome theory disregards the coral holobiont. Nat Rev Microbiol 5. doi:10.1038/nrmicro1635-c1
Leigh EGJ (2010) The evolution of mutualism. J Evol Biol 23:2507–2528
Ley RE, Lozupone CA, Hamady M, Knight R, Gordon JI (2008) Worlds within worlds: evolution of the vertebrate gut microbiota. Nat Rev Microbiol 6:776–788
Lindholm AK et al (2016) The ecology and evolutionary dynamics of meiotic drive. Trends Ecol Evol 31:315–326
Margulis L (1991) Symbiogenesis and symbionticism. In: Margulis L, Fester R (eds) Symbiosis as a source of evolutionary innovation. MIT Press, Cambridge, pp 1–14
Maynard Smith J, Szathmáry E (1995) The major transitions in evolution. W. H. Freeman, Oxford
McCutcheon JP, Moran NA (2012) Extreme genome reduction in symbiotic bacteria. Nat Rev Microbiol 10:13–26
McNally L, Brown SP (2016) Microbiome: ecology of stable gut communities. Nat Microbiol 1:15016
Meyer-Abich A (1950) Beiträge zur theorie der evolution der organismen: typensynthese durch holobiose. E.J. Brill, Leiden
Michod RE (1999) Darwinian dynamics: evolutionary transitions in fitness and individuality. Princeton University Press, Princeton
Mikaelyan A, Dietrich C, Köhler T, Poulsen M, Sillam-Dusses D, Drune A (2015) Diet is the primary determinant of bacterial community structure in the guts of higher termites. Mol Ecol 24:5284–5295
Mooring MS, Mundy PJ (1996) Interactions between impala and oxpeckers at Matobo National Park, Zimbabwe. Afr J Ecol 34:54–65
Moran NA, Plague GR (2004) Genomic changes following host restriction in bacteria. Curr Opin Genet Dev 14:627–633
Moran NA, Sloan DB (2015) The hologenome concept: helpful or hollow? PLoS Biol 13:e1002311
Moran NA, Telang A (1998) Bacteriocyte-associated symbionts of insects. Bioscience 48:295–304
Nunn CL, Ezenwa VO, Arnold C, Koenig WD (2011) Mutualism or parasitism? Using a phylogenetic approach to characterize the oxpecker-ungulate relationship. Evolution 65:1297–1304
Okasha S (2006) Evolution and the levels of selection. Oxford University Press, Oxford
Oliver KM, Degnan PH, Burke GR, Moran NA (2010) Facultative symbionts in aphids and the horizontal transfer of ecologically important traits. Annu Rev Entomol 55:247–266
Orona-Tamayo D, Wielsch N, Blanco-Labra A, Svatos A, Farías-Rodríguez R, Heil M (2013) Exclusive rewards in mutualisms: ant proteases and plant protease inhibitors create a lock–key system to protect Acacia food bodies from exploitation. Mol Ecol 22:4087–4100
Palmer TM, Brody AK (2013) Enough is enough: the effects of symbiotic ant abundance on herbivory, growth, and reproduction in an African acacia. Ecology 94:683–691
Palmer C, Bik EM, DiGiulio DB, Relman DA, Brown PO (2007) Development of the human infant intestinal microbiota. PLoS Biol 5:e177
Pamminger T, Leingärtner Achenbach A, Kleeberg I, Pennings PS, Foitzik S (2012) Geographic distirubtion of the anit-parasite trait “slave rebellion”. Evol Ecol 27:39–49
Parker D, Booth A (2013) The tongue-replacing isopod Cymothoa borbonica reduces the growth of largespot pompano Trachinotus botla. Mar Biol 160:2943–2950
Partridge L, Hurst LD (1998) Sex and conflict. Science 281:2003–2008
Pepper JW, Herron MD (2008) Does biology need an organism concept? Biol Rev 83:621–627
Pichon A, Bézier A, Urbach S, Aury J-M, Jouan V, Ravallec M, Guy J, Cousserans F, Thézé J, Gauthier J (2015) Recurrent DNA virus domestication leading to different parasite virulence strategies. Sci Adv 1:e1501150
Pietsch TW, Grobecker DB (1978) The compleat angler: aggressive mimicry in an antennariid anglerfish. Science 201:369–370
Plantan T, Howitt M, Kotzé A, Gaines M (2013) Feeding preferences of the red-billed oxpecker, Buphagus erythrorhynchus: a parasitic mutualist? Afr J Ecol 51:325–336
Pradeu T (2010) What is an organism? An immunological answer. Hist Philos Life Sci 32:247–268
Queller DC (1997) Cooperators since life began. Review of: J. Maynard Smith and E. Szathmáry, The major transitions in evolution. Q Rev Biol 72:184–188
Queller DC (2000) Relatedness and the fraternal major transitions. Phil Trans R Soc B 355:1647–1655
Queller DC, Strassmann JE (1998) Kin selection and social insects. Bioscience 48:165–175
Queller DC, Strassmann JE (2009) Beyond society: the evolution of organismality. Philos Trans R Soc B 364:3143–3155
Queller D, Strassmann J (2013) The veil of ignorance can favor biological cooperation. Biol Lett 23:20130365
Ratnieks FLW, Visscher PK (1989) Worker policing in the honeybee. Nature 342:796–797
Rigaud T, Juchault P, Mocquard JP (1997) The evolution of sex determination in isopod crustaceans. BioEssays 19:409–416
Rosenberg E, Zilber-Rosenberg I (2013) Role of microorganisms in adaptation, development, and evolution of animals and plants: the hologenome concept. In: Rosenberg E (ed) The prokaryotes, 4th edn. Springer, Berlin, pp 347–358
Sachs JL, Mueller UG, Wilcox TP, Bull JJ (2004) The evolution of cooperation. Q Rev Biol 79:135–160
Santelices B (1999) How many kinds of individual are there? Trends Ecol Evol 14:152–155
Seeley TD (1989) The honey bee colony as a superorganism. Am Sci 77:546–553
Sloan WT, Lunn M, Woodcock S, Head IM, Nee S, Curtis TP (2006) Quantifying the roles of immigration and chance in shaping prokaryote community structure. Environ Microbiol 8:732–740
Stacy A, McNally L, Darch SE, Brown SP, Whiteley M (2016) The biogeography of polymicrobial infection. Nat Rev Microbiol 14:93–105
Strand MR, Burke GR (2014) Polydnaviruses: nature’s genetic engineers. Ann Rev Virol 1:333–354
Strassmann JE, Queller DC (2010) The social organism: congresses, parties, and committees. Evolution 64:605–616
Strassmann JE, Queller DC (2014) Privatization and property in biology. Anim Behav 92:305–311
Tai V, James ER, Nalepa CA, Scheffrahn RH, Perlman SJ, Keeling PJ (2015) The role of host phylogeny varies in shaping microbial diversity in the hindguts of lower termites. Appl Environ Microbiol 81:1059–1070
Turnbaugh PJ, Ley RE, Hamady M, Fraser-Liggett C, Knight R, Gordon JI (2007) The human microbiome project: exploring the microbial part of ourselves in a changing world. Nature 449:804
Weeks P (2000) Red-billed oxpeckers: vampires or tickbirds? Behav Ecol 11:154–160
Wernegreen JJ (2002) Genome evolution in bacterial endosymbionts of insects. Nat Rev Genet 3:850–861
Wernegreen JJ (2012) Endosymbiosis. Curr Biol 22:R555–R561
Wernegreen JJ, Moran NA (2001) Vertical transmission of biosynthetic plasmids in aphid endosymbionts (Buchnera). J Bactieriol 183:785–790
Werren JH, Baldo L, Clark ME (2008) Wolbachia: master manipulators of invertebrate biology. Nat Rev Microbiol 6:741–751
Wheeler WM (1911) The ant colony as organism. J Morphol 22:307–325
Zilber-Rosenberg I, Rosenberg E (2008) Role of microorganisms in the evolution of animals and plants: the hologenome theory of evolution. FEMS Microbiol Rev 32:723–735
Zug R, Hammerstein P (2015) Bad guys turned nice? A critical assessment of Wolbachia mutualisms in arthropod hosts. Biol Rev 90:89–111
Acknowledgments
We thank Thomas Pradeu for encouraging this work and for stimulating discussion and helpful comments. We also thank Judie Bronstein and two anonymous referees for their helpful comments on the manuscript. This is a Tyson Research Center of Washington University in St. Louis contribution. Our research is funded by the John Templeton Foundation #43667 and the USA National Science Foundation Grants #IOS1256416 and #DEB1146375.
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Queller, D.C., Strassmann, J.E. Problems of multi-species organisms: endosymbionts to holobionts. Biol Philos 31, 855–873 (2016). https://doi.org/10.1007/s10539-016-9547-x
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DOI: https://doi.org/10.1007/s10539-016-9547-x