Introgression of crop alleles into wild or weedy populations

Annual Review of Ecology, Evolution, and Systematics

Volumn 44, Issue , 2013, Pages 325-345

  Ellstrand, Norman C ^a   Meirmans, Patrick ^b   Rong, Jun ^c   Bartsch, Detlef ^d   Ghosh, Atiyo ^e   De Jong, Tom J ^f   Haccou, Patsy ^g   Lu, Bao Rong ^h   Snow, Allison A ⁱ   Neal Stewart Jr , C ^j   Strasburg, Jared L ^k   Van Tienderen, Peter H ^b   Vrieling, Klaas ^f   Hooftman, Danny ^l  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF AMSTERDAM   (Netherlands)

^c NANCHANG UNIVERSITY   (China)

^d Federal Office of Consumer Protection and Food Safety   (Germany)

^e OKINAWA INSTITUTE OF SCIENCE AND TECHNOLOGY GRADUATE UNIVERSITY   (Japan)

^f LEIDEN UNIVERSITY   (Netherlands)

^g LEIDEN UNIVERSITY   (Netherlands)

^h FUDAN UNIVERSITY   (China)

ⁱ OHIO STATE UNIVERSITY   (United States)

^j UNIVERSITY OF TENNESSEE   (United States)

^k UNIVERSITY OF MINNESOTA DULUTH   (United States)

^l CENTRE FOR ECOLOGY AND HYDROLOGY   (United Kingdom)

more..

Author keywords

Evolution; Gene flow; Hybridization; Invasiveness; Plant conservation genetics; Transgene flow

Indexed keywords

ALLELE; CONSERVATION GENETICS; DATA SET; GENE FLOW; HYBRIDIZATION; INTROGRESSION; INVASIVE SPECIES; MOLECULAR ANALYSIS; RISK ASSESSMENT; THEORETICAL STUDY; WEED; WILD POPULATION;

EID: 84881030354     PISSN: 1543592X     EISSN: 15452069     Source Type: Book Series    
DOI: 10.1146/annurev-ecolsys-110512-135840     Document Type: Review

References (111)

1. Anderson E. 1949. Introgressive Hybridization. New York: Wiley
2. Anderson EC, Thompson EA. 2002. A model-based method for identifying species hybrids using multilocus data. Genetics 160:1217-29
3. Andersson MS, de Vicente MC. 2010. Gene Flow Between Crops and Their Wild Relatives. Baltimore: Johns Hopkins Univ. Press
4. Arnaud JF, Fenart S, Cordellier M, Cuguen J. 2010. Populations of weedy crop-wild hybrid beets show contrasting variation in mating system and population genetic structure. Evol. Appl. 3:305-18
5. Arnold M. 2006. Evolution through Genetic Exchange. Oxford, UK: Oxford Univ. Press
6. Baack EJ, Rieseberg LH. 2007. A genomic view of introgression and hybrid speciation. Curr. Opin. Genet. Dev. 17:513-18
7. Baack EJ, Sapir Y, Chapman MA, Burke JM, Rieseberg LH. 2008. Selection on domestication traits and quantitative trait loci in crop-wild sunflower hybrids. Mol. Ecol. 17:666-77
8. Baird NA, Etter PD, Atwood TS, Currey MC, Shiver AL, et al. 2008. Rapid SNP discovery and genetic mapping using sequenced RAD markers. PLoS ONE 3(10):e3376
9. Bartsch D. 2010. Gene flow in sugar beet. Sugar Tech. 12:201-6
10. Beaumont MA. 2010. Approximate Bayesian computation in evolution and ecology. Annu. Rev. Ecol. Evol. Syst. 41:379-406
11. Beerli P. 2006. Comparison of Bayesian and maximum-likelihood inference of population genetic parameters. Bioinformatics 22:341-45
12. Bowers JE, Bachlava E, Brunick RL, Rieseberg LH, Knapp SJ, Burke JM. 2012. Development of a 10, 000 locus genetic map of the sunflower genome based on multiple crosses. G3 2:721-29
13. Buerkle C, Morris R, Asmussen M, Rieseberg L. 2000. The likelihood of homoploid hybrid speciation. Heredity 84:441-51
14. Burke JM, Rieseberg LH. 2003. Fitness effects of transgenic disease resistance in sunflowers. Science 300:1250
15. Campbell LG, Snow AA, Ridley CE. 2006. Weed evolution after crop gene introgression: greater survival and fecundity of hybrids in a new environment. Ecol. Lett. 11:1198-209
16. Corander J, Waldmann P, Marttinen P, Sillanpaa MJ. 2004. BAPS 2: enhanced possibilities for the analysis of genetic population structure. Bioinformatics 20:2363-69
17. D'Andrea L, Felber F, Guadagnuolo R. 2009. Hybridization rates between lettuce (Lactuca sativa) and its wild relative (L. serriola) under field conditions. Environ. Biosaf. Res. 7:61-71
18. Dechaine JM, Burger JC, Chapman MA, Seiler GJ, Brunick R, et al. 2009. Fitness effects and genetic architecture of plant-herbivore interactions in sunflower crop-wild hybrids. New Phytol. 184:828-41
19. de Jong TJ, Rong J. 2013. Crop to wild gene flow: Does more spohisticated research provide better risk assessment? Environ. Sci. Policy 27:135-40
20. den Nijs HCM, Bartsch D, Sweet J. 2004. Introgression from Genetically Modified Plants into Wild Relatives. Wallingford: CABI
21. deWet JMJ, Harlan JR. 1975. Weeds and domesticates: evolution in the man-made habitat. Econ. Bot. 29: 99-108
22. Difazio S, Leonardi S, Slavov G, Garman S, Adams W, Strauss S. 2012. Gene flow and simulation of transgene dispersal from hybrid poplar plantations. New Phytol. 193:903-15
23. Dong SS, Xiao MQ, Rong J, Liao H, Lu B-R, et al. 2011. No effect of transgene and strong wild parent effects on seed dormancy in crop-wild hybrids of rice: implications for transgene persistence in wild populations. Ann. Appl. Biol. 159:348-57
24. Ellstrand NC. 2003. Dangerous Liaisons? When Cultivated Plants Mate with Their Wild Relatives. Baltimore: Johns Hopkins Univ. Press
25. Ellstrand NC, Elam DR. 1993. Population genetic consequences of small population size: implications for plant conservation. Annu. Rev. Ecol. Syst. 24:217-42
26. Ellstrand NC, Heredia SM, Leak-Garcia JA, Heraty JM, Burger JC, et al. 2010. Crops gone wild: evolution of weeds and invasives from domesticated ancestors. Evol. Appl. 3:494-504
27. Elshire RJ, Glaubitz JC, Sun Q, Poland JA, Kawamoto K, et al. 2011. A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. PLoS ONE 6(5):e19379
28. Ghosh A, Haccou P. 2010. Quantifying stochastic introgression processes with hazard rates. Theor. Popul. Biol. 77:171-80
29. Ghosh A, Meirmans P, Haccou P. 2012a. Quantifying introgression risk with realistic population genetics. Proc. R. Soc. B 279:4747-54
30. Ghosh A, Serra MC, Haccou P. 2012b. Quantifying time-inhomogeneous stochastic introgression processes with hazard rates. Theor. Popul. Biol. 81:253-63
31. Gompert Z, Buerkle CA. 2009. A powerful regression-based method for admixture mapping of isolation across the genome of hybrids. Mol. Ecol. 18:1207-24
32. Gompert Z, Buerkle CA. 2011. Bayesian estimation of genomic clines. Mol. Ecol. 20:2111-27
33. Goulart ICGR, Pacheco MT, Nunes AL, Merotto A. 2012. Identification of origin and analysis of population structure of field-selected imidazolinone-herbicide resistant red rice (Oryza sativa). Euphytica 187:437-47
34. Green RE, Krause J, Briggs AW, Maricic T, Stenzel U, et al. 2010. A draft sequence of the Neandertal genome. Science 328:710-22
35. Gressel J. 1999. Tandem constructs: preventing the rise of superweeds. Trends Biotechnol. 17:361-66
36. Gross BL, Olsen KM. 2010. Genetic perspectives on crop domestication. Trends Plant Sci. 15:529-37
37. Gutierrez A, Cantamutto M, Poverene M. 2011. Persistence of sunflower crop traits and fitness in Helianthus petiolaris populations. Plant Biol. 13:821-30
38. Gutierrez A, Carrera A, Basualdo J, Rodriguez R, Cantamutto M, Poverene M. 2010. Gene flow between cultivated sunflower and Helianthus petiolaris (Asteraceae). Euphytica 172:67-76
39. Hajjar R, Hodgkin T. 2007. The use of wild relatives in crop improvement: a survey of developments over the last 20 years. Euphytica 156:1-13
40. Hartman Y, Hooftman DAP, Schranz ME, van Tienderen PH. 2013a. QTL analysis reveals the genetic architecture of domestication traits in Crisphead lettuce. Genet. Resour. Crop Evol. 60:1487-500
41. Hartman Y, Hooftman DAP, Uwimana B, van de Wiel CCM, Smulders MJM, et al. 2012. Genomic regions in crop-wild hybrids of lettuce are affected differently in different environments: implications for crop breeding. Evol. Appl. 5:629-40
42. Hartman Y, Uwimana B, Hooftman DAP, Schranz ME, van de Wiel CCM, et al. 2013b. Genomic and environmental selection patterns in two distinct lettuce crop-wild hybrid crosses. Evol. Appl. 6:569-84
43. Hauser TP, Shim SI. 2007. Survival and flowering of hybrids between cultivated and wild carrots (Daucus carota) in Danish grasslands. Environ. Biosaf. Res. 6:237-47
44. Hey J. 2010. Isolation with migration models for more than two populations. Mol. Biol. Evol. 27:905-20
45. Hill R. 2005. Conceptualizing risk assessment methodology for genetically modified organisms. Environ. Biosaf. Res. 4:67-70
46. Hoban S, Bertorelle G, Gaggiotti OE. 2012. Computer simulations: tools for population and evolutionary genetics. Nat. Rev. Genet. 13:110-22
47. Hooftman DAP, Flavell AJ, Jansen H, den Nijs JCM, Syed NH, et al. 2011. Locus-dependent selection in crop-wild hybrids of lettuce under field conditions and its implication for GM crop development. Evol. Appl. 4:648-59
48. Hooftman DAP, Hartman Y, Oostermeijer JGB, den Nijs JCM. 2009. Existence of vigorous lineages of crop-wild hybrids in lettuce under field conditions. Environ. Biosaf. Res. 8:203-17
49. Hooftman DAP, Jong MJD, Oostermeijer JGB, den Nijs JCM. 2007. Modelling the long-term consequences of crop-wild relative hybridization:a case study using four generations of hybrids. J. Appl. Ecol. 44:1035-45
50. Hooftman DAP, Oostermeijer JGB, Jacobs MMJ, den Nijs JCM. 2005. Demographic vital rates determine the performance advantage of crop-wild hybrids in lettuce. J. Appl. Ecol. 42:1086-95
51. Hovick SM, Campbell LG, Snow AA, Whitney KD. 2012. Hybridization alters early life-history traits and increases plant colonization success in a novel region. Am. Nat. 179:192-203
52. James C. 2012. Global status of commercialized biotech/GM crops: 2011. ISAAA Brief No. 43. Ithaca, NY: ISAAA
53. Jarvis DJ, Hodgkin T. 1999. Wild relatives and crop cultivars: detecting natural introgression and farmer selection of new genetic combinations in agroecosystems. Mol. Ecol. 8:S159-73
54. Kiaer MP, Philipp M, Jørgensen RB, Hauser TP. 2007. Genealogy, morphology and fitness of spontaneous hybrids between wild and cultivated chicory (Cichorium intybus). Heredity 99:112-20
55. Kimura M. 1962. On the probability of fixation of mutant genes in a population. Genetics 47:713-19
56. Kovalic D, Garnaat C, Guo L, Yan Y, Groat J, et al. 2012. The use of next generation sequencing and junction sequence analysis bioinformaticstoachieve molecular characterization ofcrops improved through modern biotechnology. Plant Genome 5:149-63
57. Kuhner MK. 2009. Coalescent genealogy samplers: windows into population history. Trends Ecol. Evol. 24:86-93
58. Kuparinen A, Schurr FM. 2007. A flexible modelling framework linking the spatio-temporal dynamics of plant genotypes and populations: application to gene flow from transgenic forests. Ecol. Model. 202:476-86
59. Kwit C, Moon HS, Warwick SI, Stewart CN Jr. 2011. Transgene introgression in crop relatives: molecular evidence and mitigation strategies. Trends Biotechnol. 29:284-93
60. Ladizinsky G. 1985. Founder effect in crop-plant evolution. Econ. Bot. 39:191-99
61. Leak-Garcia JA, Holt JS, Kim S-C, Mu L, Mejías JA, Ellstrand NC. 2013. More than multiple introductions: multiple taxa contribute to the genesis of the invasive California's wild artichoke thistle. J. Syst. Evol. 51:295-307
62. Levin DA, Francisco-Ortega J, Jansen RK. 1996. Hybridization and the extinction of rare plant species. Conserv. Biol. 10:10-16
63. Linder CR, Taha I, Seiler GJ, Snow AA, Rieseberg LH. 1998. Long-term introgression of crop genes into wild sunflower populations. Theor. Appl. Genet. 96:339-47
64. Lu B-R, Snow AA. 2005. Gene flow from genetically modified rice and its environmental consequences. BioScience 55:669-78
65. Lu B-R, Yang C. 2009. Gene flow from genetically modified rice to its wild relatives: assessing potential ecological consequences. Biotechnol. Adv. 27:1083-91
66. Magnussen LS, Hauser TP. 2007. Hybrids between cultivated and wild carrots in natural populations in Denmark. Heredity 99:185-92
67. Maughan PJ, Smith SM, Fairbanks DJ, Jellen EN. 2011. Development, characterization, and linkage mapping of single nucleotide polymorphisms in the grain amaranths (Amaranthus sp.). Plant Genome 4:92-101
68. Meirmans PG, Bousquet J, Isabel N. 2008. A metapopulation model for the introgression from genetically modified plants into their wild relatives. Evol. Appl. 2:160-71
69. Mercer KL, Andow DA, Wyse DL, Shaw RG. 2007. Stress and domestication traits increase the relative fitness of crop-wild hybrids in sunflower. Ecol. Lett. 10:383-93
70. Michael TP, Jackson S. 2013. The first 50 plant genomes. Plant Genome 6(2): In press (doi: 10. 3835/plantgenome2013.03. 0001in)
71. Natl. Res. Counc. 1996. Understanding Risk: Informing Decisions in a Scientific Society. Washington, DC: Natl. Acad. Press
72. Natl. Res. Counc. 2002. Environmental Effects of Transgenic Plants. Washington, DC: Natl. Acad. Press
73. Organ. Econ. Co-op. Dev. 1993. Safety Considerations for Biotechnology: Scale-up of Crop Plants. Paris: OECD
74. Presotto A, Ureta MS, Cantamutto M, Poverene M. 2012. Effects of gene flow from IMI resistant sunflower crop to wild Helianthus annuus populations. Agric. Ecosyst. Environ. 146:153-61
75. Pritchard JK, Stephens M, Donnelly P. 2000. Inference of population structure using multilocus genotype data. Genetics 155:945-59
76. Reichman JR, Watrud LS, Lee EH, Burdick CA, Bollman MA, et al. 2006. Establishment of transgenic herbicide-resistant creeping bentgrass (Agrostis stolonifera L.) in nonagronomic habitats. Mol. Ecol. 15:4243-55
77. Rieseberg LH, Ellstrand NC. 1993. What can molecular and morphological markers tell us about plant hybridization? Crit. Rev. Plant Sci. 12:213-41
78. Rieseberg LH, Kim MJ, Seiler GJ. 1999. Introgression between the cultivated sunflower and a sympatric wild relative, Helianthus petiolaris (Asteraceae). Int. J. Plant Sci. 160:102-8
79. Rieseberg LH, Wendel JF. 1993. Introgression and its consequences in plants. In Hybrid Zones and the Evolutionary Process, ed. R Harrison, pp. 70-109. New York: Oxford Univ. Press
80. Rong J, Janson S, Umehara M, Ono M, Vrieling K. 2010. Historical and contemporary gene dispersal in wild carrot (Daucus carota ssp. carota) populations. Ann. Bot. 106:285-96
81. Ross-Ibarra J, Tenaillon M, Gaut BS. 2009. Historical divergence and gene flow in the genus Zea. Genetics 181:1399-413
82. Schierenbeck KA, Ellstrand NC. 2009. Hybridization and the evolution of invasiveness in plants and other organisms. Biol. Invasions 11:1093-105
83. Snow AA, Campbell LG. 2005. Can feral radishes become weeds? In Crop Ferality and Volunteerism, ed. J Gressel, pp. 193-208. Boca Raton, FL: CRC Press
84. Snow AA, Culley TM, Campbell LG, Sweeney PM, Hegde SG, Ellstrand NC. 2010. Long-persistence of crop alleles in weedy populations of wild radish (Raphanus raphanistrum). New Phytol. 186:537-48
85. Snow AA, Pilson D, Rieseberg LH, Paulsen MJ, Pleskac N, et al. 2003. A Bt transgene reduces herbivory and enhances fecundity in wild sunflowers. Ecol. Appl. 13:279-86
86. 1 hybrids with their parental species Oryza rufipogon and O. sativa. Ann. Bot. 93:311-16
87. Song ZP, Zhu WY, Rong J, Lu B-R. 2006. Evidences of introgression from cultivated rice to Oryza rufi-pogon (Poaceae) populations based on SSR fingerprinting: implications for wild rice differentiation and conservation. Evol. Ecol. 20:501-22
88. Stace CA. 1975. Hybridization and the Flora of the British Isles. London: Academic
89. Stace CA. 2010. New Flora of the British Isles. Cambridge, UK: Cambridge Univ. Press. 3rd ed.
90. Stewart CN Jr, Halfhill MD, Warwick SI. 2003. Transgene introgression from genetically modified crops to their wild relatives. Nat. Rev. Genet. 4:806-17
91. Strasburg JL, Rieseberg LH. 2011. Interpreting the estimated timing of migration events between hybridizing species. Mol. Ecol. 20:2353-66
92. Twyford AD, Ennos RA. 2012. Next-generation hybridization and introgression. Heredity 108:179-89
93. Uwimana B, D'Andrea L, Felber F, Hooftman DAP, den Nijs HCM, et al. 2012a. A Bayesian analysis of gene flow from crops to their wild relatives: cultivated (Lactuca sativa L.) and prickly lettuce (L. serriola L.), and the recent expansion of L. serriola in Europe. Mol. Ecol. 21:2640-54
94. Uwimana B, Smulders MJM, Hooftman DAP, Hartman Y, van Tienderen PH, et al. 2012b. Crop to wild introgression in lettuce: following the fate of crop genome segments in backcross populations. BMC Plant Biol. 12:43
95. Walker RD, Doerfler J. 2009. Wild rice: the Minnesota legislature, a distinctive crop, GMOs, and Ojibwe perspectives. Hamline Law Rev. 32:499-527
96. Wang F, Yuan QH, Shi L, Qian Q, Liu WG, et al. 2006. A large-scale field study of transgene flow from cultivated rice (Oryza sativa) to common wild rice (O. Rufipogon) and barnyard grass (Echinochloa crusgalli ). Plant Biotechnol. J. 4:667-76
97. Warwick SI, Légère A, Simard MJ, James T. 2008. Do escaped transgenes persist in nature? The case of an herbicide resistance transgene in a weedy Brassica rapa population. Mol. Ecol. 17:1387-95
98. Warwick SI, Stewart CN Jr. 2005. Crops come from wild plants-how domestication, transgenes, and linkage together shape ferality. In Crop Ferality and Volunteerism, ed. J Gressel, pp. 9-30. Boca Raton, FL: CRC Press
99. Weeden NF. 2007. Genetic changes accompanying the domestication of Pisum sativum: Is there a common genetic basis to the 'Domestication Syndrome' for legumes? Ann. Bot. 100:1017-25
100. Wegier A, Piñeyro-Nelson A, Alarcón J, Gálvez- Mariscal A, Alvarez-Buylla ER, Piñero D. 2011. Recent long-distance transgene flow into wild populations conforms to historical patterns of gene flow in cotton (Gossypium hirsutum) at its centre of origin. Mol. Ecol. 20:4182-94
101. Whitkus R, Doebley J, Wendel JF. 1994. Nuclear DNA markers in systematics and evolution. In DNA-Based Markers in Plants, ed. RL Philips, IK Vasil, pp. 116-41. Dordrecht: Kluwer
102. ST = 1/(4N m + 1). Heredity 82:117-25
103. Whitney KD, Randell RA, Rieseberg LH. 2006. Adaptive introgression of herbivore resistance traits in the weedy sunflower Helianthus annuus. Am. Nat. 167:794-807
104. Whitney KD, Randell RA, Rieseberg LH. 2010. Adaptive introgression of abiotic tolerance traits in the sunflower Helianthus annuus. New Phytol. 187:230-39
105. Whitton J, Wolf DE, Arias DM, Snow AA, Rieseberg LH. 1997. The persistence of cultivar alleles in wild populations of sunflowers five generations after hybridization. Theor. Appl. Genet. 95:33-40
106. Wijnheimer EHM, Brandenburg WA, Ter Borg SJ. 1989. Interactions between wild and cultivated carrots (Daucus carota L.) in the Netherlands. Euphytica 40:147-54
107. Wilkinson MJ, Elliott LJ, Allainguillaume J, Shaw MW, Norris C, et al. 2003. Hybridization between Brassica napus and B. rapa on a national scale in the United Kingdom. Science 302:457-59
108. Wilson GA, Rannala B. 2003. Bayesian inference of recent migration rates using multilocus genotypes. Genetics 163:1177-91
109. Wright S. 1931. Evolution in Mendelian populations. Genetics 16:97-159
110. Xia H-B, Wang W, Xia H, Zhao W, Lu B-R. 2011. Conspecific crop-weed introgression influences evolution of weedy rice (Oryza sativa f. spontanea) across a geographical range. PLoS ONE 6:e16189
111. Yang X, Xia H, Wang W, Wang F, Su J, et al. 2011. Transgenes for insect resistance reduce herbivory and enhance fecundity in advanced generation of crop-weed hybrids of rice. Evol. Appl. 4:672-84