Introgression from Cultivated Rice Influences Genetic Differentiation of Weedy Rice Populations at a Local Spatial Scale

Overview

Journal Theor Appl Genet

Publisher Springer

Specialty Genetics

Date 2011 Sep 28

PMID 21947325

Citations 14

Authors

Zhuxi Jiang

Hanbing Xia

Barbara Basso

Bao-Rong Lu

Affiliations

Soon will be listed here.

Abstract

Hybridization and introgression can play an important role in genetic differentiation and adaptive evolution of plant species. For example, a conspecific feral species may frequently acquire new alleles from its coexisting crops via introgression. However, little is known about this process. We analyzed 24 weedy rice (Oryza sativa f. spontanea) populations and their coexisting rice cultivars from northern Italy to study their genetic differentiation, outcrossing, and introgression based on microsatellite polymorphisms. A total of 576 maternal plants representing 24 weedy populations were used to estimate their genetic differentiation, and 5,395 progeny (seedlings) derived from 299 families of 15 selected populations were included to measure outcrossing rates. Considerable genetic differentiation (F (st) = 0.26) was detected among weedy rice populations, although the differentiation was not associated with the spatial pattern of the populations. Private alleles (28%) were identified in most populations that exhibited a multiple cluster assignments, indicating stronger genetic affinities of some weedy populations. Outcrossing rates were greatly variable and positively correlated (R (2) = 0.34, P = 0.02) with the private alleles of the corresponding populations. Paternity analysis suggested that ~15% of paternal specific alleles, a considerable portion of which was found to be crop-specific, were acquired from the introgression of the coexisting rice cultivars. Frequent allelic introgression into weedy populations resulting from outcrossing with nearby cultivars determines the private alleles of local feral populations, possibly leading to their genetic differentiation. Introgression from a crop may play an important role in the adaptive evolution of feral populations.

Citing Articles

Porous borders at the wild-crop interface promote weed adaptation in Southeast Asia.

Li L, Pusadee T, Wedger M, Li Y, Li M, Lau Y Nat Commun. 2024; 15(1):1182.

PMID: 38383554 PMC: 10881511. DOI: 10.1038/s41467-024-45447-0.

Crop-Weed Introgression Plays Critical Roles in Genetic Differentiation and Diversity of Weedy Rice: A Case Study of Human-Influenced Weed Evolution.

Cai X, Wang Z, Yuan Y, Pang L, Wang Y, Lu B Biology (Basel). 2023; 12(5).

PMID: 37237556 PMC: 10215757. DOI: 10.3390/biology12050744.

Sympatric genetic divergence between early- and late-season weedy rice populations.

Wang Z, Cai X, Jiang X, Xia Q, Li L, Lu B New Phytol. 2022; 235(5):2066-2080.

PMID: 35637631 PMC: 9544748. DOI: 10.1111/nph.18288.

Increases in Genetic Diversity of Weedy Rice Associated with Ambient Temperatures and Limited Gene Flow.

Kong H, Wang Z, Guo J, Xia Q, Zhao H, Zhang Y Biology (Basel). 2021; 10(2).

PMID: 33498419 PMC: 7909424. DOI: 10.3390/biology10020071.

Ser-653-Asn substitution in the acetohydroxyacid synthase gene confers resistance in weedy rice to imidazolinone herbicides in Malaysia.

Ruzmi R, Ahmad-Hamdani M, Mazlan N PLoS One. 2020; 15(9):e0227397.

PMID: 32925921 PMC: 7489537. DOI: 10.1371/journal.pone.0227397.

References

Lu B, Yang C . Gene flow from genetically modified rice to its wild relatives: Assessing potential ecological consequences. Biotechnol Adv. 2009; 27(6):1083-1091. DOI: 10.1016/j.biotechadv.2009.05.018. View

Ritland K . Extensions of models for the estimation of mating systems using n independent loci. Heredity (Edinb). 2002; 88(4):221-8. DOI: 10.1038/sj.hdy.6800029. View

Ellstrand N, Schierenbeck K . Hybridization as a stimulus for the evolution of invasiveness in plants?. Proc Natl Acad Sci U S A. 2000; 97(13):7043-50. PMC: 34382. DOI: 10.1073/pnas.97.13.7043. View

Langevin S, Clay K, Grace J . THE INCIDENCE AND EFFECTS OF HYBRIDIZATION BETWEEN CULTIVATED RICE AND ITS RELATED WEED RED RICE (ORYZA SATIVA L.). Evolution. 2017; 44(4):1000-1008. DOI: 10.1111/j.1558-5646.1990.tb03820.x. View

Stewart Jr C, Halfhill M, Warwick S . Transgene introgression from genetically modified crops to their wild relatives. Nat Rev Genet. 2003; 4(10):806-17. DOI: 10.1038/nrg1179. View

Pritchard J, Stephens M, Donnelly P . Inference of population structure using multilocus genotype data. Genetics. 2000; 155(2):945-59. PMC: 1461096. DOI: 10.1093/genetics/155.2.945. View

Yang X, Xia H, Wang W, Wang F, Su J, Snow A . Transgenes for insect resistance reduce herbivory and enhance fecundity in advanced generations of crop-weed hybrids of rice. Evol Appl. 2015; 4(5):672-84. PMC: 3352537. DOI: 10.1111/j.1752-4571.2011.00190.x. View

Yu G, Bao Y, Shi C, Dong C, Ge S . Genetic diversity and population differentiation of Liaoning weedy rice detected by RAPD and SSR markers. Biochem Genet. 2005; 43(5-6):261-70. DOI: 10.1007/s10528-005-5218-3. View

Song Z, Xu X, Wang B, Chen J, Lu B . Genetic diversity in the northernmost Oryza rufipogon populations estimated by SSR markers. Theor Appl Genet. 2003; 107(8):1492-9. DOI: 10.1007/s00122-003-1380-3. View

10.

Rieseberg L, Raymond O, Rosenthal D, Lai Z, Livingstone K, Nakazato T . Major ecological transitions in wild sunflowers facilitated by hybridization. Science. 2003; 301(5637):1211-6. DOI: 10.1126/science.1086949. View

11.

Wagenaar T, Chow V, Buranathai C, Thawatsupha P, Grose C . The out of Africa model of varicella-zoster virus evolution: single nucleotide polymorphisms and private alleles distinguish Asian clades from European/North American clades. Vaccine. 2003; 21(11-12):1072-81. DOI: 10.1016/s0264-410x(02)00559-5. View

12.

Peakall R, Smouse P . GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research--an update. Bioinformatics. 2012; 28(19):2537-9. PMC: 3463245. DOI: 10.1093/bioinformatics/bts460. View

13.

Charlesworth D . Effects of inbreeding on the genetic diversity of populations. Philos Trans R Soc Lond B Biol Sci. 2003; 358(1434):1051-70. PMC: 1693193. DOI: 10.1098/rstb.2003.1296. View

14.

Soliman K, Jorgensen R, Allard R . Ribosomal DNA spacer-length polymorphisms in barley: mendelian inheritance, chromosomal location, and population dynamics. Proc Natl Acad Sci U S A. 1984; 81(24):8014-8. PMC: 392284. DOI: 10.1073/pnas.81.24.8014. View

15.

Londo J, Schaal B . Origins and population genetics of weedy red rice in the USA. Mol Ecol. 2007; 16(21):4523-35. DOI: 10.1111/j.1365-294X.2007.03489.x. View

16.

Nei M . Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics. 1978; 89(3):583-90. PMC: 1213855. DOI: 10.1093/genetics/89.3.583. View

17.

Oka H, Morishima H . THE DYNAMICS OF PLANT DOMESTICATION: CULTIVATION EXPERIMENTS WITH ORYZA PERENNIS AND ITS HYBRID WITH O. SATIVA. Evolution. 2017; 25(2):356-364. DOI: 10.1111/j.1558-5646.1971.tb01889.x. View

18.

Evanno G, Regnaut S, Goudet J . Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol. 2005; 14(8):2611-20. DOI: 10.1111/j.1365-294X.2005.02553.x. View

19.

Rong J, Lu B, Song Z, Su J, Snow A, Zhang X . Dramatic reduction of crop-to-crop gene flow within a short distance from transgenic rice fields. New Phytol. 2007; 173(2):346-53. DOI: 10.1111/j.1469-8137.2006.01906.x. View

20.

Ellstrand N, Heredia S, Leak-Garcia J, Heraty J, Burger J, Yao L . Crops gone wild: evolution of weeds and invasives from domesticated ancestors. Evol Appl. 2015; 3(5-6):494-504. PMC: 3352506. DOI: 10.1111/j.1752-4571.2010.00140.x. View