Polyploidy and genome evolution in the common cordgrass Spartina anglica: an enigmatic evolution of allopolyploidy

References

• Abbott, R. J., & Forbes, D. G. (2002). Extinction of the Edinburgh lineage of the allopolyploid neospecies, Senecio cambrensis Rosser (Asteraceae). Heredity, 88, 267–269. https://doi.org/10.1038/sj.hdy.6800038
   PubMed Web of Science ®Google Scholar
• Adams, K. L., & Wendel, J. F. (2005). Polyploidy and genome evolution in plants. Current Opinion in Plant Biology, 8, 135–141. https://doi.org/10.1016/j.pbi.2005.01.001
   PubMed Web of Science ®Google Scholar
• Ainouche, M., Chelaifa, H., Ferreira, J., Bellot, S., Ainouche, A., & Salmon, A. (2012). Erratum from-polyploid evolution in Spartina: Dealing with highly redundant hybrid genomes. In P. Soltis, & D. Soltis (Eds.), Polyploidy and genome evolution (pp. 225–243). Springer.
   Google Scholar
• Ainouche, M. L., Baumel, A., & Salmon, A. (2004a). Spartina anglica Schreb. A natural model system for analyzing early evolutionary changes that affect allopolyploid genomes. Biological Journal of the Linnean Society, 82, 475–484. https://doi.org/10.1111/j.1095-8312.2004.00334.x
   Web of Science ®Google Scholar
• Ainouche, M. L., Baumel, A., Salmon, A., & Yannic, G. (2004b). Hybridization, polyploidy and speciation in Spartina Schreb (Poaceae). New Phytologist, 161, 165–172. https://doi.org/10.1046/j.1469-8137.2003.00926.x
   Web of Science ®Google Scholar
• Ainouche, M. L., Fortune, P. M., Salmon, A., Parisod, C., Grandbastien, M. A., Fukunaga, K., Ricou, M., & Misset, M. T. (2009). Hybridization, polyploidy and invasion: Lessons from Spartina (Poaceae). Biological Invasions, 11, 1159–1173. https://doi.org/10.1007/s10530-008-9383-2
   Web of Science ®Google Scholar
• Alix, K., Gérard, P. R., Schwarzacher, T., & Heslop-Harrison, J. S. (2017). Polyploidy and interspecific hybridization: Partners for adaptation, speciation and evolution in plants. Annals of Botany, 120, 183–194. https://doi.org/10.1093/aob/mcx079
   PubMed Web of Science ®Google Scholar
• An, S. U., Cho, H., Jung, U. J., Kim, B., Lee, H., & Hyun, J. H. (2020). Invasive Spartina anglica greatly alters the rates and pathways of organic carbon oxidation and associated microbial communities in an intertidal wetland of the Han River Estuary, Yellow Sea. Frontiers in Marine Science, 7, 59. https://doi.org/10.3389/fmars.2020.00059
   Web of Science ®Google Scholar
• Aversano, R., Ercolano, M. R., Caruso, I., Fasano, C., Rosellini, D., & Carputo, D. (2012). Molecular tools for exploring polyploid genomes in plants. International Journal of Molecular Sciences, 13, 10316–10335. https://doi.org/10.3390/ijms130810316
   PubMed Web of Science ®Google Scholar
• Ayres, D. R., Grotkopp, E., Zaremba, K., Sloop, C. M., Blum, M. J., Bailey, J. P., Anttila, C. K., & Strong, D. R. (2008). Hybridization between invasive Spartina densiflora (Poaceae) and native S. foliosa in San Francisco Bay, California, USA. American Journal of Botany, 95, 713–719. https://doi.org/10.3732/ajb.2007358
   PubMed Web of Science ®Google Scholar
• Ayres, D. R., & Strong, D. R. (2001). Origin and genetic diversity of Spartina anglica (Poaceae) using nuclear DNA markers. American Journal of Botany, 88, 1863–1867.
   PubMed Web of Science ®Google Scholar
• Baumel, A., Ainouche, M. L., Bayer, R. J., Ainouche, A. K., & Misset, M. T. (2002a). Molecular phylogeny of hybridizing species from the genus Spartina Schreb. (Poaceae). Molecular Phylogenetics and Evolution, 22, 303–314. https://doi.org/10.1006/mpev.2001.1064
   PubMed Web of Science ®Google Scholar
• Baumel, A., Ainouche, M. L., Kalendar, R., & Schulman, A. H. (2002b). Retrotransposons and genomic stability in populations of the young allopolyploid species Spartina anglica C.E. Hubbard (Poaceae). Molecular Biology and Evolution, 19, 1218–1227. https://doi.org/10.1093/oxfordjournals.molbev.a004182
   PubMed Web of Science ®Google Scholar
• Baumel, A., Ainouche, M. L., & Levasseur, J. E. (2001). Molecular investigations in populations of Spartina anglica C.E. Hubbard (Poaceae) invading coastal Brittany (France). Molecular Ecology, 10, 1689–1701. https://doi.org/10.1046/j.1365-294x.2001.01299.x
   PubMed Web of Science ®Google Scholar
• Baumel, A., Ainouche, M. L., Misset, M. T., Gourret, J. P., & Baye, R. J. (2003). Genetic evidence for hybridization between the native Spartina maritima and the introduced Spartina alterniflora (Poaceae) in south-west France: Spartina neyrautii re-examined. Plant Systematics and Evolution, 237, 87–97. https://doi.org/10.1007/s00606-002-0251-8
   Web of Science ®Google Scholar
• Blasio, F., Prieto, P., Pradillo, M., & Naranjo, T. (2022). Genomic and meiotic changes accompanying polyploidization. Plants, 11, 125. https://doi.org/10.3390/plants11010125
   Google Scholar
• Boutte, J., Aliaga, B., Lima, O., Ferreira de Carvalho, J., Ainouche, A., Macas, J., Rousseau-Gueutin, M., Coriton, O., Ainouche, M., & Salmon, A. (2016a). Haplotype detection from next-generation sequencing in high-ploidy-level species: 45S rDNA gene copies in the hexaploid Spartina maritima. G3 (Bethesda, Md.), 6, 29–40. https://doi.org/10.1534/g3.115.023242
   Google Scholar
• Bortolus, A., Adam, P., Adams, J. B., Ainouche, M. L., Ayres, D., Bertness, M. D., Bouma, T. J., Bruno, J. F., Caçador, I., Carlton, J. T., Castillo, J. M., Costa, C., Davy, A. J., Deegan, L., Duarte, B., Figueroa, E., Gerwein, J., Gray, A. J., Grosholz, E. D., … Salmon, A. (2019). Supporting Spartina: Interdisciplinary perspective shows Spartina as a distinct solid genus. Ecology, 100, e02863. https://doi.org/10.1002/ecy.2863
   PubMed Web of Science ®Google Scholar
• Boutte, J., Ferreira de Carvalho, J., Rousseau-Gueutin, M., Poulain, J., Da Silva, C., Wincker, P., Ainouche, M., & Salmon, A. (2016b). Reference transcriptomes and detection of duplicated copies in hexaploid and allododecaploid Spartina species (Poaceae). Genome Biology and Evolution, 8, 3030–3044. https://doi.org/10.1093/gbe/evw209
   PubMed Web of Science ®Google Scholar
• Brochmann, C., Brysting, A. K., Alsos, I. G., Borgen, L., Grundt, H. H., Scheen, A. C., & Elven, R. (2004). Polyploidy in arctic plants. Biological Journal of the Linnean Society, 82, 521–536. https://doi.org/10.1111/j.1095-8312.2004.00337.x
   Web of Science ®Google Scholar
• Cavé-Radet, A., Giraud, D., Lima, O., El Amrani, A., Aïnouche, M., & Salmon, A. (2020). Evolution of small RNA expression following hybridization and allopolyploidization: Insights from Spartina species (Poaceae, Chloridoideae). Plant Molecular Biology, 102, 55–72. https://doi.org/10.1007/s11103-019-00931-w
   PubMed Web of Science ®Google Scholar
• Cavé-Radet, A., Salmon, A., Lima, O., Ainouche, M. L., & El Amrani, A. (2019). Increased tolerance to organic xenobiotics following recent allopolyploidy in Spartina (Poaceae). Plant Science: An International Journal of Experimental Plant Biology, 280, 143–154. https://doi.org/10.1016/j.plantsci.2018.11.005
   PubMed Web of Science ®Google Scholar
• Cavé-Radet, A., Salmon, A., Tran Van Canh, L., Moyle, R. L., Pretorius, L.-S., Lima, O., Ainouche, M. L., & El Amrani, A. (2022). Recent allopolyploidy alters Spartina microRNA expression in response to xenobiotic-induced stress. Plant Molecular Biology, 111, 309–328. https://doi.org/10.1007/s11103-022-01328-y
   PubMed Web of Science ®Google Scholar
• Chelaifa, H., Monnier, A., & Ainouche, M. (2010). Transcriptomic changes following recent natural hybridization and allopolyploidy in the salt marsh species Spartina × townsendii and Spartina anglica (Poaceae). The New Phytologist, 186, 161–174. https://doi.org/10.1111/j.1469-8137.2010.03179.x
   PubMed Web of Science ®Google Scholar
• Cheng, F., Wu, J., Cai, X., Liang, J., Freeling, M., & Wang, X. (2018). Gene retention, fractionation, and subgenome differences in polyploid plants. Nature Plants, 4, 258–268. https://doi.org/10.1038/s41477-018-0136-7
   PubMed Web of Science ®Google Scholar
• Christin, P. A., Spriggs, E., Osborne, C. P., Strömberg, C. A., Salamin, N., & Edwards, E. J. (2014). Molecular dating, evolutionary rates, and the age of the grasses. Systematic Biology, 63, 153–165. https://doi.org/10.1093/sysbio/syt072
   PubMed Web of Science ®Google Scholar
• Deb, S. K., Edger, P. P., Pires, J. C., & McKain, M. R. (2023). Patterns, mechanisms, and consequences of homoeologous exchange in allopolyploid angiosperms: A genomic and epigenomic perspective. The New Phytologist, 238, 2284–2304. https://doi.org/10.1111/nph.18927
   PubMed Web of Science ®Google Scholar
• Doyle, J. J., Flagel, L. E., Paterson, A. H., Rapp, R. A., Soltis, D. E., Soltis, P. S., & Wendel, J. F. (2008). Evolutionary genetics of genome merger and doubling in plants. Annual Review of Genetics, 42, 443–461. https://doi.org/10.1146/annurev.genet.42.110807.091524
   PubMed Web of Science ®Google Scholar
• Ferreira de Carvalho, J., Boutte, J., Bourdaud, P., Chelaifa, H., Ainouche, K., Salmon, A., & Ainouche, M. (2017). Gene expression variation in natural populations of hexaploid and allododecaploid Spartina species (Poaceae). Plant Systematics and Evolution, 303, 1061–1079. https://doi.org/10.1007/s00606-017-1446-3
   Web of Science ®Google Scholar
• Ferreira de Carvalho, J., Poulain, J., Da Silva, C., Wincker, P., Michon-Coudouel, S., Dheilly, A., Naquin, D., Boutte, J., Salmon, A., & Ainouche, M. (2013). Transcriptome de novo assembly from next-generation sequencing and comparative analyses in the hexaploid salt marsh species Spartina maritima and Spartina alterniflora (Poaceae). Heredity, 110, 181–193. https://doi.org/10.1038/hdy.2012.76
   PubMed Web of Science ®Google Scholar
• Ferris, C., King, R. A., & Gray, A. J. (1997). Molecular evidence for the maternal parentage in the hybrid origin of Spartina anglica C. E. Hubbard. Molecular Ecology, 6, 185–187. https://doi.org/10.1046/j.1365-294X.1997.00165.x
   Web of Science ®Google Scholar
• Fortune, P. M., Schierenbeck, K. A., Ainouche, A. K., Jacquemin, J., Wendel, J. F., & Ainouche, M. L. (2007). Evolutionary dynamics of waxy and the origin of hexaploid Spartina species. Molecular Phylogenetics and Evolution, 43, 1040–1055. https://doi.org/10.1016/j.ympev.2006.11.018
   PubMed Web of Science ®Google Scholar
• Giraud, D., Lima, O., Huteau, V., Coriton, O., Boutte, J., Kovarik, A., Leitch, A. R., Leitch, I. J., Aïnouche, M., & Salmon, A. (2021a). Evolutionary dynamics of transposable elements and satellite DNAs in polyploid Spartina species. Plant Science: An International Journal of Experimental Plant Biology, 302, 110671. https://doi.org/10.1016/j.plantsci.2020.110671
   PubMed Web of Science ®Google Scholar
• Giraud, D., Lima, O., Rousseau-Gueutin, M., Salmon, A., & Aïnouche, M. (2021b). Gene and transposable element expression evolution following recent and past polyploidy events in Spartina (Poaceae). Frontiers in Genetics, 12, 589160. https://doi.org/10.3389/fgene.2021.589160
   PubMed Web of Science ®Google Scholar
• Granse, D., Romeiro Motta, M., Suchrow, S., von Schwartzenberg, K., Schnittger, A., & Jensen, K. (2021). The overlooked hybrid: Geographic distribution and niche differentiation between Spartina cytotypes (Poaceae) in Wadden Sea Salt Marshes. Estuaries and Coasts, 45, 1409–1421. https://doi.org/10.1007/s12237-021-00985-4
   Web of Science ®Google Scholar
• Gray, A. J., & Benham, P. E. (1990). Spartina anglica: A research review. HMSO.
   Google Scholar
• Gray, A. J., Marshall, D. F., & Raybould, A. F. (1991). A century of evolution in Spartina anglica. In Advances in ecological research (vol. 21, pp. 1–62). Academic Press.
   Google Scholar
• Groves, H., & Groves, J. (1879). The Spartinas of southampton water. Journal of Botany, 17, 277.
   Google Scholar
• Groves, H., & Groves, J. (1880). Spartina townsendi nobis. Report of the Botanical Society.
   Google Scholar
• Groves, H., & Groves, J. (1882). On Spartina townsendi groves. Journal of Botany, 20, 1–2.
   Google Scholar
• Guenegou, M. C., Citharel, J., & Levasseur, J. E. (1988). The hybrid status of Spartina anglica (Poaceae). Enzymatic analysis of the species and the presumed parents. Canadian Journal of Botany, 66, 1830–1833. https://doi.org/10.1139/b88-249
   Google Scholar
• Guo, X., & Han, F. (2014). Asymmetric epigenetic modification and elimination of rDNA sequences by polyploidization in wheat. The Plant Cell, 26, 4311–4327. https://doi.org/10.1105/tpc.114.129841
   PubMed Web of Science ®Google Scholar
• Harrison-Day, V., Prahalad, V., McHenry, M. T., Aalders, J., & Kirkpatrick, J. B. (2023). Introduced Spartina anglica modifies fish habitat in southern temperate succulent saltmarshes. Restoration Ecology, 31, e13812. https://doi.org/10.1111/rec.13812
   Web of Science ®Google Scholar
• Hegarty, M. J., Abbott, R. J., & Hiscock, S. J. (2012). Allopolyploid speciation in action: Origin and evolution of Senecio cambrensis. In P. S. Soltis & D. E. Soltis (Eds.), Polyploidy and genome evolution (pp. 245–270).
   Google Scholar
• Heslop-Harrison, J. S., Schwarzacher, T., & Liu, Q. (2023). Polyploidy: its consequences and enabling role in plant diversification and evolution. Annals of Botany, 131(1), 1–10. https://doi.org/10.1093/aob/mcac132
   Google Scholar
• Heywood, V. H. (1978). Notulae systematicae ad floram europaeam spectantes. Botanical Journal of the Linnean Society, 76, 297–384. https://doi.org/10.1111/j.1095-8339.1978.tb01817.x
   Web of Science ®Google Scholar
• Hubbard, C. E. (1957). In: Report of the British Ecological Society Symposium on Spartina. Journal of Ecology, 45, 612–616.
   Google Scholar
• Hubbard, J. C. E., Stebbings, R. E. (1967). Distribution, dates of origin, and acreage of Spartina townsendii (s.1.) marshes in Great Britain. Proceedings of the Botanical Society of the British Isles, 7, 1–7.
   Google Scholar
• Hubbard, J. C. E., & Stebbings, R. E. (1968). Spartina marshes in southern England. VII. Stratigraphy of the Keysworth Marsh, Poole Harbour. Journal of Ecology, 56, 707–722.
   Web of Science ®Google Scholar
• Huska, D., Leitch, I. J., de Carvalho, J. F., Leitch, A. R., Salmon, A., Ainouche, M., & Kovarik, A. (2016). Persistence, dispersal and genetic evolution of recently formed Spartina homoploid hybrids and allopolyploids in Southern England. Biological Invasions, 18, 2137–2151. https://doi.org/10.1007/s10530-015-0956-6
   Web of Science ®Google Scholar
• Huskins, C. L. (1930a). Origin of Spartina townsendii. Nature, 127, 781–781. https://doi.org/10.1038/127781b0
   Google Scholar
• Huskins, C. L. (1930b). The origin of Spartina townsendii. Genetica, 12, 531–538. https://doi.org/10.1007/BF01487665
   Google Scholar
• Ihien Katche, E., & Mason, S. (2023). Resynthesized rapeseed (Brassica napus): Breeding and genomics. Critical Reviews in Plant Sciences, 42, 65–92. https://doi.org/10.1080/07352689.2023.2186021
   Web of Science ®Google Scholar
• Kim, E. K., Kil, J., Joo, Y. K., & Jung, Y. S. (2015). Distribution and botanical characteristics of unrecorded alien weed Spartina anglica in Korea. Weed & Turfgrass Science, 4, 65–70. https://doi.org/10.5660/WTS.2015.4.1.65
   Google Scholar
• Kim, J., Heo, Y. M., Yun, J., Lee, H., Kim, J. J., & Kang, H. (2022). Changes in archaeal community and activity by the invasion of Spartina anglica along soil depth profiles of a coastal wetland. Microbial Ecology, 83, 436–446. https://doi.org/10.1007/s00248-021-01770-3
   PubMed Web of Science ®Google Scholar
• Kreiner, J. M., Kron, P., & Husband, B. C. (2017). Frequency and maintenance of unreduced gametes in natural plant populations: Associations with reproductive mode, life history, and genome size. The New Phytologist, 214, 879–889. https://doi.org/10.1111/nph.14423
   PubMed Web of Science ®Google Scholar
• Lacambra, C., Cutts, N., Allen, J., Burd, F., & Elliot, M. (2004). Spartina anglica: A review of its status, dynamics, and management (vol. 527). English Nature.
   Google Scholar
• Lambert, J. M. (1964). The Spartina story. Nature, 204, 1136–1138. https://doi.org/10.1038/2041136a0
   Web of Science ®Google Scholar
• Lawton-Rauh, A. (2003). Evolutionary dynamics of duplicated genes in plants. Molecular Phylogenetics and Evolution, 29, 396–409. https://doi.org/10.1016/j.ympev.2003.07.004
   PubMed Web of Science ®Google Scholar
• Lee, C. E. (2002). Evolutionary genetics of invasive species. Trends in Ecology & Evolution, 17, 386–391. https://doi.org/10.1016/S0169-5347(02)02554-5
   Web of Science ®Google Scholar
• Levy, A. A., & Feldman, M. (2022). Evolution and origin of bread wheat. The Plant Cell, 34, 2549–2567. https://doi.org/10.1093/plcell/koac130
   PubMed Web of Science ®Google Scholar
• Leitch, I. J., & Bennett, M. D. (2004). Genome downsizing in polyploid plants. Biological Journal of the Linnean Society, 82, 651–663. https://doi.org/10.1111/j.1095-8312.2004.00349.x
   Web of Science ®Google Scholar
• Levy, A. A., & Feldman, M. (2004). Genetic and epigenetic reprogramming of the wheat genome upon allopolyploidization. Biological Journal of the Linnean Society, 82, 607–613. https://doi.org/10.1111/j.1095-8312.2004.00346.x
   Web of Science ®Google Scholar
• Li, F., Liu, X., Zhu, J., Li, J., Gao, K., & Zhao, C. (2022). The role of genetic factors in the differential invasion success of two Spartina species in China. Frontiers in Plant Science, 13, 909429. https://doi.org/10.3389/fpls.2022.909429
   PubMed Web of Science ®Google Scholar
• Li, H., Zhi, Y., An, S., Zhao, L., Zhou, C., Deng, Z., & Gu, S. (2009). Density-dependent effects on the dieback of exotic species Spartina anglica in coastal China. Ecological Engineering, 35, 544–552. https://doi.org/10.1016/j.ecoleng.2008.03.001
   Web of Science ®Google Scholar
• Lim, K. Y., Soltis, D. E., Soltis, P. S., Tate, J., Matyasek, R., Srubarova, H., Kovarik, A., Pires, J. C., Xiong, Z., & Leitch, A. R. (2008). Rapid chromosome evolution in recently formed polyploids in Tragopogon (Asteraceae). PloS One, 3, e3353. https://doi.org/10.1371/journal.pone.0003353
   PubMed Web of Science ®Google Scholar
• Malinska, H., Tate, J. A., Matyasek, R., Leitch, A. R., Soltis, D. E., Soltis, P. S., & Kovarik, A. (2010). Similar patterns of rDNA evolution in synthetic and recently formed natural populations of Tragopogon (Asteraceae) allotetraploids. BMC Evolutionary Biology, 10, 291. https://doi.org/10.1186/1471-2148-10-291
   PubMed Web of Science ®Google Scholar
• Marchant, C. J. (1963). Corrected chromosome numbers for Spartina x townsendii and its parent species. Nature, 199, 929–929. https://doi.org/10.1038/199929a0
   Web of Science ®Google Scholar
• Marchant, C. J. (1967). Evolution in Spartina (Gramineae) I History and morphology of the genus in Britain. Journal of the Linnean Society of London, Botany, 60, 1–24. https://doi.org/10.1111/j.1095-8339.1967.tb00076.x
   Google Scholar
• Marchant, C. J. (1968). Evolution in Spartina (Gramineae): II Chromosomes, basic relationships, and the problem of S × townsendii agg. Botanical Journal of the Linnean Society, 60, 381–409. https://doi.org/10.1111/j.1095-8339.1968.tb00096.x
   Google Scholar
• Marchant, C. J. (1977). Hybrid characters in Spartina × neyrautii Fouc., a taxon rediscovered in northern Spain. Botanical Journal of the Linnean Society, 74, 289–296.
   Google Scholar
• Moghe, G. D., & Shiu, S. H. (2014). The causes and molecular consequences of polyploidy in flowering plants. Annals of the New York Academy of Sciences, 1320, 16–34. https://doi.org/10.1111/nyas.12466
   PubMed Web of Science ®Google Scholar
• Muhammad, B. L., & Ki, J. S. (2022). Hybrid origin of the invasive Spartina anglica inferred from chloroplast and nuclear ITS phylogenies. Aquatic Botany, 178, 103484. https://doi.org/10.1016/j.aquabot.2021.103484
   Web of Science ®Google Scholar
• Muhammad, B. L., & Ki, J. S. (2023). Evolutionary insight into the invasive allopolyploidy Spartina anglica inferred from multiple chloroplast DNA and nuclear Waxy gene. Aquatic Botany, 187, 103655. https://doi.org/10.1016/j.aquabot.2023.103655
   Web of Science ®Google Scholar
• Nieto Feliner, G., Casacuberta, J., & Wendel, J. F. (2020). Genomics of evolutionary novelty in hybrids and polyploids. Frontiers in Genetics, 11, 792. https://doi.org/10.3389/fgene.2020.00792
   PubMed Web of Science ®Google Scholar
• Oliver, F. W. (1925). Spartina townsendii; its mode of establishment, economic uses, and taxonomic status. Journal of Ecology, 13, 74–91.
   Google Scholar
• Ozkan, H., & Feldman, M. (2009). Rapid cytological diploidization in newly formed allopolyploids of the wheat (Aegilops-Triticum) group. Genome, 52, 926–934. https://doi.org/10.1139/g09-067
   PubMed Web of Science ®Google Scholar
• Ozkan, H., Levy, A. A., & Feldman, M. (2001). Allopolyploidy-induced rapid genome evolution in the wheat (Aegilops-Triticum) group. The Plant Cell, 13, 1735–1747. https://doi.org/10.1105/tpc.010082
   PubMed Web of Science ®Google Scholar
• Pandian, T. J. (2022). Evolution and speciation in plants. CRC Press.
   Google Scholar
• Papon, N., Lasserre‐Zuber, P., Rimbert, H., De Oliveira, R., Paux, E., & Choulet, F. (2023). All families of transposable elements were active in the recent wheat genome evolution and polyploidy had no impact on their activity. The Plant Genome, 16, e20347. https://doi.org/10.1002/tpg2.20347
   PubMed Web of Science ®Google Scholar
• Parisod, C., Salmon, A., Zerjal, T., Tenaillon, M., Grandbastien, M. A., & Ainouche, M. (2009). Rapid structural and epigenetic reorganization near transposable elements in hybrid and allopolyploid genomes in Spartina. The New Phytologist, 184, 1003–1015. https://doi.org/10.1111/j.1469-8137.2009.03029.x
   PubMed Web of Science ®Google Scholar
• Peterson, P. M., Romaschenko, K., Arrieta, Y. H., & Saarela, J. M. (2014). A molecular phylogeny and new subgeneric classification of Sporobolus (Poaceae: Chloridoideae: Sporobolinae). TAXON, 63, 1212–1243. https://doi.org/10.12705/636.19
   Web of Science ®Google Scholar
• R Core Team. (2022). R: A Language and environment for statistical computing. R Foundation for Statistical Computing. https://www.R-project.org.
   Google Scholar
• Ramsey, J., & Schemske, D. W. (1998). Pathways, mechanisms, and rates of polyploid formation in flowering plants. Annual Review of Ecology and Systematics, 29, 467–501. https://doi.org/10.1146/annurev.ecolsys.29.1.467
   Google Scholar
• Raybould, A. F. (1989). The Population Genetics of Spartina anglica. C. E. Hubbard. [PhD Thesis]. University of Birmingham.
   Google Scholar
• Raybould, A. F., Gray, A. J., Lawrence, M. J., & Marshall, D. F. (1991a). The evolution of Spartina anglica CE Hubbard (Gramineae): genetic variation and status of the parental species in Britain. Biological Journal of the Linnean Society, 44, 369–380. https://doi.org/10.1111/j.1095-8312.1991.tb00626.x
   Web of Science ®Google Scholar
• Raybould, A. F., Gray, A. J., Lawrence, M. J., & Marshall, D. F. (1991b). The evolution of Spartina anglica CE Hubbard (Gramineae): origin and genetic variability. Biological Journal of the Linnean Society, 43, 111–126. https://doi.org/10.1111/j.1095-8312.1991.tb00588.x
   Web of Science ®Google Scholar
• Renny-Byfield, S., Ainouche, M., Leitch, I. J., Lim, K. Y., Le Comber, S. C., & Leitch, A. R. (2010). Flow cytometry and GISH reveal mixed ploidy populations and Spartina nonaploids with genomes of S. alterniflora and S. maritima origin. Annals of Botany, 105, 527–533. https://doi.org/10.1093/aob/mcq008
   PubMed Web of Science ®Google Scholar
• Rousseau-Gueutin, M., Bellot, S., Martin, G. E., Boutte, J., Chelaifa, H., Lima, O., Michon-Coudouel, S., Naquin, D., Salmon, A., Ainouche, K., & Ainouche, M. (2015). The chloroplast genome of the hexaploid Spartina maritima (Poaceae, Chloridoideae): comparative analyses and molecular dating. Molecular Phylogenetics and Evolution, 93, 5–16. https://doi.org/10.1016/j.ympev.2015.06.013
   PubMed Web of Science ®Google Scholar
• Salmon, A., Ainouche, M. L., & Wendel, J. F. (2005). Genetic and epigenetic consequences of recent hybridization and polyploidy in Spartina (Poaceae). Molecular Ecology, 14, 1163–1175. https://doi.org/10.1111/j.1365-294X.2005.02488.x
   PubMed Web of Science ®Google Scholar
• Shan, S., Boatwright, J. L., Liu, X., Chanderbali, A. S., Fu, C., Soltis, P. S., & Soltis, D. E. (2020). Transcriptome dynamics of the inflorescence in reciprocally formed allopolyploid Tragopogon miscellus (Asteraceae). Frontiers in Genetics, 11, 888. https://doi.org/10.3389/fgene.2020.00888
   PubMed Web of Science ®Google Scholar
• Shin, W., Kim, J. H., & Lee, E. J. (2020). Effect of native Suaeda japonica structure on the initial seed settlement of an invasive plant Spartina anglica. Aquatic Botany, 161, 103175. https://doi.org/10.1016/j.aquabot.2019.103175
   Web of Science ®Google Scholar
• Skalická, K., Lim, K. Y., Matyasek, R., Matzke, M., Leitch, A. R., & Kovarik, A. (2005). Preferential elimination of repeated DNA sequences from the paternal, Nicotiana tomenstosiformis genome donor of a synthetic allotetraploid tobacco. The New Phytologist, 166, 291–303. https://doi.org/10.1111/j.1469-8137.2004.01297.x
   PubMed Web of Science ®Google Scholar
• Soltis, D. E., Buggs, R. J., Doyle, J. J., & Soltis, P. S. (2010). What we still don’t know about polyploidy. TAXON, 59, 1387–1403. https://doi.org/10.1002/tax.595006
   Web of Science ®Google Scholar
• Soltis, D. E., & Soltis, P. S. (1999). Polyploidy: Recurrent formation and genome evolution. Trends in Ecology & Evolution, 14, 348–352. https://doi.org/10.1016/s0169-5347(99)01638-9
   PubMed Web of Science ®Google Scholar
• Soltis, P. S., & Soltis, D. E. (2009). The role of hybridization in plant speciation. Annual Review of Plant Biology, 60, 561–588. https://doi.org/10.1146/annurev.arplant.043008.092039
   PubMed Web of Science ®Google Scholar
• Stapf, O. (1908). Spartina townsendii (vol. 43, pp. 33–35). Gardeners’ Chronicle.
   Google Scholar
• Stapf, O. (1913). Townsend’s grass or rice grass. Proceedings of the Bournemouth Natural Science Society, 5, 76–82.
   Google Scholar
• Strong, D. R., & Ayres, D. R. (2013). Ecological and evolutionary misadventures of Spartina. Annual Review of Ecology, Evolution, and Systematics, 44, 389–410. https://doi.org/10.1146/annurev-ecolsys-110512-135803
   Web of Science ®Google Scholar
• Thompson, J. D. (1990). Morphological variation among natural populations of Spartina anglica. In A. J. Gray and P. E. M. Benham (Eds.), Spartina anglica - A research review (pp. 26–33). HMSO.
   Google Scholar
• Van de Peer, Y., Ashman, T. L., Soltis, P. S., & Soltis, D. E. (2021). Polyploidy: An evolutionary and ecological force in stressful times. The Plant Cell, 33, 11–26. https://doi.org/10.1093/plcell/koaa015
   PubMed Web of Science ®Google Scholar
• Wang, X., Morton, J. A., Pellicer, J., Leitch, I. J., & Leitch, A. R. (2021). Genome downsizing after polyploidy: Mechanisms, rates and selection pressures. The Plant Journal: For Cell and Molecular Biology, 107, 1003–1015. https://doi.org/10.1111/tpj.15363
   PubMed Web of Science ®Google Scholar
• Wendel, J. F. (2000). Genome evolution in polyploids. Plant Molecular Biology, 42, 225–249.
   PubMed Web of Science ®Google Scholar
• Wong, J. X., Costantini, F., Merloni, N., Savelli, L., Geelen, D., & Airoldi, L. (2018). The widespread and overlooked replacement of Spartina maritima by non-indigenous S. anglica and S. townsendii in north-western Adriatic saltmarshes. Biological Invasions, 20, 1687–1702. https://doi.org/10.1007/s10530-017-1654-3
   Web of Science ®Google Scholar