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Autopolyploidy leads to rapid genomic changes in Arabidopsis thaliana

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Abstract

Polyploidy is a widespread feature of plant genomes. As a typical model of polyploidy, autopolyploidy has been postulated evolutionary dead ends and received little attention compared with allopolyploidy. For the limited data available so far, the evolutionary outcome of genome diversity in autopolyploids remains controversial in comparison with its diploid ancestors. In the present study, the effects of autopolyploidy on genome diversity were revealed at a genome-wide scale by comparative analyses of polymorphism between Arabidopsis autopolyploids (autotetraploids and autotriploids) and related diploids within the first ten successive inbred generations using amplified fragment length polymorphism. The results showed that in contrast with diploids, the rapid genomic changes (including gain and loss of DNA sequences) in autopolyploids were definitely found within the first generations after autopolyploidization, but slow down and probably stabilized in the higher generations as a source of genetic diversity in the long term. The sequencing of these DNA fragments indicated that these changes occurred both on genic and inter-genic (or intronic) regions, and quantitative PCR showed that the expression of some corresponding genes in the genic regions was obviously affected (including upregulation, downregulation and silencing) in autopolyploids. Therefore, this study demonstrated that autopolyploidy could lead to rapid genomic changes and probably influence expression and function of certain genes within the first generations, giving rising to genetic diversification after polyploidization.

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References

  • Cifuentes M, Rivard M, Pereira L, Chelysheva L, Mercier R (2013) Haploid meiosis in arabidopsis: double-strand breaks are formed and repaired but without synapsis and crossovers. PLoS One 8:e72431

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Clausen J, Keck DD, Hiesey WM (1945) II. Plant evolution through amphiploidy and autoploidy, with examples from the Madiinae. Carnegie Institution of Washington, Washington, DC

    Google Scholar 

  • Comai L (2005) The advantages and disadvantages of being polyploidy. Nat Rev Genet 6:836–846

    Article  CAS  PubMed  Google Scholar 

  • Del Pozo JC, Ramirez-Parra E (2014) Decophering the molecular bases for drought tolerance in Arabidopsis autotetraploids. Plant Cell Environ 37:2722–2737

    Article  PubMed  Google Scholar 

  • Del Pozo JC, Ramirez-Parra E (2015) Whole genome duplications in plants: an overview from Arabidopsis. J Exp Bot 66:6991–7003

    Article  PubMed  Google Scholar 

  • Eilam T, Anikster Y, Millet E, Manisterski J, Feldman M (2009) Genome size in natural and synthetic autopolyploids and in a natural segmental allopolyploid of several Triticeae species. Genome 52:275–285

    Article  CAS  PubMed  Google Scholar 

  • Feldman M, Liu B, Segal G, Abbo S, Levy AA, Vega JM (1997) Rapid elimination of low-copy DNA sequences in polyploid wheat: a possible mechanism for differentiation of homoeologous chromosomes. Genetics 147:1381–1387

    CAS  PubMed  PubMed Central  Google Scholar 

  • Flagel LE, Wendel JF (2009) Gene duplication and evolutionary novelty in plants. New Phytol 183:557–564

    Article  PubMed  Google Scholar 

  • Levy AA, Feldman M (2004) Genetic and epigenetic reprogramming of the wheat genome upon allopolyploidization. Biol J Linn Soc 82:607–613

    Article  Google Scholar 

  • Liu B, Vega JM, Feldman M (1998) Rapid genomic changes in newly synthesized amphiploids of Triticum and Aegilops. II. Changes in low-copy coding DNA sequences. Genome 41:535–542

    Article  CAS  PubMed  Google Scholar 

  • Liu B, Xu C, Zhao N, Qi B, Kimatu JN, Pang J, Han F (2009) Rapid genomic changes in polyploid wheat and related species: implications for genome evolution and genetic improvement. J Genet Genomics 36:519–528

    Article  CAS  PubMed  Google Scholar 

  • Manton I (1937) The problem of Biscutella laevigata L. II. The evidence from meiosis. Ann Bot (Lond) 1:439–462

    Article  Google Scholar 

  • Martelotto LG, Ortiz JPA, Stein J, Espinoza F, Quarin CL, Pessino SC (2007) Genome rearrangements derived from autopolyploidization in Paspalum sp. Plant Sci 172:970–977

    Article  CAS  Google Scholar 

  • Otto SP, Whitton J (2000) Polyploid incidence and evolution. Annu Rev Genet 34:401–437

    Article  CAS  PubMed  Google Scholar 

  • Ozkan H, Tuna M, Galbraith DW (2006) No DNA loss in autotetraploids of Arabidopsis thaliana. Plant Breed 125:288–291

    Article  CAS  Google Scholar 

  • Parisod C, Holderegger R, Brochmann C (2010) Evolutionary consequences of autopolyploidy. New Phytol 186:5–17

    Article  CAS  PubMed  Google Scholar 

  • Pecinka A, Fang W, Rehmsmeier M, Levy AA, Mittelsten Scheid O (2011) Polyploidization increases meiotic recombination frequency in Arabidopsis. BMC Biol 9:24

    Article  PubMed  PubMed Central  Google Scholar 

  • Raina SN, Parida A, Koul KK, Salimath SS, Bisht MS, Raja V, Khoshoo TN (1994) Associated chromosomal DNA changes in polyploids. Genome 37:560–564

    Article  CAS  PubMed  Google Scholar 

  • Ramsey J, Schemske DW (1998) Pathways, mechanisms, and rates of polyploid formation in flowering plants. Annu Rev Ecol Syst 29:467–501

    Article  Google Scholar 

  • Rivero-Guerra AO (2010) Cytogenetics, geographical distribution, pollen stainability and fecundity of Santolina impressa (Asteraceae: Anthemideae). Folia Geobot 45:95–109

    Article  Google Scholar 

  • Santos JL, Alfaro D, Sanchez-Moran E, Armstrong SJ, Franklin FC, Jones GH (2003) Partial diploidization of meiosis in autotetraploid Arabidopsis thaliana. Genetics 165:1533–1540

    CAS  PubMed  PubMed Central  Google Scholar 

  • Soltis PS, Soltis DE (2000) The role of genetic and genomic attributes in the success of polyploids. Proc Natl Acad Sci 97:7051–7057

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Soltis DE, Soltis PS, Schemske DW, Hancock JF, Thompson JN, Husband BC, Judd WS (2007a) Autopolyploidy in angiosperms: have we grossly underestimated the number of species? Taxon 56:13–30

    Google Scholar 

  • Soltis DE, Visger CJ, Soltis PS (2007b) The polyploidy revolution then…and now: Stebbins revisited. Am J Bot 101:1057–1078

    Article  Google Scholar 

  • Soltis DE, Albert VA, Leebens-Mack J, Bell CD, Paterson AH, Zheng C, Sankoff D, Depamphilis CW, Wall PK, Soltis PS (2009) Polyploidy and angiosperm diversification. Am J Bot 96:336–348

    Article  PubMed  Google Scholar 

  • Soltis PS, Marchant DB, Van de Peer Y, Soltis DE (2015) Polyploidy and genome evolution in plants. Curr Opin Genet Dev 35:119–125

    Article  CAS  PubMed  Google Scholar 

  • Stebbins GL (1971) Chromosomal evolution in higher plants. Edward Arnold, London

    Google Scholar 

  • Stupar RM, Bhaskar PB, Yandell BS, Rensink WA, Hart AL, Ouyang S, Veilleux RE, Busse JS, Erhardt RJ, Buell CR, Jiang J (2007) Phenotypic and transcriptomic changes associated with potato autopolyploidization. Genetics 176:2055–2067

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Van Gysel A, Cnops G, Breyne P, Van Montagu M, Cervera MT (1998) Chromosome landing using an AFLP-based strategy. Methods Mol Biol 82:305–314

    PubMed  Google Scholar 

  • Vos P, Hogers R, Bleeker M, Reijans M, Van De Lee T, Hornes M, Frijters A, Peleman J, Kulper M, Zabeau M (1995) AFLP: a new technique for DNA finger printing. Nucleic Acids Res 23:4407–4414

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Wang J, Tian L, Lee HS, Wei NE, Jiang H, Watson B, Madlung A, Osborn TC, Doerge RW, Comai L, Chen ZJ (2006) Genomewide nonadditive gene regulation in Arabidopsis allotetraploids. Genetics 172:507–517

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Weiss H, Maluszynska J (2000) Chromosomal rearrangement in autotetraploid plants of Arabidopsis thaliana. Hereditas 133:255–261

    Article  CAS  PubMed  Google Scholar 

  • Weiss-Schneeweiss H, Schneeweiss GM, Stuessy TF, Mabuchi T, Park JM, Jang CG, Sun BY (2007) Chromosomal stasis in diploids contrasts with genome restructuring in auto- and allopolyploid taxa of Hepatica (Ranunculaceae). New Phytol 174:669–682

    Article  CAS  PubMed  Google Scholar 

  • Yu Z, Haage K, Strei VE, Gierl A, Torres Ruiz RA (2009) A large number of tetraploid Arabidopsis thaliana lines, generated by a rapid strategy, reveal high stability of neo-tetraploids during consecutive generations. Theor Appl Genet 118:1107–1119

    Article  CAS  PubMed  Google Scholar 

  • Yu Z, Haberer G, Matthes M, Rattei T, Mayer KF, Gierl A, Torres-Ruiz RA (2010) Impact of natural genetic variation on the transcriptome of autotetraploid Arabidopsis thaliana. Proc Natl Acad Sci USA 107:17809–17814

    Article  CAS  PubMed  PubMed Central  Google Scholar 

Download references

Acknowledgements

This work was financially supported by the National Natural Science Foundation of China (No. 31600995), and Education Department of Henan Province of China (13A180437).

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Correspondence to Fang Wei or Baoming Tian.

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Liu, S., Yang, Y., Wei, F. et al. Autopolyploidy leads to rapid genomic changes in Arabidopsis thaliana . Theory Biosci. 136, 199–206 (2017). https://doi.org/10.1007/s12064-017-0252-3

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