Natural variation and persistent developmental instabilities in geographically diverse accessions of the allopolyploid Arabidopsis suecica

Physiologia Plantarum

Volumn 144, Issue 2, 2012, Pages 123-133

  Madlung, Andreas ^a   Henkhaus, Natalie ^a,b   Jurevic, Leigh ^a,c   Kahsai, Emanual A ^a   Bernhard, James ^a  

^a UNIVERSITY OF PUGET SOUND   (United States)

^b Department of Molecular Biology and Genetics   (United States)

^c OREGON HEALTH AND SCIENCE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS; ARTICLE; ECOTYPE; FERTILITY; FLOWER; GENETIC VARIABILITY; GENETICS; GEOGRAPHY; GROWTH, DEVELOPMENT AND AGING; HISTOLOGY; PHYSIOLOGY; PLANT GENOME; POLYPLOIDY; TRANSPOSON;

ARABIDOPSIS; DNA TRANSPOSABLE ELEMENTS; ECOTYPE; FERTILITY; FLOWERS; GENETIC VARIATION; GENOME, PLANT; GEOGRAPHY; POLYPLOIDY;

ARABIDOPSIS; ARABIDOPSIS SUECICA;

EID: 84855902517     PISSN: 00319317     EISSN: 13993054     Source Type: Journal    
DOI: 10.1111/j.1399-3054.2011.01526.x     Document Type: Article

References (40)

1. Adams KL, Wendel JF (2005) Allele-specific, bidirectional silencing of an alcohol dehydrogenase gene in different organs of interspecific diploid cotton hybrids. Genetics 171: 2139-2142.
2. Baumel A, Ainouche M, Kalendar R, Schulman AH (2002) Retrotransposons and genomic stability in populations of the young allopolyploid species Spartina anglica C.E. Hubbard (Poaceae). Mol Biol Evol 19: 1218-1227.
3. Buggs RJ, Elliott NM, Zhang L, Koh J, Viccini LF, Soltis DE, Soltis PS (2010) Tissue-specific silencing of homoeologs in natural populations of the recent allopolyploid Tragopogon mirus. New Phytol 186: 175-183.
4. Chen Z (2007) Genetic and epigenetic mechanisms for gene expression and phenotypic variation in plant polyploids. Annu Rev Plant Biol 58: 377-406.
5. Chen ZJ (2010) Molecular mechanisms of polyploidy and hybrid vigor. Trends Plant Sci 15: 57-71.
6. Comai L (2000) Genetic and epigenetic interactions in allopolyploid plants. Plant Mol Biol 43: 387-399.
7. Comai L (2005) The advantages and disadvantages of being polyploid. Nat Rev Genet 6: 836-846.
8. Comai L, Tyagi AP, Winter K, Holmes-Davis R, Reynolds SH, Stevens Y, Byers B (2000) Phenotypic instability and rapid gene silencing in newly formed Arabidopsis allotetraploids. Plant Cell 12: 1551-1568.
9. Davison J, Tyagi A, Comai L (2007) Large-scale polymorphism of heterochromatic repeats in the DNA of Arabidopsis thaliana. BMC Plant Biol 7: 44.
10. Gaeta RT, Pires JC, Iniguez-Luy F, Leon E, Osborn TC (2007) Genomic changes in resynthesized Brassica napus and their effect on gene expression and phenotype. Plant Cell 19: 3403-3417.
11. Henry IM, Dilkes BP, Young K, Watson B, Wu H, Comai L (2005) Aneuploidy and genetic variation in the Arabidopsis thaliana triploid response. Genetics 170: 1979-1988.
12. Hothorn T, Bretz F, Westfall P (2008) Simultaneous inference in general parametric models. Biom J 50: 346-363.
13. International Chicken Genome Sequencing Consortium (2004) Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 432: 695-716.
14. Jakobsson M, Hagenblad J, Tavare S, Sall T, Hallden C, Lind-Hallden C, Nordborg M (2006) A unique recent origin of the allotetraploid species Arabidopsis suecica: Evidence from nuclear DNA markers. Mol Biol Evol 23: 1217-1231.
15. Jones RN, Hegarty M (2009) Order out of chaos in the hybrid plant nucleus. Cytogenet Genome Res 126: 376-389.
16. Josefsson C, Dilkes B, Comai L (2006) Parent-dependent loss of gene silencing during interspecies hybridization. Curr Biol 16: 1322-1328.
17. Kashkush K, Feldman M, Levy AA (2002) Gene loss, silencing and activation in a newly synthesized wheat allotetraploid. Genetics 160: 1651-1659.
18. Koh J, Soltis PS, Soltis DE (2010) Homeolog loss and expression changes in natural populations of the recently and repeatedly formed allotetraploid Tragopogon mirus (Asteraceae). BMC Genom 11: 97.
19. Lee HS, Chen ZJ (2001) Protein-coding genes are epigenetically regulated in Arabidopsis polyploids. Proc Natl Acad Sci USA 98: 6753-6758.
20. Lind-Hallden C, Hallden C, Säll T (2002) Genetic variation in Arabidopsis suecica and its parental species A. arenosa and A. thaliana. Hereditas 136: 45-50.
21. Lukens LN, Pires JC, Leon E, Vogelzang R, Oslach L, Osborn T (2006) Patterns of sequence loss and cytosine methylation within a population of newly resynthesized Brassica napus allopolyploids. Plant Physiol 140: 336-348.
22. Madlung A, Masuelli RW, Watson B, Reynolds SH, Davison J, Comai L (2002) Remodeling of DNA methylation and phenotypic and transcriptional changes in synthetic Arabidopsis allotetraploids. Plant Physiol 129: 733-746.
23. Madlung A, Tyagi AP, Watson B, Jiang H, Kagochi T, Doerge RW, Martienssen R, Comai L (2005) Genomic changes in synthetic Arabidopsis polyploids. Plant J 41: 221-230.
24. Mayer VW, Aguilera A (1990) High levels of chromosome instability in polyploids of Saccharomyces cerevisiae. Mutat Res 231: 177-186.
25. McCullough E, Wright KM, Alvarez A, Clark CP, Rickoll WL, Madlung A (2010) Photoperiod-dependent floral reversion in the natural allopolyploid Arabidopsis suecica. New Phytol 186: 239-250.
26. Mummenhoff K, Hurka H (1995) Allopolyploid origin of Arabidopsis suecica (Fries) Norrlin: evidence from chloroplast and nuclear genome markers. Bot Acta 108: 449-456.
27. Nei M, Suzuki Y, Nozawa M (2010) The neutral theory of molecular evolution in the genomic era. Annu Rev Genom Hum Genet 11: 265-289.
28. O'Kane SRJ, Schaal BA, Al-Shehbaz IA (1996) The origins of Arabidopsis suecica (Brassicaceae) as indicated by nuclear rDNA sequences. Systematic Botany 21: 559-566.
29. Osborn T, Pires J, Birchler J, Auger D, Chen Z, Lee H-S, Comai L, Madlung A, Doerge R, Colot V, Martienssen R (2003) Understanding mechanisms of novel gene expression in polyploids. Trends Genet 19: 141-147.
30. Otto SP, Whitton J (2000) Polyploid incidence and evolution. Ann Rev Genet 34: 401-437.
31. Pires JC, Zhao JW, Schranz ME, Leon E, Quijada PA, Lukens LN, Osborn T (2004) Flowering time divergence and genomic rearrangements in resynthesized Brassica polyploids (Brassicaceae). Biol J Linn Soc Lond 82: 675-688.
32. Ramsey J, Schemske DW (2002) Neopolyploidy in flowering plants. Annu Rev Ecol Syst 33: 589-639.
33. Rapp R, Udall J, Wendel J (2009) Genomic expression dominance in allopolyploids. BMC Biol 7: 18.
34. Riddle N, Birchler J (2003) Effects of reunited diverged regulatory hierarchies in allopolyploids and species hybrids. Trends Genet 19: 597-600.
35. Soltis PS, Soltis DE (2000) The role of genetic and genomic attributes in the success of polyploids. Proc Natl Acad Sci USA 97: 7051-7057.
36. Soltis DE, Soltis PS, Tate JA (2004) Advances in the study of polyploidy since Plant Speciation. New Phytologist 161: 173-191.
37. Wang J, Tian L, Madlung A, Lee H-S, Chen M, Lee J, Watson B, Kagochi T, Comai L, Chen Z (2004) Stochastic and epigenetic changes of gene expression in Arabidopsis polyploids. Genetics 167: 1961-1973.
38. Wang J, Tian L, Lee H, Wei N, Jiang H, Watson B, Madlung A, Osborn T, Doerge R, Comai L, Chen Z (2006a) Genomewide nonadditive gene regulation in Arabidopsis allotetraploids. Genetics 172: 507-517.
39. Wang J, Tian L, Lee HS, Chen ZJ (2006b) Nonadditive regulation of FRI and FLC loci mediates flowering-time variation in Arabidopsis allopolyploids. Genetics 173: 965-974.
40. Wright KM, Pires JC, Madlung A (2009) Mitotic instability in resynthesized and natural polyploids of the Genus Arabidopsis (Brassicaceae). Am J Bot 96: 1656-1664.