MSH1-induced non-genetic variation provides a source of phenotypic diversity in Sorghum bicolor

PLoS ONE

Volumn 9, Issue 10, 2014, Pages

  De La Rosa Santamaria, Roberto ^a   Shao, Mon Ray ^a   Wang, Guomei ^b   Nino Liu, David O ^b   Kundariya, Hardik ^a   Wamboldt, Yashitola ^a   Dweikat, Ismail ^a   Mackenzie, Sally A ^a  

^a UNIVERSITY OF NEBRASKA LINCOLN   (United States)

^b MONSANTO COMPANY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BIOMASS; CONTROLLED STUDY; FLOWERING; GENE; GENETIC SELECTION; GENETIC TRAIT; GENETIC VARIABILITY; GRAIN YIELD; HEREDITY; MSH1 GENE; NONHUMAN; PHENOTYPE; PLANT BREEDING; PLANT HEIGHT; PLANT STRUCTURES; SORGHUM; BREEDING; CHLOROPLAST; CROP; ENVIRONMENT; GENETIC ASSOCIATION; GENETICS; GENOTYPE ENVIRONMENT INTERACTION; METABOLISM; QUANTITATIVE TRAIT; SINGLE NUCLEOTIDE POLYMORPHISM; TRANSGENIC PLANT;

ARABIDOPSIS; SORGHUM BICOLOR;

MICROSATELLITE DNA; PROTEIN MUTS;

BREEDING; CHLOROPLASTS; CROPS, AGRICULTURAL; ENVIRONMENT; GENE-ENVIRONMENT INTERACTION; GENETIC ASSOCIATION STUDIES; GENETIC VARIATION; MICROSATELLITE REPEATS; MUTS DNA MISMATCH-BINDING PROTEIN; PHENOTYPE; PLANTS, GENETICALLY MODIFIED; POLYMORPHISM, SINGLE NUCLEOTIDE; QUANTITATIVE TRAIT, HERITABLE; SORGHUM;

EID: 84920816651     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0108407     Document Type: Article

References (28)

1. Gressel J (2008) Genetic Glass Ceilings: Transgenics for Crop Biodiversity. John Hopkins Univ. Press.
2. Cowling W (2013) Sustainable plant breeding. Plant Breeding 132:1-9.
3. Tsaftaris AS, Polidoros AN, Kapazoglou A, Tani E., Kovačević NM (2008) Epigenetics and Plant Breeding. Plant Breeding Reviews, Volume 30. John Wiley & Sons, Inc. Hoboken, NJ, USA. doi:10.1002/9780470380130.ch2
4. Groszmann M, Greaves IK, Albert N, Fujimoto R., Helliwell CA, et al. (2011) Epigenetics in plants-vernalisation and hybrid vigour. Biochim Biophys Acta 1809:427-37.
5. Shivaprasad PV, Dunn RM, Santos B.A., Bassett A., Baulcombe DC (2012) Extraordinary transgressive phenotypes of hybrid tomato are influenced by epigenetics and small silencing RNAs. EMBO J 31:257-66.
6. Schmitz RJ, Amasino RM (2007) Vernalization: a model for investigating epigenetics and eukaryotic gene regulation in plants. Biochim Biophys Acta 1769:269-75.
7. Heo JB, Sung S (2011) Encoding memory of winter by noncoding RNAs. Epigenetics 6:544-7.
8. Cheptou PO, Donohue K (2013) Epigenetics as a new avenue for the role of inbreeding depression in evolutionary ecology. Heredity (Edinb) 110:205-6.
9. Dooner HK, Weil DF (2007) Give-and-take: interactions between DNA transposons and their host plant genomes. Curr Opin Genet Dev 17:486-492.
10. Smith AM, Hansey CN, Kaeppler SM (2012) TCUP: A novel hAT transposon active in maize tissue culture. Front Plant Sci 3:6.
11. Abdelnoor RV, Yule R, Elo A., Christensen AC, Meyer-Gauen G, et al. (2003) Substoichiometric shifting in the plant mitochondrial genome is influenced by a gene homologous to MutS. Proc Natl Acad Sci USA 100:5968-5973.
12. Xu YZ, Arrieta-Montiel MP, Virdi K.S., de Paula WB, Widhalm JR, et al. (2011) MSH1 is a nucleoid protein that alters mitochondrial and plastid properties and plant response to high light. Plant Cell 239:3428-41.
13. Shedge V, Davila J, Arrieta-Montiel MP, Mohammed S., Mackenzie SA (2010) Extensive rearrangement of the Arabidopsis mitochondrial genome elicits cellular conditions for thermotolerance. Plant Physiol 152:1960-1970.
14. Xu YZ, Santamaria Rde L, Virdi KS, Arrieta-Montiel MP, Razvi F., et al. (2012) The chloroplast triggers developmental reprogramming when MUTS HOMO-LOG1 is suppressed in plants. Plant Physiol 159:710-20.
15. Pinheiro J, Bates D, DebRoy S., Sarkar D, the R Development Core Team (2013) Nlme: Linear and Nonlinear Mixed Effects Models. R package version 3.1-109.
16. Schloss SJ, Mitchell E, White M., Kukatla R, Bowers E, et al. (2002) Characterization of RFLP probe sequence for gene discovery and SSR development in Sorghum bicolor (L.) Moench. Theor Appl Genet 105, 912-920.
17. Li M, Yuyama N, Luo L., Hirata M, Cai H (2009) In silico mapping of 1758 new SSR markers developed from public genomic sequences for sorghum. Mol Breed 24: 41-47.
18. Miller FR (1984) Registration of RTx430 sorghum parental line. Crop Sci 24:1224.
19. El-Soda M, Malosetti M, Zwaan B.J., Koornneef M., Aarts MG (2014) Genotype×environment interaction QTL mapping in plants: lessons from Arabidopsis. Trends Plant Sci 19(6):390-398.
20. Multani DS, Briggs SP, Chamberlin M.A., Blakeslee JJ, Murphy AS, et al. (2003) Loss of an MDR transporter in compact stalks of maize br2 and sorghum dw3 mutants. Science 302:81-4.
21. Colomé-Tatché M, Cortijo S, Wardenaar R, Morgado L, Lahouze B, et al. (2012) Features of the Arabidopsis recombination landscape resulting from the combined loss of sequence variation and DNA methylation. Proc Natl Acad Sci USA 109:16240-5.
22. Migicovsky Z, Kovalchuk I (2013) Changes to DNA methylation and homologous recombination frequency in the progeny of stressed plants. Biochem Cell Biol 91:1-5.
23. Brown PJ, Rooney WL, Franks C, Kresovich S (2008) Efficient mapping of plant height quantitative trait loci in a sorghum association population with introgressed dwarfing genes. Genetics 180:629-637.
24. Zhang YY, Fischer M, Colot V., Bossdorf O (2013) Epigenetic variation creates potential for evolution of plant phenotypic plasticity. New Phytol 197:314-22.
25. Johannes F, Porcher E, Teixeira F.K., Saliba-Colombani V, Simon M, et al. (2009) Assessing the impact of transgenerational epigenetic variation on complex traits. PLoS Genet 5(6):e1000530.
26. Reinders J, Wulff BB, Mirouze M, Marí-Ordóñez A, Dapp M, et al. (2009) Compromised stability of DNA methylation and transposon immobilization in mosaic Arabidopsis epigenomes. Genes Dev 23:939-50.
27. Hauben M, Haesendonckx B, Standaert E., Van Der Kelen K, Azmi A, et al. (2009) Energy use efficiency is characterized by an epigenetic component that can be directed through artificial selection to increase yield. Proc Natl Acad Sci USA 106:20109-14.
28. Stroud H, Ding B, Simon S.A., Feng S., Bellizzi M, et al. (2013) Plants regenerated from tissue culture contain stable epigenome changes in rice. Elife 2:e00354.