Assessment of genetic and epigenetic changes during cell culture ageing and relations with somaclonal variation in Coffea arabica

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• 作者：Roberto Bobadilla Landey ; Alberto Cenci…
• 关键词：Chromosome number ; DNA methylation ; Genetic and epigenetic stability ; Long ; term cell culture ; Molecular markers ; Transposable elements
• 刊名：Plant Cell, Tissue and Organ Culture
• 出版年：2015
• 出版时间：September 2015
• 年：2015
• 卷：122
• 期：3
• 页码：517-531
• 全文大小：2,244 KB
• 参考文献：Barret P, Brinkman M, Beckert M (2006) A sequence related to rice Pong transposable element displays transcriptional activation by in vitro culture and reveals somaclonal variations in maize. Genome 49:1399-407PubMed View Article
  Bednarek PT, Or?owska R, Koebner RMD, Zimny J (2007) Quantification of tissue-culture induced variation in barley (Hordeum vulgare L.). BMC Plant Biol 7:10PubMed Central PubMed View Article
  Biswas MK, Dutt M, Roy UK, Islam R, Hossain M (2009) Development and evaluation of in vitro somaclonal variation in strawberry for improved horticultural traits. Sci Hort 22:409-16View Article
  Bobadilla Landey R, Cenci A, Georget F, Bertrand B, Camayo G, Dechamp E, Simpson J, Herrera JC, Santoni S, Lashermes P, Etienne H (2013) High genetic and epigenetic stability in Coffea arabica plants derived from embryogenic suspensions and secondary embryogenesis as revealed by AFLP, MSAP and the phenotypic variation rate. PLoS One 8(2):e56372. doi:10.-371/?journal.?pone.-056372 PubMed Central PubMed View Article
  Cenci A, Combes M-C, Lashermes P (2012) Genome evolution in diploid and tetraploid Coffea species as revealed by comparative analysis of orthologous genome segments. Plant Mol Biol 78:135-45PubMed View Article
  D’Amato F (1985) Cytogenetics of plant cells and tissue cultures and their regenerates. Plant Sci 3:73-12View Article
  DeBarry JD, Liu R, Bennetzen JL (2008) Discovery and assembly of repeat family pseudomolecules from sparse genomics sequence data using the assisted automated assembler of repeat families (AAARF) algorithm. BMC Bioinform 13(9):235. doi:10.-186/-471-2105-9-235 View Article
  Dellaporta SL, Wood J, Hicks JB (1983) A plant DNA miniprepration: version II. Plant Mol Biol Rep 1:19-1View Article
  Denoeud F, Carretero-Paulet L, Dereeper A, Droc G, Guyot R, Pietrella M, Zheng C, Alberti A, Anthony F et al (2014) The coffee genome provides insight into the convergent evolution of caffeine biosynthesis. Science 345:1181-184. doi:10.-126/?science.-255274 PubMed View Article
  Díaz-Martínez M, Nava-Cedillo A, Guzmán-López JA, Escobar-Guzmán R, Simpson J (2012) Polymorphism and methylation patterns in Agave tequilana Weber var. ‘Azul-plants propagated asexually by three different methods. Plant Sci 185-86:321-30PubMed View Article
  Etienne H (2005) Protocol of somatic embryogenesis: coffee (Coffea arabica L. and C. canephora P.). In: Jain SM, Gupta PK (eds) Protocols for somatic embryogenesis in woody plants. Series: Forestry Sciences, vol 77. 590 p, Springer, Dordrecht, pp 167-79, ISBN: 1-4020-2984-5
  Etienne H, Bertrand B (2001) The effect of the embryogenic cell suspension micropropagation technique on the trueness to type, field performance, bean biochemical content and cup quality of Coffea arabica trees. Tree Physiol 21:1031-038PubMed View Article
  Etienne H, Bertrand B (2003) Somaclonal variation in Coffea arabica: effects of genotype and embryogenic cell suspension age on frequency and phenotype of variants. Tree Physiol 23:419-26PubMed View Article
  Fiuk A, Bednarek PT, Rybczynski JJ (2010) Flow cytometry, HPLC-RP and met AFLP analyses to assess genetic variability in somatic embryo-derived plantlets of Gentiana pannonica scop. Plant Mol Biol Rep 28:413-20View Article
  Gao X, Yang D, Cao D, Ao M, Sui X, Wang Q, Kimatu JN, Wang L (2010) In vitro micropropagation of Freesia hybrida and the assessment of genetic and epigenetic stability in regenerated plantlets. J Plant Growth Reg 29:257-67View Article
  Giorgetti L, Castiglione M, Turrini A, Ronchi V, Geri C (2011) Cytogenetic and histological approach for early detection of “mantled-somaclonal variants of oil palm regenerated by somatic embryogenesis: first results on the characterization of regeneration system. Caryologia 64:223-34View Article
  Hao YI, Deng XX (2002) Occurrence of chromosomal variations and plant regeneration from long-term-cultured citrus callus. In vitro Cell Dev Biol Plant 38:472-76View Article
  Henry IM, Dilkes BP, Miller ES, Burkart-Waco D, Comai L (2010) Phenotypic consequences of aneuploidy in Arabidopsis thaliana. Genetics 186:1231-245PubMed Central PubMed View Article
  Herrera JC, D’hont A, Lashermes P (2007) Use of fluorescence in situ hybridization as a tool for introgression analysis and chromosome identification in coffee (Coffea arabica L.). Genome 50:619-26PubMed View Article
  Hirochika H, Sugimoto K, Otsuki Y, Tsugawa H, Kanda M (1996) Retrotransposons of rice involved in mutations induced by tissue culture. Proc Natl Acad Sci 93:7783-788
  Holland AJ, Cleveland DW (2009) Boveri revisited: chromosomal instability, aneuploidy and tumorigenesis. Nat Rev Mol Cell Biol 10:478-87PubMed Central PubMed View Article
  Jambhale ND, Patil SC, Jadhav AS, Pawar SV, Waghmode BD (2001) Effect of numer of subcultures on in vitro multiplication of four banana clones. Infomusa 10:38-9
  Jurka J, Kapitonov VV, Pavlicek A, Klo
• 作者单位：Roberto Bobadilla Landey (1)
  Alberto Cenci (2)
  Romain Guyot (3)
  Beno?t Bertrand (1)
  Frédéric Georget (1)
  Eveline Dechamp (1)
  Juan-Carlos Herrera (4)
  Jamel Aribi (3)
  Philippe Lashermes (5)
  Hervé Etienne (1)
  
  1. UMR IPME, CIRAD, 911 Avenue Agropolis, BP 64501, 34394, Montpellier, France
  2. Bioversity, Montpellier, France
  3. UMR IPME, IRD, 911 Avenue Agropolis, BP 64501, 34394, Montpellier, France
  4. Centro Nacional de Investigaciones de Café, CENICAFE, PO Box 2427, Manizales, Caldas, Colombia
  5. UMR DIADE, IRD, 911 Avenue Agropolis, BP 64501, 34394, Montpellier, France
  
• 刊物类别：Biomedical and Life Sciences
• 刊物主题：Life Sciences
  Plant Sciences
  Plant Physiology
  
• 出版者：Springer Netherlands
• ISSN：1573-5044

文摘

Long-term cell cultures were used in coffee to study the cytological, genetic and epigenetic changes occurring during cell culture ageing. The objective was to identify the mechanisms associated with somaclonal variation (SV). Three embryogenic cell lines were established in Coffea arabica (2n?=?4x?=?44) and somatic seedlings were regenerated after 4, 11 and 27?months. Phenotyping and AFLP, MSAP, SSAP molecular markers were performed on 199 and 124 plants, respectively. SV were only observed from the 11 and 27-month-old cultures, affecting 30 and 94?% of regenerated plants, respectively. Chromosome counts performed on 15 plants showed that normal plants systematically displayed normal chromosome numbers and that, conversely, aneuploidy (monosomy) was systematically found in variants. The allopolyploid structure of C. arabica allowed aneuploid cells to survive and regenerate viable plants. No polymorphic fragments were observed between the AFLP and SSAP electrophoretic profiles of mother plants and those of the in vitro progeny. Methylation polymorphism was low and ranged between 0.087 and 0.149?% irrespective of the culture age. The number of methylation changes per plant—normal or variant—was limited and ranged from 0 (55-0?% of the plants) to 4. The three cell lines showed similar SV rate increases during cell culture ageing and produced plants with similar molecular patterns indicating a non random process. The results showed that cell culture ageing is highly mutagenic in coffee and chromosomal rearrangements are directly linked to SV. Conversely, the analysis of methylation and transposable elements changes did not reveal any relation between the epigenetic patterns and SV.