Pachamuthu K, Simon M, Borges F (2024). Targeted suppression of siRNA biogenesis in Arabidopsis pollen promotes triploid seed viability. Nat Commun, 15(1):4612. PubMed | DOI

Pachamuthu K, Borges F (2023). Epigenetic control of transposons during plant reproduction: From meiosis to hybrid seeds. Curr Opin Plant Biol, 75:102419. PubMed | DOI

Huc J, Dziasek K, Pachamuthu K, Woh T, Köhler C, Borges F (2022). Bypassing reproductive barriers in hybrid seeds using chemically induced epimutagenesis. Plant Cell, 34(3):989-1001. PubMed | DOI

Mhiri C, Borges F, Grandbastien MA (2022). Specificities and Dynamics of Transposable Elements in Land Plants. Biology, 11(4):488. PubMed | DOI

Borges F, Donoghue MTA, LeBlanc C, Wear EE, Tanurdži M, Berube B, Brooks A, Thompson WF, Hanley-Bowdoin L, Martienssen RA (2021). Loss of Small-RNA-Directed DNA Methylation in the Plant Cell Cycle Promotes Germline Reprogramming and Somaclonal Variation. Curr Biol, 31(3):591-600. PubMed | DOI

Butel N, Yu A, Le Masson I, Borges F, Elmayan T, Taochy C, Gursanscky NR, Cao J, Bi S, Sawyer A, Carroll BJ, Vaucheret H (2021). Contrasting epigenetic control of transgenes and endogenous genes promotes post-transcriptional transgene silencing in Arabidopsis. Nat Commun, 12(1):2787. PubMed | DOI

Khouider S, Borges F, LeBlanc C, Ungru A, Schnittger A, Martienssen R, Colot V, Bouyer D (2021). Male fertility in Arabidopsis requires active DNA demethylation of genes that control pollen tube function. Nat Commun, 12(1):410. PubMed | DOI

Lee CH, Hawker NP, Peters JR, Lonhienne TGA, Gursanscky NR, Matthew L, Brosnan CA, Mann CWG, Cromer L, Taochy C, Ngo QA, Sundaresan V, Schenk PM, Kobe B, Borges F, Mercier R, Bowman JL, Carroll BJ (2021). DEFECTIVE EMBRYO AND MERISTEMS genes are required for cell division and gamete viability in Arabidopsis. PLoS Genet, 17(5):e1009561. PubMed | DOI

Mhiri C, Parisod C, Daniel J, Petit M, Lim KY, Dorlhac De Borne F, Kovarik A, Leitch AR, Grandbastien MA (2019). Parental transposable element loads influence their dynamics in young Nicotiana hybrids and allotetraploids. New Phytol, 221:1619-1633. PubMed | DOI

Galindo-Gonzalez L, Mhiri C, Deyholos MK, Grandbastien MA (2017). LTR-retrotransposons in plants: Engines of evolution. Gene, 626:14-25. PubMed | DOI

Perumal S, Waminal NE, Lee J, Choi BS, Kim HH, Grandbastien MA, Yang TJ (2017). Elucidating the major hidden genomic components of the A, C, and AC genomes and their influence on Brassica evolution. Sci Rep, 7:17986. PubMed | DOI

Galindo-Gonzalez L, Mhiri C, Grandbastien MA, Deyholos MK (2016). Ty1-copia elements reveal diverse insertion sites linked to polymorphisms among flax (Linum usitatissimum L.) accessions. BMC Genomics, 17:1002. PubMed | DOI

Vives C, Charlot F, Mhiri C, Contreras B, Daniel J, Epert A, Voytas DF, Grandbastien MA, Nogué F, Casacuberta JM (2016). Highly efficient gene tagging in the bryophyte Physcomitrella patens using the tobacco (Nicotiana tabacum) Tnt1 retrotransposon. New Phytol, 212:759-769. PubMed | DOI

Grandbastien MA (2015). LTR retrotransposons, handy hitchhikers of plant regulation and stress response. Biochim Biophys Acta, 1849:403-416. PubMed | DOI

Mccarthy EW, Arnold SE, Chittka L, Le Comber SC, Verity R, Dodsworth S, Knapp S, Kelly LJ, Chase MW, Baldwin IT, Kovarik A, Mhiri C, Taylor L, Leitch AR (2015). The effect of polyploidy and hybridization on the evolution of floral colour in Nicotiana (Solanaceae). Ann Bot, 115:1117-1131. PubMed | DOI

Anca IA, Fromentin J, Bui QT, Mhiri C, Grandbastien MA, Simon-Plas F (2014). Different tobacco retrotransposons are specifically modulated by the elicitor cryptogein and reactive oxygen species. J Plant Physiol, 171:1533-1540. PubMed | DOI

Azman A, Mhiri C, Grandbastien M, Tam S (2014). Transposable elements and the detection of somaclonal variation in plant tissue culture: A review. Malaysian Applied Biology, 43:1-12. PubMed | DOI

Parisod C, Salmon A, Ainouche M, Grandbastien MA (2014). Detecting epigenetic effects of transposable elements in plants. Methods Mol Biol, 1112:211-217. PubMed | DOI

Renny-Byfield S, Kovarik A, Kelly LJ, Macas J, Novak P, Chase MW, Nichols RA, Pancholi MR, Grandbastien MA, Leitch AR (2013). Diploidization and genome size change in allopolyploids is associated with differential dynamics of low- and high-copy sequences. Plant J, 74:829-839. PubMed | DOI

Matyasek R, Renny-Byfield S, Fulnecek J, Macas J, Grandbastien MA, Nichols R, Leitch A, Kovarik A (2012). Next generation sequencing analysis reveals a relationship between rDNA unit diversity and locus number in Nicotiana diploids. BMC Genomics, 13:722. PubMed | DOI

Parisod C, Mhiri C, Lim KY, Clarkson JJ, Chase MW, Leitch AR, Grandbastien MA (2012). Differential dynamics of transposable elements during long-term diploidization of Nicotiana section Repandae (Solanaceae) allopolyploid genomes. PLoS One, 7:e50352. PubMed | DOI

Zerjal T, Rousselet A, Mhiri C, Combes V, Madur D, Grandbastien MA, Charcosset A, Tenaillon MI (2012). Maize genetic diversity and association mapping using transposable element insertion polymorphisms. Theor Appl Genet, 124:1521-1537. PubMed | DOI

Llorens C, Futami R, Covelli L, Dominguez-Escriba L, Viu JM, Tamarit D, Aguilar-Rodriguez J, Vicente-Ripolles M, Fuster G, Bernet GP, Maumus F, Munoz-Pomer A, Sempere JM, Latorre A, Moya A (2011). The Gypsy Database (GyDB) of mobile genetic elements: release 2.0. Nucleic Acids Res, 39:D70-74. PubMed | DOI

Renny-Byfield S, Chester M, Kovarik A, Le Comber SC, Grandbastien MA, Deloger M, Nichols RA, Macas J, Novak P, Chase MW, Leitch AR (2011). Next generation sequencing reveals genome downsizing in allotetraploid Nicotiana tabacum, predominantly through the elimination of paternally derived repetitive DNAs. Mol Biol Evol, 28:2843-2854. PubMed | DOI

Parisod C, Alix K, Just J, Petit M, Sarilar V, Mhiri C, Ainouche M, Chalhoub B, Grandbastien MA (2010). Impact of transposable elements on the organization and function of allopolyploid genomes. New Phytol, 186:37-45. PubMed | DOI

Petit M, Guidat C, Daniel J, Denis E, Montoriol E, Bui QT, Lim KY, Kovarik A, Leitch AR, Grandbastien MA, Mhiri C (2010). Mobilization of retrotransposons in synthetic allotetraploid tobacco. New Phytol, 186:135-147. PubMed | DOI

Manetti ME, Rossi M, Nakabashi M, Grandbastien MA, Van Sluys MA (2009). The Tnt1 family member Retrosol copy number and structure disclose retrotransposon diversification in different Solanum species. Mol Genet Genomics, 281:261-271. PubMed | DOI

Maumus F, Allen AE, Mhiri C, Hu H, Jabbari K, Vardi A, Grandbastien MA, Bowler C (2009). Potential impact of stress activated retrotransposons on genome evolution in a marine diatom. BMC Genomics, 10:624. PubMed | DOI

Parisod C, Salmon A, Zerjal T, Tenaillon M, Grandbastien MA, Ainouche M (2009). Rapid structural and epigenetic reorganization near transposable elements in hybrid and allopolyploid genomes in Spartina. New Phytol, 184:1003-1015. PubMed | DOI

Tam SM, Lefebvre V, Palloix A, Sage-Palloix AM, Mhiri C, Grandbastien MA (2009). LTR-retrotransposons Tnt1 and T135 markers reveal genetic diversity and evolutionary relationships of domesticated peppers. Theor Appl Genet, 119:973-989. PubMed | DOI

Zerjal T, Joets J, Alix K, Grandbastien MA, Tenaillon MI (2009). Contrasting evolutionary patterns and target specificities among three Tourist-like MITE families in the maize genome. Plant Mol Biol, 71:99-114. PubMed | DOI

Ainouche ML, Fortune PM, Salmon A, Parisod C, Grandbastien MA, Fukunaga K, Ricou M, Misset MT (2008). Hybridization, polyploidy and invasion: lessons from Spartina (Poaceae). Biological Invasions, 11:1159-1173. PubMed | DOI

Dadejova M, Lim KY, Souckova-Skalicka K, Matyasek R, Grandbastien MA, Leitch A, Kovarik A (2007). Transcription activity of rRNA genes correlates with a tendency towards intergenomic homogenization in Nicotiana allotetraploids. New Phytol, 174:658-668. PubMed | DOI

Le QH, Melayah D, Bonnivard E, Petit M, Grandbastien MA (2007). Distribution dynamics of the Tnt1 retrotransposon in tobacco. Mol Genet Genomics, 278:639-651. PubMed | DOI

Lim KY, Kovarik A, Matyasek R, Chase MW, Clarkson JJ, Grandbastien MA, Leitch AR (2007). Sequence of events leading to near-complete genome turnover in allopolyploid Nicotiana within five million years. New Phytol, 175:756-763. PubMed | DOI

Petit M, Lim KY, Julio E, Poncet C, Dorlhac De Borne F, Kovarik A, Leitch AR, Grandbastien MA, Mhiri C (2007). Differential impact of retrotransposon populations on the genome of allotetraploid tobacco (Nicotiana tabacum). Mol Genet Genomics, 278:1-15. PubMed | DOI

Tam SM, Causse M, Garchery C, Burck H, Mhiri C, Grandbastien MA (2007). The distribution of copia-type retrotransposons and the evolutionary history of tomato and related wild species. J Evol Biol, 20:1056-1072. PubMed | DOI