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Outlook for coeliac disease patients: towards bread wheat with hypoimmunogenic gluten by gene editing of α- and γ-gliadin gene families.

Jouanin A, Schaart JG, Boyd LA, Cockram J, Leigh FJ, Bates R, Wallington EJ, Visser RGF, Smulders MJM.

BMC Plant Biol. 2019 Aug 1;19(1):333. doi: 10.1186/s12870-019-1889-5.


In the name of the rose: a roadmap for rose research in the genome era.

Smulders MJM, Arens P, Bourke PM, Debener T, Linde M, Riek J, Leus L, Ruttink T, Baudino S, Hibrant Saint-Oyant L, Clotault J, Foucher F.

Hortic Res. 2019 May 3;6:65. doi: 10.1038/s41438-019-0156-0. eCollection 2019.


polymapR-linkage analysis and genetic map construction from F1 populations of outcrossing polyploids.

Bourke PM, van Geest G, Voorrips RE, Jansen J, Kranenburg T, Shahin A, Visser RGF, Arens P, Smulders MJM, Maliepaard C.

Bioinformatics. 2019 Feb 1;35(3):540. doi: 10.1093/bioinformatics/bty1002. No abstract available.


Development of Wheat With Hypoimmunogenic Gluten Obstructed by the Gene Editing Policy in Europe.

Jouanin A, Boyd L, Visser RGF, Smulders MJM.

Front Plant Sci. 2018 Oct 18;9:1523. doi: 10.3389/fpls.2018.01523. eCollection 2018.


Satellite DNA in Paphiopedilum subgenus Parvisepalum as revealed by high-throughput sequencing and fluorescent in situ hybridization.

Lee YI, Yap JW, Izan S, Leitch IJ, Fay MF, Lee YC, Hidalgo O, Dodsworth S, Smulders MJM, Gravendeel B, Leitch AR.

BMC Genomics. 2018 Aug 2;19(1):578. doi: 10.1186/s12864-018-4956-7.


Oats in healthy gluten-free and regular diets: A perspective.

Smulders MJM, van de Wiel CCM, van den Broeck HC, van der Meer IM, Israel-Hoevelaken TPM, Timmer RD, van Dinter BJ, Braun S, Gilissen LJWJ.

Food Res Int. 2018 Aug;110:3-10. doi: 10.1016/j.foodres.2017.11.031. Epub 2017 Nov 21. Review.


Food processing and breeding strategies for coeliac-safe and healthy wheat products.

Jouanin A, Gilissen LJWJ, Boyd LA, Cockram J, Leigh FJ, Wallington EJ, van den Broeck HC, van der Meer IM, Schaart JG, Visser RGF, Smulders MJM.

Food Res Int. 2018 Aug;110:11-21. doi: 10.1016/j.foodres.2017.04.025. Epub 2017 Apr 26. Review.


A high-quality genome sequence of Rosa chinensis to elucidate ornamental traits.

Hibrand Saint-Oyant L, Ruttink T, Hamama L, Kirov I, Lakhwani D, Zhou NN, Bourke PM, Daccord N, Leus L, Schulz D, Van de Geest H, Hesselink T, Van Laere K, Debray K, Balzergue S, Thouroude T, Chastellier A, Jeauffre J, Voisine L, Gaillard S, Borm TJA, Arens P, Voorrips RE, Maliepaard C, Neu E, Linde M, Le Paslier MC, Bérard A, Bounon R, Clotault J, Choisne N, Quesneville H, Kawamura K, Aubourg S, Sakr S, Smulders MJM, Schijlen E, Bucher E, Debener T, De Riek J, Foucher F.

Nat Plants. 2018 Jul;4(7):473-484. doi: 10.1038/s41477-018-0166-1. Epub 2018 Jun 11.


polymapR-linkage analysis and genetic map construction from F1 populations of outcrossing polyploids.

Bourke PM, van Geest G, Voorrips RE, Jansen J, Kranenburg T, Shahin A, Visser RGF, Arens P, Smulders MJM, Maliepaard C.

Bioinformatics. 2018 Oct 15;34(20):3496-3502. doi: 10.1093/bioinformatics/bty371. Erratum in: Bioinformatics. 2019 Feb 1;35(3):540.


Correction to: New traits in crops produced by genome editing techniques based on deletions.

van de Wiel CCM, Schaart JG, Lotz LAP, Smulders MJM.

Plant Biotechnol Rep. 2018;12(5):375. doi: 10.1007/s11816-018-0498-3. Epub 2018 Sep 27.


Why Oats Are Safe and Healthy for Celiac Disease Patients.

Gilissen LJWJ, van der Meer IM, Smulders MJM.

Med Sci (Basel). 2016 Nov 26;4(4). pii: E21. doi: 10.3390/medsci4040021. Review.


De Novo Assembly of Complete Chloroplast Genomes from Non-model Species Based on a K-mer Frequency-Based Selection of Chloroplast Reads from Total DNA Sequences.

Izan S, Esselink D, Visser RGF, Smulders MJM, Borm T.

Front Plant Sci. 2017 Aug 2;8:1271. doi: 10.3389/fpls.2017.01271. eCollection 2017.


New traits in crops produced by genome editing techniques based on deletions.

van de Wiel CCM, Schaart JG, Lotz LAP, Smulders MJM.

Plant Biotechnol Rep. 2017;11(1):1-8. doi: 10.1007/s11816-017-0425-z. Epub 2017 Feb 13. Review. Erratum in: Plant Biotechnol Rep. 2018;12(5):375.


Re-sequencing transgenic plants revealed rearrangements at T-DNA inserts, and integration of a short T-DNA fragment, but no increase of small mutations elsewhere.

Schouten HJ, Vande Geest H, Papadimitriou S, Bemer M, Schaart JG, Smulders MJ, Perez GS, Schijlen E.

Plant Cell Rep. 2017 Mar;36(3):493-504. doi: 10.1007/s00299-017-2098-z. Epub 2017 Feb 2.


Partial preferential chromosome pairing is genotype dependent in tetraploid rose.

Bourke PM, Arens P, Voorrips RE, Esselink GD, Koning-Boucoiran CF, Van't Westende WP, Santos Leonardo T, Wissink P, Zheng C, van Geest G, Visser RG, Krens FA, Smulders MJ, Maliepaard C.

Plant J. 2017 Apr;90(2):330-343. doi: 10.1111/tpj.13496. Epub 2017 Mar 20. Erratum in: Plant J. 2019 Feb;97(3):616.


Genome-Wide Association Analysis of the Anthocyanin and Carotenoid Contents of Rose Petals.

Schulz DF, Schott RT, Voorrips RE, Smulders MJ, Linde M, Debener T.

Front Plant Sci. 2016 Dec 6;7:1798. doi: 10.3389/fpls.2016.01798. eCollection 2016.


High-density SNP-based genetic maps for the parents of an outcrossed and a selfed tetraploid garden rose cross, inferred from admixed progeny using the 68k rose SNP array.

Vukosavljev M, Arens P, Voorrips RE, van 't Westende WP, Esselink GD, Bourke PM, Cox P, van de Weg WE, Visser RG, Maliepaard C, Smulders MJ.

Hortic Res. 2016 Oct 26;3:16052. eCollection 2016.


Population structure and genome-wide association analysis for frost tolerance in oat using continuous SNP array signal intensity ratios.

Tumino G, Voorrips RE, Rizza F, Badeck FW, Morcia C, Ghizzoni R, Germeier CU, Paulo MJ, Terzi V, Smulders MJ.

Theor Appl Genet. 2016 Sep;129(9):1711-24. doi: 10.1007/s00122-016-2734-y. Epub 2016 Jun 18.


Erratum to: A qRT-PCR assay for the expression of all Mal d 1 isoallergen genes.

Pagliarani G, Paris R, Arens P, Tartarini S, Ricci G, Smulders MJ, Van De Weg EW.

BMC Plant Biol. 2016 Apr 8;16:83. doi: 10.1186/s12870-016-0757-9. No abstract available.


Profiling of Nutritional and Health-Related Compounds in Oat Varieties.

van den Broeck HC, Londono DM, Timmer R, Smulders MJ, Gilissen LJ, van der Meer IM.

Foods. 2015 Dec 25;5(1). pii: E2. doi: 10.3390/foods5010002.


Opportunities for Products of New Plant Breeding Techniques.

Schaart JG, van de Wiel CCM, Lotz LAP, Smulders MJM.

Trends Plant Sci. 2016 May;21(5):438-449. doi: 10.1016/j.tplants.2015.11.006. Epub 2015 Nov 30. Review.


First successful reduction of clinical allergenicity of food by genetic modification: Mal d 1-silenced apples cause fewer allergy symptoms than the wild-type cultivar.

Dubois AE, Pagliarani G, Brouwer RM, Kollen BJ, Dragsted LO, Eriksen FD, Callesen O, Gilissen LJ, Krens FA, Visser RG, Smulders MJ, Vlieg-Boerstra BJ, Flokstra-de Blok BJ, van de Weg WE.

Allergy. 2015 Nov;70(11):1406-12. doi: 10.1111/all.12684. Epub 2015 Jul 24.


Using RNA-Seq to assemble a rose transcriptome with more than 13,000 full-length expressed genes and to develop the WagRhSNP 68k Axiom SNP array for rose (Rosa L.).

Koning-Boucoiran CF, Esselink GD, Vukosavljev M, van 't Westende WP, Gitonga VW, Krens FA, Voorrips RE, van de Weg WE, Schulz D, Debener T, Maliepaard C, Arens P, Smulders MJ.

Front Plant Sci. 2015 Apr 21;6:249. doi: 10.3389/fpls.2015.00249. eCollection 2015.


Spatial sorting and range shifts: consequences for evolutionary potential and genetic signature of a dispersal trait.

Cobben MM, Verboom J, Opdam PF, Hoekstra RF, Jochem R, Smulders MJ.

J Theor Biol. 2015 May 21;373:92-9. doi: 10.1016/j.jtbi.2015.03.019. Epub 2015 Mar 24.


Genomic sequencing and microsatellite marker development for Boswellia papyrifera, an economically important but threatened tree native to dry tropical forests.

Addisalem AB, Esselink GD, Bongers F, Smulders MJ.

AoB Plants. 2015 Jan 7;7. pii: plu086. doi: 10.1093/aobpla/plu086.


Using multi-locus allelic sequence data to estimate genetic divergence among four Lilium (Liliaceae) cultivars.

Shahin A, Smulders MJ, van Tuyl JM, Arens P, Bakker FT.

Front Plant Sci. 2014 Oct 20;5:567. doi: 10.3389/fpls.2014.00567. eCollection 2014.


Abiotic stress QTL in lettuce crop-wild hybrids: comparing greenhouse and field experiments.

Hartman Y, Hooftman DA, Uwimana B, Schranz ME, van de Wiel CC, Smulders MJ, Visser RG, Michelmore RW, van Tienderen PH.

Ecol Evol. 2014 Jun;4(12):2395-409. doi: 10.1002/ece3.1060. Epub 2014 May 17.


New insights into domestication of carrot from root transcriptome analyses.

Rong J, Lammers Y, Strasburg JL, Schidlo NS, Ariyurek Y, de Jong TJ, Klinkhamer PG, Smulders MJ, Vrieling K.

BMC Genomics. 2014 Oct 14;15:895. doi: 10.1186/1471-2164-15-895.


Efficient development of highly polymorphic microsatellite markers based on polymorphic repeats in transcriptome sequences of multiple individuals.

Vukosavljev M, Esselink GD, van 't Westende WP, Cox P, Visser RG, Arens P, Smulders MJ.

Mol Ecol Resour. 2015 Jan;15(1):17-27. doi: 10.1111/1755-0998.12289. Epub 2014 Jun 28.


Community genetics in the time of next-generation molecular technologies.

Gugerli F, Brandl R, Castagneyrol B, Franc A, Jactel H, Koelewijn HP, Martin F, Peter M, Pritsch K, Schröder H, Smulders MJ, Kremer A, Ziegenhagen B; Evoltree JERA3 Contributors.

Mol Ecol. 2013 Jun;22(12):3198-207. doi: 10.1111/mec.12300.


Quantitative and qualitative differences in celiac disease epitopes among durum wheat varieties identified through deep RNA-amplicon sequencing.

Salentijn EM, Esselink DG, Goryunova SV, van der Meer IM, Gilissen LJ, Smulders MJ.

BMC Genomics. 2013 Dec 19;14:905. doi: 10.1186/1471-2164-14-905.


The domestication and evolutionary ecology of apples.

Cornille A, Giraud T, Smulders MJ, Roldán-Ruiz I, Gladieux P.

Trends Genet. 2014 Feb;30(2):57-65. doi: 10.1016/j.tig.2013.10.002. Epub 2013 Nov 27. Review.


Insight into the genetic components of community genetics: QTL mapping of insect association in a fast-growing forest tree.

DeWoody J, Viger M, Lakatos F, Tuba K, Taylor G, Smulders MJ.

PLoS One. 2013 Nov 19;8(11):e79925. doi: 10.1371/journal.pone.0079925. eCollection 2013.


Genomic and environmental selection patterns in two distinct lettuce crop-wild hybrid crosses.

Hartman Y, Uwimana B, Hooftman DA, Schranz ME, van de Wiel CC, Smulders MJ, Visser RG, van Tienderen PH.

Evol Appl. 2013 Jun;6(4):569-84. doi: 10.1111/eva.12043. Epub 2013 Jan 24.


AFLP-based population structure analysis as a means to validate the complex taxonomy of dogroses (Rosa section Caninae).

De Riek J, De Cock K, Smulders MJ, Nybom H.

Mol Phylogenet Evol. 2013 Jun;67(3):547-59. doi: 10.1016/j.ympev.2013.02.024. Epub 2013 Mar 7.


Postglacial recolonization history of the European crabapple (Malus sylvestris Mill.), a wild contributor to the domesticated apple.

Cornille A, Giraud T, Bellard C, Tellier A, Le Cam B, Smulders MJ, Kleinschmit J, Roldan-Ruiz I, Gladieux P.

Mol Ecol. 2013 Apr;22(8):2249-63. doi: 10.1111/mec.12231. Epub 2013 Feb 12.


Expansion of the gamma-gliadin gene family in Aegilops and Triticum.

Goryunova SV, Salentijn EM, Chikida NN, Kochieva EZ, van der Meer IM, Gilissen LJ, Smulders MJ.

BMC Evol Biol. 2012 Nov 8;12:215. doi: 10.1186/1471-2148-12-215.


Efficient distinction of invasive aquatic plant species from non-invasive related species using DNA barcoding.

Ghahramanzadeh R, Esselink G, Kodde LP, Duistermaat H, van Valkenburg JL, Marashi SH, Smulders MJ, van de Wiel CC.

Mol Ecol Resour. 2013 Jan;13(1):21-31. doi: 10.1111/1755-0998.12020. Epub 2012 Oct 8. Erratum in: Mol Ecol Resour. 2015 Jan;15(1):230.


Genomic regions in crop-wild hybrids of lettuce are affected differently in different environments: implications for crop breeding.

Hartman Y, Hooftman DA, Uwimana B, van de Wiel CC, Smulders MJ, Visser RG, van Tienderen PH.

Evol Appl. 2012 Sep;5(6):629-40. doi: 10.1111/j.1752-4571.2012.00240.x. Epub 2012 Feb 23.


Celiac disease T-cell epitopes from gamma-gliadins: immunoreactivity depends on the genome of origin, transcript frequency, and flanking protein variation.

Salentijn EM, Mitea DC, Goryunova SV, van der Meer IM, Padioleau I, Gilissen LJ, Koning F, Smulders MJ.

BMC Genomics. 2012 Jun 22;13:277. doi: 10.1186/1471-2164-13-277.


Hybridization between crops and wild relatives: the contribution of cultivated lettuce to the vigour of crop-wild hybrids under drought, salinity and nutrient deficiency conditions.

Uwimana B, Smulders MJ, Hooftman DA, Hartman Y, van Tienderen PH, Jansen J, McHale LK, Michelmore RW, van de Wiel CC, Visser RG.

Theor Appl Genet. 2012 Oct;125(6):1097-111. doi: 10.1007/s00122-012-1897-4. Epub 2012 Jun 4.


New insight into the history of domesticated apple: secondary contribution of the European wild apple to the genome of cultivated varieties.

Cornille A, Gladieux P, Smulders MJ, Roldán-Ruiz I, Laurens F, Le Cam B, Nersesyan A, Clavel J, Olonova M, Feugey L, Gabrielyan I, Zhang XG, Tenaillon MI, Giraud T.

PLoS Genet. 2012;8(5):e1002703. doi: 10.1371/journal.pgen.1002703. Epub 2012 May 10.


The mode of inheritance in tetraploid cut roses.

Koning-Boucoiran CF, Gitonga VW, Yan Z, Dolstra O, van der Linden CG, van der Schoot J, Uenk GE, Verlinden K, Smulders MJ, Krens FA, Maliepaard C.

Theor Appl Genet. 2012 Aug;125(3):591-607. doi: 10.1007/s00122-012-1855-1. Epub 2012 Apr 12.


A Bayesian analysis of gene flow from crops to their wild relatives: cultivated (Lactuca sativa L.) and prickly lettuce (L. serriola L.) and the recent expansion of L. serriola in Europe.

Uwimana B, D'Andrea L, Felber F, Hooftman DA, Den Nijs HC, Smulders MJ, Visser RG, Van De Wiel CC.

Mol Ecol. 2012 Jun;21(11):2640-54. doi: 10.1111/j.1365-294X.2012.05489.x. Epub 2012 Apr 19.


Crop to wild introgression in lettuce: following the fate of crop genome segments in backcross populations.

Uwimana B, Smulders MJ, Hooftman DA, Hartman Y, van Tienderen PH, Jansen J, McHale LK, Michelmore RW, Visser RG, van de Wiel CC.

BMC Plant Biol. 2012 Mar 26;12:43. doi: 10.1186/1471-2229-12-43.


Botanical DNA evidence in criminal cases: Knotgrass (Polygonum aviculare L.) as a model species.

Koopman WJ, Kuiper I, Klein-Geltink DJ, Sabatino GJ, Smulders MJ.

Forensic Sci Int Genet. 2012 May;6(3):366-74. doi: 10.1016/j.fsigen.2011.07.013. Epub 2011 Aug 30.


Proteomic analysis of the major birch allergen Bet v 1 predicts allergenicity for 15 birch species.

Schenk MF, Cordewener JH, America AH, Peters J, Smulders MJ, Gilissen LJ.

J Proteomics. 2011 Aug 12;74(8):1290-300. doi: 10.1016/j.jprot.2011.03.021. Epub 2011 Apr 1.


Permanent genetic resources added to Molecular Ecology Resources Database 1 August 2010-30 September 2010.

Molecular Ecology Resources Primer Development Consortium, Aggarwal RK, Allainguillaume J, Bajay MM, Barthwal S, Bertolino P, Chauhan P, Consuegra S, Croxford A, Dalton DL, den Belder E, Díaz-Ferguson E, Douglas MR, Drees M, Elderson J, Esselink GD, Fernández-Manjarrés JF, Frascaria-Lacoste N, Gäbler-Schwarz S, Garcia de Leaniz C, Ginwal HS, Goodisman MA, Guo B, Hamilton MB, Hayes PK, Hong Y, Kajita T, Kalinowski ST, Keller L, Koop BF, Kotzé A, Lalremruata A, Leese F, Li C, Liew WY, Martinelli S, Matthews EA, Medlin LK, Messmer AM, Meyer EI, Monteiro M, Moyer GR, Nelson RJ, Nguyen TT, Omoto C, Ono J, Pavinato VA, Pearcy M, Pinheiro JB, Power LD, Rawat A, Reusch TB, Sanderson D, Sannier J, Sathe S, Sheridan CK, Smulders MJ, Sukganah A, Takayama K, Tamura M, Tateishi Y, Vanhaecke D, Vu NV, Wickneswari R, Williams AS, Wimp GM, Witte V, Zucchi MI.

Mol Ecol Resour. 2011 Jan;11(1):219-22. doi: 10.1111/j.1755-0998.2010.02944.x.


What's in a name; genetic structure in Solanum section Petota studied using population-genetic tools.

Jacobs MM, Smulders MJ, van den Berg RG, Vosman B.

BMC Evol Biol. 2011 Feb 10;11:42. doi: 10.1186/1471-2148-11-42.


A universal approach to eliminate antigenic properties of alpha-gliadin peptides in celiac disease.

Mitea C, Salentijn EM, van Veelen P, Goryunova SV, van der Meer IM, van den Broeck HC, Mujico JR, Montserrat V, Gilissen LJ, Drijfhout JW, Dekking L, Koning F, Smulders MJ.

PLoS One. 2010 Dec 16;5(12):e15637. doi: 10.1371/journal.pone.0015637. Erratum in: PLoS One. 2012;7(9). doi:10.1371/annotation/cdf9d655-07e8-4081-ad86-a00c89fa001a. Monserrat, Veronica [corrected to Montserrat, Veronica].

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