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Integrative analysis of the nuclear proteome in Pinus radiata reveals thermopriming coupled to epigenetic regulation.

Lamelas L, Valledor L, Escandón M, Pinto G, Cañal MJ, Meijón M.

J Exp Bot. 2020 Mar 25;71(6):2040-2057. doi: 10.1093/jxb/erz524.


Early growth of Scots pine seedlings is affected by seed origin and light quality.

Alakärppä E, Taulavuori E, Valledor L, Marttila T, Jokipii-Lukkari S, Karppinen K, Nguyen N, Taulavuori K, Häggman H.

J Plant Physiol. 2019 Jun;237:120-128. doi: 10.1016/j.jplph.2019.03.012. Epub 2019 Apr 25.


Pinus Susceptibility to Pitch Canker Triggers Specific Physiological Responses in Symptomatic Plants: An Integrated Approach.

Amaral J, Correia B, António C, Rodrigues AM, Gómez-Cadenas A, Valledor L, Hancock RD, Alves A, Pinto G.

Front Plant Sci. 2019 Apr 24;10:509. doi: 10.3389/fpls.2019.00509. eCollection 2019.


Chromatin regulation by Histone H4 acetylation at Lysine 16 during cell death and differentiation in the myeloid compartment.

Urdinguio RG, Lopez V, Bayón GF, Diaz de la Guardia R, Sierra MI, García-Toraño E, Perez RF, García MG, Carella A, Pruneda PC, Prieto C, Dmitrijeva M, Santamarina P, Belmonte T, Mangas C, Diaconu E, Ferrero C, Tejedor JR, Fernandez-Morera JL, Bravo C, Bueno C, Sanjuan-Pla A, Rodriguez RM, Suarez-Alvarez B, López-Larrea C, Bernal T, Colado E, Balbín M, García-Suarez O, Chiara MD, Sáenz-de-Santa-María I, Rodríguez F, Pando-Sandoval A, Rodrigo L, Santos L, Salas A, Vallejo-Díaz J, C Carrera A, Rico D, Hernández-López I, Vayá A, Ricart JM, Seto E, Sima-Teruel N, Vaquero A, Valledor L, Cañal MJ, Pisano D, Graña-Castro O, Thomas T, Voss AK, Menéndez P, Villar-Garea A, Deutzmann R, Fernandez AF, Fraga MF.

Nucleic Acids Res. 2019 Jun 4;47(10):5016-5037. doi: 10.1093/nar/gkz195.


Proteomics, Holm Oak (Quercus ilex L.) and Other Recalcitrant and Orphan Forest Tree Species: How do They See Each Other?

Rey MD, Castillejo MÁ, Sánchez-Lucas R, Guerrero-Sanchez VM, López-Hidalgo C, Romero-Rodríguez C, Valero-Galván J, Sghaier-Hammami B, Simova-Stoilova L, Echevarría-Zomeño S, Jorge I, Gómez-Gálvez I, Papa ME, Carvalho K, Rodríguez de Francisco LE, Maldonado-Alconada AM, Valledor L, Jorrín-Novo JV.

Int J Mol Sci. 2019 Feb 6;20(3). pii: E692. doi: 10.3390/ijms20030692. Review.


Genome-wide identification and characterization of CKIN/SnRK gene family in Chlamydomonas reinhardtii.

Colina F, Amaral J, Carbó M, Pinto G, Soares A, Cañal MJ, Valledor L.

Sci Rep. 2019 Jan 23;9(1):350. doi: 10.1038/s41598-018-35625-8.


Natural variation of DNA methylation and gene expression may determine local adaptations of Scots pine populations.

Alakärppä E, Salo HM, Valledor L, Cañal MJ, Häggman H, Vuosku J.

J Exp Bot. 2018 Oct 12;69(21):5293-5305. doi: 10.1093/jxb/ery292.


A Multi-Omics Analysis Pipeline for the Metabolic Pathway Reconstruction in the Orphan Species Quercus ilex.

López-Hidalgo C, Guerrero-Sánchez VM, Gómez-Gálvez I, Sánchez-Lucas R, Castillejo-Sánchez MA, Maldonado-Alconada AM, Valledor L, Jorrín-Novo JV.

Front Plant Sci. 2018 Jul 11;9:935. doi: 10.3389/fpls.2018.00935. eCollection 2018.


Combined Drought and Heat Activates Protective Responses in Eucalyptus globulus That Are Not Activated When Subjected to Drought or Heat Stress Alone.

Correia B, Hancock RD, Amaral J, Gomez-Cadenas A, Valledor L, Pinto G.

Front Plant Sci. 2018 Jun 20;9:819. doi: 10.3389/fpls.2018.00819. eCollection 2018.


Metabolome Integrated Analysis of High-Temperature Response in Pinus radiata.

Escandón M, Meijón M, Valledor L, Pascual J, Pinto G, Cañal MJ.

Front Plant Sci. 2018 Apr 17;9:485. doi: 10.3389/fpls.2018.00485. eCollection 2018.


Quantification of Global DNA Methylation Levels by Mass Spectrometry.

Fernandez AF, Valledor L, Vallejo F, Cañal MJ, Fraga MF.

Methods Mol Biol. 2018;1708:49-58. doi: 10.1007/978-1-4939-7481-8_3.


A cost-effective approach to produce 15N-labelled amino acids employing Chlamydomonas reinhardtii CC503.

Nicolás Carcelén J, Marchante-Gayón JM, González PR, Valledor L, Cañal MJ, Alonso JIG.

Microb Cell Fact. 2017 Aug 18;16(1):146. doi: 10.1186/s12934-017-0759-9.


System-wide analysis of short-term response to high temperature in Pinus radiata.

Escandón M, Valledor L, Pascual J, Pinto G, Cañal MJ, Meijón M.

J Exp Bot. 2017 Jun 15;68(13):3629-3641. doi: 10.1093/jxb/erx198.


Integrated Physiological, Proteomic, and Metabolomic Analysis of Ultra Violet (UV) Stress Responses and Adaptation Mechanisms in Pinus radiata.

Pascual J, Cañal MJ, Escandón M, Meijón M, Weckwerth W, Valledor L.

Mol Cell Proteomics. 2017 Mar;16(3):485-501. doi: 10.1074/mcp.M116.059436. Epub 2017 Jan 17.


Proteomics and comparative genomics of Nitrososphaera viennensis reveal the core genome and adaptations of archaeal ammonia oxidizers.

Kerou M, Offre P, Valledor L, Abby SS, Melcher M, Nagler M, Weckwerth W, Schleper C.

Proc Natl Acad Sci U S A. 2016 Dec 6;113(49):E7937-E7946. Epub 2016 Nov 18.


Dataset of UV induced changes in nuclear proteome obtained by GeLC-Orbitrap/MS in Pinus radiata needles.

Alegre S, Pascual J, Nagler M, Weckwerth W, Cañal MJ, Valledor L.

Data Brief. 2016 Apr 7;7:1477-82. doi: 10.1016/j.dib.2016.03.074. eCollection 2016 Jun.


Differential Methylation of Genomic Regions Associated with Heteroblasty Detected by M&M Algorithm in the Nonmodel Species Eucalyptus globulus Labill.

Hasbún R, Iturra C, Bravo S, Rebolledo-Jaramillo B, Valledor L.

Int J Genomics. 2016;2016:4395153. doi: 10.1155/2016/4395153. Epub 2016 Mar 30.


The variations in the nuclear proteome reveal new transcription factors and mechanisms involved in UV stress response in Pinus radiata.

Pascual J, Alegre S, Nagler M, Escandón M, Annacondia ML, Weckwerth W, Valledor L, Cañal MJ.

J Proteomics. 2016 Jun 30;143:390-400. doi: 10.1016/j.jprot.2016.03.003. Epub 2016 Mar 4.


Allele-Specific Reprogramming of Cancer Metabolism by the Long Non-coding RNA CCAT2.

Redis RS, Vela LE, Lu W, Ferreira de Oliveira J, Ivan C, Rodriguez-Aguayo C, Adamoski D, Pasculli B, Taguchi A, Chen Y, Fernandez AF, Valledor L, Van Roosbroeck K, Chang S, Shah M, Kinnebrew G, Han L, Atlasi Y, Cheung LH, Huang GY, Monroig P, Ramirez MS, Catela Ivkovic T, Van L, Ling H, Gafà R, Kapitanovic S, Lanza G, Bankson JA, Huang P, Lai SY, Bast RC, Rosenblum MG, Radovich M, Ivan M, Bartholomeusz G, Liang H, Fraga MF, Widger WR, Hanash S, Berindan-Neagoe I, Lopez-Berestein G, Ambrosio ALB, Gomes Dias SM, Calin GA.

Mol Cell. 2016 Feb 18;61(4):640. doi: 10.1016/j.molcel.2016.02.006. Epub 2016 Feb 18. No abstract available.


Allele-Specific Reprogramming of Cancer Metabolism by the Long Non-coding RNA CCAT2.

Redis RS, Vela LE, Lu W, Ferreira de Oliveira J, Ivan C, Rodriguez-Aguayo C, Adamoski D, Pasculli B, Taguchi A, Chen Y, Fernandez AF, Valledor L, Van Roosbroeck K, Chang S, Shah M, Kinnebrew G, Han L, Atlasi Y, Cheung LH, Huang GY, Monroig P, Ramirez MS, Catela Ivkovic T, Van L, Ling H, Gafà R, Kapitanovic S, Lanza G, Bankson JA, Huang P, Lai SY, Bast RC, Rosenblum MG, Radovich M, Ivan M, Bartholomeusz G, Liang H, Fraga MF, Widger WR, Hanash S, Berindan-Neagoe I, Lopez-Berestein G, Ambrosio ALB, Gomes Dias SM, Calin GA.

Mol Cell. 2016 Feb 18;61(4):520-534. doi: 10.1016/j.molcel.2016.01.015. Epub 2016 Feb 4. Erratum in: Mol Cell. 2016 Feb 18;61(4):640.


Exploring natural variation of Pinus pinaster Aiton using metabolomics: Is it possible to identify the region of origin of a pine from its metabolites?

Meijón M, Feito I, Oravec M, Delatorre C, Weckwerth W, Majada J, Valledor L.

Mol Ecol. 2016 Feb;25(4):959-76. doi: 10.1111/mec.13525. Epub 2016 Feb 11.


A year (2014-2015) of plants in Proteomics journal. Progress in wet and dry methodologies, moving from protein catalogs, and the view of classic plant biochemists.

Sanchez-Lucas R, Mehta A, Valledor L, Cabello-Hurtado F, Romero-Rodrıguez MC, Simova-Stoilova L, Demir S, Rodriguez-de-Francisco LE, Maldonado-Alconada AM, Jorrin-Prieto AL, Jorrín-Novo JV.

Proteomics. 2016 Mar;16(5):866-76. doi: 10.1002/pmic.201500351. Epub 2016 Feb 17. Review.


Conserved Epigenetic Mechanisms Could Play a Key Role in Regulation of Photosynthesis and Development-Related Genes during Needle Development of Pinus radiata.

Valledor L, Pascual J, Meijón M, Escandón M, Cañal MJ.

PLoS One. 2015 May 12;10(5):e0126405. doi: 10.1371/journal.pone.0126405. eCollection 2015.


System-level network analysis of nitrogen starvation and recovery in Chlamydomonas reinhardtii reveals potential new targets for increased lipid accumulation.

Valledor L, Furuhashi T, Recuenco-Muñoz L, Wienkoop S, Weckwerth W.

Biotechnol Biofuels. 2014 Dec 24;7:171. doi: 10.1186/s13068-014-0171-1. eCollection 2014.


Fourteen years of plant proteomics reflected in Proteomics: moving from model species and 2DE-based approaches to orphan species and gel-free platforms.

Jorrín-Novo JV, Pascual J, Sánchez-Lucas R, Romero-Rodríguez MC, Rodríguez-Ortega MJ, Lenz C, Valledor L.

Proteomics. 2015 Mar;15(5-6):1089-112. doi: 10.1002/pmic.201400349. Epub 2015 Feb 13. Review.


Targeted quantitative analysis of a diurnal RuBisCO subunit expression and translation profile in Chlamydomonas reinhardtii introducing a novel Mass Western approach.

Recuenco-Muñoz L, Offre P, Valledor L, Lyon D, Weckwerth W, Wienkoop S.

J Proteomics. 2015 Jan 15;113:143-53. doi: 10.1016/j.jprot.2014.09.026. Epub 2014 Oct 7.


Proteomic approaches to sexual development mediated by antheridiogen in the fern Blechnum spicant L.

Valledor L, Menéndez V, Canal MJ, Revilla A, Fernández H.

Proteomics. 2014 Sep;14(17-18):2061-71. doi: 10.1002/pmic.201300166. Epub 2014 Aug 13.


A universal protocol for the combined isolation of metabolites, DNA, long RNAs, small RNAs, and proteins from plants and microorganisms.

Valledor L, Escandón M, Meijón M, Nukarinen E, Cañal MJ, Weckwerth W.

Plant J. 2014 Jul;79(1):173-80. doi: 10.1111/tpj.12546. Epub 2014 Jun 17.


Analysis of the expression of putative heat-stress related genes in relation to thermotolerance of cork oak.

Correia B, Rodriguez JL, Valledor L, Almeida T, Santos C, Cañal MJ, Pinto G.

J Plant Physiol. 2014 Mar 15;171(6):399-406. doi: 10.1016/j.jplph.2013.12.004. Epub 2014 Feb 14.


Improving the quality of protein identification in non-model species. Characterization of Quercus ilex seed and Pinus radiata needle proteomes by using SEQUEST and custom databases.

Romero-Rodríguez MC, Pascual J, Valledor L, Jorrín-Novo J.

J Proteomics. 2014 Jun 13;105:85-91. doi: 10.1016/j.jprot.2014.01.027. Epub 2014 Feb 4.


Translational proteomics special issue.

Jorrín-Novo J, Valledor L.

J Proteomics. 2013 Nov 20;93:1-4. doi: 10.1016/j.jprot.2013.10.019. Epub 2013 Oct 20. No abstract available.


Proteotyping of Holm oak (Quercus ilex subsp. ballota) provenances through proteomic analysis of acorn flour.

Galván JV, Fernández RG, Valledor L, Cerrillo RM, Jorrin-Novo JV.

Methods Mol Biol. 2014;1072:709-23. doi: 10.1007/978-1-62703-631-3_49.


Back to Osborne. Sequential protein extraction and LC-MS analysis for the characterization of the Holm oak seed proteome.

Romero-Rodríguez MC, Maldonado-Alconada AM, Valledor L, Jorrin-Novo JV.

Methods Mol Biol. 2014;1072:379-89. doi: 10.1007/978-1-62703-631-3_27.


An improved detergent-compatible gel-fractionation LC-LTQ-Orbitrap-MS workflow for plant and microbial proteomics.

Valledor L, Weckwerth W.

Methods Mol Biol. 2014;1072:347-58. doi: 10.1007/978-1-62703-631-3_25.


Standardization of data processing and statistical analysis in comparative plant proteomics experiment.

Valledor L, Romero-Rodríguez MC, Jorrin-Novo JV.

Methods Mol Biol. 2014;1072:51-60. doi: 10.1007/978-1-62703-631-3_5.


Comprehensive cell-specific protein analysis in early and late pollen development from diploid microsporocytes to pollen tube growth.

Ischebeck T, Valledor L, Lyon D, Gingl S, Nagler M, Meijón M, Egelhofer V, Weckwerth W.

Mol Cell Proteomics. 2014 Jan;13(1):295-310. doi: 10.1074/mcp.M113.028100. Epub 2013 Sep 27.


Ultradian metabolic rhythm in the diazotrophic cyanobacterium Cyanothece sp. ATCC 51142.

Červený J, Sinetova MA, Valledor L, Sherman LA, Nedbal L.

Proc Natl Acad Sci U S A. 2013 Aug 6;110(32):13210-5. doi: 10.1073/pnas.1301171110. Epub 2013 Jul 22.


Systemic cold stress adaptation of Chlamydomonas reinhardtii.

Valledor L, Furuhashi T, Hanak AM, Weckwerth W.

Mol Cell Proteomics. 2013 Aug;12(8):2032-47. doi: 10.1074/mcp.M112.026765. Epub 2013 Apr 5.


Is the interplay between epigenetic markers related to the acclimation of cork oak plants to high temperatures?

Correia B, Valledor L, Meijón M, Rodriguez JL, Dias MC, Santos C, Cañal MJ, Rodriguez R, Pinto G.

PLoS One. 2013;8(1):e53543. doi: 10.1371/journal.pone.0053543. Epub 2013 Jan 11.


The different proteomes of Chlamydomonas reinhardtii.

Valledor L, Recuenco-Munoz L, Egelhofer V, Wienkoop S, Weckwerth W.

J Proteomics. 2012 Oct 22;75(18):5883-7. doi: 10.1016/j.jprot.2012.07.045. Epub 2012 Aug 7.


Adaptation to potassium starvation of wild-type and K(+)-transport mutant (trk1,2) of Saccharomyces cerevisiae: 2-dimensional gel electrophoresis-based proteomic approach.

Gelis S, Curto M, Valledor L, González A, Ariño J, Jorrín J, Ramos J.

Microbiologyopen. 2012 Jun;1(2):182-93. doi: 10.1002/mbo3.23.


Basic procedures for epigenetic analysis in plant cell and tissue culture.

Rodríguez JL, Pascual J, Viejo M, Valledor L, Meijón M, Hasbún R, Yrei NY, Santamaría ME, Pérez M, Fernández Fraga M, Berdasco M, Rodríguez Fernández R, Cañal MJ.

Methods Mol Biol. 2012;877:325-41. doi: 10.1007/978-1-61779-818-4_25.


Epigenetics, the role of DNA methylation in tree development.

Viejo M, Santamaría ME, Rodríguez JL, Valledor L, Meijón M, Pérez M, Pascual J, Hasbún R, Fernández Fraga M, Berdasco M, Toorop PE, Cañal MJ, Rodríguez Fernández R.

Methods Mol Biol. 2012;877:277-301. doi: 10.1007/978-1-61779-818-4_22.


Proteomic profiling of Tectona grandis L. leaf.

Quiala E, Cañal MJ, Rodríguez R, Yagüe N, Chávez M, Barbón R, Valledor L.

Proteomics. 2012 Apr;12(7):1039-44. doi: 10.1002/pmic.201100183.


Proteomic analysis of Holm oak (Quercus ilex subsp. ballota [Desf.] Samp.) pollen.

Valero Galván J, Valledor L, González Fernandez R, Navarro Cerrillo RM, Jorrín-Novo JV.

J Proteomics. 2012 May 17;75(9):2736-44. doi: 10.1016/j.jprot.2012.03.035. Epub 2012 Mar 30.


Early induced protein 1 (PrELIP1) and other photosynthetic, stress and epigenetic regulation genes are involved in Pinus radiata D. don UV-B radiation response.

Valledor L, Cañal MJ, Pascual J, Rodríguez R, Meijón M.

Physiol Plant. 2012 Nov;146(3):308-20. doi: 10.1111/j.1399-3054.2012.01629.x. Epub 2012 May 10. Erratum in: Physiol Plant. 2013 Mar;147(3):407.


Studies of variability in Holm oak (Quercus ilex subsp. ballota [Desf.] Samp.) through acorn protein profile analysis.

Valero Galván J, Valledor L, Navarro Cerrillo RM, Gil Pelegrín E, Jorrín-Novo JV.

J Proteomics. 2011 Aug 12;74(8):1244-55. doi: 10.1016/j.jprot.2011.05.003. Epub 2011 May 12.


Promotion of flowering in azaleas by manipulating photoperiod and temperature induces epigenetic alterations during floral transition.

Meijón M, Feito I, Valledor L, Rodríguez R, Cañal MJ.

Physiol Plant. 2011 Sep;143(1):82-92. doi: 10.1111/j.1399-3054.2011.01485.x. Epub 2011 Jun 21.


Proteomics research on forest trees, the most recalcitrant and orphan plant species.

Abril N, Gion JM, Kerner R, Müller-Starck G, Cerrillo RM, Plomion C, Renaut J, Valledor L, Jorrin-Novo JV.

Phytochemistry. 2011 Jul;72(10):1219-42. doi: 10.1016/j.phytochem.2011.01.005. Epub 2011 Feb 23. Review.


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