Non-Coding
RNA-Mediated
Regulatory Networks

Non-Coding
RNA-Mediated
Regulatory Networks

At ncRNA-lab we are interested in deciphering the regulatory pathways mediated by non coding RNAs (mainly small ncRNAs) for a better understanding of the molecular mechanisms that allow crops to respond and eventually adapt to biotic and abiotic stress conditions.

Research lines

Regulatory networks of response to stress mediated by miRNAs

In general, plants respond to changes in environmental conditions through a complex transcriptional reprogramming…

Differential processing of miRNAs in response to stress

miRNAs are fundamental endogenous regulators of gene expression in higher organisms. miRNAs modulate multiple biological processes…

Viroids-host interactions

Viroids are a class of sub-viral plant-pathogenic long noncoding RNAs (240-400 nt) composed of a circular single-stranded molecule. Viroid infection comprises a series of coordinated steps involving…

Epigenetic regulation of the plant-environment interplay

Eukaryotic organisms exposed to adverse conditions are required to show a certain degree of transcriptional plasticity in order…

News

Members

Faculty

Gustavo Germán Gómez

Gustavo Germán Gómez


CSIC Scientific Researcher
gustavo.gomez@csic.es
Tel: (+34) 963544777



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Gustavo Germán Gómez

Gustavo Germán Gómez


CSIC Scientific Researcher
(+34) 963544777
gustavo.gomez@csic.es



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Postdoctoral Researchers

Francesca Longo


Plant-PREDICTOR Project
francesca.longo@csic.es
Tel: (+34) 963543996



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María Carmen Herranz Gordo


BotVid-SENSOR Project
mc.herranz@csic.es
Tel: (+34) 963543996



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María Carmen Marqués Romero


PreDeSTom Project
mc.marques@csic.es
Tel: (+34) 963543996



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PhD Students

Julia Corell Sierra


Predoctoral contract, GVA (ACIF)
julia.corell@csic.es
Tel: (+34) 963544783



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Gabriela Hernández Azurdia

Predoctoral contract, GVA (ACIF)
gabriela.hernandez@csic.es
Tel: (+34) 963544783



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Pascual Villalba Bermell


Predoctoral contract, AEI
pascual.villalba@csic.es
Tel: (+34) 963544783



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Antonio González Sánchez


Predoctoral contract
antonio.gonzalez.sanchez@csic.es
Tel: (+34) 963544783



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Samanta Gissela Silva Valencia


Predoctoral contract, GVA (GRISOLÍA)
samanta.silva@csic.es
Tel: (+34) 963544783



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Miguel Ruiz Ibáñez


Predoctoral contract
m.ruiz.ibanez@csic.es
Tel: (+34) 963544783



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Marta Núñez Salvador


Predoctoral contract
marta.nunez.salvador@csic.es
Tel: (+34) 963544783



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Technical assistant

Vega Tirado Guardia


Lab technician
vega.tirado@csic.es
Tel: (+34) 963543996


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Students

Javier Lozano


TFM IBMCG UV
Tel: 34 963543996


Elisa Soriano


TFG Biotechnology UCV
Tel: 34 963543996


Former lab members
Joan Marquez-Molins


Alejandro Sanz-Carbonell



Antonio Bustamante


Projects

Current projects

Past projects

Projects

Current projects

Global-REPaIr

Global REPaIrClimate change is one of the major constraints limiting plant growth and development worldwide. Crop production models foresee a reduction around 50–70% in the crop yields in the future, mostly due to climatic change. Plants exhibit diverse regulatory...

EGReNMel

EGReNMelEnvironmental stresses (largely facilitated by climate change) limit the productive potential of many agricultural species. Faced with adverse environmental situations, the plant sets in motion multiple processes of gene expression regulation with the aim of...

PLANT-PREDICTOR

Plant PredictorStress-induced changes in plants (including those produced by pests or pathogens) are usually detected by the appearance of visual symptoms, usually once the adverse effects on crop production have become irreversible.Acronym PLANT-PREDICTORReference...

BotVidSENSOR

BotVidSENSORThe objective of the project BotVidSENSOR, is the development of a tool for the diagnosis of the "grey rot" disease, caused by B. cinerea, which will allow the EARLY monitoring at the POINT OF NEED of the infections caused by this pathogen in...

PreDeSTom

PreDeSTomThe objective of this Project is the “Development of a dual strategy for the mitigation of the damage associated to stress, in tomato productive systems”.Acronym PreDeSTomDescription Title: Development of a dual strategy for the mitigation of the damage...

Past projects

Functional validation of sncRNA networks which regulate the response to stress in melons

Func. validation of sncRNAAs consequence of the exposition to stress-inductors plants trigger a complex regulatory response that results in adaptation to adverse conditions. In general, these environmental conditions are the major limiting factors for development and...

COV-CRISPIS

COV-CRISPISTraditional viral infection diagnostic techniques in the clinic are based on (RT-)PCR procedures, which are time consuming and require precise equipment and human resources, which preclude a rapid and massive intervention. Here, we will engineer a novel...

Publications

Relevant Publications
(last ten years)

Márquez-Molins, J., Villalba-Bermell, P., Corell-Sierra, J., Pallás, V. & Gomez, G. (2023) Integrative time scale and multi omics analysis of host responses to Viroid infection. Plant, Cell & Environment, 119. DOI: 10.1111/pce.14647.


Márquez-Molins J, Juarez-Gonzalez VT, Gomez G, Pallas V, Martinez G. (2022). Occurrence of RNA post-transcriptional modifications in plant viruses and viroids and their correlation with structural and functional features. Virus Res. DOI: 10.1016/j.virusres.2022.198958.


Marquez-Molins J., Hernandez-Azurdia A.G., Urrutia-Perez M., Pallas V. and Gomez G. (2022). A circular RNA vector for targeted plant gene silencing based on an asymptomatic viroid. The Plant Journal. DOI: 10.1111/tpj.15929.


Gómez G., Marquez-Molins J., Martinez G. and Pallas V. (2022) Plant epigenome alterations: an emergent player in viroid-host interactions. Virus Res. 318:198844. DOI: 10.1016/j.virusres.2022.198844.


Marqués MC., Sánchez-Vicente J., Ruiz R., Montagud-Martínez R., Márquez-Costa R., Gómez G., Carbonell A., Daròs JA. and Rodrigo G. (2022) Diagnostics of Infections Produced by the Plant Viruses TMV, TEV, and PVX with CRISPR-Cas12 and CRISPR-Cas13. ACS Synth Biol. DOI: 10.1021/acssynbio.2c00090.


Villalba-Bermell P., Marquez-Molins J., Marques MC., Corell-Sierra J., Hernandez-Azurdia AG., Pico B., Monforte AJ., Elena SF., Gomez G. (2021) Combined stress conditions in melon induce non-additive effects in the core miRNA regulatory network. Front. Plant Sci. 12:769093. DOI: 10.3389/fpls.2021.769093


Marquez-Molins J, Navarro JA, Seco LC, Pallas V, Gomez G. (2021) Might exogenous circular RNAs act as protein-coding transcripts in plants? RNA Biol. 14:1-10. DOI: 10.1080/15476286.2021.1962670


Vázquez-Prol F, Márquez-Molins J, López-Gresa MP, Bellés JM, Gomez G, Pallás V, Lisón P. (2021) Symptom Severity, Infection Progression and Plant Responses in Solanum Plants Caused by Three Pospiviroids… Int. J. Mol. Sci. 22: 6189. DOI: 10.3390/ijms2212618


Marquez-Molins, J., Gomez G., Pallas V. (2020) Hop stunt viroid: a polyphagous pathogenic RNA that has shed light on viroid-host interactions. Mol. Plant. Pathology. DOI: 10.1111/mpp.13022


Corrêa, R., Gomez, G., Baulcombe, D. & Elena, SF. (2020) Viral fitness determines magnitude of transcriptomic and epigenomic reprograming… Mol. Biol. Evo. 37: 1866-81. DOI: 10.1093/molbev/msaa091

Sanz-Carbonell A., Marques, MC., Martinez, G. & Gomez, G. (2020) Dynamic architecture and implications of the miRNA network underlying the response to stress… RNA Biology 2: 292-308. DOI: 10.1080/15476286.2019.1697487.


Marquez-Molins, J., Navarro, J.A., Pallas, V. and Gomez, G. (2019) Highly efficient construction of infectious viroid‐derived clones. Plant Methods 15: 87. DOI: 10.1186/s13007-019-0470-4


Cervera, L., Marques, M., Sanz-Carbonell, A., Marquez-Molins, J., Carbonell, A., Daros, JA. and Gomez, G. (2019) Identification and characterization of a stress-responsive TAS3-derived tasiRNAs in melon. Plant and Cell Physiology 60: 2382-2393. DOI: 10.1093/pcp/pcz131.


Sanz Carbonell, A., Marques, MC., Bustamante, A., Fares, MA., Rodrigo, G. and Gomez, G. (2019). Inferring the miRNA-mediated regulatory network of response to stress in melon. BMC Plant Biology 19:78. DOI: 10.1186/s12870-019-1679-0


Bustamante, A., Marques, MC., Sanz Carbonell, A. and G. Gomez. (2018). Alternative processing of its precursor is related to miR319 decreasing in plants exposed to cold. Scientific Reports 8(1): 15538. DOI:10.1038/s41598-018-34012-7


Owens, RA., Gómez, G., Lisón, P., Conejero, V. (2017) Changes in the host proteome and transcriptome induced by viroid infection. In Viroids and Plant-virus Satellites – Hadidi, Randles, Flores, and Palukaitis (Ed), Elsevier. 105-112. ISBN: 9780128014981


Castellano M., Martinez G., Marques MC., Moreno J., Köhler C., Pallas V. & Gomez G. (2016). Changes in the DNA methylation of the host male gametophyte of viroid-infected cucumber. Jounal of Experimental Botany 67: 5857-5868. DOI: 10.1093/jxb/erw353


Castellano, M.; Pallás, V. and Gómez, G. (2016). A pathogenic long noncoding RNA redesigns the epigenetic landscape of infected cells by subverting host Histone Deacetylase 6 activity. New Phytologist 211: 1311-1322. DOI: 10.1111/nph.14001


Castellano M, Martinez G, Pallas V and Gomez G. (2015). Alterations in host-DNA methylation in response to expression of HSVd in N. benthamiana. Plant Pathology 64: 1247-1257. DOI: 10.1111/ppa.12358


Martinez G, Castellano M, Tortosa M, Pallas V and Gomez G. (2014). A pathogenic ncRNA induces changes in dynamic DNA methylation of rRNA genes in host plants. Nucleic Acids Research 42: 1553-1562. DOI: 10.1093/nar/gkt968

Funding

Current funding

Former funding

Spanish Ministry of Economy (I+D Retos, 2016-2018) – AGL2016-79825-R.

CSIC (Intramural, 2016-2017).


Spanish Ministry of Economy (Explora, 2015-2016).


SENECYT–Ecuador (Program PROMETEO 2013-2015)


Generalitat Valenciana (Grupos emergentes, 2013-2014).