Kristina Gruden

Department of Biotechnology and Systems Biology, National Institute of Biology

Affiliated withNational Institute of Biology

Research Area

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JoVE Journal Publications

ArticleTotal : 2	Year
Publication title	2023
Publication title Cited by 16	2024

Other Publications

Article	Year
Molecular basis of Colorado potato beetle adaptation to potato plant defence at the level of digestive cysteine proteinases. Insect biochemistry and molecular biology\| PubMed ID: 15041020	2004
Real-time polymerase chain reaction detection of cauliflower mosaic virus to complement the 35S screening assay for genetically modified organisms. Journal of AOAC International\| PubMed ID: 16001857	2005
Critical points of DNA quantification by real-time PCR--effects of DNA extraction method and sample matrix on quantification of genetically modified organisms. BMC biotechnology\| PubMed ID: 16907967	2006
Calculation of measurement uncertainty in quantitative analysis of genetically modified organisms using intermediate precision--a practical approach. Journal of AOAC International\| PubMed ID: 17474528	2007
Adaptation of the MapMan ontology to biotic stress responses: application in solanaceous species. Plant methods\| PubMed ID: 17784939	2007
Comparison of different real-time PCR chemistries and their suitability for detection and quantification of genetically modified organisms. BMC biotechnology\| PubMed ID: 18325084	2008
Detection of nonauthorized genetically modified organisms using differential quantitative polymerase chain reaction: application to 35S in maize. Analytical biochemistry\| PubMed ID: 18346452	2008
Expression microarrays in plant-virus interaction. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 18370283	2008
Sensitive detection of multiple rotavirus genotypes with a single reverse transcription-real-time quantitative PCR assay. Journal of clinical microbiology\| PubMed ID: 18524966	2008
NAIMA: target amplification strategy allowing quantitative on-chip detection of GMOs. Nucleic acids research\| PubMed ID: 18710880	2008
Finding differentially expressed genes in two-channel DNA microarray datasets: how to increase reliability of data preprocessing. Omics : a journal of integrative biology\| PubMed ID: 18771401	2008
PVY(NTN) elicits a diverse gene expression response in different potato genotypes in the first 12 h after inoculation. Molecular plant pathology\| PubMed ID: 19236574	2009
Real-time quantitative PCR based sensitive detection and genotype discrimination of Pepino mosaic virus. Journal of virological methods\| PubMed ID: 19643139	2009
Gene expression profiling in susceptible interaction of grapevine with its fungal pathogen Eutypa lata: extending MapMan ontology for grapevine. BMC plant biology\| PubMed ID: 19656401	2009
'Bois noir' phytoplasma induces significant reprogramming of the leaf transcriptome in the field grown grapevine. BMC genomics\| PubMed ID: 19799775	2009
NAIMA as a solution for future GMO diagnostics challenges. Analytical and bioanalytical chemistry\| PubMed ID: 19821160	2010
Comparison of nine different real-time PCR chemistries for qualitative and quantitative applications in GMO detection. Analytical and bioanalytical chemistry\| PubMed ID: 20087729	2010
Gene expression data analysis using closed item set mining for labeled data. Omics : a journal of integrative biology\| PubMed ID: 20210654	2010
Revealing fosfomycin primary effect on Staphylococcus aureus transcriptome: modulation of cell envelope biosynthesis and phosphoenolpyruvate induced starvation. BMC microbiology\| PubMed ID: 20515462	2010
A panel of real-time PCR assays for specific detection of three phytoplasmas from the apple proliferation group. Molecular and cellular probes\| PubMed ID: 20600822	2010
A one-step reverse transcription real-time PCR assay for the detection and quantitation of Grapevine fanleaf virus. Journal of virological methods\| PubMed ID: 20804787	2010
Dynamics of responses in compatible potato-Potato virus Y interaction are modulated by salicylic acid. PloS one\| PubMed ID: 22194976	2011
A "crossomics" study analysing variability of different components in peripheral blood of healthy caucasoid individuals. PloS one\| PubMed ID: 22253695	2012
Comparison and transfer testing of multiplex ligation detection methods for GM plants. BMC biotechnology\| PubMed ID: 22257760	2012
A complex of genes involved in adaptation of Leptinotarsa decemlineata larvae to induced potato defense. Archives of insect biochemistry and physiology\| PubMed ID: 22392802	2012
Human mesenchymal stem cells exploit the immune response mediating chemokines to impact the phenotype of glioblastoma. Cell transplantation\| PubMed ID: 22554389	2012
Real-time PCR for specific detection of three phytoplasmas from the apple proliferation group. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 22987423	2013
Signalling network construction for modelling plant defence response. PloS one\| PubMed ID: 23272172	2012
Quantitative analysis of food and feed samples with droplet digital PCR. PloS one\| PubMed ID: 23658750	2013
GoMapMan: integration, consolidation and visualization of plant gene annotations within the MapMan ontology. Nucleic acids research\| PubMed ID: 24194592	2014
β-1,3-glucanase class III promotes spread of PVY and improves protein production. Plant biotechnology reports\| PubMed ID: 24273610	2013
Inhibition of the growth of colorado potato beetle larvae by macrocypins, protease inhibitors from the parasol mushroom. Journal of agricultural and food chemistry\| PubMed ID: 24295324	2013
SACE_5599, a putative regulatory protein, is involved in morphological differentiation and erythromycin production in Saccharopolyspora erythraea. Microbial cell factories\| PubMed ID: 24341557	2013
Insertion of a specific fungal 3'-phosphoadenosine-5'-phosphatase motif into a plant homologue improves halotolerance and drought tolerance of plants. PloS one\| PubMed ID: 24349144	2013
Plant defence model revisions through iterative minimisation of constraint violations. International journal of computational biology and drug design\| PubMed ID: 24429503	2014
GMOseek: a user friendly tool for optimized GMO testing. BMC bioinformatics\| PubMed ID: 25084968	2014
Involvement of potato (Solanum tuberosum L.) MKK6 in response to potato virus Y. PloS one\| PubMed ID: 25111695	2014
Optimising droplet digital PCR analysis approaches for detection and quantification of bacteria: a case study of fire blight and potato brown rot. Analytical and bioanalytical chemistry\| PubMed ID: 25173868	2014
Identification of plasma biomarker candidates in glioblastoma using an antibody-array-based proteomic approach. Radiology and oncology\| PubMed ID: 25177240	2014
GMO quantification: valuable experience and insights for the future. Analytical and bioanalytical chemistry\| PubMed ID: 25182968	2014
Potato virus Y infection hinders potato defence response and renders plants more vulnerable to Colorado potato beetle attack. Molecular ecology\| PubMed ID: 25251011	2014
Expression analysis of all protease genes reveals cathepsin K to be overexpressed in glioblastoma. PloS one\| PubMed ID: 25356585	2014
Fluorescently Tagged Potato virus Y: A Versatile Tool for Functional Analysis of Plant-Virus Interactions. Molecular plant-microbe interactions : MPMI\| PubMed ID: 25761209	2015
Sequencing platform modeling and analysis. Cancer informatics\| PubMed ID: 25780336	2015
Analysis of Glioblastoma Patients' Plasma Revealed the Presence of MicroRNAs with a Prognostic Impact on Survival and Those of Viral Origin. PloS one\| PubMed ID: 25950799	2015
BioMiner: Paving the Way for Personalized Medicine. Cancer informatics\| PubMed ID: 26005322	2015
Clitocypin, a fungal cysteine protease inhibitor, exerts its insecticidal effect on Colorado potato beetle larvae by inhibiting their digestive cysteine proteases. Pesticide biochemistry and physiology\| PubMed ID: 26071808	2015
Rule-Based Design of Plant Expression Vectors Using GenoCAD. PloS one\| PubMed ID: 26148190	2015
Bimodal dynamics of primary metabolism-related responses in tolerant potato-Potato virus Y interaction. BMC genomics\| PubMed ID: 26386579	2015
Roles of the crotonyl-CoA carboxylase/reductase homologues in acetate assimilation and biosynthesis of immunosuppressant FK506 in Streptomyces tsukubaensis. Microbial cell factories\| PubMed ID: 26466669	2015
Transcriptome study and identification of potential marker genes related to the stable expression of recombinant proteins in CHO clones. BMC biotechnology\| PubMed ID: 26499110	2015
Heterogeneous glioblastoma cell cross-talk promotes phenotype alterations and enhanced drug resistance. Oncotarget\| PubMed ID: 26517510	2015
Primary Metabolism, Phenylpropanoids and Antioxidant Pathways Are Regulated in Potato as a Response to Potato virus Y Infection. PloS one\| PubMed ID: 26727123	2016
RNA-dependent RNA polymerase 1 in potato (Solanum tuberosum) and its relationship to other plant RNA-dependent RNA polymerases. Scientific reports\| PubMed ID: 26979928	2016
System level analysis of cacao seed ripening reveals a sequential interplay of primary and secondary metabolism leading to polyphenol accumulation and preparation of stress resistance. The Plant journal : for cell and molecular biology\| PubMed ID: 27136060	2016
Solanum venturii, a suitable model system for virus-induced gene silencing studies in potato reveals StMKK6 as an important player in plant immunity. Plant methods\| PubMed ID: 27213007	2016
Metabolic Consequences of Infection of Grapevine (Vitis vinifera L.) cv. "Modra frankinja" with Flavescence Dorée Phytoplasma. Frontiers in plant science\| PubMed ID: 27242887	2016
Integrated omics approaches provide strategies for rapid erythromycin yield increase in Saccharopolyspora erythraea. Microbial cell factories\| PubMed ID: 27255285	2016
GenoCAD Plant Grammar to Design Plant Expression Vectors for Promoter Analysis. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 27557770	2016
Erratum to: Bimodal dynamics of primary metabolism-related responses in tolerant potato-Potato virus Y interaction. BMC genomics\| PubMed ID: 28288559	2017
quantGenius: implementation of a decision support system for qPCR-based gene quantification. BMC bioinformatics\| PubMed ID: 28545393	2017
Comparison between Proteome and Transcriptome Response in Potato (Solanum tuberosum L.) Leaves Following Potato Virus Y (PVY) Infection. Proteomes\| PubMed ID: 28684682	2017
Plant X-tender: An extension of the AssemblX system for the assembly and expression of multigene constructs in plants. PloS one\| PubMed ID: 29300787	2018
Salicylic Acid Perturbs sRNA-Gibberellin Regulatory Network in Immune Response of Potato to Infection. Frontiers in plant science\| PubMed ID: 29312421	2017
A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae). Scientific reports\| PubMed ID: 29386578	2018
Cell Death Is Not Sufficient for the Restriction of Potato Virus Y Spread in Hypersensitive Response-Conferred Resistance in Potato. Frontiers in plant science\| PubMed ID: 29497431	2018
Network Modeling Unravels Mechanisms of Crosstalk between Ethylene and Salicylate Signaling in Potato. Plant physiology\| PubMed ID: 29934298	2018
DiNAR: revealing hidden patterns of plant signalling dynamics using Differential Network Analysis in R. Plant methods\| PubMed ID: 30186360	2018
MapMan4: A Refined Protein Classification and Annotation Framework Applicable to Multi-Omics Data Analysis. Molecular plant\| PubMed ID: 30639314	2019
Interactive exploration of heterogeneous biological networks with Biomine Explorer. Bioinformatics (Oxford, England)\| PubMed ID: 31233141	2019
Structural basis for the multitasking nature of the potato virus Y coat protein. Science advances\| PubMed ID: 31328164	2019
Multiomics analysis of tolerant interaction of potato with potato virus Y. Scientific data\| PubMed ID: 31673114	2019
Potato Virus Y Infection Alters Small RNA Metabolism and Immune Response in Tomato. Viruses\| PubMed ID: 31783643	2019
Plant Molecular Responses to Potato Virus Y: A Continuum of Outcomes from Sensitivity and Tolerance to Resistance. Viruses\| PubMed ID: 32075268	2020
Enabling reusability of plant phenomic datasets with MIAPPE 1.1. The New phytologist\| PubMed ID: 32171029	2020
Roles of small RNAs in the establishment of tolerant interaction between plants and viruses. Current opinion in virology\| PubMed ID: 32480352	2020
Cultivar-specific transcriptome and pan-transcriptome reconstruction of tetraploid potato. Scientific data\| PubMed ID: 32709858	2020
Precision transcriptomics of viral foci reveals the spatial regulation of immune-signaling genes and identifies RBOHD as an important player in the incompatible interaction between potato vi... The Plant journal : for cell and molecular biology\| PubMed ID: 32772469	2020
Ménage à Trois: Unraveling the Mechanisms Regulating Plant-Microbe-Arthropod Interactions. Trends in plant science\| PubMed ID: 32828689	2020
Editorial overview: Resistance is not futile: an update on antiviral strategies in plants. Current opinion in virology\| PubMed ID: 32928495	2020
Validating the Potential of Double-Stranded RNA Targeting Colorado Potato Beetle Gene in Laboratory and Field Trials. Frontiers in plant science\| PubMed ID: 32973826	2020
Incorporating RNA-Seq transcriptomics into glycosylation-integrating metabolic network modelling kinetics: Multiomic Chinese hamster ovary (CHO) cell bioreactors. Biotechnology and bioengineering\| PubMed ID: 33399226	2021
Physiological and Proteomic Signatures Reveal Mechanisms of Superior Drought Resilience in Pearl Millet Compared to Wheat. Frontiers in plant science\| PubMed ID: 33519854	2020
The need for standardisation in life science research - an approach to excellence and trust. F1000Research\| PubMed ID: 33604028	2020
Generation and Functional Analysis of Potato Virus Y mutants. Bio-protocol\| PubMed ID: 33659360	2020
Biosensors: A Sneak Peek into Plant Cell's Immunity. Life (Basel, Switzerland)\| PubMed ID: 33800034	2021
New Cross-Talks between Pathways Involved in Grapevine Infection with ' Phytoplasma solani' Revealed by Temporal Network Modelling. Plants (Basel, Switzerland)\| PubMed ID: 33805409	2021
Differential Response of Grapevine to Infection with ' Phytoplasma solani' in Early and Late Growing Season through Complex Regulation of mRNA and Small RNA Transcriptomes. International journal of molecular sciences\| PubMed ID: 33805429	2021
Prunus persica plant endogenous peptides PpPep1 and PpPep2 cause PTI-like transcriptome reprogramming in peach and enhance resistance to Xanthomonas arboricola pv. pruni. BMC genomics\| PubMed ID: 34006221	2021
Insect pest management in the age of synthetic biology. Plant biotechnology journal\| PubMed ID: 34416790	2022
Methodologies for Discovery and Quantitative Profiling of sRNAs in Potato. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 34448163	2021
Direct regulation of shikimate, early phenylpropanoid, and stilbenoid pathways by Subgroup 2 R2R3-MYBs in grapevine. The Plant journal : for cell and molecular biology\| PubMed ID: 35092714	2022
Plant X-tender Toolbox for the Assembly and Expression of Multiple Transcriptional Units in Plants. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 35188657	2022
Fermentative Indole Production via Bacterial Tryptophan Synthase Alpha Subunit and Plant Indole-3-Glycerol Phosphate Lyase Enzymes. Journal of agricultural and food chemistry\| PubMed ID: 35500281	2022
Analysis of Virus Spread Around the Cell Death Zone at Spatiotemporal Resolution Using Confocal Microscopy. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 35583788	2022
PaintOmics 4: new tools for the integrative analysis of multi-omics datasets supported by multiple pathway databases. Nucleic acids research\| PubMed ID: 35609982	2022
Physiological and Transcriptional Responses to Saline Irrigation of Young 'Tempranillo' Vines Grafted Onto Different Rootstocks. Frontiers in plant science\| PubMed ID: 35734259	2022
Chloroplast redox state changes mark cell-to-cell signaling in the hypersensitive response. The New phytologist\| PubMed ID: 35946378	2023
TGA transcription factors-Structural characteristics as basis for functional variability. Frontiers in plant science\| PubMed ID: 35958211	2022
CRISPR/Cas9-mediated fine-tuning of miRNA expression in tetraploid potato. Horticulture research\| PubMed ID: 36072839	2022
Toward learning the principles of plant gene regulation. Trends in plant science\| PubMed ID: 36100536	2022
Organelles and phytohormones: a network of interactions in plant stress responses. Journal of experimental botany\| PubMed ID: 36169618	2022
Corrigendum: Physiological and transcriptional responses to saline irrigation of young 'Tempranillo' vines grafted onto different rootstocks. Frontiers in plant science\| PubMed ID: 36226277	2022
pISA-tree - a data management framework for life science research projects using a standardised directory tree. Scientific data\| PubMed ID: 36357404	2022
Transcriptional deregulation of stress-growth balance in biofactories producing insect sex pheromones. Frontiers in plant science\| PubMed ID: 36388501	2022
A mini-TGA protein modulates gene expression through heterogeneous association with transcription factors. Plant physiology\| PubMed ID: 36517238	2023
Systems Biology in ELIXIR: modelling in the spotlight. F1000Research\| PubMed ID: 36742342	2022
Candidate pathogenicity factor/effector proteins of ' Phytoplasma solani' modulate plant carbohydrate metabolism, accelerate the ascorbate-glutathione cycle, and induce autophagosomes. Frontiers in plant science\| PubMed ID: 37662165	2023
Cell-type proteomic and metabolomic resolution of early and late grain filling stages of wheat endosperm. Plant biotechnology journal\| PubMed ID: 38050335	2024
Transcriptional and epigenetic changes during tomato yellow leaf curl virus infection in tomato. BMC plant biology\| PubMed ID: 38110861	2023
Transcriptome-informed identification and characterization of - and -isoprenyl diphosphate synthase genes. iScience\| PubMed ID: 38523795	2024
Stress Knowledge Map: A knowledge graph resource for systems biology analysis of plant stress responses. Plant communications\| PubMed ID: 38616489	2024
Protein complexes from edible mushrooms as a sustainable potato protection against coleopteran pests. Plant biotechnology journal\| PubMed ID: 38733093	2024