_I_01_LabTrials
Actions 
Order Studies
Short Name: 01_LabTrials Title: Laboratory trials Description: Selection of targets and their validation in trials performed in the laboratories and greenhouse at NIB Phenodata: ./phenodata_20210113.txt pISA Investigation creation date: 2021-01-13 pISA Investigation creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
SEEK ID: https://fairdomhub.org/investigations/495
Projects: _p_RNAinVAL
Investigation position:
Export PNG
Download
Creators and Submitter
Views: 1422
Created: 12th Nov 2021 at 14:59
TagsThis item has not yet been tagged.
Related items
https://orcid.org/0000-0003-3644-7827PhD in Biotechnology, Research Associate at Department of Biotechnology and Systems Biology, National Institute of Biology
National Institute of Biology, Department of Biotechnology and Systems Biology projects
Projects: HYp - Spatiotemporal analysis of hypersensitive response to Potato virus Y in potato, pISA-tree, MOA - Multiomics analysis of potato response to Potato virus Y (PVY) infection, SUSPHIRE - Sustainable Bioproduction of Pheromones for Insect Pest Control in Agriculture, INDIE - Biotechnological production of sustainable indole, _p_stRT, ADAPT - Accelerated Development of multiple-stress tolerAnt PoTato, _p_RNAinVAL, tst, tst2, Playground
Web page: http://www.nib.si/eng/index.php/departments/department-of-biotechnology-and-systems-biology
This project’s main objective was to identify novel Colorado potato beetle gene targets for the development of specific RNAi insecticides and further validate prospective targets using transcriptomics. The work included gene selection, establishment of double-stranded RNA (dsRNA) production methodology and the evaluation of dsRNAs’ insecticidal potential in CPB feeding laboratory and field trials.
Programme: NIBSys
Public web page: http://projects.nib.si/rnainval/
Start date: 1st Nov 2014
End date: 31st Oct 2017
Short Name: 11_may2018 Title: CPB egg spraying experiment (dsMESH only) may2018 Description: Colorado potato beetle dsRNA egg spraying trial performed in May 2018 Raw Data: pISA Study creation date: 2021-05-10 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_01_LabTrials
Short Name: 10_apr2018 Title: CPB feeding experiment apr2018 Description: Colorado potato beetle dsRNA feeding trial performed in April 2018 Raw Data: pISA Study creation date: 2021-05-10 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_01_LabTrials
Short Name: 09_jun2017 Title: CPB feeding experiment jun2017 Description: Colorado potato beetle dsRNA feeding trial performed in June 2017 Raw Data: pISA Study creation date: 2021-05-10 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_01_LabTrials
Assays: _A_00_jun2017_dsRNA_stabil-wet, _A_01_jun2017-phenotyping, _A_02_jun2017-RNAisol, _A_03_jun2017-qPCR, _S_09_jun2017-files
Short Name: 08_jan2017 Title: CPB feeding experiment jan2017 Description: Colorado potato beetle dsRNA feeding trial performed in January 2017 Raw Data: pISA Study creation date: 2021-05-10 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_01_LabTrials
Short Name: 07_dec2016 Title: CPB feeding experiment dec2016 Description: Colorado potato beetle dsRNA feeding trial performed in December 2016 Raw Data: pISA Study creation date: 2021-05-10 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_01_LabTrials
Assays: _A_01_dec2016-phenotyping, _A_02_dec2016-RNAisol, _A_03_dec2016-qPCR, _S_07_dec2016-files
Short Name: 06_oct2016 Title: CPB feeding experiment oct2016 Description: Colorado potato beetle dsRNA feeding trial performed in October 2016 Raw Data: pISA Study creation date: 2021-05-10 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_01_LabTrials
Short Name: 05_jun2016 Title: CPB feeding experiment jun2016 Description: Colorado potato beetle dsRNA feeding trial performed in June 2016 Raw Data: pISA Study creation date: 2021-05-10 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_01_LabTrials
Assays: _A_01_jun2016-phenotyping, _A_02_jun2016-RNAisol, _A_03_jun2016-qPCR, _S_05_jun2016-files
Short Name: 04_Stages Title: Expression of target genes in CPB developmental stages and body parts Description: Expression of target genes in CPB developmental stages and body parts Raw Data: pISA Study creation date: 2021-05-10 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_01_LabTrials
Assays: _A_02_qPCR_ampl_test-wet, _A_03_stages-RNAisol, _A_04_stages-qPCR, _S_04_Stages-files
Short Name: 03_dsRNAprod Title: Production of selected desigend dsRNAs in-vivo Description: We established the production of two selected designed dsRNAs in-vivo in bacterial cultures of E. coli TH115 (DE3), a strain that does not produce RNases and is thus suitable for production of long dsRNA Raw Data: pISA Study creation date: 2021-01-14 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_01_LabTrials
Assays: _A_00_Ecoli-dry, _A_01_pIsol-wet, _A_02_plasmid-SangerSeq, _A_03_RNaseItreat-wet, _A_04_prod-qPCR, _S_03_dsRNAprod-files
Short Name: 02_dsRNAorder Title: Ordering the production of dsRNA of selected target genes Description: In-vitro production of dsRNAs designed to silence selected CPB genes Raw Data: pISA Study creation date: 2021-01-14 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_01_LabTrials
Assays: _A_01_AgroRNA-wet, _S_02_dsRNAorder-files
Short Name: 01_TargetSelect Title: Search for genes that might be good targets for control using dsRNAs (RNAi pesticides) Description: We will examine the results of RNAi screening experiments in model organisms (e.g. Drosophila melanogaster, Tribolium castaneum) as well as employ our previous data and literature knowledge on CPB gene expression and physiology Raw Data: pISA Study creation date: 2021-01-13 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 ...
Investigation files _I_01_LabTrials
Files connected to investigation: _I_01_LabTrials
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: Investigation files
Files connected to study: _S_01_TargetSelect
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_01_TargetSelect
Files connected to study: _S_02_dsRNAorder
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_02_dsRNAorder
Files connected to study: _S_03_dsRNAprod
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_03_dsRNAprod
Files connected to study: _S_04_Stages
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_04_Stages
Files connected to study: _S_05_jun2016
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_05_jun2016
Files connected to study: _S_06_oct2016
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_06_oct2016
Files connected to study: _S_07_dec2016
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_07_dec2016
Files connected to study: _S_08_jan2017
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_08_jan2017
Files connected to study: _S_09_jun2017
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_09_jun2017
Files connected to study: _S_10_apr2018
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_10_apr2018
Files connected to study: _S_11_may2018
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_11_may2018
Short Name: 01_LitData-dry Assay Class: DRY Assay Type: dry Title: Compiling literature data on RNAi screens in insects Description: Compiling articles and final results of insect RNAi screens in model organisms (e.g. Drosophila melanogaster, Tribolium castaneum) pISA Assay creation date: 2021-01-13 pISA Assay creator: Marko Petek Phenodata: None Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_01_TargetSelect
Short Name: 02_UlrichTop100-BLAST Assay Class: DRY Assay Type: BLAST Title: BLAST Ulrich top100 hits from Tribolium against CPB Description: Analysis of BLAST results from a query of top100 differentially expressed genes of Tribolium castaneum against Colorado potato beetle transcripts pISA Assay creation date: 2021-01-13 pISA Assay creator: Marko Petek Phenodata: None Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_01_TargetSelect
Short Name: 03_patentDB-BLAST Assay Class: DRY Assay Type: BLAST Title: NCBI patent BLAST Description: This is to find CPB nucleotide and peptide sequences that are already protected by patents pISA Assay creation date: 2021-01-14 pISA Assay creator: Marko Petek Phenodata: None Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_01_TargetSelect
Short Name: 04_ortho-BLAST Assay Class: DRY Assay Type: BLAST Title: BLAST to determine orthologs to model organisms Description: BLAST against D melanogaster and T castaneum to identify putative orthologous genes of CPB pISA Assay creation date: 2021-01-14 pISA Assay creator: Marko Petek Phenodata: None Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_01_TargetSelect
Short Name: 05_CPB_gene-annot Assay Class: DRY Assay Type: annot Title: CPB gene annotation using Blast2GO Description: Annotation of CPB predicted genes/proteins using Blast2GO (B2G) suite pISA Assay creation date: 2021-01-14 pISA Assay creator: Marko Petek Phenodata: None Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_01_TargetSelect
Short Name: 06_splitter_BLAST-dry Assay Class: DRY Assay Type: dry Title: Split transcripts and BLAST short fragments against insect genomes Description: Split CPB transcripts predicted from the genome into fragments of 21 nt using EMBOSS splitter program and BLASTn againt transcripts of selected insect genomes pISA Assay creation date: 2021-01-14 pISA Assay creator: Marko Petek Phenodata: None Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_01_TargetSelect
Short Name: 07_MergeEvi-dry Assay Class: DRY Assay Type: dry Title: Merge evidence from previous assays for CPB genome Description: Merge all evidence from literature, databases and BLAST results for target gene selection pISA Assay creation date: 2021-01-14 pISA Assay creator: Marko Petek Phenodata: None Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_01_TargetSelect
Short Name: 08_SelTargetsA-dry Assay Class: DRY Assay Type: dry Title: Bioinformatics analyses for individual selected target genes Description: In depth bioinformatic analysis for each target gene using various tools to predict possible off-target effects and select a fragment sequence for dsRNA synthesis pISA Assay creation date: 2021-01-14 pISA Assay creator: Marko Petek Phenodata: None Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_01_TargetSelect
_p_RNAinVAL/_I_01_LabTrials/_S_09_jun2017/_A_03_jun2017-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_09_jun2017/_A_02_jun2017-RNAisol/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_07_dec2016/_A_03_dec2016-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_07_dec2016/_A_02_dec2016-RNAisol/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_05_jun2016/_A_03_jun2016-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_05_jun2016/_A_02_jun2016-RNAisol/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_04_stages-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_03_stages-RNAisol/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_04_stages-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_04_stages-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_04_stages-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_04_stages-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_04_stages-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_04_stages-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_04_stages-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_04_stages-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_04_stages-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_04_Stages/_A_04_stages-qPCR/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_11_may2018/_A_01_may2018-phenotyping/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_11_may2018/_A_01_may2018-phenotyping/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_11_may2018/_A_01_may2018-phenotyping/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_11_may2018/_A_01_may2018-phenotyping/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_11_may2018/_A_01_may2018-phenotyping/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_11_may2018/_A_01_may2018-phenotyping/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_11_may2018/_A_01_may2018-phenotyping/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_11_may2018/_A_01_may2018-phenotyping/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_01_LabTrials/_S_11_may2018/_A_01_may2018-phenotyping/
Creator: Marko Petek
Submitter: Marko Petek
