SUSPHIRE - Sustainable Bioproduction of Pheromones for Insect Pest Control in Agriculture

National Institute of Biology, Department of Biotechnology and Systems Biology projects

Short Name: T21_SXPsysbio Title: Use a systems biology approach to identify regulatory bottlenecks in SxPv1 Description: Samples from SXPv1.0 plants as well as sister nulls (progeny from the original transgenic event in which the transgene has segregated) and wild type will be grown and leaf samples taken for RNA extraction and profiling of primary metabolites and volatiles (target pheromones as well as potential derivatives) (P1, P5). Phenotypic and GC-MS data will be obtained and analysed from ...

Short Name: DiNAR Title: DiNAR analyses of SxP DE data Description: DiNAR visualisation of SxPv1.0 and SxPv1.2 expressoin data in either PIS or CKN networks. Raw Data: Principal investigator: Ĺ pela Baebler License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes

Short Name: Gibberelin_treatment Title: GA3 treatment of SxPs Description: SxP lines were treated with 3 different GA3 concentrations (1, 10 and 100 micromolar) and control solution. WT Nb plants were used for control. From v1.0 T3, low producing line 5_2_5 and high producing line 5_1_7 were used and from v1.2 T2 lines 4_1 and 4_3. Treatment was done for 5 consecutive weeks, once per week with spraying the leaves. Raw Data: Principal investigator: Ĺ pela Baebler License: Creative Commons Attribution ...

Short Name: P4_SxP10-newG-DE Title: SxPv1.0 RNA-seq analysis using the new Nb genome Description: Analysis of RNA-seq data (Illumina short reads) of two lines of SexyPlants (SxP v1.0) utilising the not yet published now high quality genome of Nicotiana benthamiana from the Newcotiana project. Raw Data: Principal investigator: Ĺ pela Baebler License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes

Short Name: P4_SxP10-oldG-DE Title: SxPv1.0 RNA-seq analysis using old Nb genome Description: Analysis of RNA-seq data (Illumina short reads) of two lines of SexyPlants (SxP v1.0) utilising the published (old) genome of Nicotiana benthamiana. Raw Data: Principal investigator: Ĺ pela Baebler License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to FAIRDOMHub: No

Short Name: P4_SxP1012-finalG Title: Reanalysis of SxP Illumina reads with Nb genome V3.5 Description: * Raw Data: Principal investigator: Ĺ pela Baebler License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes

Short Name: P4_SxP12-newG-DE Title: Gene expression analysis of Sxp 1.2 Description: exp4 in phenodata Raw Data: Principal investigator: Ĺ pela Baebler License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes

Short Name: P1_SPv10T2andT3 Title: Characterization of SPv1.0 plants of the T2 and T3 generations Description: Plants of the SxP v1 second and third generation were grown in the greenhouse and leaf samples were collected for analysing their metabolome (via GC-MS) and transcriptome (via RNA-seq). Phenotypic data such as plant height was also recorded. Raw Data: pISA Study creation date: 2018-11-09 pISA Study creator: ElenaMG Principal investigator: Diego Orzaez License: Creative Commons Attribution ...

Short Name: P1_SPv1TransientExp Title: Transient expression in Nicotiana benthamiana leaves of constructs for SPv1 Description: The constructs for stable transformation of SPv1.X versions were tested transiently via agroinfiltration of Nicotiana benthamiana leaves. Pheromone content was analysed via GC-MS Raw Data: pISA Study creation date: 2019-12-08 pISA Study creator: ElenaMG Principal investigator: Diego Orzaez License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to ...

Short Name: P1_SxPAltAcTransferases Title: Study of alternative acetyltransferases for future SxP versions Description: Study of transient expression of different acetyltransferase genes responsible of the catalysis of the conversion of Z11-16OH into Z11-16OAc, assayed in Nicotiana benthamiana WT plants. Raw Data: pISA Study creation date: 2021-11-25 pISA Study creator: RMF Principal investigator: Diego Orzaez License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to FAIRDOMHub: ...

Short Name: P1_SxPv10vsSxP12 Title: Comparison between SxPv1.0 and SxPv1.2 Description: Volatilome characterization of SxPv1.0 T3 plants, SxPv1.2 T1 plants and WT plants. Raw Data: pISA Study creation date: 2020-11-01 pISA Study creator: RMF Principal investigator: Diego Orzaez License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes

Short Name: SxPv12T2Analysis Title: Analysis of second generation of SxPv1.2 plants Description: Characterization of SxPv1.2 T2 plants. Raw Data: pISA Study creation date: 2021-12-09 pISA Study creator: RMF Principal investigator: Diego Orzaez License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes Institutions involved: Instituto de Biología Molecular y Celular de Plantas (IBMCP), Spain; Institute of Agrochemistry and Food Technology (IATA), Spain; The ...

Short Name: CoExpNetViz Title: CoExpNetViz Description: Coexpression analyses with CoExpNetViz tool. Raw Data: Principal investigator: Ĺ pela Baebler License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes

Investigation files _I_T21_SXPsysbio

Short Name: P1_SPv10T0andT1 Title: Characterization of SPv1.0 plants of the T0 and T1 generations Description: SP v1.0 plants were generated and studied (T0), as well as the first generation (T1). Plants were grown in the greenhouse and leaf samples were collected for analysing their metabolome (via GC-MS). Phenotypic data such as plant height was also recorded. Raw Data: pISA Study creation date: 2021-11-01 pISA Study creator: AlfredoQR Principal investigator: Diego Orzaez License: Creative ...

Files connected to investigation: _I_T21_SXPsysbio

Files connected to study: _S_P1_SPv10T0andT1

Files connected to study: _S_P1_SPv10T2andT3

Files connected to study: _S_P1_SPv1TransientExp

Files connected to study: _S_P1_SxPAltAcTransferases

Files connected to study: _S_P1_SxPv10vsSxP12

Files connected to study: _S_P1_SxPv12T2

Files connected to study: _S_P4_CoExpNetViz

Files connected to study: _S_P4_DiNAR

Files connected to study: _S_P4_GAtreat

Files connected to study: _S_P4_SxP10-newG-DE

Files connected to study: _S_P4_SxP10-oldG-DE

Files connected to study: _S_P4_SxP1012-finalG

Files connected to study: _S_P4_SxP12-newG-DE

Short Name: SP10T0Analysis-GCMS Assay Class: WET Assay Type: GCMS Title: Analysis of SPv1.0 T0 plants Description: Stable transformation of Nicotiana benthamiana plants with the three enzymes for moth pheromone production (AtrD11, HarFAR, EaDAct) expressed constitutively pISA Assay creation date: 2021-11-01 pISA Assay creator: ElenaMG Lab manager: DO Sample collection protocol: Leaf samples were collected at 4 weeks after transplant for young stage and at 7 weeks for adult stage (early flowering). ...

Short Name: SP10T1Analysis-GCMS Assay Class: WET Assay Type: GCMS Title: Analysis of SPv1.0 T1 plants Description: Analysis of pheromone content in T1 generation of SPv1.0 plants pISA Assay creation date: 2021-11-01 pISA Assay creator: ElenaMG Lab manager: DO Sample collection protocol: Leaf samples were collected at 4 weeks after transplant for young stage and at 7 weeks for adult stage (early flowering). Samples were collected between 4 and 6 pm, frozen in liquid nitrogen immediately after ...

Short Name: SPv10_phenotyping-Images Assay Class: WET Assay Type: Images Title: Images of SPv1 T2 and T3 plants Description: Photographs taken of second and third generations of SPv1.0 plants before collecting samples pISA Assay creation date: 2018-11-19 pISA Assay creator: ElenaMG Phenodata: ../../phenodata_20200416.txt Featuredata:

Short Name: SPv10T2Analysis-GCMS Assay Class: WET Assay Type: GCMS Title: Analysis of SPv1.0 T2 plants Description: Analysis of pheromone content in T2 generation of SPv1.0 plants pISA Assay creation date: 2021-11-01 pISA Assay creator: ElenaMG Lab manager: DO Sample collection protocol: Leaf samples were collected at 4 weeks after transplant for young stage and at 7 weeks for adult stage (early flowering). Samples were collected between 4 and 6 pm, frozen in liquid nitrogen immediately after ...

Assay: ASPv10T3Analysis-GCMS Short Name: SPv10T3Analysis-GCMS Assay Class: WET Assay Type: GCMS Title: Analysis of SPv1.0 T3 plants Description: Analysis of pheromone content in T3 generation of SPv1.0 plants pISA Assay creation date: 2021-11-01 pISA Assay creator: ElenaMG Lab manager: DO Sample collection protocol: Leaf samples were collected at 4 weeks after transplant for young stage and at 7 weeks for adult stage (early flowering). Samples were collected between 4 and 6 pm, frozen in liquid ...

Short Name: SPv10EaDActAnalysis-GCMS Assay Class: WET Assay Type: GCMS Title: Transient expression in Nicotiana benthamiana leaves of the moth pheromone pathway with and without EaDAct Description: The effect of EaDAct in pheromone production was studied by agroinfiltrating in Nicotiana benthamiana leaves the first two enzymes (AtrD11 and HarFAR) with or without the last enzyme EaDAct. P19 was also agroinfiltrated as negative control. pISA Assay creation date: 2019-12-08 pISA Assay creator: ElenaMG ...

Transcriptome sequences merged from de novo assembly and IsoSeq sequence data.

Table with InterPro annotations, matches to Pcitri.v1 genome and differential expression between mated and virgin P.citri females for the transcripts in the consolidated P. citri transcriptome.

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