Assay:	_A_AgroinfNonGuidedPathwayywithConstitutivedCas9EV-GCMS
Short Name:	AgroinfNonGuidedPathwayywithConstitutivedCas9EV-GCMS
Assay Class:	WET
Assay Type:	GCMS
Title:	Agroinfiltration of nonguided pathway for moth pheromones production with constitutive dCAs9EV system in Nicotiana benthamiana leaves
Description:	Two constructs were made that comprised the three genes required for moth pheromone production (AtrD11, HarFar and EaDAct/ATF1) under the regulation of the synthetic promoters created in T11. The constructs were first tested transiently in Nicotiana benthamiana leaves via agroinfiltration, together with a plasmid containing the dCas9EV system expressed constitutively and a plasmid containing the guideRNA1 or another guideRNA as a negative control. Leaf samples were collected after 5 days and the pheromone production was assayed via GC-MS
pISA Assay creation date:	2021-01-26
pISA Assay creator:	ElenaMG
Lab manager:	DO
Sample collection protocol:	Leaf samples were collected at 5 days post-infiltration, frozen in liquid nitrogen immediately, and ground afterwards.
Extraction protocol:	50mg of frozen, ground leaf samples were weighed in a 10mL headspace screw-cap vial and stabilized by adding 1mL of 5M CaCl2 and 150 μL of 500mM EDTA (pH = 7.5), after which they were sonicated for 5 minutes. Volatile compounds were captured by means of headspace solid phase microextraction (HS-SPME) with a 65 μm polydimethylsiloxane/divinylbenzene (PDMS/DVB) SPME fiber (Supelco, Bellefonte, PA, USA). Volatile extraction was performed automatically by means of a CombiPAL autosampler (CTC Analytics). Vials were first incubated at 80°C for 3 minutes with 500 rpm agitation. The fiber was then exposed to the headspace of the vial for 20 min under the same conditions of temperature and agitation. Desorption was performed at 250°C for 1 minute (splitless mode) in the injection port of a 6890N gas chromatograph coupled to a 5975B mass spectrometer (Agilent Technologies). After desorption, the fiber was cleaned in a SPME fiber conditioning station (CTC Analytics) at 250°C for 5 min under a helium flow.
Chromatography protocol:	Chromatography was performed on a DB5ms (60 m, 0.25 mm, 1 μm) capillary column (JandW) with helium as the carrier gas at a constant flow of 1.2mLxmin-1. The oven programming conditions were an initial temperature of 160°C for 2 min, 7°Cmin-1 ramp until 280°C, and a final hold at 280°C for 6 minutes to reduce the overall running time without losing resolution of the desired compounds.
Mass spectrometry protocol:	Electron impact ionization (EI), 70 eV ionization energy, MS source temperature 230ºC, MS quadrupole temperature 150ºC, single quadrupole detector, m/z range 35-300.
Phenodata:	../../phenodata_20210107
Featuredata:	
Creation date:	2021-01-14
Extract ID:	$_extr
Extraction Method:	HS-SPME
Date Extraction:	2021-01-26
Derivatization or Labelling:	none
Date Derivatization or Labelling:	2021-01-26
Derivatized or labeled Extract ID:	$_extrD
Other Post Extraction Procedures:	
Storage:	
Date GC-MS Run:	2021-01-26
GC Instrument:	6890N gas chromatograph (Agilent Technologies)
GC Autosampler Model	CombiPAL autosampler (CTC Analytics)
GC Column model	DB5ms (60m, 0.25 mm, 1um) capillary column (JandW)
GC Column type	capillary column
MS Scan polarity:	positive
MS Scan mz range:	35-300
MS Instrument:	5975B mass spectrometer (Agilent Technologies)
MS Ion source:	electron ionization (EI)
Mass analyzer:	quadrupole mass filter
Operator:	ElenaMG
Notes:	
Data:	https://doi.org/10.5281/zenodo.5810287