Return to study ST001370 main page
MB Sample ID: SA099551
Local Sample ID: | KAS5499.fullMS.neg |
Subject ID: | SU001444 |
Subject Type: | Fungi |
Subject Species: | Alternaria sp. |
Taxonomy ID: | 1715220 |
Select appropriate tab below to view additional metadata details:
Subject:
Subject ID: | SU001444 |
Subject Type: | Fungi |
Subject Species: | Alternaria sp. |
Taxonomy ID: | 1715220 |
Factors:
Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
---|---|---|---|---|
KAS5499.fullMS.neg | SA099551 | FL014073 | 1 | Group |
KAS5499.fullMS.neg | SA099551 | FL014073 | Brassica napus (Canada Western Canola) | Host Plant |
Collection:
Collection ID: | CO001439 |
Collection Summary: | The majority of fungal isolates were obtained through the Canadian Collection of Fungal Cultures (CCFC) at the Agriculture and Agri-Food Canada in Ottawa, Ontario Canada. Strains from tomato in London, Ontario were isolated by putting tomato stems and fruit in moist chambers, and aseptically transferring Alternaria hypahe and spores after genus level verification under a dissecting microscope. Nova Scotia and Vineland grape and blueberry material were collected similarly. |
Sample Type: | Plant |
Collection Location: | London, Ontario; Ottawa, Ontario; Mt. Thom, Nova Scotia; Vineland, Ontario; P.E.I.; Quebec; Dunmore, Alberta; Edmonton, Alberta; Killam, Alberta; Beechy, Saskatchewan; Corrine, Saskatchewan; |
Storage Conditions: | -20℃ |
Treatment:
Treatment ID: | TR001459 |
Treatment Summary: | All fungal strains were grown as three point inoculations on potato dextrose agar (PDA) in the dark at 25°C for seven days, or until colonies reached approximately 4 cm in diameter. |
Sample Preparation:
Sampleprep ID: | SP001452 |
Sampleprep Summary: | Cultures were extracted by removing six agar plugs from both the centre and edges of the three point inoculations using a 6 mm cork borer. Agar plugs were extracted with ethyl acetate containing 1% formic acid. Extracts were dried under nitrogen, and reconstituted with acetonitrile before filtration by 0.45µm PTFE syringe filters. |
Combined analysis:
Analysis ID | AN002286 | AN002287 |
---|---|---|
Analysis type | MS | MS |
Chromatography type | Reversed phase | Reversed phase |
Chromatography system | Agilent 1290 Infinity | Agilent 1290 Infinity |
Column | Agilent ZORBAX RRHD Eclipse Plus C18 (50 x 2.1 mm,1.8 µm) | Agilent ZORBAX RRHD Eclipse Plus C18 (50 x 2.1 mm,1.8 µm) |
MS Type | ESI | ESI |
MS instrument type | Orbitrap | Orbitrap |
MS instrument name | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap |
Ion Mode | POSITIVE | NEGATIVE |
Units | Integrated peak area | Integrated peak area |
Chromatography:
Chromatography ID: | CH001680 |
Chromatography Summary: | LC-MS conditions for negative and positive ionization modes |
Instrument Name: | Agilent 1290 Infinity |
Column Name: | Agilent ZORBAX RRHD Eclipse Plus C18 (50 x 2.1 mm,1.8 µm) |
Column Temperature: | 35 |
Flow Gradient: | 0%B held for 0.5 minutes, increased to 100%B over 3.5 minutes. Hold B at 100% for 1.5 minutes, and then return to 0%B over 0.5 minutes |
Flow Rate: | 0.3 mL/min |
Sample Injection: | 2 µL |
Solvent A: | 100% water; 0.1% formic acid |
Solvent B: | 100% acetonitrile; 0.1% formic acid |
Capillary Voltage: | (-) 3.7 kV; (+) 3.9 kV |
Chromatography Type: | Reversed phase |
MS:
MS ID: | MS002130 |
Analysis ID: | AN002286 |
Instrument Name: | Thermo Q Exactive Orbitrap |
Instrument Type: | Orbitrap |
MS Type: | ESI |
MS Comments: | Data were acquired in full MS-SIM mode at 140,000 resolution over a m/z range of 100-1200 |
Ion Mode: | POSITIVE |
Capillary Temperature: | 400°C |
Capillary Voltage: | 3.9 kV |
Automatic Gain Control: | 1e6 |
MS ID: | MS002131 |
Analysis ID: | AN002287 |
Instrument Name: | Thermo Q Exactive Orbitrap |
Instrument Type: | Orbitrap |
MS Type: | ESI |
MS Comments: | Data were acquired in full MS-SIM mode at 140,000 resolution over a m/z range of 100-1200 |
Ion Mode: | NEGATIVE |
Capillary Temperature: | 400°C |
Capillary Voltage: | 3.7 kV |
Automatic Gain Control: | 1e6 |