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×CMBCMB
Microbial Profiling Facility - MPF
Center for Microbial Biotechnology (CMB)
Kristian Fog NielsenAssociate professor, Ph.D,Center for Microbial Biotechnology (CMB), headed by Prof. Jens NielsenBioCentrum-DTUTechnical University of Denmark
Penicillium brevicompactum on YES
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×CMBCMB
What I need to know
•Sample matrix
• Sample preparation ? matrix depended
•Amount of sample available ? (mg, gram ??)
•Special metabolites ?
• Target analysis (lower detection limits, lower standard deviation), matrix depended
• glycerol, trehalose, …… - please come with suggestions
• Screening / metabolomics way (interesting field more reviews than original papers)
•How many samples ?
Development of sample preparation and analytical validation will probably be the most time consuming part
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×CMBCMB
Which platforms can we currently offer
• Rugged screening method for LC-UV-HRMS (ESI- and ESI+) of secondary metabolites based on reversed phase separation (C18, Phenyl, …),
• >650 reference standard, >10 years experience with ESI, 25 with LC-UV screening
•Several image analysis tools for whole LC-UV data matrices
•Tools for finding analogues of known metabolites
•Working on image analysis of LC-HRMS data and combine with LC-UV
• Direct infusion MS (DIMS)
•HR-MS and MS/MS
• Nano interface so we can spray for a very long time…..
•New algorithm for handling HR-MS data
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×CMBCMB
Monoisotopic masses
• H 1.0078• 12C 12.0000 98.9%• 13C 13.0034 1.1%• O 15.9949• N 14.0031• 35Cl 34.9689 76%• 37Cl 36.9659 24%
C16 H28 N3 O2 masse 294.2182 Da
C15 H24 N3 O3 masse 294.1818 Da
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×CMBCMB
Conversion from continuum to centroid data
0.055 m/z
resolution = 444.231 = 8027 FWHM 0.055
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×CMBCMB
N
N
N
N
N
NN
O
O
O
O
O
O
O
O
ORhizonin AStrong hepatoxin
300 350 400 450 500 550 600 650 700 750 800 850m/z0
100
%
kfn_cbs41 556 (12.375) 1: TOF MS ES+ 3.21e4812.4915
339.2883480.3106350.2081 463.2926 502.2916 614.3648 699.4188
727.4377
834.4743
835.4753
836.4857
[M+Na]+
[M+H]+
Calc. 834.4741
Calc. 812.4922
300 350 400 450 500 550 600 650 700 750 800 850m/z0
100
%
kfn_cbs41 556 (12.375) 1: TOF MS ES+ 3.21e4812.4915
339.2883480.3106350.2081 463.2926 502.2916 614.3648 699.4188
727.4377
834.4743
835.4753
836.4857
[M+Na]+
[M+H]+
300 350 400 450 500 550 600 650 700 750 800 850m/z0
100
%
kfn_cbs41 556 (12.375) 1: TOF MS ES+ 3.21e4812.4915
339.2883480.3106350.2081 463.2926 502.2916 614.3648 699.4188
727.4377
834.4743
835.4753
836.4857
300 350 400 450 500 550 600 650 700 750 800 850m/z0
100
%
kfn_cbs41 556 (12.375) 1: TOF MS ES+ 3.21e4
300 350 400 450 500 550 600 650 700 750 800 850m/z0
100
%
kfn_cbs41 556 (12.375) 1: TOF MS ES+ 3.21e4812.4915
339.2883480.3106350.2081 463.2926 502.2916 614.3648 699.4188
727.4377
834.4743
835.4753
836.4857
[M+Na]+
[M+H]+
[M+Na]+
[M+H]+
Calc. 834.4741
Calc. 812.4922
Calc. 834.4741
Calc. 812.4922
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×CMBCMB
Which platforms can we currently offer
• Most of the primary metabolites and household metabolites are highly polar and/or ionic
•No retention on RP phases
•HILIC experience (Poly LC, NH2…..,) sugars, … can be interfaced with MS
•Ion chromatography (Dionex systems), not directly interfacable to MS
• Organic acids, phosphate etc. (suppressor and CD)
• Sugars and amino acids, using PAD
• Dionex claims to have a desalting device for interfacing to MS !
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×CMBCMB
Which platforms can we currently offer
•GC-MS platform
•MCF for organic acids and amino acids and some other metabolites (routine)
• Quenching of cells
•Hydrolysis of proteins, measuring amino acids as ECF and DMFDMA (routine are being developed further)
• Can be combined with 13C labeled sugars as the C position in AA can be determined from the EI+ spectra
• Sugars as the acetates
•Fatty acids and sterols have occasional been done
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×CMBCMB
What do you want ?
• Please come with suggestions
• Tailor make an analytical program
•Test samples !
• sample amount ?
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×CMBCMB
Our “HTS” strategy and setup
Extraction of0.5 cm2 to
whole plateSemi-Prep HPLC
nm 200 300 400 500
mAU
0 10 20 30 40 50 60
UV
Fraction collector
Antibacterial
Antifungal
C18 / C8
Daugther plates With bioactive
wells
Ethyl acetate
Anti-cancer
Master plate
AnalyticalLC-UV-HR-MSESI+ and ESI-
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×CMBCMB
min0 2.5 5 7.5 10 12.5 15 17.5 20 22.5
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ABCDEFGH
1 2 3 4 5 6 7 8 9 10 11 12
HPLC fractionation15-40 sec. per well
Evaporate solvent → Bioassay
Known bioactives
Unknown Bioactive=> Quick dereplication
Our “HTS” strategy and setup