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Isolation of Bioactive
Natural Products from
Marine Invertebrates
Kyle Planck
UCSD STARS
Department of Chemistry & Biochemistry
August11, 2016
What	are	marine	natural	products?
Natural	products (NP)	are	chemical	compounds	that	come	from	plants	and	animals.
◦ Often	secondary	metabolites	(not	essential	for	organism’s	survival)
◦ Most	derived	from	microorganisms	and	cytotoxic,	having	evolved	primarily	for	“chemical	warfare”
◦ Highly	conserved	molecules	that	function	within	various	pathways	and	organisms
Marine NPs	are	unique	for	a	few	reasons:
◦ Access	has	been	limited	until	recent	years	because	of	limits	on	technology
◦ Evolutionary	environments	are	different:	land	vs.	sea
◦ Unique	chemistry	of	the	ocean
2Hunter, Harnessing	Nature's	wisdom.
The	Molinski	Lab
3
• Natural	products	discovery
• Sample	collection
• Extraction
• Characterization	and	isolation
• Organic	synthesis
• Bioassay	development
• Antifungal	activity																																	
(against	Candida	albicans,	 C.	glabrata)
Professor	Tadeusz	Molinski,	Ph.D.
01-13-75
Unidentified	species
Collection	site:	Pohnpei,	Micronesia
93-07-101
4
Species	within	order	Verongida
Collection	site:	Exmouth Gulf,	Australia
Selected	Samples
http://portphillipmarinelife.net.au/images/species/speciesHero_511827.jpeg
Materials	and	
Methods
5
Progressive	solvent	partition (PSP):
• A:	hexanes
• B:	DCM
• C:	n-BuOH
• D:	H2O
SAMPLE
(9:1	MeOH:H2O)
D
A
B
C
+	H2O
- MeOH
+	H2O
hexanes aqueous
DCM aqueous
n-BuOH aqueous
Figure	1.	PSP	of	a	type	sample.
Materials	and	
Methods
6
Liquid	chromatography—
mass	spectrometry (LC-MS):
Components:
• UV	detector
• Autosampler
• Pump
• Column
• Mass	Spec
http://www.thyrocare.com/Liquid-Chromatography.html
Sample
UV Detector
Reversed phase
Materials	and	
Methods
7
Nuclear	magnetic	resonance
(1H	NMR):
• Determines	arrangement	of	
protons	in	a	sample
Materials	and	
Methods
8
High	performance	liquid	
chromatography (HPLC):
• Reversed	phase
• Mobile	phase:	H2O/MeCN
• Stationary	phase:	C18 column
http://images.slideplayer.com/26/8465585/slides/slide_2.jpg
RESULTS
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
O
N
HO
O
Br
Br
NH
O
OH
O
N
HO
O
Br
Br
NH
O
OH
O
O
Purpuroceratic acid A
1.60 mg
Purpuroceratic acid B
2.15 mg
O
N
OH
O
Br
Br
NH
O
N
HN
Aerophobin-1
3.17 mg
Compounds Identified (93-07-101)
Kyle Planck
9
H2N
SCN
-Cl+H3N
N
O
6
5
4
3
Chemical Formula: C15H27N
Exact Mass: 221.21
Molecular Weight: 221.39
m/z: 221.21 (100.0%), 222.22 (16.2%), 223.22 (1.2%)
Elemental Analysis: C, 81.38; H, 12.29; N, 6.33
Chemical Formula: C16H25NS
Exact Mass: 263.17
Molecular Weight: 263.44
m/z: 263.17 (100.0%), 264.17 (17.3%), 265.17 (4.5%),
265.18 (1.4%)
Elemental Analysis: C, 72.95; H, 9.57; N, 5.32; S, 12.17
Chemical Formula: C15H28ClN
Exact Mass: 257.19
Molecular Weight: 257.85
m/z: 257.19 (100.0%), 259.19 (32.0%), 258.19 (16.2%), 260.19
(5.2%), 259.20 (1.2%)
Elemental Analysis: C, 69.87; H, 10.95; Cl, 13.75; N, 5.43
Sullivan et. al. 1986
Halichondria compounds
(6R,7S)-7-amino-7,8-dihydro-α-bisabolene N,N’-bis[(6R,7S)-7,8-dihydro-α-bisabolen-7-yl]urea
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
O
N
HO
O
Br
Br
NH
O
OH
O
N
HO
O
Br
Br
NH
O
OH
O
O
Purpuroceratic acid A
1.60 mg
Purpuroceratic acid B
2.15 mg
O
N
OH
O
Br
Br
NH
O
N
HN
Aerophobin-1
3.17 mg
Compounds Identified (93-07-101)
Kyle Planck
Purpuroceratic acid	A
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
Br
Compounds Identified (
Kyle Planck
Aplysamine-2
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
O
Br
Br
O
Br
Br
O
N
OH
O
Br
Br
NH
O
N
HN
Aerophobin-1
3.17 mg
Compounds Identified (93-07-101)
Kyle Planck
N
O
Br
OH Br
O
N
O
OH
O
Br
Br
Compounds Identified (93-07-101)
Kyle Planck
Aerophobin-1Purpuroceratic acid	B
01-13-75:
93-07-101:
RESULTS
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
O
N
HO
O
Br
Br
NH
O
OH
O
N
HO
O
Br
Br
NH
O
OH
O
O
Purpuroceratic acid A
1.60 mg
Purpuroceratic acid B
2.15 mg
O
N
OH
O
Br
Br
NH
O
N
HN
Aerophobin-1
3.17 mg
Compounds Identified (93-07-101)
Kyle Planck
10
H2N
SCN
-Cl+H3N
N
O
6
5
4
3
Chemical Formula: C15H27N
Exact Mass: 221.21
Molecular Weight: 221.39
m/z: 221.21 (100.0%), 222.22 (16.2%), 223.22 (1.2%)
Elemental Analysis: C, 81.38; H, 12.29; N, 6.33
Chemical Formula: C16H25NS
Exact Mass: 263.17
Molecular Weight: 263.44
m/z: 263.17 (100.0%), 264.17 (17.3%), 265.17 (4.5%),
265.18 (1.4%)
Elemental Analysis: C, 72.95; H, 9.57; N, 5.32; S, 12.17
Chemical Formula: C15H28ClN
Exact Mass: 257.19
Molecular Weight: 257.85
m/z: 257.19 (100.0%), 259.19 (32.0%), 258.19 (16.2%), 260.19
(5.2%), 259.20 (1.2%)
Elemental Analysis: C, 69.87; H, 10.95; Cl, 13.75; N, 5.43
Sullivan et. al. 1986
Halichondria compounds
(6R,7S)-7-amino-7,8-dihydro-α-bisabolene N,N’-bis[(6R,7S)-7,8-dihydro-α-bisabolen-7-yl]urea
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
O
N
HO
O
Br
Br
NH
O
OH
O
N
HO
O
Br
Br
NH
O
OH
O
O
Purpuroceratic acid A
1.60 mg
Purpuroceratic acid B
2.15 mg
O
N
OH
O
Br
Br
NH
O
N
HN
Aerophobin-1
3.17 mg
Compounds Identified (93-07-101)
Kyle Planck
Purpuroceratic acid	A
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
Br
Compounds Identified (
Kyle Planck
Aplysamine-2
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
O
Br
Br
O
Br
Br
O
N
OH
O
Br
Br
NH
O
N
HN
Aerophobin-1
3.17 mg
Compounds Identified (93-07-101)
Kyle Planck
N
O
Br
OH Br
O
N
O
OH
O
Br
Br
Compounds Identified (93-07-101)
Kyle Planck
Aerophobin-1Purpuroceratic acid	B
01-13-75:
93-07-101:
Case	Study:	Aplysamine-2
11
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
O
N
OH
O
Br
Br
NH
O
Compounds Identified (93-07-101)
Kyle Planck
Results:	HPLC
12
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
O
N
OH
O
Br
Br
NH
O
N
HN
Aerophobin-1
3.17 mg
Compounds Identified (93-07-101)
Kyle Planck
1
2
3
Results:	LC-MS
(HPLC	Peak	3)
13
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
O
N
OH
O
Br
Br
NH
O
N
HN
Aerophobin-1
3.17 mg
Compounds Identified (93-07-101)
Kyle Planck
indicates	Br3
Results:	MarinLit
14
N
O
Br
OH
N
H
O Br
Br
O
N
Aplysamine-2
19.3 mg
O
N
OH
O
Br
Br
NH
O
N
HN
Aerophobin-1
3.17 mg
Compounds Identified (93-07-101)
Kyle Planck
Compound ID: L3196
Molecular Formula: C H Br N O
Exact Mass: 647.97100
InChIKey: RCOAHKXJTMBQLI-VFCFBJKWSA-O
UV Value Log ε
266 nm 3.59
294 nm 3.52
Compound status: New
aplysamine-2
UV max ( in MeOH):
Compound 6 in original article
23 29 3 3 4
Compound ID: L12115
Molecular Formula: C H Br N O
Exact Mass: 646.96310
InChIKey: RCOAHKXJTMBQLI-VFCFBJKWSA-N
Compound status: New
aplysamine-2 free base
Compound 2 in original article
23 28 3 3 4
Compound ID: L23435
Molecular Formula: C H Br N O
Exact Mass: 650.92170
InChIKey: QORPEZJCTMWCLO-FPOVZHCZSA-N
UV Value Log ε
280 nm
250 nm
218 nm
Compound status: New
psammaplysin I
UV max ( in EtOH/water):
Compound 5 in original article
21 24 3 3 6
Compound ID: L15872
kuchinoenamine
Compound search results | MarinLit http://pubs.rsc.org/marinlit/Search/CompoundSearchPrintResult?FullText...
Results:	1H	NMR
15Kottakota, Suresh K., et al.
Results:	1H	NMR
16
2
6
5
13,
17
Kottakota, Suresh K., et al.
Results:	1H	NMR
17
18
OCH3
7
20
10
MeOH
N(CH3)2
19
11
Kottakota, Suresh K., et al.
Conclusions
• Six	compounds	isolated	and	positively	identified	from	different	sponge	samples
• Structures	were	elucidated	using	NMR	and	LC-MS
• Experimental	data	compared	to	literature	in	order	to	verify	structures
18
Future	Directions
• Antifungal	assays	on	isolated	compounds	to	determine	their	biological	potential
• Continuing	similar	isolation	and	elucidation	processes	on	more	sponge	samples
• Synthesis	of	promising	natural	product	scaffolds
19
References
1. Hunter,	Philip.	"Harnessing	Nature's	wisdom." EMBO	reports 9.9	(2008):	838-840.
2. http://portphillipmarinelife.net.au/images/species/speciesHero_511827.jpeg
3. http://www.thyrocare.com/Liquid-Chromatography.html
4. http://images.slideplayer.com/26/8465585/slides/slide_2.jpg
5. Kottakota,	Suresh	K.,	et	al.	"Synthesis	and	biological	evaluation	of	purpurealidin E-derived	marine	sponge	
metabolites:	aplysamine-2,	aplyzanzineA,	and	suberedamines A	and	B." Journal	of	Natural	Products	(2012):	
1090-1101.
6. Kijjoa,	Anake,	et	al.	"Dibromotyrosinederivatives,	a	maleimide,	aplysamine-2	and	other	constituents	of	the	
marine	sponge	Pseudoceratina purpurea."Zeitschrift für Naturforschung B 60.8	(2005):	904-908.
7. Gunasekera,	Malika,	and	Sarath P.	Gunasekera.	"Dihydroxyaerothionin and	Aerophobin 1.	Two	brominated	
tyrosine	metabolites	from	the	deep	water	marine	sponge	Verongula rigida." Journal	of	Natural	Products 52.4	
(1989):	753-756.
8. Sullivan,	Brian	W.,	et	al.	"(6R,	7S)-7-amino-7,	8-dihydro-.	alpha.-bisabolene,	an	antimicrobial	metabolite	from	
the	marine	sponge	Halichondria sp." The	Journal	of	Organic	Chemistry 51.26	(1986):	5134-5136.
20
Acknowledgments
Dr.	Tadeusz	Molinski
Dr.	Christopher	Gartshore
Dr.	Matthew	Jamison
Maria	Cabrera
Mariam	Salib
Troy	Bemis
Daniel	Flores
Xiao	Wang
Molecular	Mass	Spectrometry	Facility
Dr.	Elisa	Maldonado
Aaron	Ward
UCSD	STARS	Program
21

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