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Antibacterial Secondary Metabolites from the Cave Sponge Xestospongia sp.

Department of Pharmacognosy, School of Pharmacy, The University of Mississippi, University, MS 38677, USA
Authors to whom correspondence should be addressed.
Mar. Drugs 2012, 10(5), 1037-1043;
Received: 5 March 2012 / Revised: 24 April 2012 / Accepted: 1 May 2012 / Published: 7 May 2012
(This article belongs to the Special Issue Marine Anti-infective Agents)


Chemical investigation of the cave sponge Xestospongia sp. resulted in the isolation of three new polyacetylenic long chain compounds along with two known metabolites. The structures of the new metabolites were established by NMR and MS analyses. The antibacterial activity of the new metabolites was also evaluated.

1. Introduction

Sponges of the genera Haliclona, Adocia, Xestospongia, Strongylophora, Petrosia belonging to the order Haplosclerida have been rich sources of long-chain polyacetylenic alcohols which can be considered as chemotaxonomic markers [1] and these represent a rapidly growing class of sponge metabolites. Common hydroxylated polyacetylenes and brominated C18 acetylenic acids are the major class of metabolites reported from the above genera. Polyacetylenes have been found to show a range of biological activities which include antimicrobial, cytotoxic, antitumor, antiviral, immunosuppressant, and enzyme inhibition [2,3,4,5,6,7,8,9,10,11,12,13]. Ecological significance of these compounds includes inducing metamorphosis of ascidian larvae, preventing fouling by barnacle larvae, or inhibiting fertilization of starfish gametes [14].
In the course of our search for bioactive metabolites from sponges, we have investigated the CH2Cl2/MeOH (1:1 v/v) extract of the cave sponge Xestospongia sp. collected from Pohnpei, Federated States of Micronesia, which exhibited antimicrobial activity against the gram-negative bacteria Pseudomonas aeruginosa and the gram-positive bacteria Mycobacterium intracellulare with IC50’s of 2.07 and 1.03 μg/mL, respectively. In this article we report the isolation and structure elucidation of three new metabolites (13) along with two known metabolites (4, 5) (Figure 1) which belong to the class of polyacetylenic long chain compounds, as well as their antibacterial activities.
Figure 1. Structure of compounds 15.
Figure 1. Structure of compounds 15.
Marinedrugs 10 01037 g001

2. Results and Discussion

2.1. Bioassay-Guided Isolation

The crude DCM extract of the sponge which displayed antibacterial activity was subjected to reverse phase HPLC (Phenomenex, Luna C18(2)) using a gradient mixture (94:6 CH3CN:H2O to 100% CH3CN over 43 min) to afford two pure compounds (4 and 5). Rest of the peaks were further separated on a PhenylHexyl column (Phenomenex, Luna, 250 × 10 mm, 5 μm) using an isocratic elution system (80:20 CH3CN:H2O) to yield compounds (13).

2.2. Structural Elucidation of the New Compounds

Compound 1, which was isolated as a colorless solid, had a molecular formula of C24H40O2, deduced by HRESIMS at m/z 383.2919 [M + Na]+ indicating five degrees of unsaturation. The IR spectra showed absorptions at 3292 and 2150 cm−1 which indicated the presence of hydroxyl and acetylene groups. The UV absorptions at 230, 241 and 253 nm indicated the presence of conjugated triple bonds. The 13C NMR and DEPT experiments revealed the presence of 24 carbon atoms. The 1H and 13C NMR spectra (Table 1) revealed signals due to a primary hydroxy group δH 4.37 (2H, s), δC 51.5 (CH2), a secondary hydroxy group δH 4.45 (1H, t), δC 62.9 (CH), four sp carbons, 69.0 (C), 69.6 (C), 77.5 (C), 80.7 (C), two sp2 carbons 129.9 (CH), 129.8 (CH), 5.37 (2H, t) and an isopropyl moiety. The position of the double bond was determined by examining the EIMS fragmentation pattern which indicated the presence of ion at m/z 257 [M − H2O − C6H13]+ which arose from the allylic cleavage of the side chain. The spectral data indicated similarities to the previously reported strongylodiol C [15] except that compound 1 had molecular formula less by two methylene units. Thus the structure of the new compound was established as 1.
Table 1. Selective 13C NMR and 1H NMR data of compounds (13) a.
Table 1. Selective 13C NMR and 1H NMR data of compounds (13) a.
C#δC multδH (J in Hz)C#δC multδH (J in Hz)C#δC multδH (J in Hz)
151.5 t4.37 (s)151.5 t4.34 (s)151.5 t4.33 s
277.5 s-277.5 s-277.3 s-
369.6 s-369.9 s-369.9 s-
469.0 s-468.8 s-468.7 s-
580.7 s-580.6 s-580.7 s-
662.9 d4.45 (t, 6.6)662.9 d4.43 (t, 6.4)662.9 d4.4 (t, 6.8)
737.7 t1.74 m737.8 t1.75 m737.5 t1.7 m
16129.9 d5.37 (t, 4.5)2214.3 q0.88 t (6.8)10,1115.8 d0.63 m (2H)
17129.8 d5.37 (t, 4.5)2314.2 q0.87 t (6.8)
2228.3 d1.46 m2410.8 t−0.35, 0.55 m
2322.6 q0.89 d (6.5)
2422.6 q0.89 d (6.5)
a data was run in CDCl3.
Compound 2 was obtained as colorless oil, had a molecular formula of C22H38O2 as indicated by HRESIMS at m/z 357.2761 [M + Na]+. This suggested four degrees of unsaturation which were satisfied by two acetylene groups. The structure of compound 2 was similar to that of 1 except for the absence of double bond, and the terminal isopropyl group being replaced by a terminal methyl group at δH 0.88 (3H, t), δC 14.3 (CH3). Thus the structure of the new compound was established as 2.
Compound 3 was isolated as colorless solid, had a molecular formula of C24H40O2 as deduced by HRESIMS at m/z 383.2921 [M + Na]+ which indicated five degrees of unsaturation. In addition to the two triple bonds, one primary and one secondary hydroxy moieties three mutually coupled high field signals were observed in the 1H NMR spectrum [δH −0.35 (1H, m), 0.55 (1H, m), δC 10.8 and δH 0.63 (2H, m), δC 15.8] which were diagnostic for 1,2-disubstituted cyclopropane ring. The large difference in chemical shifts of the methylene group of the cyclopropane ring indicated cis stereochemistry of the three-membered cyclopropane ring which was confirmed by comparing 1H NMR values with reported data [16]. The position of the cyclopropane ring could not be determined as no HMBC correlations were seen from the cyclopropyl proton signals to the triple bond or to the long chain terminal methyl group which indicated that the cyclopropane moiety is present in the side chain not closer to any of the above mentioned moieties. Also due to very limited amounts of the isolated compound no chemical reactions could be carried out in order to determine the position of the cyclopropane ring. However this is the first report of isolation of cyclopropane containing long chain acetylenic alcohol.
Compounds 4 and 5 were identified as known compounds 18-hydroxyrenierin-2 [17] and strongylodiol A [15] by comparison of spectral data to the literature. Comparison of the specific rotation of compound 5 to that of the reported value indicated R configuration at C-6. By analogy the sign of specific rotation of all other compounds (1, 2 and 4) also indicate R-configuration at C-6, which could be also true for compound 3 as it belongs to the same series of compounds. The isolated compounds were evaluated for antibacterial activity against P. aeruginosa and M. intracellulare and the results are presented in Table 2.
Table 2. Antibacterial assay data of pure compounds (15).
Table 2. Antibacterial assay data of pure compounds (15).
CompoundP. aeruginosaIC50M. intracellulareIC50 *
* IC50 in μΜ.

3. Experimental Section

3.1. General

Optical rotations were measured using a JASCO DIP-370 digital polarimeter. UV spectra were recorded on a Hewlett-Packard 8452A diode array spectrometer. IR spectra were recorded on an ATI Mattson Genesis series FTIR spectrometer.NMR spectra were measured on Bruker Advance DRX-400 spectrometer. 1H and 13C NMR spectra were measured and reported in ppm using CDCl3 solvent peak (δH 7.24 and δC 77.23) as an internal standard. ESI-FTMS analyses were measured on a Bruker Magnex BioAPEX 30es ion cyclotron HR HPLC-FT spectrometer by direct injection into an electrospray interface. EIMS data was acquired on Waters VG 70–250S magnetic sector mass spectrometer. HPLC purifications were carried out on a Waters 2695 model system equipped with dual absorbance UV detector.

3.2. Sponge Material

The sponge (ID: PN10407137) was collected from a small cave at a depth of about 40 m. The samples exuded pigment and were a crème color. They were massive in shape with a “velvet-like” feel to their surface that was somewhat brittle upon collection. This new species is currently being identified by the Porifera Tree of Life (PorToL) project. Voucher specimen of the sample was deposited at the NOAA Ocean Biotechnology Center and Repository, Oxford, MS, USA.

3.3. Extraction and Isolation

43.0 g of freeze-dried and finely ground sponge material was exhaustively extracted with CH2Cl2/MeOH (1:1) to yield 4.4 g of the crude extract after concentration under reduced pressure. The crude extract was partitioned using dichloromethane (DCM) and water. The DCM fraction was dried to give 2.37 g of the extract. The crude DCM extract was subjected to repeated reverse phased semi-preparative HPLC purification on Phenomenex, Luna, C18(2), 10 μm, 250 × 21.2 mm; flow rate, 10 mL/min, using a gradient of 94:6 (CH3CN:H2O) to 100% CH3CN in 43 min. Peaks 3 and 8 were pure and identified as compounds 4 (2.0 mg) and 5 (3.5 mg). Peaks 4, 5 and 11 were further subjected to reverse phase HPLC purification on Phenomenex PhenylHexyl, 5 μm, 250 × 10 mm; flow rate, 3 mL/min; detector wavelength, 195 nm using isocratic conditions, 80:20 CH3CN:H2O to yield compounds 1 (1.5 mg), 2 (1.0 mg) and 3 (1.2 mg).
Compound 1: Colorless solid; [α]25D: −15.5 (c 0.11,CHCl3); UV (MeOH) λmax (log ε) 230 (2.51) 241 (2.48) 253 nm (2.37); IR (NaCl) νmax 3292, 2848, 2150, 1450, 1000 cm−1; 1H and 13C NMR data, see Table 1; EIMS [M]+/e 360 (1.5%), 342 [M − H2O]+; 2.1%, 257 [M − H2O − C6H13]+; 25%; HRESIMS m/z 383.2919 [M + Na]+ (calcd for C24H40O2Na+ 383.2926).
Compound 2: Colorless oil; [α]25D: −17.8 (c 0.09,CHCl3); UV (MeOH) λmax (log ε) 231 (2.47) 241 (2.38) 251 nm (2.29); IR (NaCl) νmax 3194, 2859, 2198 cm−1; 1H and 13C NMR data, see Table 1; HRESIMS m/z 357.2761 [M + Na]+ (calcd for C22H38O2Na+ 357.2769).
Compound 3: Colorless solid; [α]25D: −18.6 (c 0.05,CHCl3); UV (MeOH) λmax (log ε) 230 (2.39) 243 nm (2.26); IR (NaCl) νmax 3292, 2848, 2150, 1450, 1000 cm−1; 1H and 13C NMR data, see Table 1; HRESIMS m/z 383.2921 [M + Na]+ (calcd for C24H40O2Na+ 383.2926).
Compound 4: [α]25D: −12.7 (c 0.12,CHCl3); HRESIMS m/z 369.2764 [M + Na]+ (calcd for C23H38O2Na+ 369.2769); 1H and 13C NMR data, see [16].
Compound 5: [α]25D: −9.7 (c 0.11, CHCl3); [α]25D: −7.2 (c 1.11, CHCl3); HRESIMS m/z 397.3875 [M + Na]+ (calcd for C25H42O2Na+ 397.3082); 1H and 13C NMR data, see [15].

3.4. Antibacterial Assay

Organisms were obtained from the American Type Culture Collection (Manassas, VA, USA) which includes Pseudomonas aeruginosa ATCC 27853, and Mycobacterium intracellulare ATCC 23068. Susceptibility testing was performed using a modified version of the CLSI (formerly NCCLS) methods [18,19]. M. intracellulare was tested using a modified method of Franzblau et al. [20]. Samples were serially-diluted in 20% DMSO/saline and transferred in duplicate to 96 well flat bottom microplates. Microbial inocula were prepared by correcting the OD630 of microbe suspensions in incubation broth to afford final target inocula. Ciprofloxacin (ICN Biomedicals, Aurora, OH, USA) was included as the positive control. Organisms were read at 530 nm using the Biotek Powerwave XS plate reader (Bio-Tek Instruments, Winooski, VT, USA) (P. aeruginosa) or 544ex/590em, (M. intracellulare) using the Polarstar Galaxy Plate Reader (BMG Lab Technologies, Germany) prior to and after incubation. IC50’s (concentrations that afford 50% inhibition relative to controls) are calculated using XLfit 4.2 software (IDBS, Alameda, CA, USA, 2005) using fit model 201.

4. Conclusions

In summary, three new (13) and two known (4, 5) metabolites were isolated from the sponge Xestospongia sp. and their structural elucidation was done using spectroscopic analysis. These metabolites exhibited moderate antibacterial activity against gram-negative bacteria P. aeruginosa and the gram-positive bacteria M. intracellulare when compared to the positive control.


This work was supported by the National Oceanic and Atmospheric Association’s National Undersea Research Program [NOAA, NIUST (NA16RU1496)] and the USDA Agricultural Research Service Specific Cooperative Agreement No. 58-6408-2-0009. The authors thank Frank Wiggers and Bharathi Avula, National Center for Natural Products Research for providing NMR and mass spectral data respectively, Marsha Wright for biological testing. Our thanks to Deborah Gochfeld for sponge sample collection.


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  • Samples Availability: Not available.

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Ankisetty, S.; Slattery, M. Antibacterial Secondary Metabolites from the Cave Sponge Xestospongia sp. Mar. Drugs 2012, 10, 1037-1043.

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Ankisetty S, Slattery M. Antibacterial Secondary Metabolites from the Cave Sponge Xestospongia sp. Marine Drugs. 2012; 10(5):1037-1043.

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Ankisetty, Sridevi, and Marc Slattery. 2012. "Antibacterial Secondary Metabolites from the Cave Sponge Xestospongia sp." Marine Drugs 10, no. 5: 1037-1043.

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