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Wyeth Research, Natural Products Microbiology, 401 North Middletown Road, Pearl River, New York 10965
Tim S. Bugni
Chris M. Ireland
Department of Medicinal Chemistry, University of Utah, Salt Lake City, Utah 84112
| ABSTRACT |
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Penicillium dravuni is a new monoverticillate, sclerotium-forming species that was isolated from the alga Dictyosphaeria versluyii collected in Dravuni, Fiji. This species morphologically is similar to P. turbatum in the P. turbatum subseries of the P. thomii series of the Monoverticillata. The nuclear ribosomal internal transcribed spacer region exhibited 97% sequence similarity to known Penicillium spp. in the GenBank database. Phylogenetic analyses revealed that P. dravuni is related most closely to Eupenicillium brefeldianum, E. levitum, E. reticulosporum, E. javanicum, E. ehrlichii and P. simplicissimum. However this new species shares only a distant ancestor with this clade because it branches by itself early in the lineage. P. dravuni also is known to produce the secondary metabolites dictyosphaeric acids A and B and carviolin.
Key words: Dictyosphaeria, dictyosphaeric acids, carviolin, ITS, marine-derived, Trichocomaceae
| INTRODUCTION |
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Several undescribed, marine-derived Penicillium spp. recently have been isolated from a variety of substrates such as mollusks, sponges, algae and sand. These Penicillia are important producers of new metabolites such as the sculezonones A and B (Komatsu 2000
), coruscol A (Kagata et al 2000
), penicillazine (Lin et al 2000
), and the xestodecalactones AC (Edrada et al 2002
). One Penicillium sp., which was isolated from the marine alga Enteromorpha intestinalis, has been shown to produce three different classes of secondary metabolites, the communesins (Numata et al 1993
), the penostatins (Iwamoto et al 1999
) and the penochalasins (Iwamoto et al 2001
).
While screening for compounds that inhibit the growth of antibiotic-resistant bacteria, we found that the fermentation extracts of F01V25, a Penicillium sp. isolated from the alga D. versluyii, had antimicrobial activity against methicillin-resistant Staphylococcus aureus (MRSA). In addition to the known pigment carviolin F01V25 was found to produce two new polyketides, the dictyosphaeric acids A and B (Bugni et al 2004
). Investigation of the morphology and phylogenetics of the nuclear ribosomal internal transcribed spacer region (ITS) of F01V25 failed to associate it with any described species. The taxonomy of the new species, Penicillium dravuni, is described.
| MATERIALS AND METHODS |
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Morphological analysis.
Phenotypic identification of F01V25 was performed according to the protocols of Pitt (1988)
and Ramirez (1982)
. Culture colors were matched as closely as possible to the Inter-Society Color Council (ISCC) and the National Bureau of Standards (NBS) color name charts (Kelly 1958
). To determine growth in the presence of salt, F01V25 was plated to malt-extract agar (MEA) prepared with artificial seawater (MEA-ASW), which contains 3% sodium chloride (NaCl) w/v and 1% other salts (potassium chloride [KCl], magnesium chloride [MgCl2], calcium chloride [CaCl2]) w/v. To determine NaCl tolerance, F01V25 was grown on MEA supplemented with 5, 10, 15 or 20% NaCl. To distinguish nonspecific salt from sodium tolerance, F01V25 was cultured on MEA prepared with 5% KCl. All were incubated at 25 C. The maximum and minimum temperatures that would support growth of F01V25 were determined respectively by incubation at 3740 C and 5, 11 and 15 C.
Macroscopic observations were conducted with a Nikon SMZ1500 stereoscope. A Nikon E600 compound microscope was used with phase-contrast or differential interference contrast (DIC) for microscopic examinations. A Nikon Digital Camera DXM1200 was connected to both instruments to take digital images. The images were viewed and adjusted with Nikon ACT-1 version 2.1 and further modified in Microsoft Photo Editor 3.01.
For scanning electron microscopy (SEM) of the conidia and conidiophores, agar plugs (3 mm2) were cut from an 8 d old culture of F01V25 grown on Difco potato-dextrose agar (PDA). To view the sclerotia by SEM, agar plugs (3 mm2) were cut from a 2 mo old culture of F01V25 grown on malt-extract agar (MEA). Each agar plug was fixed with osmium tetroxide (Sigma) and dehydrated in a successive series of ethanol washes. Critical point drying with carbon dioxide was performed on an Autosamdri-814B sample drier (Tousimis Research Corp.). Samples were stored under desiccation until they were sputter-coated with palladium 50 s (Denton Vacuum Desk II model) and viewed by SEM with a JOEL 5800LV.
DNA extraction. Genomic DNA was isolated from cultures grown 7 d on PDA. About 50100 mg of mycelia were scraped from the agar surface and placed inside a 1.5 mL microcentrifuge tube containing 200 µL of TE buffer at pH 8.0. Mycelia were ground with motorized pellet pestle (Kontes), and an additional 800 µL of TE was added to wash the slurry. Mycelia were pelleted in microcentrifuge 14 000 rpm, and the supernatant was decanted. For cell lysis, 500 µL of lysis buffer (2% Triton X-100, 1% SDS, 100 mM NaCl, 10 mM Tris pH 8.0, 1 mM EDTA) was added to the cell pellet and vortexed 1 min. Five hundred µL of phenol : chloroform : isoamyl alcohol (25:24:1) (Sigma) was added, and the mixture was shaken by hand to precipitate proteins. The aqueous and organic phases were separated by centrifugation at 14 000 rpm 5 min. The top aqueous layer was transferred to a clean 1.5 mL microcentrifuge tube, and the DNA was precipitated by the addition of one-tenth volume 3M sodium acetate followed by 1 volume of isopropyl alcohol (JT Baker). DNA was pelleted by centrifugation at 14 000 rpm 2 min. The isopropyl alcohol was decanted, and the pellet was washed with 1 mL 70% ethanol. The ethanol was decanted, and the pellet was air dried 1 h in a laminar flow hood. DNA was resuspended in 50 µL of 10 mM Tris containing 200 µg/mL RNase (Sigma).
PCR amplification and sequencing.
The nuclear ribosomal ITS15.8S-ITS2 region was amplified with primers ITS1 and ITS4 (White et al 1990
). The reactions were performed in 100 µL volumes containing 1 µL of genomic DNA, 1 µL 50 µM ITS1, 1 µL 50 µM ITS4, 47 µL sterile deionized water and 50 µL JumpStartTM ReadyMixTM REDTaqTM DNA polymerase (Sigma) as follows: initial denaturation at 95 C for 2 min, followed by 35 cycles of 95 C for 1 min, 53 C for 45 s, 72 C for 1 min 30 s. A final extension at 72 C was done for 5 min. To confirm the amplification of only the ITS, 4 µL of the PCR product was run on an agarose gel. The PCR product was purified with the Eclipse PCR Clean-up DNA purification kit (Tetra Link International), and sequences were determined with the PCR primers ITS1 and ITS4. Direct sequencing was performed with an ABI 3700 sequencer with the ABI Prism DNA sequencing kit and Big Dye terminators version 3.0 (Applied Biosystems). Sequence data was edited with SequencherTM version 4.1.4. ITS was deposited in GenBank with accession number AY494856
[GenBank]
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Phylogenetic analysis.
To determine the most closely related Penicillium spp., the ITS of F01V25 was compared to other sequences in the GenBank database by BLASTN 2.2.2 analysis. The ITS sequences of morphologically and phylogenetically related Penicillium spp. were obtained from GenBank (TABLE I
) and aligned in Clustal X 1.81 (Thompson et al 1997
) with pairwise and multiple alignment parameters set at 15.0 for gap opening and 0.5 for gap extension. Phylogenetic analyses were based on maximum parsimony and distance using PAUP*4.0b10 (Swofford 2002
). For parsimony, a heuristic search was conducted with simple addition of sequences, tree bisection-reconnection (TBR) branch swapping, collapse option in effect, MulTrees option in effect and MaxTrees set to 100 with automatic increases of 100. Gaps were treated as missing data, branches collapsed (creating polytomies) if the maximum branch length was zero, and groups compatible with 50% majority-rule consensus were included. For distance analysis, matrices were measured using the method of Jukes and Cantor (1969)
and the tree was inferred by neighbor joining. Bootstrap analyses were performed on both parsimony and neighbor joining trees with 1000 bootstrap replicates. Both trees were rooted with Paecilomyces variotti. Trees were viewed with TreeView 1.6.6 (Page 2001) and edited in Microsoft® PowerPoint® 2000.
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| RESULTS |
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Coloniae crescunt 7 dies in CYA ad 25 C, 2535 mm diam, radialiter sulcatae, textura superficiei velutinosa, flavo-griseae ad pallide griseo-flavae, albescentes ad marginem. Conidia per mediam partem abundanter formantur, sed sparse ad marginem. Sudores aureo-flavi ad fusce crocei vel aurantiaco-rubri per medias colonias rari sunt. Pigmentum solubile et pallide flavum ad croceum sub coloniis ipsis adest. Facies reversa pallide brunnea ad pallide flavo-brunnea in centro, medio-aurantiaca vel medio-flava in marginibus. Conidiophorae fere oriunt a hyphis basalibus vel a hyphis aeriis per medias colonias. Stipites breves, 35 ad 100 µm x 2 ad 3 µm, tenuiter tunicati, exigue vesiculati in CYA, manifeste vesiculati in MEA, rigide monoverticillati, rare ramosi. Phialides ampulliformae, 7 ad 11 µm, frequenter inveniuntur in verticillis 7 ad 13 continentibus. Conidia spherica ad subglobosa, leviter tunicata ad tenuiter asperata, 2.5 ad 3 µm x 2 µm, feruntur in columnis longis laxisque. Sclerotia solum formantur in MEA, 50 ad 100 µm, plerumque globosa, sine colore ad pallide lutea et aliquantum mollia.
Colonies grown 7 d on Czapeks yeast autolysate agar (CYA) (FIG. 1
) at 25 C are 2535 mm diam, radially sulcate, with surface texture strictly velutinous, yellow-gray (ISCC-NBS 93) or gray-yellow (ISCC-NBS 90) to pale gray-yellow (ISCC-NBS 104), becoming white toward the margin. Conidia are produced centrally in abundance but sparsely peripherally. Golden yellow to dark amber or orange-red exudates are sparse in the centers of colonies. A light yellow to amber soluble pigment is present directly under the colonies. No sclerotia or ascomata are produced. The reverse color ranges from a light brown (ISCC-NBS 55) to light yellow-brown (ISCC-NBS 74) centrally to medium orange (ISCC-NBS 71) or medium yellow (ISCC-NBS 87) at the margins.
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Colonies grown 7 d on G25N at 25 C are somewhat restricted; diam 1525 mm, surface centrally floccose with sparse conidiation becoming more velutinous or felt-like toward the margins. Surface color is light gray to white, and the reverse is light amber at the centers to yellow peripherally. A yellow soluble pigment is present. Sclerotia and ascomata are absent.
Incubation at 5 C on MEA and CYA did not result in mycelial growth or germination of the conidia. However growth occurred at 37 C as colonies attained diam of 5 mm in 7 d and 8 mm in 14 d. No growth was observed at 38 C.
Conidiophores appear similar on CYA and MEA but show slightly more variability on CYA. In general conidiophores arise from basal hyphae but also from aerial hyphae especially at colony centers. Stipes are short (35100 µm but commonly 4565 µm and 23 µm wide), smooth-walled, slightly vesiculate (34 µm diam) on CYA and obviously vesiculate (45 µm diam) on MEA (FIG. 3
), strictly monoverticillate and rarely branching. Phialides are ampulliform, 711 µm long and usually appearing in whorls of 713 (FIG. 4
). Conidia are spherical to subglobose, smooth-walled to finely roughened, 2.53 µm long x 2 µm wide and borne in long, loose columns (FIG. 5
).
Sclerotia are formed only on MEA and are 50100 µm long, usually globose, colorless to light buff and relatively soft (FIGS. 6, 7
).
Specimen examined. HOLOTYPE here designated. FIJI: Dravuni, 18°42.834'S, 178°30.343'E. F01V25, collected by scuba diving at 2045 ft on the Great Astrolabe Reef, isolated from a sample of Dictyosphaeria versluyii collected by Dr Valerie S. Bernan, Jan 2001. The culture has been deposited in the U.S. National Fungus Collections (BPI 844248).
Etymology. Dravuni is an island located within the Great Astrolabe Reef.
Some variation in the production of sclerotia for F01V25 was observed. As previously mentioned, sclerotia were formed only on MEA among all of the media used in phenotypic evaluation. However there was a lack of sclerotia on MEA if F01V25 was subcultured several times. Although potato-dextrose agar (PDA) is not a medium regularly used in morphological analyses of Penicillia, it is worth noting that white to buff sclerotia also were produced on PDA.
Because F01V25 was isolated from the marine environment, it seemed appropriate to determine its salt tolerance. The growth rate of F01V25 was equivalent on MEA, MEA-ASW, MEA + 5% NaCl, and MEA + 5% KCl with colonies attaining 30 mm diam after 7 d at 25 C. Increasing the salt concentration above 10% resulted in a decrease in the growth rate (FIG. 8
). F01V25 grew even in the presence of 20% NaCl; colonies started growing after 14 d at room temperature and attained an 11 mm diam after 21 d.
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If F01V25 is keyed using Pitt (1988)
, Penicillium dravuni belongs in subgenus Aspergilloides section Aspergilloides based on the presence of vesicles on the stipes (FIG. 3
) of the monoverticillate conidiophores when grown on MEA. The only two species in section Aspergilloides that produce sclerotia are Penicillium sclerotiorum and Penicillium thomii. However P. dravuni does not resemble P. sclerotiorum, which has a brilliant orange colony color, long conidiophores (100300 µm), produces sclerotia on CYA, and does not grow at 37 C. Nor does P. dravuni share many phenotypic characteristics with P. thomii, which produces sclerotia on CYA, grows much more rapidly (4060 mm colony diam on CYA compared to 2535 mm for P. dravuni), has long, rough-walled stipes, rough conidia, large, hard, apricot sclerotia and grows at 5 C.
P. dravuni should be placed within the Monoverticillata, P. thomii series based on the production of true sclerotia, according to Ramirez (1982)
. P. dravuni can be categorized further to the Penicillium turbatum subseries, which produce soft, pseudoparenchymatous, thick-walled sclerotia on only certain substrata.
Of the five species that comprise P. turbatum sub-series, P. dravuni most closely resembles P. turbatum. After 14 d at room temperature, both grow somewhat restrictedly on Czapeks agar (CA) with a dense, felty appearance, spores produced in central areas, short stipes mostly 4070 µm, smooth or nearly smooth conidia and no sclerotia. However the surface colony color of P. dravuni is yellow-pink, not pale grayish-green as in P. turbatum and P. dravuni is devoid of soluble pigment while P. turbatum produces a pale orange soluble pigment. In addition P. dravuni typically has 713 phialides at the end of the stipes; P. turbatum has few (48).
These two species phenotypically appear similar on CYA and MEA as well. Both exhibit dense, velvety growth with sulcation, sparse exudate, soluble pigment and no sclerotia on CYA at 14 d at room temperature. However P. dravuni does not grow as robustly, attaining only 38 mm diam compared to 4550 mm for P. turbatum. Also P. dravuni produces abundant conidial structures, while the conidial structures of P. turbatum are limited. For both species MEA is the only medium used by Ramirez (1982)
that supports the production of sclerotia, which are soft and crush easily. Once again, however, P. turbatum grows faster (5060 mm diam) than P. dravuni (3045 mm) at room temperature after 14 d.
The ITS of F01V25 is 501 base pairs (bp) in length; ITS1 is 174 bp, 5.8S is 113 bp, and ITS2 is 214 bp. Because of high sequence divergence at the end of ITS2, the last 39 bp were trimmed from the multiple alignments, resulting in removal of the last 24 bp of the ITS2 of F01V25. Of the 502 characters that were used in the maximum parsimony analysis, 385 were constant; 49 variable characters were parsimony uninformative, 68 were parsimony informative. Tree statistics were: tree length = 215, consistency index (CI) = 0.6698, retention index (RI) = 0.7321, rescaled consistency index (RC) = 0.4903, homoplasy index (HI) = 0.3302, CI excluding uninformative characters = 0.5671 and HI excluding uninformative characters = 0.4329.
In parsimony analysis P. dravuni forms a mono-phyletic group with Eupenicillium brefeldianum, E. levitum, E. reticulosporum, E. javanicum, E. ehrlichii and P. simplicissimum (FIG. 10
). However the branching of P. dravuni from this clade is supported only by a bootstrap value of 58%. Distance analysis with neighbor joining produced a tree with a similar topology as that of maximum parsimony, however the same branch is supported by a more confident bootstrap value of 76% (FIG. 11
). Because bootstrap values are relatively low the exact phylogenetic position of P. dravuni is uncertain, but F01V25 seems to be most closely related to Eupenicillia.
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| DISCUSSION |
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Phenotypic analysis was the next approach employed to identify F01V25. We used the studies of Pitt (1988)
and Ramirez (1982)
to include as many monoverticillate Penicillia as possible. The much abbreviated "Laboratory guide to common Penicillium species" (Pitt 1988
) lists only two monoverticillate, sclerotigenic species, P. thomii and P. sclerotiorum; Ramirez (1982)
, however, lists eight. Of the eight species in the "Manual and atlas of the Penicillia" (Ramirez 1982
), only five are recognized species: P. thomii, P. sclerotiorum, P. syriacum, P. turbatum and P. donkii. P. pusillum is a strain of P. phoeniceum, P. indicum is a strain of P. chermesinum (Pitt et al 2000
) and P. grancanariae is a strain of P. thomii (Frisvad et al 1990
). Based on overall morphology and the production of sclerotia exclusively on MEA, the only accepted species is P. turbatum, which F01V25 resembles. However F01V25 and P. turbatum share only about 91.5% similarity in the ITS (data not shown), far below the value that would be expected for intraspecific relatedness.
Secondary metabolite profiles have been used to identify both marine and terrestrial isolates of Penicillium spp. (Malmstrøm et al 2000
). In fermentation media containing 50% ASW, F01V25 produces the metabolites carviolin and dictyosphaeric acids A and B (Bugni et al 2004
). The anthraquinone carviolin is a pigment that is produced by P. carminoviolaceum (Hind 1940
), now P. roseopurpureum (Pitt et al 2000
), and also by the ascomycete Neobulgaria pura (Eilbert et al 2000
). F01V25 cannot be a strain of P. roseopurpureum because they share only about 95% sequence similarity in the ITS (data not shown). In addition they do not share many phenotypic characteristics; P. roseopurpureum has cerebriform conidia, reddish pigments diffusing into agar substrates and does not produce sclerotia (Ramirez 1985). The recently described dictyosphaeric acids (Bugni et al 2004
) are polyketides that thus far are produced only by P. dravuni. In fact the only other known compounds that are similar in structure to the dictyosphaeric acids are the colletofragarones A1 and A2 (Inoue et al 1996
), which are spore germination self-inhibitors produced by Colletotrichum fragariae. Therefore the uniqueness of the secondary metabolites produced by P. dravuni is further evidence supporting it as a distinct species.
Kohlmeyer and Kohlmeyer (1979)
stated that one-third of all known higher marine fungi are associated with algae and these relationships may be parasitic, saprobic or symbiotic. Because F01V25 was the only isolate of P. dravuni recovered from the macerated inner tissues of D. versluyii, and the algal sample was not examined microscopically, it is not known what relationship exists between these two organisms. The growth form of this alga is like a flattened cushion that sometimes can be dusted with sediment or rubble. Perhaps conidia of P. dravuni along with some sediment were attached to the bubble-like cells of the thallus or were caught in the crevices between the algal cells of D. versluyii. After all Penicillium spp. are considered to be terrestrial fungi whose spores are washed into the ocean. However Penicillium spp. have been isolated from algae in the tropics from offshore locations (Morrison-Gardiner 2002
), suggesting that these cultures can adapt to a marine environment and no longer may be considered strictly terrestrial. In any case the true host or niche of P. dravuni within the marine environment cannot be confirmed until additional strains of this fungus are discovered.
P. dravuni is not an obligate halophile. At 25 C this culture grows as well on media prepared without salt as it does with ASW or 5% salt. However after 21 d at 25 C on media containing 20% NaCl, F01V25 remarkably attains a colony diam of 11 mm and produces conidia. This degree of salt tolerance has been reported for fungi isolated from salt-preserved fish (Wheeler et al 1988
), but one might expect similar behavior for fungi that originate from the marine environment or have adapted to it.
Optimum growth of F01V25 at 37 C occurs on media prepared with ASW or 5% salt. This growth response is similar to the Phoma-pattern (Ritchie 1957
), which is defined as an increase in salinity tolerance with increasing temperature and is a phenomenon that occurs among marine fungi grown in the laboratory. One theory is that the Phoma-pattern might be an adaptation of fungi enabling them to survive in intertidal zones where water recedes and salinity and temperature rise as the sun evaporates pools (Lorenz and Molitoris 1992
). Dunn and Baker (1983)
tested five marine fungi for growth responses to salinity and temperature: Aspergillus tubingensis, Gliomastix murorum, Gymnoascus reesii, A. versicolor and Penicillium corylophilum, which they isolated from the psammon habitat of the Enewetak Atoll. They found that for most isolates the salinity optimum was around the concentration of seawater with temperature optima 2537 C (Dunn and Baker 1983
). The ability of F01V25 to grow optimally at higher temperatures only in the presence of some salt may be an adaptation of F01V25 to the fluctuations in salinity and temperature that occur in marine environments.
Penicillium spp.
have been isolated from algae, but to our knowledge they are not described (Numata et al 1993
) or have been identified as known species (Amagata et al 1998
). P. dravuni is the first newly described Penicillium sp. isolated from an alga. Phylogenetic data, morphological characteristics and unique secondary metabolite profiles fail to classify F01V25 with any known monoverticillate Penicillia and indicate that P. dravuni is indeed a new species. This unique isolate joins a short list of other Penicillium spp., such as P. limosum (Ueda 1995
), isolated thus far from the marine environment.
| ACKNOWLEDGMENTS |
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| FOOTNOTES |
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1 Corresponding author. E-mail: jansoj{at}wyeth.com
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