Академический Документы
Профессиональный Документы
Культура Документы
OCTOBER
ACCEPTED:
Key words. Basidiomycetes, ribosomal DNA, small subunit (18s)rDNA, variable domain 9, internal transcribed spacer,
diagnostics, restriction fragment length polymorphism.
Schliisselworter.Basidiomyzeten, ribosomale DNA, small subunit (18s)rDNA, Variable Domane 9, internal transcribed
1 spacer, Diagnostik, RFLP.
Summary. Eleven clinical and veterinary strains Abbreviations: SSU, small subunit (18s);
of filamentous Basidiomycetes were compared with ribosomal DNA (rDNA); V9, SSU variable
15 reference strains representing the orders domain 9; ITS, internal transcribed spacer; RFLP,
Aphyllophorales and Agaricales. The methods restriction fragment length polymorphism.
used were restriction analysis of small subunit
(18s)(SSU)rDNA and internal transcribed spacers
(ITS) 1 and 2 and variable domain 9 (VS)-ITSl Introduction
sequencing. Six strains were found to belong to
the teleomorph genera Schizophyllum or Coprinus, Of the fungi with clinical significance, only rela-
whereas five could not be identified unequivocally. tively few are of basidiomycetous affinity. Among
A rapid diagnostic overview is obtained with HaeIII these the heterobasidiomycetous yeasts are by far
and HinfI digestion of the ITS region. the most important: species of CgJptococcus,
Malassezia and Trichosporon are among the classical
Zusammenfassung. Elf klinische und veteri- pathogens, or opportunists, known since the pre-
nare Stamme filamentoser Basidiomyzeten wurden vious century [ 11. Homobasidiomycetes in culture
untereinander und mit funfzehn Referenzstammen generally produce a whitish, flu@, filamentous
der Ordnungen Aphyllophorales und Agaricales mycelium rather than yeast cells, often with more
verglichen. Angewandt wurden Restriktionsanaly- or less differentiated arthroconidia. In the natural
sen der SSU rDNA und der ITS 1 und 2 und environment (wood, soil, compost, etc.) they are
Sequenzierung von Region V9-ITS 1. Sechs recognized by macroscopically visible fruit bodies.
Stamme wurden als Reprasentanten der teleomor- Clinical strains identified thus far belong to two
phen Gattungen Schizophyllum oder Coprinus identi- orders of the Homobasidiomycetes, namely the
fiziert; die ubrigen fiinf konnten nicht mit Aphyllophorales and the Agaricales.
Sicherheit bestimmt werden. Eine rasche diagno- Until recently, only a few cases had been pub-
stische Ubersicht wurde durch HaeIII und HinfI lished in which a member of these orders was the
Verdauung der ITS Region erreicht. aetiological agent [2]. Most of them belonged to
the genera Schizophyllum (Aphyllophorales) or
Coprinus (Agaricales). A significant increase in the
number of cases has been noted during the past 5
years. Possibly, this is due to a growing awareness
Centraalbureau voor Schimmelcultures CBS, Baarn, The that such hyphal thalli may indeed represent
Netherlands agents of mycoses. Their mycelia may be rather
Correspondence: Prof. D r G.S. de Hoog, Centraalbureau
undiagnostic as they are morphologically similar
voor Schimmelcultures, PO Box 273, NL-3740 AG Baarn, over larger taxonomic groups, and often lack key
The Netherlands. features such as clamp connections and conidia.
184 G. S. DE HOOG& A. H. G. GERRITS
VAN DEN ENDE
For the production of fruit bodies, and for the Restriction anahsis
demonstration of septa1 ultrastructure, special The PCR products were digested with the follow-
methods are required [3, 41 that are not routinely ing enzymes: Hinyl, HaeIII, RsaI and DdeI, accord-
availablc in clinical laboratories. ing to the suppliers' instructions. Fragments were
In the present article, the ribosomal gene of a electrophoresed in 1.5% agarose gels, in TBE
number of recent clinical isolates that were sus- buffer (Tris-Borate-EDTA) at 3-6 V cm-' for 3 h
pected or proven to be of basidiomycetous affinity and stained with ethidium bromide. Biozym Low
is compared with reference strains. O n the basis Ladder was used as the marker. The gels were
of partial small subunit (18s) (SSU) and internal analysed and photographed using the Image
transcribed spacer (ITS) 1 sequencing and of Master System (Pharmacia). The lengths of the
restriction analysis of SSU and ITS1 -2 amplicons, resulting bands were measured using VDS
a diagiio>ticsystem applicable in the clinical labor-
software version 2.0 and the data were transferred
atorv is developed. to a Quattro Pro 5.0 matrix. Molecular weights
were compared with those present in a database
available at CBS.
Number Source NS1-NS24 HaeIII Hinz RsaI DdeI ITSlLITS4 HmIII Hi@ ha1 Ddel
~~
qenerated with HueIII. ITS restriction patterns A finer resolution of the Coprinus-Hormogruphiellu
were particularly variable with HueIII and H i n f I , complex is achieved when the positions 189-455,
both generating seven different patterns. spanning the ITSl spacer, are taken into account
In main traits, RFLP of 18s and ITS allows the (Fig. 3); the remaining species could not be aligned
distinction of five groups, each containing more with sufficient confidence. There is a marked
than one strain (Table 1). Group 1 contains the distinction between C. cinereus-Hormogruphiella usper-
three strains identified as S. commune. Among these gillutu (RFLP group 2)) clearly representing a single
are two clinical strains and one environmental taxon, and the remaining strains (RFLP group
strain (Table 1). Some heterogeneity is found in 3). The latter group is significantly more
I T S restriction patterns. Group 2, including four heterogeneous.
clinical strains, contains Coprinus cinereus and its
anamorph Hormogruphiellu aspergillatu plus one strain
identified as Hormogruphiella uerticillatu,which appar- Discussion
ently is a misidentification. The core of H. verti-
czllutu is found in group 3, which contains a single In recent years it has become apparent that higher,
clinical strain but as yet no teleomorph. Group 4 filamentous Basidiomycetes occasionally do occur
contains three strains of Phunerochuete chrysosporium as causative agents of human and animal mycoses.
but no clinical strain. Digestion patterns of group Teleomorph connections of clinical fungi have
5, containing Bjerkundera adusta and a clinical strain, been proven by a demonstration of fruit bodies
were interpreted with difficulty as the length [4] and septa1 ultrastructure [3, 81. Aetiological
differences between fragments were minute. agents identified thus far belong to different orders
Five strains could not be unambiguously attri- of the class Basidiomycetes: Aphyllophorales
buted to any of the groups above. Among these (Phanerochuete, Schizophyllum) and Agaricales
was Dzsporotrzchum dimorphosporum, which could not (Coprinus). These taxonomic groups are broadly
be assigned to any of the remaining reference recognized in the grouping made on the basis of
teleomorphs. None of the clinical strains appeared RFLP patterns: group 1 corresponds to the
similar to this species. The type strain of Schizophyllum relationship (Aphyllophorales),
Honnogruphiellu cundelubrutu was found to resemble groups 2 and 3 to the Agaricales, and groups 4
group 3 but showed different patterns with HinfI and 5 to the Aphyllophorales. B. adustu and the
and DdeI. Three clinical strains could not be clinical strain CBS 257.96 were found at a larger
identified with certainty. CBS 258.96 from sputum distance from all groups, including the aphyllopho-
was found to be intermediate between H. uspergil- ralean species P. chlysosporium. With the remaining
Lutu and H. uerticillatu. CBS 237.96 had three 18s species, despite the fact that the taxonomic dis-
RFLP patterns in common with P. chrysosporium tances between groups are currently recognized as
but had clearly different ITS restriction profiles. being at the ordinal level, SSU RFLP patterns
A strain from dolphin could not be identified generated using RsaI and DdeI were found identical
either. or similar in all groups except B. adustu. Patterns
A distance tree of the moderately variable V9 generated with HznfI were found to differ accord-
domain of SSU rDNA plus the partial 5.8s rDNA ing to the taxonomic borderlines of the orders and
gene is presented in Fig. 2, and a tree of the highly this enzyme is therefore a useful indicator of main
variable ITSl spacer is presented in Fig. 3, both relationships.
based on the sequence alignment presented in Of the 11 clinical strains analysed, six were
Fig. 1. The V9 domain as well as the SSU terminus attributed to known species: S. commune, C. cinereus
and the 5.8s gene could be aligned with confi- or H. uerticillata. Strains CBS 258.96 and 517.91
dence. A tree using 199 SSU and 108 5.8s pos- (type strain of H. cundelabrutu) were similar to
itions of all strains analysed is presented in Fig. 2. C. cinereus and thus might represent another
The RYLP groups 2 and 3 cannot be clearly Coprinus species. Similarly, CBS 257.96 might rep-
separated from each other. The two sequenced resent another Bjerkandera species. The strains CBS
S. commune strains (group 1) are found together but 237.96 and 800.95 seem too remote to be associ-
at a rather large distance. The three strains of ated with any of the reference taxa. None of the
P. chrysosporium (group 4) are found to be very clinical strains came close to D. dimorphosporum.
similar in the 18s distance tree (Fig. 2) and show The number of Basidiomycetes involved in human
\Tery little variation in ITSl sequences (Fig. 1). D. or animal mycoses is apparently larger than the
dimorphosporum and B. adustu are found at rather ones mentioned in the literature [9], but: on the
isolated positions (Fig. 2). The clinical strains that other hand, they are not randomly distributed
showed ambiguous results with RFLP could not over the orders of Basidiomycetes. Some relatively
be identified with any of the reference strains used. limited groups seem to possess more virulence
1634 v9
I I . ;O .I
20
I.. ! . . I .
30
1
40
..I ....
CCGCCCGTCG GTAAGAN-CC N-ACTWATA AGCTTAGTGA -GGTCTTCGG ATCGGCTTTG GGGAGCCGGC AACGGCACC-
1 .
50
L l .
60
I ..{..I
70
..I..
80
1.. 1
TCATTGCTGA
. I
90
100
G-.T.G-.AT G.A . . . . . . . - . . . . . . . . . . .T . . . . .C. . . . . . . . . . . . . . . . . . . .C
180
18 CBS 419.70 Disporotrichum dimorphosporum
ITS1
T . GG .CGGTA GAA.AGCGA. C. .T.. . .GC TGCT.GG .A GCCTT’.CT.TGTT.. .CTAC AAACGClTCA GTTTAAGAAT GTTTACCTGC 15 CBS 255.65 Phanerochaete chrysosporium
T.GG.CGGTA G.A.AGCGA. c. .c. . . .GC .TGCT.GG.A GCCTT. CT .T GTT.. .CTAC AAACGCTTCA GTTTAAGAAT GTTTACCTGC 16 CBS 363.65 Phaneroehaete chrysosporium
T.GG.CGGTA G.A.AGCGA. C..T....GC .TGCT.GG.A GCCTT.CT.1 GTTA..CTAC AAACGCTTCA GTTTAAGAAT GTTTACCTGC 17 CBSl 29.27 Phanerochaete chrysosporium
T.GG.CGGGT GGCT.GGCTC C....C.GGC .GTC...CCT .TGT.TAC.C .TACACTTTA TAGTTTCAGA ATGTAAACTG CGTATA- 18 CBS 419.70 Disporotrichum dimorphosporum
Figure 1. Alignment of partial SSU rDNA and ITSl sequences starting at position 1634 of the 5’ end with reference to S.cerevisiae. Schizophyllum
commune, CBS 340.81 is used as leading strand. Dots indicate nucleotides identical to this reference; dashes represent deletions necessary for
alignment. The upper lines mark the positions of the variable domain V9 of SSU rDNA, the ITSl spacer and the 5.8s rDNA gene.
factors than the remaining thousands of culturable are distinguishable with HinfI digestion, only
species of filamentous Basidiomycetes. Bjerkunderu being found as a fourth group (Table 1).
RFLP of the complete, PCR-amplified SSU ~ ~ ~ p o r is o ~an~as~ yet
c ~unclassified
~ m anamorph
ribosomal gene provides a fairly confident insight [lo]. HueIII generates more patterns, leading to
into the relationships of the fungi under study. differences within the orders. Earlier RFLP studies
The three groups, namely Schiz@hyllum (Aphyllo- [ 111 have shown that also in hyphomycetes of
phorales), Agaricales and other Aphyllophorales ascomycetous affinity HueIII has restriction sites in
ITSl 5.8s
5.8s
Figure 1. (continued)
- 2%
CBS 405.96 Schnophyllum commune
relatively variable 18s rDNA domains, whereas
HinzI and Sau3A1 (with restriction sites identical
to those of DdeI) cut in conserved areas and thus
the resulting patterns are expected to be identical
CBS 517.91 Hormographiella candelabrata when the fungi are phylogenetically not too
2.3
remote. DdeI digestion patterns are nearly
CBS 519.91 Hormographiella aspergillata invariant, whereas with Hinf I and Sau3A1 three
and four groups, respectively, could be
CBS 106.97 Hormographiella aspergillata
CBS 419.70 Disporotrichum dimorphosporum distinguished.
Basic relationships of the strains studied are
CBS 363.65 Phanerochaete chrysosponum
CBS 129.27 Phanerochaete chrysosporium evaluated on the basis of a sequence comparison
CBS 255.65 Phanerochaete chrysosporium of the terminal portion of 18s rDNA that includes
5
the V9 variable domain. This could be sequenced
CBS 230.93 Bjerkandera adusta 5 in a single run together with ITSl when the
primer V9G was used. The number of informative
Figure 2. Distance tree of studied filamentous Basidiomycetes gen-
erated with the neighbour-joining algorithm using the Treecon sites, however, is rather low, and the groups
software package, based on unambigously aligned positions of SSU distinguished in the distance tree (Fig. 2) are mostly
r D N h BJerkandera adusta was used as outgroup. statistically insignificant having low bootstrap
values (not shown). The RFLP groups 2 and 3
could not be distinguished as strain FMR 5150
2%
proved to be a sister group to the remaining
i-
CBS 509.94 Hormographiella verticillata
FMR 5150 Coprinus cinereus
species. Figure 3 shows that RFLP group 2 prob-
CBS 106.97 Hormographrella aspergillata ably comprises a single species, whereas group 3
CBS 519.91 Hormographiella aspergillata
CBS 833.96 Hormographiella aspergillata is more heterogeneous. The resolution power of
CBS 517.91 Hormographiella candelabrnta
FMR 3936 Hormographiella verticillata
morphology is insufficient in the Homobasidio-
CBS 257 96 Hormographiella species CBS 258.96 Coprinus species mycetes as strain CBS 509.94 was incorrectly
CBS 230 93 Blerkendera adusta identified as H. verticillata, and the remote,
Bjerkandera-like strain CBS 257.96 had been sup-
Figure 3. Distance tree of the Homographiella-Copinus complex posed to be a Hormographiella on the basis of the
generated with the neighbour-joining algorithm using the Treecon
softtvarc package, based on unambiguously aligned positions of ITS1. presence of arthroconidial elements.
I3jrkandera adusfa was used as outgroup. The hypervariable ITS 1 spacer was sequenced
in strains representing all groups found with Sherburne, R. K. (1995) Diagnostic difficulties caused by
restriction analysis. Most sequences could hardly a nonclamped Schizophyllum commune isolate in a case of
fungus ball of the lung. 3. Clin. Microbiol. 33, 1979- 1983.
be aligned. In contrast, the type of H. aspergillata, 4 Gent, J., Guillambn, J., Pujol, I. & Ulfig, K. (1996)
from a clinical source, and C. cinereus proved to be Molecular characterization, relatedness and antifungal
nearly identical (Fig. l), confirming the conclusion susceptibility of the basidiomycetous Hormographiella
presented by Gent: et al. [4] on the basis of nDNA species and Coprinus cinereus from clinical and environmen-
restriction analysis. H. uerticillata, represented by tal sources. Antonie uan Leeuwenhoek 70, 49-57.
5 White, T. J., Bruns, T., Lee, S. & Taylor, J. (1990)
clinical isolate FMR 3936 and three environmental Amplification and direct sequencing of fungal ribosomal
isolates (Table l), had similar 18s RFLP patterns RNA genes for phylogenetics. In: Innis, M. A., Gelfland,
but was otherwise clearly different from H. aspergil- D. H., Sninsky,J. J. & White, T. (eds) PCR Protocols. San
lata with ITS1-2 RFLP (Table 1) and ITS1 Diego: Academic Press, pp. 315-322.
sequencing (Fig. 3); probably another Coprinus 6 De Rijk, P. & De Wachter, R. (1986)DCSE, an interactive
tool for sequence alignment and secondary structure
species is concerned. research. Comput. Appl. Biosci. 9, 735-740.
The applied primers V9G and 5.8G worked 7 Van de Peer, Y., Nicolai, S., De Rijk, P. & De Wachter,
well in all fungal orders studied, despite the fact R. (1996) TREECON for Windows: a software package
that in some strains a base substitution was found for the construction and drawing of evolutionary trees for
near the 5‘ ends of these primers. To increase the Microsoft Windows environment. Comput. Appl. Biosci.
amplification confidence in filamentous 10, 569-570.
8 Tintelnot, K., Dunckelmann, K., Ozel, M. & Hoog, G. S.
Basidiomycetes it is therefore recommended that de (1997) Transmission electron microscopy (TEM) and
one base is replaced and three bases omitted at rDNA-RFLP for identification of filamentous
the 5‘ end of these primers and that they are Basidiomycetes, isolated from human specimens, abstract.
replaced by the primers V9D (5’-TTAA- 13th Congress ISHAM, Parma, p. 78.
GTCCCTGCCCTTTGTA-3’) and 5.8D 9 De Hoog, G. S. & Guarro, J. (eds) (1995) Atlas of Clinical
Fungi. Centraalbureau voor Schimmelcultures, Baarn and
(5’-GTGCGTTCAAAGATTCG-3. Universitat Rovira i Virgili, Reus.
10 Stalpers, J. A. (1978) Identification of wood-inhabiting
Aphyllophorales in pure culture. Stud. Mycol. 16, 1-246.
Acknowledgements 11 De Hoog, G. S., Uijthof, J. M. J., Gerrits van den Ende,
A. H. G., Figge, M. J. & Weenink, X. 0. (1997)
J. A. Stalpers is thanked for taxonomic advice, Comparative rDNA diversity in medically significant
Y. Graser for verifying the alignment and fungi. Microbiol. Cult. Coll. 13, 39-48.
12 Verweij, P. E., Kasteren, M. van, Nes, J. van de, Hoog,
K. Sterflinger for comments on the manuscript. G. S. de, Pauw, B, E. de & Meis, J. F. G. M. (1997) Fatal
T. Hoeijmakers is acknowledged for generating pulmonary infection caused by the basidiomycete
sequence data. Hormographiella nspegillata.J . Clin. Microbiol. 35,267 5- 2 67 8.
13 Nenoff, P., Friedrich, T., Schwenke, H., Mierzwa, M.,
Horn, L.-C. & Haustein, U.-F. (1997) Rare fatal simul-
References taneous mould infection of the lung caused by Aspergillus
flauus and the basidiomycete Coprinus sp. in a leukemic
Espinel-Ingroff, A. (1996) History of medical mycology in patient. J . Med. Kt. Mycol. 35, 65-69.
the United States. Clin. Microbiol. Rev. 9, 235-272. 14 Bartz-Schmidt, K. U., Tintelnot, K., Steffen, M., Ozel,
Sigler, L. & Abbott, S. P. (1997) Characterizing and M., Kirchhof, B. & Heimann, K. (1997) Chronic basidi-
conserving diversity of filamentous Basidiomycetes from omycete endophthalmitis after extracapsular cataract
human sources. Microbiol. Cult. Coll. 13, 2 1-27. extraction and intraocular lens implantation. Gaefe’s Arch.
Sigler, L., Maza, L. M. de la, Tan, G., Egger, K. N. & Clin. Ex!. Ophthalmol. 234, 591-593.