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Departamento de Biología, Universidad de Puerto Rico-Río Piedras, P.O. Box 23360, San Juan, Puerto Rico 00931-3360 USA; Departamento de Ciencias Biológicas, Universidad Nacional de Colombia-Palmira, Carrera 32 Chapinero, Palmira, Valle del Cauca, Colombia, AA 237; Smithsonian Tropical Research Institute, Unit 0948, APO AA 34002-0948 USA Genetics and Biotechnology, Department of Biochemistry, University College Cork, Cork, Ireland;
Received for publication September 8, 2006. Accepted for publication October 9, 2007.
ABSTRACT
Tropical orchids constitute the greater part of orchid diversity, but little is known about their obligate mycorrhizal relationships. The specificity of these interactions and associated fungal distributions could influence orchid distributions and diversity. We investigated the mycorrhizal specificity of the tropical epiphytic orchid Ionopsis utricularioides across an extensive geographical range. DNA ITS sequence variation was surveyed in both plants and mycorrhizal fungi. Phylogeographic relationships were estimated for the mycorrhizal fungi. Orchid functional outcomes were determined through in vitro seed germination and seedling growth with a broad phylogenetic representation of fungi. Most fungal isolates derived from one clade of Ceratobasidium (anamorphs assignable to Ceratorhiza), with 78% within a narrower phylogenetic group, clade B. No correlation was found between the distributions of orchid and fungal genotypes. All fungal isolates significantly enhanced seed germination, while fungi in clade B significantly enhanced seedling growth. These results show that I. utricularioides associates with a phylogenetically narrow, effective fungal clade over a broad distribution. This preference for a widespread mycorrhizae may partly explain the ample distribution and abundance of I. utricularioides and contrasts with local mycorrhizal diversification seen in some nonphotosynthetic orchids. Enhanced orchid function with a particular fungal subclade suggests mycorrhizal specificity can increase orchid fitness.
Key Words: Ceratobasidium functional outcomes Ionopsis utricularioides neotropics Orchidaceae orchid mycorrhizae Rhizoctonia specificity
The Orchidaceae is one of the most species-rich plant families, and many orchid species are characterized by limited geographic distributions (Tremblay et al., 2004
). The availability of suitable mycorrhizal fungi is probably a key factor constraining the distribution of orchid species. Orchid seeds, lacking endosperm, have minimal stored resources for germination and seedling growth, relying instead upon mycorrhizal associations to provide both fixed carbon and mineral nutrients (Alexander et al., 1984
; Hadley, 1984
; Alexander and Hadley, 1985
). In some orchids, this mycoheterotrophic state continues into adulthood, with the orchid never acquiring photosynthetic abilities and depending exclusively on their mycorrhizal fungi for nutrition. While most orchid species do develop photosynthetic ability after germination, mycorrhizal associations generally persist in adult photosynthetic plants, although changes in fungal associations between juvenile and adult plants have been documented in at least one orchid species (Rasmussen, 2002
).
The specificity of orchid mycorrhizal (OM) interactions is of crucial importance to orchid ecology and conservation. Broadly distributed orchids might be expected to be either general in their preferences for mycorrhizal fungi or specific and associated with a broadly distributed fungus, as in many mutualistic relationships (Bascompte et al., 2003
; Vazquez and Aizen, 2003
). In contrast, a narrow OM specificity could be a reason for rarity and vulnerability of the plant species.
Recently, molecular phylogenetic approaches have facilitated the study of OM specificity. In this context, specificity may be defined as the phylogenetic breadth of associations between different taxa (Thompson, 1994
). An orchid species may be considered specific if it interacts with fungal taxa contained within a single, restricted phylogenetic clade. Studies to date show that orchid mycorrhizal interactions are, in general, more specific than other mycorrhizal systems. The level of dependence of orchids on their mycorrhizae has been invoked as a major determinant of the levels of specificity in OM associations. Thus, nonphotosynthetic orchids have been hypothesized to be more specific because of their heightened nutritional needs (Taylor et al., 2002
; McCormick et al., 2004
; Selosse et al., 2004
). Studies in temperate mycoheterotrophic species have revealed a high degree of specificity, with different orchid species associated with distinct phylogenetic clades of fungal partners (Taylor and Bruns, 1997
; Selosse et al., 2002
). However, certain photosynthetic orchids, both tropical epiphytes (Otero et al., 2002
) and temperate terrestrials (McCormick et al., 2004
), have been shown to be at least as specific as these nonphotosynthetic species.
The degree of specificity in OM associations will ultimately depend upon the ecological coincidence of the orchid and fungi (ecological specificity), the physiological compatibility between the fungus and orchid, and the relative functional outcomes (fitness) of each interaction. Ecological specificity is determined by the range of potential fungal partners available (Perkins and McGee, 1995
). The mechanisms underlying physiological compatibility are still unknown, but the functional outcomes of OM interactions, at least for the orchid, are more tractable to investigators.
Not all mycorrhizal fungi are functionally equivalent in their interactions with orchids (Zelmer and Currah, 1997
; McCormick et al., 2004
; Otero et al., 2004
, 2005
). An orchid species may have a broad phylogenetic specificity but function significantly better with a restricted proportion of its fungal partners (e.g., Schemske and Horvitz, 1984
). Zelmer et al. (1996)
found that orchid seedlings associated with a wider range of fungi than older plants, possibly reflecting fairly low specificity at the germination stage. However, only those plants with optimum compatibility developed to adulthood. Thus, in addition to studying phylogeny, researchers must also measure the functional outcomes of OM interactions to accurately assess specificity.
Although the majority of orchid taxonomic diversity is found in the tropical epiphytes, the mycorrhizal fungi of these species are least known (Richardson et al., 1993
; Zettler et al., 1999
; Otero et al., 2002
, 2004
, 2005
; Ma et al., 2003
; Pereira et al., 2005a
, b
, c
). Studies of a number of epiphytic orchid species in Puerto Rico revealed differing levels of mycorrhizal specificity amongst species (Otero et al., 2002
, 2004
, 2005
), but variation in mycorrhizal specificity of tropical orchids over a broader geographical distribution has not been explored.
One of the most fungal-specific orchids identified in Puerto Rico is Ionopsis utricularioides (Swartz) Lindley (Otero et al., 2002
, 2004
). This species is a photosynthetic, twig epiphyte in the subtribe Oncidiinae (Williams et al., 2001
) and grows on small trees or shrubs such as guava (Psidium guajava L.) and tintillo (Randia aculeata L.). It is broadly distributed across the neotropics, from Florida, USA, to tropical South America, including the Caribbean and Galapagos Islands. It is locally abundant in Puerto Rico and parts of Central America (Ackerman, 1995
).
In Puerto Rico, I. utricularioides has mycorrhizal associations almost exclusively with one of four clades of Ceratobasidium (clade B) isolated from the nine orchid species studied (Otero et al., 2002
). Ceratobasidium is a teleomorphic (sexual stage) genus associated with strains of the anamorphic genus Ceratorhiza. These fungi, in common with most orchid mycorrhizal fungi, are classified as Rhizoctonia-like fungi (Moore, 1987
). Ionopsis utricularioides also had a higher functional outcome with those Ceratobasidium fungi isolated from the same species than with those isolated from another related, sympatric species (Otero et al., 2004
).
In the present study we further investigate the mycorrhizal specificity of I. utricularioides, addressing three specific questions: (1) Do the fungal associations of I. utricularioides vary over a broad geographic range? (2) Is there a correlation between genetic structure of the orchid and its mycorrhizal partner across this broad distribution? (3) Are there functional differences among different fungal isolates from I. utricularioides? To answer these questions, we isolated mycorrhizal fungi from I. utricularioides collected over a broad geographic distribution. Using a molecular phylogeny based on nuclear ribosomal internal transcribed spacer (ITS) sequences, we compared the fungal isolates with those isolated previously in Puerto Rico. Genetic variation at the ITS locus was also surveyed within I. utricularioides. Finally, to investigate variation in mycorrhizal function, we performed in vitro experiments to test seed germination and seedling growth of I. utricularioides with a range of mycorrhizal fungi isolated from adult plants of I. utricularioides.
MATERIALS AND METHODS
Sampling material
Roots of I. utricularioides were collected from the following locations across the distribution of the species (Table 1): La Chorrera, Panama; La Selva and Puerto Viejo, Costa Rica; on the Arima-Blanchisseuse road, Trinidad; Soroa (Pinar del Río), Cuba; and Chiclayo, Peru. Fungi isolated from I. utricularioides at four sites in Puerto Rico (Cambalache, Dorado, San Cristóbal, and Tortuguero) were previously characterized (Otero et al., 2002
, 2004
).
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The orchid plants from which the fungi were isolated were also sampled for population genetic variation. These plants were sampled across sites in Puerto Rico, Costa Rica, and Trinidad. Unfortunately, it was not possible to amplify plant ITS sequences from samples collected in Panama and Peru.
Sequencing of ITS region and phylogenetic analysis
The DNA was extracted from pure cultures (for fungi) and from leaves (for plants) using a minipreparation (Lee and Taylor, 1990
). In a few cases, fungi were identified through direct PCR from pelotons following the methods of Kristiansen et al. (2001)
. The ITS region of nuclear ribosomal DNA was amplified by PCR with primer pairs ITS1/ITS4 for fungi and ITS5/ITS4 for plants (White et al., 1990
). The PCR products were purified using the QIAquick PCR Purification Kit (QIAGEN, Valencia, California, USA) and sequenced using the BigDye cycle sequencing kit on an ABI Prism 377 (Applied Biosystems, Foster City, California, USA). Sequences were edited using the program Sequencher 3.0 (Gene Codes, Ann Arbor, Michigan, USA).
Sequences from 10 fungal isolates were identical to those of other isolates from the same plant and therefore may have come from the same fungal individual. These sequences were excluded from subsequent analyses. The ITS sequences obtained in the present study were aligned with 18 previously identified from Puerto Rico (Otero et al., 2002
, 2004
) for phylogenetic analysis. Those GenBank accessions most similar to these sequences were identified using the BLASTn algorithm (http://www.ncbi.nlm.nih.gov/) (see Table 1 for these accessions), and alignments were performed using Clustal W with the program Bioedit 5.0.9 (Hall, 1999
) and checked visually.
The ITS fungal alignment had 614 bases. The most likely model of evolution was estimated as the Hasegawa, Kishino, Yano model with a proportion of invariable sites P(I), and gamma distribution shape parameter, G (HKY+I+G (P(I) = 0.3728; G = 0.5583) using the program Modeltest 3.06 (Posada and Crandall, 1998
). Phylogenetic relationships were estimated using both maximum parsimony (MP) and maximum likelihood (ML) with the heuristic search option and the tree bisection-reconnection (TBR) branch-swapping routine in the program PAUP* (version 4.0b10; Swofford, 2003
). The MP analysis utilized 106 informative characters resulting in 36 equally parsimonious trees with score of 402. The most likely tree had a score of – 2856.65 (Fig. 1). Bootstrap support was calculated using MP and Neighbor-Joining (NJ) analysis. Thanatephorus cucumeris (GenBank AF153778 from soybean in Japan; Pope and Carter, 2001
) was used as the outgroup for the fungal sequences (Otero et al., 2002
, 2004
).
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Ten fruits (one per plant; N = 10 plants) of I. utricularioides were collected in the Tortuguero Natural Reserve (Manatí, PR) on 12 August 2001, when capsules were mature (the fruits were swollen and changing color from green to yellow). Fruits were transported to the laboratory inside plastic zip-closure bags, and fruits were surface-sterilized as previously described for the roots. Seeds were transferred to sterile water, and viability was estimated with triphenyl tetrazolium chloride (TTC) staining after 24 h (Vujanovic et al., 2000
). Seed viability was 50–96%. Seeds of the five fruits with highest viability were pooled for germination experiments. Seed were sown within 48 h after collecting.
Thirteen fungi, including representatives of all clades found in this study, were inoculated on to different petri plates containing cellulose agar, a modification of Clements' isolation medium (Clements, 1988
), with sucrose replaced by 10 g cellulose powder/L (Otero et al., 2004
, 2005
). Cellulose is a carbon source available to fungi but not plants, and orchid seedlings do not grow on culture media without either sugars or mycorrhizal fungi (Rasmussen, 1995
). The pH of the agar was slightly acidic (5.5–6.5). Three days after fungal inoculation, a suspension of pooled seeds (249 ± 103 seeds, mean + SD) in 100 µL of sterile water was added to each plate. Each fungus–orchid combination was replicated three times. The plates were sealed with parafilm and incubated in the laboratory with a natural light regime at 24°C. Controls were established with cellulose agar plates inoculated with seeds but not with Ceratobasidium fungi. A long incubation (3 months) allowed endophytic fungi to grow on control plates (without Ceratobasidium fungi), but such fungi were not seen on plates inoculated with the experimental fungi because the experimental fungi grew much faster. We thus set up two sets of controls to examine the effect of the isolated Rhizoctonia-like fungi on seed germination, both with and without the addition of a fungicide (benomyl, 35 mg/L). Levels of germination were low but equivalent in the two sets of control plates lacking Ceratobasidium (Fig. 2). Subsequent fungal growth from small clumps of placental tissue on these control plates was assumed to be of endophytic fungi.
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RESULTS
All fungi isolated from I. utricularioides were allied to Ceratobasidium (anamorph Ceratorhiza) (Fig. 1). With the exception of one isolate (JTO203 from Panama), all samples formed a well-supported major clade that included the clades A, B, and C first identified in Puerto Rico (Otero et al., 2002
). GenBank accessions from Ceratobasidium anastomosis groups S and Q (González et al., 2001) and a mycorrhizal isolate from the orchid Oncidium sp. in Singapore (Rhizoctonia Oss2–2; Ma et al., 2003
) also fell in this major clade.
The majority of I. utricularioides fungal isolates (29/37 = 78%) were contained within clade B of Ceratobasidium. Two isolates from Cuba (JTO485, JTO486) and one from Puerto Rico (JTO063) fell in clade C, and a single isolate (JTO217 from Trinidad) was associated with clade A (Otero et al., 2002
). Two other isolates (JTO232 from Cuba and JTO484 from Peru) were grouped together in a previously unidentified clade. No phylogeographic structure was apparent among the fungal isolates, and fungi from clade B were isolated from Cuba, Costa Rica, and Panama, in addition to Puerto Rico. In fact, samples from Puerto Rico, Cuba, and Costa Rica yielded identical ITS sequences (e.g., JTO132, JTO231, JTO487: see Fig. 1).
Population genetic differentiation was investigated in the orchid I. utricularioides through DNA sequence variation at the ITS locus. Two genotypes were identified: one was shared by all plants sampled in Costa Rica, while the other was common to plants sampled in both Puerto Rico and Trinidad. These genotypes differed by three transitional base-pair substitutions at positions 126 and 175 of the ITS-1 and position 203 of ITS-2 (see GenBank accessions DQ088152, Costa Rican genotype; DQ088150, Antillean genotype).
All the Ceratobasidium isolates from I. utricularioides tested in this experiment promoted germination in vitro, showing that they are potential mycorrhizal fungi (in the sense of Masuhara and Katsuya, 1994
). All isolates significantly enhanced germination relative to the controls (F13,28 = 15.41, P < 0.0001), with no significant differences among isolates (Fig. 2).
In contrast to germination, the fungal treatments differed significantly in the seedling growth index (GI) (F13,28 = 23.09; P < 0.0001; Fig. 2). When controls (which had much lower GI than all fungi) were removed from the analysis, differences were still highly significant. The fungi that induced the highest GI fell within a subclade of clade B, here defined as subclade super B (Fig. 1). Isolates in this subclade induced significantly higher GI than other isolates in clade B (Fisher's exact test, two tails, P = 0.0047). These fungi were all isolated from a single site in Puerto Rico (Dorado) but were phylogenetically related to fungi from two sites in Costa Rica (Fig. 1). A single isolate outside the super B clade (JTO132) induced similar growth to isolates within super B. This isolate was also derived from a plant from Dorado. All other fungi tested were less effective at promoting seedling growth, with isolates from the remainder of clade B being equivalent to an isolate from clade C (JTO-63).
DISCUSSION
The distributions and diversity of orchid species may largely depend on the specificity of their orchid mycorrhizal (OM) interactions and on the distribution of the OM fungi. Understanding these obligate associations is of crucial importance for orchid ecology and conservation. The study presented here extends our investigations into the specificity of the mycorrhizal associations of the little-studied tropical, epiphytic orchid species.
Our prior studies of OM specificity across a number of photosynthetic, epiphytic neotropical orchid species showed that I. utricularioides is significantly more specific in its mycorrhizal associations than related, sympatric species, including Tolumnia variegata (Sw.) Braem (Otero et al., 2002
, 2004
). All but one of the fungal isolates from I. utricularioides populations on the island of Puerto Rico fell within a single clade of Ceratobasidium (anamorph Ceratorhiza) (the clade B discussed here), while sympatric populations of T. variegata were associated with fungi from four related clades, including clades A, B, and C (Otero et al., 2004
). Our present continental-wide sampling of mycorrhizae of I. utricularioides revealed that this orchid shows remarkable fidelity to a single major clade of Ceratobasidium fungi (including the clades A, B, and C) across this range. Of 37 fungal isolates from plants collected in Central America, Peru, and the Caribbean islands, only one did not fall in this clade. While broader geographic samplings revealed that the association between I. utricularioides and clade B is not as strict as seen in Puerto Rico (Otero et al., 2004
), the majority (78%) of the isolates still fell within this clade.
Additionally, a previous study (Otero et al., 2004
) showed that seed germination and growth of I. utricularioides was more enhanced by fungi isolated from adult plants of this same species than by fungi isolated from adult T. variegata. In contrast, seeds from T. variegata germinated equally well with fungi isolated from either orchid species. The present study of the germination and seedling growth of I. utricularioides with a phylogenetically broad representation of fungal isolates from adult plants of this species reveals that, while all isolates were equally effective at promoting germination, a specific subclade of fungi enhanced seedling growth significantly more than fungi from other subclades. These accumulated data now show a considerable degree of specialization of I. utricularioides in its mycorrhizal associations, with the consequence of enhanced germination and early growth with the specific fungus, or, alternatively, a reduced capacity to exploit a broader range of fungal clades; both outcomes may have occurred.
Identification of OM fungi with the pure culture technique has been criticized because only fungi that grow on the specific medium may be identified; nonculturable fungi will not appear (Rasmussen, 2002
). In contrast to temperate, terrestrial orchids, which often produce abundant pelotons, tropical, epiphytic orchids often present few intact pelotons amenable to direct PCR identification. The use of pure culture as a method for OM identification in this study was supported by the fact that the few fungi identified through direct PCR of pelotons fell within the same Ceratobasidium clade as those identified through pure culture (Table 1, Fig. 1). Furthermore, germination and seedling growth experiments confirmed the mycorrhizal nature of these fungal isolates. The striking observation of the same fungal clade isolated across such a wide geographical distribution of I. utricularioides suggests that this clade is indeed an important mycorrhizal partner for this orchid species.
Our broad geographical sampling of OM across the Caribbean region revealed a widespread distribution of the Ceratobasidium mycorrhizal clades. Also contained within the major clade were isolates from the Ceratobasidium anastomosis groups S and Q, from Florida and Japan, respectively (Gonzalez et al., 2001
), and a mycorrhizal fungus isolated from a species of the orchid Oncidium in Singapore (GenBank AJ318421). The geographic range of the narrow phylogenetic group (clade B), from Central America to the eastern Caribbean, was also striking, with identical ITS sequences obtained from samples from Puerto Rico, Cuba, and Costa Rica. Little is known about population structure, reproductive mode, and dispersal in Ceratobasidum, even in its better-studied relative Rhizoctonia solani (= Thanatephorus) (Cubeta and Vilgalys, 1997
). We sampled orchid roots only, and it is unlikely that this fungus is restricted to orchid roots. However, the extent of its habitat is unknown.
Our functional experiments provide insights into the fitness consequences for the orchid of the mycorrhizal associations. We found that the fungi isolated from adult I. utricularioides significantly enhanced orchid seed germination and seedling growth. The large quantity of small seeds produced in a single orchid fruit make it likely that that the life history stage of seedling establishment is a bottleneck in the life cycle of the orchids (Ackerman et al., 1996
), and thus seedling development is probably one of the best criteria for measuring functional outcomes (Rasmussen, 2002
). The measure of seedling growth may also indicate fitness effects of these OM associations later in the orchid life history; that these fungi were all isolated from adult plants attests to their role in adult plants. Fungal succession in OM associations across orchid life cycles has been described in some studies in terrestrial orchids. In Spiranthes lacera, both Ceratorhiza goodyerae-repentis (teleomorph: Ceratobasidium cornigerum) and Epulorhiza repens (teleomorph: Tulasnella calospora) were isolated from adult plants, but only Ceratorhiza goodyerae-repentis was isolated from protocorms (Zelmer and Currah, 1997
). Similarly, in Vanilla sp., Ceratobasidium, Tulasnella, and Thanatephorus were isolated from adult roots, but only Ceratobasidium promoted seed germination in vitro (Porras-Alfaro and Bayman, 2007
). These studies suggest that Ceratobasidium and their anamorphs are important at the seed germination stage for diverse orchids. In a comparative study of three terrestrial, photosynthetic orchids, McCormick et al. (2004)
found that the protocorms of Tipularia discolor were associated with a different, more restricted range of fungi than the adult stages. In contrast, in two other species, Goodyera pubescens and Liparis lilifolia, protocorms and adult plants were associated with the same fungi. While we have no evidence of OM fungal succession in I. utricularioides, protocorms and juvenile stages from plants in the wild should be examined to confirm this possibility.
Few studies have examined OM associations across a broad geographic area. The strong association found in this study between I. utricularioides and a single clade of Ceratobasidium fungi broadly distributed across the orchid's natural range contrasts to the geographical differentiation in OM associations seen across the range of an achlorophyllous, terrestrial orchid (Taylor et al., 2004
). The high specificity in I. utricularioides is not a consequence of ecological specificity (Perkins and McGee, 1995
), i.e., it is not due to a limited number of fungal partners available. Studies of the mycorrhizal fungi of nine sympatric orchid species revealed a broader diversity of fungi available in sites where I. utricularioides was collected (Otero et al., 2002
), and this orchid species occasionally does associate with these alternative fungi. Clearly, experiments investigating the physiological basis for the enhanced growth with clade super B, in addition to in situ experiments of orchid mycorrhizal function across the geographic range of the species, are the next logical steps to investigate further this highly specific mycorrhizal association.
Although I. utricularioides had a strong preference for Ceratobasidium clade B across the sampled distribution, the fungus did not have an equivalent specificity. In a previous study, four other species of epiphytic orchids were also associated with fungi in clade B (Otero et al., 2002
). These observed fungal associations suggest that this Ceratobasidium clade may be an important mycorrhizal associate of a variety of tropical epiphytic orchids. Further sampling of other orchid species sympatric with I. utricularioides across its extensive range may reveal that this Ceratobasidium clade is associated with many other tropical epiphytic orchids. Interestingly, green house tests with neotropical Vanilla species showed that fungal isolates from I. utricularioides pertaining to clade super B were significantly more effective at enhancing growth than the fungi isolated from the Vanilla (Porras-Alfaro and Bayman, 2007
).
Conclusions
The causes and effects of orchid mycorrhizal specificity are still not well understood. In particular, data on epiphytic and tropical orchids, which constitute the greater part of the family, are sorely lacking. Our present findings suggest that the success of I. utricularioides, in terms of its broad geographic range and large population sizes, is correlated with its mycorrhizal association to an effective and widely distributed group of fungi. This fungal clade is also likely to be important in mycorrhizal associations of other tropical orchids.
FOOTNOTES
1 The authors thank C. McMillan of the Trinidad and Tobago Orchid Society for help with collections in Trinidad; at the University of Puerto Rico-Río Piedras: L. A. Castro, A. Carrillo, J. García, L. Fidalgo, P. Pabón, A. Porras, and S. Rocafort for assistance in the laboratory; T. Giray for valuable ideas; W. O. McMillan for use of facilities; and L. H. Rieseberg, K. Gowland, and M. Clements for comments on previous versions of the manuscript. This research was supported by an NSF-EPSCoR scholarship to J.T.O. (NSF grant EPS-9874782), an Organization for Tropical Studies post-course fellowship to J.T.O. (OTS-2000–13), and a NASA-IRA grant to the University of Puerto Rico. ![]()
6 These authors contributed equally to this work. ![]()
7 Author for correspondence (e-mail: jtoteroo{at}palmira.unal.edu.co
) ![]()
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