Abstract
Marine sponges harbor dense and highly diverse bacterial communities, and some percentage of the microflora appears to be specialized for the sponge habitat. Bacterial diversity was examined in Chondrilla nucula Schmidt to test the hypothesis that some subset of sponge symbiont communities is highly similar regardless of the species of host or habitat requirements of the host. C. nucula was collected from a mangrove channel on Lower Matcumbe Key in the Florida Keys (25°53′N; 80°42′W) in August 1999. Domain-specific universal bacterial primers were used to amplify the 16S rDNA gene from genomic DNA that had been extracted from sponges and the surrounding water. An RFLP technique was used to assess diversity of sponge-associated and environmental bacterial communities. The clone library from C. nucula contained 21 operational taxonomic units (OTUs). None of the 53 OTUs from adjacent water samples were found in the C. nucula library indicating that a distinct community was present in the sponge. Sequence analysis indicated that C. nucula harbors a microbial community as diverse as the microbes from other sponges in different habitats around the world. Phylogenetic analysis placed several C. nucula clones in clades dominated by bacteria that appear to be sponge specialists (e.g., Acidobacteria, Bacteroidetes, and Cyanobacteria). Proportional representation of major bacterial taxonomic groups represented in symbiont communities was compared as a function of geographic location of sponge hosts. This study supports the hypothesis that sponges from different oceans existing in dissimilar habitats harbor closely related bacteria that are distinct from other bacterial lineages and appear specialized for residing within sponges.
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Introduction
Understanding the natural world depends in part on being able to identify the species present on the planet. During attempts to survey species diversity, it is important to examine microbial communities associated with host organisms because the symbiotic habitat may contain a major portion of prokaryotic diversity (e.g., Bull et al. 1992; Amann et al. 1995). Here, we use ‘symbiosis’ in a strict ecological sense whereby a close relationship between individuals of two or more species exists, but assume nothing regarding the nature of the relationship (e.g., mutualism, commensalism). Among eukaryotes harboring bacterial symbionts, many marine sponges have extraordinarily diverse microbial communities in their tissues. This diversity may in part be explained by the varying physical, chemical, and biological conditions within the sponge host, which may affect microbial ecology (e.g., number of species supported in the system; relative abundance) and evolution (e.g., specialization through niche partitioning). Despite the evolutionary and ecological significance of these associations, we know relatively little about how they are structured or how they function. Determining how these associations originated and are maintained will broaden our understanding of microbial–host interactions.
Prokaryotic sponge symbionts occur both intra- and extracellularly (e.g., Vacelet 1975; Wilkinson 1978). Early work explored symbiont communities using traditional microbiological techniques on culturable symbionts (e.g., phenotypic assays) and/or microscopic examination of sponge tissue. These studies found that microbes can occupy up to 50% of the sponge volume (Vacelet 1975; Wilkinson 1978; Santavy et al. 1990). Furthermore, the microbial community appears to be sponge-specific and distinct from the surrounding bacterioplankton (e.g., Wilkinson et al. 1981; Santavy and Colwell 1990; Santavy et al. 1990). However, culture-based techniques uncovered only 3–11% (or less) of the total number of species occupying sponge hosts (Santavy et al. 1990).
Within the last 5 years, many studies have explored sponge bacterial symbiont diversity using culture-independent approaches afforded by molecular techniques (e.g., Lee et al. 2001; Hentschel et al. 2003; Hill 2004). Detailed symbiont surveys have been conducted in a number of ecosystems including: Antarctica; Great Barrier Reef and Botany Bay, Australia; Santa Barbara, California; Mediterranean; Western Caroline Islands, Palau; and deep-sea habitats (Hentschel et al. 2003; Hill 2004; Webster et al. 2004; Olson and McCarthy 2005). Several studies have found that the sponge bacterial symbioses are stable across spatial and temporal scales (e.g., Friedrich et al. 2001; Hentschel et al. 2002; Webster et al. 2004) but others have challenged this hypothesis. For example, although Cymbastela concentrica exhibited limited, short-term changes in microbial communities over small geographic distances, the microbial community present in temperate Cymbastela concentrica was distinct from the community existing in Cymbastela concentrica from tropical waters of Australia (Taylor et al. 2004, 2005). These differences highlight the need for additional work in the analysis of sponge-associated microbial diversity.
To date, surveys of sponge microbial symbionts have provided surprising results and generated a number of important questions. For instance, several sponge species from the Mediterranean and Caribbean appear to harbor a previously unknown, sponge-associated microbial lineage, tentatively defined as the Phylum Poribacteria (Fieseler et al. 2004). It appears likely that host-symbiont specificity in these relationships is high. Another intriguing hypothesis proposed by Hentschel et al. (2002) is that sponges harbor uniform microbial communities (but see Taylor et al. 2004). Support for this hypothesis has come from a number of studies. Most recently, lithistid sponges living in deep-sea habitats were found to harbor symbionts also found in shallow water lithistid and verongid sponges from the Pacific and Mediterranean (Olson and McCarthy 2005). Thus, sponges belonging to different orders, occupying highly dissimilar habitats, harbor similar members in their microbial communities.
Microbial communities harbored by Caribbean sponges remain poorly studied (but see Fieseler et al. 2004). Our goal was to begin to describe some of the symbionts found in the common sponge C. nucula from the Florida Keys, Florida. Specifically, we were interested in testing the hypothesis that sponges harbor a uniform microbial community (sensu Hentschel et al. 2002) by determining whether a sponge common in the tropical western Atlantic harbored symbionts found in sponges in other oceans (e.g., the Indo-Pacific and Mediterranean). It is important to note that C. nucula represents a species complex (Klautau et al. 1999), and the species designations for the various populations are still under consideration. The precise phylogenetic or taxonomic position of C. nucula populations is not currently known (Klautau et al. 1999), and given that species identification of the sponge host was not carried out in this study, it is likely that the C. nucula from the Caribbean region will be assigned to a new species. In the Florida Keys, this population of C. nucula is an important competitor for space on coral reefs (Hill 1998) and releases nitrogen into reef ecosystems (Corredor et al. 1988). Identifying members of the bacterial symbiont community may provide insights into microbial contributions to sponge growth and metabolic capabilities, which may have broader ecological consequences for coral reef structure.
Materials and methods
Sample collection
Chondrilla nucula Schmidt was collected in August 1999 at a depth of <3 m from a mangrove channel in Lower Matcumbe Key in the Florida Keys (25°53′N; 80°42′W). Sponges that were >5 m apart were collected and were shipped overnight to Fairfield University. On the same date, a single seawater sample (1 l) was collected adjacent to the sponges and shipped (overnight) to Fairfield. Upon arrival, sponges were rinsed twice in sterile artificial seawater, and 50 mm3 sections were taken from just below the pinacoderm into the choanoderm with a sterile scalpel. Seawater was also vacuum filtered (0.2 μm Nalgene® filter) at this time. Material was stored at −80°C prior to DNA extraction.
Construction of 16S rDNA libraries and sequence acquisition
Total DNA was extracted from sponge tissue, and the filtered biomass from the seawater sample, using a modified cell-lysis method using lysozyme, SDS, and phenol-chloroform extraction as previously described (Tsai and Olson 1991). Primers fD1 (5′-ccgaattcgtcgacaacAGAGTTTGATCCTGGCTCAG-3′) and rD1 (5′-cccgggatccaagcttAAGGAGGTGATCCAGCC-3′) for the domain Bacteria (Weisburg et al. 1991) were used to amplify near full-length (≈1,500 bp) 16S rDNA sequences from C. nucula community DNA. Lower case primer sequences represent restriction sites, which were not used for cloning in this study. The amplified products from three individual sponges were pooled and then cloned into the pCR®2.1 TOPO vector (Invitrogen). The seawater library was constructed in the same manner, but was based on a single sample of water. One hundred colonies were picked for each library.
Clone inserts were purified using the QIAquick Gel Extraction kit (Qiagen) and analyzed using amplified ribosomal DNA restriction analysis (ARDRA). Clone inserts were cut with Hpa II and Hha I and digestion products were run on molecular screening grade agarose (Roche™). Agarose gels were analyzed visually. Of the 100 clones that were picked, we were able to analyze 78 and 91 clones by ARDRA for the C. nucula and ambient seawater libraries, respectively. Twenty-one of the C. nucula clones that had ARDRA profiles that were distinct from clones isolated from the water column were sequenced using the Beckman Coulter CEQ™ DTCS kit with the CEQ8000 DNA Analysis System, or the ABI Big Dye™ Terminator Cycle Sequencing kit and ABI DNA sequencer (Perkin Elmer™). The resulting 21 sequences ranged in length from 323 to 634 bp and were submitted to GenBank® (Accession numbers: DQ079030–DQ079050). In cases (n=4) where sequences from multiple clones with identical ARDRA patterns were compared, pairwise analysis revealed no nucleotide differences over the region that had been sequenced (ranging from 250 to 495 bp).
We used the BLAST algorithm to identify related sequences from the GenBank® database (Altschul et al. 1990). BLAST searches were conducted with all sequenced clones, and preliminary taxonomic assignments were based on results from GenBank®. Sequences were checked for possible chimeric origins using the CHECK_CHIMERA software available through the Ribosomal Database Project.
Rarefaction and phylogenetic analysis
The extent of diversity in the clone libraries was estimated by rarefaction analysis of ARDRA profiles using the algorithm of Hurlbert (1971) and Heck et al. (1975) as implemented in the program Analytic Rarefaction 1.3. Resulting curves allowed for comparison of taxon richness between seawater and the C. nucula-associated microbial community. We focused our phylogenetic examination on unique sequences that consistently retrieved sponge-specific symbionts during BLAST searches. Phylogenetic relationships were inferred for symbiont sequences using distance and maximum likelihood (ML) methods. Sequences were aligned using ClustalW employing default parameters (Thompson et al. 1994). PAUP* 4.0b8 (Swofford 1999) was used to estimate bootstrap support for distance trees using a full heuristic search method and TBR branch swapping algorithm. Initial trees were obtained using neighbor joining. For ML analysis, models of sequence evolution that best fit the data were chosen based on results from Modeltest (v3.06, Posada and Crandall 1998). TreeFinder (Jobb 2004) was used to estimate ML trees and their corresponding bootstrap support. Bootstrap analyses for both the distance and ML trees involved 1,000 replicates. Sponge symbionts from distant taxonomic groups were chosen as outgroups for all analyses.
Geographic analysis
We compiled data from a number of studies that had examined sponge symbiont diversity to compare trends in taxonomic composition of sponge microbial diversity across large geographic distances. Criteria for inclusion in this study were that authors attempted extensive community surveys through the construction of 16S rDNA libraries. Sequences were obtained from published reports from multiple regions of the world’s oceans (including cold-temperate and subtropical North Atlantic, Mediterranean, Red Sea, subtropical and tropical Pacific, and the Southern Ocean). Taxonomic groupings were assigned based on published results or were estimated from consensus BLAST surveys. The relative percentage of a particular taxon within the library was estimated by dividing the number of taxa belonging to a particular bacterial phylum by the total number of unique clones obtained in that study.
Results
Taxon richness
ARDRA profiles indicated that a diverse community of bacterial species exists in C. nucula collected from a mangrove channel in Lower Matecumbe Key, Florida Keys, Florida. The clone library contained 21 operational taxonomic units (OTUs) (i.e., distinct ARDRA patterns) and the seawater library contained 53 OTUs. These OTUs were used in subsequent rarefaction analysis. The sponge microbial community was distinct from the bacterial community sampled from the ambient seawater given that none of the 21 OTUs from C. nucula were found in the seawater. Rarefaction analysis indicated that the sponge community had lower taxon richness than ambient seawater bacterial communities (Fig. 1). Although the C. nucula curve lay below the seawater curve, there was substantial overlap of the 95% confidence intervals (Fig. 1). Because extrapolation based on rarefaction analysis is an unreliable and inappropriate method for estimating total species richness (Gotelli and Colwell 2001); we could not estimate the total number of taxa that might be expected in the sponge or water column. However, it appears that >20 taxa of bacteria were present in the C. nucula tissues and >50 taxa in the water column at the time of sampling in 1999 (Fig. 1).
Phylogenetic analysis
Partial 16S rDNA sequences were obtained for clones with unique ARDRA patterns. Of the 21 sequences obtained, five C. nucula clones consistently retrieved other sponge microbial symbionts during BLAST searches, and we focused our analysis on these sequences. The most commonly encountered sequences came from microbes harbored by sponges in the Indo-Pacific, Red Sea, and Mediterranean (Hentschel et al. 2002). The data presented here include representatives from the Acidobacteria, Bacteroidetes, Cyanobacteria, and the γ-Proteobacteria.
The Acidobacteria clones in this survey (Cnuc8 and Cnuc56) fell within strongly supported clades entirely occupied by other sponge symbionts (Fig. 2a, b). Cnuc8 and Cnuc56 sequences aligned with different regions of the 16S gene, so it was not possible to compare both in the same phylogeny. Our analysis provided robust support for the Acidobacteria clusters (Acido-I, Acido-II, and Acido-III) of Hentschel et al. (2002). The monophyletic clade that included Cnuc8 (Fig. 2a) was comprised of sponges from tropical and subtropical regions as well as sponges from shallow- and deep-water habitats (e.g., Scleritoderma sp.). This well-supported clade includes many of the acidobacterial symbionts belonging to the Acido-I group. The monophyletic clade that included Cnuc56 included sponges from the Mediterranean and tropical Pacific, which belong to the Acido-III group (Fig. 2b). The sponge-specific Acido-II group was placed in a clade that included novel, geographically widespread soil microbiota (Kuske et al. 1997), but no C. nucula microbes isolated in this study belonged to this group.
One of the Bacteroidetes identified in our surveys (Cnuc9) was placed in a strongly supported monophyletic clade that included other sponge-specific bacteroids (Fig. 3). These bacterial representatives were collected from hosts living in the Red Sea, Mediterranean, and Pacific Oceans. This clade also included R. marinus, which is associated with the dinoflagellate Peridinium sp. (according to GenBank® data). Thus, Bacteroidetes that appear to be associated with a host organism (sponge or perhaps protistan) clustered in our analysis while free-living bacteroids fell outside of the symbiont-specific clade (Fig. 3).
The cyanobacterial symbiont isolated in our survey (Cnuc6) was placed near cyanobacterial species isolated from Theonella swinhoei of the tropical Indo-Pacific (Fig. 4). Bootstrap support for this placement was ≈80%. Several other cyanobacterial sponge symbionts fell outside of this clade, and did not cluster together in our analysis.
There were few sponge-specific clusters in the phylogenetic analysis of γ-Proteobacteria sequences (Fig. 5). Cnuc2 retrieved bacterial symbionts from two sponge species from Woods Hole, Massachusetts in the northwest Atlantic during BLAST searches. Phylogenetic analysis based on the distance optimality criterion indicated a potential grouping of Cnuc2 with two microbes isolated from Microciona prolifera and Suberites domuncula (Fig. 5). A free-living microbe found in a Georgia salt marsh of the southeastern US was included in this analysis. The ML analysis separated each of these sequences creating a polytomy. Another sponge-specific lineage was identified that included sponges from Palau, the Mediterranean, and Red Sea.
Geographic distribution of major sponge symbiont lineages
The diversity of microbes harbored by sponges living in different oceans is impressive (Table 1). Although limited to the examination of single sponge samples (due to the high cost associated with these survey efforts), some interesting trends were observed when the relative proportion of different taxonomic groups were compared. Only the polar sponges were associated with Firmicutes and Planctomyces, and it is important to note that up to one-third of the bacterial community for two of the Antarctic sponges were of uncertain taxonomic affiliation (Table 1). Spirochaetes were only found in Aplysina aerophoba and C. nucula of the Mediterranean and subtropical Atlantic, respectively. The γ-Proteobacteria were found in all sponges examined and represented from 2 to 86% of the clone library (Table 1). The Bacteroidetes and α-Proteobacteria were also major representatives of the libraries examined (92 and 83% respectively). These three groups represented from 56 to 100% of the microbial community in polar (Southern Ocean) and cold-temperate (Halichondria panicea) sponges but only 2–62% for subtropical and tropical sponges. This difference was due in part to the fact that the polar and cold-temperate sponges did not harbor several groups that were found in warm-temperate and tropical sponges (Table 1). Indeed, the Acidobacteria, δ-Proteobacteria, Chloroflexi, Cyanobacteria, and Nitrospira were only detected in libraries constructed for warm water sponges.
Discussion
We uncovered substantial diversity in the bacteria associated with C. nucula collected in the Florida Keys, Florida that was comparable to the diversity found in other marine sponges. Our data, and those of other studies, provide a framework for future studies of the role these diverse microbes play in the ecology, evolution, and development of marine sponges. Our data also provide support for the hypothesis that several species of marine sponges (separated by large geographic distances and habitat differences) harbor closely related microbial symbionts, which may be specialized for exploiting the intra-sponge habitat.
A greater number of OTUs were identified in Florida water samples than in the symbiont community associated with C. nucula. Neither curve approached a plateau indicating that the full bacterial diversity has yet to be determined [see caveats for rarefaction analysis in Gotelli and Colwell (2001)]. The intra-sponge habitat and ambient seawater may contain taxonomically distinct species assemblages that would be sampled with different thoroughness, given the PCR-based strategy employed in this survey. An important future objective in assessing the microbial species richness present in C. nucula is to examine the temporal and spatial stability of the association using a combination of bacterial primers. Evidence from Cymbastela concentrica, which ranges through temperate and tropical waters of Australia, indicates that changes in microbial symbiont communities can occur (Taylor et al. 2004, 2005).
Two C. nucula sequences (Cnuc8 and Cnuc56) clearly belong to well-supported, sponge-specific lineages within the Acidobacteria. These putative sponge specialists have been found in hosts living in Indo-Pacific, Mediterranean, Red Sea, and Caribbean waters. These sponge specialists are not restricted to shallow water hosts since the deep-sea Scleritoderma spp. harbor Acido-I symbionts (Olson and McCarthy 2005). It is interesting to note that the sister taxa to the Acido-II group include ecologically important soil microbes with a wide geographic distribution. The physiological characteristics of this group deserve greater attention to determine what properties allow for successful invasion of such apparently dissimilar habitats.
A potential sponge-specific lineage, belonging to the Bacteroidetes, was also identified for one C. nucula clone (Cnuc9) but the clade was not entirely sponge-specific. R. marinus, which is typically associated with a dinoflagellate, was also included in the clade. Whether this represents a Bacteroidetes lineage specialized for occupying host tissues (poriferan or protistan) deserves additional attention, but there appears to be a bias in this lineage for existing in sponge tissues. The Bacteroidetes contain species that range from pathogens to commensals and they often have unusual physiological capabilities (e.g., lipid metabolism). Of particular note is the recent finding that Bacteroidetes are involved in generating reproductive (i.e., cytoplasmic) incompatibilities in a parasitoid wasp (Hunter et al. 2003). Whether these microbes play a role in the evolution of their poriferan hosts by erecting species boundaries is worthy of future research.
Recent work on the cyanobacterial symbionts of marine sponges has yielded interesting findings (Usher et al. 2004a, b; Steindler et al. 2005). It appears that sponges host at least four distinct, but closely related, species of Synechococcus (but see Steindler et al. 2005). It is not clear from our analysis to which group the Cnuc6 sequence might belong. C. nucula has been assumed to harbor Aphanocapsa feldmannii (e.g., Wilkinson 1980), but the true species status of the cyanobacterium associated with C. nucula at our site remains unknown. Our sequences did not cover the same region of 16S rDNA as many of the sequences available in GenBank®, so we could only focus on the sequences shown in Fig. 4. However, our sequence aligns most closely aligned with representatives of the group 6 Synechococcus reported in Honda et al. (1999). A number of cyanobacterial sequences from the Caribbean have recently been published in GenBank®, and the analysis of these sequences will answer several questions about the relationships between and among the Caribbean, Pacific, Red Sea, and Mediterranean cyanobacteria that have been identified thus far (Steindler et al. 2005).
Our data resolve little regarding the specificity of γ-Proteobacteria associated with sponges. Cnuc2 was similar to microbes isolated from temperate sponges of the western North Atlantic. Support for this clade was relatively low, and a free-living bacterium isolated from salt marshes of Georgia was included in this branch. None of the other γ-Proteobacteria isolated from sponges created a robust grouping, but symbionts from Palau, the Mediterranean, and Red Sea did cluster together. A relatively robust clade with endosymbionts from shallow water mollusks and deep-sea vestimentiferans was identified (Fig. 5). The γ-Proteobacteria may represent an opportunistic and generalist group of bacteria with limited specificity for a particular host (e.g., whale-, coral-, and seagrass-associated microbes). Several of the γ-Proteobacteria, however, have interesting physiological capabilities (e.g., sulfur metabolism) that may benefit their hosts.
It is important to keep in mind that the data shown in Table 1 are relative frequencies of bacterial types isolated from clone libraries. Whether the PCR-based strategy employed here accurately reflects species richness remains to be seen, but implementation of hybridization techniques (e.g., Friedrich et al. 1999; Webster et al. 2001b; Fieseler et al. 2004) has already begun to clarify our understanding of the relative abundance and spatial location of some of the sponge-specific symbionts. However, several interesting trends were observed in this study. Bacterial communities harbored by polar, and to some extent cold-temperate, sponges appear to be distinct from those harbored by subtropical or tropical sponges. Webster et al. (2004), however, found one α-Proteobacterial symbiont from tropical Rhopaloides odorabile that clustered with symbionts from Antarctic sponges, and in this regard, the placement of Cnuc2 next to temperate North Atlantic sponges is intriguing. Taylor et al. (2004) found similar symbionts residing in temperate sponges of Australia and warmer water sponges such as T. swinhoei.
It is somewhat surprising that δ-Proteobacteria, Chloroflexi, Cyanobacteria, and Nitrospira were not detected in the T. swinhoei collected in the Red Sea, despite their relative commonness in T. swinhoei from Japan and Palau. It would be worthwhile exploring why Acidobacteria, δ-Proteobacteria, Chloroflexi, Cyanobacteria, and Nitrospira have not been detected in polar and cold-temperate sponges, and why Firmicutes and Planctomyces have not been found in tropical and subtropical sponges (but see Pimentel-Elardo et al. 2003). It is important to determine whether the distribution of sponge specialist bacteria is more strongly influenced by properties of the host or environmental conditions. C. nucula is a perfect case study for this question because Atlantic populations of this sponge are considered to consist of multiple cryptic species (Klautau et al. 1999; see Usher et al. 2004a, b for Australian species of Chondrilla). Any differences or similarities between and among the bacterial symbionts harbored by these sponges would provide insights into forces that structure these communities.
Our data support the hypothesis that some subset of the bacterial community harbored by marine sponges is uniform (sensu Hentschel et al. 2002) across large geographic distances, which indicates these are ancient symbioses. The interaction between the host sponge and members of its symbiont community is likely to have important ecological and evolutionary ramifications (e.g., Wilkinson 1987; Margot et al. 2002; Piel et al. 2004). Many sponges studied to date are broadcast spawners (e.g., C. nucula) and may require some level of reinfection each generation. However, several studies have demonstrated vertical transmission of microbes into gametes and larvae regardless of sponge reproductive mode or type of bacterial symbiont (e.g., Kaye 1991; Gaino and Sara 1994; Sciscioli et al. 1994; Usher et al. 2001). Indeed, the host sponge may control the composition of the microbial community in their offspring through a series of complicated interactions between the oocytes and nurse cells that attach to the developing eggs (Usher et al. 2001). If this is so, the high degree of similarity among different individuals of the same species might be explained by a surprising degree of control by the host sponge over the types of microbes that persist in its tissues. The majority of sponges are bactivorous so the presence of substantial microbial populations in their tissues indicates some degree of selectivity and regulation by the host. Complicated cell recognition pathways must exist, given the high degree of diversity within the sponge (e.g., Pimentel-Elardo et al. 2003). Identifying and describing the mechanisms by which this discernment is achieved is an important goal. The diversity uncovered in this and other studies provides an opportunity to address these and other important questions.
References
Altschul SF, W Gish W Miller EW Myers DJ Lipman (1990) Basic local alignment search tool. J Mol Biol 215:403–410
Amann R, Ludwig R, Schleifer KH (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59:143–169
Bull AT, Goodfellow M, Slater JH (1992) Biodiversity as a source of innovation in biotechnology. Ann Rev Microbiol 46:219–252
Corredor JE, Wilkinson CR, Vicente VP, Morell JM, Otero E (1988) Nitrate release by Caribbean reef sponges. Limnol Oceanogr 33:114–120
Fieseler L, Horn M, Wagner M, Hentschel U (2004) Discovery of the novel candidate phylum “Poribacteria” in marine sponges. Appl Environ Microbiol 70:3724–3732
Friedrich AB, Merkert H, Fendert T, Hacker J, Proksch P, Hentschel U (1999) Microbial diversity in the marine sponge Aplysina cavernicola (formerly Verongia cavernicola) analyzed by fluorescence in situ hybridization. Mar Biol 134:461–470
Friedrich AB, Fischer I, Proksch P, Hacker J, Hentschel U (2001) Temporal variation of the microbial community associated with the Mediterranean sponge Aplysina aerophoba. FEMS Microbiol Ecol 38:105–113
Gaino E, Sara M (1994) An ultrastructural comparative study of the eggs of two species of Tethya (Porifera, Demospongiae). Invert Reprod Dev 26:99–106
Gotelli NJ, Colwell RK (2001) Quantifying biodiversity: procedures and pitfalls in the measurement and comparison of species richness. Ecol Lett 4:379–391
Heck KL, Van Belle G, Simberloff D (1975) Explicit calculation of the rarefaction diversity measurement and the determination of sufficient sample size. Ecology 56:1459–1461
Hentschel U, Hopke J, Horn M, Friedrich AB, Wagner M, Hacker J, Moore BS (2002) Molecular evidence for a uniform microbial community in sponges from different oceans. Appl Environ Microbiol 68:4431–4440
Hentschel U, Fieseler L, Wehrl M, Gernert C, Steinert M, Hacker J, Horn M (2003) Microbial diversity of marine sponges. In: Muller WEG (eds) Molecular marine biology of sponges. Springer, Berlin Heidelberg New York, pp 60–88
Hill MS (1998) Spongivory on Caribbean reefs releases corals from competition from sponges. Oecologia 117:143–150
Hill RT (2004) Microbes from marine sponges: A treasure trove of biodiversity for natural products discovery. In: Bull AT (ed) Microbial diversity and bioprospecting. ASM Press, Washington DC, pp. 177–190
Honda D, Yokota A, Sugiyama J (1999) Detection of seven major evolutionary lineages in Cyanobacteria based on the 16S rRNA gene sequence analysis with new sequences of five marine Synechococcus Strains. J Mol Evol 48:723–739
Hunter MS, Perlman SJ, Kelly SE (2003) A bacterial symbiont in the Bacteroidetes induces cytoplasmic incompatitiblity in the parasitoid wasp Encarsia pergandiella. Proc Roy Soc Lond B 270:2185–2190
Hurlbert SH (1971) The nonconcept of species diversity: a critique and alternative parameters. Ecology 52:577–586
Jobb G (2004) TREEFINDER version of December 2004. Munich, Germany. (Distributed at http://www.treefinder.de)
Kaye HR (1991) Sexual reproduction in four Caribbean commercial sponges: II. Oogenesis and transfer of bacterial symbionts. Invert Reprod Dev 19:13–24
Klautau M, Russo CAM, Lazoski C, Boury-Esnault N, Thorpe JP, Solé-Cava AM (1999) Does cosmopolitanism result from overconservative systematics? A case study using the marine sponge Chondrilla nucula. Evolution 53:1414–1422
Kuske CR, Barns SM, Busch JD (1997) Diverse uncultivated bacterial groups from soils of the arid southwestern United States that are present in many geographic regions. Appl Environ Microbiol 63:3614–3621
Lee YK, Lee JH, Lee HK (2001) Microbial symbiosis in marine sponges. J Microbiol 39:254–265
Margot H, Acebal C, Toril E, Amils R, Fernandez Puentes JL (2002) Consistent association of crenarchaeal Archaea with sponges of the genus Axinella. Mar Biol 140:739–745
Olson JB, McCarthy PJ (2005) Associated bacterial communities of two deep-water sponges. Aquat Microb Ecol 39:47–55
Piel J, Hui D, Wen G, Butzke D, Platzer M, Fusetani N, Matsunaga S (2004) Antitumor polyketide biosynthesis by an uncultivated bacterial symbiont of the marine sponge Theonella swinhoei. Proc Natl Acad Sci 101:16222–16227
Pimentel-Elardo S, Wherl M, Friedrich AB, Jensen PR, Hentschel U (2003) Isolation of planctomycetes from Aplysina sponges. Aquat Microb Ecol 33: 239–245
Posada D, Crandall KA (1998) Modeltest: testing the model of DNA substitution. Bioinformatics 14:817–818
Santavy DL, Colwell RR (1990) Comparison of bacterial communities associated with the Caribbean sclerosponge Ceratoporella nicholsoni and ambient seawater. Mar Ecol Prog Ser 67:73–82
Santavy DL, Willenz P, Colwell RR (1990) Phenotypic study of bacteria associated with the Caribbean sclerosponge Ceratoporella nicholsoni. Appl Environ Microbiol 56:1750–1762
Sciscioli M, Lepore E, Gherardi M, Scalera Liaci L (1994) Transfer of symbiotic bacteria in the mature oocyte of Geodia cydonium (Porifera, Demospongiae): an ultrastructural study. Cah Biol Mar 35:471–478
Steindler L, Huchon D, Avni A, Ilan M (2005) 16S rRNA phylogeny of sponge-associated cyanobacteria. Appl Environ Microbiol 71:4127–4131
Swofford DL (1999) PAUP* Phylogenetic Analysis Using Parsimony (*and Other Methods). Version 4. Sinauer Associates, Sunderland, Massachusetts
Taylor MW, Schupp PJ, Dahllöf I, Kjelleberg S, Seinberg PD (2004) Host specificity in marine sponge-associated bacteria, and potential implications for marine microbial diversity. Environ Micriobiol 6:121–130
Taylor MW, Schupp PJ, de Nys R, Kjelleberg S, Steinberg PD (2005) Biogeography of bacteria associated with the marine sponge Cymbastela concentrica. Environ Microbiol 7:419–433
Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTALW: improving the sensitivity of progressive multiple-sequence alignment through sequence weighting, position-specific gap penalties, and weight matrix choice. Nucleic Acids Res 22:4673–4680
Tsai YL, Olson BH (1991) Rapid method for direct extraction of DNA from soil and sediments. Appl Environ Microbiol 57:1070–1074
Usher KM, Kuo J, Fromont J, Sutton DC (2001) Vertical transmission of cyanobacterial symbionts in the marine sponge Chondrilla nucula (Demospongiae). Hydrobiologia 461:15–23
Usher KM, Sutton DC, Toze S, Kuo J, Fromont J (2004a) Biogeography and phylogeny of Chondrilla species (Demospongiae) in Australia. Mar Ecol Prog Ser 270:117–127
Usher KM, Fromont J, Sutton DC, Toze S (2004b) The biogeography and phylogeny of unicellular cyanobacterial symbionts in sponges from Australia and the Mediterranean. Microb Ecol 48:167–177
Vacelet J (1975) Etude en microscopie electronique de l’association entre bacteries et spongiaires du genre Verongia (Dictyoceratida). J Microsc Biol Cell 23:271–288
Webster NS, Wilson KJ, Blackall LL, Hill RT (2001a) Phylogenetic diversity of bacteria associated with the marine sponge Rhopaloeides odorabile. Appl Environ Microbiol 67:434–444
Webster NS, Watts JEM, Hill RT (2001b) Detection and phylogenetic analysis of novel crenarchaeote and euryarcheote 16S ribosomal RNA gene sequences from a Great Barrier Reef sponge. Mar Biotechnol 3:600–608
Webster NS, Negri AP, Munro MMHG, Battershill CN (2004) Diverse microbial communities inhabit Antarctic sponges. Environ Microbiol 6:288–300
Weisburg WG, Barns SM, Pelletier DA, Lane DJ (1991) 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173:697–703
Wilkinson CR (1978) Microbial associations in sponges. I. Ecology, physiology and microbial populations of coral reef sponges. Mar Biol 49:161–167
Wilkinson CR (1980) Cyanobacteria symbiotic in marine sponges. In: Schwemmler W, Schenk HEA (eds) Endocytobiology, Vol. I. Walter de Gruyter, Berlin, pp. 553–563
Wilkinson CR (1987) Significance of microbial symbionts in sponge evolution and ecology. Symbiosis 4:135–146
Wilkinson CR, Nowak M, Austin B, Colwell RR (1981) Specificity of bacterial symbionts in Mediterranean and Great Barrier Reef sponges. Microb Ecol 7:13–21
Acknowledgements
Analytic Rarefaction 1.3 was produced by S. Holland and is available at http://www.uga.edu/~strata/Software.html. N. Lemoine assisted with collection of data presented in Table 1. D. Bickhart, J. Tetrault, S. Griswald, N. Sparling, J. Torp, and T. Girard assisted with the acquisition of microbial sequence data. T. Wilcox provided advice regarding phylogenetic analyses.
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Communicated by J.P. Grassle, New Brunswick
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Hill, M., Hill, A., Lopez, N. et al. Sponge-specific bacterial symbionts in the Caribbean sponge, Chondrilla nucula (Demospongiae, Chondrosida). Marine Biology 148, 1221–1230 (2006). https://doi.org/10.1007/s00227-005-0164-5
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DOI: https://doi.org/10.1007/s00227-005-0164-5