Pyrosequencing Characterization of the Microbiota from Atlantic Intertidal Marine Sponges Reveals High Microbial Diversity and the Lack of Co-Occurrence Patterns

Alex, Anoop; Antunes, Agostinho

doi:10.1371/journal.pone.0127455

Cited by 34 publications

(39 citation statements)

References 84 publications

(103 reference statements)

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“…In this study, 17 bacterial phyla were identified in species H. oculata and Proteobacteria was the most dominant phylum (21.7% reads). At lower taxonomic level, the classes Alphaproteobacteria and Gammaproteobacteria were less abundant in H. oculata in our study (3.04% and 6.12%, respectively) than in Atlantic sponges (12.1% and 10.6% reads, respectively), but the class Epsilonproteobacteria was much higher in H. oculata (6.1%) than in Atlantic sponges (0.2%) [20]. According to Abe et al, (2012), Gammaproteobacteria is the dominant class in Haliclona simulant and Gelliodes carnosa whereas Alphaproteobacteria is the dominant class in some other sponges such as Halichondria panicea, Rhopaloeides odorabile, and Mycale laxissima [23].…”

Section: Discussioncontrasting

confidence: 69%

“…Among 12 phyla found in Amphius huxley, the phylum Proteobacteria was the most abundant phylum (29.4% reads). Most main bacterial phyla found in A. huxleyi were also reported in other marine sponges [20][21][22].…”

Section: Discussionsupporting

confidence: 66%

“…Taxonomic assignment of 16S ribosomal RNA tag sequences estimated altogether 26 microbial groups, represented by bacterial (75.5%) and archaeal (22%) domains. Proteobacteria (43.4%) and Crenarchaeota (20.6%) were the most dominant microbial groups detected in all the 12 marine sponge species and ambient seawater [20]. In our study, three kingdoms including bacteria, Archaea and viruses were detected in both sponge species, in which bacteria were most abundant (99.07% reads), followed by viruses (0.48% reads) and Archaea (0.21% reads).…”

Section: Discussionsupporting

confidence: 47%

“…Recently, metagenomic approaches have been widely used in assessing the diversity of spongeassociated microbes [17][18][19][20]. For example, Alex et al, (2015) [20] used the pyrosequencing for characterization of microbial communities in 12 different cooccurring intertidal marine sponge species sampled from the Atlantic coast. Taxonomic assignment of 16S ribosomal RNA tag sequences estimated altogether 26 microbial groups, represented by bacterial (75.5%) and archaeal (22%) domains.…”

Section: Discussionmentioning

confidence: 99%

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BIODIVERSITY ASSESSMENT OF MICROORGANISMS ASSOCIATED WITH TWO MARINE SPONGES (Haliclona oculata AND Amphius huxleyi) COLLECTED AT THE LANG CO BAY OF VIETNAM

Dat

Cường

Dung

et al. 2018

JMST

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Sponges (Phylum Porifera) are ancient sedentary and filter-feeding animals which harbour very diverse and abundant associated microbial community in their tissues with density up to 40-50% of sponge tissue volume. In this study, the diversity of associated microorganisms with two marine sponges Haliclona oculata and Amphius huxleyi collected at the Lang Co bay of Vietnam was assessed by analysis of hypervariable V3 and V4 regions of the 16S rRNA gene using Illumina MiSeq system. The taxonomic diversity of sponge-associated microorganisms was classified to different taxonomic levels (kingdom, phylum, class, order, family, and genus). Based on Bayesian classification method and reference sequences derived from Greengenes database, the associated microorganisms in studied sponges were assigned to 17 phyla (H. oculata) and 13 phyla (A. huxleyi). Many microbial taxa were detected in two sponge species, however, they were distinctive by the abundance. Proteobacteria was the most dominant phylum in both sponge species, and all of 4 classes Epsilonproteobacteria, Gammaproteobacteria, Alphaproteobacteria, and Deltaproteobacteria were found in H. oculata and A. huxleyi.

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Section: Discussioncontrasting

confidence: 69%

Section: Discussionsupporting

confidence: 66%

Section: Discussionsupporting

confidence: 47%

Section: Discussionmentioning

confidence: 99%

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BIODIVERSITY ASSESSMENT OF MICROORGANISMS ASSOCIATED WITH TWO MARINE SPONGES (Haliclona oculata AND Amphius huxleyi) COLLECTED AT THE LANG CO BAY OF VIETNAM

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Cường

Dung

et al. 2018

JMST

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“…In addition, the phyla Planctomycetes, Cyanobacteria, and Deferribacteres were common members of the H. heliophila microbiome. A recent investigation of bacterial communities in 12 intertidal sponges also reported Proteobacteria, Planctomycetes, and Cyanobacteria to be the most abundant phyla (49). While Proteobacteria is commonly the most abundant sponge-associated microbial phylum (11,12), it is worth noting that Planctomycetes and Cyanobacteria seem to be particularly abundant in intertidal sponges.…”

Section: Discussionmentioning

confidence: 98%

Intraspecific Variation in Microbial Symbiont Communities of the Sun Sponge, Hymeniacidonheliophila, from Intertidal and Subtidal Habitats

Weigel

Erwin

2016

Appl Environ Microbiol

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Sponges host diverse and complex communities of microbial symbionts that display a high degree of host specificity. The microbiomes of conspecific sponges are relatively constant, even across distant locations, yet few studies have directly examined the influence of abiotic factors on intraspecific variation in sponge microbial community structure. The contrast between intertidal and subtidal environments is an ideal system to assess the effect of environmental variation on sponge-microbe symbioses, producing two drastically different environments on a small spatial scale. Here, we characterized the microbial communities of individual intertidal and subtidal Hymeniacidon heliophila sponges, ambient seawater, and sediment from a North Carolina oyster reef habitat by partial (Illumina sequencing) and nearly full-length (clone libraries) 16S rRNA gene sequence analyses. Clone library sequences were compared to H. heliophila symbiont communities from the Gulf of Mexico and Brazil, revealing strong host specificity of dominant symbiont taxa across expansive geographic distances. Sediment and seawater samples yielded clearly distinct microbial communities from those found in H. heliophila. Despite the close proximity of the sponges sampled, significant differences between subtidal and intertidal sponges in the diversity, structure, and composition of their microbial communities were detected. Differences were driven by changes in the relative abundance of a few dominant microbial symbiont taxa, as well as the presence or absence of numerous rare microbial taxa. These findings suggest that extreme abiotic fluctuations, such as periodic air exposure in intertidal habitats, can drive intraspecific differences in complex host-microbe symbioses. Sponges form ancient symbioses (as described in reference 1) with a great diversity of bacterial, archaeal, and eukaryotic microorganisms (1, 2). Most of these microbial symbionts elude cultivation (3); thus, culture-independent techniques such as next-generation DNA sequencing are necessary to elucidate the immense diversity of microbial communities in marine sponges. For example, the sponge Rhopaloeides odorabile hosts nearly 3,000 unique microbial taxa (4). Symbiotic microbes can constitute up to 40% of the sponge mesohyl volume (5) and perform a variety of ecological functions in the host sponge (6). Sponge-associated microbial symbionts may play roles in the nutrient acquisition, chemical defense production, antifouling activity, and disease susceptibility of host sponges (1, 7). Despite the ubiquity of microbial symbionts in sponges, much is still unknown about their structure and ecological function.Sponges host microbial communities that are distinct from those found in seawater and exhibit a high degree of host specificity (4, 8, 9), even between closely related sponge species (10). Determining what structures these symbiotic communities is a current research priority, because it will provide insight into the maintenance of one of the most ancient metazoan-microbial symbio...

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Keeping it in the family: Coevolution of latrunculid sponges and their dominant bacterial symbionts

et al. 2016

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The Latrunculiidae are a family of cold water sponges known for their production of bioactive pyrroloiminoquinone alkaloids. Previously it was shown that the bacterial community associated with a Tsitsikamma sponge species comprises unusual bacterial taxa and is dominated by a novel Betaproteobacterium. Here, we have characterized the bacterial communities associated with six latrunculid species representing three genera (Tsitsikamma, Cyclacanthia, and Latrunculia) as well as a Mycale species, collected from Algoa Bay on the South African southeast coast. The bacterial communities of all seven sponge species were dominated by a single Betaproteobacterium operational taxonomic unit (OTU 0.03), while a second OTU 0.03 was dominant in the Mycale sp. The Betaproteobacteria OTUs from the different latrunculid sponges are closely related and their phylogenetic relationship follows that of their hosts. We propose that the latrunculid Betaproteobacteria OTUs are members of a specialized group of sponge symbionts that may have coevolved with their hosts. A single dominant Spirochaetae OTU 0.03 was present in the Tsitsikamma and Cyclacanthia sponge species, but absent from the Latrunculia and Mycale sponges. This study sheds new light on the interactions between latrunculid sponges and their bacterial communities and may point to the potential involvement of dominant symbionts in the biosynthesis of the bioactive secondary metabolites.

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Pyrosequencing Characterization of the Microbiota from Atlantic Intertidal Marine Sponges Reveals High Microbial Diversity and the Lack of Co-Occurrence Patterns

Cited by 34 publications

References 84 publications

BIODIVERSITY ASSESSMENT OF MICROORGANISMS ASSOCIATED WITH TWO MARINE SPONGES (Haliclona oculata AND Amphius huxleyi) COLLECTED AT THE LANG CO BAY OF VIETNAM

BIODIVERSITY ASSESSMENT OF MICROORGANISMS ASSOCIATED WITH TWO MARINE SPONGES (Haliclona oculata AND Amphius huxleyi) COLLECTED AT THE LANG CO BAY OF VIETNAM

Intraspecific Variation in Microbial Symbiont Communities of the Sun Sponge, Hymeniacidonheliophila, from Intertidal and Subtidal Habitats

Keeping it in the family: Coevolution of latrunculid sponges and their dominant bacterial symbionts

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