@ARTICLE{Li2024-yr, title = {Arcobacteraceae are ubiquitous mixotrophic bacteria playing important roles in carbon, nitrogen, and sulfur cycling in global oceans}, author = {Li, Jianyang and Xiang, Shizheng and Li, Yufei and Cheng, Ruolin and Lai, Qiliang and Wang, Liping and Li, Guizhen and Dong, Chunming and Shao, Zongze}, journaltitle = {mSystems}, publisher = {American Society for Microbiology}, volume = {9}, issue = {7}, pages = {e0051324}, date = {2024-07-23}, doi = {10.1128/msystems.00513-24}, abstract = {Mixotrophy is an important trophic strategy for bacterial survival in the ocean. However, the global relevance and identity of the major mixotrophic taxa remain largely elusive. Here, we combined phylogenetic, metagenomic, and metatranscriptomic analyses to characterize ubiquitous Arcobacteraceae based on our deep-sea in situ incubations and the global data. The phylogenomic tree of Arcobacteraceae is divided into three large clades, among which members of clades A and B are almost all from terrestrial environments, while those of clade C are widely distributed in various marine habitats in addition to some terrestrial origins. All clades harbor genes putatively involved in chitin degradation, sulfide oxidation, hydrogen oxidation, thiosulfate oxidation, denitrification, dissimilatory nitrate reduction to ammonium, microaerophilic respiration, and metal (iron/manganese) reduction. Additionally, in clade C, more unique pathways were retrieved, including thiosulfate disproportionation, ethanol fermentation, methane oxidation, fatty acid oxidation, cobalamin synthesis, and dissimilatory reductions of sulfate, perchlorate, and arsenate. Within this clade, two mixotrophic Candidatus genera represented by UBA6211 and CAIJNA01 harbor genes putatively involved in the reverse tricarboxylic acid pathway for carbon fixation. Moreover, the metatranscriptomic data in deep-sea in situ incubations indicated that the latter genus is a mixotroph that conducts carbon fixation by coupling sulfur oxidation and denitrification and metabolizing organic matter. Furthermore, global metatranscriptomic data confirmed the ubiquitous distribution and global relevance of Arcobacteraceae in the expression of those corresponding genes across all oceanic regions and depths. Overall, these results highlight the contribution of previously unrecognized Arcobacteraceae to carbon, nitrogen, and sulfur cycling in global oceans.IMPORTANCEMarine microorganisms exert a profound influence on global carbon cycling and ecological relationships. Mixotrophy, characterized by the simultaneous utilization of both autotrophic and heterotrophic nutrition, has a significant impact on the global carbon cycling. This report characterizes a group of uncultivated bacteria Arcobacteraceae that thrived on the "hot time" of bulky particulate organic matter and exhibited mixotrophic strategy during the in situ organic mineralization. Compared with clades A and B, more unique metabolic pathways were retrieved in clade C, including the reverse tricarboxylic acid pathway for carbon fixation, thiosulfate disproportionation, methane oxidation, and fatty acid oxidation. Global metatranscriptomic data from the Tara Oceans expeditions confirmed the ubiquitous distribution and extensive transcriptional activity of Arcobacteraceae with the expression of genes putatively involved in carbon fixation, methane oxidation, multiple sulfur compound oxidation, and denitrification across all oceanic regions and depths.}, url = {http://dx.doi.org/10.1128/msystems.00513-24}, urldate = {2025-05-05}, keywords = {Arcobacteraceae; carbon fixation; denitrification; methane oxidation; mixotrophy; sulfur oxidation;microbiome}, language = {en} } @ARTICLE{Klein2021-jj, title = {Common Environmental Pollutants Negatively Affect Development and Regeneration in the Sea Anemone Nematostella vectensis Holobiont}, author = {Klein, Sylvia and Frazier, Victoria and Readdean, Timothy and Lucas, Emily and Diaz-Jimenez, Erica P and Sogin, Mitchell and Ruff, Emil S and Echeverri, Karen}, journaltitle = {Frontiers in ecology and evolution}, volume = {9}, pages = {786037}, date = {2021-12-23}, doi = {10.3389/fevo.2021.786037}, abstract = {The anthozoan sea anemone Nematostella vectensis belongs to the phylum of cnidarians which also includes jellyfish and corals. Nematostella are native to United States East Coast marsh lands, where they constantly adapt to changes in salinity, temperature, oxygen concentration and pH. Its natural ability to continually acclimate to changing environments coupled with its genetic tractability render Nematostella a powerful model organism in which to study the effects of common pollutants on the natural development of these animals. Potassium nitrate, commonly used in fertilizers, and Phthalates, a component of plastics are frequent environmental stressors found in coastal and marsh waters. Here we present data showing how early exposure to these pollutants lead to dramatic defects in development of the embryos and eventual mortality possibly due to defects in feeding ability. Additionally, we examined the microbiome of the animals and identified shifts in the microbial community that correlated with the type of water that was used to grow the animals, and with their exposure to pollutants.}, url = {https://www.frontiersin.org/articles/10.3389/fevo.2021.786037/full}, urldate = {2023-08-28}, keywords = { microbiome;anemone-leachate-heat/anemones;anemone-leachate-heat/microbiome;anemone-leachate-heat;Import Apr 1}, language = {en} } @ARTICLE{Ziegler2017-li, title = {Bacterial community dynamics are linked to patterns of coral heat tolerance}, author = {Ziegler, Maren and Seneca, Francois O and Yum, Lauren K and Palumbi, Stephen R and Voolstra, Christian R}, journaltitle = {Nature communications}, volume = {8}, issue = {1}, pages = {14213}, date = {2017-02-10}, doi = {10.1038/ncomms14213}, abstract = {Ocean warming threatens corals and the coral reef ecosystem. Nevertheless, corals can be adapted to their thermal environment and inherit heat tolerance across generations. In addition, the diverse microbes that associate with corals have the capacity for more rapid change, potentially aiding the adaptation of long-lived corals. Here, we show that the microbiome of reef corals is different across thermally variable habitats and changes over time when corals are reciprocally transplanted. Exposing these corals to thermal bleaching conditions changes the microbiome for heat-sensitive corals, but not for heat-tolerant corals growing in habitats with natural high heat extremes. Importantly, particular bacterial taxa predict the coral host response in a short-term heat stress experiment. Such associations could result from parallel responses of the coral and the microbial community to living at high natural temperatures. A competing hypothesis is that the microbial community and coral heat tolerance are causally linked.}, url = {https://www.nature.com/articles/ncomms14213}, urldate = {2023-08-28}, keywords = {microbiome;Import Apr 1}, language = {en} } @ARTICLE{Suggett2017-vr, title = {Symbiotic Dinoflagellate Functional Diversity Mediates Coral Survival under Ecological Crisis}, author = {Suggett, David J and Warner, Mark E and Leggat, William}, journaltitle = {Trends in ecology \& evolution}, volume = {32}, issue = {10}, pages = {735--745}, date = {2017-10-01}, doi = {10.1016/j.tree.2017.07.013}, abstract = {Coral reefs have entered an era of ‘ecological crisis’ as climate change drives catastrophic reef loss worldwide. Coral growth and stress susceptibility are regulated by their endosymbiotic dinoflagellates (genus Symbiodinium). The phylogenetic diversity of Symbiodinium frequently corresponds to patterns of coral health and survival, but knowledge of functional diversity is ultimately necessary to reconcile broader ecological success over space and time. We explore here functional traits underpinning the complex biology of Symbiodinium that spans free-living algae to coral endosymbionts. In doing so we propose a mechanistic framework integrating the primary traits of resource acquisition and utilisation as a means to explain Symbiodinium functional diversity and to resolve the role of Symbiodinium in driving the stability of coral reefs under an uncertain future.}, url = {https://www.sciencedirect.com/science/article/pii/S0169534717301908}, urldate = {2023-08-28}, keywords = {microbiome;Import Apr 1} } @ARTICLE{Bourne2016-zm, title = {Insights into the Coral Microbiome: Underpinning the Health and Resilience of Reef Ecosystems}, shorttitle = {Insights into the Coral Microbiome}, author = {Bourne, David G and Morrow, Kathleen M and Webster, Nicole S}, journaltitle = {Annual review of microbiology}, volume = {70}, issue = {1}, pages = {317--340}, date = {2016}, doi = {10.1146/annurev-micro-102215-095440}, abstract = {Corals are fundamental ecosystem engineers, creating large, intricate reefs that support diverse and abundant marine life. At the core of a healthy coral animal is a dynamic relationship with microorganisms, including a mutually beneficial symbiosis with photosynthetic dinoflagellates (Symbiodinium spp.) and enduring partnerships with an array of bacterial, archaeal, fungal, protistan, and viral associates, collectively termed the coral holobiont. The combined genomes of this coral holobiont form a coral hologenome, and genomic interactions within the hologenome ultimately define the coral phenotype. Here we integrate contemporary scientific knowledge regarding the ecological, host-specific, and environmental forces shaping the diversity, specificity, and distribution of microbial symbionts within the coral holobiont, explore physiological pathways that contribute to holobiont fitness, and describe potential mechanisms for holobiont homeostasis. Understanding the role of the microbiome in coral resilience, acclimation, and environmental adaptation is a new frontier in reef science that will require large-scale collaborative research efforts.}, url = {https://doi.org/10.1146/annurev-micro-102215-095440}, urldate = {2023-03-28}, keywords = {coral;microbiome;Import Apr 1} } @ARTICLE{Radecker2015-ar, title = {Nitrogen cycling in corals: the key to understanding holobiont functioning?}, shorttitle = {Nitrogen cycling in corals}, author = {Rädecker, Nils and Pogoreutz, Claudia and Voolstra, Christian R and Wiedenmann, Jörg and Wild, Christian}, journaltitle = {Trends in microbiology}, volume = {23}, issue = {8}, pages = {490--497}, date = {2015-08}, doi = {10.1016/j.tim.2015.03.008}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0966842X1500075X}, urldate = {2023-08-28}, keywords = {microbiome;Import Apr 1}, language = {en} } @ARTICLE{OBrien2020-vl, title = {Diverse coral reef invertebrates exhibit patterns of phylosymbiosis}, author = {O'Brien, Paul A and Tan, Shangjin and Yang, Chentao and Frade, Pedro R and Andreakis, Nikos and Smith, Hillary A and Miller, David J and Webster, Nicole S and Zhang, Guojie and Bourne, David G}, journaltitle = {The ISME journal}, volume = {14}, issue = {9}, pages = {2211--2222}, date = {2020-09}, doi = {10.1038/s41396-020-0671-x}, abstract = {Microbiome assemblages of plants and animals often show a degree of correlation with host phylogeny; an eco-evolutionary pattern known as phylosymbiosis. Using 16S rRNA gene sequencing to profile the microbiome, paired with COI, 18S rRNA and ITS1 host phylogenies, phylosymbiosis was investigated in four groups of coral reef invertebrates (scleractinian corals, octocorals, sponges and ascidians). We tested three commonly used metrics to evaluate the extent of phylosymbiosis: (a) intraspecific versus interspecific microbiome variation, (b) topological comparisons between host phylogeny and hierarchical clustering (dendrogram) of host-associated microbial communities, and (c) correlation of host phylogenetic distance with microbial community dissimilarity. In all instances, intraspecific variation in microbiome composition was significantly lower than interspecific variation. Similarly, topological congruency between host phylogeny and the associated microbial dendrogram was more significant than would be expected by chance across all groups, except when using unweighted UniFrac distance (compared with weighted UniFrac and Bray–Curtis dissimilarity). Interestingly, all but the ascidians showed a significant positive correlation between host phylogenetic distance and associated microbial dissimilarity. Our findings provide new perspectives on the diverse nature of marine phylosymbioses and the complex roles of the microbiome in the evolution of marine invertebrates.}, url = {https://www.nature.com/articles/s41396-020-0671-x}, urldate = {2022-10-11}, keywords = {microbiome;Import Apr 1}, language = {en} } @ARTICLE{Rosado2019-qp, title = {Marine probiotics: increasing coral resistance to bleaching through microbiome manipulation}, shorttitle = {Marine probiotics}, author = {Rosado, Phillipe M and Leite, Deborah C A and Duarte, Gustavo A S and Chaloub, Ricardo M and Jospin, Guillaume and Nunes da Rocha, Ulisses and P. Saraiva, João and Dini-Andreote, Francisco and Eisen, Jonathan A and Bourne, David G and Peixoto, Raquel S}, journaltitle = {The ISME journal}, volume = {13}, issue = {4}, pages = {921--936}, date = {2019-04}, doi = {10.1038/s41396-018-0323-6}, abstract = {Although the early coral reef-bleaching warning system (NOAA/USA) is established, there is no feasible treatment that can minimize temperature bleaching and/or disease impacts on corals in the field. Here, we present the first attempts to extrapolate the widespread and well-established use of bacterial consortia to protect or improve health in other organisms (e.g., humans and plants) to corals. Manipulation of the coral-associated microbiome was facilitated through addition of a consortium of native (isolated from Pocillopora damicornis and surrounding seawater) putatively beneficial microorganisms for corals (pBMCs), including five Pseudoalteromonas sp., a Halomonas taeanensis and a Cobetia marina-related species strains. The results from a controlled aquarium experiment in two temperature regimes (26 °C and 30 °C) and four treatments (pBMC; pBMC with pathogen challenge – Vibrio coralliilyticus, VC; pathogen challenge, VC; and control) revealed the ability of the pBMC consortium to partially mitigate coral bleaching. Significantly reduced coral-bleaching metrics were observed in pBMC-inoculated corals, in contrast to controls without pBMC addition, especially challenged corals, which displayed strong bleaching signs as indicated by significantly lower photopigment contents and Fv/Fm ratios. The structure of the coral microbiome community also differed between treatments and specific bioindicators were correlated with corals inoculated with pBMC (e.g., Cobetia sp.) or VC (e.g., Ruegeria sp.). Our results indicate that the microbiome in corals can be manipulated to lessen the effect of bleaching, thus helping to alleviate pathogen and temperature stresses, with the addition of BMCs representing a promising novel approach for minimizing coral mortality in the face of increasing environmental impacts.}, url = {https://www.nature.com/articles/s41396-018-0323-6}, urldate = {2022-10-11}, keywords = {microbiome;Import Apr 1}, language = {en} } @ARTICLE{OBrien2021-pj, title = {Testing cophylogeny between coral reef invertebrates and their bacterial and archaeal symbionts}, author = {O'Brien, Paul A and Andreakis, Nikos and Tan, Shangjin and Miller, David J and Webster, Nicole S and Zhang, Guojie and Bourne, David G}, journaltitle = {Molecular ecology}, volume = {30}, issue = {15}, pages = {3768--3782}, date = {2021}, doi = {10.1111/mec.16006}, abstract = {Marine invertebrates harbour a complex suite of bacterial and archaeal symbionts, a subset of which are probably linked to host health and homeostasis. Within a complex microbiome it can be difficult to tease apart beneficial or parasitic symbionts from nonessential commensal or transient microorganisms; however, one approach is to detect strong cophylogenetic patterns between microbial lineages and their respective hosts. We employed the Procrustean approach to cophylogeny (PACo) on 16S rRNA gene derived microbial community profiles paired with COI, 18S rRNA and ITS1 host phylogenies. Second, we undertook a network analysis to identify groups of microbes that were co-occurring within our host species. Across 12 coral, 10 octocoral and five sponge species, each host group and their core microbiota (50\% prevalence within host species replicates) had a significant fit to the cophylogenetic model. Independent assessment of each microbial genus and family found that bacteria and archaea affiliated to Endozoicomonadaceae, Spirochaetaceae and Nitrosopumilaceae have the strongest cophylogenetic signals. Further, local Moran's I measure of spatial autocorrelation identified 14 ASVs, including Endozoicomonadaceae and Spirochaetaceae, whose distributions were significantly clustered by host phylogeny. Four co-occurring subnetworks were identified, each of which was dominant in a different host group. Endozoicomonadaceae and Spirochaetaceae ASVs were abundant among the subnetworks, particularly one subnetwork that was exclusively comprised of these two bacterial families and dominated the octocoral microbiota. Our results disentangle key microbial interactions that occur within complex microbiomes and reveal long-standing, essential microbial symbioses in coral reef invertebrates.}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/mec.16006}, urldate = {2022-10-11}, keywords = {microbiome;Import Apr 1}, language = {en} } @ARTICLE{Ward2022-wd, title = {Microbiome Development of Seawater-Incubated Pre-production Plastic Pellets Reveals Distinct and Predictive Community Compositions}, author = {Ward, Christopher S and Diana, Zoie and Ke, Kate Meicong and Orihuela, Beatriz and Schultz, Thomas P and Rittschof, Daniel}, journaltitle = {Frontiers in marine science}, volume = {8}, date = {2022}, abstract = {Plastics of various chemistries pollute global water bodies. Toxic chemicals leach with detrimental and often unpredictable impacts on the surrounding ecosystems. We found that seawater leachates of plastic pre-production pellets from 7 recycle categories are acutely toxic to stage II barnacle nauplii; lethal concentration 50 (LC50s) were observed in 24-h leachates from dilutions ranging from 0.007 to 2.1 mg/mL of seawater. Based on previous observations that macro-organismal settlement on fouling management coatings of various toxicities can be used to predict the toxicity of the coating, we hypothesized that interaction of plastic pre-production pellets with emerging microbiomes would exhibit patterns indicative of the chemistry at the pellet surface. We used amplicon sequencing of bacterial 16S ribosomal RNA genes to characterize the microbiomes that developed from 8 through 70 days on pellets exposed to the same flowing ambient seawater. Diversity and composition of the microbiomes colonizing plastic pellets changed over time and varied with plastic type. Microbial taxa belong to taxonomic groups known to consume hydrocarbons, to be prevalent following marine oil spills, or to live on fouling management surfaces. Microbiomes were still distinct between plastic types at Day 70, suggesting that differences in the physicochemical characteristics of the underlying plastics continue to exert variable selection of surface microbial communities. A random forest-based sample classifier correctly predicted 93\% of plastic types using microbiome compositions. Surface microbiomes have promise for use in forensically identifying plastic types and potential toxicities.}, url = {https://www.frontiersin.org/article/10.3389/fmars.2021.807327}, urldate = {2022-06-10}, keywords = {microbiome;Import Apr 1} } @ARTICLE{Gibbens2015-ps, title = {Exploring Metagenomics in the Laboratory of an Introductory Biology Course}, author = {Gibbens, Brian and Scott, Cheryl and Hoff, Courtney and Schottel, Janet}, journaltitle = {Journal of microbiology \& biology education: JMBE}, volume = {16}, pages = {34--40}, date = {2015-05-01}, doi = {10.1128/jmbe.v16i1.780}, abstract = {Four laboratory modules were designed for introductory biology students to explore the field of metagenomics. Students collected microbes from environmental samples, extracted the DNA, and amplified 16S rRNA gene sequences using polymerase chain reaction (PCR). Students designed functional metagenomics screens to determine and compare antibiotic resistance profiles among the samples. Bioinformatics tools were used to generate and interpret phylogenetic trees and identify homologous genes. A pretest and posttest were used to assess learning gains, and the results indicated that these modules increased student performance by an average of 22\%. Here we describe ways to engage students in metagenomics-related research and provide readers with ideas for how they can start developing metagenomics exercises for their own classrooms.}, url = {http://dx.doi.org/10.1128/jmbe.v16i1.780}, keywords = {microbiome;Import Apr 1} } @ARTICLE{Weber2017-bl, title = {Optimization of {DNA} extraction for advancing coral microbiota investigations}, author = {Weber, Laura and DeForce, Emelia and Apprill, Amy}, journaltitle = {Microbiome}, volume = {5}, issue = {1}, pages = {18}, date = {2017-02-08}, doi = {10.1186/s40168-017-0229-y}, abstract = {DNA-based sequencing approaches are commonly used to identify microorganisms and their genes and document trends in microbial community diversity in environmental samples. However, extraction of microbial DNA from complex environmental samples like corals can be technically challenging, and extraction methods may impart biases on microbial community structure.}, url = {https://doi.org/10.1186/s40168-017-0229-y}, urldate = {2022-05-12}, keywords = {microbiome;Import Apr 1} } @ARTICLE{Chavanich2022-no, title = {Microbiomes of Healthy and Bleached Corals During a 2016 Thermal Bleaching Event in the Andaman Sea of Thailand}, author = {Chavanich, Suchana and Kusdianto, Heru and Kullapanich, Chitrasak and Jandang, Suppakarn and Wongsawaeng, Doonyapong and Ouazzani, Jamal and Viyakarn, Voranop and Somboonna, Naraporn}, journaltitle = {Frontiers in marine science}, volume = {9}, date = {2022-02-21}, doi = {10.3389/fmars.2022.763421}, abstract = {As seawater temperature rises, repeated thermal bleaching events have negatively affected the reefs of the Andaman Sea for over decades. Studies on the coral-associated microbial diversity of prokaryotes and microbial eukaryotes (microbiome) in healthy and bleached corals are important to better understand the coral holobionts that involved augmented resistance to stresses, and this information remains limited in the Andaman Sea of Thailand. The present study thereby described the microbiomes of healthy (unbleached) and bleached colonies of four prevalent corals, Acropora humilis , Platygyra sp., Pocillopora damicornis , and Porites lutea , along with the surrounding seawater and sediments, that were collected during a 2016 thermal bleaching event, using 16S and 18S rRNA genes next-generation sequencing (NGS). Both prokaryotic and eukaryotic microbes showed isolated community profiles among sample types (corals, sediment, and seawater) [analysis of similarities (ANOSIM): p = 0.038 for prokaryotes, p < 0.001 for microbial eukaryotes] and among coral genera (ANOSIM: p < 0.001 for prokaryotes and microbial eukaryotes). In bleached state corals, we found differences in microbial compositions from the healthy state corals. Prevalent differences shared among bleached coral genera (shared in at least three coral genera) included a loss of reported coral-beneficial microbes, such as Pseudomonadales, Alteromonadales, and Symbiodinium ; meanwhile an increase of putative coral-pathogenic Malassezia and Aspergillus . This difference could affect carbon and nitrogen availability for coral growth, reflective of a healthy or bleached state. Our findings in part supported previously microbial dysbiosis knowledge of thermal bleaching coral microbiomes around South East Asia marine geography, and together ongoing efforts are to support the understanding and management of microbial diversity to reduce the negative impacts to corals in massive thermal bleaching events.}, url = {http://dx.doi.org/10.3389/fmars.2022.763421}, keywords = {microbiome;Import Apr 1} } @ARTICLE{Hamady2008-xm, title = {Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex}, author = {Hamady, Micah and Walker, Jeffrey J and Harris, J Kirk and Gold, Nicholas J and Knight, Rob}, journaltitle = {Nature methods}, volume = {5}, issue = {3}, pages = {235--237}, date = {2008-03}, doi = {10.1038/nmeth.1184}, abstract = {We constructed error-correcting DNA barcodes that allow one run of a massively parallel pyrosequencer to process up to 1,544 samples simultaneously. Using these barcodes we processed bacterial 16S rRNA gene sequences representing microbial communities in 286 environmental samples, corrected 92\% of sample assignment errors, and thus characterized nearly as many 16S rRNA genes as have been sequenced to date by Sanger sequencing.}, url = {https://www.nature.com/articles/nmeth.1184}, urldate = {2022-01-26}, keywords = {microbiome;Import Apr 1}, language = {en} } @ARTICLE{Ainsworth2015-rd, title = {The coral core microbiome identifies rare bacterial taxa as ubiquitous endosymbionts}, author = {Ainsworth, Tracy D and Krause, Lutz and Bridge, Thomas and Torda, Gergely and Raina, Jean-Baptise and Zakrzewski, Martha and Gates, Ruth D and Padilla-Gamino, Jacqueline L and Spalding, Heather L and Smith, Celia and Woolsey, Erika S and Bourne, David G and Bongaerts, Pim and Hoegh-Guldberg, Ove and Leggat, William}, journaltitle = {The ISME journal}, volume = {9}, issue = {10}, pages = {2261--2274}, date = {2015-10}, doi = {10.1038/ismej.2015.39}, abstract = {Despite being one of the simplest metazoans, corals harbor some of the most highly diverse and abundant microbial communities. Differentiating core, symbiotic bacteria from this diverse hostassociated consortium is essential for characterizing the functional contributions of bacteria but has not been possible yet. Here we characterize the coral core microbiome and demonstrate clear phylogenetic and functional divisions between the micro-scale, niche habitats within the coral host. In doing so, we discover seven distinct bacterial phylotypes that are universal to the core microbiome of coral species, separated by thousands of kilometres of oceans. The two most abundant phylotypes are co-localized specifically with the corals' endosymbiotic algae and symbiont-containing host cells. These bacterial symbioses likely facilitate the success of the dinoflagellate endosymbiosis with corals in diverse environmental regimes.}, url = {http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=DOISource&SrcApp=WOS&KeyAID=10.1038%2Fismej.2015.39&DestApp=DOI&SrcAppSID=5EiaeLZc3jIMXpwomIb&SrcJTitle=ISME+JOURNAL&DestDOIRegistrantName=Springer+Science+and+Business+Media+LLC}, urldate = {2022-01-03}, keywords = {JPG;microbiome;Import Apr 1}, language = {en} } @ARTICLE{Haydon2021-xh, title = {Temporal Variation in the Microbiome of Tropical and Temperate Octocorals}, author = {Haydon, Trent D and Suggett, David J and Siboni, Nachshon and Kahlke, Tim and Camp, Emma F and Seymour, Justin R}, journaltitle = {Microbial ecology}, date = {2021-07-31}, doi = {10.1007/s00248-021-01823-7}, abstract = {Bacterial members of the coral holobiont play an important role in determining coral fitness. However, most knowledge of the coral microbiome has come from reef-building scleractinian corals, with far less known about the nature and importance of the microbiome of octocorals (subclass Octocorallia), which contribute significantly to reef biodiversity and functional complexity. We examined the diversity and structure of the bacterial component of octocoral microbiomes over summer and winter, with a focus on two temperate (Erythropodium hicksoni, Capnella gaboensis; Sydney Harbour) and two tropical (Sinularia sp., Sarcophyton sp.; Heron Island) species common to reefs in eastern Australia. Bacterial communities associated with these octocorals were also compared to common temperate (Plesiastrea versipora) and tropical (Acropora aspera) hard corals from the same reefs. Using 16S rRNA amplicon sequencing, bacterial diversity was found to be heterogeneous among octocorals, but we observed changes in composition between summer and winter for some species (C. gaboensis and Sinularia sp.), but not for others (E. hicksoni and Sarcophyton sp.). Bacterial community structure differed significantly between all octocoral species within both the temperate and tropical environments. However, on a seasonal basis, those differences were less pronounced. The microbiomes of C. gaboensis and Sinularia sp. were dominated by bacteria belonging to the genus Endozoicomonas, which were a key conserved feature of their core microbiomes. In contrast to previous studies, our analysis revealed that Endozoicomonas phylotypes are shared across different octocoral species, inhabiting different environments. Together, our data demonstrates that octocorals harbour a broad diversity of bacterial partners, some of which comprise ‘core microbiomes’ that potentially impart important functional roles to their hosts.}, url = {https://doi.org/10.1007/s00248-021-01823-7}, urldate = {2021-12-06}, keywords = {microbiome;Import Apr 1}, language = {en} } @ARTICLE{Epstein2019-zl, title = {Temporal Variation in the Microbiome of Acropora Coral Species Does Not Reflect Seasonality}, author = {Epstein, Hannah E and Smith, Hillary A and Cantin, Neal E and Mocellin, Veronique J L and Torda, Gergely and van Oppen, Madeleine J H}, journaltitle = {Frontiers in microbiology}, volume = {10}, pages = {1775}, date = {2019}, doi = {10.3389/fmicb.2019.01775}, abstract = {The coral microbiome is known to fluctuate in response to environmental variation and has been suggested to vary seasonally. However, most studies to date, particularly studies on bacterial communities, have examined temporal variation over a time frame of less than 1 year, which is insufficient to establish if microbiome variations are indeed seasonal in nature. The present study focused on expanding our understanding of long-term variability in microbial community composition using two common coral species, Acropora hyacinthus, and Acropora spathulata, at two mid-shelf reefs on the Great Barrier Reef. By sampling over a 2-year time period, this study aimed to determine whether temporal variations reflect seasonal cycles. Community composition of both bacteria and Symbiodiniaceae was characterized through 16S rRNA gene and ITS2 rDNA metabarcoding. We observed significant variations in community composition of both bacteria and Symbiodiniaceae among time points for A. hyacinthus and A. spathulata. However, there was no evidence to suggest that temporal variations were cyclical in nature and represented seasonal variation. Clear evidence for differences in the microbial communities found between reefs suggests that reef location and coral species play a larger role than season in driving microbial community composition in corals. In order to identify the basis of temporal patterns in coral microbial community composition, future studies should employ longer time series of sampling at sufficient temporal resolution to identify the environmental correlates of microbiome variation.}, url = {https://www.frontiersin.org/article/10.3389/fmicb.2019.01775}, urldate = {2021-12-06}, keywords = {microbiome;Import Apr 1} }