Biodiversity of endolithic fungi in coral skeletons and other reef substrates revealed with 18S rDNA metabarcoding

Goés-Neto, Aristóteles; Marcelino, Vanessa R.; Verbruggen, Heroen; Silva, Felipe Ferreira da; Badotti, Fernanda

doi:10.1007/s00338-019-01880-y

Cited by 25 publications

(15 citation statements)

References 48 publications

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“…To date, the known coral-associated fungi include members of the Ascomycota (dominant phylum), Basidiomycota, Mucoromycota, and Chytridiomycota phyla, with Aspergillus and Penicillium being the most frequently found genera (134,(136)(137)(138). Fungal associations with the coral species Palythoa caribaeorum, Zoanthus sociatus, Palythoa variabilis, and Favia gravida from shallow waters of southern Brazil were investigated by Paulino et FIG 1 "Coral juice" preparation for cultivation of coral-associated microorganisms.…”

Section: Future Prospectsmentioning

confidence: 99%

Methods and Strategies to Uncover Coral-Associated Microbial Dark Matter

et al. 2022

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The vast majority of environmental microbes have not yet been cultured, and most of the knowledge on coral-associated microbes (CAMs) has been generated from amplicon sequencing and metagenomes. However, exploring cultured CAMs is key for a detailed and comprehensive characterization of the roles of these microbes in shaping coral health and, ultimately, for their biotechnological use as, for example, coral probiotics and other natural products. Here, the strategies and technologies that have been used to access cultured CAMs are presented, while advantages and disadvantages associated with each of these strategies are discussed.

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Section: Future Prospectsmentioning

confidence: 99%

Methods and Strategies to Uncover Coral-Associated Microbial Dark Matter

et al. 2022

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“…Therefore, these microbes must harbour the genetic machinery to interact with the host without eliciting the host's immune response, (e.g., by harbouring proteins containing eukaryoticlike repeats or ELPs). Coral-associated bacteria harbouring these ELPs also have the potential to interact with other microeukaryotes present in the coral skeleton, including endolithic microalgae (e.g., Ostreobium, Phaeophila [16], sponges and corallimorphs), endolithic fungi including Ascomycota and Basidiomycota [20,22,70] among others. Proteins containing these repeats are commonly associated with additional functional domains such as lipid metabolism and mediating ubiquitination, therefore these are likely to engage host proteins directly [71].…”

Section: Skeletal Microbiomes Harbour An Array Of Elps To Form Stable...mentioning

confidence: 99%

Genomic view of the diversity and functional role of archaea and bacteria in the skeleton of the reef-building corals Porites lutea and Isopora palifera

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Costa

et al. 2022

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At present our knowledge on the compartmentalization of coral holobiont microbiomes is highly skewed towards the millimetre-thin coral tissue, leaving the diverse coral skeleton microbiome underexplored. Here, we present a genome-centric view of the skeleton of the reef-building corals' Porites lutea and Isopora palifera, through a compendium of ~ 400 high-quality bacterial and archaeal metagenome-assembled genomes (MAGs), spanning 34 phyla and 57 microbial classes. Skeletal microbiomes harboured a diverse array of stress response genes, including dimethylsulfoniopropionate synthesis (dsyB) and metabolism (DMSP lyase). Furthermore, skeletal MAGs encoded an average of 22 ± 15 genes in P. lutea and 28 ± 23 in I. palifera with eukaryotic-like motifs thought to be involved in maintaining host association. We provide comprehensive insights into the putative functional role of the skeletal microbiome on key metabolic processes such as nitrogen fixation, dissimilatory and assimilatory nitrate, and sulphate reduction. Our study provides critical genomic resources for a better understanding of the coral skeletal microbiome and its role in holobiont functioning.

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“…Although on a smaller scale, bacterial consortia in corals have been identified from different geographic locations (reviewed in Blackall et al, 2015;McDevitt-Irwin et al, 2017;van de Water et al, 2018) and mesophotic reefs (Olson and Kellogg, 2010;Leggat et al, 2019). The application of high-throughput amplicon and metagenomic analyses enables not only the characterization of bacteria but also of the other microbial partners such as fungi, Archaea, and viruses (reviewed in Wegley et al, 2007;Blackall et al, 2015;Góes-Neto et al, 2020).…”

Section: The Identity Of the Holobiont Partners Is Progressively Revementioning

confidence: 99%

Conceptualization of the Holobiont Paradigm as It Pertains to Corals

et al. 2020

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Corals' obligate association with unicellular dinoflagellates, family Symbiodiniaceae form the foundation of coral reefs. For nearly a century, researchers have delved into understanding the coral-algal mutualism from multiple levels of resolution and perspectives, and the questions and scope have evolved with each iteration of new techniques. Advances in genetic technologies not only aided in distinguishing between the multitude of Symbiodiniaceae but also illuminated the existence and diversity of other organisms constituting the coral microbiome. The coral therefore is a meta-organism, often referred to as the coral holobiont. In this review, we address the importance of including a holistic perspective to understanding the coral holobiont. We also discuss the ramifications of how different genotypic combinations of the coral consortium affect the holobiont entity. We highlight the paucity of data on most of the coral microbiome. Using Symbiodiniaceae data, we present evidence that the holobiont properties are not necessarily the sum of its parts. We then discuss the consequences of the holobiont attributes to the fitness of the holobiont and the myriad of organisms that contribute to it. Considering the complexity of host-symbiont genotypic combinations will aid in our understanding of coral resilience, robustness, acclimation, and/or adaptation in the face of environmental change and increasing perturbations.

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Biodiversity of endolithic fungi in coral skeletons and other reef substrates revealed with 18S rDNA metabarcoding

Cited by 25 publications

References 48 publications

Methods and Strategies to Uncover Coral-Associated Microbial Dark Matter

Methods and Strategies to Uncover Coral-Associated Microbial Dark Matter

Genomic view of the diversity and functional role of archaea and bacteria in the skeleton of the reef-building corals Porites lutea and Isopora palifera

Conceptualization of the Holobiont Paradigm as It Pertains to Corals

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