Harnessing the sponge microbiome for industrial biocatalysts

Oliveira, Bruno Francesco Rodrigues de; Carr, Clodagh M.; Dobson, Alan D. W.; Laport, Marinella Silva

doi:10.1007/s00253-020-10817-3

Cited by 20 publications

(8 citation statements)

References 234 publications

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“…In recent years, researchers have focused their interest on sponge microbial communities due to their importance in biotechnology (see full review by De Oliveira et al, 2020 ). There are few available studies on sponge-associated bacteria in the Arabian Gulf, and most of these studies were conducted in the north and northeastern regions of the Gulf.…”

Section: Discussionmentioning

confidence: 99%

Identification of Sponge-Associated Bacteria From the Coast of Kuwait and Their Potential Biotechnological Applications

Abbas

Mahmoud

2022

Front. Microbiol.

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Sponges are among the most ancient animals harboring complex microbial communities with potential applications in biotechnology. The Arabian Gulf is a thermally stressed enclosed body of water located in an arid region where sponges and their halobionts are understudied. This study combined 16S rRNA next-generation gene amplicon sequencing and cultivation techniques to explore the abundance and diversity of sponge-associated bacteria. Culture-independent techniques showed the associations of more than 25 bacterial phyla with Amphimedon sp., Chondrilla australiensis, Haliclona sp., and Niphates spp. Regarding cultivable bacteria, 315 bacterial isolates associated with the sponge Haliclona sp. were cultivated; these isolates were affiliated with the phyla Proteobacteria and Firmicutes and were distributed among six bacterial genera. Selected strains of Bacillus, Ferrimonas, Pseudovibrio, Shewanella, Spongiobacter, and Vibrio were tested for antimicrobial activity against indicator microorganisms and protease enzyme production. Seven Bacillus strains exhibited weak to moderate growth inhibition against Bacillus subtilis, Staphylococcus aureus, and Candida albicans. Furthermore, 29 different strains of Bacillus, Ferrimonas, Shewanella, and Vibrio exhibited different degrees of positive protease activity. In addition, cultivated strains of Bacillus, Shewanella, Pseudovibrio, and Vibrio were tested for their biomineralization abilities. Herein we report for the first time the isolation of biomineralizing bacteria from sponge tissue where eleven bacterial isolates produced different shapes of calcium carbonate crystals on agar. Our observations shed light on the diversity and biotechnological potentials of sponges-associated bacteria inhabiting one of the world’s hottest seas.

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Section: Discussionmentioning

confidence: 99%

Identification of Sponge-Associated Bacteria From the Coast of Kuwait and Their Potential Biotechnological Applications

Abbas

Mahmoud

2022

Front. Microbiol.

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“…The source material was invertebrate tissue from hard-to-access Arctic seafloor locations. Marine invertebrate microbiomes, of sponges in particular, have been a rich source of bioactive compounds and biocatalysts [ 25 , 26 , 27 , 28 ]. Benthic invertebrates are routinely collected from the seafloor for bioprospecting purposes with tools like dredges and scrapers.…”

Section: Introductionmentioning

confidence: 99%

Conservation of Genomic Information in Multiple Displacement Amplified Low-Quantity Metagenomic Material from Marine Invertebrates

Elvheim

Landfald

2023

Marine Drugs

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Marine invertebrate microbiomes have been a rich source of bioactive compounds and interesting genomic features. In cases where the achievable amounts of metagenomic DNA are too low for direct sequencing, multiple displacement amplification (MDA) can be used for whole genome amplification. However, MDA has known limitations which can affect the quality of the resulting genomes and metagenomes. In this study, we evaluated the conservation of biosynthetic gene clusters (BGCs) and enzymes in MDA products from low numbers of prokaryotic cells (estimated 2–850). Marine invertebrate microbiomes collected from Arctic and sub-Arctic areas served as source material. The cells were separated from the host tissue, lysed, and directly subjected to MDA. The MDA products were sequenced by Illumina sequencing. Corresponding numbers of bacteria from a set of three reference strains were treated the same way. The study demonstrated that useful information on taxonomic, BGC, and enzyme diversities was obtainable from such marginal quantities of metagenomic material. Although high levels of assembly fragmentation resulted in most BGCs being incomplete, we conclude that this genome mining approach has the potential to reveal interesting BGCs and genes from hard-to-reach biological sources.

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“…While most culture-independent studies on sponge microbiome composition to date have focused on prokaryotic diversity, the importance of fungi in holobiont behavior has been largely overlooked. Studies focusing on the biology of sponge fungi are uncommon compared to reports on the chemistry of natural products derived from sponge fungi ( de Oliveira et al, 2020 ; Zhang et al, 2020 ).…”

Section: Introductionmentioning

confidence: 99%

From friends to foes: fungi could be emerging marine sponge pathogens under global change scenarios

Pérez-Llano,

Yarzábal Rodríguez,

Martínez-Romero

et al. 2023

Front. Microbiol.

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Global change, experienced in the form of ocean warming and pollution by man-made goods and xenobiotics, is rapidly affecting reef ecosystems and could have devastating consequences for marine ecology. Due to their critical role in regulating marine food webs and trophic connections, sponges are an essential model for studying and forecasting the impact of global change on reef ecosystems. Microbes are regarded as major contributors to the health and survival of sponges in marine environments. While most culture-independent studies on sponge microbiome composition to date have focused on prokaryotic diversity, the importance of fungi in holobiont behavior has been largely overlooked. Studies focusing on the biology of sponge fungi are uncommon. Thus, our current understanding is quite limited regarding the interactions and “crosstalk” between sponges and their associated fungi. Anthropogenic activities and climate change may reveal sponge-associated fungi as novel emerging pathogens. Global change scenarios could trigger the expression of fungal virulence genes and unearth new opportunistic pathogens, posing a risk to the health of sponges and severely damaging reef ecosystems. Although ambitious, this hypothesis has not yet been proven. Here we also postulate as a pioneering hypothesis that manipulating sponge-associated fungal communities may be a new strategy to cope with the threats posed to sponge health by pathogens and pollutants. Additionally, we anticipate that sponge-derived fungi might be used as novel sponge health promoters and beneficial members of the resident sponge microbiome in order to increase the sponge's resistance to opportunistic fungal infections under a scenario of global change.

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Harnessing the sponge microbiome for industrial biocatalysts

Cited by 20 publications

References 234 publications

Identification of Sponge-Associated Bacteria From the Coast of Kuwait and Their Potential Biotechnological Applications

Identification of Sponge-Associated Bacteria From the Coast of Kuwait and Their Potential Biotechnological Applications

Conservation of Genomic Information in Multiple Displacement Amplified Low-Quantity Metagenomic Material from Marine Invertebrates

From friends to foes: fungi could be emerging marine sponge pathogens under global change scenarios

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