Differential expression of immune receptors in two marine sponges upon exposure to microbial-associated molecular patterns DOI Creative Commons
Lucía Pita, Marc P. Hoeppner, Marta Ribes

et al.

Scientific Reports, Journal Year: 2018, Volume and Issue: 8(1)

Published: Oct. 25, 2018

The innate immune system helps animals to navigate the microbial world. response microbes relies on specific recognition of microbial-associated molecular patterns (MAMPs) by receptors. Sponges (phylum Porifera), as early-diverging animals, provide insights into conserved mechanisms for animal-microbe crosstalk. However, experimental data is limited. We adopted an approach followed RNA-Seq and differential gene expression analysis in order characterise sponge response. Two Mediterranean species, Aplysina aerophoba Dysidea avara, were exposed a "cocktail" MAMPs (lipopolysaccharide peptidoglycan) or sterile artificial seawater (control) sampled 1 h, 3 5 h post-treatment RNA-Seq. involved, first foremost, higher number differentially-expressed genes A. than D. avara. Secondly, while both species constitutively express diverse repertoire receptors, they differed their profiles upon MAMP challenge. avara was mediated increased two NLR genes, whereas involved SRCR GPCR genes. From set annotated we infer that activated apoptosis phagocytosis additionally stimulated. Our study assessed time transcriptomic responses sponges revealed species-specific features poriferan immunity well potentially relevant interactions.

Language: Английский

Heterotrophy in the earliest gut: a single-cell view of heterotrophic carbon and nitrogen assimilation in sponge-microbe symbioses DOI Creative Commons
Laura Rix, Marta Ribes, Rafel Coma

et al.

The ISME Journal, Journal Year: 2020, Volume and Issue: 14(10), P. 2554 - 2567

Published: June 29, 2020

Sponges are the oldest known extant animal-microbe symbiosis. These ubiquitous benthic animals play an important role in marine ecosystems cycling of dissolved organic matter (DOM), largest source on Earth. The conventional view DOM through microbial processing has been challenged by interaction between this efficient filter-feeding host and its diverse abundant microbiome. Here we quantify, for first time, cells symbionts sponge heterotrophy. We combined stable isotope probing nanoscale secondary ion mass spectrometry to compare different sources (glucose, amino acids, algal-produced) particulate (POM) a high-microbial abundance (HMA) low-microbial (LMA) with single-cell resolution. Contrary common notion, found that both choanocyte (i.e. filter) were active uptake. Although all assimilated sponges, higher biomass HMA corresponded increased capacity process greater variety compounds. Nevertheless, situ feeding data demonstrated was primary carbon LMA sponge, accounting ~90% their heterotrophic diets. Microbes accounted majority (65-87%) (and ~60% total diet) but <5% sponge. propose evolutionary success sponges is due strategies exploit vast reservoir ocean.

Language: Английский

Citations

91
Marine Sponges as Chloroflexi Hot Spots: Genomic Insights and High-Resolution Visualization of an Abundant and Diverse Symbiotic Clade DOI Creative Commons
Kristina Bayer, Martin T. Jahn, Beate M. Slaby

et al.

mSystems, Journal Year: 2018, Volume and Issue: 3(6)

Published: Oct. 30, 2018

Members of the widespread bacterial phylum Chloroflexi can dominate high-microbial-abundance (HMA) sponge microbiomes. In Sponge Microbiome Project, sequences amounted to 20 30% total microbiome certain HMA genera with classes/clades SAR202, Caldilineae, and Anaerolineae being most prominent. We performed metagenomic single-cell genomic analyses elucidate functional gene repertoire symbionts Aplysina aerophoba. Eighteen draft genomes were reconstructed placed into phylogenetic context which six investigated in detail. Common features related central energy carbon converting pathways, amino acid fatty metabolism, respiration. Clade-specific metabolic included a massively expanded for carbohydrate degradation Caldilineae genomes, but only utilization by SAR202. While import cofactors vitamins, SAR202 harbor genes encoding components involved cofactor biosynthesis. A number relevant symbiosis further identified, including CRISPR-Cas systems, eukaryote-like repeat proteins, secondary metabolite clusters. visualized extracellular matrix at ultrastructural resolution fluorescence situ hybridization-correlative light electron microscopy (FISH-CLEM) method. Carbohydrate potential was reported previously "Candidatus Poribacteria" SAUL, typical sponges, we propose here that collectively engage dissolved organic matter, both labile recalcitrant. Thus, microbes may not provide nutrients host, they also contribute matter (DOM) recycling primary productivity reef ecosystems via pathway termed loop. IMPORTANCEChloroflexi represent widespread, yet enigmatic few cultivated members. used approaches characterize marine sponges. The results this study suggest clade-specific specialization have from seawater. Considering abundance dominance sponges many benthic environments, predict role biogeochemical cycles is larger than thought.

Language: Английский

Citations

90
Biodiversity, environmental drivers, and sustainability of the global deep-sea sponge microbiome DOI Creative Commons
Kathrin Busch, Beate M. Slaby, Wolfgang Bach

et al.

Nature Communications, Journal Year: 2022, Volume and Issue: 13(1)

Published: Sept. 2, 2022

Abstract In the deep ocean symbioses between microbes and invertebrates are emerging as key drivers of ecosystem health services. We present a large-scale analysis microbial diversity in deep-sea sponges (Porifera) from scales sponge individuals to basins, covering 52 locations, 1077 host translating into 169 species (including understudied glass sponges), 469 reference samples, collected anew during 21 ship-based expeditions. demonstrate impacts abundance status, geographic distance, phylogeny, physical-biogeochemical environment microbiome composition, descending order relevance. Our study further discloses that fundamental concepts microbiology apply robustly across distances >10,000 km. Deep-sea microbiomes less complex, yet more heterogeneous, than their shallow-water counterparts. underscores uniqueness each ground based on which we provide critical knowledge for conservation these vulnerable ecosystems.

Language: Английский

Citations

52
Cophylogeny and convergence shape holobiont evolution in sponge–microbe symbioses DOI
M. Sabrina Pankey, David C. Plachetzki, Keir J. Macartney

et al.

Nature Ecology & Evolution, Journal Year: 2022, Volume and Issue: 6(6), P. 750 - 762

Published: April 7, 2022

Language: Английский

Citations

43
Impact of Marine Chemical Ecology Research on the Discovery and Development of New Pharmaceuticals DOI Creative Commons
Lik Tong Tan

Marine Drugs, Journal Year: 2023, Volume and Issue: 21(3), P. 174 - 174

Published: March 9, 2023

Diverse ecologically important metabolites, such as allelochemicals, infochemicals and volatile organic chemicals, are involved in marine organismal interactions. Chemically mediated interactions between intra- interspecific organisms can have a significant impact on community organization, population structure ecosystem functioning. Advances analytical techniques, microscopy genomics providing insights the chemistry functional roles of metabolites This review highlights targeted translational value several chemical ecology-driven research studies their sustainable discovery novel therapeutic agents. These ecology-based approaches include activated defense, allelochemicals arising from interactions, spatio-temporal variations phylogeny-based approaches. In addition, innovative techniques used mapping surface well metabolite translocation within holobionts summarized. Chemical information related to maintenance symbioses biosyntheses specialized compounds be harnessed for biomedical applications, particularly microbial fermentation compound production. Furthermore, climate change ecology organisms—especially production, functionality perception allelochemicals—and its implications drug efforts will presented.

Language: Английский

Citations

30
Exploring the synergy of artificial intelligence in microbiology: Advancements, challenges, and future prospects DOI Creative Commons
P Mohseni, Abozar Ghorbani

Deleted Journal, Journal Year: 2024, Volume and Issue: 1, P. 100005 - 100005

Published: June 1, 2024

The integration of artificial intelligence (AI) into microbiology has the transformative potential to advance our understanding and treatment microbial systems. This review examines various applications AI in microbiology, including activities such as predicting drug targets vaccine candidates, identifying microorganisms responsible for infectious diseases, classifying resistance antimicrobial drugs, disease outbreaks, well investigating interactions between microorganisms, quality assurance, Identification bacteria compliance with health standards. We summarized key algorithms Naive Bayes, Support Vector Machines, Deep Learning, Random Forests used microbiological studies. also address challenges criticisms associated microbiology. Finally, we discuss prospects AI, advances personalized medicine, reducing resistance, microbiome research, rapid diagnostics, environmental synthetic biology. Our includes a comprehensive analysis recent literature, evaluating research. systematic searches inclusion criteria ensure relevance reviewed Despite significant that brings data heterogeneity, model transparency, ethical considerations must be addressed. Interdisciplinary collaboration rigorous validation models are crucial overcome these challenges. future looks promising pathogen detection, monitoring. provides powerful tool revolutionize diagnosis, ecosystems.

Language: Английский

Citations

9
Microbial assemblages and bioindicators as proxies for ecosystem health status: potential and limitations DOI
Carmen Astudillo‐García, Syrie M. Hermans, Bryan Stevenson

et al.

Applied Microbiology and Biotechnology, Journal Year: 2019, Volume and Issue: 103(16), P. 6407 - 6421

Published: June 26, 2019

Language: Английский

Citations

70
Comparative genome-centric analysis reveals seasonal variation in the function of coral reef microbiomes DOI Creative Commons
Bettina Glasl, Steven J. Robbins, Pedro R. Frade

et al.

The ISME Journal, Journal Year: 2020, Volume and Issue: 14(6), P. 1435 - 1450

Published: March 2, 2020

Abstract Microbially mediated processes contribute to coral reef resilience yet, despite extensive characterisation of microbial community variation following environmental perturbation, the effect on microbiome function is poorly understood. We undertook metagenomic sequencing sponge, macroalgae and seawater microbiomes from a macroalgae-dominated inshore define their functional potential evaluate seasonal shifts in microbially processes. In total, 125 high-quality metagenome-assembled genomes were reconstructed, spanning 15 bacterial 3 archaeal phyla. Multivariate analysis relative abundance revealed changes relation fluctuations (e.g. biomass, temperature). For example, shift Alphaproteobacteria Bacteroidota-dominated occurred during summer, resulting an increased genomic degrade macroalgal-derived polysaccharides. An 85% reduction Chloroflexota was observed sponge with consequences for nutrition, waste product removal, detoxification holobiont. A Firmicutes:Bacteroidota ratio detected over summer implications polysaccharide degradation macroalgal microbiomes. These results highlight that dominant taxa alter repertoire host-associated microbiomes, how perturbation can affect ecosystems.

Language: Английский

Citations

68
Compositional and Quantitative Insights Into Bacterial and Archaeal Communities of South Pacific Deep-Sea Sponges (Demospongiae and Hexactinellida) DOI Creative Commons
Georg Steinert, Kathrin Busch, Kristina Bayer

et al.

Frontiers in Microbiology, Journal Year: 2020, Volume and Issue: 11

Published: April 24, 2020

In the present study, we profiled bacterial and archaeal communities from thirteen phylogenetically diverse deep-sea sponge species (Demospongiae Hexactinellida) South Pacific by 16S rRNA-gene amplicon sequencing. Additionally, associated bacteria archaea were quantified real-time qPCR. Our results show that sponges are mostly host-species specific similar to what has been observed for shallow-water demosponges. The community structures different in they almost completely dominated a single family, which ammonia-oxidizing genera within Nitrosopumilaceae. Remarkably, individual (rather than sponge-species), this observation applies both hexactinellids Finally, numbers, as detected quantitative PCR, up three orders of magnitude higher sponges, highlighting importance general.

Language: Английский

Citations

56
Characterizing the microbiomes of Antarctic sponges: a functional metagenomic approach DOI Creative Commons
Mario Moreno-Pino, Antonia Cristi, James F. Gillooly

et al.

Scientific Reports, Journal Year: 2020, Volume and Issue: 10(1)

Published: Jan. 20, 2020

Abstract Relatively little is known about the role of sponge microbiomes in Antarctic marine environment, where sponges may dominate benthic landscape. Specifically, we understand how taxonomic and functional diversity contributes to symbiotic lifestyle aids nutrient cycling. Here use metagenomics investigate community composition metabolic potential from two abundant sponges, Leucetta antarctica Myxilla sp. Genomic analyses show that both harbor a distinct microbial with high fungal abundance, which differs surrounding seawater. Functional reveal sponge-associated communities are enriched functions related (e.g., CRISPR system, Eukaryotic-like proteins, transposases), important for Both possessed genes necessary perform processes nitrogen cycling (i.e., ammonia oxidation, nitrite denitrification), carbon fixation. The latter indicates microorganisms prefer light-independent pathways CO 2 fixation mediated by chemoautotrophic microorganisms. Together, these results unique help holobionts survive inhospitable environments, contribute major cycles ecosystems.

Language: Английский

Citations

55