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Masasa M, Kushmaro A, Nguyen D, Chernova H, Shashar N, Guttman L. Spatial Succession Underlies Microbial Contribution to Food Digestion in the Gut of an Algivorous Sea Urchin. Microbiol Spectr 2023; 11:e0051423. [PMID: 37097162 PMCID: PMC10269587 DOI: 10.1128/spectrum.00514-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2023] [Accepted: 04/06/2023] [Indexed: 04/26/2023] Open
Abstract
Dietary influence on the microbiome in algivorous sea urchins such as Tripneustes gratilla elatensis suggests a bacterial contribution to the digestion of fiber-rich seaweed. An ecological insight into the spatial arrangement in the gut bacterial community will improve our knowledge of host-microbe relations concerning the involved taxa, their metabolic repertoire, and the niches of activity. Toward this goal, we investigated the bacterial communities in the esophagus, stomach, and intestine of Ulva-fed sea urchins through 16S rRNA amplicon sequencing, followed by the prediction of their functional genes. We revealed communities with distinct features, especially those in the esophagus and intestine. The esophageal community was less diverse and was poor in food digestive or fermentation genes. In contrast, bacteria that can contribute to the digestion of the dietary Ulva were common in the stomach and intestine and consisted of genes for carbohydrate decomposition, fermentation, synthesis of short-chain fatty acids, and various ways of N and S metabolism. Bacteroidetes and Firmicutes were found as the main phyla in the gut and are presumably also necessary in food digestion. The abundant sulfate-reducing bacteria in the stomach and intestine from the genera Desulfotalea, Desulfitispora, and Defluviitalea may aid in removing the excess sulfate from the decomposition of the algal polysaccharides. Although these sea urchins were fed with Ulva, genes for the degradation of polysaccharides of other algae and plants were present in this sea urchin gut microbiome. We conclude that the succession of microbial communities along the gut obtained supports the hypothesis on bacterial contribution to food digestion. IMPORTANCE Alga grazing by the sea urchin Tripneustes gratilla elatensis is vital for nutrient recycling and constructing new reefs. This research was driven by the need to expand the knowledge of bacteria that may aid this host in alga digestion and their phylogeny, roles, and activity niches. We hypothesized alterations in the bacterial compositional structure along the gut and their association with the potential contribution to food digestion. The current spatial insight into the sea urchin's gut microbiome ecology is novel and reveals how distinct bacterial communities are when distant from each other in this organ. It points to keynote bacteria with genes that may aid the host in the digestion of the complex sulfated polysaccharides in dietary Ulva by removing the released sulfates and fermentation to provide energy. The gut bacteria's genomic arsenal may also help to gain energy from diets of other algae and plants.
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Affiliation(s)
- Matan Masasa
- Marine Biology and Biotechnology Program, Department of Life Sciences, Ben-Gurion University of the Negev, Eilat, Israel
- Israel Oceanographic and Limnological Research, The National Center for Mariculture, Eilat, Israel
| | - Ariel Kushmaro
- Avram and Stella Goldstein-Goren Department of Biotechnology Engineering, Ben-Gurion University of the Negev, Beer-Sheva, Israel
- The Ilse Katz Center for Nanoscale Science and Technology, Ben-Gurion University of the Negev, Beer-Sheva, Israel
- School of Sustainability and Climate Change, Ben-Gurion University of the Negev, Beer-Sheva, Israel
| | - Dzung Nguyen
- Marine Biology and Biotechnology Program, Department of Life Sciences, Ben-Gurion University of the Negev, Eilat, Israel
- Israel Oceanographic and Limnological Research, The National Center for Mariculture, Eilat, Israel
| | - Helena Chernova
- Israel Oceanographic and Limnological Research, The National Center for Mariculture, Eilat, Israel
| | - Nadav Shashar
- Marine Biology and Biotechnology Program, Department of Life Sciences, Ben-Gurion University of the Negev, Eilat, Israel
| | - Lior Guttman
- Israel Oceanographic and Limnological Research, The National Center for Mariculture, Eilat, Israel
- Ben-Gurion University of the Negev, Department of Life Sciences, Beer-Sheva, Israel
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Digestive Enzyme Activities and Gut Emptying Are Correlated with the Reciprocal Regulation of TRPA1 Ion Channel and Serotonin in the Gut of the Sea Urchin Strongylocentrotus intermedius. BIOLOGY 2022; 11:biology11040503. [PMID: 35453703 PMCID: PMC9028161 DOI: 10.3390/biology11040503] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/09/2022] [Revised: 03/20/2022] [Accepted: 03/22/2022] [Indexed: 11/17/2022]
Abstract
The energetic link in the benthic community is based on physiological characteristics of the low food absorption efficiency of sea urchins. Low food absorption efficiency of sea urchins is correlated with the activity of digestive enzymes and the duration of food in their gut. Thus, the digestive enzymes activities (pepsin and amylase enzyme activities) and gut emptying are important indicators in assessing nutrient digestion and absorption in sea urchins. In the present study, the relationship between these indicators and molecules related to digestive physiology were quantified in sea urchins. We found (1) an inter-regulatory relationship existed between Transient receptor potential cation channel, subfamily A, member 1 (TRPA1), and serotonin (5-hydroxytryptamine; 5-HT) in the gut of Strongylocentrotus intermedius; (2) digestive enzyme activities were negatively correlated with the TRPA1 and concentration of 5-HT in the gut of S. intermedius; (3) gut emptying rate was positively correlated with TRPA1 and concentration of 5-HT in the gut of S. intermedius. The present study revealed that the digestion and absorption of food are correlated with the TRPA1 and 5-HT in the gut of S. intermedius, which provides valuable information about the digestive physiology of sea urchins. This novel finding is relevant to understanding the low food digestibility of sea urchins. It also provides valuable information to the digestive physiology of sea urchins, which are key to maintaining the stability of food webs in the marine ecosystem.
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Masasa M, Kushmaro A, Kramarsky-Winter E, Shpigel M, Barkan R, Golberg A, Kribus A, Shashar N, Guttman L. Mono-specific algal diets shape microbial networking in the gut of the sea urchin Tripneustes gratilla elatensis. Anim Microbiome 2021; 3:79. [PMID: 34782025 PMCID: PMC8594234 DOI: 10.1186/s42523-021-00140-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2021] [Accepted: 10/15/2021] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Algivorous sea urchins can obtain energy from a diet of a single algal species, which may result in consequent changes in their gut microbe assemblies and association networks. METHODS To ascertain whether such changes are led by specific microbes or limited to a specific region in the gut, we compared the microbial assembly in the three major gut regions of the sea urchin Tripneustes gratilla elatensis when fed a mono-specific algal diet of either Ulva fasciata or Gracilaria conferta, or an algal-free diet. DNA extracts from 5 to 7 individuals from each diet treatment were used for Illumina MiSeq based 16S rRNA gene sequencing (V3-V4 region). Niche breadth of each microbe in the assembly was calculated for identification of core, generalist, specialist, or unique microbes. Network analyzers were used to measure the connectivity of the entire assembly and of each of the microbes within it and whether it altered with a given diet or gut region. Lastly, the predicted metabolic functions of key microbes in the gut were analyzed to evaluate their potential contribution to decomposition of dietary algal polysaccharides. RESULTS Sea urchins fed with U. fasciata grew faster and their gut microbiome network was rich in bacterial associations (edges) and networking clusters. Bacteroidetes was the keystone microbe phylum in the gut, with core, generalist, and specialist representatives. A few microbes of this phylum were central hub nodes that maintained community connectivity, while others were driver microbes that led the rewiring of the assembly network based on diet type through changes in their associations and centrality. Niche breadth agreed with microbes' richness in genes for carbohydrate active enzymes and correlated Bacteroidetes specialists to decomposition of specific polysaccharides in the algal diets. CONCLUSIONS The dense and well-connected microbial network in the gut of Ulva-fed sea urchins, together with animal's rapid growth, may suggest that this alga was most nutritious among the experimental diets. Our findings expand the knowledge on the gut microbial assembly in T. gratilla elatensis and strengthen the correlation between microbes' generalism or specialism in terms of occurrence in different niches and their metabolic arsenal which may aid host nutrition.
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Affiliation(s)
- Matan Masasa
- Marine Biology and Biotechnology Program, Department of Life Sciences, Ben-Gurion University of the Negev, Eilat Campus, Eilat, Israel.,Israel Oceanographic and Limnological Research, The National Center for Mariculture, P.O. Box 1212, 8811201, Eilat, Israel
| | - Ariel Kushmaro
- Avram and Stella Goldstein-Goren, Department of Biotechnology Engineering, Ben-Gurion University of the Negev, P.O.B. 653, 8410501, Beer-Sheva, Israel
| | - Esti Kramarsky-Winter
- Avram and Stella Goldstein-Goren, Department of Biotechnology Engineering, Ben-Gurion University of the Negev, P.O.B. 653, 8410501, Beer-Sheva, Israel
| | - Muki Shpigel
- Morris Kahn Marine Research Station, The Leon H. Charney School of Marine Sciences, University of Haifa, 3498838, Haifa, Israel
| | - Roy Barkan
- Marine Biology and Biotechnology Program, Department of Life Sciences, Ben-Gurion University of the Negev, Eilat Campus, Eilat, Israel.,Israel Oceanographic and Limnological Research, The National Center for Mariculture, P.O. Box 1212, 8811201, Eilat, Israel
| | - Alex Golberg
- Department of Environmental Studies, Tel Aviv University, P.O. Box 39040, 6997801, Tel Aviv, Israel
| | - Abraham Kribus
- School of Mechanical Engineering, Tel Aviv University, P.O. Box 39040, 6997801, Tel Aviv, Israel
| | - Nadav Shashar
- Marine Biology and Biotechnology Program, Department of Life Sciences, Ben-Gurion University of the Negev, Eilat Campus, Eilat, Israel
| | - Lior Guttman
- Israel Oceanographic and Limnological Research, The National Center for Mariculture, P.O. Box 1212, 8811201, Eilat, Israel.
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Rodríguez-Barreras R, Tosado-Rodríguez EL, Godoy-Vitorino F. Trophic niches reflect compositional differences in microbiota among Caribbean sea urchins. PeerJ 2021; 9:e12084. [PMID: 34540373 PMCID: PMC8415288 DOI: 10.7717/peerj.12084] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2021] [Accepted: 08/07/2021] [Indexed: 11/20/2022] Open
Abstract
Sea urchins play a critical role in marine ecosystems, as they actively participate in maintaining the balance between coral and algae. We performed the first in-depth survey of the microbiota associated with four free-living populations of Caribbean sea urchins: Lytechinus variegatus, Echinometra lucunter, Tripneustes ventricosus, and Diadema antillarum. We compared the influence of the collection site, echinoid species and trophic niche to the composition of the microbiota. This dataset provides a comprehensive overview to date, of the bacterial communities and their ecological relevance associated with sea urchins in their natural environments. A total of sixty-samples, including surrounding reef water and seagrass leaves underwent 16S rRNA gene sequencing (V4 region) and high-quality reads were analyzed with standard bioinformatic approaches. While water and seagrass were dominated by Cyanobacteria such as Prochlorococcus and Rivularia respectively, echinoid gut samples had dominant Bacteroidetes, Proteobacteria and Fusobacteria. Propionigenium was dominant across all species' guts, revealing a host-associated composition likely responsive to the digestive process of the animals. Beta-diversity analyses showed significant differences in community composition among the three collection sites, animal species, and trophic niches. Alpha diversity was significantly higher among L. variegatus samples compared to the other species. L. variegatus also displayed an increased abundance of Planctomycetes and Cyanobacterial OTUs. The bacterial community of this herbivorous echinoid reflected similarities to the microfilm community found on Thalassia testudinum leaves; a very abundant seagrass and its main food resource. The results of this study elaborate on the microbial ecology of four important Caribbean echinoids, confirming that selection on the microbial community is trophic-niche dependent.
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Affiliation(s)
| | - Eduardo L Tosado-Rodríguez
- Microbiology and Medical Zoology, School of Medicine, University of Puerto Rico, School of Medicine, San Juan, Puerto Rico, USA
| | - Filipa Godoy-Vitorino
- Microbiology and Medical Zoology, School of Medicine, University of Puerto Rico, School of Medicine, San Juan, Puerto Rico, USA
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Microbial Composition and Genes for Key Metabolic Attributes in the Gut Digesta of Sea Urchins Lytechinus variegatus and Strongylocentrotus purpuratus Using Shotgun Metagenomics. Curr Issues Mol Biol 2021; 43:978-995. [PMID: 34563039 PMCID: PMC8929034 DOI: 10.3390/cimb43020070] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2021] [Revised: 08/11/2021] [Accepted: 08/18/2021] [Indexed: 11/17/2022] Open
Abstract
This paper describes the microbial community composition and genes for key metabolic genes, particularly the nitrogen fixation of the mucous-enveloped gut digesta of green (Lytechinus variegatus) and purple (Strongylocentrotus purpuratus) sea urchins by using the shotgun metagenomics approach. Both green and purple urchins showed high relative abundances of Gammaproteobacteria at 30% and 60%, respectively. However, Alphaproteobacteria in the green urchins had higher relative abundances (20%) than the purple urchins (2%). At the genus level, Vibrio was dominant in both green (~9%) and purple (~10%) urchins, whereas Psychromonas was prevalent only in purple urchins (~24%). An enrichment of Roseobacter and Ruegeria was found in the green urchins, whereas purple urchins revealed a higher abundance of Shewanella, Photobacterium, and Bacteroides (q-value < 0.01). Analysis of key metabolic genes at the KEGG-Level-2 categories revealed genes for amino acids (~20%), nucleotides (~5%), cofactors and vitamins (~6%), energy (~5%), carbohydrates (~13%) metabolisms, and an abundance of genes for assimilatory nitrogen reduction pathway in both urchins. Overall, the results from this study revealed the differences in the microbial community and genes designated for the metabolic processes in the nutrient-rich sea urchin gut digesta, suggesting their likely importance to the host and their environment.
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Gilson AR, Smale DA, O'Connor N. Ocean warming and species range shifts affect rates of ecosystem functioning by altering consumer-resource interactions. Ecology 2021; 102:e03341. [PMID: 33709407 DOI: 10.1002/ecy.3341] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/10/2020] [Revised: 11/19/2020] [Accepted: 12/06/2020] [Indexed: 11/10/2022]
Abstract
Recent warming trends have driven widespread changes in the performance and distribution of species in many regions, with consequent shifts in assemblage structure and ecosystem functioning. However, as responses to warming vary across species and regions, novel communities are emerging, particularly where warm-affinity range-expanding species have rapidly colonized communities still dominated by cold-affinity species. Such community reconfiguration may alter core ecosystem processes, such as productivity or nutrient cycling, yet it remains unclear whether novel communities function similarly to those they have replaced, and how continued warming will alter functioning in the near future. Using simplified kelp forest communities as a model system, we compared rates of respiration, consumption and secondary productivity between current cold-affinity and future warm-affinity kelp assemblages under both present-day temperatures and near-future warming in a series of mesocosm experiments. Overall, respiration rates of gastropods and amphipods increased with warming but did not differ between cold and warm affinity kelp assemblages. Consumption rates of three consumers (urchin, gastropod and amphipod) differed between kelp assemblages but only amphipod consumption rates increased with warming. A diet derived from warm-affinity kelp assemblages led to a decrease in growth and biomass of urchins, whereas the response of other consumers was variable depending on temperature treatment. These results suggest that climate-driven changes in assemblage structure of primary producers will alter per capita rates of ecosystem functioning, and that specific responses may vary in complex and unpredictable ways, with some mediated by warming more than others. Understanding how differences in life history and functional traits of dominant species will affect ecological interactions and, in turn, important ecosystem processes is crucial to understanding the wider implications of climate-driven community reconfiguration.
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Affiliation(s)
- Abby R Gilson
- School of Biological Sciences, Institute of Global Food Security, Queen's University Belfast, 1-33 Chlorine Gardens, Belfast, BT9 5AJ, UK
| | - Dan A Smale
- Marine Biological Association of the UK, Citadel Hill, Plymouth, PL1 2PB, UK
| | - Nessa O'Connor
- School of Biological Sciences, Institute of Global Food Security, Queen's University Belfast, 1-33 Chlorine Gardens, Belfast, BT9 5AJ, UK
- School of Natural Sciences, Trinity College Dublin, Dublin 2, Ireland
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Faddetta T, Ardizzone F, Faillaci F, Reina C, Palazzotto E, Strati F, De Filippo C, Spinelli G, Puglia AM, Gallo G, Cavalieri V. Composition and geographic variation of the bacterial microbiota associated with the coelomic fluid of the sea urchin Paracentrotus lividus. Sci Rep 2020; 10:21443. [PMID: 33293569 PMCID: PMC7723044 DOI: 10.1038/s41598-020-78534-5] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2020] [Accepted: 11/19/2020] [Indexed: 12/26/2022] Open
Abstract
In the present work, culture-based and culture-independent investigations were performed to determine the microbiota structure of the coelomic fluid of Mediterranean sea urchin Paracentrotus lividus individuals collected from two distinct geographical sites neighboring a high-density population bay and a nature reserve, respectively. Next Generation Sequencing analysis of 16S rRNA gene (rDNA) showed that members of the Proteobacteria, Bacteroidetes and Fusobacteria phyla, which have been previously reported to be commonly retrieved from marine invertebrates, dominate the overall population of microorganisms colonizing this liquid tissue, with minority bacterial genera exhibiting remarkable differences among individuals. Our results showed that there is a correlation between microbiota structure and geographical location of the echinoderm collection site, highlighting over-representation of metagenomic functions related to amino acid and bioactive peptides metabolism in specimens inhabiting the nature reserve. Finally, we also described the developmental delay and aberrations exhibited by sea urchin embryos exposed to distinct bacterial isolates, and showed that these defects rely upon hydrophilic compound(s) synthesized by the bacterial strains assayed. Altogether, our findings lay the groundwork to decipher the relationships of bacteria with sea urchins in their aquatic environment, also providing an additional layer of information to understand the biological roles of the coelomic fluid.
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Affiliation(s)
- Teresa Faddetta
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies, University of Palermo, viale delle Scienze, ed. 16, 90128, Palermo, Italy
| | - Francesco Ardizzone
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies, University of Palermo, viale delle Scienze, ed. 16, 90128, Palermo, Italy
| | - Francesca Faillaci
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies, University of Palermo, viale delle Scienze, ed. 16, 90128, Palermo, Italy
| | - Chiara Reina
- Department of Health Promotion, Mother and Child Care, Internal Medicine and Medical Specialties (PROMISE), University of Palermo, Piazza Delle Cliniche 2, 90127, Palermo, Italy
| | - Emilia Palazzotto
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies, University of Palermo, viale delle Scienze, ed. 16, 90128, Palermo, Italy
| | - Francesco Strati
- Department of Experimental Oncology, European Institute of Oncology, Via Adamello, 16, 20139, Milano, Italy
| | - Carlotta De Filippo
- Institute of Agricultural Biology and Biotechnology, National Research Council, Via Moruzzi, 1, 56124, Pisa, Italy
| | - Giovanni Spinelli
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies, University of Palermo, viale delle Scienze, ed. 16, 90128, Palermo, Italy
| | - Anna Maria Puglia
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies, University of Palermo, viale delle Scienze, ed. 16, 90128, Palermo, Italy
| | - Giuseppe Gallo
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies, University of Palermo, viale delle Scienze, ed. 16, 90128, Palermo, Italy
| | - Vincenzo Cavalieri
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies, University of Palermo, viale delle Scienze, ed. 16, 90128, Palermo, Italy.
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Zhan Y, Cui D, Xing D, Zhang J, Zhang W, Li Y, Li C, Chang Y. CO 2-driven ocean acidification repressed the growth of adult sea urchin Strongylocentrotus intermedius by impairing intestine function. MARINE POLLUTION BULLETIN 2020; 153:110944. [PMID: 32056852 DOI: 10.1016/j.marpolbul.2020.110944] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2019] [Revised: 01/20/2020] [Accepted: 01/27/2020] [Indexed: 06/10/2023]
Abstract
Strongylocentrotus intermedius cultured in the northern Yellow Sea in China was utilized to evaluate the effects of chronic CO2-driven ocean acidification (OA) on adult sea urchins. Based on the projection of the Intergovernmental Panel on Climate Change (IPCC), present natural seawater conditions (pHNBS = 8.10 ± 0.03) and three laboratory-controlled OA conditions (OA1, ΔpHNBS = - 0.3 units; OA2, ΔpHNBS = - 0.4 units; OA3, ΔpHNBS = - 0.5 units) were employed. After 60-day incubation, our results showed that (1) OA significantly repressed the growth of adult S. intermedius; (2) food consumption tended to be decreased with pH decline; (3) intestinal morphology was changed, and activities of intestinal cellulase and lipase were decreased under acidified conditions; (4) expression levels of two immune-related genes (SiTNF14 and SiTGF-β) were altered; (5) rate-limiting enzyme activities of the glycolytic pathway and tricarboxylic acid cycle (TAC) were changed in all OA treatments compared to those of controls.
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Affiliation(s)
- Yaoyao Zhan
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, Liaoning 116023, PR China
| | - Dongyao Cui
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, Liaoning 116023, PR China
| | - Dongfei Xing
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, Liaoning 116023, PR China
| | - Jun Zhang
- College of Basic Medical Science, Dalian Medical University, Dalian, Liaoning 116044, PR China
| | - Weijie Zhang
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, Liaoning 116023, PR China
| | - Yingying Li
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, Liaoning 116023, PR China
| | - Cong Li
- College of Basic Medical Science, Dalian Medical University, Dalian, Liaoning 116044, PR China.
| | - Yaqing Chang
- Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, Liaoning 116023, PR China.
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Schwob G, Cabrol L, Poulin E, Orlando J. Characterization of the Gut Microbiota of the Antarctic Heart Urchin (Spatangoida) Abatus agassizii. Front Microbiol 2020; 11:308. [PMID: 32184772 PMCID: PMC7058685 DOI: 10.3389/fmicb.2020.00308] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2019] [Accepted: 02/11/2020] [Indexed: 12/25/2022] Open
Abstract
Abatus agassizii is an irregular sea urchin species that inhabits shallow waters of South Georgia and South Shetlands Islands. As a deposit-feeder, A. agassizii nutrition relies on the ingestion of the surrounding sediment in which it lives barely burrowed. Despite the low complexity of its feeding habit, it harbors a long and twice-looped digestive tract suggesting that it may host a complex bacterial community. Here, we characterized the gut microbiota of specimens from two A. agassizii populations at the south of the King George Island in the West Antarctic Peninsula. Using a metabarcoding approach targeting the 16S rRNA gene, we characterized the Abatus microbiota composition and putative functional capacity, evaluating its differentiation among the gut content and the gut tissue in comparison with the external sediment. Additionally, we aimed to define a core gut microbiota between A. agassizii populations to identify potential keystone bacterial taxa. Our results show that the diversity and the composition of the microbiota, at both genetic and predicted functional levels, were mostly driven by the sample type, and to a lesser extent by the population location. Specific bacterial taxa, belonging mostly to Planctomycetacia and Spirochaetia, were differently enriched in the gut content and the gut tissue, respectively. Predictive functional profiles revealed higher abundance of specific pathways, as the sulfur cycle in the gut content and the amino acid metabolism, in the gut tissue. Further, the definition of a core microbiota allowed to obtain evidence of specific localization of bacterial taxa and the identification of potential keystone taxa assigned to the Desulfobacula and Spirochaeta genera as potentially host selected. The ecological relevance of these keystone taxa in the host metabolism is discussed.
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Affiliation(s)
- Guillaume Schwob
- Laboratorio de Ecología Molecular, Instituto de Ecología y Biodiversidad, Facultad de Ciencias, Universidad de Chile, Santiago, Chile
- Laboratorio de Ecología Microbiana, Departamento de Ciencias Ecológicas, Facultad de Ciencias, Universidad de Chile, Santiago, Chile
| | - Léa Cabrol
- Laboratorio de Ecología Molecular, Instituto de Ecología y Biodiversidad, Facultad de Ciencias, Universidad de Chile, Santiago, Chile
- Aix Marseille University, Univ Toulon, CNRS, IRD, Mediterranean Institute of Oceanography (MIO) UM 110, Marseille, France
| | - Elie Poulin
- Laboratorio de Ecología Molecular, Instituto de Ecología y Biodiversidad, Facultad de Ciencias, Universidad de Chile, Santiago, Chile
| | - Julieta Orlando
- Laboratorio de Ecología Microbiana, Departamento de Ciencias Ecológicas, Facultad de Ciencias, Universidad de Chile, Santiago, Chile
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Ruocco N, Zupo V, Caramiello D, Glaviano F, Polese G, Albarano L, Costantini M. Experimental evaluation of the feeding rate, growth and fertility of the sea urchins Paracentrotus lividus. INVERTEBR REPROD DEV 2018. [DOI: 10.1080/07924259.2018.1504125] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Affiliation(s)
- Nadia Ruocco
- Department of Biology and Evolution of Marine Organisms, Stazione Zoologica Anton Dohrn, Napoli, Italy
- Department of Biology, University of Naples Federico II, Complesso Universitario di Monte Sant’Angelo, Napoli, Italy
- Bio-Organic Chemistry Unit, Institute of Biomolecular Chemistry-CNR, Pozzuoli, Naples, Italy
| | - Valerio Zupo
- Department of Integrative Marine Ecology, Stazione Zoologica Anton Dohrn, Napoli, Italy
| | - Davide Caramiello
- Unit Marine Resources for Research, Stazione Zoologica Anton Dohrn, Naples, Italy
| | - Francesca Glaviano
- Unit Marine Resources for Research, Stazione Zoologica Anton Dohrn, Naples, Italy
| | - Gianluca Polese
- Department of Biology, University of Naples Federico II, Complesso Universitario di Monte Sant’Angelo, Napoli, Italy
| | - Luisa Albarano
- Department of Biology and Evolution of Marine Organisms, Stazione Zoologica Anton Dohrn, Napoli, Italy
- Department of Biology, University of Naples Federico II, Complesso Universitario di Monte Sant’Angelo, Napoli, Italy
| | - Maria Costantini
- Department of Biology and Evolution of Marine Organisms, Stazione Zoologica Anton Dohrn, Napoli, Italy
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Laport MS, Bauwens M, Collard M, George I. Phylogeny and Antagonistic Activities of Culturable Bacteria Associated with the Gut Microbiota of the Sea Urchin (Paracentrotus lividus). Curr Microbiol 2017; 75:359-367. [DOI: 10.1007/s00284-017-1389-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2017] [Accepted: 10/31/2017] [Indexed: 12/31/2022]
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Taylor AM, Heflin LE, Powell ML, Lawrence AL, Watts SA. Effects of Dietary Carbohydrate on Weight Gain and Gonad Production in Small Sea Urchins, Lytechinus variegatus. AQUACULTURE NUTRITION 2017; 23:375-386. [PMID: 28479861 PMCID: PMC5415342 DOI: 10.1111/anu.12403] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
In experiment 1, juvenile sea urchins (n = 80, 0.088 ± 0.001 g wet weight and 5.72 ± 0.04 mm diameter) were held individually and fed ad libitum one of three semi-purified formulated diets (n = 16 individuals treatment-1). In the diets, protein was held constant (310g kg-1 dry, as fed) and carbohydrate level varied (190, 260, or 380 g kg-1 dry, as fed). Wet weights were measured every 2 weeks. Total wet weight gain was inversely proportional to dietary carbohydrate level and energy content of the respective diet. In experiment 2, sea urchins (5.60 ± 0.48g wet weight, n= 40) fed 190 g kg-1 carbohydrate consumed significantly more dry feed than those fed 260 g kg-1, but not more than those fed 380 g kg-1 carbohydrate. Based on differential feed intake rates, sea urchins that consumed more feed also consumed higher levels of protein and had the highest weight gain. Consequently, protein content and/or protein: energy ratio may be important in determining feed utilization and growth among sea urchins in this study. The average digestible energy intake was approximately 70 kcal kg-1 body weight day-1, suggesting daily caloric intake of juvenile Lytechinus variegatus is lower than in shrimp and fish.
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Affiliation(s)
- Anna M Taylor
- University of Alabama at Birmingham, Department of Biology, 1300 University Blvd., CH 374A, Birmingham, AL 35294
| | - Laura E Heflin
- University of Alabama at Birmingham, Department of Biology, 1300 University Blvd., CH 374A, Birmingham, AL 35294
| | - Mickie L Powell
- University of Alabama at Birmingham, Department of Biology, 1300 University Blvd., CH 374A, Birmingham, AL 35294
| | - Addison L Lawrence
- Texas A&M University, Texas AgriLIFE Mariculture Research Laboratory, 1300 Port Street, Port Aransas, Texas 78373
| | - Stephen A Watts
- University of Alabama at Birmingham, Department of Biology, 1300 University Blvd., CH 375, Birmingham, AL 35294
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Hakim JA, Koo H, Kumar R, Lefkowitz EJ, Morrow CD, Powell ML, Watts SA, Bej AK. The gut microbiome of the sea urchin, Lytechinus variegatus, from its natural habitat demonstrates selective attributes of microbial taxa and predictive metabolic profiles. FEMS Microbiol Ecol 2016; 92:fiw146. [PMID: 27368709 PMCID: PMC5975844 DOI: 10.1093/femsec/fiw146] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Revised: 04/28/2016] [Accepted: 06/27/2016] [Indexed: 12/29/2022] Open
Abstract
In this paper, we describe the microbial composition and their predictive metabolic profile in the sea urchin Lytechinus variegatus gut ecosystem along with samples from its habitat by using NextGen amplicon sequencing and downstream bioinformatics analyses. The microbial communities of the gut tissue revealed a near-exclusive abundance of Campylobacteraceae, whereas the pharynx tissue consisted of Tenericutes, followed by Gamma-, Alpha- and Epsilonproteobacteria at approximately equal capacities. The gut digesta and egested fecal pellets exhibited a microbial profile comprised of Gammaproteobacteria, mainly Vibrio, and Bacteroidetes. Both the seagrass and surrounding sea water revealed Alpha- and Betaproteobacteria. Bray-Curtis distances of microbial communities indicated a clustering profile with low intrasample variation. Predictive metagenomics performed on the microbial communities revealed that the gut tissue had high relative abundances of metabolisms assigned to the KEGG-Level-2 designation of energy metabolisms compared to the gut digesta, which had higher carbohydrate, amino acid and lipid metabolisms. Overall, the results of this study elaborate the spatial distribution of microbial communities in the gut ecosystem of L. variegatus, and specifically a selective attribute for Campylobacteraceae in the gut tissue. Also, the predictive functional significance of bacterial communities in uniquely compartmentalized gut ecosystems of L. variegatus has been described.
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Affiliation(s)
- Joseph A Hakim
- Department of Biology, University of Alabama at Birmingham, 1300 University Blvd, Birmingham, AL 35294, USA
| | - Hyunmin Koo
- Department of Biology, University of Alabama at Birmingham, 1300 University Blvd, Birmingham, AL 35294, USA
| | - Ranjit Kumar
- Center for Clinical and Translational Sciences, University of Alabama at Birmingham, Birmingham, AL 35294, USA
| | - Elliot J Lefkowitz
- Center for Clinical and Translational Sciences, University of Alabama at Birmingham, Birmingham, AL 35294, USA Department of Microbiology, University of Alabama at Birmingham, Birmingham, AL 35294, USA
| | - Casey D Morrow
- Department of Cell, Developmental and Integrative Biology, University of Alabama at Birmingham, 1918 University Blvd., Birmingham, AL 35294, USA
| | - Mickie L Powell
- Department of Biology, University of Alabama at Birmingham, 1300 University Blvd, Birmingham, AL 35294, USA
| | - Stephen A Watts
- Department of Biology, University of Alabama at Birmingham, 1300 University Blvd, Birmingham, AL 35294, USA
| | - Asim K Bej
- Department of Biology, University of Alabama at Birmingham, 1300 University Blvd, Birmingham, AL 35294, USA
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Carey N, Harianto J, Byrne M. Urchins in a high CO2 world: partitioned effects of body-size, ocean warming and acidification on metabolic rate. J Exp Biol 2016; 219:1178-86. [DOI: 10.1242/jeb.136101] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2015] [Accepted: 02/08/2016] [Indexed: 01/18/2023]
Abstract
Body-size and temperature are the major factors explaining metabolic rate, and the additional factor of pH is a major driver at the biochemical level. These three factors have frequently been found to interact, complicating the formulation of broad models predicting metabolic rates and hence ecological functioning. In this first study of the effects of warming and ocean acidification, and their potential interaction, on metabolic rate across a broad body-size range (two-to-three orders of magnitude difference in body mass) we addressed the impact of climate change on the sea urchin Heliocidaris erythrogramma in context with climate projections for east Australia, an ocean warming hotspot. Urchins were gradually introduced to two temperatures (18 and 23 °C) and two pH (7.5 and 8.0), and maintained for two months. That a new physiological steady-state had been reached, otherwise know as acclimation, was validated through identical experimental trials separated by several weeks. The relationship between body-size, temperature and acidification on the metabolic rate of H. erythrogramma was strikingly stable. Both stressors caused increases in metabolic rate; 20% for temperature and 19% for pH. Combined effects were additive; a 44% increase in metabolism. Body-size had a highly stable relationship with metabolic rate regardless of temperature or pH. None of these diverse drivers of metabolism interacted or modulated the effects of the others, highlighting the partitioned nature of how each influences metabolic rate, and the importance of achieving a full acclimation state. Despite these increases in energetic demand there was very limited capacity for compensatory modulating of feeding rate; food consumption increased only in the very smallest specimens, and only in response to temperature, and not pH. Our data show that warming, acidification and body-size all substantially affect metabolism and are highly consistent and partitioned in their effects, and for H. erythrogramma near-future climate change will incur a substantial energetic cost.
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Affiliation(s)
- Nicholas Carey
- Schools of Medical and Biological Sciences, University of Sydney, Sydney, New South Wales 2006, Australia
- Hopkins Marine Station, Stanford University, 120 Ocean View Blvd., Pacific Grove, CA 93950, USA
| | - Januar Harianto
- Schools of Medical and Biological Sciences, University of Sydney, Sydney, New South Wales 2006, Australia
| | - Maria Byrne
- Schools of Medical and Biological Sciences, University of Sydney, Sydney, New South Wales 2006, Australia
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Hakim JA, Koo H, Dennis LN, Kumar R, Ptacek T, Morrow CD, Lefkowitz EJ, Powell ML, Bej AK, Watts SA. An abundance of Epsilonproteobacteria revealed in the gut microbiome of the laboratory cultured sea urchin, Lytechinus variegatus. Front Microbiol 2015; 6:1047. [PMID: 26528245 PMCID: PMC4602345 DOI: 10.3389/fmicb.2015.01047] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2015] [Accepted: 09/14/2015] [Indexed: 11/13/2022] Open
Abstract
In this study, we have examined the bacterial community composition of the laboratory cultured sea urchin Lytechinus variegatus gut microbiome and its culture environment using NextGen amplicon sequencing of the V4 segment of the 16S rRNA gene, and downstream bioinformatics tools. Overall, the gut and tank water was dominated by Proteobacteria, whereas the feed consisted of a co-occurrence of Proteobacteria and Firmicutes at a high abundance. The gut tissue represented Epsilonproteobacteria as dominant, with order Campylobacterales at the highest relative abundance (>95%). However, the pharynx tissue was dominated by class Alphaproteobacteria. The gut digesta and egested fecal pellets had a high abundance of class Gammaproteobacteria, from which Vibrio was found to be the primary genus, and Epsilonproteobacteria, with genus Arcobacter occurring at a moderate level. At the class level, the tank water was dominated by Gammaproteobacteria, and the feed by Alphaproteobacteria. Multi-Dimensional Scaling analysis showed that the microbial community of the gut tissue clustered together, as did the pharynx tissue to the feed. The gut digesta and egested fecal pellets showed a similarity relationship to the tank water. Further analysis of Campylobacterales at a lower taxonomic level using the oligotyping method revealed 37 unique types across the 10 samples, where Oligotype 1 was primarily represented in the gut tissue. BLAST analysis identified Oligotype 1 to be Arcobacter sp., Sulfuricurvum sp., and Arcobacter bivalviorum at an identity level >90%. This study showed that although distinct microbial communities are evident across multiple components of the sea urchin gut ecosystem, there is a noticeable correlation between the overall microbial communities of the gut with the sea urchin L. variegatus culture environment.
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Affiliation(s)
- Joseph A Hakim
- Department of Biology, University of Alabama at Birmingham Birmingham, AL, USA
| | - Hyunmin Koo
- Department of Biology, University of Alabama at Birmingham Birmingham, AL, USA
| | - Lacey N Dennis
- Department of Biology, University of Alabama at Birmingham Birmingham, AL, USA
| | - Ranjit Kumar
- Biomedical Informatics, Center for Clinical and Translational Sciences, University of Alabama at Birmingham Birmingham, AL, USA
| | - Travis Ptacek
- Biomedical Informatics, Center for Clinical and Translational Sciences, University of Alabama at Birmingham Birmingham, AL, USA ; Department of Microbiology, University of Alabama at Birmingham Birmingham, AL, USA
| | - Casey D Morrow
- Cell, Developmental, and Integrative Biology, University of Alabama at Birmingham Birmingham, AL, USA
| | - Elliot J Lefkowitz
- Biomedical Informatics, Center for Clinical and Translational Sciences, University of Alabama at Birmingham Birmingham, AL, USA ; Department of Microbiology, University of Alabama at Birmingham Birmingham, AL, USA
| | - Mickie L Powell
- Department of Biology, University of Alabama at Birmingham Birmingham, AL, USA
| | - Asim K Bej
- Department of Biology, University of Alabama at Birmingham Birmingham, AL, USA
| | - Stephen A Watts
- Department of Biology, University of Alabama at Birmingham Birmingham, AL, USA
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Ettensohn CA. Horizontal transfer of themsp130gene supported the evolution of metazoan biomineralization. Evol Dev 2014; 16:139-48. [DOI: 10.1111/ede.12074] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Affiliation(s)
- Charles A. Ettensohn
- Department of Biological Sciences; Carnegie Mellon University; 4400 Fifth Avenue Pittsburgh PA 15213 USA
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