The Experts below are selected from a list of 4176 Experts worldwide ranked by ideXlab platform
Zongze Shao - One of the best experts on this subject based on the ideXlab platform.
-
"Candidatus Desulfobulbus rimicarensis," an Uncultivated Deltaproteobacterial Epibiont from the Deep-Sea Hydrothermal Vent Shrimp Rimicaris exoculata.
Applied and environmental microbiology, 2020Co-Authors: Lijing Jiang, Zhaobin Huang, Xuewen Liu, Chunming Dong, Marie-anne Cambon-bonavita, Karine Alain, Shasha Wang, Zongze ShaoAbstract:The deep-sea hydrothermal vent shrimp Rimicaris exoculata largely depends on a dense epibiotic chemoautotrophic bacterial community within its enlarged cephalothoracic chamber. However, our understanding of shrimp-bacterium interactions is limited. In this report, we focused on the deltaproteobacterial Epibiont of R. exoculata from the relatively unexplored South Mid-Atlantic Ridge. A nearly complete genome of a Deltaproteobacteria Epibiont was binned from the assembled metagenome. Whole-genome phylogenetic analysis reveals that it is affiliated with the genus Desulfobulbus, representing a potential novel species for which the name "Candidatus Desulfobulbus rimicarensis" is proposed. Genomic and transcriptomic analyses reveal that this bacterium utilizes the Wood-Ljungdahl pathway for carbon assimilation and harvests energy via sulfur disproportionation, which is significantly different from other shrimp Epibionts. Additionally, this Epibiont has putative nitrogen fixation activity, but it is extremely active in directly taking up ammonia and urea from the host or vent environments. Moreover, the Epibiont could be distinguished from its free-living relatives by various features, such as the lack of chemotaxis and motility traits, a dramatic reduction in biosynthesis genes for capsular and extracellular polysaccharides, enrichment of genes required for carbon fixation and sulfur metabolism, and resistance to environmental toxins. Our study highlights the unique role and symbiotic adaptation of Deltaproteobacteria in deep-sea hydrothermal vent shrimps.IMPORTANCE The shrimp Rimicaris exoculata represents the dominant faunal biomass at many deep-sea hydrothermal vent ecosystems along the Mid-Atlantic Ridge. This organism harbors dense bacterial Epibiont communities in its enlarged cephalothoracic chamber that play an important nutritional role. Deltaproteobacteria are ubiquitous in epibiotic communities of R. exoculata, and their functional roles as Epibionts are based solely on the presence of functional genes. Here, we describe "Candidatus Desulfobulbus rimicarensis," an uncultivated deltaproteobacterial Epibiont. Compared to campylobacterial and gammaproteobacterial Epibionts of R. exoculata, this bacterium possessed unique metabolic pathways, such as the Wood-Ljungdahl pathway, as well as sulfur disproportionation and nitrogen fixation pathways. Furthermore, this Epibiont can be distinguished from closely related free-living Desulfobulbus strains by its reduced genetic content and potential loss of functions, suggesting unique adaptations to the shrimp host. This study is a genomic and transcriptomic analysis of a deltaproteobacterial Epibiont and largely expands the understanding of its metabolism and adaptation to the R. exoculata host.
-
“ Candidatus Desulfobulbus rimicarensis,” an Uncultivated Deltaproteobacterial Epibiont from the Deep-Sea Hydrothermal Vent Shrimp Rimicaris exoculata
Applied and Environmental Microbiology, 2020Co-Authors: Lijing Jiang, Zhaobin Huang, Xuewen Liu, Chunming Dong, Marie-anne Cambon-bonavita, Karine Alain, Shasha Wang, Zongze ShaoAbstract:The deep-sea hydrothermal vent shrimp Rimicaris exoculata largely depends on a dense epibiotic chemoautotrophic bacterial community within its enlarged cephalothoracic chamber. However, our understanding of shrimp-bacterium interactions is limited. In this report, we focused on the deltaproteobacterial Epibiont of R. exoculata from the relatively unexplored South Mid-Atlantic Ridge. A nearly complete genome of a Deltaproteobacteria Epibiont was binned from the assembled metagenome. Whole-genome phylogenetic analysis reveals that it is affiliated with the genus Desulfobulbus, representing a potential novel species for which the name "Candidatus Desulfobulbus rimicarensis" is proposed. Genomic and transcriptomic analyses reveal that this bacterium utilizes the Wood-Ljungdahl pathway for carbon assimilation and harvests energy via sulfur disproportionation, which is significantly different from other shrimp Epibionts. Additionally, this Epibiont has putative nitrogen fixation activity, but it is extremely active in directly taking up ammonia and urea from the host or vent environments. Moreover , the Epibiont could be distinguished from its free-living relatives by various features , such as the lack of chemotaxis and motility traits, a dramatic reduction in biosynthesis genes for capsular and extracellular polysaccharides, enrichment of genes required for carbon fixation and sulfur metabolism, and resistance to environmental tox-ins. Our study highlights the unique role and symbiotic adaptation of Deltaproteobacte-ria in deep-sea hydrothermal vent shrimps. IMPORTANCE The shrimp Rimicaris exoculata represents the dominant faunal biomass at many deep-sea hydrothermal vent ecosystems along the Mid-Atlantic Ridge. This organism harbors dense bacterial Epibiont communities in its enlarged cephalothoracic chamber that play an important nutritional role. Deltaproteobacteria are ubiquitous in epibiotic communities of R. exoculata, and their functional roles as Epibionts are based solely on the presence of functional genes. Here, we describe "Candidatus Desulfobulbus rimicarensis," an uncultivated deltaproteobacterial Epibiont. Compared to campylobacte-rial and gammaproteobacterial Epibionts of R. exoculata, this bacterium possessed unique metabolic pathways, such as the Wood-Ljungdahl pathway, as well as sulfur dis-proportionation and nitrogen fixation pathways. Furthermore, this Epibiont can be distinguished from closely related free-living Desulfobulbus strains by its reduced genetic content and potential loss of functions, suggesting unique adaptations to the shrimp host. This study is a genomic and transcriptomic analysis of a deltaproteobacterial epib-iont and largely expands the understanding of its metabolism and adaptation to the R. exoculata host.
Lijing Jiang - One of the best experts on this subject based on the ideXlab platform.
-
"Candidatus Desulfobulbus rimicarensis," an Uncultivated Deltaproteobacterial Epibiont from the Deep-Sea Hydrothermal Vent Shrimp Rimicaris exoculata.
Applied and environmental microbiology, 2020Co-Authors: Lijing Jiang, Zhaobin Huang, Xuewen Liu, Chunming Dong, Marie-anne Cambon-bonavita, Karine Alain, Shasha Wang, Zongze ShaoAbstract:The deep-sea hydrothermal vent shrimp Rimicaris exoculata largely depends on a dense epibiotic chemoautotrophic bacterial community within its enlarged cephalothoracic chamber. However, our understanding of shrimp-bacterium interactions is limited. In this report, we focused on the deltaproteobacterial Epibiont of R. exoculata from the relatively unexplored South Mid-Atlantic Ridge. A nearly complete genome of a Deltaproteobacteria Epibiont was binned from the assembled metagenome. Whole-genome phylogenetic analysis reveals that it is affiliated with the genus Desulfobulbus, representing a potential novel species for which the name "Candidatus Desulfobulbus rimicarensis" is proposed. Genomic and transcriptomic analyses reveal that this bacterium utilizes the Wood-Ljungdahl pathway for carbon assimilation and harvests energy via sulfur disproportionation, which is significantly different from other shrimp Epibionts. Additionally, this Epibiont has putative nitrogen fixation activity, but it is extremely active in directly taking up ammonia and urea from the host or vent environments. Moreover, the Epibiont could be distinguished from its free-living relatives by various features, such as the lack of chemotaxis and motility traits, a dramatic reduction in biosynthesis genes for capsular and extracellular polysaccharides, enrichment of genes required for carbon fixation and sulfur metabolism, and resistance to environmental toxins. Our study highlights the unique role and symbiotic adaptation of Deltaproteobacteria in deep-sea hydrothermal vent shrimps.IMPORTANCE The shrimp Rimicaris exoculata represents the dominant faunal biomass at many deep-sea hydrothermal vent ecosystems along the Mid-Atlantic Ridge. This organism harbors dense bacterial Epibiont communities in its enlarged cephalothoracic chamber that play an important nutritional role. Deltaproteobacteria are ubiquitous in epibiotic communities of R. exoculata, and their functional roles as Epibionts are based solely on the presence of functional genes. Here, we describe "Candidatus Desulfobulbus rimicarensis," an uncultivated deltaproteobacterial Epibiont. Compared to campylobacterial and gammaproteobacterial Epibionts of R. exoculata, this bacterium possessed unique metabolic pathways, such as the Wood-Ljungdahl pathway, as well as sulfur disproportionation and nitrogen fixation pathways. Furthermore, this Epibiont can be distinguished from closely related free-living Desulfobulbus strains by its reduced genetic content and potential loss of functions, suggesting unique adaptations to the shrimp host. This study is a genomic and transcriptomic analysis of a deltaproteobacterial Epibiont and largely expands the understanding of its metabolism and adaptation to the R. exoculata host.
-
“ Candidatus Desulfobulbus rimicarensis,” an Uncultivated Deltaproteobacterial Epibiont from the Deep-Sea Hydrothermal Vent Shrimp Rimicaris exoculata
Applied and Environmental Microbiology, 2020Co-Authors: Lijing Jiang, Zhaobin Huang, Xuewen Liu, Chunming Dong, Marie-anne Cambon-bonavita, Karine Alain, Shasha Wang, Zongze ShaoAbstract:The deep-sea hydrothermal vent shrimp Rimicaris exoculata largely depends on a dense epibiotic chemoautotrophic bacterial community within its enlarged cephalothoracic chamber. However, our understanding of shrimp-bacterium interactions is limited. In this report, we focused on the deltaproteobacterial Epibiont of R. exoculata from the relatively unexplored South Mid-Atlantic Ridge. A nearly complete genome of a Deltaproteobacteria Epibiont was binned from the assembled metagenome. Whole-genome phylogenetic analysis reveals that it is affiliated with the genus Desulfobulbus, representing a potential novel species for which the name "Candidatus Desulfobulbus rimicarensis" is proposed. Genomic and transcriptomic analyses reveal that this bacterium utilizes the Wood-Ljungdahl pathway for carbon assimilation and harvests energy via sulfur disproportionation, which is significantly different from other shrimp Epibionts. Additionally, this Epibiont has putative nitrogen fixation activity, but it is extremely active in directly taking up ammonia and urea from the host or vent environments. Moreover , the Epibiont could be distinguished from its free-living relatives by various features , such as the lack of chemotaxis and motility traits, a dramatic reduction in biosynthesis genes for capsular and extracellular polysaccharides, enrichment of genes required for carbon fixation and sulfur metabolism, and resistance to environmental tox-ins. Our study highlights the unique role and symbiotic adaptation of Deltaproteobacte-ria in deep-sea hydrothermal vent shrimps. IMPORTANCE The shrimp Rimicaris exoculata represents the dominant faunal biomass at many deep-sea hydrothermal vent ecosystems along the Mid-Atlantic Ridge. This organism harbors dense bacterial Epibiont communities in its enlarged cephalothoracic chamber that play an important nutritional role. Deltaproteobacteria are ubiquitous in epibiotic communities of R. exoculata, and their functional roles as Epibionts are based solely on the presence of functional genes. Here, we describe "Candidatus Desulfobulbus rimicarensis," an uncultivated deltaproteobacterial Epibiont. Compared to campylobacte-rial and gammaproteobacterial Epibionts of R. exoculata, this bacterium possessed unique metabolic pathways, such as the Wood-Ljungdahl pathway, as well as sulfur dis-proportionation and nitrogen fixation pathways. Furthermore, this Epibiont can be distinguished from closely related free-living Desulfobulbus strains by its reduced genetic content and potential loss of functions, suggesting unique adaptations to the shrimp host. This study is a genomic and transcriptomic analysis of a deltaproteobacterial epib-iont and largely expands the understanding of its metabolism and adaptation to the R. exoculata host.
Gregorio Fernandez-leborans - One of the best experts on this subject based on the ideXlab platform.
-
Epibiontic associations between apostomid ciliates Conidophrys spp. and amphipods associated with fish farms fouling in the western Mediterranean Sea
Helgoland Marine Research, 2016Co-Authors: Gregorio Fernandez-leborans, Victoria Fernandez-gonzalez, Pablo Sanchez-jerez, Alvaro RouraAbstract:Fish farms commonly support high abundances of invertebrates, especially amphipods, associated with fouling communities developed over nets, ropes and buoys. Protozoan Epibiont ciliates of the genus Conidophrys were observed on three of the most abundant amphipod species collected from ropes of a fish farm in the western Mediterranean Sea. The amphipod species were Ericthonius punctatus that presented the Epibiont Conidophrys pitelkae , and Jassa marmorata and Jassa slatteryi with the Epibiont C. pilisuctor. The Epibionts were found in numbers fluctuating between 1 and 119 individuals in Jassa spp. (median value = 8), higher than the number of Epibionts found on E. punctatus that varied between 1 and 39 individuals (median value = 3). The epibiosis on Jassa spp. also showed prevalence values (34.33 %) superior to those of E. punctatus (24 %). Differential distribution of the Epibiont species on the surface of basibionts was detected: Conidophrys pilisuctor were more frequently found on the head and gnathopods of Jassa spp., while C. pitelkae were mainly counted on the head of E. punctatus . This is the first time that Conidoprhys were found on these amphipod species.
-
The tag-along friendship: epibiotic protozoans and syllid polychaetes. Implications for the taxonomy of Syllidae (Annelida), and description of three new species of Rhabdostyla and Cothurnia (Ciliophora, Peritrichia)
Zoological Journal of the Linnean Society, 2014Co-Authors: Patricia Álvarez-campos, Gregorio Fernandez-leborans, Aida Verdes, Guillermo San Martín, Daniel Martin, Ana RiesgoAbstract:The presence of peritrich ciliate Epibionts Rhabdostyla sp. and Cothurnia sp. on Syllidae polychaetes is reported here for the first time, including the description of three new species of Epibiont ciliates. The protozoans were mainly found at intersegmental furrows, close to parapodial bases of newly collected specimens of Syllis magdalena Wesenberg-Lund, 1962, Syllis sp., Salvatoria sp., and Salvatoria concinna (Westheide, 1974) comb. nov. from Chile, Syllis prolifera Krohn, 1852 from Spain, and Prosphaerosyllis magnoculata (Hartmann-Schroder, 1986) from New Zealand. In addition, Epibiont protozoans were found on the dorsal surface, nuchal organs, mouth opening, and anterior cirri of Syllis elongata Day, 1949 from Peru, and the ventral surface of Typosyllis macropectinans Hartmann-Schroder, 1982 from Australia. The discovery of protozoan Epibionts on syllid polychaetes has important taxonomic implications that are discussed here. The presence of papillae that are in fact misinterpreted ciliate Epibionts has been considered a valid character to distinguish among species or to erect new species of Syllidae, and thus the real origin of papillae-like structures in polychaetes should be carefully assessed.
-
A checklist of epibiotic ciliates (Peritrichia and Suctoria) on the cladoceran crustaceans
Biologia, 2013Co-Authors: Tapas Chatterjee, Alexey A. Kotov, Gregorio Fernandez-leboransAbstract:Despite the growing awareness of the ecological importance of Epibiont-host associations, detailed inventories for planktonic hosts are rare. Here, we provide an updated checklist of the peritrich and suctorian Epibiont ciliates (Ciliophora) on the cladocerans (Crustacea: Cladocera). Thirty-nine species of peritrich ciliates (of which 34 are assigned to species) and three species of suctorian ciliates are found to be Epibionts on the Cladocera. Fifty-eight cladoceran taxa are known to be hosts of the ciliate Epibionts, 33 of these hosts (57%) are planktonic. Seven taxa were determined to the level of genus. Complete species designations were geographically biased (38 of 51 species) towards European sites, suggesting poor taxonomic knowledge beyond Europe. Also, the recently discovered continental endemism of cladoceran hosts could indicate that associated ciliates are more diverse than previously appreciated.
-
First report of ciliate (Protozoa) Epibionts on deep-sea harpacticoid copepods
Deep Sea Research Part II: Topical Studies in Oceanography, 2013Co-Authors: Linda Sedlacek, Gregorio Fernandez-leborans, David Thistle, Kevin R. Carman, James P. BarryAbstract:Abstract We report the first observations of ciliate Epibionts on deep-sea, benthic harpacticoid copepods. One ciliate Epibiont species belonged to class Karyorelictea , one to subclass Suctoria , and one to subclass Peritrichia. Our samples came from the continental rise off central California (36.709°N, 123.523°W, 3607 m depth). We found that adult harpacticoids carried ciliate Epibionts significantly more frequently than did subadult copepodids. The reason for the pattern is unknown, but it may involve differences between adults and subadult copepodids in size or in time spent swimming. We also found that the ciliate Epibiont species occurred unusually frequently on the adults of two species of harpacticoid copepod; a third harpacticoid species just failed the significance test. When we ranked the 57 harpacticoid species in our samples in order of abundance, three species identified were, as a group, significantly more abundant than expected by chance if one assumes that the abundance of the group and the presence of ciliate Epibionts on them were uncorrelated. High abundance may be among the reasons a harpacticoid species carries a ciliate Epibiont species disproportionately frequently. For the combinations of harpacticoid species and ciliate Epibiont species identified, we found one in which males and females differed significantly in the proportion that carried Epibionts. Such a sex bias has also been reported for shallow-water, calanoid copepods.
-
Invertebrate and protozoan Epibionts on the velvet swimming crab Liocarcinus puber (Linnaeus, 1767) from Scotland
Acta Zoologica, 2007Co-Authors: Gregorio Fernandez-leborans, Regina GabilondoAbstract:Invertebrate and ciliate protozoan Epibionts of velvet swimming crabs collected near Millport (Scotland) were analysed. The ecdysis peak for male crabs was at the time of collection while that for female crabs was 2 months later. The Epibionts were: the polychaetes Pomatoceros triqueter and Hydroides norvegica, the cirriped Balanus crenatus, the entoproct Barentsia matsushimana, the hydroids Leuckartiara sp. and Clytia sp., and the ciliate protozoans Ephelota plana, Ephelota gemmipara, Chilodochona quennerstedti and Cothurnia longipes. The polychaetes, cirripeds, entoprocts and hydroids, all of them with comparatively larger size, were distributed on the carapace, ventral surface of the cephalothorax and the pereiopods; meanwhile the protozoans, with smaller size, were attached also on pleopods, antennae, eyes and buccal appendages. Chilodochona quennerstedti was the Epibiont most abundant on the crab, followed by Ephelota plana. Cothurnia longipes was, in contrast, the least abundant Epibiont, followed by Barentsia matsushimana. The anatomical unit most colonized was the left third maxilliped, followed by the left first maxilliped and the ventral surface. The less colonized anatomical units were the left antenna and the ocular orbits. Epibionts on this crab have not been described before. Statistical analyses of the Epibiont distribution on the crab were carried out. There were significant correlations between right and left appendages in 66.67% of the cases. Males and females differed significantly with respect to the distribution of Epibionts on their anatomical units. The comparison analysis indicated a significant differential distribution of each Epibiont species on the anatomical units of the crab. Principal component analysis grouped the Epibiont species according to their colonization pattern in three clusters: (1) Ephelota plana, Ephelota gemmipara and Chilodochona quennerstedti; (2) Leuckartiara sp., Clytia sp., Barentsia matsushimana and Cothurnia longipes; and (3) Pomatoceros triqueter, Balanus crenatus and Hydroides norvegica. The hierarchical cluster analysis grouped the anatomical units of the crab in relation to their colonization in five clusters.
Chunming Dong - One of the best experts on this subject based on the ideXlab platform.
-
"Candidatus Desulfobulbus rimicarensis," an Uncultivated Deltaproteobacterial Epibiont from the Deep-Sea Hydrothermal Vent Shrimp Rimicaris exoculata.
Applied and environmental microbiology, 2020Co-Authors: Lijing Jiang, Zhaobin Huang, Xuewen Liu, Chunming Dong, Marie-anne Cambon-bonavita, Karine Alain, Shasha Wang, Zongze ShaoAbstract:The deep-sea hydrothermal vent shrimp Rimicaris exoculata largely depends on a dense epibiotic chemoautotrophic bacterial community within its enlarged cephalothoracic chamber. However, our understanding of shrimp-bacterium interactions is limited. In this report, we focused on the deltaproteobacterial Epibiont of R. exoculata from the relatively unexplored South Mid-Atlantic Ridge. A nearly complete genome of a Deltaproteobacteria Epibiont was binned from the assembled metagenome. Whole-genome phylogenetic analysis reveals that it is affiliated with the genus Desulfobulbus, representing a potential novel species for which the name "Candidatus Desulfobulbus rimicarensis" is proposed. Genomic and transcriptomic analyses reveal that this bacterium utilizes the Wood-Ljungdahl pathway for carbon assimilation and harvests energy via sulfur disproportionation, which is significantly different from other shrimp Epibionts. Additionally, this Epibiont has putative nitrogen fixation activity, but it is extremely active in directly taking up ammonia and urea from the host or vent environments. Moreover, the Epibiont could be distinguished from its free-living relatives by various features, such as the lack of chemotaxis and motility traits, a dramatic reduction in biosynthesis genes for capsular and extracellular polysaccharides, enrichment of genes required for carbon fixation and sulfur metabolism, and resistance to environmental toxins. Our study highlights the unique role and symbiotic adaptation of Deltaproteobacteria in deep-sea hydrothermal vent shrimps.IMPORTANCE The shrimp Rimicaris exoculata represents the dominant faunal biomass at many deep-sea hydrothermal vent ecosystems along the Mid-Atlantic Ridge. This organism harbors dense bacterial Epibiont communities in its enlarged cephalothoracic chamber that play an important nutritional role. Deltaproteobacteria are ubiquitous in epibiotic communities of R. exoculata, and their functional roles as Epibionts are based solely on the presence of functional genes. Here, we describe "Candidatus Desulfobulbus rimicarensis," an uncultivated deltaproteobacterial Epibiont. Compared to campylobacterial and gammaproteobacterial Epibionts of R. exoculata, this bacterium possessed unique metabolic pathways, such as the Wood-Ljungdahl pathway, as well as sulfur disproportionation and nitrogen fixation pathways. Furthermore, this Epibiont can be distinguished from closely related free-living Desulfobulbus strains by its reduced genetic content and potential loss of functions, suggesting unique adaptations to the shrimp host. This study is a genomic and transcriptomic analysis of a deltaproteobacterial Epibiont and largely expands the understanding of its metabolism and adaptation to the R. exoculata host.
-
“ Candidatus Desulfobulbus rimicarensis,” an Uncultivated Deltaproteobacterial Epibiont from the Deep-Sea Hydrothermal Vent Shrimp Rimicaris exoculata
Applied and Environmental Microbiology, 2020Co-Authors: Lijing Jiang, Zhaobin Huang, Xuewen Liu, Chunming Dong, Marie-anne Cambon-bonavita, Karine Alain, Shasha Wang, Zongze ShaoAbstract:The deep-sea hydrothermal vent shrimp Rimicaris exoculata largely depends on a dense epibiotic chemoautotrophic bacterial community within its enlarged cephalothoracic chamber. However, our understanding of shrimp-bacterium interactions is limited. In this report, we focused on the deltaproteobacterial Epibiont of R. exoculata from the relatively unexplored South Mid-Atlantic Ridge. A nearly complete genome of a Deltaproteobacteria Epibiont was binned from the assembled metagenome. Whole-genome phylogenetic analysis reveals that it is affiliated with the genus Desulfobulbus, representing a potential novel species for which the name "Candidatus Desulfobulbus rimicarensis" is proposed. Genomic and transcriptomic analyses reveal that this bacterium utilizes the Wood-Ljungdahl pathway for carbon assimilation and harvests energy via sulfur disproportionation, which is significantly different from other shrimp Epibionts. Additionally, this Epibiont has putative nitrogen fixation activity, but it is extremely active in directly taking up ammonia and urea from the host or vent environments. Moreover , the Epibiont could be distinguished from its free-living relatives by various features , such as the lack of chemotaxis and motility traits, a dramatic reduction in biosynthesis genes for capsular and extracellular polysaccharides, enrichment of genes required for carbon fixation and sulfur metabolism, and resistance to environmental tox-ins. Our study highlights the unique role and symbiotic adaptation of Deltaproteobacte-ria in deep-sea hydrothermal vent shrimps. IMPORTANCE The shrimp Rimicaris exoculata represents the dominant faunal biomass at many deep-sea hydrothermal vent ecosystems along the Mid-Atlantic Ridge. This organism harbors dense bacterial Epibiont communities in its enlarged cephalothoracic chamber that play an important nutritional role. Deltaproteobacteria are ubiquitous in epibiotic communities of R. exoculata, and their functional roles as Epibionts are based solely on the presence of functional genes. Here, we describe "Candidatus Desulfobulbus rimicarensis," an uncultivated deltaproteobacterial Epibiont. Compared to campylobacte-rial and gammaproteobacterial Epibionts of R. exoculata, this bacterium possessed unique metabolic pathways, such as the Wood-Ljungdahl pathway, as well as sulfur dis-proportionation and nitrogen fixation pathways. Furthermore, this Epibiont can be distinguished from closely related free-living Desulfobulbus strains by its reduced genetic content and potential loss of functions, suggesting unique adaptations to the shrimp host. This study is a genomic and transcriptomic analysis of a deltaproteobacterial epib-iont and largely expands the understanding of its metabolism and adaptation to the R. exoculata host.
Shasha Wang - One of the best experts on this subject based on the ideXlab platform.
-
"Candidatus Desulfobulbus rimicarensis," an Uncultivated Deltaproteobacterial Epibiont from the Deep-Sea Hydrothermal Vent Shrimp Rimicaris exoculata.
Applied and environmental microbiology, 2020Co-Authors: Lijing Jiang, Zhaobin Huang, Xuewen Liu, Chunming Dong, Marie-anne Cambon-bonavita, Karine Alain, Shasha Wang, Zongze ShaoAbstract:The deep-sea hydrothermal vent shrimp Rimicaris exoculata largely depends on a dense epibiotic chemoautotrophic bacterial community within its enlarged cephalothoracic chamber. However, our understanding of shrimp-bacterium interactions is limited. In this report, we focused on the deltaproteobacterial Epibiont of R. exoculata from the relatively unexplored South Mid-Atlantic Ridge. A nearly complete genome of a Deltaproteobacteria Epibiont was binned from the assembled metagenome. Whole-genome phylogenetic analysis reveals that it is affiliated with the genus Desulfobulbus, representing a potential novel species for which the name "Candidatus Desulfobulbus rimicarensis" is proposed. Genomic and transcriptomic analyses reveal that this bacterium utilizes the Wood-Ljungdahl pathway for carbon assimilation and harvests energy via sulfur disproportionation, which is significantly different from other shrimp Epibionts. Additionally, this Epibiont has putative nitrogen fixation activity, but it is extremely active in directly taking up ammonia and urea from the host or vent environments. Moreover, the Epibiont could be distinguished from its free-living relatives by various features, such as the lack of chemotaxis and motility traits, a dramatic reduction in biosynthesis genes for capsular and extracellular polysaccharides, enrichment of genes required for carbon fixation and sulfur metabolism, and resistance to environmental toxins. Our study highlights the unique role and symbiotic adaptation of Deltaproteobacteria in deep-sea hydrothermal vent shrimps.IMPORTANCE The shrimp Rimicaris exoculata represents the dominant faunal biomass at many deep-sea hydrothermal vent ecosystems along the Mid-Atlantic Ridge. This organism harbors dense bacterial Epibiont communities in its enlarged cephalothoracic chamber that play an important nutritional role. Deltaproteobacteria are ubiquitous in epibiotic communities of R. exoculata, and their functional roles as Epibionts are based solely on the presence of functional genes. Here, we describe "Candidatus Desulfobulbus rimicarensis," an uncultivated deltaproteobacterial Epibiont. Compared to campylobacterial and gammaproteobacterial Epibionts of R. exoculata, this bacterium possessed unique metabolic pathways, such as the Wood-Ljungdahl pathway, as well as sulfur disproportionation and nitrogen fixation pathways. Furthermore, this Epibiont can be distinguished from closely related free-living Desulfobulbus strains by its reduced genetic content and potential loss of functions, suggesting unique adaptations to the shrimp host. This study is a genomic and transcriptomic analysis of a deltaproteobacterial Epibiont and largely expands the understanding of its metabolism and adaptation to the R. exoculata host.
-
“ Candidatus Desulfobulbus rimicarensis,” an Uncultivated Deltaproteobacterial Epibiont from the Deep-Sea Hydrothermal Vent Shrimp Rimicaris exoculata
Applied and Environmental Microbiology, 2020Co-Authors: Lijing Jiang, Zhaobin Huang, Xuewen Liu, Chunming Dong, Marie-anne Cambon-bonavita, Karine Alain, Shasha Wang, Zongze ShaoAbstract:The deep-sea hydrothermal vent shrimp Rimicaris exoculata largely depends on a dense epibiotic chemoautotrophic bacterial community within its enlarged cephalothoracic chamber. However, our understanding of shrimp-bacterium interactions is limited. In this report, we focused on the deltaproteobacterial Epibiont of R. exoculata from the relatively unexplored South Mid-Atlantic Ridge. A nearly complete genome of a Deltaproteobacteria Epibiont was binned from the assembled metagenome. Whole-genome phylogenetic analysis reveals that it is affiliated with the genus Desulfobulbus, representing a potential novel species for which the name "Candidatus Desulfobulbus rimicarensis" is proposed. Genomic and transcriptomic analyses reveal that this bacterium utilizes the Wood-Ljungdahl pathway for carbon assimilation and harvests energy via sulfur disproportionation, which is significantly different from other shrimp Epibionts. Additionally, this Epibiont has putative nitrogen fixation activity, but it is extremely active in directly taking up ammonia and urea from the host or vent environments. Moreover , the Epibiont could be distinguished from its free-living relatives by various features , such as the lack of chemotaxis and motility traits, a dramatic reduction in biosynthesis genes for capsular and extracellular polysaccharides, enrichment of genes required for carbon fixation and sulfur metabolism, and resistance to environmental tox-ins. Our study highlights the unique role and symbiotic adaptation of Deltaproteobacte-ria in deep-sea hydrothermal vent shrimps. IMPORTANCE The shrimp Rimicaris exoculata represents the dominant faunal biomass at many deep-sea hydrothermal vent ecosystems along the Mid-Atlantic Ridge. This organism harbors dense bacterial Epibiont communities in its enlarged cephalothoracic chamber that play an important nutritional role. Deltaproteobacteria are ubiquitous in epibiotic communities of R. exoculata, and their functional roles as Epibionts are based solely on the presence of functional genes. Here, we describe "Candidatus Desulfobulbus rimicarensis," an uncultivated deltaproteobacterial Epibiont. Compared to campylobacte-rial and gammaproteobacterial Epibionts of R. exoculata, this bacterium possessed unique metabolic pathways, such as the Wood-Ljungdahl pathway, as well as sulfur dis-proportionation and nitrogen fixation pathways. Furthermore, this Epibiont can be distinguished from closely related free-living Desulfobulbus strains by its reduced genetic content and potential loss of functions, suggesting unique adaptations to the shrimp host. This study is a genomic and transcriptomic analysis of a deltaproteobacterial epib-iont and largely expands the understanding of its metabolism and adaptation to the R. exoculata host.