Roseivivax
            marinus sp. nov., isolated from deep water

Dai, Xiaofeng; Shi, Xiaochong; Gao, Xin; Liu, Jingli; Zhang, Xiaohua

doi:10.1099/ijs.0.062760-0

Cited by 18 publications

(5 citation statements)

References 19 publications

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“…In this study, Photobacterium was enriched in the intestine of the fast‐growing shrimp in the indoor pond but were also found in the slow‐growing shrimp in the outdoor pond, which indicated that even if it was the same kind of bacteria, its function was environmentally dependent. Roseivivax is Gram‐stain‐negative, strictly aerobic, nonmotile, cream, long rod‐shaped bacterium and abundant in marine environments (Dai, Shi, Gao, Liu, & Zhang, 2014). In this study, we found that Roseivivax was enriched in the intestine of the fast‐growing shrimp in both the indoor and outdoor ponds, indicating that this bacterium is related to the growth of shrimp.…”

Section: Discussionmentioning

confidence: 99%

Characterization of bacterial community in intestinal and rearing water of Penaeus monodon differing growth performances in outdoor and indoor ponds

et al. 2020

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Penaeus monodon provides a high‐quality protein source for humanity, and pond cultured shrimp often presents asynchronous growth. Microbial communities are important for the digestion and immunity of shrimp. Therefore, in this study, we investigated the bacterial characteristics of the intestine and rearing water of asynchronously growing P. monodon that were cultured in outdoor and indoor pond respectively. The results showed that the bacterial community of the rearing water was more complex than that of the intestine; the fast‐growing shrimp in the indoor pond had higher intestinal bacterial diversity. Besides, the dominant bacterial composition of the water was more complex than that of the intestinal. Specifically, the abundance of Proteobacteria in the intestine was consistent with the growth performance of shrimp in the outdoor pond, which was exactly the opposite in the indoor pond. At the genus level, two cyanobacteria, Limnothrix and Cyanobium PCC‐6307, were dominant in the indoor and outdoor water respectively. In the outdoor pond, Bacillus was dominant in the slow‐growing shrimp intestines, while Vibrio was dominant in the fast‐growing shrimp. The intestinal microbes of the fast‐growing shrimp had higher proteasome metabolic capacity. These results can provide new insights into microbiome characteristics involved in the asynchronous growth of shrimp.

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Section: Discussionmentioning

confidence: 99%

Characterization of bacterial community in intestinal and rearing water of Penaeus monodon differing growth performances in outdoor and indoor ponds

et al. 2020

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“…Compared with the genus Roseivivax , strain SCR17 T also contained C 16 : 0 and anteiso-C 15 : 0 as major fatty acids. The genomic DNA G+C content of strain SCR17 T was approximately 67.7 mol%, which was higher than for the genus Aquicoccus (59.3 %) [13], and within the range for the genus Roseivivax (64.1–69.8 mol %) [15, 41–45]. More detailed phylogenetic and chemotaxonomic characteristics are given in the genus/species description, and in and S2.…”

Section: Full-textmentioning

confidence: 99%

“…The core genome tree showed that strain SCR17 T formed a distinct lineage within the clade including the genera Ponticoccus and Roseivivax, similar to that found in phylogenetic trees reconstructed based on 16S rRNA genes that strain SCR17 T was closely related with the genus Roseivivax . The DNA G+C content of strain SCR17 T was 67.7 mol%, which was higher than for the genus Aquicoccus (59.3 %) [13], and within the range of the genus Roseivivax (64.1–69.8 mol%) [15, 41–45].…”

Section: Full-textmentioning

confidence: 99%

“…The detailed draft genome features of strain SCR17 T are summarized in Table Table 2. Cellular fatty acid content (% of the total) of strain SCR17 T and reference strains Strains: 1, SCR17 T ; 2, Aquicoccus porphyridii JCM 31543 T ; 3, Roseivivax halodurans JCM 10272 T ; 4, Roseivivax pacificus CGMCC 1.12410 T ; 5, Roseivivax halotolerans JCM 10271 T , data from Park [37]; 6, Roseivivax lentus KCTC 22708 T , data from Park et al [42]; 7, Roseivivax isoporae BCRC 17966 T , data from Wu et al [15]; 8, Roseivivax sediminis ACCC 10710 T , data from Wu et al [15]; 9, Roseivivax marinus JCM 19386 T , data from Dai et al [43]; 10, R. jejudonensis CDM-17 T , data from Jung et al [41]. The data for strains 1, 2, 3 and 4 are from this study under the same culture conditions.…”

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confidence: 99%

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Carideicomes alvinocaridis gen. nov., sp. nov., a marine bacterium isolated from shrimp gill in a hydrothermal field of Okinawa Trough

Wang

Liu

et al. 2020

International Journal of Systematic and Evolutionary Microbiology

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A Gram-stain-negative, strictly aerobic, oval-shaped, non-motile bacterium with no flagella, designated strain SCR17T, was isolated from a shrimp gill habitat in Tangyin hydrothermal field of Okinawa Trough. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SCR17T formed a lineage within the family ‘ Rhodobacteraceae ’, and shared 16S rRNA gene sequence similarity of 93.2–96.2 % to the related genera Aquicoccus and Roseivivax . Strain SCR17T was able to grow with 0–14 % (w/v) NaCl (optimum, 9–10 %). The sole respiratory quinone was ubiquinone-10. The major polar lipids of strain SCR17T comprised phosphatidylcholine (PC), phosphatidylglycerol (PG), phosphatidylethanolamine (PE), an unidentified aminolipid (AL), an unidentified phospholipid (PL) and an unidentified lipid (L). The predominant fatty acids (more than 10 % of the total fatty acids) were C18 : 1ω7c or/and C18 : 1ω6c, anteiso-C15 : 0, C16 : 0 and C19 : 0 cyclo ω8c . The genomic DNA G+C content of strain SCR17T was 67.7 mol%. Based on polyphasic taxonomic analyses, strain SCR17T is considered to represent a novel species in a new genus of the family ‘ Rhodobacteraceae ’, for which the name Carideicomes alvinocaridis gen. nov., sp. nov. is proposed. The type strain of Carideicomes alvinocaridis is SCR17T (=JCM 33426T=MCCC 1K03732T). The discovery of a novel host-associated bacterium in hydrothermal fields provides an opportunity for the study of host–bacterial symbiosis in extreme environments.

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“…It harbors not only heterotrophic and autotrophic microbes but also mixotrophic microbes that significantly contribute to the carbon cycle of dark biosphere 21 22 23 . Cultivated isolates of RCB are currently classified into 72 genera and 222 species with a valid name, and only 8 species from 7 genera recently have been isolated from bathypelagic water ( Thiobacimonas profunda 24 , Pelagibaca abyssi 25 , Salipiger nanhaiensis 26 , Roseovarius halotolerans 27 , Roseovarius indicus 28 , Palleronia abyssalis 29 , Roseivivax marinus 30 and Seohaeicola westpacificensis 31 ). More than 60 RCB genomes have been sequenced, however, none of deep-sea roseobacter strain sequencing genome is available.…”

mentioning

confidence: 99%

Genomic, physiologic, and proteomic insights into metabolic versatility in Roseobacter clade bacteria isolated from deep-sea water

Tang

Yang

Lin

et al. 2016

Sci Rep

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Roseobacter clade bacteria are ubiquitous in marine environments and now thought to be significant contributors to carbon and sulfur cycling. However, only a few strains of roseobacters have been isolated from the deep-sea water column and have not been thoroughly investigated. Here, we present the complete genomes of phylogentically closed related Thiobacimonas profunda JLT2016 and Pelagibaca abyssi JLT2014 isolated from deep-sea water of the Southeastern Pacific. The genome sequences showed that the two deep-sea roseobacters carry genes for versatile metabolisms with functional capabilities such as ribulose bisphosphate carboxylase-mediated carbon fixation and inorganic sulfur oxidation. Physiological and biochemical analysis showed that T. profunda JLT2016 was capable of autotrophy, heterotrophy, and mixotrophy accompanied by the production of exopolysaccharide. Heterotrophic carbon fixation via anaplerotic reactions contributed minimally to bacterial biomass. Comparative proteomics experiments showed a significantly up-regulated carbon fixation and inorganic sulfur oxidation associated proteins under chemolithotrophic conditions compared to heterotrophic conditions. Collectively, rosebacters show a high metabolic flexibility, suggesting a considerable capacity for adaptation to the marine environment.

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Roseivivax marinus sp. nov., isolated from deep water

Cited by 18 publications

References 19 publications

Characterization of bacterial community in intestinal and rearing water of Penaeus monodon differing growth performances in outdoor and indoor ponds

Characterization of bacterial community in intestinal and rearing water of Penaeus monodon differing growth performances in outdoor and indoor ponds

Carideicomes alvinocaridis gen. nov., sp. nov., a marine bacterium isolated from shrimp gill in a hydrothermal field of Okinawa Trough

Genomic, physiologic, and proteomic insights into metabolic versatility in Roseobacter clade bacteria isolated from deep-sea water

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