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| Jiang, Lijing; Liu, Xuewen; Dong, Chunming; Huang, Zhaobin; Cambon-bonavita, Marie-anne; Alain, Karine; Gu, Li; Wang, Shasha; Shao, Zongze. |
| 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... |
| Tipo: Text |
Palavras-chave: Deltaproteobacteria; Rimicaris exoculata; Wood-Ljungdahl pathway; Epibiont; Sulfur disproportionation. |
| Ano: 2020 |
URL: https://archimer.ifremer.fr/doc/00624/73600/76007.pdf |
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| Jiang, Lijing; L'Haridon, Stephane; Jebbar, Mohamed; Xu, Hongxiu; Alain, Karine; Shao, Zongze. |
| Kosmotoga pacifica strain SLHLJ1T is a thermophilic chemoorganoheterotrophic bacterium isolated from a deep-sea hydrothermal sediment. It belongs to the physiologically homogeneous Thermotogaceae family. Here, we describe the phenotypic features of K. pacifica together with its genome sequence and annotation. The chromosome has 2,169,170 bp, organized in one contig. A total of 1897 candidate protein-encoding genes and 177 RNA genes were identified. The 16S rRNA gene sequence of this strain is distantly related to sequences of some relatives classified in the same genus (K. olearia 7.02% and K. shengliensis 7.83%), with dissimilarity percentages close to the threshold generally described for genus delineation. Nevertheless, the percentage of conserved... |
| Tipo: Text |
Palavras-chave: Marine; Hydrothermal vent; Thermotogales; Chemoorganoheterotroph; Thermophile. |
| Ano: 2017 |
URL: http://archimer.ifremer.fr/doc/00371/48191/48324.pdf |
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| Zeng, Xiang; Jebbar, Mohamed; Shao, Zongze. |
| We report the genome sequence of Palaeococcus pacificus DY20341(T), isolated from a sediment sample collected from eastern Pacific Ocean hydrothermal fields, which is the first report of a complete genome for a Palaeococcus species. The genome sequence will help to better understand differentiation phylogenetic relationships and evolution of several Thermococcales species. |
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| Ano: 2015 |
URL: https://archimer.ifremer.fr/doc/00601/71312/69741.pdf |
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| Cao, Junwei; Birien, Tiphaine; Gayet, Nicolas; Huang, Zhaobin; Shao, Zongze; Jebbar, Mohamed; Alain, Karine. |
| A novel sulfur-reducing bacterium, strain K6013(T), was isolated from a sulfide sample collected at a depth of 2771 m from a high-temperature hydrothermal vent in the Indian Ocean. Cells were Gram-stain-negative, anaerobic, motile rods (0.92.2 x 0.4-0.6 mu m). The strain grew at NaCl concentrations ranging from 1 to 4.5% (w/v) (optimum 2.5 %), at pH 5 to 8 (optimum pH 6), and at temperatures between 40 and 75 degrees C (optimum 65 degrees C). K6013(T) was an obligate chemolithoautotroph, using thiosulfate, sulfur and nitrate as terminal electron acceptors in the presence of H-2 but not sulfate, sulfite nor nitrite. The major cellular fatty acids were C-16 : 0 (17.4 %), C-18 : 1 omega 7c/C-18 : 1 omega 6c (ummed feature 8, 37.91 %), C-18 : 0 (18.29 %) and... |
| Tipo: Text |
Palavras-chave: Desulfurobacterium; Thermophilic; Hydrothermal vent; Chemolithoautotroph; Sulfur-reducer. |
| Ano: 2017 |
URL: http://archimer.ifremer.fr/doc/00395/50637/53724.pdf |
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| Cao, Junwei; Maignien, Lois; Shao, Zongze; Alain, Karine; Jebbar, Mohamed. |
| The complete genome sequence of Desulfovibrio indicus J2(T), a member of the family Desulfovibrionaceae, consists of 3,966,573-bp in one contig and encodes 3,461 predicted genes, 5 noncoding RNAs, 3 rRNAs operons, and 52 tRNA-encoding genes. The genome is consistent with a heterotrophic, anaerobic lifestyle including the sulfate reduction pathway. |
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| Ano: 2016 |
URL: https://archimer.ifremer.fr/doc/00601/71311/69740.pdf |
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| Allioux, Maxime; Yvenou, Steven; Slobodkina, Galina; Slobodkin, Alexander; Shao, Zongze; Jebbar, Mohamed; Alain, Karine. |
| Marine hydrothermal systems are characterized by a pronounced biogeochemical sulfur cycle with the participation of sulfur-oxidizing, sulfate-reducing and sulfur-disproportionating microorganisms. The diversity and metabolism of sulfur disproportionators are studied to a much lesser extent compared with other microbial groups. Dissulfurirhabdus thermomarina SH388T is an anaerobic thermophilic bacterium isolated from a shallow sea hydrothermal vent. D. thermomarina is an obligate chemolithoautotroph able to grow by the disproportionation of sulfite and elemental sulfur. Here, we present the results of the sequencing and analysis of the high-quality draft genome of strain SH388T. The genome consists of a one circular chromosome of 2,461,642 base pairs, has a... |
| Tipo: Text |
Palavras-chave: Genome annotation; Dissulfurirhabdus; Shallow sea hydrothermal vents; Inorganic sulfur compound disproportionation. |
| Ano: 2020 |
URL: https://archimer.ifremer.fr/doc/00651/76270/77245.pdf |
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| L'Haridon, Stephane; Jiang, Lijing; Alain, Karine; Chalopin, Morgane; Rouxel, Ouafae; Beauverger, Mikael; Xu, Hongxiu; Shao, Zongze; Jebbar, Mohamed. |
| A novel strictly anaerobic thermophilic heterotrophic bacterium, strain SLHLJ1T, was isolated from a Pacific hydrothermal sediment. Cells were Gram-negative coccobacilli (approximately 1.0 × 0.6 μm) with a toga. It grew at temperatures between 33 and 78 °C (optimum 70 °C). Elemental sulphur and l-cystine stimulated its growth. It contained C16:0, C16:1 ω11c, C18:0 and C18:1 ω9c as major fatty acids (>5 %), 3 phospholipids and 2 glycolipids as polar lipids. Its DNA G+C content was 43.7 mol%. Phylogenetic analyses based on 16S rRNA gene sequences placed strain SLHLJ1T within the family Thermotogaceae. The novel isolate was most closely related to Kosmotoga arenicorallina (97.93 % 16S rRNA gene sequence similarity), K. olearia (92.43 %) and K. shengliensis... |
| Tipo: Text |
Palavras-chave: Thermotogales; Kosmotoga; Kosmotoga pacifica; Hydrothermal sediment. |
| Ano: 2014 |
URL: http://archimer.ifremer.fr/doc/00171/28204/26509.pdf |
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| Cao, Junwei; Gayet, Nicolas; Zeng, Xiang; Shao, Zongze; Jebbar, Mohamed; Alain, Karine. |
| A novel sulfate-reducing bacterium, strain J2(T), was isolated from a serpentinized peridotite sample from the Indian Ocean. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain J2(T) clustered with the genus Desulfovibrio within the family Desulfovibrionaceae, but it showed low similarity (87.95 %) to the type species Desulfovibrio desulfuricans DSM 642(T). It was most closely related to Desulfovibrio portus MSL79(T) (96.96 %), followed by Desulfovibrio aespoeensis Aspo-2(T) (96.11 %), Desulfovibrio piezophilus C1TLV30(T) (96.04 %) and Desulfovibrio profundus DSM 11384(T) (95.17 %). Other available sequences shared less than 93.33 % 16S rRNA gene sequence similarity. Cells were Gram-staining-negative, anaerobic, motile vibrios (2-6 x... |
| Tipo: Text |
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| Ano: 2016 |
URL: http://archimer.ifremer.fr/doc/00359/47018/47131.pdf |
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