Metabolic Adaptation to Sulfur of Hyperthermophilic Palaeococcus pacificus DY20341T from Deep-Sea Hydrothermal Sediments

Zeng, Xiang; Zhang, Xiaobo; Shao, Zongze

doi:10.3390/ijms21010368

Cited by 9 publications

(10 citation statements)

References 55 publications

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“…Some strains, such as Pyrococcus kukulkanii or Palaeococcus ferrophilus, require sulfur or Fe (II) in the culture medium to grow, and some others can grow via carboxydotrophy. Thermococcales strains require high temperatures to grow; some of them also can survive for a long time in cold conditions, such as hydrothermal sediments and then quickly respond to the high temperature and energy supply by complex organic matter or elemental sulfur (Mora et al 2014;Zeng et al 2020). Piezophilic features are also widespread in this order (Dalmasso et al 2016;Zeng et al 2009) and some strains tolerate high doses of gamma radiation (Jolivet et al 2004).…”

Section: Archaea-euryarchaeotamentioning

confidence: 99%

Microorganisms from deep-sea hydrothermal vents

Zeng

Alain

Shao

2021

Mar Life Sci Technol

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With a rich variety of chemical energy sources and steep physical and chemical gradients, hydrothermal vent systems offer a range of habitats to support microbial life. Cultivation-dependent and independent studies have led to an emerging view that diverse microorganisms in deep-sea hydrothermal vents live their chemolithoautotrophic, heterotrophic, or mixotrophic life with versatile metabolic strategies. Biogeochemical processes are mediated by microorganisms, and notably, processes involving or coupling the carbon, sulfur, hydrogen, nitrogen, and metal cycles in these unique ecosystems. Here, we review the taxonomic and physiological diversity of microbial prokaryotic life from cosmopolitan to endemic taxa and emphasize their significant roles in the biogeochemical processes in deep-sea hydrothermal vents. According to the physiology of the targeted taxa and their needs inferred from meta-omics data, the media for selective cultivation can be designed with a wide range of physicochemical conditions such as temperature, pH, hydrostatic pressure, electron donors and acceptors, carbon sources, nitrogen sources, and growth factors. The application of novel cultivation techniques with real-time monitoring of microbial diversity and metabolic substrates and products are also recommended.

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Section: Archaea-euryarchaeotamentioning

confidence: 99%

Microorganisms from deep-sea hydrothermal vents

Zeng

Alain

Shao

2021

Mar Life Sci Technol

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“…Deep-sea hydrothermal vent is one of the most extreme environments on earth and provides unique and diverse habitats for various microorganisms (Zeng et al, 2020). However, the sharp physical and chemical gradients across the vent chimneys and their surroundings impose great challenges to bacterial survival (Sievert et al, 2008a).…”

Section: Introductionmentioning

confidence: 99%

Characterization of Sulfurimonas hydrogeniphila sp. nov., a Novel Bacterium Predominant in Deep-Sea Hydrothermal Vents and Comparative Genomic Analyses of the Genus Sulfurimonas

Wang

Jiang

et al. 2021

Front. Microbiol.

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Bacteria of the genus Sulfurimonas within the class Campylobacteria are predominant in global deep-sea hydrothermal environments and widespread in global oceans. However, only few bacteria of this group have been isolated, and their adaptations for these extreme environments remain poorly understood. Here, we report a novel mesophilic, hydrogen- and sulfur-oxidizing bacterium, strain NW10T, isolated from a deep-sea sulfide chimney of Northwest Indian Ocean.16S rRNA gene sequence analysis showed that strain NW10T was most closely related to the vent species Sulfurimonas paralvinellae GO25T with 95.8% similarity, but ANI and DDH values between two strains were only 19.20 and 24.70%, respectively, indicating that strain NW10 represents a novel species. Phenotypic characterization showed strain NW10T is an obligate chemolithoautotroph utilizing thiosulfate, sulfide, elemental sulfur, or molecular hydrogen as energy sources, and molecular oxygen, nitrate, or elemental sulfur as electron acceptors. Moreover, hydrogen supported a better growth than reduced sulfur compounds. During thiosulfate oxidation, the strain can produce extracellular sulfur of elemental α-S8 with an unknown mechanism. Polyphasic taxonomy results support that strain NW10T represents a novel species of the genus Sulfurimonas, and named as Sulfurimonas hydrogeniphila sp. nov. Genome analyses revealed its diverse energy metabolisms driving carbon fixation via rTCA cycling, including pathways of sulfur/hydrogen oxidation, coupled oxygen/sulfur respiration and denitrification. Comparative analysis of the 11 available genomes from Sulfurimonas species revealed that vent bacteria, compared to marine non-vent strains, possess unique genes encoding Type V Sqr, Group II, and Coo hydrogenase, and are selectively enriched in genes related to signal transduction and inorganic ion transporters. These phenotypic and genotypic features of vent Sulfurimonas may explain their thriving in hydrothermal environments and help to understand the ecological role of Sulfurimonas bacteria in hydrothermal ecosystems.

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“…Previous studies have demonstrated that polysaccharides recycled at the ocean bottom can remain there for a long time and are important carbon sources for the hadal microbiota (Nunoura et al, 2015;Luo et al, 2017). Evidence that protein degradation provides important carbon sources, indicated by the abundance of dipeptide and oligopeptide transporters, has been also documented in previous studies on deep-sea microbes (Zhang et al, 2015;Zeng et al, 2020). Excepting the Sulfitobacter sp.…”

Section: A L C a N I V O R A X A L I I D O N G I A A L T E R O M O N A S A N A E R O H A L O S P H A E R A B U R K H O L D E R I A C A N mentioning

confidence: 82%

Culture Enrichment Combined With Long-Read Sequencing Facilitates Genomic Understanding of Hadal Sediment Microbes

Wang

Fan

et al. 2021

Front. Mar. Sci.

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Culture enrichment was developed to discover the uncharted microbial species in the environmental microbiota. Yet this strategy has not been widely used to study microbes of deep-sea environments. Here, we report the cultivation and metagenomic analysis of oceanic sediment microbiota collected from 6,477 m deep in the Mariana Trench. The sediment samples were cultured anaerobically in the laboratory for 4 months, before being subjected to full-length 16S rRNA gene sequencing using the PacBio technique and metagenome sequencing using both the Illumina and Oxford Nanopore techniques. The 16S rRNA gene analyses revealed 437 operational taxonomic units specific to the cultured microbes, despite the lower diversity of the cultured microbiota in comparison with the original. Metagenome analyses revealed the prevalence of functions related to respiration, energy production, and stress response in the cultured microbes, suggesting these functions may contribute to microbial proliferation under laboratory conditions. Binning of the assembled metagenome contigs of the cultured microbiota generated four nearly complete genomes affiliated to yet unclassified species under the genera Alcanivorax, Idiomarina, Sulfitobacter, and Erythrobacter. Excepting Alcanivorax, the other three genera were almost undetectable in the original samples and largely enriched in the cultured samples. The four genomes possessed a variety of genes for carbohydrate utilization and nitrite reduction, pointing to an ability to respire diverse carbon sources using nitrite as the final electron acceptor. Taken together, the findings suggest that a combination of culture enrichment and long-read sequencing is an ideal way to mine novel microbial species in the hadal environment, particularly species that are rare in their native environmental niches, and thus expand our understanding of the hadal microbial diversity and function.

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Metabolic Adaptation to Sulfur of Hyperthermophilic Palaeococcus pacificus DY20341T from Deep-Sea Hydrothermal Sediments

Cited by 9 publications

References 55 publications

Microorganisms from deep-sea hydrothermal vents

Microorganisms from deep-sea hydrothermal vents

Characterization of Sulfurimonas hydrogeniphila sp. nov., a Novel Bacterium Predominant in Deep-Sea Hydrothermal Vents and Comparative Genomic Analyses of the Genus Sulfurimonas

Culture Enrichment Combined With Long-Read Sequencing Facilitates Genomic Understanding of Hadal Sediment Microbes

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