Journal: Microbiome

Article Title: Sulfur-rich deposits associated with the deep submarine volcano Fani Maoré support broad microbial sulfur cycling communities

doi: 10.1186/s40168-025-02153-3

Figure Lengend Snippet: A Taxonomic assignment and relative abundance of the sequences at the phylum level ( Bacillota , Planctomycetota , Verrucomicrobiota , Patescibacteria , Desulfobacterota, Campylobacterota, Bacteroidota ) or class level ( Alphaproteobacteria and Gammaproteobacteria (both from the phylum Pseudomonadota ) in the sulfur-rich sample of the Fani Maoré submarine volcano based on genes encoding the L16 ribosomal protein after read assembly (L16), based on 16S rRNA gene sequences before read assembly (16S), and within the reconstructed MAGs (MAG). For “16S”, “Others” include Bacteria ( Spirochaetota with a relative abundance of 0.026, Bdellovibrionota (0.025), Fusobacteriota (0.0011), Myxococcota (0.0008), Pseudomonadota : Zetaproteobacteria class (0.009)) and Archaea ( Nanoarcheota (0.0008)) and other microbial sequences not assignated to a phylum (0.0254). For L16, “Others” include Pseudomonadota: Zetaproteobacteria class with a relative adundance of 0.007 . B Maximum likelihood phylogenetic tree based on 71 single-copy core genes, constructed with FastTree implemented in Anvi’o, showing the position of the 23 MAGs from the Fani Maoré submarine volcano (in red) and close relatives (in black), indicating the taxonomic affiliation at the phylum level (outer circle), and the estimated optimal growth temperature (middle circle). The environment of origin of the closest relatives is symbolized by a colored dot. The optimal growth temperature of the taxa related to the MAG(s) was calculated using the TOME software and is represented in the form of a colored rectangle (middle circle). Optimal growth temperature ranging from 18 to > 35 °C is represented by colors ranging from dark blue to red, respectively. This tree topology was confirmed by running the same alignment on IQ-TREE by maximum likelihood method, with 1000 iterations (Supplementary Fig. )

Article Snippet: Metabolic pathway prediction was performed by combining results of various software/platforms to annotate the MAGs: Anvi’o (v7.1) ( https://merenlab.org/tutorials/infant-gut/#chapter-v-metabolism-prediction ), Prokka (v1.14.6) [ ] ( https://github.com/tseemann/prokka ) and MaGe MicroScope (v3.16.0) ( https://mage.genoscope.cns.fr/microscope/mage/index.php ).

Techniques: Bacteria, Construct, Software

Journal: Microbiome

Article Title: Sulfur-rich deposits associated with the deep submarine volcano Fani Maoré support broad microbial sulfur cycling communities

doi: 10.1186/s40168-025-02153-3

Figure Lengend Snippet: Map illustrating the presence of complete metabolic pathways or the presence of a gene- or gene clusters-encoding proteins after gene prediction with Prokka, MaGe and Anvi’o, for 22 MAGs from the Fani Maoré submarine volcano. Genes involved in iron metabolism were predicted with FeGenie. Patescibacteria _MAG21 is not included because it does not code for any of these pathways/enzymes with the exception of the Fur enzyme. *The presence of carbon fixation pathways was based on the search for key enzymes for each pathway and are indicated by a dark blue rectangle if key enzymes were present. For the CBB cycle, the key enzyme sought was the ribulose-1,5-bisphosphate carboxylase/oxygenase (RuBisCO), for the rTCA cycle, the key enzymes were 2-oxoglutarate synthase and isocitrate dehydrogenase, for the reductive acetyl-CoA pathway, the key enzymes were the NADP + dependent formate dehydrogenase, the carbon-monoxide dehydrogenase and the carbon-monoxide-methylating acetyl-CoA synthase, for the 3-HP, the key enzymes were the acetyl-CoA carboxylase and the propionyl-CoA carboxylase, for the 3-HP/4-HB, the key enzymes were the acetyl-CoA carboxylase and the propionyl-CoA carboxylase, and for the DC/4-HB, the key enzymes were the pyruvate synthase and the phosphoenolpyruvate carboxylase. For other metabolisms, the presence of complete pathways or the presence of genes clusters coding for the enzymes listed, are indicated by a dark blue rectangle

Article Snippet: Metabolic pathway prediction was performed by combining results of various software/platforms to annotate the MAGs: Anvi’o (v7.1) ( https://merenlab.org/tutorials/infant-gut/#chapter-v-metabolism-prediction ), Prokka (v1.14.6) [ ] ( https://github.com/tseemann/prokka ) and MaGe MicroScope (v3.16.0) ( https://mage.genoscope.cns.fr/microscope/mage/index.php ).

Techniques: