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Metagenomes of microbial mats and assembled microbial genomes

ABSTRACT: Microbial mats from a hypersaline lagoon system

PROVIDER: PRJNA675017 | ENA |

REPOSITORIES: ENA

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Project description:Omics approaches employed to study biological molecules have revolutionized environmental microbiology and elevated our understanding of ecological processes in the biosphere. However, conventional omics applications often lead to the loss of information about macromolecular organization of the molecules within the cellular context. This can be a significant disadvantage since many proteins are functional only as macromolecular complexes in particular structural forms. A great example is bacterial contractile injection system (CIS), a syringe-like protein complex whose function is the translocation of molecules into a target cell to affect its state, often inducing lysis. Since the function of CIS is tightly linked to its intracellular localization, proteomics cannot confidently predict the function of novel uncharacterized CISs in natura. To overcome this challenge, we have developed a cryo-electron tomography workflow as a technique complementing metagenomics and proteomics. Additionally, we developed an immuno-electron microscopy protocol to identify and quantify CIS particles in environmental samples. Using this approach, we discovered a novel bacterial CIS in thermophilic multicellular Chloroflexota bacteria populating hot spring mats worldwide. We found that this system is similar phylogenetically and structurally to a recently described cytoplasmic CIS, which was found in multicellular Streptomyces and has been shown to be involved in cell cycle regulation. Interestingly, using our approaches, we have discovered that Chloroflexota cells produce different numbers of CIS particles depending on the mat micro-niches they occupy. In agreement with this, we observed that CIS was also non-constitutively expressed under laboratory conditions. Motivated by this discovery, we searched and analyzed similar CIS in extremophilic bacteria from other lineages. Overall, we have gained an understanding that bacterial cytoplasmic CIS is an overlooked cellular feature of the extremophilic bacteria, which is potentially involved in the cell fate control or intraspecies interaction within microbial community.

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Metagenomes of microbial mats and assembled microbial genomes

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