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Frontiers in Microbiology 2022Mangrove forests are dynamic and productive ecosystems rich in microbial diversity; it has been estimated that microbial cells in the mangrove sediments constitute up to...
Insights Into the Cultivable Bacterial Fraction of Sediments From the Red Sea Mangroves and Physiological, Chemotaxonomic, and Genomic Characterization of gen. nov., sp. nov., a Novel Member of the Family.
Mangrove forests are dynamic and productive ecosystems rich in microbial diversity; it has been estimated that microbial cells in the mangrove sediments constitute up to 91% of the total living biomass of these ecosystems. Despite in this ecosystem many of the ecological functions and services are supported and/or carried out by microorganisms (e.g., nutrient cycling and eukaryotic-host adaptation), their diversity and function are overlooked and poorly explored, especially for the oligotrophic mangrove of the Red Sea coast. Here, we investigated the cultivable fraction of bacteria associated with the sediments of Saudi Arabian Red Sea mangrove forest by applying the diffusion-chamber-based approach in combination with oligotrophic medium and long incubation time to allow the growth of bacteria in their natural environment. Cultivation resulted in the isolation of numerous representatives of ( = 51) and ( = 38), along with several less abundant and poorly study taxa ( = 25) distributed across ten genera. Within the latest group, we isolated R1DC41, a novel member of the family in the Firmicutes phylum. It showed 16S rRNA gene similarity of 94.59-97.36% with closest relatives of (which was formerly in the genus), , , and genera. Based on the multilocus sequence analysis (MLSA), R1DC41 strain formed a separated branch from the listed genera, representing a novel species of a new genus for which the name gen. nov., sp. nov. is proposed. Genomic, morphological, and physiological characterizations revealed that R1DC41 is an aerobic, Gram-stain-variable, rod-shaped, non-motile, endospore-forming bacterium. A reduced genome and the presence of numerous transporters used to import the components necessary for its growth and resistance to the stresses imposed by the oligotrophic and salty mangrove sediments make R1DC41 extremely adapted to its environment of origin and to the competitive conditions present within.
PubMed: 35250919
DOI: 10.3389/fmicb.2022.777986 -
Scientific Reports Sep 2016Jeotgalibacillus malaysiensis, a moderate halophilic bacterium isolated from a pelagic area, can endure higher concentrations of sodium chloride (NaCl) than other...
Jeotgalibacillus malaysiensis, a moderate halophilic bacterium isolated from a pelagic area, can endure higher concentrations of sodium chloride (NaCl) than other Jeotgalibacillus type strains. In this study, we therefore chose to sequence and assemble the entire J. malaysiensis genome. This is the first report to provide a detailed analysis of the genomic features of J. malaysiensis, and to perform genetic comparisons between this microorganism and other halophiles. J. malaysiensis encodes a native megaplasmid (pJeoMA), which is greater than 600 kilobases in size, that is absent from other sequenced species of Jeotgalibacillus. Subsequently, RNA-Seq-based transcriptome analysis was utilised to examine adaptations of J. malaysiensis to osmotic stress. Specifically, the eggNOG (evolutionary genealogy of genes: Non-supervised Orthologous Groups) and KEGG (Kyoto Encyclopaedia of Genes and Genomes) databases were used to elucidate the overall effects of osmotic stress on the organism. Generally, saline stress significantly affected carbohydrate, energy, and amino acid metabolism, as well as fatty acid biosynthesis. Our findings also indicate that J. malaysiensis adopted a combination of approaches, including the uptake or synthesis of osmoprotectants, for surviving salt stress. Among these, proline synthesis appeared to be the preferred method for withstanding prolonged osmotic stress in J. malaysiensis.
Topics: Adaptation, Biological; Cluster Analysis; Genome, Bacterial; Genomics; Ion Channels; Metabolic Networks and Pathways; Models, Biological; Osmotic Pressure; Phylogeny; Planococcaceae; Plasmids; Stress, Physiological; Transcriptome
PubMed: 27641516
DOI: 10.1038/srep33660 -
Genome Announcements Oct 2015Jeotgalibacillus alimentarius JY-13(T) (=KCCM 80002(T) = JCM 10872(T)) is a moderate halophile. In 2001, this was the first strain of the newly proposed Jeotgalibacillus...
Jeotgalibacillus alimentarius JY-13(T) (=KCCM 80002(T) = JCM 10872(T)) is a moderate halophile. In 2001, this was the first strain of the newly proposed Jeotgalibacillus genus. The draft genome of J. alimentarius was found to consist of 32 contigs (N50, 315,125 bp) with a total size of 3,364,745 bp. This genome information will be helpful for studies on pigmentation as well as applications for this bacterium.
PubMed: 26494670
DOI: 10.1128/genomeA.01224-15 -
Microorganisms Jun 2021Ferromanganese nodules are an important mineral resource in the seafloor; however, the genetic mechanism is still unknown. The biomineralization of microorganisms...
Ferromanganese nodules are an important mineral resource in the seafloor; however, the genetic mechanism is still unknown. The biomineralization of microorganisms appears to promote ferromanganese nodule formation. To investigate the possible mechanism of microbial-ferromanganese nodule interaction, to test the possibility of marine microorganisms as deposition template for ferromanganese nodules minerals, the interactions between strain CW126-A03 and ferromanganese nodules were studied. The results showed that strain CW126-A03 increased ion concentrations of Fe, Mn, and other metal elements in solutions at first. Then, metal ions were accumulated on the cells' surface and formed ultra-micro sized mineral particles, even crystalline minerals. Strain CW126-A03 appeared to release major elements in ferromanganese nodules, and the cell surface may be a nucleation site for mineral precipitation. This finding highlights the potentially important role of biologically induced mineralization (BIM) in ferromanganese nodule formation. This BIM hypothesis provides another perspective for understanding ferromanganese nodules' genetic mechanism, indicating the potential of microorganisms in nodule formation.
PubMed: 34201233
DOI: 10.3390/microorganisms9061247 -
Genome Announcements May 2015Jeotgalibacillus soli, a bacterium capable of degrading N-acyl homoserine lactone, was isolated from a soil sample in Portugal. J. soli constitutes the only...
Jeotgalibacillus soli, a bacterium capable of degrading N-acyl homoserine lactone, was isolated from a soil sample in Portugal. J. soli constitutes the only Jeotgalibacillus species isolated from a non-marine source. Here, the draft genome, several interesting glycosyl hydrolases, and its putative N-acyl homoserine lactonases are presented.
PubMed: 25999554
DOI: 10.1128/genomeA.00512-15 -
Microbiology Resource Announcements Oct 2019Here, we report 10 bacterial strains isolated from an abandoned coal mine in southeast Kansas to determine their potential for bioremediation through comparison of the...
Here, we report 10 bacterial strains isolated from an abandoned coal mine in southeast Kansas to determine their potential for bioremediation through comparison of the genome sizes and distribution patterns of unique metabolic genes. The selected strains belong to the genera , , , , , , , , and .
PubMed: 31624170
DOI: 10.1128/MRA.01001-19