Neptunomonas

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Neptunomonas (Genus ) sample found inhabiting the gulf oil spill. Image provided by Masayuki Miyazaki/ International journal of systematic and evolutionary microbiology.

Classification

Higher order taxa

Bacteria; Pseudomonadota; Gammaproteobacteria; Oceanospirillales; Oceanospirillaceae

NCBI: [1]

Genus

Neptunomonas

Description and Significance

Describe the appearance, habitat, etc. of the organism, and why you think it is important.

Appearance: The genus includes rod shaped (Bacillus) or slightly curved (vibrio) cells, with approximate sizes of 0.7–0.9 × 2.0–3.0 µm. Spherical (coccoid) body plans appear in older colonies, often associated with a loss of viability. They are capable of producing a capsid and are motile via a single flagellum. [1.]

Habitat: Often associated with historically polluted marine coastal sediment, such as the Puget sound (Washington, USA), the site of a wood treatment facility and the Mediterranean Sea (Milazzo Harbor, Italy), which has been impacted by municipal wastes.

In addition to these polluted sites, Neptunomonas is closely related (acting as endosymbionts) to the bone-eating polychaetes in the genus Osedax, which are inhabitants of whale carcasses within the deep sea. These endosymbionts are located within highly branched root tissues which burrow into the bones of these large carcasses, digesting them, releasing the organic carbon which can be used for nutrition. The specifics of this endosymbiosis is not fully known. [2.]

Genome Structure

Neptunomonas concharum

Neptunomonas concharum was one of the species of choice when examining a genome within this genus as a result of the extensive and complete genome sequencing conducted. The complete genome consisted of 3,561,992 bp, of which G-C base pairs made up 46%. 3273 protein coding sequences were found, with 69 tRNA genes, 15 complete rRNA genes (5 each for 5S, 16S, and 23S), and 4 ncRNAs. The chromosome type is circular.

Bacteria containing prophage are more likely to show antibiotic resistance, greater environmental adaptability and improve adhesion. Concharum contained three incomplete prophage sequences. Additionally CRISPR/Cas systems play an important role in bacterial defence systems, fighting against viruses and other bacterial plasmid invasion, one credible CRISPR sequence containing 22 spacers was acknowledges in the genomic DNA. These sequences recognise some of the uniquely adapted sequences allowing concharum to function in toxic, polluted and otherwise extreme habitats.

Metabolic pathways Neptunomonas concharum was found to differ from typical forms of glycolysis; the genome sequence contains all the genes encoding for glycolysis and gluconeogenesis, however no genes related to glucose phosphotransferase were found, resulting the lack of utilization of extracellular sugars in metabolism. It has been noted that concharum prefers to utilise acetate as a carbon source for cellular growth, backed by the identification of genes associated with acetate metabolism (Ack-Pta and Acs pathways, and three acetyl-CoA synthetase genes). [3.]

Neptunomonas antarctica

Additionally, the marine bacterium Neptunomonas antarctica was also examined and bared similar results. It did however have a longer genome of 4,568,828 bp with a mean G-C content of 45.7%. Despite this, similar functions were found within the genomes, 85 genes are associated with “Virulence, Disease and Defense”, an advantage in the heavily polluted environments these micro-organisms inhabit, aiding in resistance to sediment-associated pollutants including heavy-metal ions, antibiotics and other toxic compounds.

Some additional findings associated with Neptunomonas antarctica were that 62 genes are involved in flagellar motility and 19 genes in bacterial chemotaxis. These would aid in the movement towards nutrient containing sediments and movement away from toxicity and predators, playing an important role in thier sediment adapted lifestyles.

other genome sequences associated with utilizing nutrients in these polluted environments include: 21 nitrate and nitrite ammonification genes, 35 genes related to poisonous aromatic compounds metabolism and 42 genes related to stress response particularly related to the temperature stresses of an arctic environment. [4.]

Cell Structure, Metabolism and Life Cycle

Interesting features of cell structure; how it gains energy; what important molecules it produces.

Metabolism: This species can receive and use resources from a wide range of carbon sources for metabolic engineering. They are aerobically respiring organisms, with selectivity anaerobic capabilities. Oxidising strains are commonly associated with polluted coastal marine sediments.[2.] Additionally, this organism is closely related to the endosymbionts of the bone-eating polychaetes in the genus Osedax, occurring in root structures produced by Osedax which penetrate the whale bone. Location and enzyme activity suggest Neptunomonas aid in the digestion of bones for the polychaete, however it is unknown yet if the resulting molecules are used in metabolic processes for the micro-organism.

Ecology and Pathogenesis

Habitat; symbiosis; biogeochemical significance; contributions to environment.

If relevant, how does this organism cause disease? Human, animal, plant hosts? Virulence factors, as well as patient symptoms.

References

1. Hedlund B.P. "Neptunomonas", Neptunomonas, 2015. p. 1–6.

2. Hedlund B.P. & Costa K.C. Neptunomonas. In: Timmis, K.N. (eds) Handbook of Hydrocarbon and Lipid Microbiology. Springer, Berlin, Heidelberg.

3. Pu N., Li W., Li J-Z. Complete genome sequence of Neptunomonas concharum JCM17730T: An acetate assimilating bacterium isolated from a dead ark clam, "Marine Genomics", 2020, 53.

4. Rong J-C., Liu M., Li Y., Sun T-Y., Xie B-B., Shi M., Chen X-L., Qin Q-L. Insight into the genome sequence of a sediment-adapted marine bacterium Neptunomonas antarctica S3-22T from Antarctica, "Marine Genomics",2016, 25, p. 29-31.

Author

Page authored by Nathan Hicks, student of Prof. Bradley Tolar at UNC Wilmington.