Nitrosococcus oceani ATCC 19707
Names | Nitrosococcus oceani ATCC 19707 |
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Accession numbers | NC_007483, NC_007484 |
Background | Nitrosococcus oceani, formerly known as Nitrosocystis oceanus, is a Gram-negative ammonia-oxidizing bacterium isolated from seawater. It is an obligate chemolithoautotroph capable of extracting energy and reducing power from the oxidation of ammonia to nitrite. In contrast to betaproteobacterial nitrifer genomes, it contains two complete rrn operons that belong to different classes. Several blocks of genes that were identified as putatively phage related, indicating that N.oceani has been a frequent target for bacteriophage in the ocean. It contains the genes coding for the biosynthesis of the 20 amino acids. Twenty aminoacyl-tRNA synthetases were identified, including two forms of LysRS and two distinct forms of GlxRS but AsnRS and GlnRS were missing. At least 22 genes involved in iron transport have been identified. Two genes coding for Fur are present. Several uptake systems for other inorganic ions are present. Several sodium/hydrogen antiporters have been found; they play an important role in maintaining intracellular pH and conferring salt tolerance. Nitrosococcus oceani has several protein export and secretion systems, including a preprotein translocase, genes coding gor the TatABC system, as well as genes coding for the type II general secretion/pilus synthesis pathway and genes coding for the type IV conjugal DNA/protein transfer system. It has a cluster of genes encoding parts of a PTS-type sugar transport system. It encodes a form I RuBisCO. N.oceani flagellation and motility genes are arranged in two large clusters. The master switch operon flhCD seems to be missing. N.oceani seems to have only a limited chemotactic activity because only one methyl-accepting chemotaxis protein was identified. A large number of complete two-component systems has been identified. It contains a limited inventory contributing to stress tolerance and oxidative stress tolerance, respectively. (EBI Integr8) |
Taxonomy | |
Kingdom: | Bacteria |
Phylum: | Proteobacteria |
Class: | Gammaproteobacteria |
Order: | Chromatiales |
Family: | Chromatiaceae |
Genus: | Nitrosococcus |
Species: | oceani |
Strain | ATCC 19707 |
Complete | Yes |
Sequencing centre | (06-OCT-2005) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA (21-SEP-2005) US DOE Joint Genome Institute, 2400 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA |
Sequencing quality | Level 6: Finished |
Sequencing depth | NA |
Sequencing method | NA |
Isolation site | seawater, North Atlantic |
Isolation country | NA |
Number of replicons | 2 |
Gram staining properties | Negative |
Shape | Cocci |
Mobility | Yes |
Flagellar presence | Yes |
Number of membranes | 2 |
Oxygen requirements | Aerobic |
Optimal temperature | NA |
Temperature range | Mesophilic |
Habitat | Aquatic |
Biotic relationship | Free living |
Host name | NA |
Cell arrangement | Pairs, Singles |
Sporulation | NA |
Metabolism | Ammonia-oxidizer Nitrifying |
Energy source | Autotroph, Chemolithotroph |
Diseases | NA |
Pathogenicity | No |
Glycolysis / Gluconeogenesis
Citrate cycle (TCA cycle)
Pentose phosphate pathway
Fatty acid metabolism
Synthesis and degradation of ketone bodies
Purine metabolism
Pyrimidine metabolism
Alanine, aspartate and glutamate metabolism
Glycine, serine and threonine metabolism
Cysteine and methionine metabolism
Valine, leucine and isoleucine degradation
Valine, leucine and isoleucine biosynthesis
Lysine biosynthesis
Lysine degradation
Arginine and proline metabolism
Histidine metabolism
Phenylalanine, tyrosine and tryptophan biosynthesis
Selenocompound metabolism
D-Glutamine and D-glutamate metabolism
D-Arginine and D-ornithine metabolism
D-Alanine metabolism
Streptomycin biosynthesis
Lipopolysaccharide biosynthesis
Peptidoglycan biosynthesis
Pyruvate metabolism
Butanoate metabolism
C5-Branched dibasic acid metabolism
One carbon pool by folate
Carbon fixation in photosynthetic organisms
Thiamine metabolism
Riboflavin metabolism
Nicotinate and nicotinamide metabolism
Pantothenate and CoA biosynthesis
Biotin metabolism
Lipoic acid metabolism
Folate biosynthesis
Terpenoid backbone biosynthesis
Sulfur metabolism
Aminoacyl-tRNA biosynthesis
Citrate cycle (TCA cycle)
Pentose phosphate pathway
Fatty acid metabolism
Synthesis and degradation of ketone bodies
Purine metabolism
Pyrimidine metabolism
Alanine, aspartate and glutamate metabolism
Glycine, serine and threonine metabolism
Cysteine and methionine metabolism
Valine, leucine and isoleucine degradation
Valine, leucine and isoleucine biosynthesis
Lysine biosynthesis
Lysine degradation
Arginine and proline metabolism
Histidine metabolism
Phenylalanine, tyrosine and tryptophan biosynthesis
Selenocompound metabolism
D-Glutamine and D-glutamate metabolism
D-Arginine and D-ornithine metabolism
D-Alanine metabolism
Streptomycin biosynthesis
Lipopolysaccharide biosynthesis
Peptidoglycan biosynthesis
Pyruvate metabolism
Butanoate metabolism
C5-Branched dibasic acid metabolism
One carbon pool by folate
Carbon fixation in photosynthetic organisms
Thiamine metabolism
Riboflavin metabolism
Nicotinate and nicotinamide metabolism
Pantothenate and CoA biosynthesis
Biotin metabolism
Lipoic acid metabolism
Folate biosynthesis
Terpenoid backbone biosynthesis
Sulfur metabolism
Aminoacyl-tRNA biosynthesis