A. borkumensis SK2 has a streamlined genome with a paucity of mobile genetic elements and energy generationrelated genes, but with a plethora of genes accounting for its wide hydrocarbon substrate range and efficient oil-degradation capabilities. Although it is well known from chomping on hydrocarbons in oil spills, it was first isolated from sediments of the North Sea, For this purpose, the G+C content was assumed to follow a gaussian distribution and regions with at least 1.5 s.d. KEGG GENOME: Alcanivorax borkumensis As a result of their profound ability to degrade and live predominately on alkanes, as well as to become the dominant microbes in oil-contaminated areas, Alcanivorax plays a huge role in the biological cleanup of oil-contaminated environments. Provided by the Springer Nature SharedIt content-sharing initiative, Over 10 million scientific documents at your fingertips, Not logged in OmpA proteins, the active constituents of the biosurfactant alasan, have been demonstrated to efficiently emulsify hydrocarbons25 and to be produced by a number of oil-degrading -Proteobacteria26. 20 and M.M.Y., unpublished data). Alcanivorax borkumensis is rod-shaped and is able to grow in highly restricted substrate spectrum. oil), polychlorinated biphenyls (PCBs), polyaromatic hydrocarbons (PAHs), heterocyclic compounds (such as pyridine or quinoline . 4 and Supplementary Results 1 online). Genome sequence of the ubiquitous hydrocarbon-degrading marine bacterium. 1, 6370 (1999). If feathers come into contact with oil, the seabird ingests the oil while trying to preen. Alcanivorax was one of the types of bacteria that Todd and his group . Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Marine biosurfactants. \uRd^j``(t"S;TeZ Lowe, T.M. How are oil spillages cleaned up? - naz.hedbergandson.com Several species of hydrocarbon-eating bacteria, like Alcanivorax borkumensis, feasted on the spilled oil, assisting with the disaster clean-up efforts. Global features of the Alcanivorax borkumensis SK2 genome Ex-situ biodegradation of petroleum hydrocarbons using Alcanivorax borkumensis enzymes. On the basis of the information summarized above, a new genus and species, Alcanivorax borkumensis, is described to include these bacteria. 4. Strain SK2T is the type strain of A. borkumensis. How does alcanivorax borkumensis work? Explained by FAQ Blog Although barely detectable in unpolluted environments, A. borkumensis becomes the dominant microbe in oil-polluted waters. The Oil Eating Bacteria That Can Clean Up Crude Spills Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F. & Higgins, D.G. masc./fem. They hope that their new understanding of the biochemistry of the micro-organism will lead to the development of new, effective, environmentally friendly methods to clean up oil-contaminated waters. Two identical alkane-induced cytochromes P450(b) (ABO_2288) and P450(c) (ABO_0201) cluster with the Acinetobacter EB104 cytochrome P450. Rooted neighbor-joining phylogenetic trees were constructed using the ClustalX 1.83 tool47, edited and visualized by NJPLOT48 and TreeExplorer software MEGA package49. Handbook of Hydrocarbon and Lipid Microbiology pp 12651288Cite as, 14 Environ. Both these systems are located close to the origin of replication of the chromosome. Pronunciation of Alcanivorax borkumensis with 3 audio pronunciations, 1 meaning and more for Alcanivorax borkumensis. The authors declare no competing financial interests. Type IV pili-related natural transformation systems: DNA transport in mesophilic and thermophilic bacteria. 184, 165170 (2002). Hydrocarbon-degrading bacteria feed on the hydrocarbons in the oil droplet, breaking them into inorganic compounds. Rocchetta HL, Burrows LL, Lam JS (1999) Genetics of O-antigen biosynthesis in Pseudomonas aeruginosa. 70, 26032613 (2004). We report here the genome sequence of the marine, hydrocarbonoclastic bacterium A. borkumensis strain SK2, the first hydrocarbonoclastic bacterium to be sequenced. 1998 Category: Species Proposed as: sp. Meyer, F. et al. It encodes three cytochromes: ABO_2384 for P450(a), and two paralogous genes ABO_2288 P450(b) and ABO_0201 P450(c). coordinated the sequencing and finishing of the genome and analyis of the data, P.N.G. Google Scholar. & Shutsubo, K. Petroleum biodegradation in marine environments. The genetic organization of the glucolipid biosynthesis remains unclear in A. borkumensis SK2, but genome annotation revealed candidate genes potentially involved in biosurfactant production. Before the manual annotation of each predicted gene, an automatic annotation was computed based on different tool results as follows: similarity searches were performed against different databases including SWISS-PROT and TrEMBL, KEGG, Pfam, TIGRFAM and InterPro. I do not know if it is only found in salt water, some references I have found place it in inland bodies of water, which typically have a lower salt concentration, and the ever useful microbe wiki places it in fresh water as well. contributed to the annotation, T.N. A probabilistic method for identifying start codons in bacterial genomes. Google Scholar. Lorenzo, Vctor De. Averhoff, B. Bitte aktivieren Sie JavaScript. Toren, A., Orr, E., Paitan, Y., Ron, E.Z. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. E-mail: esegal@technion.ac.il 7, 773779 (2005). Alcanivorax borkumensis (A. borkumensis) is a Gram-negative, rod-shaped hydrocarbonoclastic ("oil-degrading") bacterium. It is found in low numbers in all oceans of the world and becomes abundant in oil-contaminated waters. When the slow growing A. borkumensis uses n-alkanes exclusively, the microbes produce extracellular and membrane-bound surface-active glucose lipids called biosurfactants. It is found in low numbers in all oceans of the world and becomes abundant in oil-contaminated waters. 11, 614625 (2001). Sequencing of BAC ends was carried out on ABI 3100 and ABI 377 sequencing machines by Integrated Genomics GmbH and IIT GmbH, respectively. Biotechnol. It's genome consists of a single circular chromosome with 3,120,143 base pairs and an average G+C content of 54.7%. Nature Biotechnology 24 (2006): 952-953. This rod-shaped. Alcanivorax borkumensis is a cosmopolitan marine bacterium that uses oil hydrocarbons as its exclusive source of carbon and energy. To deal with the damaging effects of UV light, A. borkumensis has a number of genes that reduce the damage. In the case of Alcanivorax borkumensis, the reaction can erupt on the skin like MRSA infections. 4). Nucleic Acids Res. J. Syst. Sixteen groups of bacteria were enriched within the plume, particularly the Oceanospirillales (a group that includes Alcanivorax who we've already met). These gene products possibly provide the sugar moiety of the glucolipids, yielding glucose lipid surfactants. Gene 33, 103119 (1985). Genome sequence of the ubiquitous hydrocarbon-degrading marine - Nature Read more. PubMed contributed to the processing of sequence reads and quality assessment, M.B. Google Scholar. Por favor, active JavaScript. Acta 1393, 5762 (1998). contributed to the annotation, A.G. contributed to the automatic and manual annotation and the coordination of software development for genome analysis, O.V.G. 1998 Alcanivorax dieselolei Liu and Shao 2005 Alcanivorax gelatiniphagus Kwon et al. Yanisch-Perron, C., Vieira, J. Nucleic Acids Res. Homology searches were conducted against the genomes and the plasmids on the nucleotide and amino acid sequence level by using BLAST46. Sabirova JS, Ferrer M, Regenhardt D, Timmis KN, Golyshin PN (2006a) Proteomic insights into metabolic adaptations in Alcanivorax borkumensis induced by alkane utilization. & van Beilen, J.B. Functional analysis of alkane hydroxylases from Gram-negative and Gram-positive bacteria. what contributes to CO2 in the atmosphere. Provided by the Springer Nature SharedIt content-sharing initiative, Environmental Science and Pollution Research (2021), Applied Microbiology and Biotechnology (2021), Nature Biotechnology (Nat Biotechnol) et al. nov. Etymology: bor.kum.en'sis. %PDF-1.5 % hb```e``Vg`c`Hs`f@ a;Gw008O\Tp%zliiga3&XR[xj15)WU)WQrL-+6EkoM]=0a^#h-p J{T&zZZs"sVV'>HplXit,PmkQm, The genome further specifies systems for scavenging of nutrients, particularly organic and inorganic nitrogen and oligo-elements, biofilm formation at the oil-water interface, biosurfactant production and niche-specific stress responses. Google Scholar. Biochem. CAS In-situ burning for oil spill countermeasures? Scientists Break Down Oil-Eating Microbe - Scientific American CAS 45, 116123 (1995). 1 online). It is described as a non-motile bactertium which is true for species such as Alcanivorax borkumensis, but other species such as Alcanivorax venustensis were described to be motile by polar flagella [1]. nov., isolated from Lake Martel. Its ubiquity, unusual physiology and demonstrated role in biodegradation show that it is globally important . Anyone you share the following link with will be able to read this content: Sorry, a shareable link is not currently available for this article. You searched for: Subject "Alcanivorax borkumensis" Remove constraint Subject: "Alcanivorax borkumensis" Start Over. Stover, C.K. Two of these esterases were purified and functionally characterized. PubMed FEMS Microbiol Lett 203: 1121. Text is available under a CC BY-SA 4.0 . Kasai Y, Kishira H, Sasaki T, Syutsubo K, Watanabe K, Harayama S (2002) Predominant growth of Alcanivorax strains in oil-contaminated and nutrient-supplemented sea water. Alcanivorax - an overview | ScienceDirect Topics Bioinformatics 21, 853859 (2005). Trends Microbiol 4: 495503. Reva ON, Hallin PF, Willenbrock H, Sicheritz-Ponten T, Tmmler B, Ussery DW (2008) Global features of the Alcanivorax borkumensis SK2 genome. S2A and Alcanivorax borkumensis SK2. Correspondence to Acad. FEMS Microbiol Lett 242: 137145. Toggle facets Limit your search Text Availability. Although both alkB1 and alkB2 in A. borkumensis SK2 exhibit similar expression patterns, being simultaneously induced on n-alkanes (Supplementary Fig. et al. The strain uses aliphatic hydrocarbons as its main carbon source . Ron EZ, Rosenberg E (2001) Natural roles of biosurfactants. J. Syst. 3, 371379 (2001). It has been detected worldwide in places such as the Mediterranean Sea, Pacific Ocean, and the Arctic Sea [4]. hbbd```b``y"V.fIY0"0yD20{d QY`Mz*H")}H2Mx 6!kA$WX|?y"}D2H9`EqeY``o@{`H n`s`rXb `[Un`CH Klappenbach JA, Dunbar JM, Schmidt TM (2000) rRNA operon copy number reflects ecological strategies of bacteria. Environ. A. borkumensisis a rod-shaped bacterium without flagella that obtains its energy primarily from consuming alkanes (a type of hydrocarbon). It thrives in halophilic, aerobic environments and is found in the upper layers of freshwater or marine environments such as the Mediterranean Sea, Pacific Ocean and Arctic Sea [4, 8]. The isolated DNA was used for construction of DNA shotgun clone libraries with insert sizes of 1 kb, 23 kb and 8 kb in pUC19 vector32 by Qiagen GmbH. The energy coupling mechanisms of the transporters are also shown: solutes transported by channel proteins are shown with a double-headed arrow; secondary transporters are shown with two arrowed lines indicating both the solute and the coupling ion; ATP-driven transporters are indicated by the ATP hydrolysis reaction; transporters with an unknown energy-coupling mechanism are shown with only a single arrow. Appl. 106, 215220 (2003). adj. Genomic DNA structure is rather uniform . Microbiol. Alcanivorax borkumensis.docx - Alcanivorax borkumensis 1 - Course Hero ISSN 1087-0156 (print). contributed to the genome annotation and data analysis, T.B. Rling WFM, Milner MG, Jones DM, Fratepietro F, Swannell RPJ, Daniel F, Head IM (2004) Bacterial community dynamics and hydrocarbon degradation during a field-scale evaluation of bioremediation on a mudflat beach contaminated with buried oil. Bioremediation is the process of removing the pollutants from the environment using microorganisms. nov., a new, hydrocarbon-degrading and surfactant-producing marine bacterium. J. Bacteriol. 3a). J. Bacteriol. 0 Mohanty BK, Kushner SR (2003) Genomic analysis in Escherichia coli demonstrates differential roles for polynucleotide phosphorylase and RNase II in mRNA abundance and decay. A. borkumensis SK2 harbors determinants of OprG/OmpW (ABO_1922) and OmpH (ABO_1152), which are also possibly involved in emulsifier production. Nature Biotechnology 24 (2006): 997-1004. For assembly validation, BAC end sequences were mapped onto the genome sequence using the BACCardI tool38. Reeves PR, Hobbs M, Valvano MA, Skurnik M, WhitfieldC, Coplin D, Kido N, Klena J, Maskell D, Raetz CRH, Rick PD (1996) Bacterial polysaccharide synthesis and gene nomenclature. 7, 14261441 (2005). CrossRef A. borkumensis SK2 is able to degrade a large range of alkanes up to C32 and branched aliphatic, as well as isoprenoid hydrocarbons (e.g., phytane), alkylarenes and alkylcycloalkanes (ref. PubMed A. borkumensis, a non-pathogenic marine bacterium piqued his curiosity. decaying process. Int J Syst Evol Microbiol 53: 331338. Schneiker, S. et al. (c) Reconstruction of putative alkane degradation pathways in A. borkumensis SK2 (see text for details). Galperin MY, Nikolskaya AN, Koonin EV (2001) Novel domains of the prokaryotic two-component signal transduction systems. How are oil spillages cleaned up? - sto.youramys.com 3 online), their underlying regulation is certainly different and possibly responds complementarily under different conditions18. A complex signalling module governs the activity of MalT, the prototype of an emerging transactivator family. Google Scholar. PDF Alcanivorax borkumensis - JOIDES Resolution Hou, S. et al. Medical Microbiome Analysis Service; Microbiotherapy Research Technical Service; Strain Analysis Services; Bio-Pharmaceutical Microbiology Services. Microbiol. contributed to the annotation, O.K. 67, 19701974 (2001). Proteome21 and qRT-PCR expression experiments revealed that all the enzymes encoded by this gene cluster were upregulated on hexa- and tetradecane. An integrated metagenomic and metabolite profiling study of hydrocarbon biodegradation and corrosion in navy ships, Biotechnological applications of marine bacteria in bioremediation of environments polluted with hydrocarbons and plastics, Tolerance engineering in Deinococcus geothermalis by heterologous efflux pumps, Polycyclic aromatic hydrocarbon and n-alkane pollution characteristics and structural and functional perturbations to the microbial community: a case-study of historically petroleum-contaminated soil, Identification of plastic-associated species in the Mediterranean Sea using DNA metabarcoding with Nanopore MinION, Gammaproteobacteria mediating utilization of methyl-, sulfur- and petroleum organic compounds in deep ocean hydrothermal plumes, http://creativecommons.org/licenses/by-nc-sa/3.0/. The pollutants from the environment using microorganisms Ocean, and the coordination of software development for genome,... 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Rocchetta HL, Burrows LL, Lam JS ( 1999 ) Genetics of O-antigen biosynthesis in Pseudomonas.. Biphenyls ( PCBs ), polyaromatic hydrocarbons ( PAHs ), polyaromatic hydrocarbons ( PAHs ) heterocyclic. Borkumensis strain SK2, the reaction can erupt on the nucleotide and amino acid level... Circular chromosome with 3,120,143 base pairs and an average G+C content of 54.7 % the pollutants from environment. Oprg/Ompw ( ABO_1922 ) and OmpH ( ABO_1152 ), which are also possibly involved in emulsifier.! And alkB2 in A. borkumensis has a number of genes that reduce the damage nucleotide and amino acid sequence by... Species, Alcanivorax borkumensis work alkane degradation pathways in A. borkumensis uses n-alkanes exclusively, the of.