Occurrence of CYP153 and AlkB-type alkane hydroxylases in alkane-degrading strainsa

OrganismNo. of CYP153s (evidenceb)CYP153 gene accession no.P450 namecFlanking genesdFunctional expressioneAlkB homologs (evidencef)Reference(s)
Acinetobacter sp. strain EB1041 (cloned)AJ311718CYP153A1Fd, FdR++++++++++++1 (cloned)26
Alcanivorax borkumensis AP12 (cloned)AJ844909 AJ844908CYP153A13NDg+/−+++++2 (cloned)36
Alcanivorax borkumensis SK22 (genome)Unfinished genomeCYP153A13aFd, AlkJ, FdRNThNTNTNT2 (genome)14
Bradyrhizobium japonicum USDA 1103 (genome)blr1853 NP_768493CYP153A9UnrelatedNTNTNTNT0 (genome)19
blr7243 NP_773883CYP153A4P450, unrelatedNTNTNTNT
blr7242 NP_773882CYP153A3P450, unrelatedNTNTNTNT
Burkholderia fungorum LB4001 (genome)ZP_00028060CYP153A10Fd, FdR AlkJNTNTNTNT1 (genome)
Caulobacter crescentus CB151 (genome)CC0063 NP_418882CYP153A2UnrelatedNTNTNTNT0 (genome)27
Erwinia chrysanthemi 39371 (genome)Unfinished genomeCYP153E1UnrelatedNTNTNTNT0 (genome)
Gordonia rubripertinctus 7E1C (NCIMB 12566)1 (PCR)AJ833999Not namedNDNTNTNTNT0 (PCR negative)2, 21
Hyphomonas neptunium ATCC 154441 (genome)Unfinished genomeCYP153A15UnrelatedNTNTNTNT0 (genome)
Novosphingobium aromaticivorans Saro_1782 (genome)ZP_00096754CYP153D1UnrelatedNTNTNTNT0 (genome)
Mycobacterium marinum M1 (genome)Unfinished genomeCYP153A14FdR, Fd, TnpA, IS++++++++++++++2 (genome)29
M. rhodesiae HXN-1001 (PCR)AJ833989Not namedNDNTNTNTNT0 (PCR negative)38; van Beilen, submitted for publication
M. septicum HXN-5001 (PCR)AJ833990Not namedNDNTNTNTNT0 (PCR negative)28; van Beilen, submitted
M. peregrinum HXN-6001 (PCR)AJ833991Not namedNDNTNTNTNT1 (PCR)28, 38
M. abscessus HXN-10001 (PCR)AJ833992Not namedNDNTNTNTNT1 (PCR)28, 38
M. abscessus HXN-12001 (PCR)AJ833993Not namedNDNTNTNTNT0 (PCR negative)28; van Beilen, submitted
Mycobacterium sp. strain HXN-15001 (PCR)AJ783967CYP153A6Fd, FdR++++++++++++0 (PCR negative)28, 35
M. septicum HXN-19001 (PCR)AJ833995Not namedNDNTNTNTNT0 (PCR negative)28; van Beilen, submitted
Mycobacterium paraffinicum ATCC 126701 (PCR)AJ834000Not namedNDNTNTNTNTNT7
Oleomonas sagaranensis HXN-14001 (PCR)AJ833994Not namedNDNTNTNTNT0 (PCR negative)28; van Beilen, submitted
R. erythropolis NRRL B-165312 (PCR)AJ833997Not namedNDNDNTNTNT4 (cloned)17, 18, 39
AJ833998Not namedNDNDNTNTNT
R. erythropolis HXN-2000, 35-O, 42-O, 62-O, 23-D, and 50-V2 (PCR)Identical to R. erythropolis NRRL B-16531 genesNot namedNDNDNTNTNT3-5 (PCR)28, 38
Rhodopseudomonas palustris CGA0091 (genome)ZP_00011192CYP153A5Unrelated0 (genome)23
Sphingomonas sp. strain HXN-2005 (cloned)AJ850057CYP153A7Fd, AlkJ++++++++0 (PCR negative)25
  • a Most strains shown here belong to an in-house collection of hydrocarbon-degrading bacteria described earlier (32, 35). The HXN strains are hexane-degrading bacteria isolated from a trickling-bed bioreactor that was operated for 3 years to study the removal of hexane from an airstream (28, 38).

  • b Genome, the genome sequence contains one or more CYP153 sequences; PCR, the degenerate CYP153 or AlkB primers yielded one or more PCR fragments; cloned, the complete CYP153 genes were cloned and expressed in P. putida GPo12(pGEc47ΔB).

  • c The CYP153 sequences as named by David Nelson.

  • d Fd, ferredoxin; FdR, ferredoxin reductase; AlkJ, alcohol dehydrogenase; TnpA, transposase; IS, insertion sequence.

  • e ++++, rate of growth on E2 medium plates with pentane (C5), hexane (C6), octane (C8), or decane (C10) comparable to that of P. putida GPo1 grown with the same substrate; +++, ++, +, and +/−, lower growth rates.

  • f See footnote b. PCR negative, PCR fragments were not obtained.

  • g ND, not determined.

  • h NT, not tested.