Skip to main content

Advertisement

Table 5 Comparison of the functional gene counts in the function profile of genome sequences

From: Draft genome sequence of Mycobacterium rufum JS14T, a polycyclic-aromatic-hydrocarbon-degrading bacterium from petroleum-contaminated soil in Hawaii

Function ID Name M. van a M. gil GCKa M. gil Sp1a M. aro b M. ruf b
KO:K00448 protocatechuate 3,4-dioxygenase, alpha subunit [EC:1.13.11.3] (pcaG) 1 1 1 1 3
KO:K00449 protocatechuate 3,4-dioxygenase, beta subunit [EC:1.13.11.3] (pcaH) 1 1 1 1 2
KO:K18253 phthalate 3,4-dioxygenase ferredoxin subunit (phtAc) 0 2 1 2 1
KO:K18254 phthalate 3,4-dioxygenase ferredoxin reductase subunit [EC:1.18.1.3] (phtAd) 1 2 1 0 1
KO:K00517 E1.14.-.- (cytochrome P450) 12 10 10 5 6
KO:K18256 3,4-dihydroxyphthalate decarboxylase [EC:4.1.1.69] (phtC) 1 2 1 0 1
KO:K11943 PAH dioxygenase large subunit [EC:1.13.11.-] (nidA) 1 2 1 1 0
KO:K11944 PAH dioxygenase small subunit [EC:1.13.11.-] (nidB) 2 4 2 4 0
KO:K11948 1-hydroxy-2-naphthoate dioxygenase [EC:1.13.11.38] (phdI) 1 2 1 0 0
KO:K11949 4-(2-carboxyphenyl)-2-oxobut-3-enoate aldolase [EC:4.1.2.34] (phdJ) 1 2 1 1 0
KO:K18251 phthalate 3,4-dioxygenase alpha subunit [EC:1.14.12.-] (phtAa) 1 2 1 0 0
KO:K18252 phthalate 3,4-dioxygenase beta subunit [EC:1.14.12.-] (phtAb) 1 2 1 1 0
KO:K18255 phthalate 3,4-cis-dihydrodiol dehydrogenase [EC:1.3.1.-] (phtB) 1 2 1 1 0
KO:K18257 cis-3,4-dihydrophenanthrene-3,4-diol dehydrogenase [EC:1.3.1.49] (phdE) 1 2 1 1 0
KO:K18275 2-formylbenzoate dehydrogenase [EC:1.2.1.78] (phdK) 1 1 1 1 0
  1. Comparison of the selected five genome sequences was conducted using function profile categories in the IMG-ER pipeline [27], and the genome sequences analyzed are as follows: M. van, M. vanbaalenii PYR-1 (IMG Genome ID 639633044) [6]; M. gil GCK, M. gilvum PYR-GCK (IMG Genome ID 640427122) [8]; M. gil Sp1, M. gilvum Spyr1 IMG Genome ID 649633070) [7]; M. aro, M. aromaticivorans JS19b1 (whole Genome Sequencing) (IMG Genome ID 2558309009) [9]; M. ruf, M. rufum JS14 (whole Genome Sequencing) (IMG Genome ID 2593339261)
  2. Reported sequencing status for the individual genome set: a Complete genome sequence; b Draft whole-genome sequence