Table 4.
Characteristics of Unique Nucleotide Signatures for Acyl-Homoserine Lactone-Acylase and –Lactonase Showing Closest Match to the Respective Taxonomic Group
| Taxonomic Group | Signature | Source Organism | |
|---|---|---|---|
| Nucleotide Sequence | No. | ||
| AHL-lactonase with reference to Bacillus sp. SB4 | |||
| Actinobacteria | CGTGAGCTCGAGTACGGCCTGTCGAATCACa | M8 | Mycobacterium sp.MCS [gi|108796981:1991857-1992693] |
| Firmicutes | TCACTTACATTTTGATCATGCAGGAGGAAA | M1 | Bacillus sp. SB4 [gi|40388446|gb|AY483161.1|] |
| TCCGGTTCAGTTTTATTAACGATTGATGCA | M10 | ||
| Alphaproteobacteria | GTTGTGCAGTCGCACCTGCATCTCGATCATa | M1 | Agrobacterium tumefaciens [gi|17223781:3565-4356] |
| ATCCGCAAGGACTTCGACAAGCCGGGCCTa | M4 | ||
| Betaproteobacteria | GTGGATACGGAAGACGGCGTGGTGCTGATa | M7 | Burkholderia graminis [gi|170694799:130043-130822] |
| Gammaproteobacteria | AATCCGGTATCAATCAGTACAAGGCCTCGAa | M2 | Acinetobacter baumannii AYE [gi|169794206:627842-628654] |
| Deltaproteobacteria | ATGGTCGTTATGCAGGTGCGTGTGTATGACa | M1 | Desulfovibrio desulfuricans G20 [gi|78355047:1350539- 1351285] |
| Ascomycota | TACACGAGGAAGAGTTCAAGCATGCATGCTa | M2 | Aspergillus oryzae RIB40 [gi|169784499|ref| XM_001826659.1|] |
| GATCAATTCCATGTGCGGGAGAACTACGAGa | M3 | ||
| Euryarchaeota | All signaturesa | ||
| AHL-acylase with reference to Ralstonia sp. XJ12B | |||
| Actinobacteria | CGGGTTCGCCGCCGGGTACAACGCGTGGATa | M2 | Streptomyces sp. M664 [gi|49781326:185-2599] and Streptomyces sp. FERM BP-5809 [gi|40786372:948-3362] |
| GTCATCCGGTACACGGAGTACGGCATTCCGa | M3 | ||
| Bacteroidetes | ATCGAGATGCTTGAAGGGGATTCCTCGAa | M3 | Salinibacter ruber DSM 13855 [gi|83814055:1438503-1440524-] |
| GGCTTCGGGGGGAGATGGTCTTTTTGa | M7 | ||
| TTTGACGAGATGGAGGGCGGGa | M8 | ||
| Cyanobacteria | GCTGGTTCCAATGCTTGGGCGATCGCACCTa | M5 | Cyanothece sp.[gi|126661348:2396-4477-] |
| Alphaproteobacteria | ATGACTCCGGCAAGCCCGAAGAAGAAAGGCa | M7 | Erythrobacter litoralis HTCC2594 [gi|85372828:319908-322139] |
| GATATTGCCCTCGGCATCGCCATAGATGAAa | M10 | ||
| Betaproteobacteria | CCAGCCGCATGCGCAGGGTTTCCTGGGTCCa | M3 | Ralstonia eutropha H16 [gi|113866031:2083444-2085906] |
| TCGGCACGCGCAGGTTGAACAGCGGCGACAa | M7 | ||
| Gammaproteobacteria: Pseudomonas spp. | CTGCCGGTGGTCAACATCGGCTTCAGCCGC | M1 | Pseudomonas aeruginosa PA7 [gi|152983466:2955521-2957803] |
| TTCGTACAGAACTCCAACGACAGCGCCTGG | M2 | ||
| GATGCGTTTCTACCAGATGCACCTGACCAT | M3 | ||
| ATGCTGCTGGCCAACCCGCATTTCCCCTGG | M4 | ||
| CGGCATCGGCTACGCCTACGCGCGCGACA | M6 | ||
| GCGCGATGCCAACCTGGAGAACACCCGGGT | M7 | ||
| CCGCTGGACCGCCTATGGCGTGCCGCACAT | M9 | ||
| ATCCCCTGGGTCAACACCCTGGCCGCGGA | M10 | ||
| Gammaproteobacteria: Shewanella spp. | CAGATAATAAAGGCAACGCCTTCTACATCGa | M1 | Shewanella woodyi ATCC 51908 [gi|170724370:166858-169239] |
| CCCTTTGAGCGTGCCCCCAAAGTGATGCGTa | M2 | ||
| GGCCGTGATAAAACCGAATCTGGTAGCGGTa | M3 | ||
| TTAATCGGCTTCAATGAACATGTTGCTTGGa | M6 | ||
| GGTTATGGGCAAGCCTATGCCCATGCTCAGa | M10 | ||
| Others Gammaproteobacterial members | TTATCCGCTTCGATGTGCGGCGCGCCGAAa | M8 | Hahella chejuensis KCTC 2396 [gi|83642913:5633846-5636326] |
a:
Sequence homology searches using BLAST for these signatures showed best hits for the query sequence but the frequency among the top 50 hits was quite low.