TABLE 3.
Detection of bacterial strains similar to M. petroleiphilum PM1 and catabolic genes encoding enzymes suggested to be involved in aerobic MTBE degradation in textiles from the microcosm experiments or directly from the pondsd
| Culture or textile | Detection of: |
Length of fragment (bp)a | Closest NCBI match | Coverage (%) | Maximum identity (%) | |||
|---|---|---|---|---|---|---|---|---|
| PM1 16S rRNA gene | MdpA 1F/1R | EthB for/for M/rev | EthR for/rev M/rev | |||||
| Reference pure cultures | ||||||||
| A. tertiaricarbonis L108 | − | − | + | − | 1,170 | R. ruber IFP 2001 EthB | 99 | 99 |
| R. ruber IFP 2001 | − | − | + | + | 891 | R. ruber IFP 2001 EthR | 100 | 100 |
| M. petroleiphilum PM1 | + | + | − | − | 684 | M. petroleiphilum PM1 plasmid RPME01 MdpA | 100 | 100 |
| Methylibium sp. strain R8 | + | + | − | − | 659 | M. petroleiphilum PM1 plasmid RPME01 MdpA | 100 | 100 |
| Microcosm expt textiles | ||||||||
| CO1 | + | − | + | − | 1,049 | R. ruber IFP 2007 EthB | 100 | 99 |
| CO2 | + | − | + | − | 1,164 | R. ruber IFP 2001 EthB | 99 | 99 |
| PO1 | +b | − | + | − | 1,093 | R. ruber IFP 2007 EthB | 100 | 99 |
| PO2 | +b | − | + | − | 1,021 | R. zopfii IFP 2005 EthB | 100 | 99 |
| Environmental textilesc | ||||||||
| CO (150 cm) | + | − | + | − | 1,026 | R. ruber IFP 2001 EthB | 99 | 100 |
| CO (420 cm) | + | − | + | − | 1,053 | R. ruber IFP 2001 EthB | 99 | 99 |
| PO (150 cm) | + | − | + | − | 1,166 | R. ruber IFP 2001 EthB | 99 | 99 |
| PO (420 cm) | + | − | + | − | 901 | R. ruber IFP 2007 EthB | 100 | 100 |
a
Length of sequence obtained from the amplification product of the PCR assay (shown in boldface) used for BLAST analysis.
b
Successful sequencing; obtained fragment was 100% identical to Methylibium petroleiphilum PM1.
c
Environmental textiles were all sampled at 120 cm depth. The distance to inflow is given in parentheses.
d
See details in Table 1.