Table 1.
General features of the 22 genome-sequenced degradative Novosphingobium strains used in this study.
| Strain | Genome Size (bp) | Chromosomes (plasmid) | CDS | G+C (%) | Source of Isolation | Compounds degraded | NCBI Accession No. | References |
|---|---|---|---|---|---|---|---|---|
| N. aromaticivorans DSM12444 | 4,233,314 | 1(2) | 3,928 | 65.15 | River sediments | Aromatic hydrocarbons | NC_007794.1, NC_009426.1, NC_009427.1 | Aylward et al., 2013 |
| Novosphingobium sp.THN1 | 4,649,073 | 1(1) | 4,747 | 63.5 | Freshewater lake | Microcystins | CP028347, CP028348 | This study |
| N. lentum NBRC107847 | 4,407,850 | N/A | 4,020 | 65.70 | Groundwater | Polychlorophenol | BCTW00000000.1 | Tiirola et al., 2005 |
| Novosphingobium sp. Fuku2-ISO-50 | 4,422,860 | N/A | 3,871 | 63.90 | Freshwater lake | Phenol and humic matter | LLZR00000000.1 | Hutalle-Schmelzer et al., 2010 |
| Novosphingobium sp. B-7 | 4,909,160 | N/A | 3,950 | 64.90 | Steeping fluid of eroded bamboo slips | Kraft lignin | APCQ00000000.1 | Chen et al., 2012 |
| Novosphingobium sp. P6W | 6,537,000 | N/A | 5,611 | 63.70 | Soil sample of plant rhizosphere | Abscisic acid | NZ_CP030352.1, NZ_CP030353.1, NZ_CP030354.1, NZ_CP030355.1 | Unpublished data |
| N. barchaimii LL02 | 5,313,470 | N/A | 4,835 | 64.00 | HCH-contaminated soil | HCH | JACU00000000.1 | Pearce et al., 2015 |
| N. resinovorum SA1 | 6,918,130 | 1(4) | 6,115 | 64.92 | Soil | Sulfanilic acid | NZ_CP017075.1, NZ_CP017076.1, NZ_CP017077.1, NZ_CP017078.1, NZ_CP017079.1 | Hegedus et al., 2017 |
| N. lindaniclasticum LE124 | 4,857,930 | N/A | 4,308 | 64.60 | HCH-contaminated dumpsite | HCH | ATHL00000000.1 | Saxena et al., 2013 |
| N. panipatense P5:ABC | 5,735,120 | N/A | 4,976 | 64.70 | Noonmati refinery | aliphatics and aromatics | MSQB00000000.1 | Unpublished data |
| N. pentaromativorans US6-1 | 5,457,580 | 1(5) | 4,933 | 63.01 | Marine sediments | Polycyclic aromatic hydrocarbons | NZ_CP009291.1, NZ_CP009294.1, NZ_CP009296.1, NZ_CP009292.1, NZ_CP009293.1, NZ_CP009295.1 | Choi et al., 2015 |
| Novosphingobium sp. PP1Y | 5,313,910 | 1(3) | 4683 | 63.25 | Seawater | Aromatic hydrocarbons | NC_015580.1, NC_015579.1, NC_015583.1, NC_015582.1 | D'Argenio et al., 2011 |
| Novosphingobium sp. MBES04 | 5,361,450 | N/A | 4,287 | 64.80 | Sunken wood | Aromatic compounds | BBNP00000000.1 | Ohta et al., 2015 |
| Novosphingobium sp. SCN 66-18 | 4,567,370 | N/A | 4,061 | 65.90 | Sludge from ponds and wastewater | Thiocyanate | MEGD00000000.1 | Kantor et al., 2015 |
| Novosphingobium sp. ST904 | 6,269,460 | N/A | 4,795 | 64.50 | Rhizosphere | 4-nitrophenol, TNT-detoxifying capacities | LGJH00000000.1 | Unpublished data |
| Novosphingobium sp. SCN 63-17 | 5,923,910 | N/A | 5,114 | 63.50 | Sludge from ponds and wastewater | Thiocyanate | MEGC00000000.1 | Kantor et al., 2015 |
| Novosphingobium sp. 63-713 | 5,554,250 | N/A | 4,822 | 63.20 | Sludge from ponds and wastewater | Thiocyanate | MKVS00000000.1 | Kantor et al., 2015 |
| Novosphingobium sp. PC22D | 5,024,520 | N/A | 4,550 | 65.80 | Deep-sea water | PAHs | MWMO00000000.1 | Unpublished data |
| Novosphingobium sp. Chol11 | 3,711,410 | N/A | 3,460 | 62.30 | Freshwater | Steroid | OBMU00000000.1 | Yucel et al., 2018 |
| Novosphingobium sp. KN65.2 | 5,204,480 | N/A | 4,617 | 63.10 | Soil | Carbofuran, including the aromatic moiety | CCBH000000000.1 | Nguyen et al., 2015 |
| N. subterraneum NBRC 16086 | 4,700,170 | N/A | 4,320 | 63.30 | Coastal Plain subsurface sediments | Aromatic compounds | BCZF00000000.1 | Balkwill et al., 1997 |
| N. naphthalenivorans NBRC 102051 | 5,236,090 | N/A | 4,778 | 63.80 | Farmland soil | Naphthalene,dibenzofuran | BCTX00000000.1 | Suzuki and Hiraishi, 2007 |
CDS, protein-coding DNA sequence; HCH, hexachlorocyclohexane; PAH, polycyclic aromatic hydrocarbons; N/A, not applicable.