TABLE 1

General genome characteristic features of the genus Novosphingobium

StrainSource of isolationGenome size (bp)No. of contigs/repliconsaGC content (%)No. of genesNo. of essential marker genes% completenessGenomic island size (bp)Accession no.Reference
Novosphingobium sp. AAP1Freshwater lake4,750,5795065.64,30410699.07501,818 LJHO00000000 Unpublished data
Novosphingobium sp. AAP83Freshwater lake4,232,0888459.44,07410699.07286,348 LJHY00000000 Unpublished data
Novosphingobium sp. AAP93Freshwater lake4,267,11214965.53,94810497.20219,491 LJHZ00000000 Unpublished data
N. acidiphillum DSM19966Acidic lake water3,708,5355564.33,49610497.20248,334 AUBA00000000.1 Unpublished data
N. aromaticivorans DSM 12444The sample obtained at a depth of 410 m from a borehole sample that was drilled at the Savannah River Site4,233,314One Chr and two plasmids65.14,12410699.0764,422 CP000248.1 , CP000676.1 , CP000677.1Aylward et al. (12)
N. fuchskuhlense FNE08-7Isolated from a surface water sample of the southwest basin of Lake Grosse Fuchskuhle3,963,8501465.43,72110598.13172,938 LLZS00000000.1 Unpublished data
Novosphingobium sp. MBES04Sunken wood from Suruga Bay5,361,4483365.45,20210396.26528,404 BBNP00000000 Ohta et al. (5)
N. malaysiense Musc273Mangrove sediment5,027,0218563.44,88710699.07135,248 JTDI00000000 Unpublished data
N. pentaromaticivorans US6-1Muddy sediment of Ulsan Bay5,457,578One Chr and five plasmids63.15,08710699.07203,560 CP009291 , CP009292 , CP009293 , CP009294 , CP009295 , CP009296Choi et al., 2015 (81)
Novosphingobium sp. PP1YMarine water and oil interface5,313,905One Chr and three plasmids63.35,13510699.07181,419 FR856862.1 , FR856859.1 , FR856860.1 , FR856861.1D’Argenio et al. (6)
N. subterraneum DSM12447Southeast coastal plain, subsurface core at 180-m depth4,885,9425463.24,83810699.07148,732 ZRVC00000000.1 Unpublished data
Novosphingobium sp. P6WIsolated from the plant rhizosphere6,537,3006563.76,27910598.13322,771 JXZE00000000 Unpublished data
Novosphingobium sp. AP12Rhizosphere of Populus deltoides5,611,61718765.95,36710598.13435,323 AKKE00000000 Unpublished data
N. rosa NBRC 15208Isolated from root of plant Rosa sp. 3-ketolactose-forming bacteria6,952,76319464.56,33010497.20636,815 BCZE01000000 Unpublished data
N. barchamii LL02Hexachlorocyclohexane-contaminated soil5,307,34826645,22010497.20264,580 JACU01000000 Pearce et al. (4)
Novosphingobium sp. KN65.2Carbofuran-exposed agricultural soil5,024,84724363.15,03610699.07328,926 CCBH000000000 Nguyen et al. (2)
N. lindaniclasticum LE124Hexachlorocyclohexane-contaminated soil4,857,92815664.64,74910598.13292,630 ATHL00000000 Saxena et al. (60)
N. naphthalenivorans NBRC102051Isolated from polychlorinated-dioxin-contaminated environments5,236,09223463.85,22410699.07342,845 BCTX00000000.1 Unpublished data
Novosphingobium sp. ST904Rhizosphere of Acer pseudoplatanus, growing at a 2,4,6-trinitrotoluene-contaminated forest site6,269,46316664.56,94510093.46303,084 LGJH00000000 Unpublished data
Novosphingobium sp. B-7Steeping fluid of eroded bamboo slips4,909,16549165.14,71510497.20825,534 APCQ00000000 Unpublished data
Novosphingobium sp. Leaf2Derived from an Arabidopsis leaf 3,715,7352264.13,67510699.07235,969 LMJY00000000 Unpublished data
N. nitrogenifigens DSM 13790New Zealand pulp mill effluent4,148,04877643,86710699.07255,167 AEWJ0000000 Unpublished data
N. resinovorum KF1Biofilm of a bioreactor fed with polychlorinated phenols6,304,48611565.16,07910699.07279,955 JFYZ00000000.1 Unpublished data
Novosphingobium sp. Rr2-17Grapevine crown gall tumor4,539,02916662.74,51310497.20295,587 AKFJ00000000 Gan et al., 2012 (19)
N. tardaugens NBRC 16725Isolated from activated sludge of sewage treatment plant4,291,5145461.34,22310598.13319,713 BASZ00000000.1 Unpublished data
N. capsulatum NBRC12533Not available4,836,4557065.74,45210699.07612,524 BCYV00000000.1 Unpublished data
N. lentum NBRC 107847Isolated from a cold fluidized-bed process treating chlorophenol-contaminated groundwater4,407,8485365.74,26610598.13528,688 BCTW00000000.1 Unpublished data
  • a The number of contigs/replicons or the number of chromosomes (Chr) and plasmids is shown.