Table 1

Taxonomic identification and phylogenetic affiliation of the excised and sequenced epiphytic (EP), washing water (WW) and cultivation water (CW) DGGE bands

DGGE band number

Closest matching strain in BLAST (accession number)

Query coverage/Maximum identity

Phylogenetic affiliation

Correlation


MX19 EP 1

Uncultured Mycoplasma sp. clone MX19.9 (JF521606) 100/100

Tenericutes; Mollicutes; Mycoplasmatales; Mycoplasmataceae

M1m + M1b -

MX19 EP 2

Uncultured bacterium clone Del10081H12 (JF262029) 100/100

Proteobacteria; Alphaproteobacteria; Caulobacterales; Hyphomonadaceae

M4 -

MX19 EP 3

Uncultured Phyllobacteriaceae bacterium clone MX19.12 (JF521607) 100/100

Proteobacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae

M8 +

MX19 EP 4

Uncultured bacterium isolate TTGE gel band N68 (JN185170) 100/100

Proteobacteria; Alphaproteobacteria; Rhizobiales; Rhizobiaceae

M9 -

MX19 EP 5

Uncultured Labrenzia sp. clone DGGE band C (HE599215) 100/100

Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae

M10 +

MX90 EP 6

Uncultured bacterium clone CD02003D03 (HM768522) 100/96

Proteobacteria; Gammaproteobacteria; Alteromonadales; Alteromonadaceae

M5 -

MX90 EP 7

Uncultured Phyllobacteriaceae bacterium clone MX19.12 (JF521607) 100/100

Proteobacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae

M8 +

MX90 EP 8

Uncultured alphaproteobacterium clone TH_d327 (EU272970) 100/98

Proteobacteria; Alphaproteobacteria; Rhizobiales, Hyphomicrobiaceae

M9 -

MX90 WW 9

Uncultured bacterium clone OTU017 (GU174663) 100/100

Proteobacteria; Alphaproteobacteria; Rhizobiales; Bartonellaceae

M2 -

MX164 EP 10

Uncultured Mycoplasma sp. clone MX19.9 (JF521606) 100/96

Tenericutes; Mollicutes; Mycoplasmatales; Mycoplasmataceae

M1m + M1b -

MX164 EP 11

Uncultured Arcobacter sp. clone MX164.20 (JF521610) 100/100

Proteobacteria; Epsilonproteobacteria; Campylobacterales; Campylobacteraceae

M2 +

MX164 EP 12

Uncultured proteobacterium clone Marsh_0_33 (JF980756) 100/100

Proteobacteria; Alphaproteobacteria; Caulobacterales; Hyphomonadaceae

M3 -

MX164 EP 13

Acanthopleuribacter pedis type strain NBRC 101209 (AB303221) 100/93

Acidobacteria; Holophagae; Acanthopleuribacterales

M5 -

MX164 EP 14

Hyphomicrobiaceae bacterium WPS10 (HQ638980) 100/98

Proteobacteria; Alphaproteobacteria; Rhizobiales; Bartonellaceae

M8 -

MX164 EP 15

Uncultured bacterium clone I3A_12H (EU352599) 100/98

Proteobacteria; Alphaproteobacteria; Rhizobiales; Methylobacteriaceae

M9 -

MX164 EP 16

Stappia sp. enrichment culture clone NKiNSO2 (EU983274) 100/95

Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae

M10 -

MX164 WW 17

Uncultured Sneathiella sp. clone w-G7 (HQ727092) 100/97

Proteobacteria; Alphaproteobacteria; Sneathiellales; Sneathiellaceae

M7 -

MX263 EP 18

Thalassomonas sp. UST061013-012 (EF587959) 100/100

Proteobacteria; Gammaproteobacteria; Alteromonadales; Colwelliaceae

M7 -

MX263 EP 19

Uncultured Phyllobacteriaceae bacterium clone MX19.12 (JF521607) 100/100

Proteobacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae

M8 +

MX263 EP 20

Uncultured Labrenzia sp. clone DGGE band C (HE599215) 100/100

Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae

M10 +

MX263 WW 21

Uncultured Mycoplasma sp. clone MX263.1 (JF521605) 100/100

Tenericutes; Mollicutes; Mycoplasmatales; Mycoplasmataceae

M1m + M1b -

MX263 CW 22

Uncultured bacterium isolate DGGE gel band B12 (HQ875697) 100/93

Proteobacteria; Gammaproteobacteria; Alteromonadales; Alteromonadaceae

M3 -

MX263 CW 23

Alcanivorax dieselolei strain PM07 (HM596594) 100/100

Proteobacteria; Gammaproteobacteria; Oceanospirillales; Alcanivoracaceae

M6 -

MX344 EP 24

Uncultured Labrenzia sp. clone DGGE band C (HE599215) 100/100

Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae

M10 +

MX344 WW 25

Ruegeria mobilis strain F4122 (HQ338148) 100/99

Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae

M8 -

MX344 CW 26

Uncultured bacterium clone EMar8 (FR667032) 100/94

Proteobacteria; Gammaproteobacteria; Alteromonadales

M4 -

MX344 CW 27

Uncultured bacterium clone W2-97 (HQ322761) 100/90

Proteobacteria; Alphaproteobacteria

M7 -


The band numbers correspond to the numbers (1-27) in Figure 4. The last column shows the correlation (positive + or negative -) between the identification of a band and the sequence information of the marker band (M1m, M1b, M2-M10) at the same position.

Hollants et al. BMC Microbiology 2011 11:255   doi:10.1186/1471-2180-11-255

Open Data