TABLE 3.
Phylogenetic information for bacterial populations identified by sequencing DNA from DGGE bands, including closest database matches and closest cultivated relatives based on MEGABLAST analysisa
Band | Plant | Source | Closest BLAST match
|
Closest cultivated relative
|
||||
---|---|---|---|---|---|---|---|---|
Phylum or subphylum | Accession no. | % Identity | Taxon | Accession no. | % Identity | |||
SAV01Z01 | Z. marina | Leaf | Bacteroidetes | AY828430 | 99 | Marine bacterium SCRIPPS_413 | AF359548 | 98 |
SAV01Z02 | Z. marina | Leaf | Bacteroidetes | AF235111 | 96 | Cytophaga sp. strain RP8 | EU375128 | 96 |
SAV01Z03 | Z. marina | Leaf | Bacteroidetes | AY678493 | 92 | Lewinella agarilytica | AM286229 | 92 |
SAV01Z04 | Z. marina | Leaf | Gammaproteobacteria | AF448465 | 97 | Methylotenera mobila | DQ287786 | 96 |
SAV01Z05 | Z. marina | Leaf | Plastid | EF036309 | 100 | Chloroplast of Yucca schidigera | EU016691 | 100 |
SAV01Z06 | Z. marina | Leaf | Alphaproteobacteria | DQ659412 | 100 | Rhodobacteraceae sp. strain BS110 | DQ659412 | 100 |
SAV01Z07 | Z. marina | Leaf | Alphaproteobacteria | DQ436521 | 100 | Thalassobacter sp. strain GA2-M15 | EU342372 | 100 |
SAV01Z08 | Z. marina | Leaf | Alphaproteobacteria | DQ103624 | 100 | Roseobacter sp. strain CSQ-2 | EF512125 | 99 |
SAV02Z02 | Z. marina | Root | Epsilonproteobacteria | EF028999 | 100 | Arcobacter nitrofigilis | EU106662 | 100 |
SAV02Z03 | Z. marina | Root | Gammaproteobacteria | DQ234105 | 96 | Dibenzofuran-degrading bacterium DBF-MAK | AB086228 | 93 |
SAV02Z04 | Z. marina | Root | Gammaproteobacteria | AY711846 | 100 | Gammaproteobacterium SP5 | AM884361 | 95 |
SAV02Z05 | Z. marina | Root | Gammaproteobacteria | DQ462284 | 97 | Oceanospirillaceae bacterium JAMM 1548 | AB330882 | 96 |
SAV02Z06 | Z. marina | Root | Gammaproteobacteria | EF028933 | 100 | Gammaproteobacterium M41 | AM156910 | 96 |
SAV03Z01 | P. perfoliatus | Leaf | Plastid, diatom | DQ906722 | 96 | Chloroplast of Phaeodactylum tricornutum | EF067920 | 96 |
SAV03Z02 | P. perfoliatus | Leaf | Betaproteobacteria | AY678527 | 94 | Bacterium HTCC4045 | EF628482 | 93 |
SAV03Z03 | P. perfoliatus | Leaf | Alphaproteobacteria | AM157616 | 99 | Porphyrobacter tepidarius | AY568467 | 99 |
SAV03Z04 | P. perfoliatus | Leaf | Betaproteobacteria | DQ064982 | 99 | Betaproteobacterium IMCC1762 | DQ664233 | 96 |
SAV03Z05 | P. perfoliatus | Leaf | Plastid | EF036309 | 100 | Chloroplast of Yucca schidigera | EU016691 | 100 |
SAV03Z06 | P. perfoliatus | Leaf | Alphaproteobacteria | AB220125 | 100 | Sphingomonadaceae bacterium PB208 | AB220125 | 100 |
SAV03Z07 | P. perfoliatus | Leaf | Alphaproteobacteria | EF029025 | 100 | Rhodobacteraceae sp. strain DG1295 | DQ486507 | 100 |
SAV03Z08 | P. perfoliatus | Leaf | Bacteroidetes | DQ229334 | 90 | Lewinella persicus | EU371935 | 84 |
SAV04Z01 | P. perfoliatus | Root | Gammaproteobacteria | AF165907 | 97 | Endosymbiont of Lamellibrachia satsuma | AB073120 | 97 |
SAV04Z02 | P. perfoliatus | Root | Gammaproteobacteria | AY129090 | 97 | Endosymbiont of Lamellibrachia barhami | AY129113 | 97 |
SAV04Z03 | P. perfoliatus | Root | Bacteroidetes | AF141549 | 98 | Symbiont b-Z43 of Tuber borchii | AF233292 | 90 |
SAV04Z04 | P. perfoliatus | Root | Betaproteobacteria | AB240458 | 97 | Azoarcus sp. strain CC-11 | AB033745 | 96 |
SAV04Z05 | P. perfoliatus | Root | Betaproteobacteria | AB264575 | 94 | Azoarcus anaerobius | Y14701 | 93 |
SAV04Z06 | P. perfoliatus | Root | Plastid | EF036309 | 100 | Chloroplast of Yucca schidigera | EU016691 | 100 |
SAV04Z07 | P. perfoliatus | Root | Betaproteobacteria | DQ988325 | 100 | Hydrogenophaga sp. strain BAC306 | EU130968 | 100 |
SAV04Z08 | P. perfoliatus | Root | Betaproteobacteria | AB179685 | 99 | Methyloversatilis universalis | DQ923115 | 93 |
SAV05Z01 | S. pectinata | Leaf | Bacteroidetes | DQ154800 | 90 | Cytophaga sp. strain RP8 | EU375128 | 86 |
SAV05Z02 | S. pectinata | Leaf | Bacteroidetes | AY171331 | 93 | Cytophaga sp. strain I-545 | AB073573 | 86 |
SAV05Z03 | S. pectinata | Leaf | Cyanobacteria | DQ269094 | 97 | Aphanocapsa sp. strain 0MI27S1 | DQ264196 | 96 |
SAV05Z05 | S. pectinata | Leaf | Cyanobacteria | DQ072927 | 98 | Phormidium sp. strain LMECYA 214 | EU078511 | 96 |
SAV05Z06 | S. pectinata | Leaf | Betaproteobacteria | DQ064982 | 99 | Betaproteobacterium IMCC1762 | DQ664233 | 96 |
SAV05Z07 | S. pectinata | Leaf | Bacteroidetes | AY711389 | 92 | Bacteroidetes sp. strain K3 | AM749788 | 88 |
SAV05Z08 | S. pectinata | Leaf | Alphaproteobacteria | AJ298351 | 99 | Rhodobacteraceae sp. strain DG1295 | DQ486507 | 99 |
SAV06Z01 | S. pectinata | Root | Spirochaeta | DQ521098 | 94 | Spirochaeta isovalerica | M88720 | 94 |
SAV06Z02 | S. pectinata | Root | Bacteroidetes | DQ456238 | 96 | Bacteroides uniformis | EU136680 | 94 |
SAV06Z03 | S. pectinata | Root | Gammaproteobacteria | AF165907 | 96 | Endosymbiont of Lamellibrachia satsuma | AB073120 | 96 |
SAV06Z04 | S. pectinata | Root | Bacteroidetes | EF028993 | 94 | Marinilabilia salmonicolor | M62422 | 94 |
SAV06Z06 | S. pectinata | Root | Deltaproteobacteria | AM418397 | 91 | Desulfovibrio pangongensis | AM418397 | 91 |
SAV06Z07 | S. pectinata | Root | Betaproteobacteria | AB265944 | 99 | Methyloversatilis universalis | DQ923115 | 92 |
SAV06Z08 | S. pectinata | Root | Betaproteobacteria | AB265944 | 99 | Methyloversatilis universalis | DQ923115 | 92 |
SAV07Z01 | V. americana | Leaf | Betaproteobacteria | AJ318162 | 96 | Bacterium HTCC4045 | EF628482 | 93 |
SAV07Z02 | V. americana | Leaf | Betaproteobacteria | DQ315717 | 98 | Leptothrix ginsengisoli | AB271046 | 89 |
SAV07Z03 | V. americana | Leaf | Plastid, diatom | DQ906722 | 98 | Chloroplast of Phaeodactylum tricornutum | EF067920 | 97 |
SAV07Z04 | V. americana | Leaf | Betaproteobacteria | AF448465 | 99 | Methylotenera mobila | DQ287786 | 98 |
SAV07Z05 | V. americana | Leaf | Alphaproteobacteria | EF016501 | 100 | Novosphingobium pentaromativorans | EU167958 | 100 |
SAV07Z06 | V. americana | Leaf | Bacteroidetes | EF686991 | 93 | Salegentibacter sp. strain BH206 | EF520007 | 91 |
SAV07Z07 | V. americana | Leaf | Plastid | EF036277 | 96 | Chloroplast of Croomia pauciflora | DQ629458 | 96 |
SAV07Z08 | V. americana | Leaf | Betaproteobacteria | AY144233 | 96 | Leptothrix mobilis | X97071 | 96 |
SAV08Z01 | V. americana | Root | Bacteroidetes | AM159414 | 95 | Bacterium HTCC4101 | EF628490 | 87 |
SAV08Z03 | V. americana | Root | Betaproteobacteria | EF107794 | 97 | Methylophilus sp. strain u33 | EU375653 | 95 |
SAV08Z04 | V. americana | Root | Betaproteobacteria | EF107794 | 97 | Methylophilus sp. strain u33 | EU375653 | 95 |
SAV08Z05 | V. americana | Root | Alphaproteobacteria | EF016501 | 100 | Novosphingobium pentaromativorans | EU167958 | 100 |
SAV08Z06 | V. americana | Root | Plastid, diatom | AY711816 | 100 | Chloroplast of Asterionella glacialis | AJ319828 | 99 |
SAV08Z07 | V. americana | Root | Plastid | EF036277 | 96 | Chloroplast of Croomia pauciflora | DQ629458 | 96 |
SAV08Z08 | V. americana | Root | Alphaproteobacteria | EF027003 | 100 | Agrobacterium tumefaciens strain CCBAU | EU256457 | 100 |
See www.ncbi.nlm.nih.gov.