Alphaproteobacteria

Supplementary Figure S3A (Continued)
Rubritepida flocculans, AF465832
Rhodovarius lipocyclicus, AJ633644
W1.09-37, OTU 1, JX458433
Acidisphaera rubrifaciens, D86512
Rhodopila globiformis, D86513
B6.10-109, OTU 2, JX458408
Reyranella massiliensis, EF394922
Bradyrhizobium japonicum, U69638
Bradyrhizobium iriomotense, AB300992
W2.09-2, OTU 3, JX458447
Bradyrhizobium liaoningense, AF208513
Bradyrhizobium betae, AY372184
Bradyrhizobium elkanii, U35000
Bradyrhizobium pachyrhizi, AY624135
B0.09-74, OTU 4, JX458393
Pseudolabrys taiwanensis, DQ062742
W2.09-308, OTU 5, JX458452
B0.10-34, OTU 6, JX458399
Methylobacterium phyllosphaerae, EF126746
Methylobacterium fujisawaense, AJ250801
Methylobacterium organophilum, AB175638
B0.09-49, OTU 7, JX458392
Bosea thiooxidans, AJ250796
Bosea massiliensis, AF288309
Bosea minatitlanensis, AF273081
Mesorhizobium loti, X67229
B0.09-98, OTU 8, JX458396
Chelativorans multitrophicus, EF457243
Mesorhizobium amorphae, AF041442
Mesorhizobium plurifarium, Y14158
W1.09-123, OTU 9, JX458416
Mesorhizobium thiogangeticum, AJ864462
Sphingomonas histidinilytica, EF530202
W2.10-27, OTU 10, JX458464
Sphingomonas sanxanigenens, DQ789172
Sphingomonas paucimobilis, U37337
Sphingomonas xinjiangensis, FJ754464
W1.09-86, OTU 11, JX458440
Sphingomonas koreensis, AF131296
Sphingomonas mali, Y09638
W2.10-2, OTU 12, JX458462
Sphingomonas pruni, Y09637
Sphingomonas echinoides, AB021370
Sphingomonas glacialis, GQ253122
B6.09-105, OTU 13, JX458404
Sphingomonas oligophenolica, AB018439
Sphingomonas astaxanthinifaciens, AB277583
W2.09-112, OTU 14, JX458446
Sphingomonas kaistensis, AY769083
B0.09-8, OTU 15, JX458394
Novosphingobium nitrogenifigens, DQ448852
Novosphingobium taihuense, AY500142
Novosphingobium lentum, AJ303009
W2.09-48, OTU 16, JX458453
Novosphingobium hassiacum, AJ416411
Sphingobium vulgare, FJ177535
W2.09-52, OTU 17, JX458454
Sphingobium qiguonii, EU095328
Sphingobium xenophagum, X94098
W2.10-97, OTU 18, JX458467
W1.09-106, OTU 19, JX458414
Brevundimonas alba, AJ227785
W1.09-25, OTU 20, JX458432
Brevundimonas kwangchunensis, AY971368
Brevundimonas aveniformis, DQ372984
Brevundimonas diminuta, AB021415
Caulobacter segnis, AB023427
Caulobacter vibrioides, AJ009957
W2.09-217, OTU 21, JX458448
Caulobacter fusiformis, AJ227759
Phenylobacterium immobile, Y18216
W2.09-62, OTU 22, JX458456
Phenylobacterium lituiforme, AY534887
Phenylobacterium koreense, AB166881
Phenylobacterium conjunctum, AJ227767
B6.10-61, OTU 23, JX458410
0.10
Alphaproteobacteria
Supplementary Figure S3A (Continued)
Delftia lacustris, EU888308
Delftia tsuruhatensis, AB075017
B0.09-91, OTU 24, JX458395
Delftia acidovorans, AB021417
Comamonas terrigena, AF078772
Acidovorax radicis, HM027578
W1.09-134, OTU 25, JX458419
Acidovorax facilis, AF078765
BM2.09-117, OTU 26, JX458413
Xenophilus aerolatus, EF660342
Xenophilus azovorans, AF285414
Curvibacter fontanus, AB120963
W2.09-301r, OTU 27, JX458451
Curvibacter delicatus, AF078756
Curvibacter gracilis, AB109889
Variovorax paradoxus, AJ420329
Ramlibacter henchirensis, AF439400
Ramlibacter tataouinensis, AF144383
W1.09-2, OTU 28, JX458425
Hylemonella gracilis, AF078753
B15.09-53, OTU 29, JX458402
Piscinibacter aquaticus, DQ664244
Rhizobacter dauci, AB297965
Methylibium petroleiphilum, AF176594
Aquabacterium commune, AF035054
BM1.09-78, OTU 30, JX458412
Ideonella dechloratans, X72724
B6.09-66, OTU 31, JX458407
Pelomonas puraquae, AM501439
Pelomonas saccharophila, AB021407
Mitsuaria chitosanitabida, AB006851
Paucibacter toxinivorans, AY515390
W1.09-166, OTU 32, JX458424
B6.09-36, OTU 33, JX458405
Undibacterium pigrum, AM397630
Undibacterium parvum, AM397629
W1.09-20, OTU 34, JX458426
Undibacterium oligocarboniphilum, GQ379228
Duganella violaceinigra, AY376163
W1.09-215, OTU 35, JX458428
Duganella zoogloeoides, D14256
Janthinobacterium lividum, Y08846
B0.10-246, OTU 36, JX458398
Herbaspirillum aquaticum, FJ267649
Herbaspirillum huttiense, AB021366
Herbaspirillum seropedicae, Y10146
Oxalobacter formigenes, U49757
W1.09-142, OTU 37, JX458421
W1.09-8, OTU 38, JX458439
B15.10-27, OTU 39, JX458403
Cupriavidus metallidurans, D87999
Cupriavidus necator, AF191737
Wautersia numazuensis, AB104447
Ralstonia mannitolilytica, AJ270258
Ralstonia pickettii, AY741342
Ralstonia syzygii, AB021403
W1.09-238, OTU 40, JX458431
B0.10-45, OTU 41, JX458400
Zoogloea resiniphila, AJ011506
Zoogloea caeni, DQ413148
Zoogloea ramigera, X74913
Derxia gummosa, AB089482
B15.09-116, OTU 42, JX458401
B0.09-144, OTU 43, JX458391
Stenotrophomonas chelatiphaga, EU573216
Stenotrophomonas maltophilia, AB294553
Stenotrophomonas rhizophila, AJ293463
B0.10-151, OTU 44, JX458397
Rudaea cellulosilytica, EU741687
BM6.10-30, OTU 45, JQ710441
Nevskia ramosa, AJ001010
Nevskia terrae, GQ845011
Alkanibacter difficilis, AJ313020
W2.09-63, OTU 46, JQ710440
Hydrocarboniphaga effusa, AY363245
Solimonas soli, EF067861
W1.09-152, OTU 47, JX458423
Acinetobacter baumannii, X81660
Acinetobacter calcoaceticus, AJ888983
Acinetobacter junii, X81664
W1.10-216, OTU 48, JX458443
Acinetobacter gerneri, AF509829
Paraperlucidibaca baekdonensis, GU731671
W2.09-231, OTU 49, JX458449
Perlucidibaca piscinae, DQ664237
W2.10-39, OTU 50, JX458465
Pseudomonas agarici, Z76652
Pseudomonas moraviensis, AY970952
W1.09-144, OTU 51, JX458422
Pseudomonas jessenii, AF068259
Pseudomonas aeruginosa, X06684
Pantoea agglomerans, AJ233423
W1.09-234-1, OTU 52, JX458430
Pantoea anthophila, EF688010
Pantoea vagans, EF688012
Betaproteobacteria
Gammaproteobacteria
0.10
Supplementary Figure S3A (Continued)
Bacteroidetes
Flavitalea populi, HM130561
Parasegetibacter luojiensis, EU877263
Flavihumibacter petaseus, EU854577
Hydrotalea flava, FN665659
Sediminibacterium salmoneum, EF407879
Filimonas lacunae, AB362776
W2.10-4, OTU 53, JX458466
Flavobacterium hercynium, AM265623
W1.09-205, OTU 54, JX458427
Flavobacterium chungangense, EU924275
Flavobacterium aquatile, AM230485
Myroides odoratus, M58777
Hymenobacter yonginensis, GU808562
W1.09-63, OTU 55, JX458438
Hymenobacter perfusus, HM032896
Hymenobacter rigui, DQ089669
Hymenobacter roseosalivarius, Y18833
Pontibacter actiniarum, AY989908
Adhaeribacter aerophilus, GQ421850
Adhaeribacter aerolatus, GQ421846
W1.09-109, OTU 56, JX458415
Adhaeribacter aquaticus, AJ626894
0.10
Supplementary Figure S3A (Continued)
Deinococci
Deinococcus aerolatus, EU622978
W1.10-137-3, OTU 57, JX458441
Deinococcus radiopugnans, Y11334
Deinococcus radiodurans, Y11332
Microbacterium oleivorans, AJ698725
W1.10-194, OTU 58, JX458442
Microbacterium testaceum, X77445
Microbacterium lacticum, X77441
B6.09-49, OTU 59, JX458406
Plantibacter flavus, AJ310417
Plantibacter auratus, AB177868
Leifsonia naganoensis, DQ232612
W2.10-178, OTU 60, JX458458
Leifsonia aquatica, D45057
Leifsonia soli, EU912483
Curtobacterium flaccumfaciens, AJ312209
Curtobacterium herbarum, AJ310413
W2.10-183, OTU 61, JX458460
Curtobacterium citreum, X77436
Curtobacterium luteum, X77437
Kytococcus sedentarius, X87755
W2.10-175, OTU 62, JX458457
Kytococcus aerolatus, FM992368
Arthrobacter ilicis, X83407
Arthrobacter nicotinovorans, X80743
W2.10-187, OTU 63, JX458461
Arthrobacter ureafaciens, X80744
Arthrobacter globiformis, X80736
Kocuria marina, AY211385
W1.09-133, OTU 64, JX458418
Kocuria rhizophila, Y16264
Kocuria rosea, X87756
Mycobacterium abscessus, AY457071
Mycobacterium austroafricanum, X93182
Mycobacterium vaccae, AF480591
W1.09-232, OTU 65, JX458429
Mycobacterium novocastrense, U96747
W1.10-29, OTU 66, JX458445
Mycobacterium sphagni, FR733719
Mycobacterium crocinum, DQ534008
Mycobacterium tuberculosis, X58890
Nocardia nova, AF430028
W1.09-127, OTU 67, JX458417
Nocardia uniformis, AF430044
Nocardia asteroides, AF430019
Nocardioides hungaricus, AM981198
W1.09-56, OTU 68, JX458437
BM1.09-108, OTU 69, JX458411
Nocardioides aquaticus, X94145
Nocardioides albus, AF004988
Marmoricola aequoreus, AM295338
Marmoricola aurantiacus, Y18629
W1.09-48, OTU 70, JX458435
Marmoricola bigeumensis, EF466120
Modestobacter multiseptatus, Y18646
W1.09-5, OTU 71, JX458436
Blastococcus aggregatus, L40614
Geodermatophilus obscurus, X92356
Cryptosporangium arvum, D85465
Fodinicola feengrottensis, EF490376
W2.09-6, OTU 72, JX458455
Sporichthya polymorpha, AB025317
Conexibacter woesei, CP001854
Solirubrobacter pauli, AY039806
Thermoleophilum album, AJ458462
W2.09-233, OTU 73, JF423906
Rubrobacter radiotolerans, U65647
Staphylococcus saccharolyticus, L37602
W2.10-181, OTU 74, JX458459
Staphylococcus aureus, L36472
Staphylococcus hominis, X66101
Bacillus subtilis, AJ276351
Bacillus megaterium, D16273
W2.09-240, OTU 75, JX458450
Bacillus flexus, AB021185
Lysinibacillus boronitolerans, AB199591
W1.10-228, OTU 76, JX458444
Lysinibacillus fusiformis, AJ310083
Lysinibacillus xylanilyticus, FJ477040
Paenibacillus alginolyticus, AB073362
W1.09-40, OTU 77, JX458434
Paenibacillus chondroitinus, D82064
W1.09-140, OTU 78, JX458420
Paenibacillus polymyxa, D16276
Actinobacteria
Bacilli
Outgroup
0.10
Supplementary Figure S3A. Maximum likelihood (ML) tree showing the
phylogenetic relationships of the 16S rRNA gene sequences of the
isolates obtained from groundwater and bottled water samples with the
most closely related reference sequences of the LTP database 108. One
representative of each OTU has been used for phylogenetic analyses. The
ML tree was constructed using sequences longer than 1,250 bp with a
40% conservational filter. The scale bar infers 10 nucleotide substitutions
per 100 sequenced nucleotides.
Similarity
1
0.9
0.8
0.7
0.6
0.5
0.4
0.3
0.2
0.1
B0.09
B0.10
B6.10
B6.09
B15.09
BM2.09
BM1.10
BM6.09
BM6.10
BM2.10
BM1.09
B15.10
W2.09
W2.10
W1.10
W1.09
Supplementary Figure S3B. Dendrogram obtained by clustering analysis of the OTU composition
observed in the culturable population. The paired group algorithm (implemented in the PAST
software) and the Jaccard similarity coefficient were used for calculations.