apparent richness and community composition of bacteria

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The following supplement accompanies the article

Apparent richness and community composition of Bacteria and Archaea in geothermal springs

Konstantinos Ar. Kormas1,*, Hideyuki Tamaki2, Satoshi Hanada2,Yoichi Kamagata2,3

1Department of Ichthyology and Aquatic Environment, University of Thessaly,384 46 Nea Ionia, Greece

2Institute for Biological Resources and Functions, National Institute of Advanced Industrial Scienceand Technology (AIST), Central 6, Higashi 1-1-1, Tsukuba, Ibaraki 305-8566, Japan

3Research Institute for Genome-based Biofactory, National Institute of Advanced Industrial Scienceand Technology (AIST), 2-17-2-1, Tsukisamu-higashi, Toyohira-ku, Sapporo 062-8517, Japan

*Email: [email protected]

Aquatic Microbial Ecology 57:113–122 (2009)

Fig. S1. (a–c) Phylogenetic tree of PCR-amplified archaeal 16S rRNA genes (~1400 bp) in the waters of the Polihnitos (Pol), Edipsos (Edi), Thermopiles (Thp), Eleftheres (Ele) and Lagadas (Lag) geothermal springs, Greece, based on the neighbour-joining method as determined using distance Jukes-Cantor analysis. Each phylotype is named after its spring of origin with numbers of identical (≥98%) phylotypes in parentheses. One thousand bootstrap analyses (distance) were conducted, and percentages >50% are indicated at the nodes. Numbers in brackets are GenBank accession numbers. Scale bar represents 10% estimated distance

mailto:[email protected]

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Fig. S1a

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Fig. S1b

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Fig. S1c

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Table S1. 16S rRNA clone number distributions and phylogenetic affiliations of bacterial and archaeal operational taxonomic units (OTUs) in the Polihnitos (Pol), Edipsos (Edi), Thermopiles (Thp), Eleftheres (Ele) and Lagadas (Lag) thermal springs, Greece

Clone No. of similar (≥98%) clones

Putative affiliation Closest sequence (% similarity) [GenBank accession no.]

Description Closest organism (% similarity) [GenBank accession no.]

Archaea

Pol-A-2 31 Crenarchaeota Uncult. clone D_F10 (95) [AY454563]

Tropical estuarine sediment -

Pol-A-1 2 Euryarchaeota Archaeoglobus fulgidus (98) [DQ131905]

– –

Edi-A-1 19 Crenarchaeota Uncult. clone D_F10 (98) [AY454563]

Tropical estuarine sediment –

Edi-A-46 8 Euryarchaeota Uncult. archaeon methane hydrate (93) [AF177281]

MAR hydrothermal vent Archaeoglobus veneficus (93) [AF418181]

Edi-A-3 7 Crenarchaeota Uncult. clone pMC2A384 (95) [AB019734]

Deep-sea hydrothermal vent Methanotorris sp. (83) [AB095167]

Edi-A-6 3 Crenarchaeota Uncult. clone E_F03 (88) [AY454636]

Tropical estuarine sediment Thermococcus sp. (85) [AJ583507]

Edi-A-8 1 Crenarchaeota Uncult. clone FapmA81 (97) [AB213065]

Hydrothermal system, Mariana Trough

Staphylothermus marinus (88) [X99560]

Edi-A-19 1 Crenarchaeota Uncult. clone E_B02 (87) [AB454647]

Tropical estuarine sediment Thermococcus waiotapuense(82) [AF134982]

Edi-A-27 1 Crenarchaeota Archaeoglobus fulgidus (99) [AE000965]

– Archaeoglobus fulgidus (99) [AE000965]

Edi-A-44 1 Crenarchaeota Uncult. clone SAGMA-8 (97) [AB050238]

South African gold mine Cenarchaeum symbiosum (91) [AF083072]

Edi-A-108 1 Euryarchaeota Uncult. clone VC2.1 Arc6 (90) [AF068817]

MAR hydrothermal vent Ferroglobus placidus (87) [AJ299217]

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Edi-A-114 1 Crenarchaeota Uncult. clone D_F10 (96) [AY454563]


Edi-A-118 1 Crenarchaeota Uncult. clone EI_G09 (94) [AY454575]

Tropical estuarine sediment

Thp-A-14 16 Crenarchaeota Uncult. clone SAGMA-8 (97) [AB050238]


Thp-A-76 8 Crenarchaeota Uncult. clone CH1_S2_18 (94) [AY822003]

Fresh water –

Thp-A-3 5 Crenarchaeota Uncult. clone SMK5 (89) [AJ631236]

Cold sulfidic springs Methanococcus thermolithotrophicus (83) [M59128] LOW SCORE

Thp-A-11 2 Crenarchaeota Uncult. clone pCIRA-P (86) [AB095126]

HyperSLiME –

Thp-A-108 2 Crenarchaeota Uncult. clone pISA18 (85) [AB019749]

Deep-sea vents –

Thp-A-2 1 Crenarchaeota Uncult. clone ESYB67 (86) [AB119623]

Methanogens in coastal marine sediment

Thp-A-5 1 Crenarchaeota Uncult. clone KuA18 (93) [AB077228]

Underground crude oil storage cavity

–

Thp-A-6 1 Crenarchaeota Uncult. clone CRARC-4 (85) [AJ306412]

Planktonic archaeal assemblages from anaerobic sulfurous environments

–



Thp-A-12 1 Crenarchaeota Uncult. clone pCIRA-P (86) [AB095126]

HyperSLiME –

Thp-A-13 1 Euryarchaeota Uncult. clone KuA18 (98) [AB077228]

Underground crude oil storage cavity

Methanobacterium sp. (87) [AJ550160]

Thp-A-30 1 Crenarchaeota Uncult. clone ss003 (90) [AJ969797]

Soil salinity gradient –

Thp-A-34 1 Crenarchaeota Uncult. clone S15A-MN70A (92) [AJ583389]

Deep-well injection site Methanosaeta clone (89) [AJ133791]

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Thp-A-38 1 Crenarchaeota Uncult. clone E_B02 (86) [AY454647]


Thp-A-39 1 Euryarchaeota Uncult. clone SJ-6 (96) [AB107839]

Paddy soil and marine sediment

–

Thp-A-52 1 Crenarchaeota Autotrophic ammonia-oxidizer clone SeAqRB01 (98) [DQ085101]

Marine Candidatus Nitrosopumilusmaritimus (DQ085097)

Thp-A-56 1 Euryarchaeota Uncult. clone pMC2A33 (93) [AB019738]

Deep-sea hydrothermal vents –

Thp-A-57 1 Crenarchaeota – – –Thp-A-58 1 Crenarchaeota Uncult. clone HDBW_WA21

(86) [AB237754]Japanese aquifer –

Thp-A-59 1 Crenarchaeota Uncult. clone 02N1AG3 (92) [DQ397346]

Hypersaline microbial mat –

Thp-A-61 1 Crenarchaeota Uncult. clone Fapm1aA55 (92) [AB213062]

Hydrothermal system Mariana Trough

Thp-A-63 1 Crenarchaeota Uncult. clone Fapm1aA55 (93) [AB213062]

Hydrothermal system Mariana Trough

–

Thp-A-72 1 Crenarchaeota Uncult. clone Napoli-4A-08 (93) [AY592555]

Mud volcano –



–



–

Thp-A-78 1 Crenarchaeota Uncult. clone pCIRA-X (87) [AB095133]

HyperSLiME –

Thp-A-86 1 Crenarchaeota Uncult. clone met28 (93) [DQ082947]

Hydrothermal vent –

Thp-A-89 1 Euryarchaeota Uncult. clone IACC-66 (95) [AB175598]

Backarc hydrothermal system –


Hydrothermal sediment

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Thp-A-94 1 Crenarchaeota Uncult. clone IMK19 (85) [AJ631244]

Cold suphidic springs Palaeococcus ferriphilus (83) [AB019239]

Thp-A-95 1 Crenarchaeota Uncult. clone IMK19 (91) [AJ631244]

Cold sulfidic springs –



–

Thp-A-100 1 Crenarchaeota Uncult. clone EI_D10 (86) [AY454657]

Estuarine sediment –

Thp-A-102 1 Euryarchaeota Uncult. clone 7C08 (90) [AY835423]

Guyamas Basin –


Hydrothermal sediment –


Deep-sea hydrothermal vent –


Hydrothermal sediment


Hydrothermal sediment –


Freshwater –


Freshwater

Thp-A-124 1 Crenarchaeota Uncult. clone 04N217A (94) [DQ397376]



Hydrothermal vent



Thp-A-131 1 Crenarchaeota Uncult. clone D_H07 (91) [AY454659]


Thp-A-132 1 Crenarchaeota Uncult. clone PS2ARC46 (97) [EF069366]

Antarctic bathypelagic sediments

–

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Fresh water –


Fresh water –

Thp-A-139 1 Crenarchaeota Uncult. clone E_D12 (90) [AY454677]


Thp-A-140 1 Crenarchaeota Methanobacterium aarhusense(90) [DQ649334]


Fresh water –

Thp-A-143 1 Crenarchaeota Uncult. clone HAuD-MA29(98) [AB113626]

Japanese gold mine –

Ele-A-22 7 Crenarchaeota Uncult. clone HDBW-WA10(95) [AB237743]

Japanese aquifer –

Ele-A-6 5 Crenarchaeota Uncult. clone SAGMA-F (95) [AB050210]

South African gold mine Thermococcus gammatolerans[AY206705]

Ele-A-14 4 Crenarchaeota Uncult. clone Napoli-4A-08 (88) [AY592555]

Eastern Mediterranean Sea mud volcanoes

–

Ele-A-26 2 Unidentified Uncult clone 04N217A (89) [DQ397376]


Ele-A-12 1 Marine group I crenarchaeote

Uncult. clone HF770_041I11(93) [DQ300544]

Deep-sea –

Ele-A-16 1 Unidentified Uncult. clone 04N217A (91) [DQ397376]


Ele-A-42 1 Crenarchaeota Uncult. clone E_B01 (89) [AY454635]


Ele-A-49 1 Crenarchaeota Uncult. clone pMC2A209 [AF540869]


Ele-A-50 1 Crenarchaeota Uncult. clone SAGMA-I (93) [AB050213]

South African gold mine –



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South African gold mine Methanobacterium bryantii (86) [AF028688]

Ele-A-60 1 Crenarchaeota Uncult. clone SAGMA-G (94) [AB050213]

South African gold mine Methanothermus fervidus (84) [M32222]


South African gold mine Methanobacterium thermoautotrophicum (85) [AE000940]



Lag-A-2 20 Crenarchaeota Uncult. clone SCA11 (95) [U62820]

Soil –


Soil –

Lag-A-3 2 Crenarchaeota Uncult. clone SAGMA-8 (92) [AB050238]


Lag-A-13 2 Crenarchaeota Candidatus Nitrosopumilusmaritimus (97) [DQ085097]

Autotrophic ammonia-oxidizer

Lag-A-30 2 Crenarchaeota Uncult. clone NRP-I (95) [AB243800]

Anaerobic environment –


Soil –

Lag-A-82 1 Euryarchaeota Uncult. clone APA6-17cm (90) [AF119139]

Deep-sea sediments –

BacteriaPol-B-97 13 β-Proteobacteria Uncult. clone GW14 (98)

[AY559415]Taiwan hot springs Hydrogenophilus

thermoluteolus (97) [AB009829]

Pol-B-6 8 OP11 Uncult. clone GR-296.II.45 (94) [AJ301571]

Uranium mining waste piles Thiobacillus ferrooxidans (82)[AB039820]

Pol-B-14 6 Chloroflexi Uncult. clone PNG_TB_4A2.5H4_B60 (89) [EF100647]

Shallow submarine hydrothermal system

Dehalococcoides sp. (86) [AJ431246]

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Pol-B-60 5 Thermales Thermus sp. (87) [L37520] Hot spring mat –Pol-B-84 5 Bacteroidetes Rhodothermus marinus (98)

[AF217494]– –

Pol-B-38 4 Thermales Thermus thermophilus (100) [DQ974208]

– –

Pol-B-27 3 Unidentified Uncult. clone PS-B30 (91) [AY280428]

Paralvinella sulfincola tubeassociated

Thermodesulfobacterium hveragerdense (86) [X96725]

Pol-B-72 3 OP11 Uncult. clone FS118-32B-02 (89) [AY869681]

Ridge flank crustal fluids –

Pol-B-101 3 Bacteroidetes Thermonema rossianum (99) [Y08956]

– –

Pol-B-2 2 OP11 Uncult. clone SM1E10 (90) [AF445687]

Yellowstone –

Pol-B-50 2 Thermotogae Thermopallium natronophillum(96) [X9f1822]

– –

Pol-B-30 2 δ-Proteobacteria Uncult. clone B21 (88) [AY375070]

Western Pacific warm pool sediment

–

Pol-B-76 2 OP10 Uncult. clone A3DB-A12 (94) [DQ645244]

Hot springs, Oregon USA Bacillus sp. (86) (AF252327)

Pol-Β-Α53 2 OP11 Uncult. clone SM1E10 (92) [AF445687] LOW SCORE

Yellowstone hot springs –

Pol-B-4 1 Actinomycetales Propionibacterium sp. (98) [AM410900]

Deep sea –

Pol-B-10 1 Aquificales Hydrogenivirga okinawensis(95) [AB235314]

– –

Pol-B-13 1 Planctomycetales Uncult. clone PNG_TB_4A2.5H2_B56 (89) [EF100640]

Submarine hydrothermal system, Papua New Guinea

–

Pol-B-17 1 Chloroflexi Uncult. clone AKYH948 (95) [AY921747]

Dehalococcoides sp. (83) [AJ431246

Pol-B-25 1 Chloroflexi Uncult. clone #1-4 (94) [AB250555]

Grotta Azzurra of Palinuro Cape (Salerno, Italy)

–

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Pol-B-29 1 Chloroflexi Uncult. clone TK-SH11 (92) [DQ463707]

Lake Tanganyika –

Pol-B-37 1 Thermus/Deinococcus Uncult. Thermus/Deinococcus clone A3DB-A6 (95) [DQ645242]

Hot springs, OR, USA Thermus aquaticus (95) [L09663]

Pol-B-41 1 Unidentified Uncult. clone a2b022 (89) [AF419667]

Guyamas Basin Caldilinea aerophila (84) [AB067647]

Pol-B-42 1 Chloroflexi Uncult. clone XME56 (95) [DQ490003]

Great Boiling Spring Thermaerobacter subterraneus(86) [AF343566]

Pol-B-48 1 Unidentified Uncult. clone 654970 (91) [DQ404640]

Contaminated sediments Thermaerobacter subterraneus(85) [AF343566]

Pol-B-54 1 Firmicutes Bacillus sp. (99) [U46747] Hot spring matPol-B-58 1 Planctomycetales Uncult. clone OPB17 (98)

[AF027057]Yellowstone Planctomyces sp. (88) [X81953]

Pol-B-61 1 Unidentified Uncult. clone PS-B30 (86) [AY280428]

Paralvinella sulfincola tubeassociated

–

Pol-B-62 1 γ-Proteobacteria Uncult. clone FAC29 (96) [DQ451468]

Forest soil, Taiwan –

Pol-B-70 1 Thermotogae Uncult. clone TP133 (95) [EF205582]

Geothermal regions, Tibet –

Pol-B-93 1 Bacteroidetes Uncult. clone 3G3 (93) [EF106234]

Endoevaporitic salt crust Salinibacter ruber (92) [AF323499]

Edi-B-3 60 Aquificae Aquificales str. CIR30126 (95) [AF393378]

Indian Ocean hydrothermal vent

Persephonella hydrogeniphila(95) [AB086419]

Edi-B-14 6 Nitrospirae Uncult. clone HAuD-LB/2-47 (90) [AB176701]

Geothermal water in Japanese gold mine

Candidatus Magnetobacterium bavaricum (89) [X71838]

Edi-B-6 5 γ-Proteobacteria Sulfurivirga caldicularium (98) [AB245480]

Shallow hydrothemal vents –

Edi-B-7 5 β-Proteobacteria Uncult. clone CM25 (89) [DQ832637]

Juan de Fuca hydrothermal vent

Geobacter grbicium (86)

Edi-B-9 1 OP11 Uncult. clone SM1F02 (91) [AF445690]

Mammoth Hot Springs, Yellowstone

–

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Edi-B-29 1 Cyanobacteria Geitlerinema sp. (97) [DQ151461]

– –

Edi-B-31 1 Proteobacteria Uncult. clone SalB7 (94) [EF031096]

Hypersaline lake, Spain –

Edi-B-34 1 OP11 Uncult. clone KNA6-NB20 (87) [AB179675]

Deep groundwater –

Edi-B-38 1 Cyanobacteria Uncult. clone SM2A06 (98) [AF445707]

Yellowstone Spirulina sp. (95) [Y17893]

Edi-B-40 1 Deferribacteres Caldothrix abyssi (96) [AJ430587]

MAR hydrothermal vent –

Edi-B-42 1 β-Proteobacteria Uncult. clone NAK2-b1 (99) [DQ867044]

Natural gas associated water, Japan

Hydrogenophilus denitrificans(98) [AY820184]

Edi-B-69 1 γ-Proteobacteria Uncult. clone PDC-OTU6 (91) [AY700624]

Coral reef Glaciecola punicea (88) [U85851]

Edi-B-82 1 Firmicutes, Clostridia Coprothermobacter sp (98) [AB162803]

Anaerobic bioreactor –

Edi-B-84 1 Cyanobacteria Synechocystis sp. (98) [AB039001]

– –

Edi-B-85 1 Unidentified Uncult. clone VC2.1 Bac47 (94) [AF209779]

MAR hydrothermal vent Thermodesulforhabdus norvegicus (88) [U25627]

Edi-B-94 1 δ-Proteobacteria Desulfacinum sp. (88) [AF170418]

Milos shallow vents –

Edi-B-95 1 α-Proteobacteria Rhodovulum imhoffii (94) [AM180953]

– –

Edi-B-98 1 OP11 Uncult. clone MSB-3A10 (91) [DQ811940]

Mangrove soil –

Edi-B-109 1 γ-Proteobacteria Uncult. clone NAK2-b3 (99) [DQ867045]

High temperature natural gas associated water

Natronocella acetinitrilica (93) [EF103128]

Edi-Β-A10 1 OP11 Uncult. clone TP140 (89) [EF205544]


Edi-B-A26 1 OP11 Uncult. clone SM1E10 (92) [AF445687]

Yellowstone hot springs –

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Edi-Β-A70 1 OP11 Uncult. clone TP124 (86) [AF445690]


Edi-B-A109 1 ‘Termite group’ Uncult. bacterium clone OPPA005 (93)[AY861728]

Yellowstone –

Edi-Β-A121 1 OP11 Uncult. clone MSB-5E1 (88) [DQ811943]

Mangrove soil –

Edi-B-A89 1 OP11 Uncult. clone Mb-NB04 (84) [AB193897]

<0.2 μm deep-sea hydrothermal vent water

–

Thp-B-2 39 ε-Proteobacteria Uncult. clone PD-UASB-2 (97) [AB240460]

Phragmites rhizosphere biofilm

–

Thp-B-1 10 γ-Proteobacteria Thiomicrospira sp. (93) [AF013975]

– –

Thp-Β-A28 10 OP11 Uncult. clone MERTZ_21CM_336 (86) [AF424454]

Antarctic continental shelf sediment

–

Thp-B-15 7 ε-Proteobacteria Uncult. clone ML615J-7 (95) [AF458288]

Mono Lake, CA, USA (hypersaline)

Sulfurimonas autotrophica (95) [AB088432

Thp-B-37 5 ε-Proteobacteria Uncult. clone MC1_bact_cl92 (94) [DQ295694]

Sulfidic springs and caves –

Thp-B-7 4 ε-Proteobacteria Candidatus Arcobactersulfidicus (93) [AY035822]

Deep-sea vents –

Thp-B-19 3 ε-Proteobacteria Uncult. clone SR_FBR_L85 (96) [AY340842]

Reactors treating acidic metal- and sulfate-containing wastewater

Sulfuricurvum kujiense (96) [AB080644]

Thp-B-39 3 ε-Proteobacteria Uncult. clone WM35 (94) [DQ133918]

Frasassi cave system, Italy –



–

Thp-B-A61 2 OP11 Uncult. clone Sc-NB07 (89) [AB193923]

Deep-sea vents –

Thp-B-51 1 γ-Proteobacteria Uncult. clone BPC028 (95) [AF154088]

Hydrocarbon seep sediment Nitrosococcus halophilus (89) [AF287298]

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Thp-B-10 1 Bacteroidetes Uncult. clone MSB-5B11 (95) [DQ811912]

Mangrove soil Flexibacter aggregans subsp. catalaticus (88) [AB078042]

Thp-B-13 1 ε-Proteobacteria Uncult. clone PD-UASB-61 (94) [AY261819]

Sludge degrading phenol wastewater

–

Thp-B-16 1 ε-Proteobacteria Uncult. clone EUB24 (96) [AY693822]

Granular sludge treating cassava starch wastewater

Sulfuricurvum kujiense (96) [AB080644]

Thp-B-18 1 Thermotogae Geotoga aestuarianus strain T3B (88) [AF509468]

Isolated from a karstic sink hole

–

Thp-B-27 1 γ-Proteobacteria Thiovirga sulfuroxydans(97) [AB118236]

– –

Thp-B-41 1 β-Proteobacteria Uncult. clone OPPB042 (98)[AY861780]

Yellowstone Acidovorax sp. (97) [AM084011]

Thp-B-45 1 Chlorobi Chlorobium limicola (98) [M31769]

– –

Thp-B-73 1 Firmicutes Uncult. clone SM2H06 (91) [AF445744]

Yellowstone Denitratisoma oestradiolicum(86) [AY879297]



Helicobacter cf. pullorum (89) [AF334681]

Thp-B-87 1 γ-Proteobacteria Oceanospirillum linum (97) [M22365]

– –

Thp-B-96 1 ε-Proteobacteria Uncult. clone DKS_EPS2_cl1 (98) [DQ295589]

Sulfidic springs –

Thp-B-97 1 ε-Proteobacteria Uncult. clone DS094 (96) [DQ234177]

Mangrove bacterioplankton Helicobacter sp. (90) [M88152]

Thp-B-104 1 ε-Proteobacteria Uncult. clone CC1_CL33 (95) [DQ295573]

Sulfidic springs Sulfurimonas autotrophica (95) [AB088431]

Thp-B-105 1 γ-Proteobacteria Thermomonas haemolytica (98) [AJ300185]

– –

Thp-B-107 1 ε-Proteobacteria Uncult. clone Rs-M59 (89) [AB089111]

Termite gut Campylobacter sp. (87) [AY135396]

Thp-B-112 1 ε-Proteobacteria Uncultured Arcobacter sp. clone Anaerobic biofilms Arcobacter butzleri (97)

of 18

I72 (99) [AY692046] [AF314538]Thp-B-116 1 Bacteroidetes Uncult. clone E16 (93)

[AY426460]Anaerobic bioreactor treating paper mill wastewater

Owenweeksia hongkongensis(90) [AB125062] {Bacteroidetes}

Thp-B-A4 1 Unidentified Uncult. clone IndB4-27 (94) [AB100014]

Hydrothermal vents, mid-Okinawa & Indian Ocean

–

Thp-B-A48 1 OP11 Uncult. clone MSB-3A10 (90) [DQ811940]

Mangrove soil

Thp-Β-A84 1 OP11 Uncult. clone GKS2-174 (86) [AB290045]

Lake bacterioplankton –

Thp-Β-A85 1 OP11 Uncult. clone 09D2Z47 (96) [DQ329881]


Thp-B-A87 1 WS6 Uncult. clone 08D2Z15 (89) [DQ397492]


Thp-Β-A123 1 OP11 Uncult. clone WM61 (91) [DQ415773]

Frasassi cave system, Italy –

Ele-B-1 78 ε-Proteobacteria Uncult. clone PD-UASB-2 (95) [AB240460]


–

Ele-B-12 7 Unidentified Uncult. clone 661235 (93) [DQ404783]

Contaminated sediments –

Ele-Β-A34 5 OP11 Uncult. clone SM1F02 (90) [AF445690]


–

Ele-B-11 3 Chlorobi Uncult. clone PHOS-HE36 (91) [AF314435]

P-removal ecosystem – nitrate respiration

–

Ele-B-23 2 β-Proteobacteria Uncult. clone TSBW06 (96) [AB186837]

Dechlorinating microbial community

Sterolibacterium denitrificans(93) [AJ306683]

Ele-B-87 2 ε-Proteobacteria Uncult. clone IEB14 (97) [DQ069190]

Deep SLiME Helicobacter bilis (91) [AY578098]

Ele-Β-A25 2 OP11 Uncult. clone SM1F02 (92) [AF445690]


–

Ele-B-7 1 Chloroflexi Uncult. clone XME40 (94) [EF061970]

Mangrove sediment –

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Ele-B-9 1 ε-Proteobacteria Uncult. clone MC1_bact_cl92 (96) [DQ295694]



Sulfidic springs and caves Sulfurovum lithotrophicum (95) [AB091292]

Ele-B-54 1 β-Proteobacteria Uncult. clone ccs265 (98) [AY133064]

TCE-contaminated site Thiobacillus aquaesulis (96) [U58019]

Ele-B-61 1 ε-Proteobacteria Uncult. clone CC1_CL33 (96) [DQ295573]

Sulfidic springs Thiomicrospira denitrificans(93) [L40808]

Ele-B-63 1 ε-Proteobacteria Uncult. clone PD-UASB-2 (97) [AB240460]


–

Ele-B-83 1 β-Proteobacteria Uncult. clone DSBACT86 (96) [AY762627]

South African gold mine Denitratisoma oestradiolicum(95) [AY879297



Ele-Β-A56 1 Unidentified Uncult. clone LS4-266 (90) [AB234287]

Contaminated sediment microcosms

Thermolithobacter carboxydivorans (86) [DQ095862]

Lag-B-2 52 γ-Proteobacteria Acinetobacter lwoffii (98) [X81665]

– –

Lag-B-5 26 β-Proteobacteria Uncult. clone NO27FW100501SAB29 (98) [DQ230943]

Kalahari Shield subsurface water

Vogesella indigofera (95) [AB021385]

Lag-B-3 9 β-Proteobacteria Uncult. Aquabacterium sp. clone B-14 (96) [AF523042]

Natural mineral water after bottling

Leptothrix cholodnii (94) [X97070]

Lag-B-12 5 γ-Proteobacteria Serratia sp. TCR (98) [EF070125]

Chlorpyrifos degrading bacteria

Serratia marcescens (98) [AY514434]

Lag-B-18 4 α-Proteobacteria Brevundimonas sp. (99) [DQ676936]

Chlorpyrifos degrading bacteria

–

Lag-B-23 4 β-Proteobacteria Hydrogenophaga sp. (98) [AB166889]

Environmental sample –

Lag-B-26 2 γ-Proteobacteria Uncult. clone GPTSA100-26 (99) [DQ914846]

Warm spring, India Rheinheimera baltica (94) [AJ441082]

of 18

Lag-B-1 1 α-Proteobacteria Uncult. clone HF130_H5_P1 (94) [DQ300623]

Oceanic sediments Rhodovibrio sp. (88) [AY987846]

Lag-B-20 1 β-Proteobacteria Uncult. clone GOUTB18 (94) [AF050601]

Contaminated groundwater Gallionella ferruginea (94) [L07897]

Lag-B-69 1 β-Proteobacteria Uncult. clone SS-96 (95) [AY945900]

Denitrifying bioreactor Thiobacillus aquaesulis (96) [U58019]

Lag-B-71 1 γ-Proteobacteria Uncult. clone aab52c03 (98) [DQ815246]

Gut microbiota Pseudomonaspseudoalcaligenes (97) [AB109887]

Lag-B-74 1 Unidentified Uncult. clone 300E2-F12 (94) [AY661972]

Uranium contaminated groundwater

Bacteriovorax sp. (89) [AY294220]

Lag-B-81 1 Unidentified Uncult. clone FS142-11B-02 (91) [DQ513022]

Ridge flank crustal fluids -

Lag-B-89 1 α-Proteobacteria Uncult. clone lhap7 (98) [DQ648959]

PCB polluted soil Methylocella silvestris (93) [AJ491847]

Lag-B-95 1 β-Proteobacteria Mitsuaria chitosanitabida (97) [AB006851]

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Lag-B-118 1 β-Proteobacteria Hydrogenophaga sp. (96) [DQ854974]

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apparent richness and community composition of bacteria

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