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Table 2. Summary of published uncultivated environmental archaeal SSU rRNA clones by their environments.


* - as given by the authors in the corresponding publications.
** - Group I is related to Crenarchaeota; Group II and III belong to the Euryarchaeota (section 1.3.5 and Delong, 1998). Sign "+" in column "other" indicates that reported sequences do not affiliated with Groups I, II or III. Sign "-" indicates that no sequences of that group were found.

 

Clones name

Environment description*

Reported Group**

Reference

I

II

III

other

 

„Hot“ environments

 

 

 

 

 

pJP

hot spring, Yellowstone National Park, USA

-

-

-

+

Barns et al., 1994; Barns et al., 1996

pSL

hot spring, Yellowstone National Park, USA

+

-

-

+

Barns et al., 1996

PVA_OTU

hydrothermal vent microbial mat, Pacific Ocean, Hawaii

+

+

-

-

Moyer et al., 1998

pOSA, pOWA, pUWA

marine and terrestrial hot water environments, Japan

+

-

-

+

Takai and Sako, 1999

pMC, pIVWA, pISA

deep-sea hydrothermal vent, Japan

+

-

+

+

Takai and Horikoshi, 1999

O23, O14, O18

high temperature petroleum reservoir

-

-

-

+

Orphan et al., 2000

pBA

hot spring, Yellowstone National Park, USA

-

-

-

+

Reysenbach et al., 2000a

VC2.1Arc

in situ growth chamber, Mid-Atlantic Ridge hydrothermal vent

+

-

+

+

Reysenbach et al., 2000b

SUBT

seafloor hydrothermal vent, hot spring, Iceland

-

-

-

+

Marteinsson et al., 2001a; Marteinsson et al., 2001b

pPACMA

black smoker chimney, Manus Basin, Papua New Guinea

+

-

-

+

Takai et al., 2001a

clone A

arsenite-oxidizing acid thermal spring, Yellowstone NP, USA

+

-

-

+

Jackson et al., 2001

Guaymas AT, CS

deep-sea hydrothermally active sediment, Guaymas Basin

+

-

+

+

Teske et al., 2002

IUA

Lidy hot spring groundwater, Idaho, USA

+

-

-

+

Chapelle et al., 2002

Nanoarchaeum equitans

submarine hot vent, Kolbeinsey ridge, north of Iceland

-

-

-

+

Huber et al., 2002a

 

Marine environments

 

 

 

 

 

WHAR Q, WHAR N

marine picoplankton, Atlantic ocean, USA

+

+

-

-

Delong, 1992

NH

marine picoplankton, Pacific Ocean, USA

+

-

-

-

Fuhrman et al., 1992

SBAR, SB95

marine picoplankton, St.Barbara Channel, USA

+

+

-

-

Delong, 1992; Massana et al., 1997

ANT, OARB

marine picoplankton, Arthur Harbor, Antarctica

+

+

-

-

Delong et al., 1994

Fosmid 4B7

marine picoplankton, Pacific Ocean

+

-

-

-

Stein et al., 1996

pM, C

marine plankton, Atlantic ocean

+

-

-

-

McInerney et al., 1997

Mariana

marine sediment, Mariana Trench

+

-

-

-

Kato et al., 1997

pB1

marine picoplankton, Atlantic ocean

+

+

-

-

Fuhrman and Davis, 1997

p712, pN1

marine plankton, Pacific ocean

+

+

+

-

Fuhrman and Davis, 1997

BBA

marine sediment, Cape Cod, USA

+

-

+

-

Vetriani et al., 1998

TS, NS-TS

suspended particulate matter, North Sea, Netherlands

+

+

-

+

van der Maarel et al., 1999; van der Maarel et al., 1998

ODPB-A

methane hydrate containing marine fluids and sediments in the Cascadia margin (ODP site 892B)

+

-

-

-

Bidle et al., 1999

JBT, JTA, JTB

marine sediment cold-seep area, Japan Trench

+

-

-

+

Li et al., 1999

CRA, ACA, APA

deep-sea sediments, Atlantic ocean

+

-

+

+

Vetriani et al., 1999

Eel-BA, Eel-TA

marine sediment, Eel river, California, USA

-

-

+

+

Hinrichs et al., 1999

A2M

marine sediment colonized by the phanerogam Zostera noltii

+

-

+

+

Cifuentes et al., 2000

AT, ME, DN, DS, AM, CA, SB, DF

different marine provinces (Pacific and Atlantic oceans, Mediterranean sea, Antartic)

+

+

+

-

Massana et al., 2000

A1, A2, B, M1- M7

Mediterranean and Antarctic waters at different depth

+

-

-

-

Garcia-Martinez and Rodriguez-Valera, 2000

CRO

coastal ocean near Columbia river, USA

+

-

-

-

Crump and Baross, 2000

PENDANT, BUR-TON,CLEAR,ACE

anoxic sediments of marine salinity meromictic lake, Eastern Antarctica

-

-

+

+

Bowman et al., 2000b

DH148-, GIV-

deep-sea site, Antarctic Polar Front

-

+

+

+

Lopez-Garcia et al., 2001b

DH148-

deep-sea site, Antarctic Polar Front

-

+

+

+

Lopez-Garcia et al., 2001a

Car

anoxic zone of the Cariaco Basin

+

-

-

+

Madrid et al., 2001b

Eel, SB

anoxic marine sediments, Californian continental margin, USA

-

-

-

+

Orphan et al., 2001

VIARC, CIARC, CRARC, TOARC, BANARC

planktonic assemblages of several anaerobic, sulfide-rich lakes

+

-

+

+

Casamayor et al., 2001

AT 425

gas hydrate mineral, Gulf of Mexico

-

-

+

+

Lanoil et al., 2001

Cas

deep gas hydrate sediments from the Cascadia Margin

-

-

-

+

Marchesi et al., 2001

ANME

marine sediment, Aarhus Bay, Denmark

-

-

-

+

Thomsen et al., 2001

33-FL, 33-P

hydrothermal vent fluids, Juan de Fica Ridge, Oregon, USA

+

+

+

+

Huber et al., 2002b

 

Hypersaline environments

 

 

 

 

 

HAC

crystallizer ponds from a marine saltern

-

-

-

+

Benlloch et al., 1995

1MT, 2MT, 2C

salt marsh sediments, UK

-

-

+

+

Munson et al., 1997

KTK

highly saline brine sediments of Kebrit Deep, Red Sea

-

+

+

-

Eder et al., 1999

MSP

alkaline saternat Lake Magadi, Kenya, East Africa

-

-

-

+

Grant et al., 1999

Dec., June

hypersaline stratified lake Solar, Sinai, Egypt

-

-

+

+

Cytryn et al., 2000

DEEP, ORGANIC

three hypersaline Antarctic lakes

-

-

-

+

Bowman et al., 2000a

Nh.2, B1bra, 2Br

ancient solt deposit

-

-

-

+

McGenity et al., 2000

Env, CD,CLI, YELI

crystallizer ponds from a solar saltern, Spain

-

-

-

+

Benlloch et al., 2001

A

Alpine Permo-Trassic rock salt

-

-

-

+

Radax et al., 2001

 

Soils

 

 

 

 

 

FIE16

soybean field soil, Japan

+

-

-

-

Ueda et al., 1995

FFSB

forest soil, Finland

+

-

-

-

paper I, 1997

GU,GA,SC,SW,SO

rice soil, Japan

+

-

-

+

Kudo et al., 1997

P17, M17

forest soil, Brazil

-

-

-

+

Borneman and Triplett, 1997

SCA

agricultural soil, Wisconsin, USA

+

-

-

-

Bintrim et al., 1997

KBS

agricultural soil, Michigan, USA

+

-

-

-

Buckley et al., 1998

ABS

anoxic rice soil, Italy

+

-

+

+

Grosskopf et al., 1998a; Grosskopf et al., 1998b

Arc.

deep subsurface paleosol, Washington St. USA

+

-

-

-

Chandler et al., 1998

FFSA, FFSC

forest soil, Finland

+

-

-

-

paper II, 1999

ST, S15, S30

anoxic rice soil, Italy

+

-

-

+

Chin et al., 1999

SW, SC

rice soil, Japan

-

-

-

+

Kim et al., 2000

AS00, AS01, A08, AS17

rice soil, Italia

+

-

+

+

Lueders and Friedrich, 2000

Shen, Gap

rice soil, China, The Philippines

+

-

-

+

Ramakrishnan et al., 2001

ARS

anoxic rice soil, Italy

+

-

-

+

Weber et al., 2001

S

agricultural soil and casts of earthworm

+

-

-

-

Furlong et al., 2002

 

Symbionts and other environments

 

 

 

 

 

JM

sea cucumber midgut, Atlantic ocean

+

-

-

-

McInerney et al., 1995

R

peat bogs

-

-

-

+

Hales et al., 1996

C. symbiosum

marine sponge tissue, Pacific Ocean

+

-

-

-

Preston et al., 1996

Vadin (DA,DC,CA)

biofilm of a fluidized-bed anaerobic digestor

+

+

-

+

Godon et al., 1997

FIN

flounder digestive tract

+

+

-

+

van der Maarel et al., 1999; van der Maarel et al., 1998

FF

flounder feces

-

+

-

+

van der Maarel et al., 1999; van der Maarel et al., 1998

GIN492

grey mullet digestive tract

-

+

-

-

van der Maarel et al., 1998

ARR

rice roots

+

-

+

+

Grosskopf et al., 1998b

WCHD, WCHA

hydrocarbon- and chlorinated-solvent-contaminated aquifer

+

-

+

+

Dojka et al., 1998

MUG, TUG

mesophilic and thermophilic granular sludges

-

-

-

+

Sekiguchi et al., 1998

Cd30, MP, MN, MO, MH

intestinal microflora of the termite gut

-

-

-

+

Ohkuma et al., 1999; Ohkuma and Kudo, 1998

Ar

swine waste storage pit

-

-

+

+

Whitehead and Cotta, 1999

H2, EtOH

washed rice roots

-

-

-

+

Lehmann-Richter et al., 1999

R

associated with rumen ciliate

-

-

-

+

Tokura et al., 1999

RS

hindgut of the lower termite Reticulitermes speratus

-

-

-

+

Shinzato et al., 1999

Aglo 120

copper commercial-scale bioleaching plant (mixed isolate)

-

-

+

-

Vasquez et al., 1999

SJC, SJD

anaerobic TCB transforming microbial consortium

-

-

-

+

von Wintzingerode et al., 1999

TRC

terrestrial plant roots

+

-

-

-

Simon et al., 2000

SC

lithotrophic biofilm at an extreme acid mine drainage site

-

-

+

-

Bond et al., 2000

cM, c, cHole

cow rumen

-

-

+

+

Tajima et al., 2001

ARC

bovine rumen

-

-

-

+

Whitford et al., 2001

Cren21-, P-Ar-

intestinal tract of temite Cubitermes orthognathus

+

-

-

-

Friedrich et al., 2001

UASB-TA

terephthalate-degrading anaerobic granular sludge system

-

-

-

+

Wu et al., 2001

AC

industrial dye effluent in an anaerobic baffled reactor

-

-

-

+

Plumb et al., 2001

H1, H6, S3

ancient wall paintings

-

-

-

+

Pinar et al., 2001

ZmrA

roots of Zea mays L.

+

+

-

-

Chelius and Triplett, 2001

 

Freshwater and "mixed" environments

 

 

 

 

 

pLem, pGrf

freshwater lake sediment, Lake Lemon and Griffy, USA

+

-

-

-

Hershberger et al., 1996

pLaw

freshwater lake sediment, Lawrence Lake, USA

+

-

-

+

Schleper et al., 1997a

LMA

freshwater lake sediment, Lake Michigan, USA

+

-

-

+

MacGregor et al., 1997

Winarc

freshwater lake sediment, Lake Windermere, UK

-

-

-

+

Miskin et al., 1998

Rot

freshwater lake sediment, Lake Rotsee, Switzerland

-

-

-

+

Zepp et al., 1999

VAL

freshwater lake water, Valkea Kotinen Lake, Finland

+

-

+

+

paper IV, 2000

CRE, CR

Columbia river and it's estuary, USA

+

+

-

-

Crump and Baross, 2000

N1d, N41r

mobile deltaic muds of Southeastern Papua New Guinea

+

-

-

+

Todorov et al., 2000

Soyang, SYA

sediment of meso-eutrophic Lake Soyang, Korea

-

-

-

+

Go et al., 2000

Green Bay, AR

freshwater ferromanganous micronodules and sediments

+

-

-

+

Stein et al., 2001

DOURO

estuarine sediment, river Douro, Portugal

+

-

-

+

paper III, 2001

CL500-AR

bacterioplankton ultra-oligotrophic Crater Lake, USA

+

-

-

-

Urbach et al., 2001

a50ev, a60av,

mat from Lake Fryxell, McMurdo Dry Valleys, Antarctica

+

-

-

+

Brambilla et al., 2001

SAGMA

deep subsurface South African gold mine environments

+

-

-

+

Takai et al., 2001b

KS

mobile mud deposit, French Guiana

+

-

-

-

Madrid et al., 2001a

EHB

freshwater sediment, River Colne estuary, UK

-

-

-

+

Purdy et al., 2002


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