Table 1.
Clone library, cultured isolate, sample type, and temperature data for Zetaproteobacteria SSU rRNA gene sequences used in this study
| Sequence type and yr collected | Clone library/cultured isolatea | Region | Site | No. (%) of ζb clones per library | Sample type | Temp (°C) | Reference(s) or source |
|---|---|---|---|---|---|---|---|
| Full-length sequences | |||||||
| 1991 | Pele's Vents bacteria (PVB) | Loihi Seamount | Pele's Vents | 1 (<5) | Microbial mat | 37 | Moyer et al. (47, 48) |
| 1996 | M. ferrooxydans strain PV-1 | Loihi Seamount | Naha Vents (Mkrs 3-6) | NAc | Microbial mat | 23 | Emerson and Moyer (19), Emerson et al. (21) |
| 1998 | M. ferrooxydans strain JV-1 | Loihi Seamount | Ikaika (Mkr 11) | NA | Microbial mat | 165 | Emerson and Moyer (19), Emerson et al. (21) |
| 2003 | PV-549_X2 | Loihi Seamount | Pisces Peak | 2 (<5) | Altered basalt | 4 | Santelli et al. (56) |
| 2004 | PV-601_b18 (UHO) | Loihi Seamount | Upper Hiolo (Mkr 36) | 4 (8) | Microbial mat | 57 | This study |
| 2004 | PV-602_b14 (SPL) | Loihi Seamount | Spillway (Mkr 34) | 19 (38) | Microbial mat | 63 | This study |
| 2006 | Mariprofundus sp. strain M34 | Loihi Seamount | Spillway (Mkr 34) | NA | Microbial mat | 52 | This study |
| 2006 | Growth chamber LoBT_24 (Loh) | Loihi Seamount | Lohiau (Mkrs 2-5) | 30 (62) | Growth chamber | 22 | Rassa et al. (55) |
| 2006 | Ula Nui bacteria (UNB) | Loihi Seamount | Ula Nui (FeMO Deep site) | 8 (10) | Manganese crust | 1.7 | Edwards et al. (13) |
| 2007 | J2-308_redgreen (UNH) | Loihi Seamount | Upper North Hiolo (Mkr 39) | 6 (5.3) | Microbial mat | 53 | This study |
| 2007 | J2-310_bluered (ULoh) | Loihi Seamount | Upper Lohiau (Mkr 55) | 13 (8.8) | Microbial mat | 22 | This study |
| 2008 | J2-373_scoop1 (Poh) | Loihi Seamount | Pohaku (Mkr 57) | 59 (70) | Microbial mat | 27 | This study |
| 1997 | Red Sea KT-2 | Red Sea | Kebrit Deep | 1 (7) | Brine-seawater interface | 22 | Eder et al. (12) |
| 1998 | Guaymas core B | Southern Guaymas vent field | Everest Mound | 1 (<5) | Sediment core | 3–16 | Dhillon et al. (10) |
| 2002 | Cleft Mound push core 23 | Juan de Fuca Ridge | Cleft segment (off axis) | 8 (15) | Sediment core | 5.6 | Davis et al. (9) |
| 2003 | WSMO200 | California | San Francisco Bay (salt marsh) | 2 (<5) | Surface sediment | 10–18 | Moreau et al. (45) |
| 2003 | 1-WB | Southern Mariana Trough | Fryer site | 1 (<5) | Microbial mat | 77 | Davis and Moyer (7) |
| 2003 | 2-WB | Southern Mariana Trough | Fryer site | 7 (12) | Microbial mat | 77 | Davis and Moyer (7) |
| 2004 | Papm3 | Southern Mariana Trough | Pika site | 5 (50) | Borehole fluid | 6–12 | Kato et al. (35) |
| 2005 | Tangaroa floc (TF) | Kermadec Arc | Tangaroa Seamount | 1 (<5) | Microbial mat | 14.2 | Hodges and Olson (29) |
| 2005 | Tangaroa sediment (TS) | Kermadec Arc | Tangaroa Seamount | 1 (<5) | Deep-sea sediment | 12 | Hodges and Olson (29) |
| 2005 | Clark floc (CF) | Kermadec Arc | Clark Seamount | 1 (<5) | Microbial mat | 6.1 | Hodges and Olson (29) |
| 2005 | Vailulu'u Seamount (VS_CL) | Vailulu'u Seamount | Nafanua summit | 4 (<5) | Microbial mat | 5.8 | Sudek et al. (64) |
| 2007 | East Lau Spreading Center (ELSC) | East Lau Spreading Center | TVG9 (near Tui Malila) | 20 (16) | Sediment core | >41.2 | GenBank accession no. FJ205309 to FJ205312; C. Dong (personal communication) |
| 2007 | R1053 (V1F) | Tonga Arc | Volcano 1 | 63 (43) | Microbial mat | 17.2 | Forget et al. (24) |
| 2007 | R1046 (AV19F) | Tonga Arc | Volcano 19 | 28 (17) | Microbial mat | 16.2 | Forget et al. (24) |
| 2008 | Mariprofundus sp. strain GSB2 | Maine | Great Salt Bay (salt marsh) | NA | Surface sediment | 11.5 | McBeth et al. (44) |
| 2009/2010 | Bigelow enrichment experiments | Maine | Boothbay Harbor/Southport Island | NA | Enrichment | 2–21 | McBeth et al. (44) |
| Partial-length sequences | |||||||
| 2004 | Papm3 | Southern Mariana Trough | Pika site | 30 (50) | Borehole fluid | 6–12 | Kato et al. (35) |
| 2004 | Fapm1a | Southern Mariana Trough | Fryer site | 7 (11) | Borehole fluid | 27–30 | Kato et al. (35) |
| 2004 | Fapm1b | Southern Mariana Trough | Fryer site | 11 (15) | Borehole fluid | 17–27 | Kato et al. (35) |
| 2005 | YS16U | Southern Mariana Trough | Kaiko site | 12 (8.4) | Microbial mat | 33 | Kato et al. (34) |
| 2005 | YS18U | Southern Mariana Trough | Fryer site | 57 (45) | Microbial mat | 36–116 | Kato et al. (34) |
| 2008 | J2-373_scoop5 (M48) | Loihi Seamount | Mkr 48 | 9 (11) | Microbial mat | 38 | GenBank accession no. JF440627 to JF440635 |
a
Novel cultured isolate and clone libraries constructed for this study are highlighted in boldface.
b
ζ clones, Zetaproteobacteria clones.
c
NA, not applicable.