TABLE 2.
Sources of the probes printed on the CBv1 nifH macroarraya
| Cluster or branch | Array positionb | Isolate or clonec | GenBank accession no. | Phylogenetic affiliation |
|---|---|---|---|---|
| Cluster I | A2 | Arcobacter nitrofigilis (DSM 7299) | AY221825 | ɛ Proteobacteriad |
| B2 | Synechocystis sp. (WH001) | AY221818 | Cyanobacteria | |
| C2 | Synechocystis sp. (WH8501) | AY221821 | Cyanobacteria | |
| D2 | Station ALOHA clone HT1903 | AF299422 | ||
| E2 | Station ALOHA clone HT1902 | AF299420 | ||
| F2 | Anabaena cylindrica (UTEX 629) | AY221813 | Cyanobacteria | |
| G2 | Tolypothrix sp. (PCC 7101) | AY221817 | Cyanobacteria | |
| H2 | Nostoc muscorum (UTEX 486) | AY221814 | Cyanobacteria | |
| A3 | Oscillatoria sancta (PCC 7515) | AY221815 | Cyanobacteria | |
| B3 | Symploca sp. (PCC 8002) | AY221816 | Cyanobacteria | |
| C3 | Vibrio diazotrophicus (DSM 2604) | AY221828 | γ Proteobacteria | |
| D3 | Paenibacillus azotofixans (DSM 5976) | AY221826 | Firmicutes | |
| E3 | CB894H2 | AY223945 | ||
| F3 | CB909H9 | AY224005 | ||
| G3 | Klebsiella oxytoca (NRRL B-199) | AY221827 | γ Proteobacteria | |
| H3 | CB909H5 | AY224002 | ||
| A4 | Azotobacter chroococcum (NRRL B-14637) | AY351672 | γ Proteobacteria | |
| B4 | CB894H8 | AY223950 | ||
| C4 | Frankia sp. (DSM 43829) | AY351671 | Actinobacteria | |
| D4 | CB911H3 | AY224015 | ||
| E4 | CB891H1 | AY223907 | ||
| F4 | CB891H4 | AY223912 | ||
| G4 | CB894H10 | AY223944 | ||
| H4 | CB914H1 | AY224026 | ||
| A5 | CB916H1 | AY224034 | ||
| B5 | CB895H8 | AY223957 | ||
| C5 | CB891H8 | AY223911 | ||
| D5 | CB907H2 | AY223968 | ||
| E5 | CB907H9 | AY223997 | ||
| F5 | Xanthobacter flavus (NRRL B-14838) | AY221812 | α Proteobacteria | |
| G5 | CB891H3 | AY223908 | ||
| H5 | CB921H3 | AY224040 | ||
| A6 | CB921H7 | AY224042 | ||
| B6 | CB909H7 | AY224003 | ||
| C6 | CB895H7 | AY223956 | ||
| D6 | CB914H5 | AY224029 | ||
| E6 | Sinorhizobium meliloti (NRRL L-45) | AY221811 | α Proteobacteria | |
| F6 | CB908H5 | AY223998 | ||
| Deep branches | ||||
| G6 | CB916H3 | AY224036 | ||
| H6 | CB916H7 | AY224037 | ||
| A7 | CB910H3 | AY224008 | ||
| B7 | CB910H8 | AY224012 | ||
| C7 | CB910H4 | AY224009 | ||
| D7 | CB910H6 | AY224011 | ||
| E7 | CB907H5 | AY223979 | ||
| F7 | CB912H4 | AY224020 | ||
| G7 | CB910H10 | AY224006 | ||
| H7 | CB911H10 | AY224013 | ||
| A8 | CB909H8 | AY224004 | ||
| B8 | CB911H1 | AY224014 | ||
| C8 | CB914H6 | AY224030 | ||
| D8 | CB907H10 | AY223960 | ||
| E8 | CB907H4 | AY223976 | ||
| F8 | CB894H4 | AY223946 | ||
| G8 | CB895H1 | AY223952 | ||
| H8 | CB921H1 | AY224039 | ||
| A9 | CB891H5 | AY223910 | ||
| B9 | CB894H6 | AY223948 | ||
| C9 | CB895H2 | AY223953 | ||
| D9 | CB895H4 | AY223955 | ||
| E9 | CB914H7 | AY224031 | ||
| F9 | CB895H9 | AY223958 | ||
| G9 | CB895H10 | AY223951 | ||
| H9 | CB894H5 | AY223947 | ||
| A10 | CB895H3 | AY223954 | ||
| Cluster II | B10 | Methanothermobacter thermoautotrophicus (DSM 1850) | AY221829 | Archaea |
| C10 | Methanococcus vannielli (DSM 1224) | AY221830 | Archaea | |
| D10 | CB921H10 | AY224038 | ||
| E10 | CB921H8 | AY224043 | /PICK> | |
| Cluster III | F10 | CB911H9 | AY224019 | |
| G10 | CB912H2 | AY224021 | ||
| H10 | CB911H7 | AY224018 | ||
| A11 | CB910H5 | AY224010 | ||
| B11 | CB914H8 | AY224032 | ||
| C11 | CB909H1 | AY224000 | ||
| D11 | CB914H3 | AY224028 | ||
| E11 | Desulfobacter latus (DSM 3381) | AY221822 | δ Proteobacteria | |
| F11 | Desulfotomaculum nigrificans (DSM 574) | AY221823 | δ Proteobacteria | |
| G11 | CB912H9 | AY224025 | ||
| H11 | CB921H4 | AY224041 | ||
| A12 | CB916H2 | AY224035 | ||
| B12 | CB907H6 | AY223986 | ||
| C12 | CB912H5 | AY224023 | ||
| D12 | Chlorobium limicola (DSM 245) | AY221831 | Green sulfur bacteria | |
| E12 | CB909H2 | AY224001 | ||
| F12 | Pelodictyon luteolum (DSM 273) | AY221832 | Green sulfur bacteria | |
| G12 | CB910H2 | AY224007 | ||
| H12 | CB912H1 | AY224020 |
a
Sources of the probes printed on the CBv1 nifH macroarray listed in order of array position along with GenBank sequence accession numbers and the phylogenetic affiliation of cultivated representatives.
b
Array positions as shown in Fig. 3.
c
Isolates are listed by their binomial designation followed by the specific culture collection designation in parentheses. All environmental clones from this study are shown with a CB prefix.
d
ɛ Proteobacteria, epsilon subdivision of the Proteobacteria.