Supplemental Table 1. List of oligonucleotides used for cDNA synthesis (RACK1-R1, HYD1-3’UTR-R2, HYD2-3’UTR-R2) and for PCR reactions (all others) used for sequencing C. variabilis NC64A HYDA cDNAs.
Gene Name / Oligo / Oligo Sequence / Tm (⁰C)CBLP / RACK1-R1 / 5’-CTCTCCAGGTCCCAGATCTTGATG-3’ / 58.5
CBLP / RACK1-F2 / 5’-CAGAACCCCATCATCGTGTCG-3’ / 57.9
HYDA1 / HYD1-3’UTR-R1 / 5’-CACAAAACACAGAACGGCAGTACA-3’ / 60.1
HYDA1 / HYD1-3’UTR-R2 / 5’-TGGAAAAATGGTTTACAGAAGCACA -3’ / 55.5
HYDA1 / HYD1-Full-R1 / 5’-TCAGCGCTTGGCACTGG-3’ / 58.8
HYDA1 / HYD1-3’R2 / 5’-AGAGTGGTCGGTGTAGTGGGTGT-3’ / 61.8
HYDA1 / HYD1-3’F / 5’-CCATCTACCAGGTGGACAAGAG-3’ / 56.8
HYDA1 / HYD1-MIDF1 / 5’-TGAAACACTACTGGGCCAAAAAGA-3’ / 56.9
HYDA1 / HYD1-MIDF2 / 5’-GATGCTCTGGAGAACAAGCAGAAG-3’ / 57.7
HYDA1 / HYD1-MIDR1 / 5’-CTTCTGCTTGTTCTCCAGAGCATC-3’ / 57.7
HYDA1 / HYD1-5’F1 / 5’-TGGGAGTGGCCAGGGCTATATG-3’ / 60.9
HYDA1 / HYD1-5’UTR-F1 / 5’-CTTGGTGTAGCGCCCATGGAA-3’ / 60.0
HYDA1 / HYD1-5’UTR-F2 / 5’-GCAAAGGCCCGAGAGAAGC-3’ / 59.1
HYDA2 / HYD2-3-UTR-R2 / 5’-CCCACATGTCTGATGAATGTTCTG-3’ / 55.9
HYDA2 / HYD2-5’UTR-F2 / 5’- TTGCCAGCGACGCCACTGCGTATG-3’ / 66.0
HYDA2 / HYD2-Full-F / 5’-ATGGCCACCATTCACATCAACGGCCACAC-3’ / 66.2
HYDA2 / HYD2-5’F1 / 5’- CATCCATATCCCCACCCTGTG-3’ / 57.4
HYDA2 / HYD2-5’R3 / 5’- TGGTCACCTCCAGGCCATGGCACA-3’ / 66.9
HYDA2 / HYD2-5’R2 / 5’- AGCTGATCCTCCACCTCCCGCCAC-3’ / 66.7
HYDA2 / HYD2-5’F4 / 5’-AGGGTGGCCATAGGCGAGGAGCTG-3’ / 66.8
HYDA2 / HYD2-MIDF1 / 5’-GGTGGTGAAGAGCCACTTTGC-3’ / 59.0
HYDA2 / HYD2-MIDR1 / 5’-GCGCTCAGCCTCATACTTCTTG-3’ / 58.1
HYDA2 / HYD2-3’R5 / 5’- GCGGATCGCCTCCTCCTCCAGCTT-3’ / 66.8
HYDA2 / HYD2-3’R4 / 5’- AGCGTGACGGTGGCCTGCTTGATG-3’ / 65.8
HYDA2 / HYD2-3’F / 5’-GAGAACCCCTCCATACAGAAGC-3’ / 57.1
HYDA2 / HYD2-3’R / 5’-TGATGTAGGTTGTGTGGAGCAG-3’ / 56.9
HYDA2 / HYD2-UTR-R1 / 5’-AGGAAGGTATCGCAGCTTCAGTGT-3’ / 60.1
HYDA2 / HYD2-UTR-R2 / 5’-CCCACATGTCTGATGAATGTTCTG-3’ / 55.9
Supplemental Table 2. Annotation information of proposed anaerobic pathway homologs identified in the C. variabilis NC64A genome illustrated in Fig. 5. Information provided includes gene model names, protein IDs, and the location of the individual genes on the current draft genome.
Name / Full name / ProteinID / Scaffold v. 1.0ACK1 / Acetate kinase / 9129 / 1:354016-356618
ACK2 / Acetate kinase / 50526 / 4:175250-176342
ADHE1 / Alcohol/acetaldehyde dehydrogenase / 141971 / 4:484763-492466
ADHE2 / Alcohol/acetaldehyde dehydrogenase / 58567 / 17:1071308-1087163
FDX1 / Ferredoxin ('PETF' homolog) / 138861 / 22:369795-370823
FDX2 / Ferredoxin / 145238 / 9:172261-173381
FDX3 / Ferredoxin / 14186 / 7:848619-849127
FDX4 / Ferredoxin / 21597 / 6:30845-31697
FDX5 / Ferredoxin / 34552 / 5:52931-54446
FMR1 / Fumarate reductase / 134736 / 12:368017-370504
FUM1 / Fumarate hydratase / 34079 / 3:767310-770491
HYD1 / [FeFe]-hydrogenase / 34957 / 7:190187-196687
HYD2 / [FeFe]-hydrogenase / 24040 / 12:952907-957187
HYDEF / [FeFe]-hydrogenase assembly protein / 142788 / 5:364883-371411
HYDG / [FeFe]-hydrogenase assembly factor / 30311 / 5:359993-364608
LDH1 / D-lactate dehydrogenase / 55930 / 1:844912-848095
MDH1 / NAD-malate dehydrogenase / 18230 / 1:2104506-2106644
MDH2 / NAD-malate dehydrogenase / 32420 / 21:99007-103421
MDH3 / Malate dehydrogenase / 59812 / 29:343469-345727
MDH4 / NADP-malate dehydrogenase / 29326 / 1:2187370-2190019
MME1 / Malate dehydrogenase / 136414 / 16:572508-579938
MME2 / Malate dehydrogenase / 35453 / 10:1209128-1214178
MME3 / Malate dehydrogenase / 140591 / 3:1025864-1029873
PAT / Phosphate acetyltransferase / 141896 / 4:166224-174137
PDC1 / Pyruvate decarboxylase / 35601 / 11:596,862-603,515
PDC2 / Pyruvate decarboxylase / 52583 / 11:957422-961857
PEPC1 / Phosphoenolpyruvate dehydrogenase isoform 1 / 37051 / 24:619503-628241
PEPC2 / Phosphoenolpyruvate dehydrogenase isoform 2 / 58769 / 20:767564-776650
PFL1 / Pyruvate-formate lyase / 30765 / 8:518376-525767
PFLA1 / Pyrvate-formate lyase activase / 57698 / 9:90310-92423
PFR1 / Pyruvate-ferredoxin oxidoreductase / 134349 / 11:646722-655030
PYC1 / Pyruvate carboxylase / 138936 / 22:626027-636533
PYK1 / Pyruvate kinase / 34881 / 6:887829-894573
PYK2 / Pyruvate kinase / 36508 / 18:193589-198205
Supplemental Table 3. Accession numbers for all HydA homologs and Nar1p homologs identified and/or used in this study. Sequences were compiled from the DOE-IMG and the NCBI database in September 2009.
Taxon / HydAAbiotrophia defectiva ATCC 49176 / ZP_04452658
Acidaminococcus sp. D21 / ZP_03929102
Acyrthosiphon pisum / XP_001943301
Aedes aegypti / XP_001655974
Alistipes putredinis DSM 17216 / ZP_02424371
Alkaliphilus metalliredigens QYMF / YP_001318525
YP_001321847
Alkaliphilus oremlandii OhILAs / YP_001512473
YP_001512533
Anaerocellum thermophilum DSM 6725 / YP_002573172
Anaerococcus hydrogenalis DSM 7454 / ZP_03305079
Anaerococcus prevotii DSM 20548 / ZP_04049650
Anaerococcus tetradius ATCC 35098 / ZP_03929493
Anaerofustis stercorihominis DSM 17244 / ZP_02861877
ZP_02862336
Anaerostipes caccae DSM 14662 / ZP_02417588
ZP_02417946
ZP_02419016
Anaerotruncus colihominis DSM 17241 / ZP_02444642
Anopheles gambiae str. PEST / XP_319772
Arabidopsis thaliana: Chromosome: 4 / NP_567496
Aspergillus fumigatus Af293 / XP_751635
Aspergillus nidulans FGSC A4: Chromosome 2 / XP_661236
Aspergillus niger CBS 513.88 clone An01 / XP_001389148
Aspergillus oryzae RIB40: genomic DNA / BAE58127
Aspergillus terreus NIH2624 / XP_001213045
Bacteroides caccae ATCC 43185 / ZP_01960540
Bacteroides capillosus ATCC 29799 / ZP_02035215
ZP_02037133
Bacteroides cellulosilyticus DSM 14838 / ZP_03634729
ZP_03676194
Bacteroides intestinalis DSM 17393 / ZP_03015926
Bacteroides ovatus ATCC 8483 / ZP_02068583
Bacteroides pectinophilus ATCC 43243 / ZP_03462801
Bacteroides thetaiotaomicron VPI-5482 / NP_809037
Blastocystis sp. NandII / ACD10930.1
Blautia hansenii DSM 20583 / ZP_03548879
Blautia hydrogenotrophica DSM 10507 / ZP_03780903
ZP_03780910
ZP_03781171
Bos taurus / A4FV58.2
Brachyspira hyodysenteriae WA1 / YP_002722659
Brachyspira murdochii DSM 12563 / ZP_04048507
Branchiostoma floridae / XP_002241183
Bryantella formatexigens DSM 14469 / ZP_03686653
Caenorhabditis elegans / AAF60782.5
Caenorhabditis elegans: Chromosome 3 / NP_498092
Caldicellulosiruptor saccharolyticus DSM 8903 / YP_001180640
Campylobacter rectus RM3267 / ZP_03610805
Candida albicans SC5314: Chromosome 1 / XP_723443
XP_723254
Candida glabrata str. CBS138 / XP_448037
Candidatus Cloacamonas acidaminovorans / YP_001741248
Candidatus Desulforudis audaxviator MP104C / YP_001716352
YP_001716354
YP_001717478
YP_001717682
Canis familiaris / XP_547207
Chlamydomonas moewusii HYDA1 / Footnote 1
Chlamydomonas moewusii HYDA2 / AAT90438
Chlamydomonas noctigama HYDA1 / Footnote 1
Chlamydomonas noctigama HYDA2 / Footnote 1
Chlamydomonas noctigama HYDA3 / Footnote 1
Chlamydomonas reinhardtii HYDA1 / AAL23572
Chlamydomonas reinhardtii HYDA2 / AAL23573
Chlorella variabilis NC64A HYDA1 / JF342558
Chlorella variabilis NC64A HYDA2 / Footnote 1
Chlorococcum submarinum / Footnote 1
Ciona intestinalis / XP_002131190
Clostridiales bacterium 1_7_47FAA / ZP_03651101
ZP_03651102
ZP_03651544
Clostridium acetobutylicum / AAB03723
Clostridium acetobutylicum ATCC 824 / NP_346675
Clostridium asparagiforme DSM 15981 / ZP_03760839
ZP_03760851
ZP_03761376
Clostridium bartlettii DSM 16795 / ZP_02210685
ZP_02210702
ZP_02210839
ZP_02212112
Clostridium beijerinckii NCIMB 8052 / YP_001308901
YP_001311066
YP_001311176
Clostridium bolteae ATCC BAA-613 / ZP_02083481
ZP_02083500
ZP_02089645
ZP_02089736
Clostridium botulinum A str. ATCC 19397 / YP_001384105
Clostridium botulinum A str. ATCC 3502 / YP_001254348
Clostridium botulinum A str. Hall / YP_001387645
Clostridium botulinum A2 str. Kyoto / YP_002804182
Clostridium botulinum A3 str. Loch Maree / YP_001787172
Clostridium botulinum B str. Eklund 17B / YP_001884306
YP_001886193
YP_001886496
Clostridium botulinum B1 str. Okra / YP_001781395
Clostridium botulinum Ba4 str. 657 / YP_002862803
Clostridium botulinum Bf / ZP_02619183
Clostridium botulinum C str. Eklund / ZP_02621445
Clostridium botulinum E3 str. Alaska E43 / YP_001919488
YP_001920992
YP_001921030
YP_001921431
Clostridium botulinum F str. Langeland / YP_001391107
Clostridium botulinum NCTC 2916 / ZP_02615089
Clostridium butyricum 5521 / ZP_02948973
ZP_02951233
Clostridium cellulolyticum H10 / YP_002506554
YP_002506620
YP_002506776
Clostridium difficile 630 / YP_001089830
YP_001089927
Clostridium difficile ATCC 43255 / ZP_05352557
ZP_05352607
Clostridium difficile CIP 107932 / ZP_03120112
Clostridium difficile QCD-23m63 / ZP_03125532
ZP_03125632
Clostridium difficile QCD-32g58 / ZP_01802842
ZP_01801566
Clostridium difficile QCD-37x79 / ZP_05398734
ZP_05398850
Clostridium difficile QCD-63q42 / ZP_02740355
ZP_02747361
Clostridium difficile QCD-76w55 / ZP_02756550
ZP_02756608
ZP_02763890
Clostridium difficile QCD-97b34 / ZP_02763950
Clostridium hiranonis DSM 13275 / ZP_03292845
Clostridium hylemonae DSM 15053 / ZP_03479501
ZP_03480570
ZP_03481026
Clostridium kluyveri DSM 555 / YP_001391107
YP_001395640
Clostridium kluyveri NBRC 12016 / YP_002471219
YP_002472451
Clostridium leptum DSM 753 / ZP_02082403
Clostridium methylpentosum DSM 5476 / ZP_03705348
Clostridium nexile DSM 1787 / ZP_03288284
ZP_03290965
Clostridium novyi NT / YP_877778
YP_878332
Clostridium pasteurianum / AAA23248
Clostridium perfringens / BAA74726
BAA74738
Clostridium perfringens ATCC 13124 / YP_695522
YP_697035
Clostridium perfringens B str. ATCC 3626 / ZP_02635975
ZP_02637414
Clostridium perfringens C str. JGS1495 / ZP_02864829
ZP_02865968
Clostridium perfringens CPE str. F4969 / ZP_02637950
ZP_02638882
Clostridium perfringens D str. JGS1721 / ZP_02862336
ZP_02953701
Clostridium perfringens E str. JGS1987 / ZP_02631057
ZP_02631180
Clostridium perfringens NCTC 8239 / ZP_02641711
ZP_02642314
Clostridium perfringens SM101 / YP_698262
YP_699606
Clostridium perfringens str. 13 / NP_563262
Clostridium phytofermentans ISDg / YP_001557216
YP_001559163
YP_001560891
Clostridium ramosum DSM 1402 / ZP_02427918
Clostridium saccharobutylicum / AAA85785
Clostridium scindens ATCC 35704 / ZP_02431953
ZP_02432096
ZP_02433354
Clostridium sp. L2-50 / ZP_02074529
Clostridium sp. M62 / ZP_03733976
Clostridium sp. SS2/1 / ZP_02440568
Clostridium spiroforme DSM 1552 / ZP_02868187
Clostridium sporogenes ATCC 15579 / ZP_02996025
Clostridium thermocellum ATCC 27405 / YP_001036773
YP_001036861
YP_001039392
Clostridium thermocellum DSM 4150 / ZP_03150969
Collinsella aerofaciens ATCC 25986 / ZP_01772411
Coprococcus comes ATCC 27758 / ZP_03798014
ZP_03799143
Coprothermobacter proteolyticus DSM 5265 / YP_002246551
Cryptococcus neoformans var. neoformans B-3501A: Chromosome 8 / XP_773874
Cryptococcus neoformans var. neoformans JEC21 / XP_572892
Danio rerio / NP_001074460
Danio rerio: Chromosome 12 / NP_001002342
XP_684304
XP_687073
Danio rerio: Chromosome 1 / XP_683711
Debaryomyces hansenii CBS767 / XP_458135
Dechloromonas aromatica RCB / YP_284205
Dehalococcoides ethenogenes 195 / YP_180897
Dehalococcoides sp. BAV1 / YP_001213691
Dehalococcoides sp. CBDB1 / YP_307338
Dehalococcoides sp. VS / ZP_02203712
Desulfitobacterium hafniense DCB-2 / YP_002457890
YP_002458510
YP_002461058
Desulfitobacterium hafniense Y51 / YP_517169
YP_520202
YP_520945
Desulfobacterium autotrophicum HRM2 / YP_002601445
YP_002603916
Desulfotalea psychrophila LSv54 / YP_064215
Desulfotomaculum acetoxidans DSM 771 / ZP_04351973
ZP_04351977
ZP_04353069
ZP_04353070
ZP_04354102
Desulfotomaculum reducens MI-1 / YP_001111834
YP_001113004
YP_001113007
YP_001114615
Desulfovibrio desulfuricans / AAK11625
Desulfovibrio desulfuricans G20 / YP_386577
YP_386971
YP_388773
Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774 / YP_002480083
Desulfovibrio fructosovorans / CAA72423
AAA87057
Desulfovibrio salexigens DSM 2638 / ZP_03330130
ZP_03464471
ZP_03467896
Desulfovibrio vulgaris / AAA23373
CAA40970
CAA26266
Desulfovibrio vulgaris subsp. vulgaris DP4 / YP_966829
YP_966831
Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough / YP_010987
YP_010989
Dethiobacter alkaliphilus AHT 1 / ZP_03729918
Dictyoglomus thermophilum H-6-12 / YP_002250290
YP_002250294
Dictyoglomus turgidum DSM 6724 / YP_002352460
YP_002352464
Dictyostelium discoideum AX4: Chromosome 5 / XP_635360
Dorea formicigenerans ATCC 27755 / ZP_02234450
ZP_02234883
Dorea longicatena DSM 13814 / ZP_01996214
Drosophila grimshawi / XP_001988084
Drosophila melanogaster / AAL48960
AAF45404
Drosophila melanogaster: Chromosome 2R / NP_001036428
Drosophila mojavensis / XP_002002631
Drosophila persimilis / XP_002023111
Drosophila virilis / XP_002051294
Drosophila willistoni / XP_002065237
Elusimicrobium minutum Pei191 / YP_001875425
Entamoeba histolytica / AAG09783
Entamoeba histolytica HM-1 / XP_652137
XP_652137
XP_656685
XP_652839
XP_656685
Equus caballus / XP_001496296
Eremothecium gossypii ATCC 10895 / NP_982742
Eubacterium hallii DSM 3353 / ZP_03715049
ZP_03715773
ZP_03716960
ZP_03718050
Eubacterium siraeum DSM 15702 / ZP_02422892
Fervidobacterium nodosum Rt17-B1 / YP_001409749
YP_001409760
YP_001409840
Gallus gallus / XP_414836
Giardia lamblia ATCC 50803 / EAA39802
Giardia lamblia ATCC 50803 strain WB C6 / XP_769974
Gibberella zeae PH-1: Chromosome 1 / XP_380651
Hahella chejuensis KCTC 2396 / YP_431454
Halothermothrix orenii H168 / YP_002507938
YP_002508054
YP_002508385
Heliobacterium modesticaldum Ice1 / YP_001679556
Histomonas meleagridis / ACI16483
Holomastigotoides mirabile / BAF82037
Homo sapiens / BAB15199.
BAB15261
NP_071938
AAD51446
NP_036468
Homo sapiens: Chromosome 16 / NP_071938
Homo sapiens: Chromosome 17 / NP_036468
Hydra magnipapillata / XP_002157697
Kluyveromyces lactis / CAA49833
Kluyveromyces lactis NRRL Y-1140 / XP_453943
Laribacter hongkongensis HLHK9 / YP_002796320
Macaca mulatta / XP_001118535
Magnaporthe grisea 70 / XP_001402943
Malassezia globosa CBS 7966 / EDP43317
Mariprofundus ferrooxydans PV-1 / ZP_01452314
Megasphaera elsdenii / AAF22114
Methylocella silvestris BL2 / YP_002363034
Mitsuokella multacida DSM 20544 / ZP_03471817
Monodelphis domestica / XP_001365922
Moorella thermoacetica ATCC 39073 / YP_430562
YP_430726
YP_430731
Mus musculus / NP_080514
Mus musculus: Chromosome 11 / NP_080548
Mus musculus: Chromosome 17 / NP_080514
Nasonia vitripennis / XP_001605725
Natranaerobius thermophilus JW/NM-WN-LF / YP_001916287
Nematostella vectensis / XP_001630338
Neocallimastix frontalis / AAK60409
AAN39277
Neurospora crassa OR74A: Chromosome 1 / XP_965304
XP_965304
Nyctotherus ovalis / CAA76342
CAA76373
AAU14235
Opitutus terrae PB90-1 / YP_001818428
Oribacterium sinus F0268 / ZP_03990780
Ornithorhynchus anatinus / XP_001513248
Oryza sativa / XP_469746
Ostreococcus lucimarinus CCE9901 chromosome 3 / XP_001416706
Pan troglodytes / XP_510719
Parabacteroides distasonis ATCC 8503 / YP_001302432
Parabacteroides johnsonii DSM 18315 / ZP_03475733
Parabacteroides merdae ATCC 43184 / ZP_02034360
Pediculus humanus corporis / XP_002429397
Pelobacter carbinolicus DSM 2380 / YP_357019
YP_357047
YP_357911
Pelobacter propionicus DSM 2379 / YP_901164
Pelotomaculum thermopropionicum SI / YP_001211218
YP_001211927
YP_001212560
YP_001213196
Petrotoga mobilis SJ95 / YP_001567770
YP_001568190
Pichia stipitis CBS 6054: Chromosome 7 / XP_001386245
Piromyces sp. E2 / AAL90459
Pongo abelii / NP_001124725
Populus trichocarpa / XP_002323132
Pseudotrichonympha grassii / BAF82035
BAF82036
Psychromonas ingrahamii 37 / YP_942648
Ralstonia metallidurans CH34: Chromosome 1 / YP_583674
Rattus norvegicus / NP_001013201
Rattus norvegicus: Chromosome 10 / NP_001013201
NP_001034296
Rhodoferax ferrireducens T118 / YP_525088
Rhodopseudomonas palustris / YP_782767
Rhodopseudomonas palustris CGA009 / NP_945487
Rhodopseudomonas palustris TIE-1 / YP_001989175
Rhodospirillum rubrum ATCC 11170 / YP_425402
Ruminococcus gnavus ATCC 29149 / ZP_02042261
Ruminococcus lactaris ATCC 29176 / ZP_03166398
Ruminococcus obeum ATCC 29174 / ZP_01965473
Ruminococcus torques ATCC 27756 / ZP_01966799
Saccharomyces cerevisiae / AAT93011
NP_014159
Saccharomyces cerevisiae AWRI1631: Chromosome 14 / EDZ69818
Saccharomyces cerevisiae YJM789: Chromosome 14 / EDN62585
Scenedesmus vacuolatus / CAC83291
Scenedesmus obliquus HydA1 / CAC34419
Scenedesmus obliquus HydA2 / AAG59621
Schizosaccharomyces pombe / CAB40177
Schizosaccharomyces pombe 972h / NP_588309
Shewanella halifaxensis HAW-EB4 / YP_001673633
Shewanella oneidensis MR-1 / NP_719451
Shewanella sp. ANA-3: Chromosome 1 / YP_868355
Shewanella sp. MR-4 / YP_735375
Spironucleus barkhanus / AAG31038
Strongylocentrotus purpuratus / XP_001191432
Subdoligranulum variabile DSM 15176 / ZP_03775084
Symbiobacterium thermophilum IAM 14863 / YP_077035
YP_077118
Syntrophobacter fumaroxidans MPOB / YP_844976
YP_844980
Syntrophomonas wolfei subsp. wolfei str. Goettingen / YP_753702
YP_753709
YP_754497
YP_754593
YP_755096
Syntrophus aciditrophicus SB / YP_461142
Taeniopygia guttata / XP_002188515
XP_002193820
Tetraodon nigroviridis / CAG11445
Thalassiosira pseudonana CCMP1335 / XP_002295160
Thermoanaerobacter pseudethanolicus ATCC 33223 / YP_001665442
Thermoanaerobacter sp. X514 / YP_001663746
Thermoanaerobacter tengcongensis MB4 / NP_622546
Thermodesulfovibrio yellowstonii DSM 11347 / YP_002249517
YP_002249518
Thermosinus carboxydivorans Nor1 / ZP_01665950
Thermosipho africanus TCF52B / YP_002334586
YP_002334590
YP_002335580
Thermosipho melanesiensis BI429 / YP_001305742
YP_001305746
YP_001306830
Thermotoga lettingae TMO / YP_001470582
YP_001470586
YP_001470971
Thermotoga maritima MSB8 / AAD35293
AAD36491
AAD36496
NP_228016
NP_229221
NP_229226
Thermotoga neapolitana DSM 4359 / YP_002534027
YP_002534609
YP_002534613
Thermotoga petrophila RKU / YP_001244319
YP_001244957
YP_001244961
Thermotoga sp. RQ2 / YP_001738782
YP_001739342
YP_001739346
Tolumonas auensis DSM 9187 / YP_002892704
Treponema denticola ATCC 35405 / NP_972199
Tribolium castaneum / XP_001808932
Trichomonas vaginalis / AAG31037
AAC47159
AAC47160
Trichomonas vaginalis G3 / XP_001305709
XP_001310180
XP_001322682
XP_001328981
XP_001330775
XP_001580286
XP_001584012
Trichoplax adhaerens / XP_002117790
Trypanosoma brucei TREU927: Chromosome 10 / XP_823285
Ustilago maydis 521: Chromosome 6 / XP_758949
Veillonella dispar ATCC 17748 / ZP_04598684
ZP_04599185
Veillonella parvula DSM 2008 / ZP_03855144
ZP_03855575
Victivallis vadensis ATCC BAA-548 / ZP_01923911
ZP_01924420
Volvox carteri f. nagariensis HydA1 / EFJ50362
Volvox carteri f. nagariensis HydA2 / EFJ50358
Xenopus (Silurana) tropicalis / NP_001106557
Yarrowia lipolytica CLIB122 / XP_500499
1These sequences have not been deposited in GenBank, but are made available in fasta format with reference to the original work by which they were obtained:
Chlorella NC64A_HYDA2 (“X” used to mark the predicted cDNA frameshift) MLACGLQQGLQACVCTSLLPQAVRLAAWLQHGRRGATTADAAPGTVASDATAYASAAPMATIHINGHTVSVPEGTSILTAATQLGIHIPTLCTHPRLPTTPGTCRLCLVEVAGGALKPACATPVCHGLEVTTDSPQVKDSIRGVLALLKANHPADCMTCDVSGRCEFQDLTLRYNVDGYMAKHALPKLRQYRGGCRPCGRVCLGRXRQRMACPRQRPMLPMLGCRCLKCGRCVTACGLVQEMDVLGMKGRSRERHPAVLTEAMDLSKCISCGQCAVMCPVGAITERAEWREVEDQLDAKRKLMVCVTAPAVRVAIGEELGLAPGTITTGQMVAAQRQLGFDYVFDVNFGADLTIMEEGTELLQRLRHAWGLDLPAEGSGGAGAGGGRSAGAQEEQQGQGQGRGHHSAPGPLPMFTSCCPGWVTACEKSFPELLPHLSTCKSPQQMMGAVVKSHFAAKLGKRAQDICLVSVMPCTAKKYEAERGEMVREGEGPDVDYVITTREFGRLLRERHIPLASLPESAFDNPLGEGSGAGVIFGNTGGVMEAALRTAYELAAESGPALHCAGHPLPKLEEEAIRGLRGIKQATVTLPPTAPAGMASRQLRVAVASGIGQARHLLERMHTGHSPHFDFVEVMACPGGCVGGGGQPKSADPLVLLKRMGAVYSIDERSAIRKSHENPSIQKLYKEFLGEPGGSLSHQLLHTTYINRSTASQPTYTAFQRMDEPCNPKLQQAAAAGRGSSSSALPGTSA
Chlamydomonas noctigama_HYDA1 [Skjånes K, Pinto FL, Lindblad, P (2010) Evidence for transcription of three genes with characteristics of hydrogenases in the green alga Chlamydomonas noctigama. Int J Hydrogen Energ 35: 1074-1088]
EGKKLVVVSVAPAVRVAIAESFGLPPGAISTGKLVAGIKRLGFDYVFDALFVADLTIMEEGTELLHRLADHLDGHPSKDEPMPMFTSCCPGWVALVEKSYPEIIPYLSTCKSPQMMMGCVVKNFFATEAGVKPDEIISCSIMPCVRKQDEADRPWMNTAAGHDVDHVITTVELAQMFQEHGIDLTTLPDEEFHNPLGIGSGAGQLFGTTGGVMEAALRTVVELVTGQQMGKLVFDEVRGLEGIKAATVNLKPSPDSPFAKFDPNGTGLDVRVAVANGXGNAKKLVTEMKAGNAKYDFIEVMACPSGCIGGGGQPRSTDKQILQKRQQAMYNLDERSTLRRSHDNPMIQAIYNRWLEQPMSHKSHELLHTHYVAGGPEAQE
Chlamydomonas noctigama_HYDA2 [Skjånes K, Pinto FL, Lindblad, P (2010) Evidence for transcription of three genes with characteristics of hydrogenases in the green alga Chlamydomonas noctigama. Int J Hydrogen Energ 35: 1074-1088]
MRTFLDCSSGRQTVVGRNNLYASCFVRHVRRRRLLRAANVAETEQQVHPGAAAKKAPSAAQKAAAGPRKAAPVVTPHWQLVSEELAKTEGRKLCIASVAPSVRVAIAESFGLPPGAISTGKLVAGIRRLGFDHVFDTRFAADLTIMEEGAELLQRLEDHLEGHPNQDEPLPMFTSCCPGWISMVEKTYPELIPHVSTCKSPQQMMGAVIKNFFACEAGVQPEQLLSCSIMPCVRKQGEADRPWMNTTGGRDVEHVITTVELAQMFHERGINLMELPEEDFDNPLGTGSGAGQLFGTTGGVMEAALRTVVELVSGQPMGKLEFKEVRGLEGIKEATVRLNPAPDSPFAKFDSDGKGLEVRVAVANGLGNAKKLVSEVKAGRAKYDFIEVMACPSGCIGGGGQPRSSDKQVLEKRQQSIYSLDERSVVRRSHENPMIQALYSKWLGKPMSHRAHELLHTHYVAGGPEGGE
Chlamydomonas noctigama _HYDA3 [Skjånes K, Pinto FL, Lindblad, P (2010) Evidence for transcription of three genes with characteristics of hydrogenases in the green alga Chlamydomonas noctigama. Int J Hydrogen Energ 35: 1074-1088]
AAKKANVTPHWQLVKAELAKTKEEGRKCMVIQVAPAVRVAISEAYGLPPGAYTAKKIAAGLRRIGFDYVFDTLFGADITIMEEGTELLHRLTAHLEGNPEEPMPMFTSCCPGWIFLAEKSYPELLPYLSSCKSPQMMQGAVIKGFFANEAGINPGDIVSCSVMPCVRKQGEADRPWVNTAEGHDVDHVITTVELAQLFQEYGIDFPNLPEEEFDGLMGGGSGGGQLFGTTGGVMEAALRTVVEIVSGNPMGKIFYDEVRGMDGIKAATVHMVPKPDSPFAKFDKDGKGLDIRIAVANGLGNAKKLIAEMKAGTAKYDFIEVMACPSGCIGGGGQPRSTDKQILQKRQQAMYNLDERMVMRRPDENPLVQAVYNKWLGNPCSHLAHEKLHTHYMAGGPECAE
Chlamydomans_moewusii_HYDA1 [Kamp C, Silakov A, Winkler M, Reijerse EJ, Lubitz W, Happe T (2008) Isolation and first EPR characterization of the [FeFe]-hydrogenase from green algae. BBA Bioenergetics 1777(5): 410-416]
MLLRRRAAAGAFAKERRLVVRRLGTPANRNPVRTANAGTRTSPSPKTKPQDAQPTHWQIVAAELAKPEHDKLMVVSVAPALRVAISEAYGLPPGTIKTGQLVAGLRRLGFDRVFDTLLGADLTIMEEGTELLHRLKDHLAGHPNQEEPLPMFTSCCPGWVQLVEKSYPELIPYLSSCKSPQMMMGAVIKNFFAQEAGVKPNDIISCSVMPCVRKQGEADRPMMATTQDGRDVDHVITTVELAQMFAERQIDLQDLPDELFDCPLGTGSGGGQLFGTTGGVMEAALRTVAELISGKPMEKVVYEEVRGLEGIKAATITLQPAAGSPFAKYNPEGKGLDVRIAVANGLGNAKKLITEMKAGTSKYDFIEVMACPSGCIGGGGQPKSADEQILQKRQQAIYALDERSTVRRPHENPLDHGPFQEVAALNLVARLAHELLHTKYVSGGPSEGQ
Chlorococcum submarinum_HYDA [Kamp C, Silakov A, Winkler M, Reijerse EJ, Lubitz W, Happe T (2008) Isolation and first EPR characterization of the [FeFe]-hydrogenase from green algae. BBA Bioenergetics 1777(5): 410-416]
MQLARTVPIGSAHVAQSRHVAPCALAPAVVQHKACRSTALPFGGWAGRMGVVAHSAAVADRPCDIPPVPKAHWEQALDELAKPKAERPLMVCQIAPAVRVAISEPFGLPPGAITIGQIVTGLRQLGFDYIFDTLFSADLTIMEEGSELLHRLSEHLEGHPNKDEPMPMFTSCCPGWVAMVEKSYPDLIPYLSSCKSPQMMMGAVVKSFFAEKVQRPATEISLVSVMPCVRKQGEADRPMMADSTGLARDVDHVMTTTELAKIFQVSHIKLHELPESEFDDLLGTGSGGGQLFGTTGGVMEAALRTVVELVTGESMGRIVFQEVRGLDGIKEAILNLKPNDSSKFKKYDASGEGLNIRIAVANGLGNAKKLITNMQKGTAKYDFVEVMACPSGCIGGGGQPRSTDKQILSKRQEAMYAIDERMTLRRPQDNPLIQNLYKDYLGEPNSEKAHHLLHTHYVAGGPEGGDKE
Supplemental Fig. 1(a) HYDA protein alignment of: Clostridium pasteurianium (P29166), Thermotoga sp. RQ2 (YP_001738782), Thermoanaerobacter sp. X514 (YP_001663746), Nyctotherus ovalis (CAA76342), Trichomonas vaginalis (XP_001310180), Thalassiosira pseudonana (CCMP1335), Chlorella variabilis NC64A HYDA1 (Genbank accession#JF342558), Chlorella variabilis NC64AHYDA2 (see Supp. Table 2), Chlamydomonas moewusii HYDA1(see Supp. Table 2),Chlorococcum submarinum (see Supp. Table 2), Scenedesmus obliquus HYDA1(CAC34419), Scenedesmus vacuolatus(CAC83291), Volvox carteri f. nagariensis HYDA1 (EFJ50362),Chlamydomonas reinhardtii HYDA1 (AAL23572), Chlamydomonas reinhardtii HYDA2 (AAL23573) (b) HYDE protein alignment of: Chlorella variabilis NC64A HYDEF, Chlamydomonas reinhardtii HYDEF (XP_001691465.1), Thermotoga maritima (3CIW_A), Carboxydothermus hydrogenoformans (ABB16006), Thermoanaerobacter sp. X514 (ABY91871), Clostridium acetobutylicum ATCC 824 (AAK79598.1), Clostridium perfringens (ABG85549.1), Bacteroides thetaiotaomicron (AAO76942.1), Desulfovibrio desulfuricans (ABB39074.1), Shewanella oneidensis (AAN56900) (c) HYDF protein alignment of : Desulfovibrio desulfuricans (ABB39073), Shewanella oneidensis (AAN56901.1), Thermotoga maritima (AAD35530.1), Clostridium acetobutylicum (AAK79617.1), Clostridium perfringens (ABG85901.1), Thermoanaerobacter sp. X514, Clostridium thermocellum (ABN51283.1), Bacteroides thetaiotaomicron (AAO76944.1), Carboxydothermus hydrogenoformans (ABB15694.1), Chlorella variabilis NC64A HYDEF, Chlamydomonas reinhardtii HYDEF (XP_001691465.1) (d) HYDG protein alignment of: Chlorella variabilis NC64A HYDG, Chlamydomonas reinhardtii (XP_001691319.1), Desulfovibrio desulfuricans (YP_388770.1), Thermotoga maritima (NP_229072.1), Halothermothrix orenii (YP_002509674.1), Clostridiium tetani (NP_781953.1)
Supplemental Fig 1.
a.HYDA
b. HYDE
ChlorellaNC64A 1 ------MLGS------SRALQAAAAAAVS------MQ
C.reinhardtii 1 MAHSLSAHSRQAGDRKLGAGAASSRPSCPSRRIVRVAAHASASKATPDVPVDDLPPAHAR
T.maritima 1 ------
C.hydrogeno 1 ------
T.sp.X514 1 ------
C.aceto 1 ------
C.perfringens 1 ------
B.thetaiota 1 ------
D.desulfuricans 1 ------
S.oneidensis 1 ------
ChlorellaNC64A 20 KALPWEN-----AVTAEEAVKVLGSFWGTT---FAPGDVLDLSVDQMEGLLSATSTGAGS
C.reinhardtii 61 AAVAAANRRARAMASAEAAAETLGDFLGLGKGGLSPGATANLDREQVLGVLEAVWR-RGD
T.maritima 1 ------MTGREILEKLE------RREFTREVLKE--ALSIN------D
C.hydrogeno 1 ------MEI------
T.sp.X514 1 ------MLELIK------KAEKTHSLTKKEIVELLK------D
C.aceto 1 ------MDNIIKLIN------KAEVTHDLTKDELVTLLK------D
C.perfringens 1 ------MNTIIQ------KAKETHELSRDEIIALLK------D
B.thetaiota 1 ------MRQWID------KLREERTLRPEEFRQLLT-----ECD
D.desulfuricans 1 ------MTSR------DILEMLA------
S.oneidensis 1 ------MITRPSPPAPVTQPTSVK----PTLLNTVFSYAEILSLLQ------
ChlorellaNC64A 72 KVLDNALFAHAESVTGRFFGRDVYYRGIVEFSNVCENDCGYCGIRKHQRRARRYTMPRDE
C.reinhardtii 120 LNLERALYSHANAVTNKYCGGGVYYRGLVEFSNICQNDCSYCGIRNNQKEVWRYTMPVEE
T.maritima 29 RGFNEALFKLADEIRRKYVGDEVHIRAIIEFSNVCRKNCLYCGLRRDNKNLKRYRMTPEE
C.hydrogeno 4 --YQDKLYALADSIRAREKGDVVYLRGIIEFSNYCRRNCLYCGLRRDNTKLGRYRMSPEE
T.sp.X514 26 DQYNDELFKAADRVRKKYVGDEVHLRGLIEFSNICKQNCLYCGLRRDNKNIKRYRLKPEQ
C.aceto 29 DTHNEEIYKAADRVREKYVGEEVHLRGLIEFSNICKRNCMYCGLRRDNKNIKRYRLEPDE
C.perfringens 26 DSINEELFKAADEVRKKYLGDEVHLRGLIEFTNICKRNCMYCGLRRDNKNLNRYRLSHEE
B.thetaiota 28 GESLRYINKQAQEVSLRHFGNRIFIRGLIEVSNCCRNNCYYCGIRKGNPNLERYRLSTEN
D.desulfuricans 12 ATGGGPVYAEARTVADRFFGRGVYVRGVVEFSNHCRKNCHYCGLRVANTGLERFRLEPEG
S.oneidensis 37 GQDDEWLFSRAKLATELEFNQQVYLRGIVEFSNHCRNHCHYCGLRTENRQVTRYRLSNEE
ChlorellaNC64A 132 VVEVADWAFRHRLGTLMLQSGELNTPQRMKYLTDVVAAVKERTRALDAEQRLVDPEALPK
C.reinhardtii 180 VVEVAKWALENGIRNIMLQGGELKTEQRLAYLEACVRAIREETTQLDLEMRARAASTTTA
T.maritima 89 IVERARLAVQFGAKTIVLQSGE-DPYXMPDVISDIVKEIKK------
C.hydrogeno 62 IIKRAKEVAALGIKTVVLQSGE-DPYYKLKDLVGIVSRIKE------
T.sp.X514 86 IINFAKNARNLGYRTVVLQSGE-DDFFNVERMTKIIKSIKQ------
C.aceto 89 IIHLAKSAKNYGYQTVVLQSGE-DDYYTVEKMKYIVSEIKK------
C.perfringens 86 IIDFAKKAVSYGYKTLVLQGGE-DDYYTVERLVPIVKDLKA------
B.thetaiota 88 ILNCCKQGYGLGFRTFVLQGGE-DPALTEERIEDIVSTIRRS------
D.desulfuricans 72 ILAAAALARELGAGTVVLQSGE-DLRYDRRVIGDLVRRIRDT------
S.oneidensis 97 ILNAVDSIAELGLGTVVLQSGD-DFNYSGNRISTLITEIKRH------
ChlorellaNC64A 192 DAAG------VGLCVALSVGELPREQYQQLKDAGADRYLLRIESSNPQLYAS
C.reinhardtii 240 EAAASAQADAEAKRGEPELGVVVSLSVGELPMEQYERLFRAGARRYLIRIETSNPDLYAA
T.maritima 129 ------MGVAVTLSLGEWPREYYEKWKEAGADRYLLRHETANPVLHRK
C.hydrogeno 102 ------LGVYVTLSIGELSTHAYRELKKAGADRYLLRHETANRKLYEV
T.sp.X514 126 ------LDIAITLSIGEKTREEYKAYKEAGADRYLLRIETTDKELYEK
C.aceto 129 ------LNMAITLSIGEKTFEEYEEYRKSGADRYLIRIETTDKELYEK
C.perfringens 126 ------LGVALTLSIGERPFEEYEALKKAGADRFLLRIETTDRELYEK
B.thetaiota 129 ------YPDCAITLSLGEKSREAYERFFQAGANRYLLRHETYDKEHYQQ
D.desulfuricans 113 ------LDVAVTLSLGDFDRDTYAYWRDCGADRYLLKMETFDEALHAR
S.oneidensis 138 ------HNLAITLSLGDRKHQELEKWREAGADRYLLKMETFDRALFAQ
ChlorellaNC64A 238 IHPPAQARASGPARFHKWENRTRCLRDLKDIGFMIGTGVMVGLPGQTLRDLAGDIMFFRD
C.reinhardtii 300 LHPEPMS------WHARVECLRNLKKAGYMLGTGVMVGLPGQTLHDLAGDVMFFRD
T.maritima 171 LRPDTSF------ENRLNXLLTLKELGYETGAGSMVGLPGQTIDDLVDDLLFLKE
C.hydrogeno 144 LHPDGSF------FNRVRCLYALKDLGYEVGAGNMVGLPGQTDDMLWEDLLFMEK
T.sp.X514 168 LDPNMSH------ENRKRCLKDLKELGYEVGTGCLIGLPGQTIESIADDILFFKE
C.aceto 171 LDPKMSH------ENRINCLKNLRKLGYEVGSGCLVGLPNQTIESLADDILFFKE
C.perfringens 168 LDPGMSH------ENRIQCLKNLRKLGYEVGSGCLVGLPGQKIESLADDILFFKE
B.thetaiota 172 LHPAGMS------CEHRLQCLRDLKDIGYQTGTGIMVGSPGQTIEHLIQDILFIEQ
D.desulfuricans 155 LRPGCTV------ADRLARVEMLQSLGYETGSGIIVGLPGMTDAILAEDIHRLSQ
S.oneidensis 180 CRPKANF------DERIARLNYLKSLGYQTGSGIIVDLPGMTDAILARDIQHLSE
ChlorellaNC64A 298 LGADMIGMGPYITEAGTPVADMWEQQFGHVDKKKHMQDMLTLTTRMNALARITLGNVNIA
C.reinhardtii 350 IKADMIGMGPFITQPGTPATDKWTALYPNANKNSHMKSMFDLTTAMNALVRITMGNVNIS
T.maritima 220 HDFDMVGIGPFIPHPDTPLAN------EKKGDFTLTLKMVALTRILLPDSNIP
C.hydrogeno 193 LQPEMVGIGPFIPHPDTPLAK------EKGGTLEQTLTMIALTRIILPKANIP
T.sp.X514 217 IDADMIGVGPFIPNPDTPLKN------EKGGTFELSLKVMAITRLLMPDINIP
C.aceto 220 IDADMIGVGPFIPNEDTPLGE------EKGGEFFMSVKVTALIRLLLPDINIP
C.perfringens 217 LDVDMNGIGPFIPNEDTPLKD------AEGGQFELALKVMAIVRLLLPDINIP
B.thetaiota 222 LRPEMIGIGPFLSHRDTPFAQ------SPSGTVERTLLLLSIFRLMHPSALIP
D.desulfuricans 204 LGLEMIAAGPFIPHPSTPLAA------PVDHAIEKSLLVTAVLRLLNPGANIP
S.oneidensis 229 LQLDMLACGPFIAHHQTPFTT------SPNGSALKSHRVSAILRLMNPGANIP
ChlorellaNC64A 358 ATTALQAIDAVGREVALRRGANVLMPILTPTKYREHYTLYEGKPCITDTAEECQKCLNAR
C.reinhardtii 410 ATTALQAIIPTGREIALERGANVVMPILTPTQYRESYQLYEGKPCITDTAVQCRRCLDMR
T.maritima 267 ATTAMGTIVPGGREITLRCGANVIMPNWTPSPYRQLYQLYPGKICVFEKDTACIPXVMKM
C.hydrogeno 240 ATTALGTIHPEGRELGLKVGANVVMPNMTPQPYRPLYQLYPGKICVNEDPDACLPCLKRR
T.sp.X514 264 ATTAMETLNVNGRLIALRSGANVVMPNVTEGEYRKLYALYPGKICINDTPAHCFSCITGK
C.aceto 267 ATTAMESLYPNGRSIALTSGANVVMPNVTEGEYRKLYALYPGKICVNDTPGHCRQCISLK
C.perfringens 264 ATTAMETLNKQGRVIALQCGANVVMPNVTEGEYRKLYALYPGKICTGDTPAHCRGCISGK
B.thetaiota 269 ATTALATLTPDGREQGILAGANVVMPNLSPQEERKKYNLYNNKASLGAESAEGLNILQQQ
D.desulfuricans 251 ATSALDALAADGRTRGLDAGANVVMPSVTPDAVRGGYSIYPGKNAAGRDVRDAVHGLFER
S.oneidensis 276 ATSSLDALDKGAREQALKRGCNVIMPSFTPTKVSGDYSIYPGKNQQQHPAAERLNQVCQQ
ChlorellaNC64A 418 LAMVDKK------
C.reinhardtii 470 LHSVG------
T.maritima 327 IELLGRKPGRDWGGRKRVFETV-----
C.hydrogeno 300 IESIGR------TII------
T.sp.X514 324 INSIGRPIAKDYGYRKNVMSKK-----
C.aceto 327 INKINRKVSATKGFRKKSYKESIG---
C.perfringens 324 IRGIGRIVSDGPGFRANGFKPKTR---
B.thetaiota 329 LEKIGYQISFSRGDYKQ------
D.desulfuricans 311 LRNAGYTPVADKGFSRIAGACGGNADV
S.oneidensis 336 IQRHGLIPSFSRGDSKRTQYVSRH---
c.HYDF
D.desulfuricans 1 ------
S.oneidensis 1 ------
T.maritima 1 ------
C.aceto 1 ------
C.perfringens 1 ------
T.sp.X514 1 ------
C.thermocellum 1 ------
B.thetaiota 1 ------
C.hydrogeno 1 ------
ChlorellaNC64A 1 KLKPGVWGDPPSFRDSVHPVPMQAQAAAAASATGGSRGLRTWAPVSAAAARDGGLHTCSA
C.reinhardtii 1 ------VASPLRPAAACRGVAVKAAAAAAGEDAG----AGT
D.desulfuricans 1 ------MSDKAPRGERLVITLVGRRNAGKSSLINALAGQQIAIVS
S.oneidensis 1 ------MRYHIALVGRRNSGKSSLLNMLAGQQISIVS
T.maritima 1 ------MRLPDAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVS
C.aceto 1 ------MNELNSTPKGERLHIALFGKTNVGKSSVINALTSQEIALVS
C.perfringens 1 ------MSLNEAPRSVRVHITLFGRRNAGKSSIINAITGQDIAIVS
T.sp.X514 1 ------MNTTPISSRLHIAIFGRRNAGKSSLINALTNQEVALVS
C.thermocellum 1 ------MGLNETPSANRLHIGFFGKRNAGKSSVVNAVTGQNLAIVS
B.thetaiota 1 ------MNLVHTPNANRLHIALFGKRNSGKSSLINALTGQDTALVS
C.hydrogeno 1 ------MENSLRLFRKTIGIFGRCNAGKSTLLNNIIGEERAITS
ChlorellaNC64A 61 TGQQAAAAPAPGRGAVLGMGGGPAKGSDVPRTNIGIFGCMNAGKSSLMNRVTRSETSIVD
C reinhardtii 32 SGVGSNIVTSPG------IASTTAHG--VPRINIGVFGVMNAGKSTLVNALAQQEACIVD
D.desulfuricans 40 DVPGTTTDPVAKPYELLPLGPVTFYDTAGLDDSGELGEMRVRSARKVLARTDVALLVVSE
S.oneidensis 32 DIKGTTTDAVAKAYELQPLGPVTFYDTAGIDDEGTLGAMRVSATRRVLFRSDMALLVVDE
T.maritima 39 EYAGTTTDPVYKSMELYPVGPVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDS
C.aceto 42 NVKGTTTDPVYKAMELLPLGPVMLIDTAGLDDISDLGELRRGKTLEVLSKTDVAILVFDV
C.perfringens 41 SVKGTTTDPVYKSIEILPIGPCVIIDTAGLDDSGQLGELRKKKTLEVLNKTDISLVVIDS
T.sp.X514 39 DVAGTTTDPVSKAMEILPIGPVVIIDTAGLDDTGELGELRVKKTYEVLNRTDLAILVIDG
C.thermocellum 41 DVKGTTTDPVYKAMELLPLGPVVIIDTPGIDDEGTLGEMRVKRSRQVLNKTDIAVLVIDA
B.thetaiota 41 DTPGTTTDSVQKAMEIHGIGPCLFIDTPGFDDEGELGNRRIERTWKAVEKTDIALLLCAG
C.hydrogeno 39 SIPGTTTDPNRRAFELLPYGPVEFIDTPGLDDTSVLGEIRKAKTREVLATCSVVILVGNT
ChlorellaNC64A 121 STPGTTADTKVVLMELHDVGPAKLFDTAGIDEEGALGEKKRRKVLSVIKETDVAVVVVDV
C reinhardtii 84 STPGTTADVKTVLLELHALGPAKLLDTAGLDEVGGLGDKKRRKALNTLKECDVAVLVVDT
D.desulfuricans 100 AG-MEEAEK------RMLADLQAMEISALVVFNKQD------IA
S.oneidensis 92 QG-LCPSDM------ALIDEIRQLQMPILMVFNKAD------IC
T.maritima 99 E--PTPYED------DVVNLFKEMEIPFVVVVNKID------VL
C.aceto 102 ESGITEYDK------NIYSLLLEKKIPLIGVLNKID------KK
C.perfringens 101 TVGITEYDR------YIIDEIKSKKIPFMGILNKWD------IS
T.sp.X514 99 TIGLSEFEE------NVLKIIRDKNIPVVGVINKKD------LS
C.thermocellum 101 TCGKSEDDE------KLIELFEKKDIKYVVVYNK------
B.thetaiota 101 GGSAEETGEPDF----TEELHWLEQLKAKNIPTILLINKAD------IR
C.hydrogeno 99 GFKPEDWEL------QFIEENQ-TTKKIIGIINMVE------SK
ChlorellaNC64A 181 GRFLDTP-ADRLPAALAWERLLLDKAAAAGSSPVLVYNTKLGGAGAGAGPEAAAAAVDRL
C.reinhardtii 144 DTAAAAIKSGRLAEALEWESKVMEQAHKYNVSPVLLLNVKS----RGLPEAQAASMLEAV
D.desulfuricans 131 DVRPEDVRFCHEA--GVRHVQVSSVAQKGISELKSAIVEMVPEELKADPVLVSDLISEGD
S.oneidensis 123 TPKAEDIAFCQNQ--SLPFIVVSAATGLAGKQLKQLMVELAPAEYKQEPLLAGDLYQAGD
T.maritima 129 GEKAEELKGLYESRYEAKVLLVSALQKKGFDDIGKTISEILPGD--EEIPYLGDLIDGGD
C.aceto 134 ---DYKLEDYTSQ-FKIPIVPISALNNKGINNLKDELIRLAPEN-DDKFKIVGDLLSPGD
C.perfringens 133 NIDEKDIKNIKEE-LDIPLIAVSAVTGKGIKELKNQIAGILPKE-EDKFKIIGDLISPGD
T.sp.X514 131 QYSEEDKRKWEEK-LKLELIEVSALKKHGIEALKMMLIKKAPYD-DRELSIVGDLIKPGD
C.thermocellum 129 ----ADLEGHEET-VGDNEIYVSAKTGYNINKLKEKIASLAVTD-DITHKIVGDLISPSD
B.thetaiota 140 KNTASLAIRIKET-FGSQPIPVSAKEKTGVELIRQAILEKLPED-FDQQSITGSLVTEGD
C.hydrogeno 130 TENLEAWKKFFEK-FNIPYLLHDCKNG-ASSAVRNFLVQNLQEK--VQKTVVADLVPKGK
ChlorellaNC64A 240 QAALNPTGAIMSRQLQLSRE---EASDALAEFLQEAAAAAKQHDAPRS--LPDEFLSEDA
C reinhardtii 200 AGMLDPSKQIPRMSLDLASTPLHERSTITSAFVKEGAVRSSRYGAPLPGCLPRWSLGRNA
D.desulfuricans 189 TVLCVVPIDLAAPKGRLILPQVQVLRDVLDADAMGMVVKE------
S.oneidensis 181 VILCVVPIDMAAPKGRLILPQVQILREALDRSAIAMVVKE------
T.maritima 187 LVILVVPIDLGAPKGRLIMPQVHAIREALDREAIALVVKE------
C.aceto 189 IAVLVTPIDKAAPKGRLILPQQQTIRDILESDAIAMVTKE------
C.perfringens 191 FVVLVTPIDKAAPKGRLILPQQQTIRDVLESDAIAVVTKE------
T.sp.X514 189 FVVLVIPIDKAAPKGRLILPQQQTIRDILDNDAMAIVTKE------
C.thermocellum 183 FVVLVVPIDKAAPKGRLILPQQQTIRDILESDAVAIVVKE------
B.thetaiota 198 LVLLVMPQDIQAPKGRLILPQVQTMRELLDKKCLIMSCTT------
C.hydrogeno 186 SVVLVIPIDAGAPKGRLIQPQMLVLRELLDYHIIAHVVQP------
ChlorellaNC64A 295 MVFLNIPMDAETPSMRLLRPQALVQEEAIRHFASTIAYRMNLAHAR-SSDPELVQRERAR
C reinhardtii 260 RLLMVIPMDAETPGGRLLRPQAQVMEEAIRHWATVLSVRLDLDAARGKLGPEACEMERQR
D.desulfuricans 229 RELEAALDKLVSPPALVITDSQV------VLKVAGDVDDDIPMTTFST
S.oneidensis 221 TELAQALS--VVTPKLVISDAQA------IKQVAAIVPDAVPLTTFST
T.maritima 227 RELRYVMENIGMKPKLVITDSQV------VMKVASDVPEDVELTTFSI
C.aceto 229 FELRETLDSLRKKPKIVITDSQV------FLKVAADTPKDILMTSFSI
C.perfringens 231 YELRETLESLGKKPKIVVTDSQA------FLKVAADTPKDILMTSFSI
T.sp.X514 229 HELKETLQNLGKKPSLVITDSQA------FLKVSADTPKDIPLTSFSI
C.thermocellum 223 NELKNTLDSLGKKPKLVITDSQA------FEKVAADTPDDIYLTSFSI
B.thetaiota 238 DKLQETLQALSRPPKLIITDSQV------FKTVYEQKPEESRLTSFSV
C.hydrogeno 226 ESLKELFLNLKEEPGLVITDSQA------FAQVREQLPDKIPLTSFSI
ChlorellaNC64A 354 FLRALQPVLAHQGPKIIITDSQARRAGSGRPCGTAVDILHPWTLDPATGDELVPFTTFSI
C.reinhardtii 320 FDGVIAMMERNDGPTLVVTDSQA------IDVVHPWTLDRSSGRPLVPITTFSI
D.desulfuricans 271 LFAR--YKGDLELLVRGARAIDSLRDGDTVLMCEACSHHAVA---DDIGRVKIPRWITQY
S.oneidensis 261 LFAR--FKGDLAALATGADALDTLQDGDKVLISEACSHNVQE---DDIGRVKLPRWINSY
T.maritima 269 VESR--YRGDLAYFVESVRKIEELEDGDTVVIMEGCTHRPLT---EDIGRVKIPRWLVNH
C.aceto 271 LMAR--HKGDLIELARGARAIEDLKDGDKILIAEACTHHRQS---DDIGKVKIPRWLRQK
C.perfringens 273 LFAR--FKGDLIELIKGVKAVGKLKDGDKVLIAEGCTHHRQS---DDIGKVKIPRWIRQI
T.sp.X514 271 LFAR--YKGDLEELVRGVKAIKKLKPGDKVLIAEGCTHHRQS---DDIGKVKIPRWIRQI
C.thermocellum 265 LFAR--YKGNLEIAVKGAKTLDSLQDGDTVLISEGCTHHRQC---DDIGTVKLPRWINNY
B.thetaiota 280 LFAG--YKGDIRYYVKSASAIGSLTESSRVLIAEACTHAPLS---EDIGRVKLPHLLRKR
C.hydrogeno 268 LMAR--FRGELAFFLEGIQHMKRLEEGAKIGIFEACVHHVQK---NDIGSEKIPAILKKL
ChlorellaNC64A 414 AMIHRQSRGQLPLFVRGLERFKSLRAGDKVLVAEACNHNRITDICNDIGMVQIPEKIEAQ
C reinhardtii 368 AMAYQQNGGRLDPFVEGLEALETLQDGDRVLISEACNHNRITSACNDIGMVQIPNKLEAA
D.desulfuricans 326 -TGRELSFEMYAGHDFP--EDLER-----YALAVHCGGCMTNRAEMMRRIRECTRRGVPV
S.oneidensis 316 -TGKQLEFVVTSGHDFP--NDLEQ-----YALVIHCGACMFNRNEMLRRIRECQRRQVPI
T.maritima 324 -TGAQLNFKVIAGKDFPDLEEIEG-----AKLIIHCGGCVLNRAAMMRRVRMAKRLGIPM
C.aceto 326 -TGKKLEFDFSSGFSFP--PNIED-----YALIVHCAGCMLNRRSMLHRIESSVKKQIPI
C.perfringens 328 -TGKKIDFEFSSGVSFT--DDIKR-----YSLIVHCGGCMLNKSAMLHRINTAREFKVPI
T.sp.X514 326 -VGGDIQFDWSSGITFP--DNLEK-----YSLIVHCGACMLNRREMMYRISYAKSKNIPI
C.thermocellum 320 -TKKNLNFEFTSGTEFP--EDLTR-----YKLIVHCGGCMLNEREMKYRYKCAVEQNVPI
B.thetaiota 335 -IGEKLSIDIVAGTDFP--QDLTP-----YSLVIHCGACMFNRKYVLSRIERARLQNVPM
C.hydrogeno 323 -TGLNFNYTFYKGREFKINGDLD------LAIHCGGCMLTQEEMEKRIEFFKEKGIKI
ChlorellaNC64A 474 -GGRGVVVDHAFGREFP---ELDA------EEHCVN------AVLQEAGVPV
C.reinhardtii 428 LGGKKLQIEHAFGREFP---ELESGGMDGLKLAIHCGGCMIDAQKMQQRMKDLHEAGVPV
D.desulfuricans 378 TNYGVAISKVQG--VLERVVAPFGL------
S.oneidensis 368 TNYGVAISKLQG--VLPRVLTPFNRNPQQ------
T.maritima 378 TNYGVTISYLHG--VLDRAIRPFREEVKV------
C.aceto 378 VNYGVLIAYVQG--ILPRALKPFPYADRIFNQSSRN------
C.perfringens 380 VNYGILIAYVQG--ILDRALMPFPRAKMIWDEVEEH------
T.sp.X514 378 VNYGVLIAYVQG--LMPRAIEMFPLAKMIYEEE------
C.thermocellum 372 TNYGILIAYVHG--ILKRSLQIFP---DILAEIL------
B.thetaiota 387 TNYGVAIAFLNG--ILNQIEY------
C.hydrogeno 374 INYGMLFAYDAG--ILERALKPLGGA------
ChlorellaNC64A 510 TNYGLLLSYAHSPAALERAMKPWGLRM------
C reinhardtii 485 TNYGVFFSWAAWPDALRRALEPWGVEPPVGTPATPAAAPATAASGV
d. HYDG
Chlorella NC64A 1 ----MLSQAASSLGGLASGGLGPLLPAVAAVGARLLGRSGLLQQQRG------LQWS
C.reinhardtii 1 MSVPLQCNAGRLLAGQRPCGVRARLNRRVCVPVTAHGKASATREYAGDFLPGTTISHAWS
D.desulfuricans 1 ------
T.maritima 1 ------M
H.orenii 1 ------MGSLSF
C.tetani 1 ------M
ChlorellaNC64A 48 VEKEPQS-YKAVDDIIQDHVIVAALEKTQQAAKDPARVRDILTAAKERSFLTNHKPG---
C reinhardtii 61 VERETHHRYRNPAEWINEAAIHKALETSKADAQDAGRVREILAKAKEKAFVTEHAPVNAE
D.desulfuricans 1 ----MSFDSRSLPGFIDEEKIESVIAATAKPDAVR--VREILAKARE------
T.maritima 2 CMYVFVKERVESRSFIPEEKIFELLEKTKNPDPAR--VREIIQKSLD------
H.orenii 7 PDHRRGESRSKVCEYINGDKIEAILEEASNPSEEE--VNHIIKKSLE------
C.tetani 2 ICKMKEIKKMKAEEFIIHSDIEKALDKGREKAKNKDYVRELLNKALE------
ChlorellaNC64A 104 -PSEYVQGLTYEECATLLNVDVGNEQIMSDIFDTAFAIKQRIYGNRIVLFAPLYIANYCV
C.reinhardtii 121 SKSEFVQGLTLEECATLINVDSNNVELMNEIFDTALAIKERIYGNRVVLFAPLYIANHCM
D.desulfuricans 42 -----AKGLDAEETATLLQLD--NEELDAELFATAKKVKQTIYGNRLVLFAPLYITNECY
T.maritima 47 -----KNRLEPEETATLLNVE--DPELLEEIFEAARTLKERIYGNRIVLFAPLYIGNDCI
H.orenii 52 -----LKGLSVEEAAVLLQVE--DQELINKFLEAARKVKEKIYGKRLVLFAPLYFSNLCT
C.tetani 49 -----CKGLTYEEGAVLLNVE--DEHILEDIYKAAKIIKEKIYGKRIVLFAPLYISSYCV
ChlorellaNC64A 163 NNCRYCAFRQGNKSLERSALTDKQLREEVAALQQQGHRRLLVLTGEH-PKYTFDSFLKAI
C reinhardtii 181 NTCTYCAFRSANKGMERSILTDDDLREEVAALQRQGHRRILALTGEH-PKYTFDNFLHAV
D.desulfuricans 95 NRCAYCGFNATNSDLKRRTLSEDEIRAEVEVLERLGHKRLLLVYGEH-PRLDADWMARTI
T.maritima 100 NDCVYCGFRVSNKVVERRTLTEEQLKEEVKALVSQGHKRLIVVYGEH-PNYSPEFIARTI
H.orenii 105 NSCLYCSFRHNNNKVKRKKLSIEEIKEEVRALEREGHKRLLVLTGET-PETDLDYVVEGI
C.tetani 102 NNCKYCGYKCSNNTFKRNKLTMDEIAEEVKILESLGHKRLALEVGEDDVNCSIDYVLKSI
ChlorellaNC64A 222 DTISSVRTEPCGNIRRINVEIPSLSLSDMRRLKATDKIGTYTLFQETYHRPTFKHMHIAG
C reinhardtii 240 NVIASVKTEPEGSIRRINVEIPPLSVSDMRRLKNTDSVGTFVLFQETYHRDTFKVMHPSG
D.desulfuricans 154 QVVYDTVSEKSGEIRRVNINCAPQTVDGFRKLHDVG-IGTYQCFQETYHKATYDKAHLGG
T.maritima 159 DIVYNTKYG-NGEIRRVNVNAAPQTIEGYKIIKSVG-IGTFQIFQETYHRETYLKLHPRG
H.orenii 164 KAAYETRTEHGGEIRRINVEIAPLTTEDFKKLKEAK-IGTYTCFQETYHRPTYKKMHPSG
C.tetani 162 KKIYSLKFNNG-SIRRINVNIAATTIENYKKLKEAE-IGTYILFQETYHKETYEKMHPTG
ChlorellaNC64A 282 PKSDYDNRVMTHDRAMRAGLDDVGLGTLFGLYDYKYEVLATLMHANHLEREYGAGPHTIS
C.reinhardtii 300 PKSDFDFRVLTQDRAMRAGLDDVGIGALFGLYDYRYEVCAMLMHSEHLEREYNAGPHTIS
D.desulfuricans 213 PKKDYLWRLYAMHRAMEAGIDDVGMGPLLGLYDYRFEILALMQHAADLEKHFGVGPHTIS
T.maritima 217 PKSNYNWRLYGLDRAMMAGIDDVGIGALFGLYDWKFEVMGLLYHTIHLEERFGVGPHTIS
H.orenii 223 PKADYDWRLSVMDRAQQAGIDDIGIGALFGLYDYKFEVIALLLHSEYLDKTYGVGPHTIS
C.tetani 220 PKSDYNYHTTAMDRARMAGIDDVGIGVLYGLYDYKYDTVAMLMHGEHLEKATGVGPHTIS
ChlorellaNC64A 342 VPRMRPADGSDVSLAPPYAVDDANFKKLVAILRIAVPYTGMILSTRESPEMRTELLRVGM
C.reinhardtii 360 VPRMRPADGSELSIAPPYPVNDADFMKLVAVLRIAVPYTGMILSTRESPEMRSALLKCGM
D.desulfuricans 273 FPRLEPALNADMAFNPPHPLTDSQFKRMVAVLRLAVPYTGLILSTRENAAMRRELLELGV
T.maritima 277 FPRIKPAINTPYSQKPEHVVSDEDFKKLVAIIRLSVPYTGMILTAREPAKLRDEVIKLGV
H.orenii 283 VPRLNPALGAPVQ-EPPYPVSDEDFRKLVAILRLAVPYTGIILSTRESIDMRNELFLHGV
C.tetani 280 VPRLREAVGMTLK-EYPHLVKDEDFKKIVAILRLSVPYTGIILSTREEADFREKVIALGV
ChlorellaNC64A 402 SQMSAGSKTDVGAYHRDDSKATEDNLADLNGQFTLADHRPVQDIVVDLMKEGYVPSWCTA
C.reinhardtii 420 SQMSAGSRTDVGAYHKDHTLSTEANLSKLAGQFTLQDERPTNEIVKWLMEEGYVPSWCTA
D.desulfuricans 333 SQISAGSRTYPGAYSDPSYDRP------DVQQFCVGDSRSLDEVIAELVSLGYLPSWCTA
T.maritima 337 SQIDAGSRIGIGAYSHKEDDED------RKRQFTLEDPRPLDQVMRSLLKEGFVPSFCTA
H.orenii 342 SQISAGSRTTPGGYREAREREH------DLEQFSLHDIRPMDEIIAEISKQGYIPSFCTA
C.tetani 339 SQISAGSCTGVGGYSKENNIKHKD----EKPQFELGDNRSPIEVIKSICKSGYIPSYCTA
ChlorellaNC64A 462 CYRKGRTGEHFMKIAKAGNIHNFCHPNSLFTLQEYLNDYGSEEAKQIGQDLIERER----
C.reinhardtii 480 CYRQGRTGEDFMNICKAGDIHDFCHPNSLLTLQEYLMDYADPDLRKKGEQVIAREMGPDA
D.desulfuricans 387 CYRLGRTGEHFMELAKKGFIQEFCHPNALLTFNEYLHDYASESTREAGRKLIEKEA--AG
T.maritima 391 CYRAGRTGEHFMEFAIPGFVKNFCTPNALFTLQEYLCDYATEETRKVGEEVIEREL--QK
H.orenii 396 CYRLGRTGQDFMDLAKPGKIQEFCKPNAMFTFKEYLVDYASPETRKLGEECLQAHL--KE
C.tetani 395 CYREGRTGERFMSLAKTGEIQNVCHPNAILTFKEFLLDYGDKEAKDLGEELIRKSL—ED
ChlorellaNC64A 518 VVGLSDSAQNLTKRKLAKVNAGEHDVYI
C.reinhardtii 540 SEPLSAQSRKRLERKMKQVLEGEHDVYL
D.desulfuricans 445 CP---ENRRELVASRLQRIDGGERDLYI
T.maritima 449 MN---PKIRERVREGLEKIKRGERDVRF
H.orenii 454 IKDLNPMLAQKVKTNLTKIENGEHDLYF
C.tetani 453 IP--NEKIKKMTEEKLERIESGERDLRF
Supplemental Fig. 2
Effect of DCMU or DBMIB on maximal initial H2-photoproduction rates of C. variabilis NC64Acells (n=3). The observed effect of these inhibitors on mid-log and late-log cells (n=3) following 4h of anoxia is shown.
Supplemental Fig. 3
A comparisonof C. reinhardtii H2-photoproduction rates and in vitro hydrogenase activity from cells grown on TAP or MTAP medium.
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