Table II.
Genes repressed under low-CO2 conditions and/or CCM1-dependent genes revealed by cDNA array analyses
| IDa | Clone IDb | WT-HC/ WT-LC | C16-LC/ WT-LC | Genec | Putative Functionc | Organismc | GenBank Hitd | Motif(pfam)e |
|---|---|---|---|---|---|---|---|---|
| 033b11 | BP094164 | 9.9(±5.9) | 4.0(±2.3) | Gsa | Glutamate-1-semialdehyde aminomutase | C. reinhardtii | U03632 | – |
| 156h09 (2) | BP086423 | 6.2(±2.4) | 4.3(±1.7) | HemC | Porphobilinogen deaminase | Pisum sativum | Q43082 | – |
| 019c02 (2) | AV619723 | 5.4(±2.8) | 7.2(±3.7) | Lil3 | Light-harvesting-like protein 3 | Arabidopsis | T52310 | – |
| 007h05 (2) | AV390641 | 5.1(±2.7) | 3.4(±1.0) | Cpx1 | Coproporphyrinogen III oxidase | C. reinhardtii | AF133672 | – |
| 028b04 | AV629643 | 3.8(±1.5) | 3.4(±0.5) | Crt | Calreticulin, Calcium-binding protein | C. reinhardtii | AJ000765 | – |
| 169b10 | BP096864 | 3.8(±1.0) | 2.7(±0.5) | – | – | – | – | No hit |
| 165d02 | AV644167 | 3.7(±1.4) | 4.1(±1.7) | – | – | – | – | No hit |
| 122h07 (2) | AV391593 | 3.6(±1.7) | 2.8(±0.8) | Psb3 | Oxgen evolving enhancer protein 3 | C. reinhardtii | X13832 | – |
| 031b05 | BP086554 | 3.5(±2.2) | 5.7(±2.3) | H43 | High-CO2 inducible periplasmic protein | C. reinhardtii | AB042098 | – |
| 033e05 | BP094463 | 3.4(±1.2) | 4.3(±2.6) | Ipmdh | 3-Isopropylmalate dehydratase, small subunit | Arabidopsis | NP_181837 | – |
| 126f08 (2) | BP098729 | 3.2(±0.8) | 3.2(±1.2) | Lhcbm9 | Light-harvesting chlorophyll a/b-binding protein | C. reinhardtii | AF479778 | – |
| 002g07 (5) | AV397762 | 3.0(±1.2) | 3.0(±1.3) | LhcII-3 | Light-harvesting chlorophyll a/b-binding protein | C. reinhardtii | AB051209 | – |
| 107c05 | AV386724 | 3.0(±0.1) | 2.9(±0.7) | Ubc1 | Ubiquitin-conjugating enzyme UBC1 | Arabidopsis | NP_563951 | – |
| 157h02 | BP087178 | 2.9(±0.3) | 2.7(±0.7) | – | – | – | – | No hit |
| 011f10 | AV635306 | 2.8(±0.7) | 2.7(±0.3) | Pgk | Phosphoglycerate kinase | C. reinhardtii | U14912 | – |
| 160e07 | BP088719 | 5.0(±0.9) | 1.5 (±0.1) | Crd1 | Copper response defect 1 protein | C. reinhardtii | AF237671 | – |
| 022c06 (2) | AV623576 | 4.4(±2.0) | 2.3 (±1.2) | Ggh | Geranylgeranyl hydrogenase | Mesembryanthemum crystallinum | AAD28640 | – |
| 029e10 | AV630927 | 4.2(±1.4) | 2.3 (±1.4) | Por1 | NADPH:protochlorophyllide oxidoreductase | C. reinhardtii | Q39617 | – |
| 170d07 | BP097411 | 3.9(±0.7) | 2.1 (±1.0) | ChlH | Magnesium chelatase H-subunit | C. reinhardtii | AJ307054 | – |
| 016e07 (2) | AV642279 | 3.8(±1.8) | 1.6 (±0.5) | Sar | SAR DNA binding protein | P. sativum | T06377 | – |
| 152c03 | AV642602 | 3.6(±1.8) | 2.1 (±0.7) | Hsp70 | 70 kD heat shock protein | C. reinhardtii | P25840 | – |
| 149a01 | AV628277 | 3.5(±1.0) | 2.3 (±0.3) | Hsp81-2 | Heat shock cognate protein 80 | Lycopersicon esculentum | P36181 | – |
| 008g12 | AV391709 | 3.5(±1.3) | 2.0 (±0.5) | Lhcb4 | Light-harvesting chlorophyll a/b-binding protein | C. reinhardtii | AB051211 | – |
| 159g09 | BP088102 | 3.4(±0.5) | 2.4 (±1.0) | Uo2 | Urate oxidase II | C. reinhardtii | AF195795 | – |
| 032a05 | AV636296 | 3.3(±1.4) | 2.5 (±2.0)f | Lhcb2 | Light-harvesting chlorophyll a/b-binding protein | C. reinhardtii | AF104630 | – |
| 031c08 | BP086706 | 3.3(±0.7) | 1.8 (±1.0) | – | – | – | – | No hit |
| 010c10 | AV632566 | 3.1(±0.7) | 1.8 (±0.2) | Rpl3 | 50S ribosomal protein L3 | Arabidopsis | NP_181831 | – |
| 035a04 (2) | BP096510 | 3.1(±1.0) | 1.8 (±0.3) | Cpn60 α | Chaperonin 60 alpha chain | C. reinhardtii | L27472 | – |
| 110a08 | AV388533 | 3.0(±0.6) | 2.0 (±0.1) | – | – | – | – | No hit |
| 007f10 | AV638595 | 2.8(±1.1) | 1.9 (±0.7) | Psb2 | Oxygen-evolving enhancer protein 2 | C. reinhardtii | M15187 | – |
| 159g03 | BP088024 | 2.7(±0.1) | 2.1 (±0.7) | Alad | Delta-aminolevulinic acid dehydratase | C. reinhardtii | U19876 | – |
| 002b05 | AV395046 | 2.6(±0.3) | 0.4 (±0.1) | MetC | Cobalamin-independent methionine synthase | C. reinhardtii | U36197 | – |
| 019f08 | AV620136 | 0.8 (±0.2) | 22(±7.7) | – | – | – | – | No hit |
| 136a01 (2) | AV620380 | 1.0 (±0.1) | 5.5(±1.6) | H3-I | Histone H3 | C. reinhardtii | S59581 | – |
| 167g10 | AV619315 | 1.8 (±0.2) | 5.4(±2.4) | Gbp1 | G-strand telomere binding protein 1 | C. reinhardtii | S46234 | – |
| 036b09 (2) | BP097895 | 1.7 (±0.5) | 5.2(±1.7) | – | – | – | – | No hit |
| 139d05 | AV623043 | 0.4 (±0.2) | 4.4(±2.5) | – | – | – | – | No hit |
| 029h01 | AV631148 | 1.2 (±0.2) | 4.2(±0.8) | Ftr1 | Plasma membrane iron transporter | C. reinhardtii | AAM45938 | – |
| 115d09 | AV392433 | 1.5 (±0.5) | 3.9(±1.4) | Bip | Luminal binding protein, BiP | Scherffelia dubia | CAC37635 | – |
| 019b08 (4) | AV619634 | 1.4 (±0.4) | 3.9(±1.1) | Heph | Hephaestin; multicopper ferroxidase | Mus musculus | NP_034547 | – |
| 034h03 | BP096342 | 1.2 (±0.5) | 3.9(±1.0) | – | – | – | – | No hit |
| 030f10 | BP086097 | 1.8 (±0.7) | 3.8(±1.1) | – | – | – | – | No hit |
| 114b09 | AV391439 | 1.7 (±0.8) | 3.8(±0.9) | DnaK | DnaK-type molecular chaperone | O. sativa | T03581 | – |
| 143f07 | AV625849 | 0.8 (±0.1) | 3.8(±0.7) | – | – | – | – | No hit |
| 004f08 (2) | AV387133 | 1.7 (±0.4) | 3.7(±0.9) | – | – | – | – | No hit |
| 033g07 (5) | BP094894 | 1.2 (±0.1) | 3.7(±1.4) | Hsp22 | 22 kD Heat shock protein | C. reinhardtii | P12811 | – |
| 033b07 | BP094124 | 2.2 (±1.2) | 3.6(±1.5) | – | – | – | – | No hit |
| 159h04 | BP088169 | 2.1 (±0.3) | 3.2(±0.4) | – | – | – | – | No hit |
| 101a04 | AV393298 | 1.0 (±0.2) | 3.1(±0.8) | – | – | – | – | No hit |
| 106g04 | AV386548 | 1.0 (±0.2) | 3.1(±0.8) | – | – | – | – | No hit |
| 017a08 (2) | AV642841 | 1.3 (±0.1) | 3.0(±0.5) | – | – | – | – | No hit |
| 140d07 | AV623827 | 1.8 (±1.0) | 2.9(±0.5) | – | – | – | – | No hit |
| 028f11 | AV630205 | 1.6 (±0.3) | 2.9(±0.3) | Mbf1 | Multiprotein bridging factor 1 | Solanum tuberosum | AAF81108 | – |
| 158h12 | BP087717 | 1.4 (±0.1) | 2.8(±0.3) | Thi1 | Thiazole (thiamine) biosynthetic enzyme | Citrus sinensis | O23787 | – |
| 120g09 | AV636430 | 2.3 (±0.8) | 2.5(±0.2) | PetO | Cytochrome b6/f-associated phosphoprotein | C. reinhardtii | AF222893 | – |
Genes whose expression ratios were in excess of 2.5-fold are underlined. Dashes indicate not applicable.
a
Representative array IDs are shown in the first column. Numbers in parentheses indicate numbers of array IDs grouped into the same contigs, after sequencing the 3′ end of the cDNA.
b
GenBank accession numbers for the EST clones.
c
Genes with e-values <e−10 were annotated.
d
Best or most informative GenBank sequence alignments.
e
Motifs were annotated by the conserved domain database using RPS-BLAST (http://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi).
f
Two expression ratios out of 4 did not exceed 2.5-fold.