Table II.
Arabidopsis (Col-0 and gl1) ESTs corresponding to salt-responsive genes determined by northern-blot analysis
| GenBank Accession No. | EST No. | Chromosome | BAC Clone No. | geneID | proteinID | Annotation on Arabidopsis Gene/Homologa | Score | E Value | Comments | gl-1 Control | gl-1 Salt |
|---|---|---|---|---|---|---|---|---|---|---|---|
| bits | |||||||||||
| Primary metabolism | |||||||||||
| Photosynthesis | |||||||||||
| BE844959 | AD04H11 | 3 | F5N5 | ATU05218 | AAA21570.1 | ATP sulfurylase | 492 | e-138 | ++++ | +++++ | |
| BE845179 | AD08A06 | 2 | 25 | At2g05100 | AAD31358.1 | Putative chlorophyll a/b-binding protein | 789 | 0.0 | – | ++ | |
| BE845351 | AD10C12 | 4 | 69 | AT4g28750 | CAB81463.1 | Photosystem I subunit PSI-E-like protein | 513 | e-144 | ++++ | +++++ | |
| BE845356 | AD10D06 | 1 | F12A21 | F12A21.11 | AAF26934.1 | Putative PSBY emblCAA11248 | 728 | 0.0 | ++ | +++ | |
| Carbohydrate | |||||||||||
| BE844849 | AD03C01 | 4 | 7 | dl4575c | CAB46051.1 | Putative β-amylase | 1078 | 0.0 | Gene duplication? | – | + |
| BE844998 | AD05E02 | 3 | 45 T22E16 | AT4g17090 T22E16.70 | CAB80980.1 CAB75899.1 | 2-Oxoglutarate dehydrogenase, E1subunit-like protein | 242 | 2e-63 | + | ++ | |
| Amino acid | |||||||||||
| BE844834 | AD03A02 | 4 | 59 | AT4g23600 | CAB79315.1 | Tyrosine transaminase-like protein | 605 | e-172 | + | +++++> | |
| BE844976 | AD05B09 | 1 | F15I1 | F15I1.19 | AAD25783.1 | Strong similarity to gblS77096 aldehyde dehydrogenase homolog from Brassica napus and is a member of PFI00171 aldehyde dehydrogenase family | 137 | 5e-31 | Proline degradation? | + | +++ |
| BE845063 | AD06C01 | 3 | T21L8 | T21L8.90 | CAB51206.1 | Glutamine-dependent asparagine synthetase | 210 | 4e-53 | + | +++ | |
| BE845111 | AD06G04 | 4 | 82 | AT4g34710 | CAB80188.1 | Arginine decarboxylase SPE2 | 809 | 0.0 | Polyamine synthesis | – | ++++ |
| Others | |||||||||||
| BE844989 | AD05D03 | 5 | K24M7 | – | – | Not annotated | 55.4 | 6e-08 | Cytochrome p450 | – | ++ |
| pirllA29368 Prostaglandin omega-hydroxylase (EC 1.14.15.-) cytochrome P450 4A4, rabbita | 48 | e-05 | |||||||||
| Cellular function | |||||||||||
| Cell wall | |||||||||||
| BE844904 | AD04B12 | 5 | MMI9 | AB019235.1 | BAA97199.1 | Ripening related, protein like; contains similarity to pectinesterase | 712 | 0.0 | + | +++ | |
| BE845087 | AD06E01 | 5 | F7K24 | – | – | Not annotated | 339 | 3e-92 | + | ++ | |
| pirllT11610 Probable cinnamyl-alcohol dehydrogenase (EC 1.1.1.195) CPRD14 (Vigna unguiculata)a | 191 | 2e-48 | |||||||||
| bits | |||||||||||
| BE845121 | AD06H02 | 4 | 6 | AT4g02330 | CAB80726.1 | Strong similarity to similar to pectinesterase, contains pectinesterase signatures AA407-414 | 424 | e-118 | + | +++ | |
| Vesicle/protein trafficing | |||||||||||
| BE845046 | AD06A05 | 5 | F17I14 | F17I14_270 | CAB89377.1 | Periaxin-like protein | 856 | 0.0 | PDZ domain | + | +++ |
| BE845048 | AD06A07 | 1 | F23N19 | F23N19.7 | AAF19550.1 | Similar to vacuolar processing enzyme | 385 | e-106 | Protease | – | + |
| BE845064 | AD06C02 | 2 | 189 | At2g34250 | AAC27401.1 | Putative protein transport protein SEC61 alpha subunit | 216 | 6e-55 | Vesicle transport | – | +++ |
| BE845086 | AD06D12 | 1 | T25N20 | T25N20.17 | AAF79733.1 | Putative transport protein | 155 | 2e-36 | Vesicle transport | + | ++++ |
| refINP_062761.1I SEC23B (Saccharomyces cerevisiae)a | 692 | 0.0 | |||||||||
| Other cellular functions | |||||||||||
| BE844934 | AD04F04 | 4 | 67 | AT4g27400 | CAB81391.1 | Putative protein: similarity to Arabidopsis nap gene, PID:e1234813 | 749 | 0.0 | Cell division and expansion | – | +++ |
| BE844985 | AD05C10 | 4 | 90 | AT4g39260 | CAB80589.1 | Gly-rich protein (clone AtGRP8): Contains eukaryotic putative RNA-binding region RNP-1 signature AA47-54 | 59.7 | e-08 | Ccr1 | +++ | + |
| BE845050 | AD06A09 | 1 | F1P2 | F1P2.100 | CAB61981.1 | Putative protein: similarity to PIT1, Arabidopsis, GB: AF130849 | 480 | e-134 | Plant growth | – | +++++ |
| BE845059 | AD06B07 | 4 | 63 | AT4g25630 | CAB81373.1 | Fibrillarin-like protein: strong similarity to probable fibrillarin (Sb21) mRNA, Picea mariana, AF051216 | 412 | e-114 | Pre-rRNA processing | – | ++ |
| BE845095 | AD06E12 | ? | ? | ATHATJ | AAB86799.1 | Chaperone protein (atj) | 509 | e-143 | Chaperon | – | + |
| BE845137 | AD07C05 | 2 | 210 | At2g38860 | AAC79625.1 | Unknown protein, splO59413IPFPI_PYRHO PROTEASE I (Pyrococcus horikoshii)a | 15764 | 4e-373e-09 | Protease | + | +++ |
| BE845172 | AD07H10 | 2 | 185 | At2g33210 | AAC04902.1 | Mitochondrial chaperonin (HSP60) | 186 | 4e-46 | Chaperon | + | +++ |
| BE845190 | AD08B06 | 2 | 21 | At2g04460 | AAD25832.1 | Putative retroelement pol polyprotein | 638 | 0.0 | Transposon | +++ | + |
| BE845392 | AD10H03 | 4 | 14 | AT4g05050 | CAB81047.1 | Contains similarity to Pfam family PF00240, ubiquitin family | 1086 | 0.0 | ++ | +++ | |
| Transporters/nutrient uptake | |||||||||||
| BE844897 | AD04B05 | 5 | F9D12 | F9D12.17 | AAC26243.1 | Contains similarity to sugar transporters | 424 | 4e-32 | Transporter | – | ++++ |
| BE844907 | AD04C05 | 5 | F14F18 | F14F18_180 | CAB87674.1 | Putative protein, splQ96250IATP3_ARATH ATP SYNTHASE GAMMA CHAIN, MITOCHONDRIAL PRECURSORa | 99535.2 | 0.01.6 | Transporter? | – | + |
| BE844924 | AD04E04 | 2 | 91 | At2g15620 | AAD17406.1 | Ferredoxin-nitrite reductase | 406 | e-112 | Nitrogen | + | ++ |
| BE845007 | AD05E11 | 1 | T17F3 | T17F3.10 | AAF07386.1 | Putative peptide transporter | 609 | e-173 | Transporter | – | +++ |
| BE845058 | AD06B06 | 5 | F8M21 | F8M21_130 | CAB89334.1 | Putative protein: similarity to amino acid transport protein, Arabidopsis, EMBL U39783 | 527 | e-148 | Transporter | – | + |
| BE845182 | AD08A09 | 1 | F5I6 | F5I6.6 | AAF27688.1 | Putative sulfate transporter | 234 | e-60 | Transporter | – | +++ |
| bits | |||||||||||
| BE845347 | AD10C07 | 5 | MUG13 | AB021934 | BAA74589.1 | Nicotianamine synthase | 541 | e-152 | Iron uptake | – | +++ |
| BE845350 | AD10C11 | 3 | F4P12 | F4P12_210 | CAB67658.1 | ABC transporter-like protein | 5866 | 0.0 | Transporter | – | + |
| Signaling | |||||||||||
| General signal components | |||||||||||
| BE844894 | AD04B01 | 2 | 106 | At2g18190 | AAD31347.1 | Putative AAA-type ATPase | 884 | 0.0 | + | +++ | |
| BE844899 | AD04B07 | 1 | T10O24 | T10O24.2 | AAD39582.1 | Hypothetical protein, dbjIBAB11554.1I (AB011479), contains similarity to bHLH DNA-binding protein: gene_id:MNA5.5 (Arabidopsis)a | 108536.7 | 2.9e-1850.16 | Transcription | – | +++ |
| BE844973 | AD05B05 | 5 | MJC20 | MJC20.11 | BAB08434.1 | Contains similarity to unknown protein (AF117897), rab11-binding protein (Bos taurus)a | 507187 | e-1424e-46 | WD repeat | + | +++ |
| BE845012 | AD05F04 | 3 | MMM17 | MMM17.7 | BAB01914.1 | Casein kinase-like protein | 353 | 4e-96 | +++ | ++++ | |
| BE845028 | AD05G10 | 3 | T5P19 | T5P19_160 | CAB88054.1 | Putative protein: similarity to TATA-binding protein-binding protein, ABT1: Mus musculus, EMBL AB021860 | 291 | e-77 | Transcription | + | ++ |
| BE845052 | AD06A11 | 5 | MQN23 | MQN23.23 | BAB11664.1 | G protein-coupled receptor-like protein | 377 | e-103 | +++ | +++++ | |
| BE845077 | AD06D03 | 3 | F24M12 | F24M12.170 | CAB62635.1 | Putative protein: similarity to lin-10 protein: Rattus norwegicus, PIR:JE0239 | 268 | 2e-70 | Receptor targeting | + | ++ |
| BE845082 | AD06D08 | 5 | MAC9 | MAC9.10 | BAB10078.1 | Transcription factor-like protein | 317 | 2e-85 | Transcription | + | +++ |
| BE845106 | AD06F11 | 1 | F24B9 | F24B9.4 | AAF75068.1 | Contains similarity to a protein kinase gblD88207 | 139 | 9e-33 | + | +++ | |
| BE845234 | AD08G06 | 3 | F26F24 | F26F24.8 | AAF86997.1 | Hypothetical protein, emblCAB92072.1I (AL121575), dJ914N13.2.1 (cofactor required for Sp1 transcriptional activation, subunit 3; 130kd; CRSP130, DRIP130, SUR2, and KIAA1216; isoform 1) (Homo sapiens) | 27484.3 | 2e-729e-15 | – | + | |
| BE845243 | AD08H07 | 2 | 77 | At2g13790 | AAD28318.1 | Putative receptor-like protein kinase | 184 | 7e-46 | – | ++ | |
| BE845394 | AD10H07 | 3 | MGL6 | MGL6.10 | BAB00069.1 | Translationally controlled tumor protein like | 559 | e-157 | Ca2+ binding | +++ | +++++ |
| Lipid signaling/response | |||||||||||
| BE844846 | AD03B08 | 3 | T8P19 | T8P19.200 | CAB62358.1 | Putative protein, splP24484ILIP2_MORSP LIPASE 2 (TRIACYLGLYCEROL LIPASE)a | 117658.6 | 0.09e-08 | Lipase | + | +++ |
| BE844917 | AD04D07 | 3 | K13N2 | K13N2.11 | BAA95764.1 | Unknown, emblCAB95731.1I (AJ272026) allene oxide cyclase (Lycopersicon esculentum)a | 472249 | e-1323e-65 | JA synthesis | + | ++++ |
| BE844950 | AD04G12 | 3 | T14D7 | T14D3.80 | CAB72152.1 | Lipoxygenase AtLOX2 | 432 | e-120 | + | +++++> | |
| BE845001 | AD05E05 | 5 | ? | AB006778 | BAA33447.1 | Vsp2 gene for vegetative storage protein | 509 | e-143 | – | +++ | |
| bits | |||||||||||
| BE845091 | AD06E08 | 5 | MTI20 | MTI20.3 | BAB08850.1 | Lipid transfer protein; glossy1 homolog | 414 | e-114 | – | +++ | |
| BE845100 | AD06F05 | 3 | T02O04 | T02O04.11 | AAB63638.1 | Jasmonate-inducible protein isolog, myrosinase binding protein like | 466 | e-130 | ++ | ++++ | |
| Hormone related | |||||||||||
| BE844978 | AD05B11 | 3 | F28D10 | F28D10_50 | CAC03536.1 | AtPP-like protein: prokaryotic membrane lipoprotein lipid attachment site AA199-209 (AF133053), S-adenosyl-l-methionine:salicylic acid carboxyl methyltransferase (Clarkia breweri)a | 706129 | 0.06e-29 | SA | – | ++ |
| BE845401 | AD05C05 | ? | ? | AF183827 | AAF22295.1 | Beta-glucosidase homolog (BG1) | 3515 | 0.0 | – | ++++ | |
| BE845084 | AD06D10 | 3 | T10D17 | T10D17_90 | CAB88998.1 | Nitrilase 2 | 202 | e-50 | + | +++ | |
| Cell death | |||||||||||
| BE844851 | AD03C06 | 5 | MQL5 | MQL5.19 | BAA97167.1 | Palmitoyl-protein thioesterase precursor like | 422 | e-117 | Anti-apoptosis? | + | ++ |
| BE844958 | AD04H10 | 3 | F28D10 | F28D10_70 | CAC03538.1 | Lethal leaf-spot 1 homolog Lls1: contains prokaryotic membrane lipoprotein lipid attachment site AA150-160 | 472 | e-132 | Dioxygenase | + | ++ |
| Defense response | |||||||||||
| Defense proteins | |||||||||||
| BE844875 | AD03G09 | 1 | F22K20 | F22K20.19 | AAC00625.1 | Alcohol dehydrogenase | 486 | e-136 | + | +++ | |
| BE844896 | AD04B03 | 5 | MSG15 | MSG15.3 | BAB11043.1 | Mandelonitrile lyase-like protein | 519 | e-146 | Cyanogenesis | – | ++ |
| BE844926 | AD04E06 | 3 | MDB19 | MDB19.5 | BAB02775.1 | Contains similarity to endo-1,3-1,4-beta-d-glucanase gene_id:MDB19.5 | 414 | e-115 | + | +++ | |
| BE844972 | AD05B03 | 1 | F5F19 | F5F19.6 | AAD12691.1 | Similar to gblY09437 myrosinase binding protein from B. napus | 194 | 8e-49 | – | + | |
| BE844990 | AD05D04 | 1 | F24B9 | F24B9.34 | AAF75098.1 | Metallothionein | 605 | e-172 | ++++ | +++++ | |
| BE845403 | AD06E03 | 1 | F15K9 | F15K9.17 | AAC72119.1 | Strong similarity to gblD14550 extracellular dermal glycoprotein (EDGP) precursor from Daucus carota | 745 | 0.0 | + | ++ | |
| BE845117 | AD06G10 | 1 | F14N23 | F14N23.25 | AAD32887.1 | Similar to glutathione S-transferase TSI-1 (gil2190992) | 763 | 0.0 | Cyanogenesis | + | +++++ |
| BE845152 | AD07F07 | 2 | 236 | At2g43620 | AAB64044.1 | Putative endochitinase | 549 | e-154 | + | ++++ | |
| BE845153 | AD07F08 | 5 | MOJ9 | MOJ9.4 | BAB11145.1 | Polygalacturonase-inhibiting protein | 509 | e-142 | – | ++++ | |
| Cor/RD proteins | |||||||||||
| BE844850 | AD03C02 | 4 | 73 | AT4g30650 | CAB79783.1 | Strong similarity to low temperature and salt-responsive protein LTI6A, Arabidopsis | 383 | e-105 | + | +++ | |
| BE844854 | AD03D05 | 5 | F1N13 | F1N13_110 | CAC01796.1 | Cold-regulated protein COR6.6 (KIN2) | 341 | 2e-92 | – | +++++> | |
| BE844855 | AD03D11 | 2 | F14N22 | At2g42540 | AAD22999.1 | Cold-regulated protein cor15a precursor | 519 | e-14 | – | +++++> | |
| BE844865 | AD03F02 | 5 | K24M7 | D13044 | BAA02376.1 | Desiccation-responsive rd29A | 371 | e-101 | – | +++++> | |
| BE845022 | AD05G04 | 5 | T14C9 | ATHRD22 | BAA01546.1 | rd22 Gene | 448 | e-124 | – | +++++ | |
| BE845049 | AD06A08 | 1 | F15M15 | F5M15.21 | AAF79613.1 | Similar to cold-regulated protein cor47 | 127 | 4e-28 | ? | ? | |
| bits | |||||||||||
| Anthocyanin synthesis | |||||||||||
| BE844845 | AD03B06 | 5 | MOP10 | MOP10.14 | BAB11549.1 | Leucoanthocyanidin dioxygenase-like protein | 664 | 0.0 | – | +++++> | |
| BE844892 | AD04A11 | 2 | 206 | At2g38240 | AAC27173.1 | Putative anthocyanidin synthase | 203 | 4e-87 | – | ++++ | |
| BE845101 | AD06F06 | 4 | T29A15 | AT4g27560 | CAB38268.1 | Strong similarity to UDP rhamnose-anthocyanidin-3-glucoside rhamnosyltransferase, Petunia hybrida | 837 | 0.0 | + | ++ | |
| Antioxidation | |||||||||||
| BE844884 | AD04A02 | 5 | F5O24 | AB035137 | BAA86999.1 | Blue copper-binding protein | 494 | e-138 | Anti-oxidation | + | ++++ |
| Unknown | |||||||||||
| BE844860 | AD03E08 | 3 | T19D11 | – | – | Not annotated, dbjlBAB02819.1I (AB024036), dbjlBAA87936.1: gene_id:MQC12.15, similar to unknown | 13546.1 | 4e-315e-05 | – | +++ | |
| BE844992 | AD05D06 | 5 | K3M16 | K3M16_30 | CAC01890.1 | Hypothetical protein | 777 | 0.0 | – | ++++ | |
| BE845016 | AD05F09 | 3 | F14O13 | F14O13.28 | BAB03026.1 | Similar to unknown protein | 476 | e-133 | + | ++ | |
| BE845069 | AD06C07 | 1 | F22O13 | F22O13.29 | AAF99773.1 | Unknown protein | 690 | 0.0 | + | ++ | |
| BE845070 | AD06C08 | 3 | F16J14 | – | – | Not annotated | 910 | 0.0 | + | ++ | |
| emblCAB86422.1I (AL138648) putative protein (Arabidopsis)a | 78.8 | 4e-14 | |||||||||
| BE845097 | AD06F02 | ? | ? | – | – | Not annotated | + | ++++ | |||
| BE845355 | AD10D05 | 1 | F24J8 | – | – | Not annotated | 775 | 0.0 | Transporter | – | ++++ |
| gblAAF28474.1IAF173553_1 (AF173553) V-ATPase 110-kD integral membrane subunit (Manduca sexta)a | 29.7 | 16 | |||||||||
| BE845376 | AD10F07 | 1 | T27G7 | – | – | Not annotated | 579 | e-164 | + | +++ | |
| splQ08180IICCR_DROME IRREGULAR CHIASM C-ROUGHEST PROTEIN PRECURSOR (IRREC PROTEIN)a | 32.1 | 3.7 | |||||||||
Total RNA was isolated from seedlings transferred to medium without or
with 160 mm NaCl for 4 h SREs were subjected to Blastn
analysis and illustrated are annotations based on the information from
the Arabidopsis genome sequence project: chromosome no., section on
chromosomes 2 and 4, or BAC clone identification no. (for
chromosomes 1, 3, and 5), and gene/protein accession nos. Highlighted
in bold are SREs that detected transcripts differentially regulated in
gl1 and sos3. Transcript abundance is rated based
on the scale illustrated.
a
Blastp analysis was performed on any Arabidopsis open reading frame (ORF) that corresponded to an SRE that is not functionally annotated. Any SRE sequence that did not match an Arabidopsis ORF was subjected to Blastx/Blastp analysis.