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Table 2 Transcript-derived fragments identified by cDNA-AFLP analysis and differentially expressed between Mock- and Bamboo mosaic virus-inoculated Nicotiana benthamiana plants.

From: Identification of differentially expressed genes induced by Bamboo mosaic virus infection in Nicotiana benthamianaby cDNA-amplified fragment length polymorphism

TDFa IDb Length (bp) Expressionc Protein candidated Ratioe E valuef
Function: cell rescue, defense, death, and ageing:    
ACTC1-1 AAM08661.1 207 - putative disease resistance protein [Oryza sativa Japonica] 9/15  
ACTC3-1 AAP03879.1 174 - Avr9/Cf-9 rapidly elicited protein 216 [Nicotiana tabacum] 13/17 1e-05
ACTG3-1 AAB36652.1 213 + immediate-early salicylate-induced [Nicotiana tabacum] 4/7 5e-19
ACCT8-1 AAC78594.1 129 + Hcr2-2A [Solanum pimpinellifolium] 10/12 5e-04
ACCT10 AAA74119.1 121 + SR1 Nt-rab7b [Nicotiana tabacum] 12/12 5e-04
ACAC6 CAA72515.1 205 + heat shock protein [Arabidopsis thaliana] 7/7 1e-21
ACAC8-1 ACG31454.1 144 - mpv17/PMP22 family protein [Zea mays] 5/10  
ACTC8-1 ACG42715.1 120 - mpv17/PMP22 family protein [Zea mays] 12/13  
ACCT13 AAK11255.1 114 + regulator of gene silencing [Nicotiana tabacum] 10/10 5e-04
ACGT10 CAD30209.1 140 + putative auxin-induced protein 29 [Arabidopsis thaliana] 10/10  
ACGT4 AAN63619.1 188 + thioredoxin h-like protein [Nicotiana tabacum] 6/6 4e-09
ACCT14-1 AAC06242.1 102 - late embryogenis abundant protein 5 [Nicotiana tabacum] 5/12 4e-03
ACCT12-1 ABH09088.1 116 - putative membrane protein [Artemisia annua] 6/8 9e-14
ACGT11-1 CAA69901.1 118 + plasma membrane polypeptide [Nicotiana tabacum] 8/10 1e-05
ACGA8-1 AAF24496.1 93 + FH protein NFH1 [Nicotiana tabacum] 6/8  
ACAG2-1 CAC81898.1 218 + NEP1-interacting protein 2 [Arabidopsis thaliana] 9/10 5e-07
ACCA5-1 AAK40224.1 190 + putative syntaxin of plants 52 [Oryza sativa Japonica] 8/10 1e-08
ACCA7-1 ABG73415.1 185 + chloroplast pigment-binding protein CP29 [Nicotiana tabacum] 5/10 4e-05
ACCA8 ABD28323.2 183 + excinuclease ABC, C subunit[Medicago truncatula] 8/8 4e-08
ACCA1-1 AAX95717.1 253 + protease inhibitor/seed storage/LTP family [Oryza sativa Japonica] 5/10  
ACCA10 AAM73656.1 168 + AER [Nicotiana tabacum] 6/6 2e-22
ACAG4-1 AAD32145.1 176 - Nt-iaa4.5 deduced protein [Nicotiana tabacum] 9/10 3e-05
Function: signal transduction:    
ACCT1-1 CAX43672.1 322 - CDK-activating kinase[Candida dubliniensis CD36] 6/9  
ACCT7-1 BAF62637.1 135 + DELLA protein [Phaseolus vulgaris] 10/12 4e-15
ACTG7-1 ABD34616.1 127 - green ripe-like 1 [Solanum lycopersicum] 5/10 5e-04
ACCA2-1 AAS20952.1 204 + calmodulin binding protein 25 [Arabidopsis thaliana] 6/10 5e-06
Function: transcription:    
ACAC2 ABO42262.1 249 - AT-hook DNA-binding protein [Gossypium hirsutum] 8/8 3e-04
ACGA4-1 AAL66977.1 141 + putative cleavage and polyadenylation specificity factor [Arabidopsis thaliana] 8/10  
ACCA6 AAM65499.1 186 + AP2 domain transcription factor [Arabidopsis thaliana] 8/8 2e-05
ACAG11-1 BAC79914.1 57 - homeobox transcription factor Hox7-like protein [Oryza sativa Japonica] 5/10  
ACGA5 AAM14969.1 135 - putative small nuclear ribonucleoprotein Prp4p [Arabidopsis thaliana] 7/7  
ACCT4-1 AAB62807.1 220 + S-adenosyl-methionine-sterol-C-methyltransferase [Nicotiana tabacum] 6/12 2e-34
ACGT1 AAK13103.1 285 - helicase-like protein [Oryza sativa Japonica] 6/6 2e-03
ACGT5-1 AAA35148.1 183 + transcription factor IIIB [Saccharomyces cerevisiae] 6/15 3e-05
Function: metabolism    
ACCT5-1 ACG37370.1 193 - lysine ketoglutarate reductaselysine trans-splicing [Zea mays] 7/12 2e-29
ACTG1-1 ACD13145.1 277 - TOK1 potassium channel [Aspergillus fumigatus] 7/10  
ACAC7-1 AAS46243.1 149 - xyloglucan endotransglucosylase-hydrolase XTH7 [Solanum lycopersicum] 5/9 1e-13
ACCA11-1 ABN09771.1 139 - glycosyl transferase, family 48 [Medicago truncatula] 10/16 1e-13
ACTC4-1 AAA34065.1 169 - chloroplast carbonic anhydrase [Nicotiana tabacum] 10/18 6e-15
ACAG10 AAA34065.1 79 - chloroplast carbonic anhydrase [Nicotiana tabacum] 10/10 1e-07
ACAG8 AAY17071.1 108 - chloroplast carbonic anhydrase [Nicotiana benthamiana] 6/6 5e-21
ACGA10-1 BAA25639.1 76 - NPCA1 [Nicotiana paniculata] 8/10 8e-04
Function: energy    
ACGA9 AAD25541. 84 + fructose-1,6-bisphosphatase precursor [Solanum tuberosum] 8/8 9e-08
ACGT2-1 CAA41713.1 193 - photosystem II 23 kDa polypeptide [Nicotiana tabacum] 5/6 3e-20
ACGT3-1 AAA34053.1 190 + beta-1,3-glucanase [Nicotiana tabacum] 5/6 2e-15
ACGT8-1 CAJ32461.1 160 + putative chloroplast cysteine synthase 1 [Nicotiana tabacum] 10/15 1e-08
ACGT9-1 CAX42612.1 143 + NADPH-dependent 1-acyl dihydroxyacetone [Candida dubliniensis CD36] 7/10 3e-23
ACAG5-1 AAM28014.1 158 + granule-bound starch synthase [Peraphyllum ramosissimum] 7/16 1e-07
ACCA4 BAA28625.1 194 + aldehyde oxidase [Arabidopsis thaliana] 10/10 2e-07
ACAG1 CAA74359.1 269 - ferredoxin--NADP(+) reductase [Nicotiana tabacum] 10/10 7e-38
ACTC2 AAB39547.1 199 - polygalacturonase isoenzyme 1 beta subunit [Solanum lycopersicum] 14/14 1e-28
ACCT2-1 AAC78441.1 295 - 12-oxophytodienoate reductase OPR2 [Arabidopsis thaliana] 7/8 2e-32
ACGT12 CAA44267.1 115 - lipid transferase [Nicotiana tabacum] 8/8 6e-10
ACAG9 CAA44267.1 97 - lipid transferase [Nicotiana tabacum] 10/10 7e-08
Function: translation    
ACTC5-1 CAA77372.1 149 - ribosomal protein L20 [Nicotiana tabacum] 6/17 2e-11
ACTG5-1 ABN08437.1 135 + ribosomal protein L10 [Medicago truncatula] 7/10 9e-16
ACGA2-1 CAA77381.1 154 + ribosomal protein S3 [Nicotiana tabacum] 10/17 1e-03
ACGT7-1 CAA77408.1 165 + ribosomal protein L23 [Nicotiana tabacum] 6/10 2e-25
Function: unclassified    
ACTC9-1 BAC98856.1 117 - hypothetical protein [Brassica napus] 5/12 5e-06
ACTG9 AAW82556. 109 - hypothetical protein [Phalaenopsis aphrodite subsp. formosana] 14/14  
ACAC1-1 CAN77388.1 299 - hypothetical protein [Vitis vinifera] 14/15 4e-41
ACAC5-1 CAN79807.1 240 - unknown protein [Vitis vinifera] 8/10 8e-04
ACCT3-1 CAJ32479.1 270 - hypothetical protein [Nicotiana tabacum] 5/10 1e-06
ACCT9-1 AAK20059.1 126 + hypothetical protein [Oryza sativa Japonica] 6/10  
ACGA1-1 ABW98323.1 174 + hypothetical protein [Hemiselmis andersenii] 10/15  
ACCA3 CAA45741.1 200 + mRNA C-7 [Nicotiana tabacum] 8/8 6e-11
ACAG6 BAD46202.1 131 + hypothetical protein [Oryza sativa Japonica] 8/8  
ACCA9-1 AAM91702.1 174 + unknown protein [Arabidopsis thaliana] 4/12 5e-14
No significant match    
ACTG4   148 + No significant match 8/8  
ACTG6   134 - No significant match 8/8  
ACTG2-1   271 - No significant match 5/12  
ACAC3   246 - No significant match 7/7  
ACAC4-1   245 + No significant match 4/7  
ACTG8-1   117 + No significant match 4/12  
ACAC9-1   138 + No significant match 5/8  
ACAC11   118 - No significant match 8/8  
ACAC10-1   123 - No significant match 7/12  
ACCT6-1   151 + No significant match 10/12  
ACCT11-1   119 + No significant match 10/12  
ACGA3-1   151 + No significant match 6/10  
ACCT15-1   96 + No significant match 6/12  
ACTC6-1   135 + No significant match 9/18  
ACTC7-1   130 + No significant match 6/12  
ACGA6-1   107 - No significant match 7/14  
ACGA7   97 + No significant match 8/8  
ACGT6   181 - No significant match 8/8  
ACAG7-1   115 - No significant match 5/8  
ACAG3-1   186 + No significant match 7/12  
ACCA12-1   126 + No significant match 10/14  
ACAG12-1   47 + No significant match 6/10  
  1. aTDF: transcript-derived fragment
  2. bID: accession number of analogues identified by Tblastx
  3. cExpression: up-regulated (+) or down-regulated (-) cDNA-AFLP signals detected in virus-infected leaves, compared to mock-infected leaves dProtein candidate: Tblastx hit with the best E value
  4. eRatio: the number of the clone over the number of total clones sequenced
  5. fE value: only the value lower than 0.001 (1e-03) were shown according to statistic analysis with extremely significant hit
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