Table 1.
Candidate transcripts detected by RFDD‐PCR analyses and differentially expressed between healthy (H) and BNYVV‐infected (A2 or A4) sugar beet roots
| No.* | FDD† | H‡ | A2 | A4 | Name§ | Size (bp)¶ | Predicted function (Organism)** | Accession no.†† | AT locus‡‡ | GO terms§§ |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 1a | x | x | 18V15 | 584 | No significant similarity | — | |||
| 2 | 2a | x | 18V21 | 464 | Cytosolic heat shock 70 protein (Spinacia oleracea) | AF034618 | At3g12580 | Pro, RS, Rox | ||
| 3 | 18V25 | 455 | Phospholipase D alpha 1 (Arabidopsis thaliana) | NM_112443 | At3g15730 | Met, ST | ||||
| 4 | 5a | x | x | 18V56 | 262 | Glutathione S transferase (Arabidopsis thaliana) | AF349527 | At4g02520 | RS, Rox | |
| 5 | 6a | x | 18V61 | 185 | 26S rRNA (Chenopodium rubrum) | AM263434 | ||||
| 6 | 18V62 | 181 | Zinc‐containing alcohol dehydrogenase (Ralstonia eutropha) | YP_297879 | ||||||
| 7 | 18V63 | 181 | 23S rRNA (Pseudomonas stutzeri) | X87289 | ||||||
| 8 | 7a | x | 19S12 | 233 | Large‐subunit rRNA (Thaumatomonas sp. TMT002) | DQ980477 | ||||
| 9 | 19S13 | 874 | Large‐subunit rRNA (Thaumatomonas sp. TMT002) | DQ980477 | ||||||
| 10 | 8a | x | x | 19V12 | 61 | No significant similarity | — | |||
| 11 | 13a | x | x | 19V65 | 266 | Ubiquitin UBQ10 (Arabidopsis thaliana) | DQ793132 | At4g05320 | Pro, RS | |
| 12 | 14a | x | 19V72 | 196 | No significant similarity | — | ||||
| 13 | 17a | x | x | 20V16 | 576 | 23S rRNA gene (Rhizobium leguminosarum) | CP000133 | |||
| 14 | 18a | x | 20V21 | 441 | Amino acid transporter AAP4 (Arabidopsis thaliana) | NM_125780 | At5g63850 | Trans, RS | ||
| 15 | 20V26 | 443 | Genomic DNA, Os12g0190400 gene (Oryza sativa) | AP008218 | ||||||
| 16 | 19a | x | 20V34 | 369 | Unknown protein (Arabidopsis thaliana) | NM_105087 | At1g64140 | Un | ||
| 17 | 20V36 | 369 | Plasma membrane H+‐ATPase (Triticum aestivum) | AY829002 | At2g18960 | Trans, RS, ST | ||||
| 18 | 20a | x | x | 20V46 | 260 | No significant similarity | — | |||
| 19 | 5b | x | 25V51 | 313 | Carbamoyl‐phosphate synthase (Arabidopsis thaliana) | NM_102730 | At1g29900 | Met | ||
| 20 | 25V55 | 313 | FLS2 Leu‐rich repeat protein kinase (Arabidopsis thaliana) | NM_124003 | At5g46330 | ST, RS | ||||
| 21 | 7b | x | x | 25V75 | 213 | 2‐Dehydro‐3‐deoxyphosphoheptonate aldolase (Arabidopsis thaliana) | NM_120162 | At4g39980 | Met, RS | |
| 22 | 9b | x | 26V12 | 469 | Germin‐like protein (Mesembryanthemum crystallinum) | M93041 | At1g09560 | RS | ||
| 23 | 26V13 | 483 | LBVV‐pol gene for L protein (Lettuce big‐vein virus) | AB075039 | ||||||
| 24 | 11b | x | 26V31 | 365 | Large‐subunit rRNA (Thaumatomonas sp. TMT002) | DQ980477 | ||||
| 25 | 12b | x | x | 26V46 | 255 | Glucose‐6‐phosphate 1‐dehydrogenase (Arabidopsis thaliana) | AK227918 | At5g40760 | Met | |
| 26 | 13b | x | 26V52 | 235 | 26S ribosomal RNA (Maytenus fournieri) | AF222393 | ||||
| 27 | 16b | x | 27V21 | 89 | Genomic DNA (Staphylococcus aureus phage phi13) | AF424783 | ||||
| 28 | 27V24 | 700 | 23S rRNA (Acidovorax avenae subsp. citrulli) | CP000512 | ||||||
| 29 | 27V26 | 700 | Peroxidase, per2 gene (Beta vulgaris) | AJ276131 | At5g19890 | RS, Rox | ||||
| 30 | 17b | x | x | 27V31 | 585 | Microtubule‐associated protein (Trypanosoma cruzi) | AF158722 | |||
| 31 | 27V33 | 585 | 16S rRNA (Streptomyces glomeroaurantiacus) | AB249983 | ||||||
| 32 | 27V36 | 585 | 16S rRNA (Streptomyces sp. 4_C7_41) | EF540496 | ||||||
| 33 | 18b | x | x | 27V42 | 575 | 16S rRNA (Streptomyces sp. 4_C7_41) | EF540496 | |||
| 34 | 27V44 | 575 | 16S rRNA (Streptomyces sp. 4_C7_41) | EF540496 | ||||||
| 35 | 19b | x | 27V51 | 414 | 26S rRNA (Afrostyrax sp. Cheek 5007) | AF479115 | ||||
| 36 | 27V52 | 414 | Chloroplast DNA (Cyanidioschyzon merolae strain DBV201) | AY286123 | ||||||
| 37 | 20b | x | 27V61 | 302 | 26S rRNA (Medusagyne oppositifolia) | AF479120 | ||||
| 38 | 27V62 | 302 | l‐allo‐threonine aldolase (Malus x domestica) | AY742299 | At1g08630 | Met | ||||
| 39 | 1c | x | 22V12 | 368 | 18S ribosomal RNA (Allantion sp. ATCC 50734) | AF411265 | ||||
| 40 | 3c | x | x | 23V11 | 594 | TIP1 Palmitoyltransferase (Arabidopsis thaliana) | NM_122042 | At5g20350 | Cell, RS | |
| 41 | 23V13 | 52 | No significant similarity | — | ||||||
| 42 | 23V16 | 584 | 16S rRNA (Streptomyces sp. 4_C7_41) | EF540496 | ||||||
| 43 | 4c | x | x | 23V21 | 489 | No significant similarity | — | |||
| 44 | 23V22 | 494 | Phenylalanine ammonia lyase (Beta vulgaris) | AJ810175 | At2g37040 | Met, RS, Rox | ||||
| 45 | 23V24 | 492 | U2 snRNP auxiliary factor large subunit (Arabidopsis thaliana) | NM_104771 | At1g60900 | Rna | ||||
| 46 | 12c | x | 24S21 | 406 | 26S rRNA (Portulaca grandiflora) | AF479093 | ||||
| 47 | 24S22 | 406 | BvMS1 Methionine synthase (Beta vulgaris) | AB221011 | At5g17920 | Met | ||||
| 48 | 24S23 | 406 | No significant similarity | — | ||||||
| 49 | 24S24 | 338 | 26S rRNA (Nicotiana tabacum) | AF479172 | ||||||
| 50 | 10c | x | 24V31 | 134 | Mitochondrial genomic DNA (Beta vulgaris) | BA000024 |
Identifier of each cDNA.
Number of the band detected on denaturing gels.
Expression profile: x in the H column refers to a repressed gene during the infection, and ‘x’ in the A2 and/or A4 columns refers to up‐regulated genes.
Name of the pGEM‐T cloned sequence.
Size of the cloned cDNA.
The best Tblastx result with E value below 1 e−3.
Accession number of the Tblastx homologue.
The best‐matched Arabidopsis thaliana (AT) orthologue.
If the AT orthologue is identified, global gene function as described by the Gene Ontology Consortium. GO terms: response to abiotic or biotic stimulus (RS), response to oxidative stress (Rox), RNA binding and processing (Rna), protein binding, folding and modification (Pro), metabolism (Met), cell organization and biogenesis (Cell), signal transduction (ST), transport (Trans), unknown process (Un).