Table 1.
List of Spodoptera frugiperda genes transcriptionally modified by HdIV infection.
| Spodobase ID | Gene Name | Functional class | Number of clones | SAM Fold | GeneANOVA | ||||
| H | F | M | L | F gene-cond° | p-value | ||||
| Hemocytes_HdIV : 72 significant genes, 18 up-regulated and 54 down-regulated | q-value 0.0056 | ||||||||
| Sf1H03393-5-1 | Fumarate hydratase | AVI tricarboxylic acid cycle | 1 | 3 | 0 | 0 | 2.24 | 74 | <0.00001 |
| Sf1H00151-5-1 | retinol dehydratase; iso-1 | AVI catalytic | 7 | 0 | 0 | 0 | 2.11 | 152 | <0.00001 |
| Sf9L04641 | 90-kDa heat shock protein HSP83 | AVII stress. hsp | 0 | 0 | 2 | 5 | 2.19 | 33 | <0.0001 |
| Sf1H03026-5-1 | heat shock cognate 70 protein | AVII stress. hsp | 1 | 0 | 0 | 0 | 1.58 | 62 | <0.00001 |
| Sf1H00903-5-1 | prefoldin subunit 2 | AVIII processing | 2 | 0 | 1 | 0 | 1.88 | 91 | <0.00001 |
| Sf1H00522-5-1 | Galectin; iso-1 | BIII lectin | 3 | 0 | 0 | 0 | 5.66 | 161 | <0.00001 |
| Sf1H01648-5-1 | Galectin; iso-2 | BIII lectin | 2 | 0 | 0 | 0 | 5.50 | 110 | <0.00001 |
| Sf1H01841-5-1 | lectin (CrV) | BIII lectin | 11 | 0 | 0 | 0 | 1.66 | 44 | <0.00001 |
| Sf1H03263-5-1 | MBF2 | C regulator | 10 | 3 | 0 | 0 | 2.18 | NS | <0.00001 |
| Sf1H00908-5-1 | PPO-1 (X 4 spots) | DI PPO | 75 | 0 | 0 | 0 | [1.9-4.89] | [27–144] | <0.00001 |
| Sf1H00508-5-1 | PPO-2 (X 3 spots) | DI PPO | 60 | 0 | 0 | 0 | [4.02–5.91] | [67–104] | <0.00001 |
| Sf1H01637-5-1 | Hypothetical protein A.gambiae | EII | 1 | 0 | 0 | 0 | 2.73 | 250 | <0.00001 |
| Sf9L08591 | Hypothetical protein Drosophila | EII | 0 | 0 | 1 | 1 | 2.52 | 96 | <0.00001 |
| Sf1H00837-3-1 | No Similarity | EIII | 1 | 0 | 0 | 0 | 2.74 | 134 | <0.00001 |
| Sf1H00871-5-1 | No Similarity | EIII | 1 | 0 | 0 | 0 | 2.98 | 261 | <0.00001 |
| Sf1H01434-3-1 | No Similarity | EIII | 1 | 0 | 0 | 0 | 3.03 | 102 | <0.00001 |
| Sf1H02673-5-1 | No Similarity | EIII | 1 | 0 | 0 | 0 | 1.96 | 173 | <0.00001 |
| Sf1H00201-3-1 | NS. similar to Hypothetical protein (5' seq) | EIII | 2 | 0 | 0 | 0 | 2.73 | 93 | <0.00001 |
| Sf1H02439-5-1 | Annexin IX-B | AI Ca binding | 7 | 3 | 0 | 0 | 0.62 (-1.61) | 66 | <0.00001 |
| Sf9L07393 | Calmodulin | AI Ca binding | 5 | 2 | 11 | 6 | 0.59 (-1.69) | 31 | <0.0001 |
| Sf9L07135 | Cytochrome C oxydase I | AI electron transport | 162 | 117 | 232 | 146 | 0.62 (-1.61) | 30 | <0.0001 |
| Sf1H02665-5-1 | splicing factor 3a | AII splicing | 1 | 0 | 0 | 0 | 0.48 (-2.08) | 196 | <0.00001 |
| Sf9L06869 | cofilin | AIV actin | 16 | 1 | 10 | 2 | 0.54 (-1.85) | 62 | <0.00001 |
| Sf1H03446-5-1 | profiling | AIV actin | 30 | 2 | 16 | 0 | 0.54 (-1.85) | 142 | <0.00001 |
| Sf9L03392 | Thymosin beta | AIV actin | 7 | 1 | 3 | 13 | 0.45 (-2.22) | 33 | <0.0001 |
| Sf9L06055 | alpha tubulin | AIV tubulin | 5 | 5 | 7 | 7 | 0.56 (-1.80) | 56 | <0.00001 |
| Sf9L01568 | beta-1 tubulin | AIV tubulin | 1 | 2 | 2 | 1 | 0.56 (-1.80) | NS | <0.00001 |
| Sf1H02495-5-1 | synaptotagmin-like; granuphilin | AIX exocytosis | 2 | 0 | 0 | 0 | 0.65 (-1.54) | 27 | <0.0001 |
| Sf9L01210 | Ribosomal protein S24 | AV ribosomal | 1 | 0 | 4 | 21 | 0.58 (-1.71) | 84 | <0.00001 |
| Sf1H02303-5-1 | kynurenine aminotransferase | AVI biosynthesis | 2 | 0 | 0 | 0 | 0.60 (-1.66) | 73 | <0.00001 |
| Sf1H01920-5-1 | beta glucosidase; iso-1 | AVI carbohydrate metabolism | 1 | 1 | 0 | 0 | 0.58 (-1.72) | 123 | <0.00001 |
| Sf1H01659-5-1 | putative carboxylesterase | AVI catalytic | 5 | 1 | 0 | 0 | 0.56 (-1.78) | 87 | <0.00001 |
| Sf9L07277 | enolase | AVI glycolysis | 4 | 1 | 1 | 2 | 0.55 (-1.82) | NS | <0.00001 |
| Sf9L06272 | glyceraldehyde-3-phosphate dehydrogenase | AVI glycolysis | 1 | 3 | 8 | 3 | 0.63 (-1.58) | 20.82 | <0.0001 |
| Sf9L02512 | fructose 1 6-bisphosphate aldolase | AVI glycolysis | 0 | 0 | 0 | 1 | 0.64 (-1.56) | 64.61 | <0.00001 |
| Sf9L02319 | Deoxyribose-phosphate aldolase-like | AVI nucleotide metabolism | 0 | 0 | 0 | 2 | 0.64 (-1.56) | 72 | <0.00001 |
| Sf1H00106-5-1 | Scavenger receptor;iso-1 (X 2 spots) | BI receptor | 7 | 0 | 0 | 0 | [0.32–0.59] [-1.69/-3.11] | [78–159] | <0.00001 |
| Sf9L03085 | Cyclophilin 5/peptidyl-propyl isomerase 5 | BII PPIase | 5 | 4 | 4 | 3 | 0.61 (-1.64) | 34 | <0.00001 |
| Sf9L02900 | similar to RAS suppressor protein 1 | BII Ras signal transduction | 0 | 0 | 0 | 2 | 0.66 (-1.52) | 56 | <0.00001 |
| Sf1H01096-5-1 | hemicentin (X 3 spots) | BIII CAM | 11 | 0 | 0 | 0 | [0.45–0.48] [-2.10/-2.22] | [117–132]* | <0.00001 |
| Sf9L07414 | collagen alpha 1 (IV) (X 2 spots) | BIII ECM | 0 | 0 | 0 | 1 | [0.27–0.41] [-2.44/-3.70] | [63–207] | <0.00001 |
| Sf1H01457-5-1 | collagen alpha 2 (IV) | BIII ECM | 1 | 2 | 0 | 0 | 0.45 (-2.22) | 203 | <0.00001 |
| Sf9L06099 | cobatoxin-like protein; iso-1 | DI AMP | 0 | 0 | 0 | 2 | 0.50 (-1.98) | 43 | <0.00001 |
| Sf1H01136-5-1 | lysozyme (X 2 spots) | DI AMP | 140 | 86 | 18 | 0 | 0.46 (-2.17) | 114 | <0.00001 |
| Sf1H00867-5-1 | hemocytin precursor | DI lectin | 3 | 0 | 0 | 0 | 0.52 (-1.93) | 111 | <0.00001 |
| Sf1H01505-5-1 | immulectin-2 | DI LPS binding | 5 | 0 | 0 | 0 | 0.52 (-1.93) | 99 | <0.00001 |
| Sf9L00974 | calreticulin | DI multi-function | 5 | 1 | 0 | 1 | 0.51 (-1.96) | 38 | <0.00001 |
| Sf1H00566-5-1 | PPO activating Enzyme | DI PPAE | 4 | 0 | 0 | 0 | 0.45 (-2.22) | 196 | <0.00001 |
| Sf1H02709-3-1 | Hypothetical protein A. gambiae (X 5 spots) | EII | 38 | 0 | 0 | 0 | [0.44–0.55] [-1.82/-2.27] | [88–140]* | <0.00001 |
| Sf1H02044-5-1 | Hypothetical protein Drosophila | EII | 1 | 0 | 0 | 0 | 0.61 (-1.64) | 137 | <0.00001 |
| Sf9L08287 | Hypothetical protein A. gambiae | EII | 0 | 0 | 0 | 1 | 0.50 (-1.99) | 47 | <0.00001 |
| Sf9L06591 | Hypothetical protein Drosophila | EII | 0 | 0 | 0 | 1 | 0.57 (-1.75) | 36 | <0.00001 |
| Sf9L06826 | Hypothetical protein Drosophila | EII | 0 | 0 | 0 | 1 | 0.66 (-1.52) | 26 | <0.0001 |
| Sf9L00177 | similar to calponin; iso-1 | EII | 4 | 0 | 0 | 7 | 0.59 (-1.69) | 31 | <0.0001 |
| Sf1H00681-5-1 | similar to LPS-induced TNF-alpha factor (X 2 spots) | EII | 15 | 2 | 0 | 1 | [0.47–0.52] [-1.92/-2.13] | [123–159] | <0.00001 |
| Sf1H03038-5-1 | similar to pancreatic triacylglyceride lipase (X 2 spots) | EII | 6 | 0 | 0 | 0 | [0.45–0.46] [-2.17/-2.22] | [81–150] | <0.00001 |
| Sf1H00115-5-1 | similar to protease inhibitor (AC protein); iso-1 | EII | 3 | 0 | 0 | 0 | 0.50 (-2.01) | 131 | <0.00001 |
| Sf9L04444 | similar to Swiprosin | EII | 3 | 0 | 0 | 1 | 0.63 (-1.58) | 25 | <0.0001 |
| Sf1H00035-3-1 | No Similarity | EIII | 19 | 0 | 0 | 0 | 0.31 (-3.19) | 88 | <0.00001 |
| Sf1H00499-5-1 | No Similarity | EIII | 11 | 0 | 0 | 0 | 0.60 (-1.66) | 14 | <0.001 |
| Sf1H00686-5-1 | No Similarity | EIII | 10 | 0 | 0 | 0 | 0.43 (-2.33) | 105 | <0.00001 |
| Sf1H03014-5-1 | No Similarity | EIII | 1 | 2 | 0 | 0 | 0.64 (-1.56) | 178 | <0.00001 |
| Sf1F00357-5-1 | No Similarity | EIII | 1 | 0 | 0 | 0 | 0.59 (-1.68) | 21 | <0.0001 |
| Sf1H00037-3-1 | No Similarity | EIII | 1 | 0 | 0 | 0 | 0.56 (-1.78) | 212 | <0.00001 |
| Sf1H00879-5-1 | No Similarity | EIII | 1 | 0 | 0 | 0 | 0.53 (-1.89) | 147 | <0.00001 |
| Sf1H01542-3-1 | No Similarity | EIII | 1 | 0 | 0 | 0 | 0.43 (-2.33) | 348 | <0.00001 |
| Sf1H01712-5-1 | No Similarity | EIII | 1 | 0 | 0 | 0 | 0.43 (-2.33) | 106 | <0.00001 |
| Sf1H02105-5-1 | No Similarity | EIII | 1 | 0 | 0 | 0 | 0.41 (-2.44) | 163 | <0.00001 |
| Sf9L00090 | No Similarity | EIII | 1 | 0 | 0 | 4 | 0.62 (-1.61) | 35 | <0.00001 |
| Sf9L01158 | No Similarity | EIII | 0 | 0 | 1 | 2 | 0.45 (-2.22) | 73 | <0.00001 |
| Sf9L06863 | No Similarity | EIII | 0 | 0 | 0 | 1 | 0.53 (-1.89) | 43 | <0.00001 |
| Sf9L08779 | No Similarity | EIII | 0 | 0 | 0 | 1 | 0.52 (-1.91) | NS | <0.00001 |
| Fat Body_HdIV : 7 significant genes, down-regulated | q-value 0.077 | ||||||||
| Sf9L07198 | cytoplasmic actin A3 | AIV actin | 27 | 6 | 47 | 2 | 0.59 (-1.69) | 27 | 0.00001 |
| Sf9L06055 | alpha tubulin | AIV tubulin | 5 | 5 | 7 | 7 | 0.45 (-2.22) | 135 | <0.00001 |
| Sf9L01568 | beta-1 tubulin | AIV tubulin | 1 | 2 | 2 | 1 | 0.65 (-1.54) | 80 | <0.00001 |
| Sf9L07277 | enolase | AVI glycolysis | 4 | 1 | 1 | 2 | 0.54 (-1.85) | 39 | <0.00001 |
| Sf9L02319 | Deoxyribose-phosphate aldolase-like | AVI nucleotide metabolism | 0 | 0 | 0 | 2 | 0.51 (-1.96) | 82 | <0.00001 |
| Sf9L00974 | calreticulin | DI multi-function | 5 | 1 | 0 | 1 | 0.38 (-2.63) | 85 | <0.00001 |
| Sf1F00299-5-1 | Hemolymph glycoprotein precursor | DIII unknown | 1 | 17 | 1 | 0 | 0.51 (-1.96) | 33 | <0.00001 |
| Fat Body_JcDNV : 8 significant genes, up-regulated | q-value 0.056 | ||||||||
| Sf9L00253 | mRNA export factor binding | AII transcription coactivator | 0 | 0 | 0 | 2 | 1.87 | 35 | <0.000001 |
| Sf9L07586 | Ribosomal protein S27A | AV ribosomal | 5 | 3 | 8 | 11 | 3.82 | 136 | <0.000001 |
| Sf1H03263-5-1 | MBF2 | C regulator | 10 | 3 | 0 | 0 | 1.54 | 22 | 0.00006 |
| Sf9L06099 | cobatoxin-like protein; iso-1 | DI AMP | 0 | 0 | 0 | 2 | 2.12 | 70 | <0.000001 |
| Sf1H00171-5-1 | lysozyme (X 2 spots) | DI AMP | 140 | 86 | 18 | 0 | [1.59–1.66] | [10–20] | 0.0001 |
| Sf9L06812 | immunolectin-A precursor | DI LPS binding | 0 | 1 | 0 | 2 | 5.88 | 137 | <0.000001 |
| Sf9L02793 | No Similarity | EIII | 0 | 0 | 0 | 1 | 5.46 | 212 | <0.000001 |
| Sf9L03186 | No Similarity | EIII | 2 | 1 | 7 | 21 | 5.42 | 149 | <0.000001 |
List of Spodoptera frugiperda genes for which transcript levels are significantly modified in the hemocytes and in the fat body 24 hours after injection of HdIV, and in the fat body 24 hours after injection of JcDNV, as detected by a modified t-test from the SAM package and an ANOVA based microarray analysis, GeneANOVA. Only the genes with a fold change superior or equal to 1.5 with both a FDR median and 90th percentiles of 0% were kept. For each assay, the SAM q-value (the lowest FDR at which the gene is called significant) is given. For each gene, the F value for "gene-condition" and the p-value calculated by GeneANOVA are given. Single genes for which more than one cDNA was spotted on the glass slide are indicated (x spots), in those cases, only the spot with the best score was kept in the list. Genes are organized according to their functional annotation (see Additional file 2 for legends). Spodobase ID: identity of the arrayed cDNA in the database Spodobase ([61]); Gene Name: annotation of the sequence after BlastX search against the GenBank nr database; Functional class: classes and subclasses to which the sequences belong to, based on the classification described in Shida et al. [114] for the ascidian Ciona intestinalis (details in Additional file 2); Number of clones: distribution of the cDNA clones corresponding to the given gene with available sequences in the different S. frugiperda cDNA libraries (H:hemocytes; F: fat body; M:midgut; L:Sf9 cell line). For genes represented by at least two cDNAs, we reported the interval [min, max] for the SAM fold change and for the F gene-condition from GeneANOVA analysis. Asterisk (*) indicate that one of the spots was non significant for GeneANOVA (clusters Sf1H01096-5-1 and Sf1H02709-3-1). The list of additional clones corresponding to each gene is provided in Additional file 1B.