Spreadsheet: 2b1a149a-9cd6-4bf2-8676-b67d7c6f743a
Sheet: Sheet1

SGN-U2 gene | Gene Annotation | SGN-U2 gene pair | Gene Annotation pair | Type of perturbation | Acceptability | Fructose and glucose | Malic and citric acids | Quality (aroma and taste) | Quality vs production | Vitamin C | Direct evidences (tomato) | Indirect evidences (tomato and other plants) | Organism | References
SGN-U212914 | Superoxide dismutase [Cu-Zn] 2 |  |  | OV |  |  |  |  |  | ↑ |  | vtc2 mutant have reduced ascorbate among high expressed genes a Cu-zn-SOD, inversely correlated with trigonelline abundance | tomato, Arabidopsis | Mounet 2009,  Giacomelli 2006
SGN-U212979 | 40S Ribosomal protein S3a-like (cytosolic) |  |  | KO |  |  |  | ↑ |  | ↓ |  | rin,nor and nr mutants present differential expression regulation of RPs; IL12-3 with altered levles in asocorbate present among differential genes ribosomal proteins | [NAME] | Osorio 2011, Di Matteo 2010
SGN-U213236 | Histone H3.2 (en SGN esta como H3) |  |  | KO |  | ↓ |  |  |  | ↓ |  | IL12-4 with high levels of ascorbate have reduced levels of H3.2 (in the file is H3 but in TIGR is H3.2)and H4 | [NAME] | Di Matteo 2010
SGN-U213463 | [NAME]-like transcription factor [NAME] |  |  | KO |  | ↑ |  |  |  |  |  | YABBY proposed controlling fruit size/auxin reported controling fruit growth and ripening | [NAME] | Cong 2008, Wang 2009
 |  | SGN-U216342 | tRNA-dihydrouridine synthase A, putative | OV:OV |  |  |  | ↑
SGN-U213645 | Ribosomal protein S27-like protein |  |  | KO |  | ↓ | ↑ | ↑ |  |  |  | rin,nor and nr mutants present differential expression regulation of RPs | [NAME] | Osorio 2011
SGN-U213977 | Clathrin adaptor complexes medium subunit family protein |  |  | OV | ↑ | ↑ |  | ↑ | ↑ | ↓ |  | CAC have been described in auxin transporter recycling
 |  | SGN-U214499 | Cysteine protease (SlVPE5) | OV:KO |  |  |  |  | ↑ |  | SlVPE5 KO enhances total sugar accumulation in red ripe fruit |  | [NAME] | Ariizumi 2011
 |  | SGN-U217276 | Prefoldin subunit, putative | OV:OV |  |  |  |  | ↑
 |  | SGN-U218428 | dolichyl-phosphate beta-glucosyltransferase, putative | OV:OV |  |  |  |  | ↑
SGN-U214309 | 6-phosphogluconolactonase-like protein |  |  | KO |  | ↑ | ↓ |  |  |  |  | sugar and citric acid content | peach | Ogundiwin 2009
 |  |  |  | OV |  |  |  |  | ↑
SGN-U214351 | Ribosomal protein L30e (cytosolic) |  |  | OV | ↑ | ↓ | ↑ |  |  |  |  | rin,nor and nr mutants present differential expression regulation of RPs | [NAME] | Osorio 2011
SGN-U214621 | LEXYL2 |  |  | OV | ↑ |  |  |  |  |  | texture/ripening |  | [NAME] | Itai 2003
SGN-U214705 | Triosephosphate isomerase, chloroplastic |  |  | OV |  |  |  |  |  | ↑
SGN-U215149 | Similar to 60S ribosomal protein L35 (cytosolic) |  |  |  |  |  |  |  |  |  |  | rin,nor and nr mutants present differential expression regulation of RPs | [NAME] | Osorio 2011
 |  | SGN-U220492 | sucrose phosphate synthase | OV:OV |  |  |  | ↑ |  |  | switness, OV increases sucrose |  | [NAME] | Miron 1991,Stommel 1992, [NAME]
SGN-U215229 | Heat shock protein, putative |  |  | KO | ↑ |  | ↓ | ↑ |  |  |  | vis1(a HSP), inversely correlated to juice viscosity | [NAME] | Ramakrishna 2003
SGN-U215556 | ER33 protein |  |  | OV |  |  | ↓ |  |  |  |  | ER33, ethylene response bHLH gene up-regulated during ripening/supression of ethylene biosynthesis by [NAME] antisense lead to increase in malic and citric acid | [NAME] | Zegzouti 1999, [NAME] 2007
SGN-U215564 | Serine/threonine protein kinase, putative |  |  | KO |  |  |  |  |  | ↑
SGN-U215591 | Adenylate kinase 1, putative |  |  | KO |  |  |  |  |  | ↑ |  | Potato ADK  KO results in enhanced accumulation of starch (determinant for soluble solid content in tomato at mature red stage) and productivity | potato, tomato | Regierer 2002, [NAME] and Stevens 1981, [NAME] and Petreikov 1997, [NAME], 2005, Centeno 2011
SGN-U215593 | Potential GTPase activation protein |  |  | KO |  |  |  |  |  | ↓
SGN-U215996 | Ureide permease, putative |  |  | OV |  | ↓ | ↑ |  | ↑
SGN-U216025 | Not found |  |  | KO |  |  | ↑
SGN-U216118 | Chaperone GrpE type 2 |  |  | KO | ↑
SGN-U216214 | Alcohol dehydrogenase, putative |  |  | OV |  |  |  |  |  | ↑ | aroma, fruits with OV ADH2 and hexanol and hexenol  have more intense flavor |  |  | Speirs 1998
SGN-U216219 | Chloroplast methionine sulfoxide reductase B1 precursor |  |  | OV |  | ↑ | ↓ |  |  | ↑ |  | candidate gene for met-cys content | [NAME] | Bermúdez 2008
SGN-U216664 | Tubulin-specific chaperone C-related |  |  | KO |  | ↑ | ↓ |  |  | ↑
SGN-U217077 | GATA transcription factor, putative (ZML1) |  |  | KO | ↑
SGN-U217454 | [NAME] protein, putative
 |  | SGN-U217379 | ankyrin-like protein | OV:OV |  |  |  | ↑ | ↑
 |  | SGN-U217760 | Fyve finger-containing phosphoinositide kinase, fyv1, putative | OV:OV |  |  |  | ↑
SGN-U218173 | [NAME]-tRNA synthetase 2, chloroplast/mitochondrial precursor, putative |  |  | OV |  |  |  |  | ↑
SGN-U218174 | Amino acid binding protein, putative |  |  | KO | ↑
SGN-U219181 | SRFR1, protein complex scaffold |  |  | OV |  |  | ↑ |  |  | ↓
SGN-U219621 | Adenylate kinase, putative |  |  |  |  |  |  |  |  |  |  | Potato ADK  KO results in enhanced accumulation of starch (determinant for soluble solid content in tomato at mature red stage) and productivity | potato, tomato | Regierer 2002, [NAME], [NAME] and Stevens 1981, [NAME] and Petreikov 1997, [NAME], 2005, Centeno 2011
 |  | SGN-U214286 | Not found | KO:KO | ↑
 |  | SGN-U215261 | AT-HSFA6B, DNA binding/transcription factor | KO:KO | ↑
 |  | SGN-U216423 | Proline-rich cell wall protein-like | KO:KO | ↑
 |  | SGN-U216648 | Ribosomal protein | KO:KO | ↑
 |  | SGN-U217276 | Prefoldin subunit, putative | OV:OV |  |  |  |  | ↑
 |  | SGN-U218446 | Vesicle-associated membrane protein, putative | KO:KO | ↑
 |  | SGN-U221880 | chloroplast lumen common family protein | KO:KO | ↑
 |  | SGN-U222097 | F-box family protein | KO:KO | ↑ |  |  |  |  |  |  | F-box has [NAME] in tomato size QTL | [NAME] | [NAME] 2011
 |  | SGN-U223374 | amino acid transporter, putative / in SGN as AUX1-like permease | KO:KO | ↑ |  |  |  |  |  |  | AUX1-like permease has been described in relation to fruit set | [NAME] | Xiao 2009, Vriezen 2008
 |  | SGN-U225360 | Selenoprotein O, putative | KO:KO | ↑
 |  | SGN-U231178 | Vesicle-associated membrane protein, putative | KO:KO | ↑
SGN-U219794 | Not found |  |  | OV |  | ↓ | ↑
SGN-U220297 | Integral membrane [NAME] family protein |  |  | OV |  | ↓ |  |  |  |  |  | vesicle transport
SGN-U220542 | Transcription factor-related |  |  | OV |  | ↓ | ↑
SGN-U220811 | Chloroplast inner membrane import protein Tic22, putative |  |  | KO |  | ↓ | ↑ |  |  | ↓
SGN-U221636 | Non-cell-autonomous protein pathway1, plasmodesmal receptor |  |  | OV | ↑ |  |  | ↑ | ↑ | ↓ |  | texture? Spatial regulation of pectic polysaccharides arround plastodesmata | [NAME] | Orfila 2000
SGN-U222265 | Chloroplast phosphate transporter precursor (Pht2;1 ) |  |  | KO |  | ↑ | ↓ |  |  |  |  | posible role in cell wall and photosynthetic carbohydrate metabolism | potato | [NAME] 2004
 |  |  |  | OV |  |  |  |  | ↑
SGN-U222649 | Pre-mRNA-processing protein prp39, putative
 |  | SGN-U217276 | Prefoldin subunit, putative | OV:OV |  |  |  |  | ↑
SGN-U223015 | Predicted protein from Populus trichocarpa |  |  | KO |  |  |  | ↑ |  | ↓
SGN-U224209 | Putative rac protein |  |  | OV |  |  |  |  | ↑ |  |  | cell wall, sugar accumlation and ripening | [NAME] | [NAME] 2001, [NAME], Falchi 2010
 |  | SGN-U214890 | 50S ribosomal protein L27, chloroplastic | KO:OV |  |  |  | ↑ |  |  |  | a pre-requisite fro plastid metabolite accumulation during ripening is ribosomal induction/rin,nor and nr mutants present differential expression regulation of RPs | [NAME] | [NAME] 2007, Osorio 2011
SGN-U225154 | putative glycerophosphoryl diester phosphodiesterase family protein |  |  | OV |  | ↑ |  | ↑ | ↑ |  |  | Fructose & SSC QTL | peach | Ogundiwin 2009
 |  | SGN-U228269 | MYB transcription factor | OV:OV |  |  |  | ↑ |  |  |  | MYB TF has been related flavonoids and glutamine accumulation | [NAME] | Sapir 2008, Mounet 2009, Ballester 2011
SGN-U225517 | GRAM domain-containing protein / ABA-responsive protein-related
 |  | SGN-U216689 | putative threonyl-tRNA synthetase | OV:OV |  |  |  | ↑
SGN-U225967 | Eukaryotic translation initiation factor 2 gamma subunit, putative |  |  | KO | ↑ |  |  | ↑
SGN-U226059 | Longevity assurance factor, putative |  |  | KO |  |  |  |  |  | ↑
SGN-U226069 | Cyclic nucleotide-gated calmodulin-binding ion channel |  |  | KO |  | ↓ | ↑
SGN-U226303 | ATAB2 |  |  | KO |  | ↑ | ↓ |  |  |  |  | ATAB2 is the most downregulated gene in SULF mutant, an auxin deficient mutant, probably due to defects in the Trp-independent pathway,  the preferent aux pathway in red-ripe tomato | [NAME] | Ehlert 2008, Epstein 2002
 |  | SGN-U217898 | Not found | OV:OV |  |  |  |  | ↑
 |  | SGN-U218428 | dolichyl-phosphate beta-glucosyltransferase, putative | OV:OV |  |  |  |  | ↑
 |  | SGN-U223136 | Not found | OV:OV |  |  |  |  | ↑
 |  | SGN-U228429 | GTP-binding protein LepA homolog | OV:OV |  |  |  |  | ↑
SGN-U226400 | Protein kinase family protein
 |  | SGN-U233328 | branched-chain amino acid aminotransferase | OV:OV |  |  |  | ↑ |  |  | aroma, branched aminoacid ([NAME], Leu, Val) QTL |  | [NAME] | Kochevenko 2011, Maloney 2010
SGN-U227307 | Katanin P80 subunit, putative |  |  | OV |  |  | ↓
SGN-U227329 | Polynucleotide kinase- 3'-phosphatase, putative |  |  | OV |  | ↑ | ↓ | ↑ | ↑ | ↓
 |  | SGN-U218335 | Pantothenate kinase, putative | OV:OV |  |  |  | ↑
 |  | SGN-U226473 | DEX1, calcium ion binding | OV:OV |  |  |  | ↑
SGN-U227429 | Cation efflux protein/ zinc transporter, putative |  |  | OV |  |  | ↓ |  |  | ↑
SGN-U227495 | Splicing factor 3B subunit, putative |  |  | OV | ↑
SGN-U227770 | ABO1, transcription elongation regulator |  |  | KO |  |  |  |  |  | ↑ |  | ABO1/ELO2 play a role in ABA response and anothyanin production/ABA is downregulated in [NAME] mutant |  | [NAME] 2009, [NAME] 2006, López-Carbonell 2004
SGN-U231725 | Ubiquitin-conjugating enzyme [NAME], putative (FUS9) |  |  | OV |  |  |  |  | ↑ |  |  | FUS9 invoved in light signaling/manipulation of light signaling modulates phytonutrient content in tomato fruits | [NAME] | Azari 2010
SGN-U240026 | Auxin response factor 8 |  |  | KO |  | ↓ | ↑ |  |  |  |  | [NAME] has a role in modulating fruit initiation/mutant genomic Atarf8-4increase in parthenocarpic fruit initiation, fruit size, and weight | [NAME] | Goetz 2007
X59948 | Phytoene dehydrogenase, chloroplastic/chromoplastic |  |  | OV |  | ↑ |  | ↑ |  | ↓ | OV PDS/crt in fruit reduce total carotene but increases b-carotene | Arabidopsis KO results in impaired sugar and TCA metabolism in addition to carotene, chlorphyl and GA biosynthesis | tomato, Arabidopsis | Römer 2000, Quin 2007
↑ | Perturbation that maximizes fitness
↓ | Perturbation that minimizes fitness
OV | Gene over-expressed
KO | Gene knockout