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. 2016 Mar 16;11(3):e0149287. doi: 10.1371/journal.pone.0149287

Table 4. Some important DEGs involved in spike differentiation.

Functional class DEG ID Log2 (T4/T2) Gene ID**, annotation (SwissProt or TrEMBL annotation) Putative function or biological processe (GO annotation)
Cellular component T2-53412 -2.49 sp|Q6K602|; Protein Ruptured Pollen Grain 1 pollen development; anther dehiscence
T4-20296* 2.35 sp|Q652A8|; UDP-glucose 4-epimerase 3 pollen development; root epidermal cell differentiation
T2-39457 -3.7 sp|Q08000|; EM3_WHEAT, Em protein H2; Em-D1 regulation of flower development; vegetative to reproductive phase transition of meristem
Energy production and conversion T3-37606 1.96 sp|A2YIW7|; Thioredoxin H-type cell wall
Replication, recombination and repair T4-58706* 4.58 sp|Q92372|; Replication factor A protein 1 Replication, recombination and repair
Transcription T2-47003* 1.84 sp|Q94BN0|; BTB/POZ and TAZ domain-containing protein 2 pollen development; system development
T2-47331* -4.43 sp|Q5ZMJ9|; Serine/arginine repetitive matrix protein 1 RNA processing; nuclear part
T4-42005 -3.58 sp|Q9T0K5|; Leucine-rich repeat extensin-like protein 3 developmental process involved in reproduction
T1-64651 -3.09 sp|Q10QF2|; Homeobox-leucine zipper protein HOX12 root development
T2-16245 14.36 sp|Q6ZQP7|; Uncharacterized protein LOC284861 RNA processing; transport; nuclear part
Translation, ribosomal structure and biogenesis T3-10313 1.21 sp|Q945F4|; Eukaryotic translation initiation factor 5A-2 translation initiation factor activity
T4-61340 1.07 sp|Q9FN11|; LOB domain-containing protein 37 simple leaf morphogenesis
T2-41011* -14.49 sp|Q9FR37|; Amidase 1 leaf morphogenesis; cell differentiation
Posttranslational modification T1-38135* 1.38 sp|Q0J4P2|; Heat shock protein 81–1 flower development; leaf development
T4-55787 -1.11 sp|P27484|; Glycine-rich protein 2 stamen development
T1-59183 -2.08 sp|Q5Z5B2|; Protein argonaute 1D flower morphogenesis
Amino acid transport and metabolism T3-2970 2.1 sp|Q8GT75|; NEP1-interacting protein1 stamen development
T2-50731 -14.87 sp|P31862|; Bowman-Birk type wound-induced proteinase inhibitor WIP1; wali5 serine-type endopeptidase inhibitor activity;
Signal transduction mechanisms T1-59554 -2.98 sp|Q9SPK4|; Phosphoenolpyruvate carboxylase kinase 1 regulation of pollen tube growth
T3-13958 -1.62 sp|Q39030|; Serine/threonine-protein kinase AtPK2/AtPK19 negative regulation of cell proliferation; positive regulation of cell growth
T1-56016* -5.17 sp|A2X7U1|; Homeobox-leucine zipper protein HOX24 transcription regulatory region sequence-specific DNA binding; regulation of transcription
Response to out stimulus T4-918 4.7 sp|P14928|; cold acclimation protein WCOR615; ABA-inducible protein PHV A1 organic cyclic compound binding
T3-66375 -1.32 sp|Q948Z4|; gibberellin stimulated transcript (GAST1) cell proliferation
Cell cycle control, cell division, chromosome partitioning T2-46647 1.35 sp|P42736|; Ethylene-responsive transcription factor RAP2-3 organ senescence
T1-47968* 1.22 sp|O02414|; Dynein light chain LC6, flagellar outer arm pollen tube growth
T4-51695 1.27 sp|O02414|; Dynein light chain LC6, flagellar outer arm pollen tube growth; regulation of cell proliferation
T2-40114 1.29 sp|Q759T0|; Dynein light chain LC6, flagellar outer arm root hair cell development
Carbohydrate transport and metabolism T4-57047 3 sp|Q9SDL8|; Fructose-1,6-bisphosphatase, cytosolic negative regulation of cell growth
T4-52638* 14.14 sp|Q7XUR3|; Putative alpha-L-fucosidase 1 monooxygenase activity; oxidation-reduction process
T1-71202* -1.01 sp|Q0WUI9|; trehalose-6-phosphate synthase 2 specification of floral organ identity; carpel development; meristem development
T3-5013 2.19 sp|Q2UXF7|; 6FEH_WHEAT, Fructan 6-exohydrolase sucrose alpha-glucosidase activity; cell wall
Inorganic ion transport and metabolism T2-43231 -3.27 sp|Q67YC0|; Inorganic pyrophosphatase 1 organ development
General function T1-49256* -5.36 sp|P20186|; Uncharacterized 35.5 kDa protein in Tn4556; LEA protein 12 (LEA12) alcohol dehydrogenase (NAD) activity; response to salt stress; response to hypoxia; response to stress
T2-35350 -3.73 sp|Q42980|; Oleosin 16 kDa vegetative to reproductive phase transition of meristem; regulation of flower development
T4-55876 1.36 sp|Q8BTI8|; Serine/arginine repetitive matrix protein 2 protein binding; vegetative phase change
Unknown T2-14438* 4.86 tr|R7W5L8|; hypothetical protein F775_20975 (A. tauschii)
T3-33825 4.32 tr|F2CYY9|; Predicted protein SNP on chromosome 3B

T2: gene nubmer of spikes on D, T4 gene number of spikes on T.

* Genes whose spatio-temporal expression profile was analyzed by real time QTR-PCR (Figs 7 and 8).

** The accession number with ‘sp’ is that of database SwissProt, with ‘tr’ is that of TrEMBL