Plant Transcription factor database - Universität Potsdam
version: 3.0

Populus trichocarpa AP2-EREBP Family

Description

Riechmann & Meyerowitz. 1998: AP2 (APETALA2) and EREBPs (ethylene-responsive element binding proteins) are the prototypic members of a family of transcription factors unique to plants, whose distinguishing characteristic is that they contain the so-called AP2 DNA-binding domain. AP2/ REBP genes form a large multigene family, and they play a variety of roles throughout the plant life cycle: from being key regulators of several developmental processes, like floral organ identity determination or control of leaf epidermal cell identity, to forming part of the mechanisms used by plants to respond to various types of biotic and environmental stress.

Shigyo et al. 2006: AP2/EREBP genes are divided into two subfamilies: AP2 genes with two AP2 domains and EREBP genes with a single AP2/ERF (Ethylene Responsive Element Binding Factor) domain. Expressions of AP2-like genes, including AP2, in Arabidopsis thaliana are regulated by the microRNA miR172. We found that the target site of miR172 is significantly conserved in gymnosperm AP2 homologs, suggesting that regulatory mechanisms of gene expression using microRNA have been conserved over the three hundred million years since the divergence of gymnosperm and flowering plant lineages.

Members of this family
  SHOULD possess AP2 domain

Domain alignments

Benchmark against A. thaliana

The Sensitivity and Positive Predictive Value (PPV) were assessed for this family. The data reported by Feng et al. 2005 for A. thaliana were taken as gold standard.

The gold standard reported 147 members for this family, 146 of which are present in ArabTFDB, giving a PPV of 1.00. One additional member not present in ArabTFDB might be a false negative, giving a Sensitivity of 0.99.

This family is also present in:

References

There are 210 gene models in this family



Gene modelDescriptionDomains
171553 gw1.I.153.1 AP2
171731 gw1.I.331.1 AP2
177832 gw1.I.6432.1 AP2
178189 gw1.I.6789.1 AP2
178666 gw1.I.7266.1 AP2
179642 gw1.I.8242.1 AP2
179649 gw1.I.8249.1 AP2
180077 gw1.I.8677.1 AP2
180565 gw1.I.9165.1 AP2
197820 gw1.IV.2909.1 AP2
197824 gw1.IV.2913.1 AP2
200253 gw1.IX.718.1 AP2
205794 gw1.V.1195.1 AP2
205798 gw1.V.1199.1 AP2
205804 gw1.V.1205.1 AP2
206143 gw1.V.1544.1 AP2
207481 gw1.V.2882.1 AP2
207779 gw1.V.3180.1 AP2
208660 gw1.V.4061.1 AP2
209017 gw1.V.4418.1 AP2
209562 gw1.V.4963.1 AP2
215770 gw1.VII.75.1 AP2
217574 gw1.VII.1879.1 AP2
217986 gw1.VII.2291.1 AP2
218597 gw1.VII.2902.1 AP2
218695 gw1.VII.3000.1 AP2
219670 gw1.VII.3975.1 AP2
226826 gw1.X.1523.1 AP2
227804 gw1.X.2501.1 AP2
228581 gw1.X.3278.1 AP2
230769 gw1.X.5466.1 AP2
230771 gw1.X.5468.1 AP2
231362 gw1.X.6059.1 AP2
241727 gw1.XIII.1976.1 AP2
243139 gw1.XIII.3388.1 AP2
243765 gw1.XIV.508.1 AP2
244824 gw1.XIV.1567.1 AP2
245702 gw1.XIV.2445.1 AP2
249411 gw1.XIX.1811.1 AP2
249447 gw1.XIX.1847.1 AP2
253714 gw1.XV.3150.1 AP2
253716 gw1.XV.3152.1 AP2
254888 gw1.XVI.827.1 AP2
255858 gw1.XVI.1797.1 AP2
256716 gw1.XVI.2655.1 AP2
258515 gw1.XVII.506.1 AP2
258954 gw1.XVII.945.1 AP2
259680 gw1.XVIII.221.1 AP2
260553 gw1.XVIII.1094.1 AP2
260641 gw1.XVIII.1182.1 AP2
261058 gw1.XVIII.1599.1 AP2
261257 gw1.XVIII.1798.1 AP2
262000 gw1.XVIII.2541.1 AP2
262197 gw1.XVIII.2738.1 AP2
262551 gw1.XVIII.3092.1 AP2
262733 gw1.XVIII.3274.1 AP2 B3
264490 gw1.1174.1.1 AP2
265163 gw1.120.106.1 AP2
265391 gw1.121.61.1 AP2
266743 gw1.125.100.1 AP2
267855 gw1.130.177.1 AP2
268382 gw1.132.12.1 AP2
273372 gw1.1574.2.1 AP2
273558 gw1.158.150.1 AP2
275055 gw1.16917.1.1 AP2
276855 gw1.187.90.1 AP2
277487 gw1.197.36.1 AP2
278810 gw1.211.34.1 AP2
280949 gw1.263.10.1 AP2
281841 gw1.28.415.1 AP2
286208 gw1.399.10.1 AP2
286374 gw1.40.134.1 AP2
286557 gw1.40.317.1 AP2
288109 gw1.41.594.1 AP2
288146 gw1.41.631.1 AP2
291887 gw1.5929.2.1 AP2
293390 gw1.66.63.1 AP2
294403 gw1.6854.2.1 AP2
409486 gw1.II.821.1 AP2
410394 gw1.II.1729.1 AP2
411187 gw1.II.2522.1 AP2
411265 gw1.II.2600.1 AP2
411928 gw1.II.3263.1 AP2
412442 gw1.II.3777.1 AP2
412806 gw1.II.4141.1 AP2
413786 gw1.III.889.1 AP2
413837 gw1.III.940.1 AP2
413969 gw1.III.1072.1 AP2
414492 gw1.III.1595.1 AP2
415120 gw1.III.2223.1 AP2
415164 gw1.III.2267.1 AP2
415757 gw1.VI.130.1 AP2
416034 gw1.VI.407.1 AP2
416870 gw1.VI.1243.1 AP2
416908 gw1.VI.1281.1 AP2
417238 gw1.VI.1611.1 AP2
417473 gw1.VI.1846.1 AP2
419503 gw1.VIII.931.1 AP2
419725 gw1.VIII.1153.1 AP2 B3
419786 gw1.VIII.1214.1 AP2
420209 gw1.VIII.1637.1 AP2
421829 gw1.XII.289.1 AP2
422284 gw1.XII.744.1 AP2
423519 gw1.29.31.1 AP2
548122 eugene3.00010563 AP2
548217 eugene3.00010658 AP2
548517 eugene3.00010958 AP2
548519 eugene3.00010960 AP2
549823 eugene3.00012264 AP2
549837 eugene3.00012278 AP2
550491 eugene3.00012932 AP2
552112 eugene3.00021427 AP2
553203 eugene3.00002518 AP2
554668 eugene3.00031301 AP2
554686 eugene3.00031319 AP2
555275 eugene3.00031908 AP2 B3
555768 eugene3.00040481 AP2
557385 eugene3.00090645 AP2
558888 eugene3.00050503 AP2
559652 eugene3.00051267 AP2
561893 eugene3.00061852 AP2
561963 eugene3.00061922 AP2
564082 eugene3.00080677 AP2
564254 eugene3.00080849 AP2
566667 eugene3.00101225 AP2 B3
567214 eugene3.00101772 AP2
569239 eugene3.00111253 AP2
570520 eugene3.00121173 AP2
571083 eugene3.00130447 AP2
574198 eugene3.00190672 AP2
577059 eugene3.00161194 AP2
579433 eugene3.01070019 AP2
586074 eugene3.01870024 AP2
588763 eugene3.02630001 AP2
589320 eugene3.00280056 AP2
589322 eugene3.00280058 AP2
591781 eugene3.00400126 AP2
592505 eugene3.43200001 AP2
596463 eugene3.00820052 AP2
643046 grail3.0003024401 AP2
643200 grail3.0003036101 AP2
643452 grail3.0003056501 AP2
643641 grail3.0003072701 AP2
644094 grail3.0033010401 AP2
644595 grail3.0039017801 AP2
651392 grail3.0002011201 AP2
652926 grail3.0023013601 AP2
654211 grail3.0013045201 AP2
655117 grail3.0019003502 AP2
656279 grail3.0010003701 AP2
656810 grail3.0010049101 AP2
657483 grail3.0009034701 AP2
658268 grail3.0036021001 AP2
660903 grail3.0014007501 AP2
665280 grail3.0085001801 AP2
668371 grail3.0078005801 AP2
674314 grail3.0187001701 AP2
677693 grail3.0040009501 AP2
707534 estExt_Genewise1_v1.C_LG_I4397 AP2
710290 estExt_Genewise1_v1.C_LG_II1285 AP2
712047 estExt_Genewise1_v1.C_LG_III1021 AP2
718207 estExt_Genewise1_v1.C_LG_VII0556 AP2
725612 estExt_Genewise1_v1.C_LG_X3745 AP2
731365 estExt_Genewise1_v1.C_LG_XIV1736 AP2
739204 estExt_Genewise1_v1.C_280192 AP2
742348 estExt_Genewise1_v1.C_770152 AP2
747254 estExt_Genewise1_v1.C_3990003 AP2
750979 fgenesh4_pg.C_LG_I000582 AP2
751217 fgenesh4_pg.C_LG_I000820 AP2
751450 fgenesh4_pg.C_LG_I001053 AP2
756846 fgenesh4_pg.C_LG_III000388 AP2
757449 fgenesh4_pg.C_LG_III000991 AP2
757599 fgenesh4_pg.C_LG_III001141 AP2
757624 fgenesh4_pg.C_LG_III001166 AP2
758079 fgenesh4_pg.C_LG_III001621 AP2
758297 fgenesh4_pg.C_LG_III001839 AP2
761071 fgenesh4_pg.C_LG_V001123 AP2
762542 fgenesh4_pg.C_LG_VI000852 AP2
762896 fgenesh4_pg.C_LG_VI001206 AP2 B3
769656 fgenesh4_pg.C_LG_X001146 AP2
769982 fgenesh4_pg.C_LG_X001472 AP2
770189 fgenesh4_pg.C_LG_X001679 AP2
773425 fgenesh4_pg.C_LG_XII001200 AP2
774307 fgenesh4_pg.C_LG_XIV000217 AP2
777169 fgenesh4_pg.C_LG_XVI000411 AP2
778552 fgenesh4_pg.C_LG_XVII000431 AP2
778936 fgenesh4_pg.C_LG_XVIII000304 AP2
780671 fgenesh4_pg.C_LG_XIX000810 AP2
781377 fgenesh4_pg.C_scaffold_40000127 AP2
781921 fgenesh4_pg.C_scaffold_44000051 AP2
784302 fgenesh4_pg.C_scaffold_124000070 AP2
790127 fgenesh4_pg.C_scaffold_986000001 AP2
792925 fgenesh4_pg.C_scaffold_5164000001 AP2
796296 fgenesh4_pg.C_scaffold_29000054 AP2
797143 fgenesh4_pm.C_LG_I000146 AP2
798748 fgenesh4_pm.C_LG_II000437 AP2
799725 fgenesh4_pm.C_LG_III000190 AP2
800158 fgenesh4_pm.C_LG_III000623 AP2
800184 fgenesh4_pm.C_LG_III000649 AP2
802287 fgenesh4_pm.C_LG_VI000634 AP2
804955 fgenesh4_pm.C_LG_X000261 AP2
807179 fgenesh4_pm.C_LG_XIII000479 AP2
809543 fgenesh4_pm.C_LG_XIX000108 AP2
809721 fgenesh4_pm.C_LG_XIX000286 AP2
810146 fgenesh4_pm.C_scaffold_41000071 AP2
816091 estExt_fgenesh4_pg.C_LG_II0361 AP2
817844 estExt_fgenesh4_pg.C_LG_IV0491 AP2
826816 estExt_fgenesh4_pg.C_400321 AP2
836655 estExt_fgenesh4_pm.C_640068 AP2
837055 estExt_fgenesh4_pm.C_1240032 AP2

General references

Gutterson, N; Reuber, TL. 2004. Regulation of disease resistance pathways by AP2/ERF transcription factors. Curr. Opin. Plant Biol. 7(4):465-71 PUBMEDID:15231271
Liu, Y; Zhao, TJ; Liu, JM; Liu, WQ; Liu, Q; Yan, YB; Zhou, HM. 2006. The conserved Ala37 in the ERF/AP2 domain is essential for binding with the DRE element and the GCC box. FEBS Lett. 580(5):1303-8 PUBMEDID:16457823
Magnani, E; Sjölander, K; Hake, S. 2004. From endonucleases to transcription factors: evolution of the AP2 DNA binding domain in plants. Plant Cell 16(9):2265-77 PUBMEDID:15319480
Ohme-Takagi, M; Shinshi, H. 1995. Ethylene-inducible DNA binding proteins that interact with an ethylene-responsive element. Plant Cell 7(2):173-82 PUBMEDID:7756828
Riechmann, JL; Meyerowitz, EM. 1998. The AP2/EREBP family of plant transcription factors. Biol. Chem. 379(6):633-46 PUBMEDID:9687012
Shigyo, M; Hasebe, M; Ito, M. 2006. Molecular evolution of the AP2 subfamily. Gene 366(2):256-65 PUBMEDID:16388920
Shigyo, M; Ito, M. 2004. Analysis of gymnosperm two-AP2-domain-containing genes. Dev. Genes Evol. 214(3):105-14 PUBMEDID:14986134
Weigel, D. 1995. The APETALA2 domain is related to a novel type of DNA binding domain. Plant Cell 7(4):388-9 PUBMEDID:7773013

Specific references

Zhuang J, Cai B, Peng RH, Zhu B, Jin XF, Xue Y, Gao F, Fu XY, Tian YS, Zhao W, Qiao YS, Zhang Z, Xiong AS, Yao QH.. 2008. Genome-wide analysis of the AP2/ERF gene family in Populus trichocarpa. Biochem Biophys Res Commun. 371(3):468-74 PUBMEDID:18442469