Table 4.
Identification and analysis of PRP genes in Populus trichocarpa
| Locus Identifier 3.0 (ID 2.0)a | Name | Class | % PVKCYT | PPV/PPLP/PELPK Repeats | Amino Acids | Pfamb | SPc | GPI | Organ/issue - Specific Expressiond | Arabidopsis HRGP BLAST Hits | Poplar HRGP BLAST Hitse |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Potri.004G168600 (POPTR 0004 s17590) | PtPRP1 | PRP | 64 % | 24/8/0 | 554 | PF01190.15 | Y | N | Dark etiolated seedlings | AtPRP2, AtPRP1, AtPRP11 | PtPRP6, PtPRP32, PtPRP33, PtPRP143, Potri.016G006200 |
| Potri.016G015500 (POPTR_0016s01720) | PtPRP2 | PRP | 70 % | 13/0/0 | 449 | PF14547.4 | Y | N | Dark and +3 h light etiolated seedlings | AtPRP18, AtPEX4 | Potri.012G076700, Potri.015G071500, Potri.019G083900, Potri.T155100, Potri.005G239100 |
| Potri.014G126200 (POPTR 0014 s12100) | PtPRP3 | PRP | 51 % | 0/0/0 | 372 | PF01190.15 | Y | N | AtPRP9, AtPRP10 | PtPRP24, PtPRP22, PtPRP28, PtPRP26, PtPRP21 | |
| Potri.014G126500 (POPTR_0014s12120) | PtPRP4 | PRP | 52 % | 0/0/0 | 366 | PF01190.15 | Y | N | AtPRP7, AtPRP3, AtPRP1, AtAGP30I, AtAGP31I | PtPRP35, PtPRP3, PtPRP4, Potri.014G126300, PtPRP39 | |
| Potri.018G126000 (POPTR 0018 s12630) | PtPRP5 | PRP | 62 % | 15/9/0 | 310 | PF14547.4 | Y* | N | AtPRP9, AtPRP10, AtPERK15 | PtPRP44, PtPRP42, PtPRP41, PtPRP43, Potri.011G060200 | |
| Potri.009G129900 (POPTR 0009 s13250) | PtPRP6 | PRP | 48 % | 2/1/0 | 283 | PF01190.15 | Y* | N | AtPRP9, AtPRP10, AtPRP1 | Potri.019G082700, PtPRP21, PtPRP26, PtPRP18, PtPRP28 | |
| Potri.003G111300 (POPTR 0003 s11060) | PtPRP7 | PRP | 46 % | 4/1/0 | 234 | PF14547.4 | Y* | N | Male catkins | AtPRP9, AtPRP10, AtPRP15 | PtPRP27, PtPRP30, PtPRP21, PtPRP26, PtPRP22 |
| Potri.006G008300 | PtPRP8 | PRP | 59 % | 8/0/0 | 234 | PF14547.4 | Y | N | AtPRP9, AtPRP10 | PtPRP49, PtPRP26, PtPRP22, PtPRP23, PtPRP24 | |
| Potri.T162800 (POPTR 0006 s01030) | PtPRP9 | PRP | 50 % | 2/0/0 | 216 | PF14547.4 | Y | N | AtPRP9, AtPRP10 | PtPRP48, PtPRP26, PtPRP22, PtPRP28, PtPRP23 | |
| Potri.006G008600 | PtPRP10 | PRP | 53 % | 4/0/0 | 214 | PF14547.4 | Y | N | Young leaf | AtPRP16, AtPRP14, AtPRP17, AtPRP15, AtHAE4 | PtPRP15, PtPRP13, PtPRP5, PtPRP11, Potri.018G025900 |
| Potri. 002G201800 (POPTR 0002 s20290) | PtPRP34 | PRP | 37 % | 0/0/0 | 213 | PF01190.15 | Y | N | Young leaf, male catkins | AtPRP9, AtPRP10 | PtPRP22, PtPRP23, PtPRP26, PtPRP24, PtPRP29 |
| Potri. 017G145800 (POPTR 0017 s01230) | PtPRP35 | PRP | 42 % | 0/0/0 | 272 | PF01190.15 | Y | N | AtPRP9, AtPRP10 | PtPRP22, PtPRP26, PtPRP21, PtPRP23, PtPRP24 | |
| Potri. 001G060500 (POPTR_0001s13450) | PtPRP38 | PRP | 39 % | 0/7/0 | 332 | PF01190.15 | Y | N | Dark and +3 h light etiolated seedlings | AtPRP11, AtAGP31I, AtPRP1 | PtPRP33, PtPRP36, Potri.001G326200, Potri.017G068400, PtPRP38 |
| Potri. 003G167100 (POPTR_0003s16550) | PtPRP40 | PRP | 39 % | 0/2/0 | 299 | PF01190.15 | Y | N | Female catkins | AtPRP7, AtPRP1, AtPRP3, AtAGP30I, AtAGP31I | PtPRP34, PtPRP4, PtPRP3, Potri.014G126300, PtPRP39 |
| Potri.007G114400 | PtPRP44 | PRP | 43 % | 0/1/10 | 275 | Y | N | Roots | AtPRP7, AtPRP3, AtPRP1, AtAGP30I, AtAGP31I | PtPRP34, PtPRP35, PtPRP4, PtPRP3, Potri.014G126300 | |
| Potri. 013 G111600 (POPTR 0013 s11600) | PtPRP46 | PRP | 39 % | 0/4/0 | 216 | Y | N | AtPRP9, AtPRP10, AtPERK5 | PtPRP45, PtPRP44, PtPRP42, PtPRP43, PtPRP28 | ||
| Potri.006G065500 (POPTR 0006 s06430) | PtPRP11 | PR Peptide | 56 % | 5/2/0 | 198 | PF14547.4 | Y | N | Dark and +3 h light etiolated seedlings | AtPRP7, AtPRP3, AtPRP1, AtAGP30I, AtPRP9 | PtPRP4, PossiblePtPRP6, Potri.002G201700, PtPRP34, PtPRP35 |
| Potri.001G350600 (POPTR_0001s34750) | PtPRP12 | PR Peptide | 63 % | 6/0/0 | 191 | PF02704.12 | Y | N | AtPRP7, AtPRP3, AtPRP1, AtPRP9, AtAGP30I | PtPRP3, PossiblePtPRP6, Potri.002G201700, PtPRP34, PtPRP35 | |
| Potri.T162900 (POPTR_0006s01020) | PtPRP13 | PR Peptide | 52 % | 4/0/0 | 184 | PF14547.4 | Y | N | Young leaf | AtPRP15, AtPRP14, AtPRP17, AtPRP2, AtPRP1 | PtPRP11, PtPRP7, PtPRP13, PtPRP15, PtPRP8 |
| Potri.010G072200 (POPTR 0010 s08290) | PtPRP14 | PR Peptide | 50 % | 6/0/0 | 179 | PF02095.13 | Y | N | Mature leaf | AtPRP2, AtPRP4, AtPRP11 | PtPRP1.8, PtPRP32, PtPRP33, PtPRP36, Potri.005G041400 |
| Potri.006G008500 | PtPRP15 | PR Peptide | 53 % | 4/0/0 | 179 | PF14547.4 | Y | N | Roots | AtPRP14, AtPRP15, AtPRP16, AtPRP17 | PtPRP11, PtPRP5, PtPRP2, PtPRP13, PtPRP15 |
| Potri.007G113900 (POPTR_0007s03420) | PtPRP16 | PR Peptide | 47 % | 0/4/0 | 130 | Y | N | AtPRP16, AtPRP17, AtPRP15, AtPRP14, AtHAE4 | PtPRP15, PtPRP13, PtPRP9, PtPRP2, PtPRP11 | ||
| Potri.007G114100 (POPTR_0007s03400) | PtPRP17 | PR Peptide | 46 % | 0/3/0 | 119 | Y | N | AtPRP16, AtPRP17, AtPRP14, AtPRP15, AtHAE4 | PtPRP10, PtPRP13, PtPRP8, PtPRP2, PtPRP11 | ||
| Potri.007G113700 (POPTR_0007s03440) | PtPRP18 | PR Peptide | 47 % | 0/4/0 | 119 | Y | N | AtPRP16, AtPRP17, AtPRP14, AtPRP15, AtAGP30I | PtPRP9, PtPRP13, PtPRP8, PtPRP2, PtPRP15 | ||
| Potri.017G047400 (POPTR_0017s07470) | PtPRP19 | PR Peptide | 46 % | 0/3/0 | 113 | Y | N | Dark etiolated seedlings, light-grown seedling | AtPRP15, AtPRP14, AtPRP17, AtPRP2 | PtPRP5, PtPRP7, PtPRP13, PtPRP15, PtPRP8 | |
| Potri.019G082600 (POPTR_0019s11220) | PtPRP20 | PR Peptide | 45 % | 0/4/0 | 112 | Y | N | light-grown seedling | AtPRP16, AtPRP17, AtPRP14, AtPRP15, AtHAE4, | PtPRP15, PtPRP8, PtPRP10, PtPRP9, PtPRP11 | |
| Potri.017G047200 (POPTR_0017s07450) | PtPRP21 | PR Peptide | 43 % | 0/3/0 | 130 | Y | N | Young leaf, male catkins | AtPRP1, AtPRP2, AtPEX4 | Potri.004G110100, Potri.010G211100, Potri.004G109000, Potri.T018900, Potri.004G109900 | |
| Potri.017G045800 (POPTR_0017 s07310) | PtPRP22 | PR Peptide | 43 % | 0/3/0 | 116 | Y | N | AtPRP16, AtPRP17, AtPRP14, AtPRP15, AtHAE4, AtPERK5 | PtPRP13, PtPRP10, PtPRP2, PtPRP9, PtPRP11 | ||
| Potri.017G046700 (POPTR 0017 s07400) | PtPRP23 | PR Peptide | 40 % | 0/3/0 | 116 | Y | N | AtPRP9, AtPRP10, AtPRP15 | PtPRP21, PtPRP26, PtPRP31, Potri.017G046800, PtPRP27 | ||
| Potri.017G046400 (POPTR 0017 s07370) | PtPRP24 | PR Peptide | 43 % | 0/3/0 | 116 | Y | N | Roots | AtPRP9, AtPRP10 | PtPRP21, PtPRP30, PtPRP27, Potri.017G046800, PtPRP18 | |
| Potri.017G045900 (POPTR 0017 s07320) | PtPRP25 | PR Peptide | 43 % | 0/3/0 | 116 | Y | N | AtPRP9, AtPRP10, AtPRP15 | PtPRP19, PtPRP21, PtPRP27, PtPRP30, Potri.017G046800 | ||
| Potri.017G047000 (POPTR_0017 s07430) | PtPRP26 | PR Peptide | 42 % | 0/3/0 | 116 | Y | N | AtPRP9, AtPRP10 | PtPRP18, PtPRP21, Potri.017G046800, PtPRP27, PtPRP30 | ||
| Potri.017G047100 | PtPRP27 | PR Peptide | 44 % | 0/4/0 | 134 | Y | N | Female catkins | AtPRP9, AtPRP10, AtPRP15 | PtPRP21, PtPRP18, PtPRP26, PtPRP37, PtPRP19 | |
| Potri.017G045600 (POPTR 0017 s07290) | PtPRP28 | PR Peptide | 44 % | 0/3/0 | 126 | Y | N | Roots | AtPRP9, AtPRP10 | PtPRP30, Potri.017G046800, PtPRP27, PtPRP18, PtPRP17 | |
| Potri.017G046100 (POPTR 0017 s07340) | PtPRP29 | PR Peptide | 42 % | 0/3/0 | 116 | Y | N | AtPRP9, AtPRP10 | PtPRP26, PtPRP25, PtPRP24, PtPRP23, PtPRP29 | ||
| Potri.T178800 (POPTR 2000 s00200) | PtPRP30 | PR Peptide | 42 % | 0/4/0 | 135 | Y | N | Xylem | AtPRP9, AtPRP10 | PtPRP22, PtPRP23, PtPRP26, PtPRP21, PtPRP28 | |
| Potri.007G114200 (POPTR 0007 s03390) | PtPRP31 | PR Peptide | 44 % | 0/4/0 | 121 | Y | N | AtPRP9, AtPRP10 | PtPRP22, PtPRP26, PtPRP21, PtPRP23, PtPRP28 | ||
| Potri. 017G045000 | PtPRP37 | PR Peptide | 40 % | 0/3/0 | 105 | Y | N | Roots | AtPRP9, AtPRP10, AtPRP15 | PtPRP16, PtPRP21, PtPRP26, Potri.017G046800, PtPRP27 | |
| Potri. 002G201900 (POPTR_0002s20300) | PtPRP39 | PR Peptide | 33 % | 0/0/0 | 179 | PF01190.15 | Y | N | AtPRP11, AtAGP31I, AtPRP1 | PtPRP32, PtPRP36, Potri.001G326200, Potri.017G068400, PtPRP38 | |
| Potri. 017G044800 (POPTR_0017s07230) | PtPRP41 | PR Peptide | 34 % | 0/1/3 | 112 | Y | N | Young leaf, male catkins | AtPRP11, AtPRP1, AtAGP31I, AtPRP2 | PtPRP32, Potri .001G326200, Potri.017G068400, PtPRP38, PtPRP40 | |
| Potri. 017G044900 | PtPRP42 | PR Peptide | 39 % | 0/0/5 | 109 | Y | N | AtPRP9, AtPRP10 | PtPRP26, PtPRP21, PtPRP22, PtPRP28, PtPRP23 | ||
| Potri. 018G146200 | PtPRP43 | PR Peptide | 42 % | 0/1/2 | 114 | Y | N | Young leaf | AtPRP9 | PtPRP40, Potri.017G068400, Potri.001G326200, PtPRP32, PtPRP33 | |
| Potri.007G114700 (P0PTR_0007s03340) | PtPRP45 | PR Peptide | 38 % | 0/0/4 | 107 | Y | N | AtPRP11 | PtPRP38, Potri.017G068400, Potri.001G326200, PtPRP33, PtPRP32 | ||
| Potri. 017G046800 (POPTR 0017 s07440) | PtPRP47 | PR Peptide | 41 % | 0/5/0 | 174 | Y* | N | AtPRP9, AtPRP10, AtPEX2 | PtPRP45, PtPRP44, PtPRP43, PtPRP41, PtPRP18 | ||
| Potri. 017G045700 (POPTR 0017 s07300) | PtPRP48 | PR Peptide | 38 % | 0/2/0 | 97 | Y | N | AtPRP9, AtPRP10 | PtPRP44, PtPRP45, PtPRP42, PtPRP41, PtPRP37 | ||
| Potri. 017G046500 (POPTR 0017 s07380) | PtPRP49 | PR Peptide | 38 % | 0/3/0 | 97 | Y* | N | AtPRP10, AtPRP9, AtPEX2 | PtPRP45, PtPRP43, PtPRP42, PtPRP41, Potri.017G052100 | ||
| Potri. 004G114300 (POPTR 0004 s11300) | PtPRP32I | Chimeric | 41 % | 2/5/0 | 319 | PF01190.15 | Y | N | AtPRP9, AtPRP10 | PtPRP22, PtPRP21, PtPRP23, PtPRP28, PtPRP24 | |
| Potri. 004G114400 | PtPRP33I | Chimeric | 41 % | 0/6/0 | 365 | PF01190.15 | Y | N | AtPRP9, AtPRP10 | PtPRP30, Potri.017G046800, PtPRP21, PtPRP17, PtPRP18 | |
| Potri. 017G100600 (POPTR_0017s13490) | PtPRP36I | Chimeric | 43 % | 0/5/0 | 410 | PF01190.15 | Y | N | AtPRP9, AtPRP10 | PtPRP27, PtPRP21, Potri.017G046800, PtPRP17, PtPRP18 |
a Protein identifiers of the version 2.0 are shown in the parenthesis. Italics indicates a protein that was identified only by a BLAST search
b The domains indicated by the Pfam number are: PF01190.15, Pollen_Ole_e_I domain (Pollen proteins Ole e I like); PF14547.4, Hydrophob_seed domain (Hydrophobic seed protein); PF02704.12, GASA domain (Gibberellin regulated protein); PF02095.13, Extensin_1 domain (Extensin-like protein repeat)
c Asterisk indicates a protein that is predicted to have a signal peptide either using the sensitive mode in the SignalP website or only if amino acids at the N terminus are discarded
d Expression data are shown only when available at http://bar.utoronto.ca/efppop/cgi-bin/efpWeb.cgi
e A locus ID indicates that it is not identified as an HRGP