Supporting Information Figs S1 S7
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- Lester Osborne
- 5 years ago
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1 Poptr 2s 4CL7 EucgrF33 Supporting Information Figs S S7 Os4g5 Poptr 5s4 4CL6 4CL i GSVIVG6 Arath AT5G633 AT4CL-like8 i GSVIVG Poptr 2s 4CL5 Poptr s 4CL4 i GSVIVG EucgrB38 Poptr 7s2 4CL2 i GSVIVG EucgrB Osg6 Os7g Os8g Os6g Panvi gi 23 4CL Os2g8 Arath ATG AT4CL Arath AT3G AT4CL2 Arath AT3G2 AT4CL4 Arath ATG2 AT4CL-like3 Osg Poptr 6s 4CL Poptr 8s 4CL2 Eucgl gi 83 i GSVIVG2 C4H EucgrC84_Egr4CL 4CL Poptr 3s2 4CL5 Arath ATG2 AT4CL-like2 Poptr s7 4CL3 Petrc gi 2 4CL2 Petrc gi 2 4CL Nicta gi 232 4CL2 Arath AT5G382 AT4CL-like9 Nicta gi 23 4CL 8 Arath ATG2 AT4CL-like4 Pinta gi 8 Pinpi gi 29 Arath ATG2 AT4CL-like Arath ATG66 AT4CL Poptr 5s2 4CL7 Poptr 2s 4CL8 i GSVIVG i GSVIVG Poptr s2 4CL3 Os8g347 Os2g4 Panvi gi 3 4CL2 i GSVIVG EucgrK_Egr4CL2 Poptr 9s 4CL4 C4H I EucgrG28 EucgrG29 65 Os8g47 Osg Os3g Arath AT4G AT4CL-like6 EucgrD Poptr 3s 4CL9 i GSVIVG5 EucgrK i GSVIVG3 i GSVIVG3 EucgrK29 EucgrB43 EucgrB Arath AT4G6 AT4CL-like7 Poptr 7s38 4CL Poptr 4s 4CL EucgrB32 i GSVIVG Poptr s 4CL6 Arath ATG9 AT4CL-like5 Os4g2 4CL I Supplementary Figure S Unrooted protein phylogenetic tree of the 4CL (4-coumarate:CoA ligase) multigene family Large comparative phylogenetic analysis generated for the two Egr4CL proteins, eleven Egr4CL-like proteins and related proteins from other plant species A total of 3 non-ambiguous amino acid positions were considered in final dataset Sub containing the bona fide genes is highlighted
2 i GSVIVG i GSVIVG Arath AT5G HCT Arath At3g Arath AT5G6 ysa Osg3 ysa Osg25 i GSVIVG ( ) HCT 23 i GSVIVG2 Arath AT2G ATSHT i GSVIVG2 EucgrF32_EgrHCT EucgrF34_EgrHCT3 EucgrF33_EgrHCT2 Poptr 5s2 HCT5 Poptr fgenesh4 pgc scaffold 37 HCT7 EucgrF38_EgrHCT4 Poptr 8s HCT2 EucgrJ3_EgrHCT5 Arath AT5G ATHCT Nicta HCT TOBAC gi 3 Poptr eugene332 HCT Poptr s34 HCT6 i GSVIVG6 i GSVIVG23 ysa Os2g3 ysa Os4g25 Nicta HCQ gi Poptr 8s3 HCT3 Poptr eugene37 HCT4 HCQ HCT Supplementary Figure S2 Unrooted protein phylogenetic tree of the HCT/HCQ (hydroxycinnamoyl-coa:shikimate / quinate hydroxycinnamoyltransferase) multigene family Large comparative phylogenetic analysis generated for the five EgrHCT proteins and 25 related proteins from other plant species A total of non-ambiguous amino acid positions were considered in the final dataset Sub containing the genes is highlighted
3 77 i GSVIVG6 Arath AT4G3 ATCCoAOMT Eucgl gi 53 CCoAOMT- Nicta gi 5343 CCoaOMT-6 EucgrG7_EgrCCoAOMT2 Nicta gi 7 CCoaOMT-5 Eucgl gi 538 CCoAOMT-2 Pinta gi CCoAOMT Nicta gi 8 CCoAOMTtrunc2 Poptr s3 CCoAOMT2 i GSVIVG Poptr 9s2 CCoAOMT i GSVIVG37 Eucgu gi 2 CAMT EUCGU EucgrI34_EgrCCoAOMT Pinpi gi 332 CCoAOMT Nicta gi CCoaOMT-3 Nicta gi CCoaOMT-2 Os6g 34 i GSVIVG4 Nicta gi CCoaOMT- 3 EucgrC_EgrCCoAOMT-like9 EucgrC_EgrCCoAOMT-like6 EucgrC34_EgrCCoAOMT-like EucgrC_EgrCCoAOMT-like7 EucgrC_EgrCCoAOMT-like 34 EucgrC34_EgrCCoAOMT-like Arath AT4G ATCCoAOMT7 88 EucgrC5_EgrCCoAOMT5 66 EucgrH44_EgrCCoAOMT-like4 EucgrH43_EgrCCoAOMT-like3 EucgrH_EgrCCoAOMT-like5 EucgrH_EgrCCoAOMT-like7 i GSVIVG Poptr 8s66 CCoAOMT5 EucgrC4_EgrCCoAOMT-like4 i GSVIVG EucgrH_EgrCCoAOMT-like6 i GSVIVG i GSVIVG i GSVIVG Arath ATG ATCCoAOMT Nicta gi CCoaOMT-4 25 Os9g Os8g3 Os8g3 Os8g3 Os8g Arath AT3G ATCCoAOMT3 Arath ATG ATCCoAOMT6 Arath ATG5 ATCCoAOMT2 EucgrB_EgrCCoAOMT-like3 Poptr estext fgenesh4 pgc LG VIII29 CCoAOMT3 Poptr s CCoAOMT4 Poptr 8s CCoAOMTb i GSVIVG26 Arath AT3G ATCCoAOMT4 Poptr 2s CCoAOMTa Poptr gwii3 CCoAOMT6 i GSVIVG6 EucgrF_EgrCCoAOMT-like2 CCoAOMT Supplementary Figure S3 Unrooted protein phylogenetic tree of the CCoAOMT (caffeoyl CoA 3-O-methyltransferase) multigene family Large comparative phylogenetic analysis generated for the two EgrCCoAOMT proteins, fifteen EgrCCoAOMT-like and 44 related proteins from other plant species A total of non-ambiguous amino acid positions were considered in the final dataset Sub containing the genes is highlighted ( )
4 Poptr PtrCOMT gw228 Arath ATG2 ATCOMT-like3 Arath ATG ATCOMT-like2 EucgrE33_EgrCOMT-like3 Poptr 2s7 COMTa EucgrH32_EgrCOMT-like EucgrH34_EgrCOMT-like Poptr 4s PtrCOMT3 EucgrE3_EgrCOMT-like28 EucgrE33_EgrCOMT-like EucgrE3_EgrCOMT-like29 i GSVIVT34 EucgrF25_EgrCOMT EucgrF_EgrCOMT-like Arath ATG ATCOMT-like6 Arath AT5G ATCOMT-like2 Arath ATG634 ATCOMT-like7 Arath ATG ATCOMT-like Arath ATG ATCOMT-like8 Arath ATG7 Poptr 5s26 COMTb EucgrF_EgrCOMT-like38 EucgrH_EgrCOMT-like EucgrH_EgrCOMT-like Poptr 2s86 PtrCOMT5 Poptr 2s8 PtrCOMT4 i GSVIVT EucgrE Nicta gi 7 COMTII Os8g6 Poptr 6s COMTi EucgrE_EgrCOMT-like Arath ATG3 ATCOMT-like5 Os2g3 Arath ATG ATCOMT-like Arath ATG7 ATCOMT-like9 Arath AT5G8 ATCOMT-like3 i GSVIVT EucgrF23_EgrCOMT Arath ATG i GSVIVT8 i GSVIVT i GSVIVT47 Poptr s6 PtrCOMT6 Poptr PtrCOMT25 POPoptr s EucgrH3_EgrCOMT-like EucgrH3_EgrCOMT-like47 EucgrI28_EgrCOMT-like EucgrG2_EgrCOMT-like EucgrG7_EgrCOMT-like i GSVIVT Zea mays gi 2 EucgrH3_EgrCOMT-like EucgrE34_EgrCOMT-like32 EucgrH347_EgrCOMT-like43 EucgrH3_EgrCOMT-like Arath AT5G ATCOMT EucgrK_EgrCOMT6 Poptr 2s PtrCOMT2 Poptr 5s PtrCOMT EucgrK4_EgrCOMT EucgrA3_EgrCOMT3 43 EucgrB7_EgrCOMT-like EucgrB4_EgrCOMT-like25 EucgrH3_EgrCOMT-like EucgrH3_EgrCOMT-like EucgrA389_EgrCOMT2 EucgrE38_EgrCOMT_EgrCOMT-like33 3 Eucgl gi 3 Eucgu gi 4777 EgCOMT Eucgl gi 5 EucgrA3_EgrCOMT EucgrA3_EgrCOMT EucgrE37_EgrCOMT-like34 EucgrH3_EgrCOMT-like44 EucgrH3_EgrCOMT-like i GSVIVT Os2g EucgrA28 EgrCOMT5 EucgrA4_EgrCOMT5 EucgrA6_EgrCOMT7 Pinpi gi 243 Arath AT3G ATCOMT-like Poptr 6s6 PtrCOMT7 EucgrK3_EgrCOMT-like EucgrK4_EgrCOMT-like63 Poptr 3s2 COMTg EucgrK6_EgrCOMT-like65 Poptr 3s25 PtrCOMT8 EucgrK5_EgrCOMT-like EucgrK7_EgrCOMT-like66 EucgrK6_EgrCOMT-like EucgrK9_EgrCOMT-like EucgrK_EgrCOMT-like6 EucgrK_EgrCOMT-like EucgrA9_EgrCOMT-like2 Poptr 3s2 COMTf 63 Poptr 3s2 COMTe 58 Poptr PtrCOMT7 3s POPoptr 6 4 EucgrA7_EgrCOMT-like8 EucgrA7_EgrCOMT-like EucgrA7_EgrCOMT-like9 EucgrA8_EgrCOMT-like Poptr PtrCOMT POPoptr 3s Poptr eugene32 PtrCOMT23 Poptr 9s COMTl Poptr 3s COMTh Poptr eugene33 PtrCOMT Pinta gi 77 Poptr eugene328 PtrCOMT6 Poptr s COMTm Poptr s PtrCOMT9 Poptr eugene35 PtrCOMT2 COMT EucgrG8_EgrCOMT-like EucgrG8_EgrCOMT-like i GSVIVT2 i GSVIVT23 Poptr 9s COMTc Poptr gwix38 PtrCOMT5 Arath AT4G3 Arath AT4G Os5g4 EucgrA8_EgrCOMT-like8 EucgrA7_EgrCOMT-like9 EucgrA8_EgrCOMT-like7 EucgrA5_EgrCOMT-like3 EucgrA8_EgrCOMT-like2 EucgrA4_EgrCOMT-like6 EucgrA3_EgrCOMT-like5 EucgrA8_EgrCOMT-like4 i GSVIVT26 Poptr 3s2 PtrCOMT3 Poptr s PtrCOMT4 i GSVIVT2 Poptr 4s PtrCOMT Poptr POPoptr s PtrCOMT Poptr s PtrCOMT8 Poptr 4s PtrCOMT9 i GSVIVT26 i GSVIVT26 i GSVIVT i GSVIVT2 Poptr 9s COMTk Poptr 9s COMTj Poptr fgenesh4 pgc LG XIX8 PtrCOMT2 EucgrA88_EgrCOMT-like EucgrA884_EgrCOMT-like23 EucgrA3_EgrCOMT-like2 EucgrA8_EgrCOMT-like i GSVIVT2 Supplementary Figure S4 Unrooted protein phylogenetic tree of the COMT (caffeic acid/5-hydroxyferulic acid O- methyltransferase) multigene family: Large comparative phylogenetic analysis generated for the seven EgrCOMT proteins, 6 EgrCOMT-like and 84 related proteins from other plant species A total of non-ambiguous amino acid positions were considered in the final dataset Sub containing the genes is highlighted
5 Osg2 Osg 66 EucgrG Arath Popt AT2G r 4 C CR-like i GSV s2 2 IVG CCR Os6g Pan Os6g vi gi 8 3 y 2 za CC Os R-lik 8g e yza Os 9 y g3 za Os 9g3 Ara 8 th AT yz 2G a Os g3 yza 5 CC Os 2 R 9 lik g3 e like CCR grb AT5G58 EucArath CCR9 9s 2 Poptr i GSVIVG Os3g63 rg cg Eu 44 EucgrL G gr G gr Euc Euc 5 3 e4 lik RCC 3 2G AT R ath 5 CC Ar F 5 CCR ke cgr 2s 343 C CR-li Eu s6 tr 4 Pop IVG Poptr 2 ATG Arath i GSV 343 i GSVIVG 2 i GSVIVG i GSVIVG Eu cgrg G 38 h AT sg3 2 O Arat VG za ri SVI y ig E ucg 6 3 G 2 4 VIV G GS VG VI VIV g 4 vi GS 2G 6 vi Os th AT yza Ara vi GS Eu cg Eu rg cg 3 Euc rg 3 grg 3 gr 333 Eucg K3 rg 6 Eucg 28 rg3 3 Eucg rg33 EucgrG EucgrL2 9 2 i GSVIVG i GSVIVG238 EucgrB EucgrB 3 5 rb EucgrB 3 Eucg 2 2a 4 G e 2 VIV -8lik 6 7 VG i GS CR C SVI ig g3 2 3 Os 2 IVG VG gi yza SV VI G nvi GS Pa vi vi Euc i GSVIVG g5 6 2 Os 2g5 2 yza Os Os 2g 6 za ya Os2 g5 yz Os2g Os9g2 Osg8 Osg 82 Os9g Zeama gi 8 8 CCR2 a Os8 PanviOs2g8 y gi Pa g7 3 nviza Os Ar 6 CC 9g2 gi 23 M ath Zeam R 2a yz ed Ar AT a Os tr ath G a gi gi AT 5 6 8g34 CC R 3 G a 2 AT 6 7 CC 8 C C AT R CR C R CC CR 9 C 4 lcc R 3 2 Eg CR EgC gi tr cgrj 8 8 ed 3 gi M Eul gi gi 2 58 IVG Pinta cg GSV F Eu gu i Euc Eucgr CCR2 65 Poptr 3s7 s CCR6 Poptr s Poptr Poptr CCR6 Pop Pop Po s ptrtr tr s6 CCR es s tex 4 CCR t f ge ne CC sh 4 pg R3 C 2 4 CC R5 R2 E ucg 2 Osg4 C Eucgr Arath AT2G2 4 AT4G3 Arath rg i i GSVIVG i GS VIV G 3 Eu 2 cg ri yza 7 Ara Os yz 83 th a Os5 g4 AT5 G4 g2 i GSV IVG i 3 GSVI VG 3 34 GSV IVG 8 yz vi GS VIV G vi i GS 2 GS 3 VI vi GS VIVG VG VIV i GSV G 23 2 i IVG GSV i IVG 38 GSVIV 32 i GSVIVGG3 6 i GSVIVG CCR Supplementary Figure S5 Unrooted protein phylogenetic tree of the CCR (cinnamoyl CoA reductase) multigene family Large comparative phylogenetic analysis generated for the two EgrCCR proteins, 25 EgrCCR-like and related proteins from other plant species A total of non-ambiguous amino acid positions were considered in the final dataset Sub containing the bona fide genes is highlighted
6 i GSVIVG6 y s a Os 8 A Os 9 g 23 5 Vi tvi GS VIV G i G SVIVG 6 y sa Os 8D O s 9 g i GSVIVG6 i GSVIVG 4 O rys a Os 8 C Os 9 g Os7 Os4g E u c gre 9 c ad E uc gr E 7 cad Euc gr E cad E u cgre 7 c ad Eu cg re 8 ca d i GSVIVG V it vi G SV IV G 6 i GSVIVG 4 8 Vi tv i G SVIVG 2 5 Ar ath y s a Os 8 A Os 9 g 23 5 E 9 Po ptr Eu cg rf cad Vi tvi GS VIV G i G SVIVG y sa Os 8D O s 9 g i GSVIVG O rys a Os 8 C Os 9 g A 9 7 Ptr6 eu ge ne 3 9 Po ptr Ptr7 e ug en e 3 7 Po ptr Vi tvi GSVIVG y s a Os 6 Os 4g Euc g rh2 4 c ad Ara th ATC AD4 AT3G Nta Nta b 4 e mb CAA44 6 c ad 9 9 -a g 3 - Euc g re 2 3 e l-a g 3 - Euc gre 2 5 el-a g 3- Eu cg rk 9 e l-a g 3-2 i GSVIVG ysa OsCA Eu c gr E 4 ca d Eu cg re 5 ca d E uc gr E 3 ca d Pt r Eu cg re 5 c ad E uc gr E 9 c ad E uc gr E 7 cad Eu c gr E cad E ucg r E 7 cad Eu cg r E 8 ca d i GSVIVG9 V itvi G SV I V G 6 ysa A Vi tvi G Vi tvi GSVIVG 4 8 Vi tv i GSVIVG 2 5 Po ptr Ar at 8 2 Eu cg rf 6 c ad Ptr6 e ug en e3 9 9 Po ptr Ptr7 e ug e ne 3 7 Pop tr Vi tv i GSVIVG ys a Os 6 Os 4g Euc grh2 4 cad E uc Eucg r EucgrE 4 el-a g 3 - Euc g re 2 3 e l-a g 3 - Euc g re 2 5 el -a g 3 - Ara th ATC AD4 AT3G Nta Nta b 4 e mb CAA44 6 ca d Eu cg rk 9 e l -a g 3-2 i GSVIVG Ptr fgenesh 4 pg C LG I 2 7 Poptr ys a OsCA E 9 9 Eu c gr E 4 ca d Eu cg re 5 ca d E uc gre 3 cad Eu cg re 5 c ad A r at h A T CA D A T G7 ysa Os O s g8 Pt r 6 g v i G SVIVG 25 5 Vi tv i G SV IV G 2 5 Vi tv i G i G SVI VG V itv i GSV vi GSVIVG 2 3 ig SVIVG V itv i G SVIVG i G SVIVG v i G SVIVG V it vi G SVIV G V i tvi GSVIVG i GSVIVG i GSVIVG 2 3 v i G SVIVG V itv i G SVIVG i G SVIVG V itvi G S VIV G 23 7 Vi tvi G SVIVG Vi tvi GSVI VG Ptr fgenesh4 pgc LG I Poptr EucgrK9_Egr-like47 Arath AT6 AT4G Os8A Os9g2 Os8C Os9g2 Osa8B Os9g2 Os9 Os3g Os5 Os8g Os3 Osg2 i GSVIVG6 Arath AT3 AT2G8 Arath AT2 AT2G Arath AT9 AT4G3 EucgrH3_Egr-like i GSVIVG EucgrF6_Egr-like3 EucgrF7_Egr-like EucgrF9_Egr-like32 EucgrF_Egr-like33 7 i GSVIVG63 EucgrF6_Egr-like29 Ptr estext fgenesh4 pgc LG I23 Poptr Os6 Os4g Os2 Os2g Arath AT4 AT3G i GSVIVG Ptr2 eugene32 Poptr Nta Ntab4 emb CAA446 cad Nta Ntab9 emb CAA447 cad Arath AT5 AT4G3 2 4 i GSVIVG3 EucgrG3_Egr Pinpi emb CBL258 Pinta sp P6 i GSVIVG6 Eucgu EgH2 sp P36 Eucgl H EUCGL sp O9 Ptr estext Genewise vc LG IX23 Poptr i GSVIVG3 EucgrH328_Egr3 89 EucgrE_Egr-like9 EucgrE9_Egr-like EucgrE8_Egr-like8 EucgrE7_Egr-like7 EucgrE7_Egr-like EucgrE5_Egr-like2 EucgrE5_Egr-like6 EucgrE4_Egr-like5 EucgrE3_Egr-like4 Os8D Os9g2 A ra th A T CA D6 A T4G ys a Os aca D8B O s9g 23 5 ys a Os CA D9 Os 3 g P tr CA D2 g r a i l P op t r ysa Os 5 O s8 g ys a OsCA D7 Os 4g 28 Eucgr I 3 el- a g 3-2 Eu cgr I 2 e l- a g 3-2 Vi tvi G SVIVG 6 2 i G SVIVG 63 i GSVIVG 3 4 V it v i GS VI V G 5 i GS V IV G 63 O rysa O sc A D3 O sg 29 4 A r at h A T CA D3 A T 2G2 8 AT 9 AT4G 3 Ar a th AT 2 AT2G Ar at h AT7 A T4 G Eu cgr I el-a g 3-2 E ucg ri 5 e l- a g 3 - vi GSV IVG 6 29 Vi tvi GSVI VG Ara th AT 8 AT4 G Ptr3 f ge ne sh 4 pmc LG IX 4 Po ptr A ra th A TCA D6 A T 4G3 7 ys a Os aca D8 B O s 9g23 ys a Os CA D9 Os 3g E ucg r H4 3 cad 9 P t r e stext fgen esh4 p g C L G I25 33 Po pt r ucg rf 9 cad 9 E u cgr F 6 cad 9 Euc grf 6 ca d9 Ptr5 fg en es h4 p gc LG IX Pop tr Ptr4 e ug en e3 2 6 PtrC AD2 eu ge ne Pop tr Ptr8 e stext fge n e sh 4 pm C L G VI 2 Pop tr Euc grh2 5 c ad 9 Pt r9 estext Ge ne wise v C LG XVI2 4 9 Pop tr EucgṛH c ad 9 Eu cgr D 9 c ad9 Eu cg rd el -a g 3- E ucgr G2 3 cad 9 ysa Os 5 Os8 g ys a OsCA D7 Os 4g 28 SVI VG P tr CA D2 g r a il P op tr Vi tv i GSV IV G 3 4 OsCA D 3 Osg 29 4 ra th AT2 AT2G h AT 7 A T4G E ucgr I5 7 el- a g 3-2 Eucg r I 3 e l- a g 3-2 E ucgr I 2 e l- a g 3-2 V itvi G SVIVG 63 V itv ig S VIV G 5 vi GS VI VG 6 A rath A T CA D3 A T 2G2 8 ra th ATC AD9 AT 4G 3 i GSVIVG 6 2 vi GSV I V G 63 Ara th AT8 AT4 G Ptr3 f g ene sh 4 pm C LG IX 4 E u cgr I5 e l- a g 3- Eu cgr H 3 c ad9 Pt r e ste xt fg ene sh4 p g C LG I 23 P op tr E u cgr F 6 cad9 Eu cgrf 6 c ad9 Eucg rf 6 cad 9 Ptr5 fg en es h4 pg C L G IX Pop tr Ptr4 eu ge ne 32 Po ptr i GSVIVG 3 V itvi GSVIV G Eu cg rh2 el -a g 3 - E ucgr H 3 ca d 9 Eucgr H 33 el-a g 3-2 Eucg r E23 9 el E u cg r E 4 e l- a g 3- PtrC AD2 e u ge ne Pop tr Ara th AT5 AT4G3 Ptr8 es tex t fge n e sh 4 pm C L G VI 2 Pop tr Pt r9 es tex t Ge ne wis e v C LG XVI2 4 9 Po ptr E ucg u EgCA DH2 s p P3 6 Euc gl H EU CGL sp O 9 Pt r es tex tge ne wis e v C LG IX2 9 Pop tr Euc grh32 8 Nt a Nt ab 9 e mb CAA44 7 ca d Eu cg re 25 el-a g 3 - E uc gre 2 9 el-a g 3- E ucgrh cad 9 Ptr fg e ne sh 4 pg C L G I 2 7 Po p t r Eu cg rh 5 cad 9 E ucg r G gr G 2 3 ca d9 Eucg rd el-a g 3- E ucg r D 4 c ad P i n pi emb C B L9 58 Pi nta sp P 6 D2 Os2 g 9 igsvivg 3 5 V itvi GSV IV G 389 E ucg rh 2 e l -a g 3 - Eucgr H 3 cad 9 E ucgr D9 cad9 E 23 9 el- a g 3- Eu cgrh el- a g 3-2 Ara th AT5 AT4 G3 E ucgr D 8 cad i GSVIVG 6 Eu cgu E gca DH2 sp P 3 6 Eucg l H EU CGL sp O 9 Pt r es tex t Ge ne wis e v C LG IX2 9 Pop tr E ucg rh 32 8 Nt a Nt ab 9 em b CAA4 7 ca d Eu cg re 25 el- a g 3 - E ucg re 2 9 el -a g 3- E ucg r G P tr CA D5 g wx I8 6 P opt r Pt rc AD3 fgene sh4 pg C L G I II 7 P op tr A rath A T CA D A T G7 ysa Os Os g 8 P tr4 est Ext fg e nesh4 pg C L G XVI Pop tr 6 g w VI8 P optr ysa O sc AD4 Os g E ucgr D4 ca d u cgrd4 c ad P in pi emb CB L9 58 Pin ta sp P 6 D2 Os2g vi GSVI VG 6 P tr CA D5 g wx I 8 6 P op tr Ptr CA D3 f g ene sh4 pg C L G I I 7 Pop tr P tr4 estext fge nesh4 p g C LG XVI Popt r wvi 9 P optr ysa OsCA D4 O s g Ptr8 estext fgenesh4 pmc LG VI2 Poptr Ptr5 fgenesh4 pgc LG IX Poptr Ptr6 eugene39 Poptr Ptr3 fgenesh4 pmc LG IX4 Poptr Ptr4 eugene32 Poptr Arath AT8 AT4G Arath AT7 AT4G EucgrI_Egr-like43 EucgrI_Egr-like44 Ptr9 estext Genewise vc LG XVI2 Poptr EucgrI3_Egr-like EucgrI2_Egr-like vi G SVIVG 6 SVI VG 23 V itv i GS V IV G vi GSVIV G 2 V it vi GSV I V G 6 IVG 23 V it vi G S VIV G 5 V it v i GS V IV G 6 V i tvi GSV I VG 238 vi GSVI VG 3 Vi tvi GSVI VG 3 v ig SV IV G2 3 6 vi GS V I V G 2 6 V it vi G SV IVG 238 i GS VIVG 37 8 vi G S VIV G 3 Ptr7 eugene37 Poptr i GSVIVG i GSVIVG i GSVIVG6 Ptr2 grail33 Poptr i GSVIVG 7 i GSVIVG i GSVIVG i GSVIVG6 25 i GSVIVG4 i GSVIVG i GSVIVG6 33 i GSVIVG6 i GSVIVG6 i GSVIVG66 EucgrH_Egr-like EucgrH_Egr-like EucgrH25_Egr-like38 EucgrH_Egr II I EucgrH34_Egr-like34 EucgrE2_Egr-like EucgrE29_Egr-like EucgrH3_Egr-like EucgrE25_Egr-like28 EucgrD_Egr-like8 EucgrE4_Egr23 EucgrE239_Egr-like25 EucgrE23_Egr-like EucgrH33_Egr-like EucgrD89_Egr-like EucgrD_Egr-like3 EucgrD88_Egr-like EucgrD_Egr-like2 EucgrG23_Egr-like34 EucgrD_Egr-like9 Ptr5 gwxi86 Poptr Arath AT ATG Os Osg8 Os4 Osg Ptr4 estext fgenesh4 pgc LG XVI Poptr Ptr6 gwvi8 Poptr Ptr3 fgenesh4 pgc LG III7 Poptr EucgrD8_Egr-like4 EucgrD4_Egr-like6 EucgrD47_Egr-like5 EucgrD4_Egr-like7 5 ( ) is Supplementary Figure S6 Unrooted protein phylogenetic tree of the (cinnamyl alcohol dehydrogenase) multigene family Large comparative phylogenetic analysis generated for the two Egr proteins, 44 Egr-like and related proteins from other plant species A total of 88 non-ambiguous amino acid positions were considered in the final dataset Sub containing the bona fide genes is highlighted 5
7 Chr (3Mb) Chr_2_(2Mb) Chr_3_(Mb) Chr_4_(Mb) Chr_5_(7Mb) Chr_6_(9Mb) 33 EgrC4H2_EucgrC EgrPAL_EucgrA44 EgrCOMT2_EucgrA389 EgrCOMT3_EucgrA3 EgrCOMT4_EucgrA3 EgrCOMT_EucgrA3 EgrC3'H_EucgrA EgrC3'H2_EucgrA88 EgrC3'H3_EucgrA EgrCOMT5_EucgrA Egr4CL_EucgrC84 EgrPAL2_EucgrC EgrCSE_EucgrF25 EgrCCR2_EucgrF34 EgrHCT_EucgrF32 EgrHCT2_EucgrF33 EgrHCT3_EucgrF34 EgrHCT4_EucgrF Chr_7_(4Mb) Chr_8_(3Mb) Chr_9_(Mb) Chr (4Mb) Chr (5Mb) 3 EgrPAL8_EucgrJ7 EgrPAL9_EucgrJ EucgrCOMT6_EucgrK Egr4CL2_EucgrK EgrCOMT7_EucgrK Egr2_EucgrG3 EgrCCoAOMT2_EucgrG7 EgrPAL3_EucgrG28 EgrPAL4_EucgrG28 EgrPAL5_EucgrG2 EgrPAL6_EucgrG28 EgrPAL7_EucgrG28 EgrC3'H4_EucgrG Egr3_EucgrH328 EgrCCoAOMT_EucgrI34 EgrF5H2_EucgrI EgrC4H_EucgrJ844 EgrF5H_EucgrJ23 EgrCCR_EucgrJ34 EgrHCT5_EucgrJ3 588 Supplementary Figure S7 Physical position of the 38 Eucalyptus grandis genes involved in the Eucalyptus grandis phenylpropanoid and lignin branch biosynthetic pathway The physical position of the putative lignification genes was verified For this, the physical distances were retrieved from BioMart for each gene and graphical display was performed using MapChart 22 (Voorips )
A L A BA M A L A W R E V IE W
A L A BA M A L A W R E V IE W Volume 52 Fall 2000 Number 1 B E F O R E D I S A B I L I T Y C I V I L R I G HT S : C I V I L W A R P E N S I O N S A N D TH E P O L I T I C S O F D I S A B I L I T Y I N
Towards a Systems Approach for Lignin Biosynthesis in Populus trichocarpa : Transcript Abundance and Specificity of the Monolignol Biosynthetic Genes
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A c c e l e r a t i n g L a r g e S c a l e C e n t r o i d - B a s e d C l u s t e r i n g w i t h L o c a l i t y S e n s i t i v e H a s h i n g R y a n M c C o n v i l l e, X i n C a o, W e i r u L
CHEM Come to the PASS workshop with your mock exam complete. During the workshop you can work with other students to review your work.
It is most beneficial to you to write this mock midterm UNDER EXAM CONDITIONS. This means: Complete the midterm in 1.5 hours. Work on your own. Keep your notes and textbook closed. Attempt every question.