ITS1 strict consensus of 78 most parsimonious trees: /------------------------------------------------------------------------------------ Ruta graveolens | +------------------------------------------------------------------------------------ Ruta graveolens | | /------ Ptelea trifoliat | /------+ | | \------ Ptelea trifoliat | | | /-----+------------- Ptelea augustifo | | | | /------------+ \------------- Ptelea trifoliat | | | | | \------------------- Casimiroa edulis | | | | /------ Skimmia anquetil | | /------+ | /------+ | \------ Skimmia anquetil | | | /------------+ | | | | \------------- Skimmia laureola | | | | | | | | /------ Skimmia japonica | | | | | | | \-----+ /------+------ Skimmia japonica | | | | | | /-------------------------------+ | /-----+ \------ Skimmia laureola | | | | | | | | | \------+ \------------- Skimmia japonica | | | | | | | \------------------- Skimmia japonica | | | | | | /------ Orixa japonica N | | \--------------------------------+ | | \------ Orixa japonica A | | | | /------ Phellodendron ch | | | | | +------ Phellodendron sa | | | | | +------ Phellodendron la | | | | | /-------------------------+------ Phellodendron la | | | | | | | +------ Phellodendron ch | | | | | | | +------ Phellodendron am | | | | | | | \------ Phellodendron sa | | | | | | /------ Tetradium rutica | | | /------+ | | | | \------ Tetradium rutica | | | | | | | | /------ Tetradium rutica | | /------+ +------+ | | | | /-----+ \------ Tetradium rutica | | | | | | | | | | | +------------- Tetradium rutica | | | | | | | | | | | \------------- Tetradium rutica | /------+ | | | | | | | | /------+ /------ Tetradium tricho | | | | | | | /------+ | | | | | | | | \------ Tetradium tricho | | | | | | +-----+ | | | | | | | \------------- Tetradium tricho | | | /-----+ \-----+ | | | | | | | \------------------- Tetradium austro | | | | | | | | | | | | /------ Tetradium glabri | | | | | | | | | | | | \-------------------+------ Tetradium glabri | | | | | | | | | | | \------ Tetradium glabri | | | | | | | | | | /------ Tetradium daniel | | | | | | | | | | \--------------------------------+------ Tetradium daniel | | | | | | | | /-------------------+ \------ Tetradium daniel | | | | |

| | | | | /------ Zanthoxylum amer | | | | | /------------+ | | | | | | \------ Zanthoxylum amer | | | | | | | | | | | /------+ /------ Zanthoxylum pipe | | | | | | | /------+ | | | | | | | | \------ Zanthoxylum pipe | | | | | | \-----+ | | | | | | | /------ Zanthoxylum simu | | | | | | \------+ | | | | | | \------ Zanthoxylum simu | | | | \------------------+ | | | | | /------ Zanthoxylum avic | | | | | /------+ | | \-----+ | | \------ Zanthoxylum avic | | | +------------+ | | | | \------------- Zanthoxylum schi | | | | | | | \-------------------------- Toddalia asiatic | | | | | | /---------------------------------------------------------- Dinosperma melan | | | | \-----+ | | /---------------------------------------------------- Bosistoa medicin | | | | | | | | /------ Melicope vitiflo | | | | /------+ | | | | | \------ Melicope vitiflo | | | | /-----+ | | | | | \------------- Pitaviaster hapl | \------+ | | | | | /------+ /------ Euodia hortensis | | | | | /------+ | | | | | | \------ Euodia hortensis | | | /------------+ \-----+ | | | | | \------------- Euodia hylandii | | | | | | | | | \-------------------------- Euodia pubifolia | \-----+ | | | | /------ Melicope ternata | | | /-------------------+ | | | | \------ Melicope ternata | | /-----+ | | | | | /-----+ /------------------- Melicope pteleif | | | | | | | | | | | | | | /------ Melicope ellerya | | | | | \------+ /------+ | | | | | | | \------ Melicope rubra 2 | | | | | \-----+ | | | \------+ \------------- Melicope bonwick | | | | | | | | /------ Acronychia pedun | \------+ | /------+ | | | | \------ Acronychia acron | | | | | | \------------------+ /------ Acronychia laevi | | | | | | \------+------ Acronychia crass | | | | | \------ Acronychia vesti | | | | /------ Halfordia kendac | \--------------------------------------+ | \------ H kendack 282 | | /------ Atalantia buxifo \-----------------------------------------------------------------------+ \------ Citrus species R

ITS1 jackknife 50% majority-rule consensus tree: /-------------------------------------------------------------------------------- Ruta graveolens (1) | +-------------------------------------------------------------------------------- Ruta graveolens (2) | | /------ Ptelea trifoliat(3) | /-63--+ | | \------ Ptelea trifoliat(4) | | | /-------100--------+------------ Ptelea augustifo(5) | | | | | \------------ Ptelea trifoliat(6) | | | | /------ Orixa japonica N(9) | +-----------64-----------+ | | \------ Orixa japonica A(10) | | | | /------ Skimmia anquetil(11) | | /-97--+ | | | \------ Skimmia anquetil(12) | | /-----73-----+ | /-----------------54-----------------+ | \------------ Skimmia laureola(13) | | | | | | | | /------ Skimmia japonica(14) | | | | | | | +-96--+ /-62--+------ Skimmia japonica(15) | | | | | | | | | | /-85--+ \------ Skimmia laureola(16) | | | | | | | | | \--61--+ \------------ Skimmia japonica(17) | | | | | | | \------------------ Skimmia japonica(18) | | | | | \------------------------------- Casimiroa edulis(19) | | | | /------ Phellodendron ch(20) | | | | | +------ Phellodendron sa(21) | | | | | +------ Phellodendron la(22) | | | | | /-----------97-----------+------ Phellodendron la(23) | | | | | | | +------ Phellodendron ch(24) | | | | | | | +------ Phellodendron am(25) | | | | | | | \------ Phellodendron sa(26) | | | | | | /------ Tetradium daniel(27) | | | | | | +-----------91-----------+------ Tetradium daniel(28) | | | | | | | \------ Tetradium daniel(29) | | | | | | /------ Tetradium rutica(30) | | | /-97--+ | /-65--+ /-62--+ | \------ Tetradium rutica(31) | | | | | | | | | | | | /------ Tetradium rutica(32) | | | | | +-100-+ | | | | | /-98--+ \------ Tetradium rutica(33) | | | | | | | | | | | | | +------------ Tetradium rutica(34) | | | | | | | | | | | | | \------------ Tetradium rutica(35) | | | | | | | | | | | /--74--+ /------ Tetradium tricho(36) | | | | | | | /-85--+ | | | | | | | | \------ Tetradium tricho(37) | | | | | | +-61--+ | | | | | | | \------------ Tetradium tricho(38) | | | | \-86--+ | | | | | | \------------------ Tetradium austro(39) | | | | | | | | | | /------ Tetradium glabri(40) | | | /-----------90-----------+ | | | | | | | \--------77--------+------ Tetradium glabri(41) | | | | | | | | | | | \------ Tetradium glabri(42)

| | | | | | | | | | /------ Zanthoxylum amer(43) | | | | | /----96-----+ | | | | | | \------ Zanthoxylum amer(44) | | | | | | | | | | | /--86--+ /------ Zanthoxylum pipe(45) | | | | | | | /-63--+ | | | | | | | | \------ Zanthoxylum pipe(46) | | | | | | \-100-+ | | | | | | | /------ Zanthoxylum simu(47) | | | | | | \-88--+ | | | | | /-56--+ \------ Zanthoxylum simu(48) | | | | | | | | | \-73--+ | | | /------ Zanthoxylum avic(49) | | | | | | /-96--+ | | | \-81--+ | | \------ Zanthoxylum avic(50) | | | | \-----99-----+ | | | | \------------ Zanthoxylum schi(51) | | | | | | | \------------------------------- Toddalia asiatic(52) | | | | | | /------------------------------------------------------- Dinosperma melan(53) \-100-+ | | | | | /------------------------------------------------- Bosistoa medicin(54) | | | | | | | | /------ Melicope vitiflo(55) | | | | /-100-+ | | | | | \------ Melicope vitiflo(56) | | | | /-52--+ | | | | | \------------ Pitaviaster hapl(57) | \--78--+ | | | | | /--54--+ /------ Euodia hortensis(59) | | | | | /-99--+ | | | | | | \------ Euodia hortensis(60) | | | /----83-----+ \-99--+ | | | | | \------------ Euodia hylandii (61) | | | | | | | | | \------------------------- Euodia pubifolia(58) | \-86--+ | | | | /------ Melicope ternata(62) | | | /-------100--------+ | | | | \------ Melicope ternata(63) | | /-100-+ | | | | | /-88--+ /------------------ Melicope pteleif(69) | | | | | | | | | | | | | | /------ Melicope ellerya(70) | | | | | \--99--+ /-63--+ | | | | | | | \------ Melicope rubra 2(71) | | | | | \-71--+ | | | \-98--+ \------------ Melicope bonwick(72) | | | | | | | | /------ Acronychia pedun(64) | \-87--+ | /-57--+ | | | | \------ Acronychia acron(65) | | | | | | \--------97--------+ /------ Acronychia laevi(66) | | | | | | \-57--+------ Acronychia crass(67) | | | | | \------ Acronychia vesti(68) | | | | /------ Halfordia kendac(73) | \----------------100-----------------+ | \------ H kendack 282(74) | | /------ Atalantia buxifo(7) \--------------------------------100--------------------------------+ \------ Citrus species R(8)

ITS2 strict consensus of 5 most parsimonious trees: /------------------------------------------------------------------------------------ Zanthoxylum schi | | /----------------- Tetradium glabri | | | /-------------------------------------------------+----------------- Tetradium glabri | | | | | \----------------- Tetradium glabri | | | | /----------------- Fructus Evodiae | | | | | +----------------- Fructus Evodiae | | | | | +----------------- Tetradium rutica | | /----------------+ | | | +----------------- Tetradium rutica | | | | | | | +----------------- Tetradium rutica +----------------+ /---------------+ | | | | | \----------------- Tetradium rutica | | | | | | | | /----------------- Tetradium rutica | | | \----------------+ | | | \----------------- Tetradium rutica | +----------------+ | | +-------------------------------------------------- Tetradium tricho | | | | | +-------------------------------------------------- Tetradium tricho | | | | | \-------------------------------------------------- Tetradium daniel | | | \------------------------------------------------------------------- Tetradium austro | | /---------------------------------- Tetradium daniel | | \-------------------------------------------------+ /----------------- Tetradium daniel \----------------+ \----------------- Tetradium daniel

ITS2 jackknife 50% majority-rule consensus tree: /-------------------------------------------------------------------------------- Zanthoxylum schi(1) | | /----------- Tetradium glabri(2) | | | /---------------------------93----------------------------+----------- Tetradium glabri(3) | | | | | \----------- Tetradium glabri(4) | | | | /----------- Fructus Evodiae (5) | | | | | +----------- Fructus Evodiae (6) | | | | | +----------- Tetradium rutica(7) | | /----65-----+ | | | +----------- Tetradium rutica(8) | | | | +----94----+ | +----------- Tetradium rutica(9) | | /----91----+ | | | | | \----------- Tetradium rutica(10) | | | | | | | | /----------- Tetradium rutica(11) | | | \----65-----+ | | /----51-----+ \----------- Tetradium rutica(12) | | | | | | | +---------------------------------- Tetradium tricho(13) | | /----83----+ | | | | | \---------------------------------- Tetradium tricho(14) | | | | | \----61-----+ \---------------------------------------------- Tetradium daniel(15) | | | \--------------------------------------------------------- Tetradium austro(16) | | /----------------------- Tetradium daniel(17) | | \---------------------------65---------------------------+ /----------- Tetradium daniel(18) \----55-----+ \----------- Tetradium daniel(19)

trnL intron strict consensus of 54 most parsimonious trees: /------------------------------------------------------------ Ruta graveolens | +------------------------------------------------------------ Ruta graveolens | | /----- Poncirus trifoli | /-----+ | | \----- Citrus species R | | | /-------------------------------------------+----------- Clausena lansium | | | | | \----------- Murraya kwangsie | | | | /----- Acronychia speci | | /-----+ | | | \----- Acronychia pedun | | | | | +----------- Acronychia acron | | /----------+ | | | | /----- Acronychia laevi | | | | | | | | \-----+----- Acronychia crass | | | | | | | \----- Acronychia vesti | | | | | /----+ /----------- Melicope rubra 2 | | | | | | | | | | /----- Melicope triphyl | | | | /----+-----+ | | | | | | \----- Melicope bonwick | | | | | | | | | \-----+ \----------- Melicope pteleif | | /-----+ | | | | | \---------------- Melicope ternata | | | | | | | | /---------------------- Euodia pubifolia | | | | | | | | | | /----- Melicope vitiflo | | | \----+ /----------+ | | | | | \----- Melicope vitiflo | | /----+ | | | | | | \-----+ /----------- Euodia hylandii | | | | | | | | | | \----+ /----- Euodia hortensis | | | | \-----+ | | | | \----- Euodia hortensis | | | | | | | | /----- Halfordia kendac | | | \---------------------------+ | | | \----- Halfordia kendac | | | | | | /----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium glabri | | | /-----+ | | | | +----- Tetradium glabri | | | | | | | | | +----- Tetradium glabri | | | | | | | | | +----- Tetradium tricho | | | | | | | | | +----- Tetradium tricho | | | | | | | | | +----- Tetradium glabri | | | /----+ | | | | | | +----- Tetradium austro \----+ | | | | | | | | \----- Tetradium tricho | | | | | | | | /----- Tetradium danie

| | | | | | | | | +----- Tetradium daniel | | | | | | | | \-----+----- Tetradium daniel | | | | | | | +----- Tetradium daniel | | /----------+ | | | | | \----- Tetradium daniel | | | | | | | | /----- Phellodendron ch | | | | | | | | | +----- Phellodendron la | /-----+ | | | | | | | | +----- Phellodendron ch | | | | | | | | | | | +----- Phellodendron am | | | | | | | | | | | +----- Phellodendron ch | | | | \----------+ | | | | +----- Phellodendron sa | | | | | | | | | +----- Phellodendron am | | | | | | | | | +----- Phellodendron la | | | | | | | | | +----- Phellodendron sa | | +----------+ | | | | | \----- Phellodendron ch | | | | | | | | /----- Zanthoxylum avic | | | | /-----+ | | | | | \----- Zanthoxylum avic | | | | /----------+ | | | | | \----------- Zanthoxylum sten | | | | | | | | | | /----- Zanthoxylum simu | | | | | /-----+ | | | | | | \----- Zanthoxylum bung | | | | | | | | | | | +----------- Zanthoxylum simu | | | | | | | /----+ | | | +----------- Zanthoxylum simu | | | | | | | | | | | | | /----+----------- Zanthoxylum arma | | | | | | | | | | | | \----+ | +----------- Zanthoxylum arma | | | | | | | | | | | | | +----------- Zanthoxylum niti | | | | +-----+ | | | | | | | \----------- Zanthoxylum pipe | | | | | | | | | | | | /----- Zanthoxylum amer | | | | | \----------+ | | | | | \----- Zanthoxylum amer | | | | | | | | | | /----- Toddalia asiatic | | | | | /-----+ | | | | | | \----- Toddalia asiatic | | | | \----------+ | | | | \----------- Toddalia species | | | | | | | +-------------------------------------- Dinosperma melan | | | | \-----+ | \-------------------------------------- Bosistoa medicin | | | | /----- Ptelea trifoliat | | | | | +----- Ptelea trifoliat | | | | \--------------------------------------+----- Ptelea trifoliat | | | +----- Ptelea polyadeni | | | \----- Ptelea augustifo | | /----- Orixa japonica 1 | | | /----------+----- Orixa japonica N | | | | | \----- Orixa japonica A | | | | /----- Skimmia anquetil

| | | | | +----- Skimmia reevesia | | | \--------------------------------+ +----- Skimmia japonica | | | +----- Skimmia japonica | /-----+ | | +----- Skimmia japonica | | | | | +----- Skimmia japonica | | | \----+ +----- Skimmia laureola | | | \----- Skimmia laureola | \----------- Casimiroa edulis

trnL intron jackknife 50% majority-rule consensus tree: /-------------------------------------------------------------------------------- Ruta graveolens (1) | +-------------------------------------------------------------------------------- Ruta graveolens (2) | | /-------- Poncirus trifoli(3) | /--86---+ | | \-------- Citrus species R(4) | | | /--------------------------100--------------------------+---------------- Clausena lansium(5) | | | | | \---------------- Murraya kwangsie(6) | | | | /-------- Acronychia speci(7) | | /--85---+ | | | \-------- Acronychia pedun(8) | | | | | +---------------- Acronychia acron(9) | | /------87-------+ | | | | /-------- Acronychia laevi(10) | | | | | | | | \--63---+-------- Acronychia crass(11) | | | | | | | \-------- Acronychia vesti(12) | | | | | /--93---+ /---------------- Melicope rubra 2(13) | | | | | | | | | | /-------- Melicope triphyl(14) | | | | /--64---+--63---+ | | | | | | \-------- Melicope bonwick(15) | | | | | | | | | \--62---+ \---------------- Melicope pteleif(16) | | /--100--+ | | | | | \------------------------ Melicope ternata(17) | | | | | | | | /-------------------------------- Euodia pubifolia(18) | | | | | | | | | | /-------- Melicope vitiflo(85) | | | \--88---+ /------87-------+ | | | | | \-------- Melicope vitiflo(86) | | /--96---+ | | | | | | \--64---+ /---------------- Euodia hylandii (87) | | | | | | | | | | \--62---+ /-------- Euodia hortensis(88) | | | | \--87---+ | | | | \-------- Euodia hortensis(89) | | | | | | | | /-------- Halfordia kendac(19) | | | \------------------100------------------+ | | | \-------- Halfordia kendac(20) | | | | | | /-------- Tetradium rutica(21) | | | | | | | +-------- Tetradium rutica(22) | | | | | | | +-------- Tetradium rutica(23) | | | | | | | +-------- Tetradium rutica(24) | | | | | | | +-------- Tetradium rutica(25) | | | | | | | +-------- Tetradium rutica(26) | | | | | | | +-------- Tetradium glabri(27) | | | /--94---+ | | | | +-------- Tetradium glabri(28) | | | | | | | | | +-------- Tetradium glabri(29) | | | | | | | | | +-------- Tetradium tricho(30) \--100--+ | | | | | | +-------- Tetradium tricho(31) | | | | | | | +-------- Tetradium glabri(32) | | /--84---+ | | | | | +-------- Tetradium austro(33) | | | | | | | | | \-------- Tetradium tricho(34) | | | | | | | | /-------- Tetradium danie(35) | | | | |

| | | | +-------- Tetradium daniel(36) | | | | | | | | \--62---+-------- Tetradium daniel(37) | | | | | | | +-------- Tetradium daniel(38) | | /------87-------+ | | | | | \-------- Tetradium daniel(39) | | | | | | | | /-------- Phellodendron ch(40) | | | | | | | | | +-------- Phellodendron la(41) | /--50---+ | | | | | | | | +-------- Phellodendron ch(42) | | | | | | | | | | | +-------- Phellodendron am(43) | | | | | | | | | | | +-------- Phellodendron ch(44) | | | | \------95-------+ | | | | +-------- Phellodendron sa(45) | | | | | | | | | +-------- Phellodendron am(46) | | | | | | | | | +-------- Phellodendron la(47) | | | | | | | | | +-------- Phellodendron sa(48) | | +------63-------+ | | | | | \-------- Phellodendron ch(49) | | | | | | | | /-------- Zanthoxylum avic(56) | | | | /--61---+ | | | | | \-------- Zanthoxylum avic(58) | | | | /------95-------+ | | | | | \---------------- Zanthoxylum sten(57) | | | | | | | | | | /-------- Zanthoxylum simu(59) | | | | | /--66---+ | | | | | | \-------- Zanthoxylum bung(60) | | | | | | | | | | | +---------------- Zanthoxylum simu(61) | | | | | | | | | | | +---------------- Zanthoxylum simu(62) | | | | | | | | | | | /--61---+---------------- Zanthoxylum arma(63) | | | | | | | | | | \--99---+ | +---------------- Zanthoxylum arma(64) | | | | | | | | | | | +---------------- Zanthoxylum niti(65) | | | +--64---+ | | | | | | \---------------- Zanthoxylum pipe(66) \--93---+ | | | | | | | /-------- Zanthoxylum amer(67) | | | \------86-------+ | | | \-------- Zanthoxylum amer(68) | | | | | | /-------- Toddalia asiatic(69) | | | /--64---+ | | | | \-------- Toddalia asiatic(70) | | \------65-------+ | | \---------------- Toddalia species(71) | | | +-------------------------------------------------------- Dinosperma melan(55) | | | \-------------------------------------------------------- Bosistoa medicin(75) | | /-------- Ptelea trifoliat(50) | | | +-------- Ptelea trifoliat(51) | | +--------------------------98---------------------------+-------- Ptelea trifoliat(52) | | | +-------- Ptelea polyadeni(53) | | | \-------- Ptelea augustifo(54) | | /-------- Orixa japonica 1(72) | | | /--98---+-------- Orixa japonica N(73) | | | | | \-------- Orixa japonica A(74) | | | | /-------- Skimmia anquetil(76) | | |

| | +-------- Skimmia reevesia(77) | | | | | +-------- Skimmia japonica(78) | | | \----------------------63-----------------------+ +-------- Skimmia japonica(79) +--68---+ | +-------- Skimmia japonica(80) | | | +-------- Skimmia japonica(81) | | | +-------- Skimmia laureola(82) | | | \-------- Skimmia laureola(83) | \---------------- Casimiroa edulis(84)

trnL-F spacer strict consensus of 18970 most parsimonious trees: /------------------------------------------------------------ Ruta graveolens | +------------------------------------------------------------ Ruta graveolens | | /------ Murraya kwangsie | /-----------------------------------------------+ | | \------ Clausena lansium | | | | /------------------------------------------------ Orixa japonica 1 | | | | | | /------ Skimmia japonica | | | | | | | +------ Skimmia laureola | | | | | | | +------ Skimmia japonica | | +-----------------------------------------+ | | | +------ Skimmia japonica \-----+ | | | | +------ Skimmia japonica | | | | | \------ Skimmia anquetil | | | +------------------------------------------------ Casimiroa edulis | | | | /------ Ptelea augustifo | | /-----------------------------------+ | | | \------ Ptelea polyadeni | | | \-----+ | /------ Euodia hortensis | | /-----+ | | | \------ Euodia hortensis | | | | | +------------ Melicope vitiflo | | /-----+ | | | +------------ Pitaviaster hapl | | | | | | | \------------ Euodia pubifolia | | | | | /-----+ /------ Acronychia speci | | | | /-----+ | | | | | \------ Acronychia pedun | | | | | | | | | +------------ Melicope rubra 2 | | | \-----+ | | /-----+ +------------ Melicope triphyl | | | | | | | | | | /------ Melicope ternata \-----+ | | \-----+ | | | \------ Melicope ternata | /-----+ | | | | \------------------------ Dinosperma melan | | | | | +------------------------------ Halfordia kendac | | | | | \------------------------------ Bosistoa medicin | | | | /------ Tetradium tricho | | | | | +------ Tetradium tricho | | | | | +------ Tetradium tricho | | | | | +------ Tetradium glabri | | | | | +------ Tetradium rutica | | | | | /-----------+------ Tetradium rutica | | | | | | | +------ Tetradium rutica \-----+ | | | | +------ Tetradium rutica | | | | | +------ Tetradium rutica | /-----+ | | | | +------ Tetradium rutica | | | | | | | \------ Tetradium austro | | | | | | /------------ Tetradium daniel | /-----+ | |

| | | \-----+ /------ Tetradium daniel | | | \-----+ | | | \------ Tetradium daniel | | | | | \------------------------ Phellodendron am | | | | /------------ Zanthoxylum simu | | | | | +------------ Zanthoxylum simu \-----+ | | +------------ Zanthoxylum niti | /-----+ | | | /------ Zanthoxylum simu | | +-----+ | | | \------ Zanthoxylum pipe | | | | | \------------ Zanthoxylum arma | | \-----------+------------------ Toddalia asiatic | +------------------ Toddalia species | +------------------ Zanthoxylum schi | \------------------ Zanthoxylum sten

trnL-F spacer jackknife 50% majority-rule consensus tree: /-------------------------------------------------------- Ruta graveolens (1) | +-------------------------------------------------------- Ruta graveolens (2) | | /------ Murraya kwangsie(3) | /--------------------100--------------------+ | | \------ Clausena lansium(53) | | | | /--------------------------------------------- Orixa japonica 1(4) | | | | | | /------ Skimmia japonica(5) | | | | | | | +------ Skimmia laureola(6) | | | | | | | +------ Skimmia japonica(7) | | +------------------72------------------+ | | | +------ Skimmia japonica(8) \-100-+ | | | | +------ Skimmia japonica(9) | | | | | \------ Skimmia anquetil(10) | | | +--------------------------------------------- Casimiroa edulis(11) | | | | /------ Ptelea augustifo(12) | | /--------------100---------------+ | | | \------ Ptelea polyadeni(13) | | | \-82-+ | /------ Euodia hortensis(14) | | /-95-+ | | | \------ Euodia hortensis(15) | | | | | +----------- Melicope vitiflo(16) | | /-90--+ | | | +----------- Pitaviaster hapl(17) | | | | | | | \----------- Euodia pubifolia(18) | | | | | /100-+ /------ Acronychia speci(19) | | | | /-62-+ | | | | | \------ Acronychia pedun(20) | | | | | | | | | +----------- Melicope rubra 2(21) | | | \-99--+ | | /-66--+ +----------- Melicope triphyl(22) | | | | | | | | | | /------ Melicope ternata(23) \-91--+ | | \-85-+ | | | \------ Melicope ternata(24) | /-66--+ | | | | \---------------------- Dinosperma melan(27) | | | | | +---------------------------- Halfordia kendac(25) | | | | | \---------------------------- Bosistoa medicin(26) | | | | /------ Tetradium tricho(28) | | | | | +------ Tetradium tricho(29) | | | | | +------ Tetradium tricho(30) | | | | | +------ Tetradium glabri(31) | | | | | +------ Tetradium rutica(32) | | | | | /----68----+------ Tetradium rutica(33) | | | | | | | +------ Tetradium rutica(34) \-69-+ | | | | +------ Tetradium rutica(35) | | | | | +------ Tetradium rutica(36) | /-82-+ | | | | +------ Tetradium rutica(37) | | | | | | | \------ Tetradium austro(38) | | | | | | /----------- Tetradium daniel(39) | /-97--+ | |

| | | \-95--+ /------ Tetradium daniel(40) | | | \-62-+ | | | \------ Tetradium daniel(41) | | | | | \---------------------- Phellodendron am(42) | | | | /----------- Zanthoxylum simu(43) | | | | | +----------- Zanthoxylum simu(44) \-63--+ | | +----------- Zanthoxylum niti(45) | /-95--+ | | | /------ Zanthoxylum simu(46) | | +-62-+ | | | \------ Zanthoxylum pipe(47) | | | | | \----------- Zanthoxylum arma(48) | | \----83----+----------------- Toddalia asiatic(49) | +----------------- Toddalia species(50) | +----------------- Zanthoxylum schi(51) | \----------------- Zanthoxylum sten(52)

ITS 1 + 2 together strict consensus of 12 trees: /------------------------------------------------------------------------------------ Ruta graveolens | +------------------------------------------------------------------------------------ Ruta graveolens | | /------ Ptelea trifoliat | /------+ | | \------ Ptelea trifoliat | | | /-----+------------- Ptelea augustifo | | | | /------------+ \------------- Ptelea trifoliat | | | | | \------------------- Casimiroa edulis | | | | /------ Skimmia anquetil | | /------+ | /------+ | \------ Skimmia anquetil | | | /------------+ | | | | \------------- Skimmia laureola | | | | | | | | /------ Skimmia japonica | | | | | | | \-----+ /------+------ Skimmia japonica | | | | | | /-------------------------------+ | /-----+ \------ Skimmia laureola | | | | | | | | | \------+ \------------- Skimmia japonica | | | | | | | \------------------- Skimmia japonica | | | | | | /------ Orixa japonica N | | \--------------------------------+ | | \------ Orixa japonica A | | | | /------ Phellodendron ch | | | | | +------ Phellodendron sa | | | | | +------ Phellodendron la | | | | | /--------------------------------------+------ Phellodendron la | | | | | | | +------ Phellodendron ch | | | | | | | +------ Phellodendron am | | | | | | | \------ Phellodendron sa | | | | | | /------ Tetradium rutica | | | /------+ | | | | \------ Tetradium rutica | | | /-----+ | | | | | /------ Tetradium rutica | | | | \------+ | | /------+ /------+ \------ Tetradium rutica | | | | | | | | | | | | /------ Tetradium rutica | | | | | \------------+ | | | | | \------ Tetradium rutica | /------+ | | /-----+ | | | | | | | /------ Tetradium tricho | | | | | | | /------+ | | | | | | | | \------ Tetradium tricho | | | | | /------+ \------------+ | | | | | | | \------------- Tetradium tricho | | | /-----+ | | | | | | | | | | \-------------------------------- Tetradium austro | | | | | \-----+ | | | | | | /------ Tetradium glabri | | | | | | | | | | | | \--------------------------------+------ Tetradium glabri | | | | | | | | | | | \------ Tetradium glabri | | | | | | | | | | /------ Tetradium daniel | | | | | | | | | | \---------------------------------------------+------ Tetradium daniel | | | | | | | | /------+ \------ Tetradium daniel

| | | | | | | | | | /------ Zanthoxylum amer | | | | | /------------+ | | | | | | \------ Zanthoxylum amer | | | | | | | | | | | /------+ /------ Zanthoxylum pipe | | | | | | | /------+ | | | | | | | | \------ Zanthoxylum pipe | | | | | | \-----+ | | | | | | | /------ Zanthoxylum simu | | | | | | \------+ | | | | | | \------ Zanthoxylum simu | | | | \-------------------------------+ | | | | | /------ Zanthoxylum avic | | | | | /------+ | | \-----+ | | \------ Zanthoxylum avic | | | +------------+ | | | | \------------- Zanthoxylum schi | | | | | | | \-------------------------- Toddalia asiatic | | | | | | /---------------------------------------------------------- Dinosperma melan | | | | \-----+ | | /---------------------------------------------------- Bosistoa medicin | | | | | | | | /------ Melicope vitiflo | | | | /------+ | | | | | \------ Melicope vitiflo | | | | /-----+ | | | | | \------------- Pitaviaster hapl | \------+ | | | | | /------+ /------ Euodia hortensis | | | | | /------+ | | | | | | \------ Euodia hortensis | | | /------------+ \-----+ | | | | | \------------- Euodia hylandii | | | | | | | | | \-------------------------- Euodia pubifolia | \-----+ | | | | /------ Melicope ternata | | | /-------------------+ | | | | \------ Melicope ternata | | /-----+ | | | | | /-----+ /------------------- Melicope pteleif | | | | | | | | | | | | | | /------ Melicope ellerya | | | | | \------+ /------+ | | | | | | | \------ Melicope rubra 2 | | | | | \-----+ | | | \------+ \------------- Melicope bonwick | | | | | | | | /------ Acronychia pedun | \------+ | /------+ | | | | \------ Acronychia acron | | | | | | \------------------+ /------ Acronychia laevi | | | | | | \------+------ Acronychia crass | | | | | \------ Acronychia vesti | | | | /------ Halfordia kendac | \--------------------------------------+ | \------ H kendack 282 | | /------ Atalantia buxifo \-----------------------------------------------------------------------+ \------ Citrus species R

ITS 1 + 2 together jackknife 50% majority-rule consensus tree: /-------------------------------------------------------------------------------- Ruta graveolens (1) | +-------------------------------------------------------------------------------- Ruta graveolens (2) | | /------ Ptelea trifoliat(3) | /-65--+ | | \------ Ptelea trifoliat(4) | | | /-------100--------+------------ Ptelea augustifo(5) | | | | | \------------ Ptelea trifoliat(6) | | | | /------ Orixa japonica N(9) | +-----------66-----------+ | | \------ Orixa japonica A(10) | | | | /------ Skimmia anquetil(11) | | /-97--+ | | | \------ Skimmia anquetil(12) | | /-----71-----+ | /-----------------55-----------------+ | \------------ Skimmia laureola(13) | | | | | | | | /------ Skimmia japonica(14) | | | | | | | +-97--+ /-63--+------ Skimmia japonica(15) | | | | | | | | | | /-86--+ \------ Skimmia laureola(16) | | | | | | | | | \--64--+ \------------ Skimmia japonica(17) | | | | | | | \------------------ Skimmia japonica(18) | | | | | \------------------------------- Casimiroa edulis(19) | | | | /------ Phellodendron ch(20) | | | | | +------ Phellodendron sa(21) | | | | | +------ Phellodendron la(22) | | | | | /-----------------97-----------------+------ Phellodendron la(23) | | | | | | | +------ Phellodendron ch(24) | | | | | | | +------ Phellodendron am(25) | | | | | | | \------ Phellodendron sa(26) | | | | | | /------ Tetradium rutica(30) | | | /-98--+ | | | | \------ Tetradium rutica(31) | | | /-72--+ | | | | | /------ Tetradium rutica(32) | | | | \-100-+ | | /-56--+ /-100--+ \------ Tetradium rutica(33) | | | | | | | | | | | | /------ Tetradium rutica(34) | | | | | \----61-----+ | /-66--+ | | | \------ Tetradium rutica(35) | | | | | /-84--+ | | | | | | | /------ Tetradium tricho(36) | | | | | | | /-91--+ | | | | | | | | \------ Tetradium tricho(37) | | | | | /-87--+ \-----68-----+ | | | | | | | \------------ Tetradium tricho(38) | | | /-63--+ | | | | | | | | | | \------------------------------- Tetradium austro(39) | | | | | \-90--+ | | | | | | /------ Tetradium glabri(40) | | | | | | /-64--+ | | | | | | | \------ Tetradium glabri(42) | | | | | \-----------80-----------+ | | | | | \------------ Tetradium glabri(41) | | | | | | | | | | /------ Tetradium daniel(27) | | | | | | | | | | \--------------------90--------------------+------ Tetradium daniel(28) | | | | | | | | | \------ Tetradium daniel(29) | | | |

| | | /--90--+ /------ Zanthoxylum amer(43) | | | | | /----94-----+ | | | | | | \------ Zanthoxylum amer(44) | | | | | | | | | | | /--85--+ /------ Zanthoxylum pipe(45) | | | | | | | /-64--+ | | | | | | | | \------ Zanthoxylum pipe(46) | | | | | | \-100-+ | | | | | | | /------ Zanthoxylum simu(47) | | | | | | \-87--+ | | | | | /-57--+ \------ Zanthoxylum simu(48) | | | | | | | | | | | | | | /------ Zanthoxylum avic(49) | | | | | | | /-97--+ | | | | \----------80-----------+ | | \------ Zanthoxylum avic(50) | | \-75--+ | \-----99-----+ | | | | \------------ Zanthoxylum schi(51) | | | | | | | \------------------------------- Toddalia asiatic(52) | | | | | | /------------------------------------------------------- Dinosperma melan(53) | | | | \-100-+ | | /------------------------------------------------- Bosistoa medicin(54) | | | | | | | | /------ Melicope vitiflo(55) | | | | /-100-+ | | | | | \------ Melicope vitiflo(56) | | | | /-52--+ | | | | | \------------ Pitaviaster hapl(57) | \--77--+ | | | | | /--55--+ /------ Euodia hortensis(59) | | | | | /-99--+ | | | | | | \------ Euodia hortensis(60) | | | /----83-----+ \-99--+ | | | | | \------------ Euodia hylandii (61) | | | | | | | | | \------------------------- Euodia pubifolia(58) | \-84--+ | | | | /------ Melicope ternata(62) | | | /-------100--------+ | | | | \------ Melicope ternata(63) | | /-100-+ | | | | | /-85--+ /------------------ Melicope pteleif(69) | | | | | | | | | | | | | | /------ Melicope ellerya(70) | | | | | \--99--+ /-65--+ | | | | | | | \------ Melicope rubra 2(71) | | | | | \-74--+ | | | \-98--+ \------------ Melicope bonwick(72) | | | | | | | | /------ Acronychia pedun(64) | \-88--+ | /-57--+ | | | | \------ Acronychia acron(65) | | | | | | \--------96--------+ /------ Acronychia laevi(66) | | | | | | \-54--+------ Acronychia crass(67) | | | | | \------ Acronychia vesti(68) | | | | /------ Halfordia kendac(73) | \----------------100-----------------+ | \------ H kendack 282(74) | | /------ Atalantia buxifo(7) \--------------------------------100--------------------------------+ \------ Citrus species R(8)

trnL – F entire region Strict consensus of 1000000 trees: /------------------------------------------------------------ Ruta graveolens | +------------------------------------------------------------ Ruta graveolens | | /----- Poncirus trifoli | /----+ | | \----- Citrus species R | | | /--------------------------------------------+---------- Clausena lansium | | | | | \---------- Murraya kwangsie | | | | /----- Acronychia speci | | /----+ | | | \----- Acronychia pedun | | | | | +---------- Acronychia acron | | /---------+ | | | | /----- Acronychia laevi | | | | | | | | \----+----- Acronychia crass | | | | | | | \----- Acronychia vesti | | | | | /----+ /---------- Melicope rubra 2 | | | | | | | | | | /----- Melicope triphyl | | | | /----+----+ | | | | | | \----- Melicope bonwick | | | | | | | | | \----+ \---------- Melicope pteleif | | /----+ | | | | | \--------------- Melicope ternata | | | | | | | | /-------------------- Euodia pubifolia | | | | | | | | | | /----- Melicope vitiflo | | | \----+ /---------+ | | | | | \----- Melicope vitiflo | | /----+ | | | | | | \----+ /---------- Euodia hylandii | | | | | | | | | | \----+ /----- Euodia hortensis | | | | \----+ | | | | \----- Euodia hortensis | | | | | | /----+ | /----- Halfordia kendac | | | | \------------------------+ | | | | \----- Halfordia kendac | | | | | | | +----------------------------------- Dinosperma melan | | | | | | | \----------------------------------- Bosistoa medicin | | | | | | /----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium glabri | | | /----+ | | | | +----- Tetradium glabri | | | | | | | | | +----- Tetradium glabri | | | | | | | | | +----- Tetradium tricho | | | | | \----+ | | +----- Tetradium tricho | | | | | | | +----- Tetradium glabri | | /----+ | | /----+ | | +----- Tetradium austro | | | | | |

| | | | | \----- Tetradium tricho | | | | | | | | | | /----- Tetradium danie | | | | | | | | | | | +----- Tetradium daniel | | | | | | | | | | \----+----- Tetradium daniel | | | | | | | | | +----- Tetradium daniel | | | /---------+ | | | | | | \----- Tetradium daniel | | | | | | | | | | /----- Phellodendron ch | | | | | | | | | | | +----- Phellodendron la | | | | | | | | | | | +----- Phellodendron ch | | | | | | | | | | | +----- Phellodendron am | | | | | | | | | | | +----- Phellodendron ch | | | | \---------+ | | | | +----- Phellodendron sa | | | | | | | | | +----- Phellodendron am | | | | | | | | | +----- Phellodendron la | | | | | | | | | +----- Phellodendron sa | | \--------------+ | | | | \----- Phellodendron ch | | | | | | /----- Zanthoxylum avic | /----+ | /----+ | | | | | \----- Zanthoxylum avic | | | | /---------+ | | | | | \---------- Zanthoxylum sten | | | | | | | | | | /----- Zanthoxylum simu | | | | | /----+ | | | | | | \----- Zanthoxylum bung | | | | | | | | | | | +---------- Zanthoxylum simu | | | | | | | | | | | +---------- Zanthoxylum simu | | | | | | | | | | | /----+---------- Zanthoxylum arma | | | | | | | | | | \----+ | +---------- Zanthoxylum arma | | | | | | | | | | | +---------- Zanthoxylum niti | | | +----+ | | | | | | \---------- Zanthoxylum pipe | | | | | | | | | | /----- Zanthoxylum amer | | | | \---------+ | | | | \----- Zanthoxylum amer | | | | | | | | /----- Toddalia asiatic \----+ | | /----+ | | | | \----- Toddalia asiatic | | \---------+ | | \---------- Toddalia species | | | | /----- Ptelea trifoliat | | | | | +----- Ptelea trifoliat | | | | \---------------------------------------+----- Ptelea trifoliat | | | +----- Ptelea polyadeni | | | \----- Ptelea augustifo | | /----- Orixa japonica 1 | | | /---------+----- Orixa japonica N | | | | | \----- Orixa japonica A | | | | /----- Skimmia anquetil | | |

| | +----- Skimmia reevesia | | | \----------------------------------+ +----- Skimmia japonica | | | +----- Skimmia japonica | /----+ | | +----- Skimmia japonica | | | | | +----- Skimmia japonica | | | \----+ +----- Skimmia laureola | | | \----- Skimmia laureola | \---------- Casimiroa edulis

trnL – F entire region jackknife 50% majority-rule consensus tree: /-------------------------------------------------------------------------------------- Ruta graveolens (1) | +-------------------------------------------------------------------------------------- Ruta graveolens (2) | | /------- Poncirus trifoli(3) | /-87--+ | | \------- Citrus species R(4) | | | /-------------------------------100-------------------------------+------------- Clausena lansium(5) | | | | | \------------- Murraya kwangsie(6) | | | | /------- Acronychia speci(7) | | /-89--+ | | | \------- Acronychia pedun(8) | | | | | +------------- Acronychia acron(9) | | /-----85-----+ | | | | /------- Acronychia laevi(10) | | | | | | | | \-63--+------- Acronychia crass(11) | | | | | | | \------- Acronychia vesti(12) | | | | | /--98--+ /------------- Melicope rubra 2(13) | | | | | | | | | | /------- Melicope triphyl(14) | | | | /--64--+-69--+ | | | | | | \------- Melicope bonwick(15) | | | | | | | | | \-63--+ \------------- Melicope pteleif(16) | | /-100--+ | | | | | \-------------------- Melicope ternata(17) | | | | | | | | /-------------------------- Euodia pubifolia(18) | | | | | | | | | | /------- Melicope vitiflo(85) | | | \--97--+ /-----88-----+ | | | | | \------- Melicope vitiflo(86) | | /-97--+ | | | | | | \-65--+ /------------- Euodia hylandii (87) | | | | | | | | | | \--75--+ /------- Euodia hortensis(88) | | | | \-95--+ | | | | \------- Euodia hortensis(89) | | /--56--+ | | | | | | /------- Halfordia kendac(19) | | | | \--------------100---------------+ | | | | \------- Halfordia kendac(20) | | /--71--+ | | | | | \---------------------------------------------- Dinosperma melan(55) | | | | | | | \----------------------------------------------------- Bosistoa medicin(75) | | | | | | /------- Tetradium rutica(21) | | | | | | | +------- Tetradium rutica(22) | | | | | | | +------- Tetradium rutica(23) | | | | | | | +------- Tetradium rutica(24) | | | | | | | +------- Tetradium rutica(25) | | | | | | | +------- Tetradium rutica(26) | | | | | | | +------- Tetradium glabri(27) | | | /-95--+ | | | | +------- Tetradium glabri(28) | | | | | | | | | +------- Tetradium glabri(29) | | | | | | | | | +------- Tetradium tricho(30) | | | | | \-100--+ | | +------- Tetradium tricho(31) | | | | | | | +------- Tetradium glabri(32) | | /--93--+ | | | | | +------- Tetradium austro(33)

| /-90--+ | | | | | | | | \------- Tetradium tricho(34) | | | | | | | | | | /------- Tetradium danie(35) | | | | | | | | | | | +------- Tetradium daniel(36) | | | | | | | | | | \-66--+------- Tetradium daniel(37) | | | | | | | | | +------- Tetradium daniel(38) | | | /-----99-----+ | | | | | | \------- Tetradium daniel(39) | | | | | | | | | | /------- Phellodendron ch(40) | | | | | | | | | | | +------- Phellodendron la(41) | | | | | | | | | | | +------- Phellodendron ch(42) | | | | | | | | | | | +------- Phellodendron am(43) | | | | | | | | | | | +------- Phellodendron ch(44) | | | | \-----95-----+ | | | | +------- Phellodendron sa(45) | | | | | | | | | +------- Phellodendron am(46) | | | | | | | | | +------- Phellodendron la(47) | | | | | | | | | +------- Phellodendron sa(48) | | \------------87------------+ | | | | \------- Phellodendron ch(49) | | | | | | /------- Zanthoxylum avic(56) | | | /-62--+ | /--90--+ | | \------- Zanthoxylum avic(58) | | | | /-----95-----+ | | | | | \------------- Zanthoxylum sten(57) | | | | | | | | | | /------- Zanthoxylum simu(59) | | | | | /-65--+ | | | | | | \------- Zanthoxylum bung(60) | | | | | | | | | | | +------------- Zanthoxylum simu(61) | | | | | | | | | | | +------------- Zanthoxylum simu(62) | | | | | | | | | | | /--68--+------------- Zanthoxylum arma(63) | | | | | | | | | | \--99--+ | +------------- Zanthoxylum arma(64) | | | | | | | | | | | +------------- Zanthoxylum niti(65) | | | +-71--+ | | | | | | \------------- Zanthoxylum pipe(66) | | | | | | | | | | /------- Zanthoxylum amer(67) | | | | \-----85-----+ | | | | \------- Zanthoxylum amer(68) | | | | | | | | /------- Toddalia asiatic(69) \-100-+ | | /-72--+ | | | | \------- Toddalia asiatic(70) | | \-----66-----+ | | \------------- Toddalia species(71) | | | | /------- Ptelea trifoliat(50) | | | | | +------- Ptelea trifoliat(51) | | | | \---------------------------100----------------------------+------- Ptelea trifoliat(52) | | | +------- Ptelea polyadeni(53) | | | \------- Ptelea augustifo(54) | | /------- Orixa japonica 1(72) | | | /-----98-----+------- Orixa japonica N(73) | | | | | \------- Orixa japonica A(74) | | | | /------- Skimmia anquetil(76)

| | | | | +------- Skimmia reevesia(77) | | | \-------------------------86-------------------------+ +------- Skimmia japonica(78) | | | +------- Skimmia japonica(79) | /-80--+ | | +------- Skimmia japonica(80) | | | | | +------- Skimmia japonica(81) | | | \--60--+ +------- Skimmia laureola(82) | | | \------- Skimmia laureola(83) | \------------- Casimiroa edulis(84)

Simultaneous analysis of all 4 loci strict consensus of 1000000 trees: /------------------------------------------------------------ Ruta graveolens | +------------------------------------------------------------ Ruta graveolens | | /----- Poncirus trifoli | /---+ | | \----- Citrus species R | | | /---------------------------------------------+--------- Clausena lansium | | | | | \--------- Murraya kwangsie | | | | /----- Acronychia speci | | /---+ | | | \----- Acronychia pedun | | /----+ | | | \--------- Acronychia acron | | | | | /--------+ /----- Acronychia laevi | | | | | | | | \--------+----- Acronychia crass | | | | | | | \----- Acronychia vesti | | | | | /----+ /--------- Melicope rubra 2 | | | | | | | | | /----+ /----- Melicope triphyl | | | | | \---+ | | | | /---+ \----- Melicope bonwick | | | | | | | | | \----+ \-------------- Melicope pteleif | | /---+ | | | | | \------------------ Melicope ternata | | | | | | | | /------------------ Euodia pubifolia | | | | | | | | | | /----- Melicope vitiflo | | | \---------+ /--------+ | | | | | \----- Melicope vitiflo | | /----+ | | | | | | \---+ /--------- Euodia hylandii | | | | | | | | | | \----+ /----- Euodia hortensis | | | | \---+ | | | | \----- Euodia hortensis | | /----+ | | | | | | /----- Halfordia kendac | | | | \--------------------------+ | | | | \----- Halfordia kendac | | /---+ | | | | | \------------------------------------- Bosistoa medicin | | | | | | | \------------------------------------------ Dinosperma melan | | | | | | /----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | | | | +----- Tetradium rutica | | | | \----+ | +----- Tetradium glabri | | /---+ | | | +----- Tetradium glabri | | | | | | | +----- Tetradium glabri | | | | | | | +----- Tetradium tricho | | | | | | | +----- Tetradium tricho | | | | | | | +----- Tetradium glabri | | /----+ | | | | | +----- Tetradium austro

| /----+ | | | | | | | | \----- Tetradium tricho | | | | | | | | | | /----- Tetradium danie | | | | | | | | | | | +----- Tetradium daniel | | | | | | | | | | \---+----- Tetradium daniel | | | | | | | | | +----- Tetradium daniel | | | /--------+ | | | | | | \----- Tetradium daniel | | | | | | | | | | /----- Phellodendron ch | | | | | | | | | | | +----- Phellodendron la | | | | | | | | | | | +----- Phellodendron ch | | | | | | | | | | | +----- Phellodendron am | | | | | | | | | | | +----- Phellodendron ch | | | | \--------+ | | | | +----- Phellodendron sa | | | | | | | | | +----- Phellodendron am | | | | | | | | | +----- Phellodendron la | | | | | | | | | +----- Phellodendron sa | | \----------------------+ | | | | \----- Phellodendron ch | | | | | | /----- Zanthoxylum avic | | | /---+ | | | | \----- Zanthoxylum avic | | | /--------+ | | | | \--------- Zanthoxylum sten | | | | | | | | /----- Zanthoxylum simu | | | | /---+ | | | | | \----- Zanthoxylum bung | | | | | | | | | +--------- Zanthoxylum simu \---+ | | | | | | +--------- Zanthoxylum simu | | | | | | | /----+--------- Zanthoxylum arma | | | | | | \----+ | +--------- Zanthoxylum arma | | | | | | | +--------- Zanthoxylum niti | +---+ | | | | \--------- Zanthoxylum pipe | | | | | | /----- Zanthoxylum amer | | \--------+ | | \----- Zanthoxylum amer | | | | /----- Toddalia asiatic | | /---+ | | | \----- Toddalia asiatic | \--------+ | \--------- Toddalia species | | /----- Ptelea trifoliat | | | +----- Ptelea trifoliat | | | /---+----- Ptelea trifoliat | | | | | +----- Ptelea polyadeni | /----+ | | | | \----- Ptelea augustifo | | | | | \--------- Casimiroa edulis | | | | /----- Skimmia anquetil | /---+ | | | | +----- Skimmia reevesia | | | | | | | +----- Skimmia japonica

| | | | | | | +----- Skimmia japonica | | \--------+ | | +----- Skimmia japonica | | | \--------------------------------+ +----- Skimmia japonica | | | +----- Skimmia laureola | | | \----- Skimmia laureola | | /----- Orixa japonica 1 | | \------------+----- Orixa japonica N | \----- Orixa japonica A

Simultaneous analysis of all 4 loci jackknife 50% majority-rule consensus tree: /-------------------------------------------------------------------------------- Ruta graveolens (1) | +-------------------------------------------------------------------------------- Ruta graveolens (2) | | /------ Poncirus trifoli(3) | /-90-+ | | \------ Citrus species R(4) | | | /-----------------------------100------------------------------+----------- Clausena lansium(5) | | | | | \----------- Murraya kwangsie(6) | | | | /------ Acronychia speci(7) | | /-88-+ | | | \------ Acronychia pedun(8) | | /-58--+ | | | \----------- Acronychia acron(9) | | | | | /----99-----+ /------ Acronychia laevi(10) | | | | | | | | \----81----+------ Acronychia crass(11) | | | | | | | \------ Acronychia vesti(12) | | | | | /100-+ /----------- Melicope rubra 2(13) | | | | | | | | | /-59--+ /------ Melicope triphyl(14) | | | | | \-66-+ | | | | /-91--+ \------ Melicope bonwick(15) | | | | | | | | | \-91--+ \----------------- Melicope pteleif(16) | | /-100-+ | | | | | \----------------------- Melicope ternata(17) | | | | | | | | /----------------------- Euodia pubifolia(18) | | | | | | | | | | /------ Melicope vitiflo(85) | | | \---100----+ /---100----+ | | | | | \------ Melicope vitiflo(86) | | /-99--+ | | | | | | \-76--+ /----------- Euodia hylandii (87) | | | | | | | | | | \-100-+ /------ Euodia hortensis(88) | | | | \100-+ | | | | \------ Euodia hortensis(89) | | /-85-+ | | | | | | /------ Halfordia kendac(19) | | | | \---------------100---------------+ | | | | \------ Halfordia kendac(20) | | /-79--+ | | | | | \---------------------------------------------- Bosistoa medicin(75) | | | | | | | \--------------------------------------------------- Dinosperma melan(55) | | | | | | /----------------------- Tetradium rutica(21) | | | | | | | +----------------------- Tetradium rutica(22) | | | | | | | | /----------- Tetradium rutica(23) | | | | | | | | | /-63--+ /------ Tetradium rutica(24) | | | | | \-92-+ | | | +-73--+ \------ Tetradium rutica(26) | | | | | | | | | \----------------- Tetradium rutica(25) | | | | | | | | /------ Tetradium glabri(27) | | | /-96--+ /-56-+ | | | | | | \------ Tetradium glabri(32) | | | | +----63-----+ | | | | | \----------- Tetradium glabri(29) | | | | | | | | | +----------------------- Tetradium glabri(28) | | | | | \-100-+ | | | /------ Tetradium tricho(30) | | | +-------85-------+ | | | | \------ Tetradium tricho(31) | | /-84-+ | | | | | +----------------------- Tetradium austro(33)

| /-91--+ | | | | | | | | \----------------------- Tetradium tricho(34) | | | | | | | | | | /------ Tetradium danie(35) | | | | | | | | | | | +------ Tetradium daniel(36) | | | | | | | | | | \----------74----------+------ Tetradium daniel(37) | | | | | | | | | +------ Tetradium daniel(38) | | | /-99--+ | | | | | | \------ Tetradium daniel(39) | | | | | | | | | | /------ Phellodendron ch(40) | | | | | | | | | | | +------ Phellodendron la(41) | | | | | | | | | | | +------ Phellodendron ch(42) | | | | | | | | | | | +------ Phellodendron am(43) | | | | | | | | | | | +------ Phellodendron ch(44) | | | | \------------94-------------+ | | | | +------ Phellodendron sa(45) | | | | | | | | | +------ Phellodendron am(46) | | | | | | | | | +------ Phellodendron la(47) | | | | | | | | | +------ Phellodendron sa(48) | | \-------99-------+ | | | | \------ Phellodendron ch(49) | | | | | | /------ Zanthoxylum avic(56) | | | /-77-+ | /-53--+ | | \------ Zanthoxylum avic(58) | | | | /----96-----+ | | | | | \----------- Zanthoxylum sten(57) | | | | | | | | | | /------ Zanthoxylum simu(59) | | | | | /-62-+ | | | | | | \------ Zanthoxylum bung(60) | | | | | | | | | | | | /------ Zanthoxylum simu(61) | | | | | +-60-+ | | | | | | \------ Zanthoxylum simu(62) | | | | | | | | | | | /-69--+----------- Zanthoxylum arma(63) | | | | | | | | | | \------100-------+ | +----------- Zanthoxylum arma(64) | | | | | | | | | | | +----------- Zanthoxylum niti(65) | | | +-84--+ | | | | | | \----------- Zanthoxylum pipe(66) | | | | | | | | | | /------ Zanthoxylum amer(67) | | | | \----98----+ | | | | \------ Zanthoxylum amer(68) | | | | | | | | /------ Toddalia asiatic(69) | | | | /-72-+ \100-+ | | | \------ Toddalia asiatic(70) | | \----62-----+ | | \----------- Toddalia species(71) | | | | /------ Ptelea trifoliat(50) | | /-54-+ | | | \------ Ptelea trifoliat(52) | | | | | +----------- Ptelea trifoliat(51) | \------------------------100------------------------+ | +----------- Ptelea polyadeni(53) | | | \----------- Ptelea augustifo(54) | | /------ Orixa japonica 1(72) | | | /------------98-------------+------ Orixa japonica N(73) | | | | | \------ Orixa japonica A(74) | | | | /------ Skimmia anquetil(76)

| | /----63----+ | | | \------ Skimmia laureola(83) | | | | | | /------ Skimmia japonica(78) \----------------52----------------+ | | | | /-59-+------ Skimmia japonica(80) | /-51--+ | | | | +-73--+ \------ Skimmia laureola(82) | | | | | | | \----------- Skimmia japonica(79) | /-87--+ | | | | \----------------- Skimmia japonica(81) | | | \-52-+ \----------------------- Skimmia reevesia(77) | \----------------------------- Casimiroa edulis(84)