Table S1. Species names and their authors, plant sources, and geographic origin of the sequenced material; plastid, mitochondrial and nuclear loci sequenced, and GenBank accession numbers of all sequences included in this study. An asterisk (*) marks sequences newly generated for this study.Herbarium acronyms follow Index Herbariorum at Papers associated with sequences downloaded from GenBank are cited at the end of the table; sources for sequencesfrom GenBank thatlack associated publications were listed as “GenBank”; the dagger symbol (†) indicates that DNA was extracted from herbarium material.
Part 1: Plastid sequencesTaxon / Voucher/Sourcea / Geographic origin of the sequenced material / matK
gene / petB-D spacer / psbB
gene / rbcL
gene / rps4
gene / trnL-F spacer
Cupressaceae
Actinostrobus acuminatusParl. / RBGE-E00175079† (E) / Australia: WA / JF725837* / JF725790* / JF725977* / JF725937* / JF725862* / JF725897*
Actinostrobus pyramidalisMiq. / RBGE-19923616 (E) / Australia: WA / JF725831* / JF725783* / JF725970* / JF725931* / EU161500 / JF725891*
Athrotaxis cupressoidesD.Don / RBGS-870661 (NSW) / Australia: TAS / JF725821* / JF725773* / JF725960* / JF725921* / JF725849* / JF725881*
Athrotaxis laxifoliaHook. / RBGS-850356 (NSW) / Australia: TAS / JF725822* / JF725774* / JF725961* / JF725922* / JF725850* / JF725882*
Athrotaxis selaginoidesD.Don / RBGE-E00182207† (E) / Australia: TAS / JF725838* / JF725791* / JF725978* / JF725938* / JF725863* / JF725898*
Austrocedrus chilensis(D.Don) Pic.Serm. & Bizzarri / RBGS-851219 (NSW) / S Chile / JF725823* / JF725775* / JF725962* / JF725923* / EU161501 / JF725883*
Callitris canescens (Parl.) S.T.Blake / RBGE-E00171664† (E) / Australia: WA / JF725845* / JF725798* / JF725985* / JF725945* / JF725870* / JF725905*
Callitris drummondii (Parl.) Benth. & Hook.f. ex F.Muell. / RBGE-E00175091† (E) / Australia: WA / JF725839* / JF725792* / JF725979* / JF725939* / JF725864* / JF725899*
Callitris endlicheri (Parl.) F.M.Bailey / RBGE-E00262094† (E) / Australia / JF725832* / JF725784* / JF725971* / JF725932* / JF725857* / JF725892*
Callitris macleayana (F.Muell.) F.Muell. / RBGE-E00210632† (E) / Australia: QLD / JF725833* / JF725785* / JF725972* / JF725933* / JF725858* / JF725893*
Callitris muelleri (Parl.) Benth. & Hook.f. ex F.Muell. / RBGS-941407 (NSW) / Australia: NSW / JF725824* / JF725776* / JF725963* / JF725924* / JF725851* / JF725884*
Callitris preissii Miq. / RBGE-E00166869† (E) / Australia: WA / JF725840* / JF725793* / JF725980* / JF725940* / JF725865* / JF725900*
Callitris rhomboidea R.Br. ex Rich. & A.Rich. / RBGS-CalRho (NSW) / Australia: NSW / JF725825* / JF725777* / JF725964* / JF725925* / JF725852* / JF725885*
Callitris sulcata (Parl.) Schltr. / RBGE-E00215041† (E) / New Caledonia / JF725841* / JF725794* / JF725981* / JF725941* / JF725866* / JF725901*
Callitris verrucosa (A.Cunn. ex Endl.) R.Br. ex Mirb. / RBGE-E00171784† (E) / Australia: SA / JF725842* / JF725795* / JF725982* / JF725942* / JF725867* / JF725902*
Callitropsis nootkatensis(D.Don) Oerst. ex D.P.Little / R. P. Adams-10309 (BAYLU) / Canada: BC / HM023980 / HM024076 / HM024173 / HM024268 / HM024353 / HM024614
Calocedrus decurrens(Torr.) Florin / RBGE-19913678-A (E) / U.S.A.: California / HM023981 / HM024077 / HM024174 / HM024269 / HM024354 / HM024532
Calocedrus macrolepisKurz / J. Q. Liu-KBG-CAM (LZU) / China / HM023982 / HM024078 / HM024175 / HM024270 / HM024355 / HM024533
Chamaecyparis formosensis Matsum. / RBGE-19763874 (E) / Taiwan / HM023983 / HM024079 / HM024176 / HM024271 / HM024356 / HM024534
Chamaecyparis lawsoniana (A.Murray) Parl. / J. Q. Liu-TBG-CHL (LZU) / U.S.A. / HM023984 / HM024080 / HM024177 / HM024272 / HM024357 / HM024535
Chamaecyparis obtusa (Siebold & Zucc.) Endl. / RBGE-19763586-A2 (E) / Japan: Honshu / HM023985 / HM024081 / HM024178 / HM024273 / HM024358 / HM024536
Chamaecyparis pisifera (Siebold & Zucc.) Endl. / RBGE-19763650-A3 (E) / Japan: Honshu / HM023986 / HM024082 / HM024179 / HM024274 / HM024359 / HM024537
Chamaecyparis thyoides(L.) Britton, Sterns & Poggenb. / RBGE-E00251815† (E);
Refs. 1-2 / U.S.A.: Massachusetts / AY380844 / JF725786* / JF725973* / AY380885 / JF725859* / AY988178
Cryptomeria japonicaD.Don / J. Q. Liu-TBG-CRJ (LZU); GenBank / Japan / JF725811* / JF725763* / JF725950* / JF725911* / AY188272 / JF725872*
Cunninghamia lanceolata(Lamb.) Hook. / J. Q. Liu-CunLan (LZU); GenBank / China: Sichuan / JF725810* / JF725762* / JF725949* / JF725910* / EF053202 / JF725871*
Cupressus atlantica Gaussen / RBGE-19980816 (E) / Morocco / HM023987 / HM024083 / HM024180 / HM024275 / HM024360 / HM008379
Cupressuscashmeriana Royle ex Carrière / G. S. Miehe 00-143-03 (MB) / Bhutan / HM023988 / HM024084 / HM024181 / AY988240 / HM024361 / HM008374
Cupressus chengiana S.Y.Hu / J. Q. Liu-2732-8 (LZU) / China: Sichuan / HM023989 / HM024085 / HM024182 / HM024276 / HM024362 / HM008368
Cupressus duclouxiana Hickel / J. Q. Liu-05038-6 (LZU) / China: Yunnan / HM023990 / HM024086 / HM024183 / HM024277 / HM024363 / HM008370
Cupressus funebris Endl. / J. Q. Liu-2005003-1 (LZU);
Ref. 2 / China: Sichuan / HM023991 / HM024087 / HM024184 / AY988244 / HM024364 / HM008363
Cupressus giganteaW.C.Cheng & L.K.Fu / J. Q. Liu-1170-1 (LZU); Ref. 2 / China: Xizang / HM023992 / HM024088 / HM024185 / AY988246 / HM024365 / HM008372
Cupressus jiangeensisN.Zhao / J. Q. Liu-2005007 (LZU); Ref. 2 / China: Sichuan / HM023993 / HM024089 / HM024186 / AY988249 / HM024366 / HM008365
Cupressus sempervirensL. / RBGE-19752308-B (E) / Croatia / HM023994 / HM024090 / HM024187 / HM024278 / HM024367 / HM008376
Cupressus torulosaD.Don / G. S. Miehe 99-89-06 (MB) / Nepal / HM023995 / HM024091 / HM024188 / AY988257 / HM024368 / HM008374
Diselma archeriHook.f. / RBGS-850340 (NSW) / Australia: TAS / JF725826* / JF725778* / JF725965* / JF725926* / JF725853* / JF725886*
Fitzroya cupressoides(Molina) I.M.Johnst. / RBGE-19991747-F (E) / S Chile / JF725816* / JF725768* / JF725955* / JF725916* / AY188275 / JF725876*
Fokienia hodginsiiA.Henry & H.H.Thomas / J. Q. Liu-KBG-FOH (LZU) / China / HM023996 / HM024092 / HM024189 / HM024279 / HM024369 / AY988216
Glyptostrobus pensilisK.Koch / J. Q. Liu-GlyPen (LZU); GenBank / China: Guangdong / JF725818* / JF725770* / JF725957* / JF725918* / EF053204 / JF725878*
Hesperocyparis abramsiana (C.B.Wolf) Bartel / RBGE-19792384-B (E) / U.S.A. / HM023997 / HM024093 / HM024190 / HM024280 / HM024370 / HM024538
Hesperocyparis arizonica (Greene) Bartel / RBGE-19911440 (E); Ref. 2 / Mexico / HM023998 / HM024094 / HM024191 / AY988253 / HM024371 / HM024539
Hesperocyparis bakeri (Jeps.) Bartel / RBGE-19970190 (E); Ref. 2 / U.S.A.: California / HM023999 / HM024095 / HM024192 / AY988237 / HM024372 / HM008375
Hesperocyparis forbesii (Jeps.) Bartel / RBGE-E00190536† (E) / U.S.A.: California / HM024000 / HM024096 / HM024193 / HM024281 / HM024373 / HM024540
Hesperocyparis glabra (Sudw.) Bartel / RBGE-19241011A (E) / U.S.A.: Arizona / HM024001 / HM024097 / HM024194 / HM024282 / HM024374 / HM024541
Hesperocyparis goveniana (Gordon) Bartel / RBGE-19970185 (E); Ref. 2 / U.S.A.: California / HM024002 / HM024098 / HM024195 / AY380888 / HM024375 / HM024542
Hesperocyparis lusitanica (Mill.) Bartel / J. Q. Liu-LSBG-CL (LZU); Ref. 2 / Mexico / HM024003 / HM024099 / HM024196 / AY988251 / HM024376 / HM024543
Hesperocyparis macnabiana (A.Murray) Bartel / RBGE-E00190656† (E) / U.S.A.: California / HM024004 / HM024100 / HM024197 / HM024283 / HM024377 / HM024544
Hesperocyparis macrocarpa (Hartw.) Bartel / RBGE-19687423-A (E) / U.S.A.: California / HM024005 / HM024101 / HM024198 / HM024284 / HM024378 / HM024545
Hesperocyparis montana (Wiggins) Bartel / J. Q. Liu-TBG-CUM (LZU); Ref. 2 / Mexico / HM024006 / HM024102 / HM024199 / AY988252 / HM024379 / HM024546
Hesperocyparis sargentii (Jeps.) Bartel / RBGK-DBN25376 (K) / U.S.A.: California / HM024007 / HM024103 / HM024200 / HM024285 / HM024380 / HM024547
Hesperocyparis stephensonii (C.B.Wolf) Bartel / RBGE-E00190655† (E) / U.S.A.: California / HM024008 / HM024104 / HM024201 / HM024286 / HM024381 / HM024548
Juniperus angosturana R.P.Adams / RBGK-DBN29482 (K) / Mexico / HM024009 / HM024105 / HM024202 / HM024287 / HM024382 / HM024549
Juniperus ashei J.Buchholz / RBGK-DBN29483 (K) / U.S.A.: Texas / HM024010 / HM024106 / HM024203 / HM024288 / HM024383 / HM024550
Juniperus bermudiana L. / RBGK-DBN25372 (K) / Bermuda / HM024011 / HM024107 / HM024204 / HM024289 / HM024384 / HM024551
Juniperus blancoiMartinez / RBGE-E00228241† (E) / Mexico / HM024012 / HM024108 / HM024205 / HM024290 / HM024385 / HM024552
Juniperus californicaCarrière / RBGK-DBN29484 (K) / U.S.A.: California / HM024013 / HM024109 / HM024206 / HM024291 / HM024386 / HM024553
Juniperus chinensisL. / J. Q. Liu-2740 (LZU) / China: Gansu / HM024014 / HM024110 / HM024207 / HM024292 / HM024387 / HM024554
Juniperus coahuilensis(Martínez) Gaussen ex R.P.Adams / R. P. Adams-10241 (BAYLU) / Mexico / HM024015 / HM024111 / HM024208 / HM024293 / HM024388 / HM024555
Juniperus comitanaMartinez / RBGE-E00096945† (E) / Mexico / HM024016 / HM024112 / HM024209 / HM024294 / HM024389 / HM024556
Juniperus communisL. / WO-2111 (LZU) / France / HM024017 / HM024113 / HM024210 / HM024295 / HM024390 / HM024557
Juniperus convalliumRehder & E.H.Wilson / J. Q. Liu-1128 (LZU) / China: Xizang / HM024020 / HM024116 / HM024213 / HM024298 / HM024393 / HM024560
Juniperus deltoidesR.P.Adams / WO-2002 (LZU) / Turkey / HM024021 / HM024117 / HM024214 / HM024299 / HM024394 / HM024561
Juniperus deppeana Steud. var. pachyphlaea (Torr.) Martinez / RBGK-DBN25374 (K) / U.S.A. / HM024022 / HM024118 / HM024215 / HM024300 / HM024395 / HM024562
Juniperus drupaceaLabill. / R. P. Adams-5651 (BAYLU) / Greece / HM024023 / HM024119 / HM024216 / HM024301 / HM024396 / HM024563
Juniperus durangensisMartinez / RBGE-E00228228† (E) / Mexico / HM024024 / HM024120 / HM024217 / HM024302 / HM024397 / HM024564
Juniperus excelsaM.Bieb. / WO-2001 (LZU) / Turkey / HM024025 / HM024121 / HM024218 / HM024303 / HM024398 / HM024565
Juniperus flaccida Schltdl. / R. P. Adams-6895 (BAYLU) / Mexico / HM024026 / HM024122 / HM024219 / HM024304 / HM024399 / HM024566
Juniperus formosana Hayata / J. Q. Liu-KBG-JFF (LZU) / China / HM024027 / HM024123 / HM024220 / HM024305 / HM024400 / HM024567
Juniperus gamboanaMartinez / RBGE-E00234344† (E) / Mexico / HM024029 / HM024125 / HM024222 / HM024307 / HM024402 / HM024569
Juniperus graciliorPilg. / RBGE-E00234351† (E) / Dominica / HM024031 / HM024127 / HM024224 / HM024309 / HM024404 / HM024571
Juniperus horizontalisMoench / R. P. Adams-10315 (BAYLU) / Canada: AB / HM024032 / HM024128 / HM024225 / HM024310 / HM024405 / HM024572
Juniperus indicaBertol. / G. S. Miehe 99-41-01 (MB) / Nepal / HM024033 / HM024129 / HM024226 / HM024311 / HM024406 / HM024573
Juniperus lucayanaBritton / RBGE-E00131658† (E) / Jamaica / HM024035 / HM024131 / HM024228 / HM024313 / HM024408 / HM024575
Juniperus microsperma(W.C.Cheng & L.K.Fu) R.P.Adams / J. Q. Liu-1216 (LZU) / China: Xizang / HM024036 / HM024132 / HM024229 / HM024314 / HM024409 / HM024576
Juniperus monosperma(Engelm.) Sarg. / R. P. Adams-10931 (BAYLU) / U.S.A.: New Mexico / HM024037 / HM024133 / HM024230 / HM024315 / HM024410 / HM024577
Juniperus monticolaMartinez / RBGK-DBN29486 (K) / Mexico / HM024038 / HM024134 / HM024231 / HM024316 / HM024411 / HM024578
Juniperus occidentalisHook. / RBGK-DBN29487 (K) / U.S.A.: Oregon / HM024039 / HM024135 / HM024232 / HM024317 / HM024412 / HM024579
Juniperus osteosperma(Torr.) Little / RBGK-DBN29488 (K) / U.S.A.: Utah / HM024040 / HM024136 / HM024233 / HM024318 / HM024413 / HM024580
Juniperus oxycedrusL. / WO-2113 (LZU) / France: Corsica / HM024041 / HM024137 / HM024234 / HM024319 / HM024414 / HM024581
Juniperus phoeniceaL. / WO-2118 (LZU) / France: Corsica / HM024042 / HM024138 / HM024235 / HM024320 / HM024415 / HM024582
Juniperus pinchotiiSudw. / R. P. Adams-10463 (BAYLU) / U.S.A.: Texas / HM024043 / HM024139 / HM024236 / HM024321 / HM024416 / HM024583
Juniperus pingiiW.C.Cheng / J. Q. Liu-1093 (LZU) / China: Xizang / HM024044 / HM024140 / HM024237 / HM024322 / HM024417 / HM024584
Juniperus proceraHochst. ex Endl. / R. P. Adams-6187 (BAYLU) / Ethiopia / HM024046 / HM024142 / HM024239 / HM024324 / HM024419 / HM024586
Juniperus procumbens(Endl.) Siebold ex Miq. / J. Q. Liu-TBG-JPR (LZU) / Japan / HM024047 / HM024143 / HM024240 / HM024325 / HM024420 / HM024587
Juniperus przewalskiiKom. / J. Q. Liu-1765 (LZU) / China: Qinghai / HM024048 / HM024144 / HM024241 / HM024326 / HM024421 / HM024588
Juniperus pseudosabinaFischer & C.A.Meyer / U. Wündisch-1084 (MB) / China: Xinjiang / HM024049 / HM024145 / HM024242 / HM024327 / HM024422 / HM024589
Juniperus recurvaBuch.-Ham. ex D.Don / J. Q. Liu-KBG-JREC (LZU) / China / HM024050 / HM024146 / HM024243 / HM024328 / HM024423 / HM024590
Juniperus rigidaSiebold & Zucc. / J. Q. Liu-TBG-JRIR (LZU) / Japan / HM024052 / HM024148 / HM024245 / HM024330 / HM024425 / HM024592
Juniperus sabinaL. / G. S. Miehe 96-00328 (MB) / Mongolia / HM024055 / HM024151 / HM024248 / HM024333 / HM024428 / HM024595
Juniperus saltillensisM.T.Hall / RBGK-DBN29489 (K) / Mexico / HM024056 / HM024152 / HM024249 / HM024334 / HM024429 / HM024596
Juniperus saltuariaRehder & E.H.Wilson / J. Q. Liu-1987 (LZU) / China: Sichuan / HM024057 / HM024153 / HM024250 / HM024335 / HM024430 / HM024597
Juniperus saxicolaBritton & P.Wilson / RBGE-E00251049† (E) / Cuba / HM024058 / HM024154 / HM024251 / HM024336 / HM024431 / HM024598
Juniperus scopulorumSarg. / R. P. Adams-10933 (BAYLU) / U.S.A.: New Mexico / HM024059 / HM024155 / HM024252 / HM024337 / HM024432 / HM024599
Juniperus semiglobosa Regel / G. S. Miehe-9178 (MB) / China: Xinjiang / HM024060 / HM024156 / HM024253 / HM024338 / HM024433 / HM024600
Juniperus squamataBuch.-Ham.ex D.Don / J. Q. Liu-1221 (LZU) / China: Xizang / HM024061 / HM024157 / HM024254 / HM024339 / HM024434 / HM024601
Juniperus taxifoliaHook. & Arn. / J. Q. Liu-TBG-JTA (LZU) / Japan / HM024062 / HM024158 / HM024255 / HM024340 / HM024435 / HM024602
Juniperus thuriferaL. / RBGK-DBN29493 (K) / Spain / HM024063 / HM024159 / HM024256 / HM024341 / HM024436 / HM024603
Juniperus tibeticaKom. / J. Q. Liu-1240 (LZU) / China: Xizang / HM024064 / HM024160 / HM024257 / HM024342 / HM024437 / HM024604
Juniperus virginianaL. / R. P. Adams-10230 (BAYLU) / U.S.A.: Tennessee / HM024065 / HM024161 / HM024258 / HM024343 / HM024438 / HM024605
Libocedrus bidwilliiHook.f. / RBGS-913643 (NSW) / New Zealand / JF725827* / JF725779* / JF725966* / JF725927* / JF725854* / JF725887*
Libocedrus plumosa (D.Don) Druce / RBGS-12643 (NSW) / New Zealand / JF725828* / JF725780* / JF725967* / JF725928* / JF725855* / JF725888*
Metasequoia glyptostroboidesHu & W.C.Cheng / J. Q. Liu-LZU-MTG (LZU); GenBank / China / JF725815* / JF725767* / JF725954* / JF725915* / EF053201 / JF725875*
Microbiota decussata Kom. / RBGE-19881677-C (E) / Russia / HM024066 / HM024162 / HM024259 / HM024344 / HM024439 / HM024606
Neocallitropsis pancheri(Carrière) de Laub. / RBGE-E00166346† (E) / New Caledonia / JF725834* / JF725787* / JF725974* / JF725934* / JF725860* / JF725894*
Papuacedrus papuana(F.Muell.) H.L.Li / RBGE-17680055-C (E); GenBank / Papua New Guinea / JF725835* / JF725788* / JF725975* / JF725935* / EU161503 / JF725895*
Pilgerodendron uviferumFlorin / RBGS-851198 (NSW); GenBank / Chile / JF725829* / JF725781* / JF725968* / JF725929* / EU161504 / JF725889*
Platycladus orientalis(L.) Franco / J. Q. Liu-LZU-PLO (LZU) / China / HM024067 / HM024163 / HM024260 / HM024345 / HM024440 / HM024607
Sequoia sempervirensEndl. / J. Q. Liu-SeqSem (LZU); Ref. 3; GenBank / U.S.A.: California / JF725814* / JF725766* / JF725953* / JF725914* / EF053194 / AB030051
Sequoiadendron giganteum (Lindl.) J.Buchholz / J. Q. Liu-SqdGig (LZU); GenBank / U.S.A.: California / JF725820* / JF725772* / JF725959* / JF725920* / AY188267 / JF725880*
Taiwania cryptomerioidesHayata / J. Q. Liu-KBG-TWC (LZU); GenBank / Taiwan / JF725819* / JF725771* / JF725958* / JF725919* / AY188274 / JF725879*
Taxodium distichum (L.) Rich. / J. Q. Liu-TadDis (LZU); GenBank / U.S.A. / JF725812* / JF725764* / JF725951* / JF725912* / AY188270 / JF725873*
Taxodium mucronatumTen. / J. Q. Liu-TadMuc (LZU); GenBank / Mexico / JF725813* / JF725765* / JF725952* / JF725913* / EF053203 / JF725874*
Tetraclinis articulata Mast. / RBGK-DBN17900 (K) / Morocco / HM024068 / HM024164 / HM024261 / HM024346 / HM024441 / HM024608
Thuja koraiensisNakai / RBGE-19699308-A (E) / South Korea / HM024069 / HM024165 / HM024262 / HM024347 / HM024442 / HM024609
Thuja occidentalisL. / J. Q. Liu-KBG-THO (LZU) / U.S.A. / HM024070 / HM024166 / HM024263 / HM024348 / HM024443 / HM024610
Thuja plicataDonn ex D.Don / RBGE-19861190-A1 (E) / U.S.A.: Washington / HM024071 / HM024167 / HM024264 / HM024349 / HM024444 / HM024611
Thuja standishiiCarrière / J. Q. Liu-TBG-THS (LZU) / Japan / HM024072 / HM024168 / HM024265 / HM024350 / HM024445 / HM024612
Thujopsis dolabrataSiebold & Zucc. / J. Q. Liu-TBG-TOD (LZU) / Japan / HM024073 / HM024169 / HM024266 / HM024351 / HM024446 / HM024613
Widdringtonia cedarbergensisJ.A.Marsh / RBGE-19642703-A1 (E) / South Africa / JF725836* / JF725789* / JF725976* / JF725936* / JF725861* / JF725896*
Widdringtonia nodiflora(L.) E.Powrie / RBGS-852310 (NSW) / South Africa / JF725830* / JF725782* / JF725969* / JF725930* / JF725856* / JF725890*
Widdringtonia schwarzii (Marloth) Mast. / RBGE-E00096714† (E) / South Africa / JF725843* / JF725796* / JF725983* / JF725943* / JF725868* / JF725903*
Widdringtonia whyteiRendle / RBGE-E00096742† (E) / South Africa / JF725844* / JF725797* / JF725984* / JF725944* / JF725869* / JF725904*
Xanthocyparis vietnamensisFarjon & T.H.Nguyên / R. P. Adams-10142 (BAYLU); Ref. 2 / Viet Nam / HM024074 / HM024170 / HM024267 / HM024352 / HM024447 / AY988229
Taxaceaesensu lato
Amentotaxus argotaenia(Hance) Pilg. / J. Q. Liu-AmtArg (LZU); GenBank / China: Xizang / JF725848* / JF725809* / JF725991* / JF725948* / DQ478797 / JF725909*
Cephalotaxus sinensis(Rehder & E.H.Wilson) H.L.Li / RBGE-19951682-A1 (E); GenBank / China / JF725846* / JF725799* / JF725986* / JF725946* / AY188264 / JF725906*
Taxus wallichianaZucc. / J. Q. Liu-TaxWal (LZU); GenBank / China: Yunnan / JF725847* / JF725808* / JF725990* / JF725947* / DQ478802 / JF725908*
Sciadopityaceae
Sciadopitys verticillataSiebold & Zucc. / J. Q. Liu-TBG-SciVer (LZU); GenBank / Japan / JF725817* / JF725769* / JF725956* / JF725917* / AY188262 / JF725877*
Araucariaceae
Agathis australis(D.Don) Lindl. / RBGE-19981002 (E); Ref. 4; GenBank / New Zealand / - / JF725806* / AF528892 / - / - / AY083115
AY083071
A. dammara(Lamb.) Rich. & A. Rich. / Refs. 5, 6 / Philippines / EU164996 / - / - / U96477 / EU165031 / -
Araucaria araucana(Molina.)K.Koch. / J. Q. Liu-AraAra (LZU); Refs. 6-10 / Chile / AF456373 / JF725801* / AF222701 / AF249664 / FJ179545 / AY145322
AY145321
Wollemia nobilisW.G.Jones, K.D.Hill & J.M.Allen / J. Q. Liu-WolNob (LZU); Refs. 6, 9; GenBank / Australia: NSW / AF456377 / JF725805* / EF490511 / U87757 / EU165036 / JF725907*
Podocarpaceae sensu lato
Acmopyle pancheriPilg. / J. Q. Liu-AcmPan (LZU); Ref. 4; GenBank / New Caledonia / EU161482 / JF725800* / JF725987* / - / EU161499 / AY083141
AY083097
A. sahnianaJ.Buchholz & N.E.Gray / Ref. 7 / Fiji / - / - / - / AF249591 / - / -
Dacrycarpus imbricatus(Blume) de Laub. / J. Q. Liu-DacImb (LZU); Refs. 4, 7; GenBank / China / EU161485 / JF725802* / JF725988* / AF249592 / DQ478805 / AY083140
AY083096
Nageia nagi(Thunb.) Kuntze / J. Q. Liu-NagNag (LZU); Refs. 7, 11-12; GenBank / China / AB023990 / JF725803* / JF725989* / AF249648 / AY188248 / EF660630
AY013733
Phyllocladus alpinusHook.f. / GenBank / New Zealand / - / - / AF528905 / - / - / -
P. aspleniifolius(Labill.) Hook.f. / GenBank / Australia: TAS / - / - / - / - / AY188258 / -
P. hypophyllus Hook.f. / RBGE-19682563 (E); Refs. 4, 7, 13 / Papua New Guinea / AY442148 / JF725807* / - / AF249653 / - / AY083116
AY083072
Podocarpus chinensis Sweet / Ref. 14 / China / - / - / AF469711 / - / - / -
P. latifolius(Thunb.) R.Br. ex Mirb. / GenBank / South Africa / - / - / - / - / AY188250 / -
P. macrophyllus(Thunb.) Sweet / J. Q. Liu-PodMac (LZU); Refs. 7, 12, 15; / China / AF228111 / JF725804* / - / AF249616 / - / EF660631
Pinaceae
Abies firmaSiebold & Zucc. / Ref. 16, 17 / Japan / - / FJ899565 / FJ899565 / AB015647 / FJ899565 / -
A. holophyllaMaxim. / Ref. 18 / China / AF143441 / - / - / - / - / -
A. veitchiiLindl. / Ref. 19 / Japan / - / - / - / - / - / EF395416
Cathaya argyrophyllaChun & Kuang / Refs. 18, 20-21 / China / AF143435 / AB547400 / AB547400 / AF015786 / EF053197 / DQ010639
Cedrus deodara(Roxb. ex Lamb.) G.Don / Refs. 16,22 / India / AF456366 / FJ899573 / FJ899573 / AF456381 / FJ899573 / DQ983638
Keteleeria davidiana(C.E.Bertrand) Beissn. / Ref. 23; GenBank / China / AF295027 / AP010820 / AP010820 / AP010820 / AP010820 / -
K. evelynianaMast. / Ref. 19 / China / - / - / - / - / - / EF395417
Larix occidentalisNutt. / Ref. 16 / Canada / FJ899578 / FJ899578 / FJ899578 / FJ899578 / FJ899578 / FJ899578
Picea morrisonicola Hayata / Ref. 20 / Taiwan / - / - / AB547977 / - / - / -
P. sitchensis (Bong.) Carrière / Ref. 24; GenBank / U.S.A.: Oregon / - / EU998739 / - / EF440602 / - / EF440565
P. smithiana (Wall.) Boiss. / GenBank / Nepal / AY035199 / - / - / - / AY188226 / -
Pinus strobusL. / Refs. 16,21 / U.S.A.: Virginia / FJ899560 / FJ899560 / FJ899560 / FJ899560 / FJ899560 / DQ010640
Pinus sylvestris L. / GenBank / Ukraine / JN854158 / JN854158 / JN854158 / JN854158 / JN854158 / JN854158
Ginkgoaceae
Ginkgo bilobaL. / Refs. 10, 25-26 / China / DQ069584 / DQ069572
AY590877
DQ923066 / DQ069650 / DQ069500 / EF053205 / AY145323
Cycadaceae
Cycas revoluta Thunb. / GenBank / Japan / - / - / - / - / - / AF531181
C. taitungensis C.F.Shen et al. / Refs. 27-28; / Taiwan / AB076231 / AP009339 / AP009339 / AP009339 / AP009339 / -
Magnoliaceae
Liriodendron tulipiferaL. / Refs. 29-30 / U.S.A. / AF123480 / DQ899947 / DQ899947 / DQ899947 / DQ899947 / DQ899947
Part 2: Mitochondrial and nuclear sequences
Taxon / Voucher/Source / Geographic origin of the sequenced material / atp1
gene / coxI
gene / 18S
rDNA / 26S
rDNA
Cupressaceae
Actinostrobus pyramidalis Miq. / RBGE-19923616 (E); GenBank / Australia: WA / EU161369 / EU161420 / JF725729* / EU161332
Athrotaxis cupressoides D.Don / RBGS-870661 (NSW); GenBank / Australia: TAS / EU182917 / JF725708* / JF725734* / JF725743*
Austrocedrus chilensis (D.Don)
Pic.Serm. & Bizzarri / RBGS-851219 (NSW); GenBank / S Chile / EU161372 / EU161425 / JF725723* / EU161333
Callitris mulleri (Parl.) Benth. &Hook.f. ex F.Muell. / RBGS-941407 (NSW) / Australia: NSW / JF725754* / JF725709* / JF725724* / JF725744*
Callitris preisii Miq. / RBGE-E00166869† (E); GenBank / Australia: WA / EU161375 / EU161428 / JF725735* / EU161317
Callitropsis nootkatensis (D.Don)Oerst. ex D.P.Little / R. P. Adams-10309 (BAYLU) / Canada: BC / JF725751* / JF725704* / JF725716* / JF725738*
Calocedrus decurrens(Torr.)Florin / RBGE-19913678-A (E); GenBank / U.S.A.: California / JF725757* / JF725712* / D85293 / JF725747*
Chamaecyparis pisifera(Siebold& Zucc.) Endl. / RBGE-19763650-A3 (E);Ref. 6; GenBank / Japan: Honshu / EU161379 / EF053140 / JF725730* / EU161307
Cryptomeria japonica D.Don / Refs. 6, 31 / Japan / EU182912 / DQ478768 / D85304 / EU161341
Cunninghamia konishii Hayata
/C. lanceolata(Lamb.) Hook. / Ref. 32; Genkbank / China /Taiwan / EU182915 / AF020560 / EU273292 / EU161345
Cupressus giganteaW.C.Cheng& L.K.Fu / J. Q. Liu-1170-1 (LZU); GenBank / China: Xizang / EU161382 / JF725702* / EF053166 / EU161342
Diselma archeriHook.f. / RBGS-850340 (NSW) / Australia: TAS / JF725755* / JF725710* / JF725725* / JF725745*
Fitzroya cupressoidesI.M.Johnst. / RBGE-19991747-F (E) / S Chile / JF725753* / JF725707* / JF725721* / JF725742*
Fokienia hodginsii A.Henry &H.H.Thomas / GenBank / China / EU161389 / EF053143 / EU273295 / EU161352
Glyptostrobus pensilis K.Koch / GenBank / China / EU161390 / EF053149 / EF053177 / EU161357
Hesperocyparis macrocarpa(Hartw.) Bartel / RBGE-19687423-A (E) / U.S.A.: California / JF725758* / JF725713* / JF725731* / JF725748*
Juniperus drupacea Labill. / R. P. Adams-5651 (BAYLU) / Greece / JF725752* / JF725705* / JF725717* / JF725739*
Juniperus formosana Hayata / J. Q. Liu-KBG-JFF (LZU); GenBank / China / EU182921 / JF725706* / JF725719* / JF725741*
Juniperus virginiana L. / R. P. Adams-10230 (BAYLU); Ref. 29 / U.S.A.: Tennessee / AF209106 / AF020567 / JF725718* / JF725740*
Libocedrus plumosa (D.Don)Druce / RBGS-12643 (NSW) / New Zealand / JF725756* / JF725711* / JF725726* / JF725746*
Metasequoia glyptostroboides Hu
& W.C.Cheng / Refs. 6, 32; GenBank / China / EU182905 / AF020569 / EF053174 / EU161306
Microbiota decussata Kom. / RBGE-19881677-C (E); GenBank / Russia / EU161397 / EU161438 / JF725720* / EU161322
Neocallitropsis pancheri(Carrière) de Laub. / RBGE-E00166346† (E) / New Caledonia / JF725759* / JF725715* / JF725736* / JF725750*
Papuacedrus papuana (F.Muell.)H.L.Li / RBGE-17680055-C (E); GenBank / Papua New
Guinea / EU161402 / EU161441 / JF725732* / EU161337
Pilgerodendron uviferum Florin / RBGS-851198 (NSW); GenBank / Chile / EU161404 / EU161442 / JF725727* / EU161338
Platycladus orientalis (L.) Franco / GenBank / China / EU182920 / EF053142 / EF053168 / EU161349
Sequoia sempervirens Endl. / GenBank / U.S.A.: California / EU182913 / EF053145 / EF053171 / EU161355
Sequoiadendron giganteum(Lindl.) J.Buchholz / J. Q. Liu-SqdGig (LZU); GenBank / U.S.A.: California / EU161411 / EF053146 / JF725722* / EU161324
Taiwania cryptomerioides Hayata / J. Q. Liu-KBG-TWC (LZU); GenBank / Taiwan / EU182914 / EF053148 / FJ009673 / EU161343
Taxodium mucronatum Ten. / Ref. 32; GenBank / Mexico / EU182908 / AF020578 / EF053176 / EU161346
Tetraclinis articulata Mast. / GenBank / Morocco / EU161414 / EU161447 / EU161293 / EU161321
Thuja plicata Donn ex D.Don / RBGE-19861190-A1 (E) / Washington / JF725760* / JF725714* / JF725733* / JF725749*
Thujopsis dolabrata Siebold &Zucc. / GenBank / Japan / EU161416 / EF053146 / EF053172 / EU161358
Widdringtonia nodiflora (L.)E.Powrie / RBGS-852310 (NSW) / South Africa / EU161418 / EU161448 / JF725728* / EU161316
Xanthocyparis vietnamensisFarjon & T.H.Nguyên / R. P. Adams-10142 (BAYLU) / Viet Nam / JF725761* / JF725703* / EU273293 / JF725737*
Taxaceaesensu lato
Amentotaxus argotaenia (Hance)Pilg. / GenBank / China / EU161459 / DQ478763 / DQ478809 / EU161466
Cephalotaxus sinensis (Rehder &E.H.Wilson) H.L.Li / Refs. 6, 31-33 / China / DQ646222 / AF020559 / D38241 / EU161354
Taxus wallichiana Zucc. / GenBank / China / EU161453 / DQ478766 / EU107116 / EU161464
Sciadopityaceae
Sciadopitys verticillata Siebold &Zucc. / Refs. 6, 31-32 / Japan / EU161409 / AF020576 / D85292 / EU161318
Araucariaceae
Agathis australis (D.Don) Lindl. / Ref. 6 / New Zealand / EU165016 / EU165024 / EU164977 / EU165001
Araucaria araucana (Molina.)K.Koch. / J. Q. Liu-AraAra (LZU) / Chile / FJ179547 / FJ179546 / FJ179543 / FJ179544
Wollemia nobilis W.G.Jones,K.D.Hill & J.M.Allen / Ref. 6 / Australia: NSW / EU165019 / EU165029 / EU164983 / EU165007
Podocarpaceae sensu lato
Acmopyle pancheri Pilg. / Ref. 34; GenBank / New Caledonia / EU161368 / EU161419 / AF342758 / EU161331
Dacrycarpus imbricatus (Blume)de Laub. / Refs. 31, 35; GenBank / China / EU161383 / EU161430 / D38247 / EU161360
Nageia nagi (Thunb.) Kuntze / Refs. 6, 31, 36 / China / EU161400 / DQ478773 / D16447 / EU161315
Phyllocladus aspleniifolius (Labill.) Hook.f. / Ref. 32 / New Zealand / DQ646219 / - / - / -
P. hypophyllus Hook.f. / Ref. 37 / Papua New Guinea / - / - / U87300 / -
P.trichomanoides D.Don / Refs. 6, 33 / New Zealand / - / AF020573 / - / EU161339
Podocarpus macrophyllus (Thunb.)Sweet / Refs. 32, 38, 39 / China / AF197620 / AF020575 / - / DQ008664
P. novae-caledoniae Vieill. ex Brongn. & Gris / Ref. 34 / New Caledonia / - / - / AF342766 / -
Pinaceae
Abies bracteata (D.Don) Poit. / Ref. 32; GenBank / U.S.A.: California / - / AF020556 / AB026932 / -
A. fabri (Mast.) Craib / Ref. 6 / China / - / - / - / EU161347
A. homolepis Siebold & Zucc. / Ref. 33 / China / DQ646224 / - / - / -
Cathaya argyrophylla Chun &Kuang / GenBank / China / EU161377 / DQ987884 / AB026934 / EU161356
Cedrus atlantica (Endl.) Manetti ex Carrièr / GenBank / Morocco / - / DQ987881 / - / EU161348
C. deodara (Roxb. ex Lamb.) G.Don / Ref. 33; GenBank / India / DQ646223 / - / AB026935 / -
Keteleeria davidiana(C.E.Bertrand) Beissn. / GenBank / China / EU161391 / DQ987885 / DQ987895 / EU161359
Picea smithiana (Wall.) Boiss. / Ref. 6 / Nepal / EU161403 / DQ987880 / DQ987890 / EU161351
Pinus massoniana Lamb. / GenBank / China / - / - / - / EU161304
P. strobusL. / Ref. 32 / U.S.A. / AF209108 / AF020574 / - / -
P. wallichiana A.B.Jacks. / GenBank / China / - / - / X75080 / -
Ginkgoaceae
Ginkgo bilobaL. / Refs. 31-32, 40 / China / AF209110 / AF020565 / D16448 / AY095475
Cycadaceae
Cycas revoluta Thunb. / Ref. 39 / Japan / - / - / - / DQ008667
C. taitungensis C.F.Shen et al. / Refs. 31, 41-42 / Taiwan / AP009381 / AP009381 / D85297 / -
Magnoliaceae
Liriodendron chinense (Hemsl.) Sarg. / Ref. 40 / China / - / - / - / AY095464
L. tulipifera L. / GenBank, Ref. 43 / U.S.A. / AY394730 / AF193959 / AF206954 / -
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