Table 1 Data sources for phylogenomics analyses

Arabidopsis thaliana

genome

n/a

n/a

Brachypodium distachyon

genome

n/a

n/a

Carica papaya

genome

n/a

n/a

Medicago truncatula

genome

n/a

n/a

Oryza sativa

genome

n/a

n/a

Physcomitrella patens

genome

n/a

n/a

Populus trichocarpa

genome

n/a

n/a

Selaginella moellendorffii

genome

n/a

n/a

Sorghum bicolor

genome

n/a

n/a

Vitis vinifera

genome

n/a

n/a

Zea mays

genome

n/a

n/a

Aquilegia formosa

meta-assembly

PlantGDB

AQUI

Cycas rumphii

meta-assembly

SRX022306, SRX022215

CYCA

Liriodendron tulipifera

meta-assembly

PRJNA46857

LIRI

Persea americana

meta-assembly

PRJNA46857

PERS

Pinus taeda

meta-assembly

PRJNA79733

PINU

Pteridium aquilinum

meta-assembly

PRJNA48473

PTER

Zamia vazquezii

meta-assembly

PRJNA46857

ZAMI

Acorus americanus

OneKP meta-assembly

ERR364395, PRJNA46857

ACOR

Amborella trichopoda

OneKP meta-assembly

ERR364329, PRJNA46857

AMBO

Catharanthus roseus

OneKP meta-assembly

ERR364390, PRJNA79951, PRJNA236160

CATH

Eschscholzia californica

OneKP meta-assembly

ERR364338, ERR364335, ERR364336, ERR364337, ERR364334, SRX002988, SRX002987, PlantGDB

ESCH

Ginkgo biloba

OneKP meta-assembly

ERR364401, PlantGDB

GINK

Nuphar advena

OneKP meta-assembly

ERR364330, PRJNA46857

NUPH

Ophioglossum petiolatum

OneKP meta-assembly

ERR364410, SRX666586

OPHI

Saruma henryi

OneKP meta-assembly

ERR364383, PRJNA46857

SARU

Welwitschia mirabilis

OneKP meta-assembly

ERR364404, PRJNA46857

WELW

Allamanda cathartica

OneKP

ERR364389

MGVU

Angiopteris evecta

OneKP

ERR364409

NHCM

Anomodon attenuatus

OneKP

ERR364349

QMWB

Bazzania trilobata

OneKP

ERR364415

WZYK

Boehmeria nivea

OneKP

ERR364387

ACFP

Bryum argenteum

OneKP

ERR364348

JMXW

Cedrus libani

OneKP

ERR364342

GGEA

Ceratodon purpureus

OneKP

ERR364350

FFPD

Chaetosphaeridium globosum

OneKP

ERR364369

DRGY

Chara vulgaris

OneKP

ERR364366

CHAR

Chlorokybus atmophyticus

OneKP

ERR364371

AZZW

Colchicum autumnale

OneKP

ERR364397

NHIX

Coleochaete irregularis

OneKP

ERR364367

QPDY

Coleochaete scutata

OneKP

ERR364368

VQBJ

Cosmarium ochthodes

OneKP

ERR364376

STKJ

Cunninghamia lanceolata

OneKP

ERR364340

OUOI

Cyathea (Alsophila) spinulosa

OneKP

ERR364412

GANB

Cycas micholitzii

OneKP

ERR364405

XZUY

Cylindrocystis brebissonii

OneKP

ERR364378

YOXI

Cylindrocystis cushleckae

OneKP

ERR364373

JOJQ

Dendrolycopodium obscurum

OneKP

ERR364346

XNXF

Dioscorea villosa

OneKP

ERR364396

OCWZ

Diospyros malabarica

OneKP

ERR364339

KVFU

Entransia fimbriata

OneKP

ERR364372

BFIK

Ephedra sinica

OneKP

ERR364402

VDAO

Equisetum diffusum

OneKP

ERR364408

CAPN

Gnetum montanum

OneKP

ERR364403

GTHK

Hedwigia ciliata

OneKP

ERR364352

YWNF

Hibiscus cannabinus

OneKP

ERR364388

OLXF

Houttuynia cordata

OneKP

ERR364332

CSSK

Huperzia squarrosa

OneKP

ERR364407

GAON

Inula helenium

OneKP

ERR364393

AFQQ

Ipomoea purpurea

OneKP

ERR364392

VXKB

Juniperus scopulorum

OneKP

ERR364341

XMGP

Kadsura heteroclita

OneKP

ERR364331

NWMY

Klebsormidium subtile

OneKP

ERR364370

FQLP

Kochia scoparia

OneKP

ERR364385

WGET

Larrea tridentata

OneKP

ERR364386

UDUT

Leucodon brachypus

OneKP

ERR364353

ZACW

Marchantia emarginata

OneKP

ERR364417

TFYI

Marchantia polymorpha

OneKP

ERR364416

JPYU

Mesostigma viride

OneKP

ERR364365

KYIO

Mesotaenium endlicherianum

OneKP

ERR364377

WDCW

Metzgeria crassipilis

OneKP

ERR364359

NRWZ

Monomastix opisthostigma

OneKP

ERR364362

BTFM

Mougeotia sp.

OneKP

ERR364374

ZRMT

Nephroselmis pyriformis

OneKP

ERR364363

ISIM

Netrium digitus

OneKP

ERR364379

FFGR

Nothoceros aenigmaticus

OneKP

ERR364356

DXOU

Nothoceros vincentianus

OneKP

ERR364357

TCBC

Penium margaritaceum

OneKP

ERR364382

AEKF

Podophyllum peltatum

OneKP

ERR364384

WFBF

Polytrichum commune

OneKP

ERR364413

SZYG

Prumnopitys andina

OneKP

ERR364343

EGLZ

Pseudolycopodiella caroliniana

OneKP

ERR364345

UPMJ

Psilotum nudum

OneKP

ERR364411

QVMR

Pyramimonas parkeae

OneKP

ERR364361

TNAW

Rhynchostegium serrulatum

OneKP

ERR364355

JADL

Ricciocarpos natans

OneKP

ERR364358

WJLO

Rosmarinus officinalis

OneKP

ERR364391

FDMM

Rosulabryum cf. capillare

OneKP

ERR364351

XWHK

Roya obtusa

OneKP

ERR364380

XRTZ

Sabal bermudana

OneKP

ERR364400

HWUP

Sarcandra glabra

OneKP

ERR364333

OSHQ

Sciadopitys verticillata

OneKP

ERR364344

YFZK

Selaginella stauntoniana

OneKP

ERR364347

ZZOL

Smilax bona-nox

OneKP

ERR364398

MWYQ

Sphaerocarpos texanus

OneKP

ERR364360

HERT

Sphagnum lescurii

OneKP

ERR364414

GOWD

Spirogyra sp.

OneKP

ERR364375

HAOX

Spirotaenia minuta

OneKP

ERR364381

NNHQ

Tanacetum parthenium

OneKP

ERR364394

DUQG

Taxus baccata

OneKP

ERR364406

WWSS

Thuidium delicatulum

OneKP

ERR364354

EEMJ

Uronema sp.

OneKP

ERR364364

ISGT

Yucca filamentosa

OneKP

ERR364399

ICNN