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Table 3 Presence/absence polymorphisms of introns in ABCB1 in select angiosperms

From: Parallel loss of introns in the ABCB1 gene in angiosperms

   Intron number Methodologya
Species Locus ID 1 2 3 4 5 6 7 8 9  
Dicots Intron presence/absenceb  
Fabaceae
Phaseolus vulgaris Phvul.001G179300 Pb P P P P P P P P Seq
Phaseolus vulgaris Phvul.007G147400 P P P P P P P P P Seq
Medicago truncatula Medtr7g102070 P P P P P P P P P Seq
Medicago truncatula Medtr1g063170 P P P P P P P P P Seq
Trifolium pratense Tp57577_TGAC_v2_gene32830 P P P P P P P P P Seq
Glycine max Glyma.19G184300 P P P P P P P P P Seq
Glycine max Glyma.03G183600 P P P P P P P P P Seq
Glycine max Glyma.10G055000 P P P P P P P P P Seq
Glycine max Glyma.13G142100 P P P P P P P P P Seq
Rosaceae
Prunus persica Prupe.7G129600 P P P P P P P P P Seq
Malus domestica MDP0000231597 P P P P P P P P P Seq
Malus domestica MDP0000183294 P P P P P P P P P Seq
Fragaria vesca gene09601-v1.0-hybrid P P P P P P P P P Seq
Cucurbitaceae
Cucumis sativus Cucsa.306720 P P P P P P P P A Seq
Rutaceae
Citrus clementina Ciclev10010916m.g P P P P P P P P P Seq
Citrus sinensis orange1.1g000687m.g P P P P P P P P P Seq
Myrtaceae
Eucalyptus grandis Eucgr.K02930 P P P P P P P P P Seq
Malvaceae
Theobroma cacao Thecc1EG022244 P P P P P P P P P Seq
Gossypium raimondii Gorai.002G246800 P P P P P P P P P Seq
Gossypium raimondii Gorai.006G163000 P P P P P P P P P Seq
Brassicaceae
Eutrema salsugineum Thhalv10016150m.g P P P P P P P A P Seq
Capsella grandiflora Cagra.0558 s0007 P P P P P P P P P Seq
Capsella rubella Carubv10022511m.g P P P P P P P P P Seq
Boechera stricta Bostr.23794 s0400 P P P P P P P P P Seq
Brassica rape FPsc Bra023087 P P P P P P P P P Seq
Brassica rapa FPsc Bra017216 P P P P P P P P P Seq
Brassica oleracea Bo3g031410 P P P P P P P P P Seq
Brassica oleracea Bo4g186480 P P P P P P P P P Seq
Arabidopsis lyrata 934,330 P P P P P P P P P Seq
Arabidopsis thaliana columbia AT2G36910 P P P P P P P P P Seq
Caricaceae
Carica papaya evm.TU.supercontig_102.36 P P P P P P P ND P Seq
Amaranthaceae
Chenopodium quinoa AUR62040338 P P P P P P P P P Seq
Chenopodium quinoa AUR62042509 P P P P P P P P P Seq
Euphorbiaceae
Ricinus communis 30,078.t000079 P P P P P P P P P Seq
Manihot esculenta Manes.09G065700 P P P P P P P P P Seq
Manihot esculenta Manes.08G011100 P P P P P P P P P Seq
Linaceae
Linum usitatissimum Lus10023929.g P A P P P P P P P Seq
Salicaceae
Salix purpurea SapurV1A.1230 s0070 P P P P P P P P P Seq
Salix purpurea SapurV1A.0584 s0030 P P P P P P P P P Seq
Populus trichocarpa Potri.006G123900 P P P P P P P P P Seq
Populus trichocarpa Potri.016G093600 P P P P P P P P P Seq
Solanaceae
Solanum lycopersicum Solyc09g008240.2 P P P P P P P P P Seq
Solanum tuberosum PGSC0003DMG400003889 P P P P P P P P P Seq
Phrymaceae
Mimulus guttatus Migut.J00652 P P P P P P P P P Seq
Mimulus guttatus Migut.L01707 P P P P P P A P P Seq
Ranunculaceae
Aquilegia coerulea Goldsmith Aquca_030_00072 P P P P P P P P P Seq
Aquilegia coerulea Goldsmith Aquca_062_00022 P P P P P P P P P Seq
Non-grass monocots (except Poales)
Zostera marina Zosma16g00300 P A P P P P P A A Seq
Spirodela polyrhiza Spipo1G0026900 P P P P P P P P P Seq
Phoenix dactylifera LOC103714888 P P P P P P P P P Seq
Phoenix dactylifera LOC103706998 P P P P P P P P P Seq
Musa acuminata GSMUA_Achr4G12130_001 P P P P P P P P P Seq
Musa acuminata GSMUA_Achr4G04430_001 P P P P P P P P P Seq
Poales (except Poaceae)
Ananas comosus Aco010196 P P P P P P P P P Seq
Typha latifolia Not assigned P P P P P P P* P P LR-PCR/Seq
Ecdeiocolea spp. Not assigned A P P P P P P P P LR-PCR/Seq
Mayaca spp. Not assigned P P P A P P P P A LR-PCR/Seq
Poaceae
Streptochaeta spp. Not assigned A P P P P P P P P LR-PCR/Seq
Anomochloa spp. Not assigned A* P* P* A* ND P P* P A PCR/Seq
Pharus mezhii Not assigned A* P* P P* P P* ND P ND PCR/Seq
Leersia perrieri LPERR08G20590 A A A A A A P A A Seq
Oryza sativa ssp. indica BGIOSGA029208 A A A A P A P A A Seq
Oryza sativa ssp. japonica LOC_Os08g45030 A A A A P A P A A Seq
Aulonemia spp. Not assigned A* P* A* A* P ND P A ND PCR/Seq
Bambusa spp. Not assigned A P A A P P P* A A PCR/Seq
Phyllostachys spp. Not assigned A P A A P P P A A LR-PCR/Seq
Phyllostachys edulis PH01000979 A P A A P P P A A Seq
Phyllostachys edulis PH01001487 A P A A P P P A A Seq
Brachypodium distachyon Bradi3g12627 A A A A P A P A A Seq
Brachypodium stacei Brast03G311000 A A A A P A P A A Seq
Hordeum vulgare MLOC_5438 A A A A P P P A A Seq
Aegilops tauschii F775_52675 A A A A P P P A A Seq
Triticum urartu TRIUR3_22724 A A A ND P P P A A Seq
Eragrostis tef JN672670 A A A A A P P A A Seq
Eragrostis tef JN672669 A A A A A P P A A Seq
Zoysia spp. Not assigned A A A A A A P A A LR-PCR/Seq
Oropetium thomaeum Oropetium_20150105_14444 A P A A A A P A A Seq
Eleusine coracana Not assigned A P A A A A P A A Seq
Micraira subilifolia Not assigned A* A* A* A* P P ND A A PCR/Seq
Phragmites australis Not assigned A* P* A* A* P P ND A A PCR/Seq
Danthoniopsis dinteri Not assigned A P A A P ND ND A A PCR
Chasmanthium laxum Not assigned A P A A P P P A A Seq
Paspalum vaginatum Not assigned A P A A A P P A A LRPCR/Seq
Zea mays GRMZM2G315375 A P A A P P P A A Seq
Sorghum bicolor AY372819.1 A P A A P P P A A Seq
Arundinella hirta Not assigned A P A A P ND P* A A PCR/Seq
Andropogon virginicus Not assigned A P A A P P P A A Seq
Andropogon gerardii Not assigned A P A A P ND P* A A PCR/Seq
Acroceras macrum Not assigned A P A A A ND P* A ND PCR/Seq
Sacciolepis myosuroides Not assigned A P A A P ND P* A A PCR/Seq
Dichanthelium
oligosanthes
Not assigned A P A A A P P A A Seq
Panicum virgatum Pavir.6NG364900 A P A A A P P A A Seq
Panicum virgatum Pavir.6KG414900 A P A A A P P A A Seq
Panicum hallii Pahal.F00317 A P A A A P P A A Seq
Setaria italica Seita.6G253500 A A A A A P P A A Seq
Setaria viridis Sevir.6G258000 A A A A A P P A A Seq
Cenchrus americanus CaABCB1 A A A A A P P A A Seq
Brachiaria spp. Not assigned A A A A A P ND A ND PCR
Urochloa abyss Urochola_abyss_gt1kb A A A A A P P A A Seq
Basal angiosperm
Amborella trichopoda evm_27.TU.AmTr_v1.0_scaffold00076.86 P P P P P P P P P Seq
  1. a Seq: Sequence information from cloned genes or whole-genome sequencing; PCR: PCR amplification across two introns (1 + 2, 3 + 4) or single introns; PCR/Seq: PCR amplification across introns followed by sequencing of some of the amplicons (Sanger sequenced amplicons are indicated with an asterisk (*)); LR-PCR/Seq: Long-range PCR across all introns followed by sequencing of the amplification product
  2. b P present, A absent; ND indicates introns for which no data is available on intron status