Table 2

Summary of unigene sequences of asterids, basal eudicots, non-grass monocots, and basal angiosperms included in phylogenetic study

Species

Lineage

Source

Number of reads/ESTs

Size of data

Assembly method(s)

Number of unigenes


Panax quinquefolius

Asterid

NCBI-SRA

209,745

89.7 Mb

MIRA

22,881

Lindenbergia phillipensis

Asterid

PPGP

69,545,362

5.9 Gb

CLC

104,904

Helianthus annuus

Asterid

TIGR PTA

93,279

NA

Megablast-CAP3

44,662

Solanum tuberosum

Asterid

TIGR PTA

219,485

NA

Megablast-CAP3

81,072

Mimulus gutatus

Asterid

PlantGDB

231,012

NA

Vmatch-PaCE-CAP3

39,577

Papaver somniferum

Basal eudicot

1KP + SRA

140,604,904 + 3,709,876

10.3 Gb + 1.3 Gb

MIRA-SOAPDenovo-CAP3

252,894

Papaver setigerum

Basal eudicot

1KP

134,478,938

9.8 Gb

SOAPDenovo-CAP3

406,167

Papaver rhoeas

Basal eudicot

1KP

157,506,374

11.5 Gb

SOAPDenovo-CAP3

383,426

Papaver bracteatum

Basal eudicot

1KP

89,663,900

6.5 Gb

SOAPDenovo-CAP3

201,564

Eschscholzia californica

Basal eudicot

NCBI + SRA + 1KP

14,381 + 559,470 + 133,422,402

6.8 Mb + 55 Mb + 9.7 Gb

MIRA-SOAPDenovo-CAP3

165,260

Argemone mexicana

Basal eudicot

1KP + NCBI

144,520,360 + 1,692

10.5 Gb + 1 Mb

SOAPDenovo- CAP3

148,533

Akebia trifoliata

Basal eudicot

1KP

29,156,514

2.1 Gb

CLC-CAP3

46,024

Podophyllum pelatum

Basal eudicot

1KP

20,139,210

1.5 Gb

CLC-CAP3

31,472

Platanus occidentalis

Basal eudicot

1KP

25,508,642

1.9 Gb

CLC-CAP3

42,373

Aquilegia formosa x Aquilegia pubescens

Basal eudicot

PlantGDB

85,040

NA

Vmatch-PaCE-CAP3

19,615

Mesembryanthemum crystallinum

Caryophillid

PlantGDB

27,553

NA

Vmatch-PaCE-CAP3

11,317

Beta vulgaris

Caryophillid

PlantGDB

25,883

NA

Vmatch-PaCE-CAP3

18,009

Acorus americanus

Monocot

MonATOL + 1KP

149,320 + 15,427,316

44.9 Mb + 1.1 Gb

MIRA-SOAPDenovo-CAP3

59,453

Chamaedorea seifrizii

Monocot

MonATOL

33,100,948

2.5 Gb

CLC

68,489

Chlorophytum rhizopendulum

Monocot

MonATOL

59,505,714

4.5 Gb

CLC

58,766

Neoregelia sp.

Monocot

MonATOL

49,121,506

3.7 Gb

CLC

63,269

Typha angustifolia

Monocot

MonATOL

70,733,124

5.7 Gb

CLC

57,980

Persea americana (avocado)

Magnoliid

AAGP

2,336,819

683 Mb

MIRA

132,532

Aristolochia fimbriata (Dutchman's pipe)

Magnoliid

AAGP

3,930,505

880 Mb

MIRA

155,371

Liriodendron tulipifera (yellow-poplar)

Magnoliid

AAGP

2,327,654

543 Mb

MIRA

137,923

Nuphar advena (yellow pond lily)

Basal angiosperm

AAGP

3,889,719

1.1 Gb

MIRA

289,773

Amborella trichopoda

Basal angiosperm

AAGP

2,943,273

776 Mb

MIRA

208394


1KP, 1000 Green Plant Transcriptome Project; AAGP, Ancestral Angiosperm Genome Project [44]; MonATOL, Monocot Tree of Life Project [42]; NA, not available; NCBI, National Center for Biotechnology Information; PPGP, Parasitic Plant Genome Project [65]; SRA, Sequence Read Archive; TIGR PTA, The Institute for Genomic Research Plant Transcript Assemblies [66].

Jiao et al. Genome Biology 2012 13:R3   doi:10.1186/gb-2012-13-1-r3

Open Data