Transcriptomes

RNA-Seq datasets for multiple species are available. MiSeq and HiSeq reads from multiple libraries were cleaned with Trimmomatic and assembled by Trinity. CD-hit was used to collapse highly similar reads into a single sequence. Older transcriptomes were built with SeqMan Pro.

Transcriptome	Organism	Program	Transcripts	Date Run
Acer saccharum - Transcriptome Assembly	Acer saccharum (Sugar Maple)	Trinity, built under bowtie-1.0.1 and samtools-0.1.19; CD-HIT-EST	117861	02-24-2016
Alnus rhombifolia - Transcriptome Assembly	Alnus rhombifolia (White Alder)	Trinity, built under bowtie-1.0.1 and samtools-0.1.19; CD-HIT-EST	26186	02-18-2016
Alnus rubra - Transcriptome Assembly	Alnus rubra (Red Alder)	Trinity, built under bowtie-1.0.1 and samtools-0.1.19; CD-HIT-EST	29113	02-18-2016
[Archived] Acer saccharum - Transcriptome Assembly v010515	Acer saccharum (Sugar Maple)	Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST	128406	01-05-2015
[Archived] Castanea dentata - Transcriptome Assembly AC454_v3	Castanea dentata (American Chestnut)	SeqManPro	45288	08-15-2008
[Archived] Liriodendron tulipifera - Transcriptome Assembly v120313	Liriodendron tulipifera (Tulip Poplar)	Trinity; CD-HIT-EST	53346	12-03-2013
[Archived] Nyssa sylvatica - Transcriptome Assembly v120313	Nyssa sylvatica (Blackgum)	Trinity; CD-HIT-EST	55630	12-03-2013
[Archived] Quercus rubra - Transcriptome Assembly - Ozone	Quercus rubra (Northern Red Oak)	Trinity	45857	10-10-2011
[Archived] Quercus rubra - Transcriptome Assembly RO454_v2	Quercus rubra (Northern Red Oak)	SeqManPro	28041	08-15-2008
Cornus florida - Transcriptome Assembly	Cornus florida (Dogwood)	Newbler (Roche)	43158	12-06-2016
Fagus grandifolia - Transcriptome Assembly	Fagus grandifolia (American Beech)	SeqManPro	8319	08-15-2008
Fraxinus pennsylvanica - Transcriptome Assembly	Fraxinus pennsylvanica (Green Ash)	Trinity; CD-HIT-EST	107611	12-03-2013
Gleditsia triacanthos - Transcriptome Assembly	Gleditsia triacanthos (Honeylocust)	Trinity; CD-HIT-EST	56845	08-26-2014
Hydrangea macrophylla - Transcriptome Assembly	Hydrangea macrophylla (Hydrangea)	Newbler (Roche)	42682	12-07-2016
Juglans nigra - Transcriptome Assembly	Juglans nigra (Black Walnut)	Trinity; CD-HIT-EST	78834	12-03-2013
Liquidambar styraciflua - Transcriptome Assembly	Liquidambar styraciflua (American Sweetgum)	Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST	127406	01-05-2015
Liriodendron tulipifera - Transcriptome Assembly	Liriodendron tulipifera (Tulip Poplar)	Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST	58249	10-13-2014
Nyssa sylvatica - Transcriptome Assembly	Nyssa sylvatica (Blackgum)	Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST	138819	10-13-2014
Prunus serotina - Transcriptome Assembly	Prunus serotina (Black Cherry)	Newbler	28461	09-30-2012
Quercus alba - Transcriptome Assembly WO454_v2	Quercus alba (White Oak)	SeqManPro	22102	08-15-2008
Quercus rubra - Transcriptome Assembly	Quercus rubra (Northern Red Oak)	Trinity; CD-HIT-EST	52662	12-03-2013