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.

TranscriptomeOrganismsort descendingProgramTranscriptsDate Run
[Archived] de novo Sugar Maple (Acer saccharum) - 010515Acer saccharum (Sugar Maple)Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST12840601-05-2015
de novo Sugar Maple (Acer saccharum)Acer saccharum (Sugar Maple)Trinity, built under bowtie-1.0.1 and samtools-0.1.19; CD-HIT-EST11786102-24-2016
de novo White Alder (Alnus rhombifolia)Alnus rhombifolia (White Alder)Trinity, built under bowtie-1.0.1 and samtools-0.1.19; CD-HIT-EST2618602-18-2016
de novo Red Alder (Alnus rubra)Alnus rubra (Red Alder)Trinity, built under bowtie-1.0.1 and samtools-0.1.19; CD-HIT-EST2911302-18-2016
de novo American Chestnut (Castanea dentata) - AC454_v3Castanea dentata (American Chestnut)SeqManPro4528808-15-2008
de novo Dogwood (Cornus florida)Cornus florida (Dogwood)Newbler (Roche)4315812-06-2016
de novo American Beech (Fagus grandifolia) - ABall_v2Fagus grandifolia (American Beech)SeqManPro831908-15-2008
de novo Green ash (Fraxinus pennsylvanica)Fraxinus pennsylvanica (Green Ash)Trinity; CD-HIT-EST10761112-03-2013
de novo Honey Locust (Gleditsia triacanthos)Gleditsia triacanthos (Honeylocust)Trinity; CD-HIT-EST5684508-26-2014
de novo Hydrangea (Hydrangea macrophylla)Hydrangea macrophylla (Hydrangea)Newbler (Roche)4268212-07-2016
de novo Black Walnut (Juglans nigra)Juglans nigra (Black Walnut)Trinity; CD-HIT-EST7883412-03-2013
de novo American sweetgum (Liquidambar styraciflua)Liquidambar styraciflua (American Sweetgum)Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST12740601-05-2015
de novo Tulip Poplar (Liriodendron tulipifera)Liriodendron tulipifera (Tulip Poplar)Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST5824910-13-2014
[Archived] de novo Tulip Poplar (Liriodendron tulipifera) - 120313Liriodendron tulipifera (Tulip Poplar)Trinity; CD-HIT-EST5334612-03-2013
de novo Blackgum (Nyssa sylvatica)Nyssa sylvatica (Blackgum)Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST13881910-13-2014
[Archived] de novo Blackgum (Nyssa sylvatica) - 120313Nyssa sylvatica (Blackgum)Trinity; CD-HIT-EST5563012-03-2013
de novo Black Cherry (Prunus serotina) Unigene v1.0 (Penn State)Prunus serotina (Black Cherry)Newbler2846109-30-2012
de novo White Oak (Quercus alba) - WO454_v2Quercus alba (White Oak)SeqManPro2210208-15-2008
de novo Northern Red Oak (Quercus rubra)Quercus rubra (Northern Red Oak)Trinity; CD-HIT-EST5266212-03-2013
[Archived] de novo Northern Red Oak (Quercus rubra) - RO454_v2Quercus rubra (Northern Red Oak)SeqManPro2804108-15-2008
[Archived] de novo Northern Red Oak Ozone Treatment ExperimentQuercus rubra (Northern Red Oak)Trinity4585710-10-2011