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.

Transcriptomesort descending Date Run Status Organism Program Transcripts
Fagus grandifolia 081508 2008-08-15 Current Fagus grandifolia (American Beech) SeqManPro 8,319
Castanea dentata 081508 2008-08-15 Current Castanea dentata (American Chestnut) SeqManPro 45,288
Liquidambar styraciflua 010515 2015-01-05 Current Liquidambar styraciflua (American Sweetgum) Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST 127,406
Nyssa sylvatica 101314 2014-10-13 Current Nyssa sylvatica (Blackgum) Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST 138,819
Nyssa sylvatica 120313 2013-12-03 Archived Nyssa sylvatica (Blackgum) Trinity; CD-HIT-EST 55,630
Juglans nigra 120313 2013-12-03 Current Juglans nigra (Black Walnut) Trinity; CD-HIT-EST 78,834
Black Walnut Ozone 2012-12-19 Archived Juglans nigra (Black Walnut) Trinity 61,770
Juglans_regia_01182017 2017-01-18 Current Juglans regia (English Walnut) Newbler (Roche)
Fraxinus pennsylvanica 120313 2013-12-03 Current Fraxinus pennsylvanica (Green Ash) Trinity; CD-HIT-EST 107,611
Green Ash Ozone 2012-12-19 Archived Fraxinus pennsylvanica (Green Ash) Trinity 63,113
Gleditsia triacanthos 082614 2014-08-26 Current Gleditsia triacanthos (Honeylocust) Trinity; CD-HIT-EST 56,845
Red Oak Ozone 2011-10-10 Archived Quercus rubra (Northern Red Oak) Trinity 45,857
Quercus rubra 120313 2013-12-03 Current Quercus rubra (Northern Red Oak) Trinity; CD-HIT-EST 52,662
Quercus rubra 081508 2008-08-15 Archived Quercus rubra (Northern Red Oak) SeqManPro 28,041
Alnus rubra 021816 2016-02-18 Current Alnus rubra (Red Alder) Trinity, built under bowtie-1.0.1 and samtools-0.1.19; CD-HIT-EST 29,113
Acer saccharum 022416 2016-02-24 Current Acer saccharum (Sugar Maple) Trinity, built under bowtie-1.0.1 and samtools-0.1.19; CD-HIT-EST 117,861
Acer saccharum 010515 2015-01-05 Archived Acer saccharum (Sugar Maple) Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST 128,406
Liriodendron tulipifera 101314 2014-10-13 Current Liriodendron tulipifera (Tulip Poplar) Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-EST 58,249
Liriodendron tulipifera 120313 2013-12-03 Archived Liriodendron tulipifera (Tulip Poplar) Trinity; CD-HIT-EST 53,346
Alnus rhombifolia 021816 2016-02-18 Current Alnus rhombifolia (White Alder) Trinity, built under bowtie-1.0.1 and samtools-0.1.19; CD-HIT-EST 26,186
Quercus alba 081508 2008-08-15 Current Quercus alba (White Oak) SeqManPro 22,102
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