DOI: 10.5061/dryad.4sf85
title: Data from: Long read reference genome-free reconstruction of a full-length transcriptome from Astragalus membranaceus reveals transcript variants involved in bioactive compound biosynthesis

description: Astragalus membranaceus, also known as Huangqi in China, is one of the
 most widely used medicinal herbs in Traditional Chinese Medicine.
 Traditional Chinese Medicine formulations from Astragalus membranaceus
 have been used to treat a wide range of illnesses, such as cardiovascular
 disease, type 2 diabetes, nephritis and cancers. Pharmacological studies
 have shown that immunomodulating, anti-hyperglycemic, anti-inflammatory,
 antioxidant and antiviral activities exist in the extract of Astragalus
 membranaceus. Therefore, characterising the biosynthesis of bioactive
 compounds in Astragalus membranaceus, such as Astragalosides, Calycosin
 and Calycosin-7-O-β-D-glucoside, is of particular importance for further
 genetic studies of Astragalus membranaceus. In this study, we
 reconstructed the Astragalus membranaceus full-length transcriptomes from
 leaf and root tissues using PacBio Iso-Seq long reads. We identified 27
 975 and 22 343 full-length unique transcript models in each tissue
 respectively. Compared with previous studies that used short read
 sequencing, our reconstructed transcripts are longer, and are more likely
 to be full-length and include numerous transcript variants. Moreover, we
 also re-characterised and identified potential transcript variants of
 genes involved in Astragalosides, Calycosin and
 Calycosin-7-O-β-D-glucoside biosynthesis. In conclusion, our study
 provides a practical pipeline to characterise the full-length
 transcriptome for species without a reference genome and a useful genomic
 resource for exploring the biosynthesis of active compounds in Astragalus
 membranaceus.
description: Sequences of leaf
 UniTransModels from Astragalus membranaceus (Huangqi)This FASTA format file
 contains sequences of Unique Transcription Models (UniTransModel) from the
 leaf tissue of Astragalus membranaceus (Huangqi) using PacBio Iso-Seq
 technology.leaf.UniTransModel.faSequences of root UniTransModels from Astragalus membranaceus (Huangqi)This FASTA format file contains sequences of Unique Transcription Models (UniTransModel) from the root tissue of Astragalus membranaceus (Huangqi) using PacBio Iso-Seq technology.root.UniTransModel.faSequences of isoforms of leaf UniTransModels from Astragalus membranaceus (Huangqi)This FASTA format file contains sequences of transcription isoforms of Unique Transcription Models (UniTransModel) from the leaf tissue of Astragalus membranaceus (Huangqi) using PacBio Iso-Seq technology.leaf.UniTransModel.isoforms.faSequences of isoforms of root UniTransModels from Astragalus membranaceus (Huangqi)This FASTA format file contains sequences of transcription isoforms of Unique Transcription Models (UniTransModel) from the root tissue of Astragalus membranaceus (Huangqi) using PacBio Iso-Seq technology.root.UniTransModel.isoforms.faSequences of leaf lncRNAs from Astragalus membranaceus (Huangqi)This FASTA format file contains sequences of long non-coding RNAs (lncRNA) from the leaf tissue of Astragalus membranaceus (Huangqi) using PacBio Iso-Seq technology.leaf.lncRNA.faSequences of root lncRNAs from Astragalus membranaceus (Huangqi)This FASTA format file contains sequences of long non-coding RNAs (lncRNA) from the root tissue of Astragalus membranaceus (Huangqi) using PacBio Iso-Seq technology.root.lncRNA.faSequences of ROIs for 1-2 kb long leaf mRNAs from Astragalus membranaceus (Huangqi)This FASTQ format file contains raw sequences of Read Of Inserts (ROI) of the size selected 1-2 kb long mRNAs from leaf tissue of Astragalus membranaceus (Huangqi) using PacBio Iso-Seq technology. Three SMRT cells were used for this size range.Leaf_1-2k.3cell.roi.fq.gzSequences of ROIs for 2-3 kb long leaf mRNAs from Astragalus membranaceus (Huangqi)This FASTQ format file contains raw sequences of Read Of Inserts (ROI) of the size selected 2-3 kb long mRNAs from leaf tissue of Astragalus membranaceus (Huangqi) using PacBio Iso-Seq technology. Five SMRT cells were used for this size range.Leaf_2-3k.5cell.roi.fq.gzSequences of ROIs for 1-2 kb long root mRNAs from Astragalus membranaceus (Huangqi)This FASTQ format file contains raw sequences of Read Of Inserts (ROI) of the size selected 1-2 kb long mRNAs from root tissue of Astragalus membranaceus (Huangqi) using PacBio Iso-Seq technology. Three SMRT cells were used for this size range.Root_1-2k.3cell.roi.fq.gzSequences of ROIs for 2-3 kb long root mRNAs from Astragalus membranaceus (Huangqi)This FASTQ format file contains raw sequences of Read Of Inserts (ROI) of the size selected 2-3 kb long mRNAs from root tissue of Astragalus membranaceus (Huangqi) using PacBio Iso-Seq technology. Five SMRT cells were used for this size range.Root_2-3k.5cell.roi.fq.gz