Project description:Iso-Seq (PacBio) sequencing was performed to generate a reference library of H. perforatum. We generated genome-wide transcriptome data from in vitro cell suspensions and shoot cultures of H. perforatum.
Project description:Full-Length cDNA transcriptome (Iso-Seq) data sequenced on the PacBio Sequel system using 2.1 chemistry. Multiplexed cDNA library of 12 samples (3 tissues x 4 strains). Tissues: root, embryo, endosperm. Strains: B73, Ki11, B73xKi11, Ki11xB73.
Project description:The aim of this experiment was to obtain full length transcript sequences of genes expressed in leaves and stems of narrow-leafed lupin (Lupinus angustifolius L.) using PacBio Iso-Seq. Total RNA was isolated from leaves and stems of five narrow-leafed lupin (Lupinus angustifolius L.) genotypes with contrasting alkaloid regulation, including an iucundus low-alkaloid line (83A:476), a bitter Iucundus line (P27255) and three Bryansk low-alkaloid lines carrying the Iucundus-type RAP2-7 allele: 95826 (Bryanskij-35), 95927 (Bryanskij-123) and 95928 (Bryanskij-237/83). Plants, in five replicates per genotype, were grown under controlled conditions optimal for growth, and leaf and stem samples were collected at flowering stage. For each genotype and organ, total RNA from five biological replicates was pooled in equal amounts and used for PacBio Iso-Seq library preparation and sequencing.
Project description:Pacbio library preparation and sequencing was carried-out by BGI on one of the technical samples of the Microcolony-seq experiment (UTI_30). A SMRTbell library was prepared and sequenced in a Pacbio Revio machine. The assembled genome was used for mapping the Microcolony-seq experiment
Project description:Illumina short-read sequencing of rRNA-depleted RNA composite sample: A single composite sample generated from a mixture of 8 time points (0, 1, 3, 6, 9, 12, 24, 48 hours post-amputation) plus one non-regenerating sample, representing WT specimens. PacBio Iso-Seq long-read sequencing of rRNA-depleted RNA from amputated WT S. mediterranea at 0 hpa. A single sample from WT worms at 0 hours post-amputation with rRNA depletion applied prior to library preparation.
Project description:<div>Olive (<i>Olea europaea</i>) has a long history of medicinal and nutritional values own to it rich in polyphenol and fatty acids (FAs) in fruits. In order to better understand the biosynthesis important of these metabolites, we generated comprehensive Iso-Seq full-length and illumina RNA-seq transcriptome, and targeted metabolomics dataset of different olive fruits maturity. The targeted metabolomics by using both GC/MS and LC/MS were totally quantified 35 FAs and 13 polyphenols. Iso-Seq library was constructed and sequenced by PacBio Sequel System, and a total of 5,891,652 (10.55 G) with an average length of 1,791 subreads were obtained. 492,350 circular consensus sequences (CCSs) were formed after merging and error correction through subread comparison. Of the 492,350 CCSs, 399,263 were found to be full-length non chimera (FLNC) reads, and 187,517 consensus reads were finally obtained by using clustering algorithm of Iterative clustering for error (IEC). These multiomics data provide a foundation to elucidate the mechanisms regulating biosynthesis of polyphenol and FAs during the maturation of olive fruits.</div><div><b><br></b></div><div><b>Polyphenols UPLC-MS</b> protocols and data are reported in the current study <b>MTBLS814</b>.</div><div><br></div><div><b>GC-MS</b> protocols and data associated to this study are reported in <b><a href=""""https://www.ebi.ac.uk/metabolights/MTBLS855"""">MTBLS855</a></b>.</div><div><br></div><div><span _ngcontent-iov-c3="""""""" class=""""ng-star-inserted""""><b>Tyrosol only UPLC-MS</b> <span _ngcontent-iov-c3="""""""" class=""""ng-star-inserted"""">protocols and data associated to this study are reported in <b><a href=""""https://www.ebi.ac.uk/metabolights/MTBLS1127"""">MTBLS1127</a>.</b></span></span></div><div><br></div><div><br></div>
Project description:<div>Olive (Olea europaea) has a long history of medicinal and nutritional values own to it rich in polyphenol and fatty acids (FAs) in fruits. In order to better understand the biosynthesis important of these metabolites, we generated comprehensive Iso-Seq full-length and illumina RNA-seq transcriptome, and targeted metabolomics dataset of different olive fruits maturity. The targeted metabolomics by using both GC/MS and LC/MS were totally quantified 35 FAs and 13 polyphenols. Iso-Seq library was constructed and sequenced by PacBio Sequel System, and a total of 5,891,652 (10.55 G) with an average length of 1,791 subreads were obtained. 492,350 circular consensus sequences (CCSs) were formed after merging and error correction through subread comparison. Of the 492,350 CCSs, 399,263 were found to be full-length non chimera (FLNC) reads, and 187,517 consensus reads were finally obtained by using clustering algorithm of Iterative clustering for error (IEC). These multiomics data provide a foundation to elucidate the mechanisms regulating biosynthesis of polyphenol and FAs during the maturation of olive fruits.</div><div><br></div><div><div><b>GC-MS</b> protocols and data are reported in the current study <b>MTBLS855</b>.</div><div><br></div><div><span _ngcontent-jcp-c3="""""""" class=""""ng-star-inserted""""><b>Polyphenols UPLC-MS</b></span> protocols and data associated to this study are reported in <b><a href=""""http://www.ebi.ac.uk/metabolights/editor/study/MTBLS814"""">MTBLS814</a></b>.</div><div><br></div><div><b>Tyrosol only UPLC-MS</b> <span _ngcontent-iov-c3="""""""" class=""""ng-star-inserted"""">protocols and data associated to this study are reported in <b><a href=""""http://www.ebi.ac.uk/metabolights/editor/study/MTBLS814""""><a href=""""https://www.ebi.ac.uk/metabolights/MTBLS1127"""">MTBLS1127</a>.</a></b></span></div></div>