Project description:We conducted a genome-wide transcriptomic analysis in soybean leaves and roots treated with zinc (Zn) deficiency using RNA sequencing (RNA-seq) technology. Two biological replicates of RNA-seq were included for Zn-sufficient leaves (ZSL), Zn-deficient leaves (ZDL), Zn-sufficient roots (ZSR), and Zn-deficient roots (ZDR). Therefore a total of eight libraries were constructed. Using a 2-fold change and a P-value ≤0.05 as the cut-off for selecting the differentially expressed transcripts, we globally identified Zn-deficiency responsive genes. At least 20 genes that are potentially involved Zn homeostasis were significantly changed by Zn deficiency, including 7 ZIP (ZRT, IRT-related protein) transporter genes, 3 nicotianamine synthase genes, and 7 metallothionein genes. At least 48 genes encoding likely Zn-binding proteins were found to be responsive to Zn deficiency in leaves or roots. Eighty-five transcription factor genes were significantly changed by Zn deficiency in leaves or roots, including 5 bZIP members and 10 Golden 2-like members. In addition, some other groups of genes which are possibly related to reactive oxygen species scavenging, calcium and hormone signaling, and protein phosphorylation and dephosphorylation also differentially expressed under Zn deficiency.
Project description:Bulk RNA-Seq datasets were generated for the roots and leaves of Pistia stratiotes in order to compare expression of nutrient transporters between the tissues
Project description:We report the comparison of transcript expression of Fe-sufficient roots and leaves of OsIMA overexpression lines IMA1OX-7, 9, IMA2OX-2, 5 and corresponding NTby RNA-Seq.
Project description:Purpose: The goals of this study are to compare differentially expressed transcripts in roots and leaves of spinach cultivars with distinct oxalate contents using transcriptome profiling (RNA-seq)
Project description:We report the comparison of transcript expression in OsbZIP83 overexpression lines b83OX-13, 15 and 19 against non-transformants (NT) in Fe-sufficient roots and leaves by RNA-Seq.
Project description:Purpose: The goals of this study are to compare differentially expressed transcripts in roots and leaves of spinach plants grown under nitrogen replete and deplete conditions using transcriptome profiling (RNA-seq)
Project description:Six small RNA and six mRNA libraries from leaves and roots of the two cultivars, KU50 and Arg7, and their wild progenitor, W14, were subjected to NGS. Analysis of the sequencing data revealed 29 conserved miRNA families and 33 novel miRNA families. Together, these miRNAs potentially targeted a total of 360 putative target genes. Whereas 16 miRNA families were highly expressed in cultivar leaves, another 13 miRNA families were highly expressed in storage roots of cultivars. Co-expression analysis revealed that the expression level of some targets had negative relationship with their corresponding miRNAs in storage roots and leaves; these targets included MYB33, ARF10, GRF1, RD19, APL2, NF-YA3 and SPL2, which are known to be involved in plant development, starch biosynthesis and response to environmental stimuli.
2014-12-31 | GSE60743 | GEO
Project description:RNA-seq of Voacanga thouarsii leaves and roots
Project description:Detached Arabidopsis leaves can regenerate adventitious roots, providing a platform to study de novo root regeneration (DNRR). We performed time-lapse RNA-seq within 5 d revealed activation of gene networks in cell fate transition.
Project description:Detached Arabidopsis leaves can regenerate adventitious roots, providing a platform to study de novo root regeneration (DNRR). We performed time-lapse RNA-seq within 12 h to reveal transcriptional changes in response to early signals in DNRR.
