Project description:http://www.sanger.ac.uk/resources/downloads/bacteria/salmonella.html This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/
Project description:http://www.sanger.ac.uk/resources/downloads/bacteria/clostridium-difficile.htmlThese data are part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/
Project description:Investigation of the transcriptional response of S. Typhi strain BRD948 during adaptation to the watery microcosm using RNA sequencing. http://www.sanger.ac.uk/resources/downloads/bacteria/salmonella.html This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/
Project description:The purpose of this study was to measure DNA methylation and siRNA expression across the maize genome. The experimental data was derived from shotgun bisulfite sequencing, siRNA sequencing, and mRNA sequencing (Illumina, single end for all three)
Project description:In this study, we investigated novel rice genes that are expressed in aleurone cells by RNA-seq. RNA-seq was performed on four samples: a control sample, and samples treated with ABA, GA, and a mixture of the two hormones.
Project description:In this study we used single-cell type transcriptomics to identify more than 4,000 differentially expressed (DE) genes that distinguish uniplanar protonematal tip cells from multiplanar gametophore bud cells in the moss Physcomitrella patens. While the transcriptomes of both tip and bud cells harbor molecular signatures of proliferative cells, the bud cell transcriptomes exhibit a wider variety of upregulated genes. Our data suggest that the combined expression of genes regulating shoot patterning and asymmetric cell division accompanied the transition from uniplanar to triplanar meristematic growth in moss.
Project description:Members of the ARGONAUTE gene family are known to have roles in RNA-mediated silencing during development. One of these, MEL1, was shown to be germ-cell specific and essential for progression through sporogenesis at both premeiotic mitosis and meiosis. To understand how the MEL1 gene product is responsible for these effects requires analysis of the changes of the transcriptome. The mel1 gene was identified by TOS 17 insertion mutagenesis of Oryza sativa Japonica, cultivar Nipponbare. The TOS 17 insertion line of mel1 and the wild-type parent were the sources of RNA. RNA was extracted from rice panicle (3 cM) of rice grown under natural conditions in rice fields. Small RNAs associated with MEL1 and small RNAs in total RNA were sequenced by Illumina GAII.
Project description:We used heat shock (HS) treatments and high-throughput mRNA sequencing to obtain HS transcriptomes in the moss Physcomitrella patens. Besides revealing differential gene expression at the transcriptional level, a transcriptome survey identified abundant AS events in the single-cellâtype, undifferentiated, moss protonemal cell. For preparing RNA-seq samples, protonemal colonies were grown at 38°C for 1 h (1st HS), recovered at 25°C for 5.5 h, and then grown at 38°C again for 1 h (2nd HS). Cells remaining at 25°C were collected as the control. Note: All samples in SRA were assigned the same sample accession (SRS402930). This is incorrect as there are different samples, hence âSource Nameâ was replaced with new values. Comment[ENA_SAMPLE] contains the original SRA sample accessions.
Project description:In flowering plants, knotted1-like homeobox (KNOX) transcription factors play crucial roles in establishment and maintenance of the shoot apical meristem (SAM), from which aerial organs such as leaves, stems and flowers initiate. We report that a rice (Oryza Sativa) KNOX gene Oryza sativa homeobox1 (OSH1) represses the brassinosteroid (BR) phytohormone pathway through activation of BR catabolism genes. Inducible overexpression of OSH1 caused brassinosteroid insensitivity, whereas loss-of-function showed a BR-overproduction phenotype. Genome-wide identification of loci bound and regulated by OSH1 revealed hormonal and transcriptional regulation as the major function of OSH1. Among these targets, BR catabolism genes CYP734A2, CYP734A4 and CYP734A6 were rapidly up-regulated by OSH1-induction. Furthermore, RNAi knockdown plants of CYP734A genes arrested growth of the SAM and mimicked some osh1 phenotypes. Thus, we suggest that local control of BR levels by KNOX genes is a key regulatory step in SAM function.