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NT roots and NTwithNaB roots and OsHDAC1 roots

ABSTRACT: In conjuction, microarray experiments by using RNA sources from 14-d-old NT and NT with NaB roots and OsHDAC1 overexpressor roots were performed and compared to the microarrays of NT with NaB roots and OsHDAC1 overexpressor roots. Keywords: Epigegetic regulation

ORGANISM(S): Oryza sativa

PROVIDER: GSE13055 | GEO | 2009/06/29

SECONDARY ACCESSION(S): PRJNA109973

REPOSITORIES: GEO

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NT roots and NTwithNaB roots and OsHDAC1 roots

Project description:In conjuction, microarray experiments by using RNA sources from 14-d-old NT and NT with NaB roots and OsHDAC1 overexpressor roots were performed and compared to the microarrays of NT with NaB roots and OsHDAC1 overexpressor roots. Keywords: Epigegetic regulation Two-conditional experiments, NT vs. NTwithNaB and NT vs. OsHDAC1. Biological replications : 3

2010-06-24 | E-GEOD-13055 | biostudies-arrayexpress

Udt1-1 anther and Wild type_anther

Project description:A series of microarray experiments by using RNA sources from UDT1-1 mutant type- and wild type-anthers at stages from meiosis to young microspore. In conjuction, microarray experiments by using RNA sources from wild type_Palea/lemmas in the flowering stage and wild type anther at pollen mitosis were performed in a time course design and compared to the microarrays of UDT1-1 mutant type- and wild type-anthers. Keywords: time-course

2005-10-01 | GSE2619 | GEO

Small RNA from Arabidopsis thaliana with RNA silencing directed to Chalcone Synthase (At5G13930) by a hairpin RNA, a 21-nt artificial miRNA and a 22-nt artificial miRNA in the pap1-D over-expressing background

Project description:22-nucleotide (nt) microRNAs (miRNAs) derived from asymmetric duplexes trigger trans-acting phased small interfering RNA (tphasiRNA) production from complementary targets. Here we investigate the efficacy of 22-nt artificial miRNA (amiRNA) mediated RNA silencing relative to conventional hairpin RNA (hpRNA) and 21-nt amiRNA mediated RNA silencing. CHALCONE SYNTHASE (CHS) was selected as a target in Arabidopsis thaliana due to the obvious and non-lethal loss of anthocyanin accumulation upon widespread RNA silencing. Over-expression of CHS in the pap1-D background facilitated visual detection of both local and systemic RNA silencing. RNA silencing was initiated in leaf tissues from hpRNA and amiRNA plant expression vectors under the control of an Arabidopsis RuBisCo small subunit 1A promoter (SSU). In this system, hpRNA expression triggered CHS silencing in most leaf tissues but not in roots or seed coats. Similarly, 21-nt amiRNA expression from symmetric miRNA/miRNA* duplexes triggered CHS silencing in all leaf tissues but not in roots or seed coats. However, 22-nt amiRNA expression from an asymmetric duplex triggered CHS silencing in all tissues, including roots and seed coats, in the majority of plant lines. This widespread CHS silencing required RNA DEPENDENT RNA POLYMERASE6 mediated accumulation of phasiRNAs from the endogenous CHS transcript. These results demonstrate the efficacy of asymmetric 22-nt amiRNA-directed RNA silencing and associated phasiRNA production and activity, in mediating widespread RNA silencing of an endogenous target gene. Asymmetric 22-nt amiRNA directed RNA silencing requires little modification of existing amiRNA technology and is expected to be effective in suppressing other genes and/or members of gene families. sRNA sequencing from aerial tissues of 3-week old plants grown on MS media

2013-10-14 | E-GEOD-49792 | biostudies-arrayexpress

iTRAQ analyses of Fe-sufficient and Fe-deficient non-transformant and HRZ-knockdown rice roots

Project description:We conducted iTRAQ analyses using soluble proteins extracted from roots of non-transformant rice (NT) and previously generated HRZ-knockdown (HRZi) lines (Kobayashi et al., 2013 Nat Commun 4: 2792) cultivated under Fe-sufficient and Fe-deficient conditions. We identified and quantified 3,033 and 3,525 proteins in replicate 1 and 2, respectively, which totaled 4,884 proteins including 1,698 overlapping proteins between the two replicate experiments.

2022-04-08 | PXD026597 | Pride

Round 2 RNA-sequencing analysis of the OsIMA overexpression and knockdown rice lines and Fe deficiency responsiveness of non-transformant (NT) rice.

Project description:We report the comparison of transcript expression of Fe-sufficient roots of OsIMA overexpression lines IMA1OX-4, IMA2OX-1, OsIMA knockdown lines IMA1i-2, IMA2i-3, and corresponding NT, as well as Fe-deficient roots of NT, by RNA-Seq.

2020-11-24 | GSE151939 | GEO

Udt1-1 anther and Wild type_anther

2010-06-09 | E-GEOD-2619 | biostudies-arrayexpress

Beauveria bassiana strain:NT | isolate:NT_60 | breed:NT | cultivar:NT

Project description:Beauveria bassiana strain:NT | isolate:NT_60 | breed:NT | cultivar:NT Transcriptome or Gene expression

| PRJNA450468 | ENA

Beauveria bassiana strain:NT | isolate:NT_100 | breed:NT | cultivar:NT

Project description:Beauveria bassiana strain:NT | isolate:NT_100 | breed:NT | cultivar:NT Transcriptome or Gene expression

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Beauveria bassiana strain:NT | isolate:sp | breed:NT | cultivar:NT

Project description:Beauveria bassiana strain:NT | isolate:sp | breed:NT | cultivar:NT Transcriptome or Gene expression

| PRJNA450457 | ENA

During development, the Sku5 mutant roots engage different genes than wild type WS roots, either on the ground or in spaceflight.

Project description:The wild type WS plants and the Sku5 mutant plants in the WS background were germinated on ISS or on the ground and the gene expression profiles in roots at 4 days or 8 days were established. The Sku5 gene (AT4G12420) codes for a multi-copper oxidase-like protein SKU5 protein that is involved in directed root tip growth. The Sku5 protein is glycosylated, GPI-anchored and localizes to the plasma membrane and the cell wall. The Sku5 gene is expressed most strongly in expanding tissues. The development of WS and Sku5 plants on orbit differs from that on the ground as demonstrated by the comparison of the gene expression profiles between 4 days old to 8 days old plant in the two environments. However the development of Sku5 mutant plants also differs from WS at either age and in either environment, suggesting the role of the genetic background in these developmental decisions. The 4 days old Sku5 roots in orbit engaged substantially more genes than the 4 days old WS roots in orbit but also more than the 4 days old Sku5 roots on the ground. Overall the 4 days old roots differentially expressed more genes in spaceflight relative to ground than the 8 days old roots of either genotype. Finally, the 4 days old Sku5 roots in orbit differ in 862 genes from the 8 days Sku5 roots in orbit while on the ground there is merely half of the number of genes differentially expressed between the 4 days and 8 days developmental stages of the Sku5 roots.

2020-03-01 | GSE95620 | GEO

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