Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Response of HEK293 Freestyle cells to 36 h of culture in Zn(II)-depleted Freestyle medium

ABSTRACT: We describe the preparation, evaluation, and application of an S100A12 protein-conjugated solid support, hereafter the “A12-resin,” that can remove 99% of Zn(II) from complex biological solutions without significantly perturbing the concentrations of other metal ions. The A12-resin can be applied to selectively deplete Zn(II) from diverse tissue culture media and from other biological fluids including human sera. To further demonstrate the utility of this approach, we investigated metabolic, transcriptomic, and metallomic responses of HEK293T cells cultured in medium depleted of Zn(II) using S100A12. Our data indicate that dividing cells can maintain a constant pool of free Zn(II), even under conditions of severe Zn(II) deprivation. We expect that the A12-resin will facilitate interrogation of disrupted Zn(II) homeostasis in biological settings, uncovering novel roles for Zn(II) in biology.

ORGANISM(S): Homo sapiens

PROVIDER: GSE108923 | GEO | 2018/01/18

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Oidiodendron maius Zn strain:Zn

Project description:Oidiodendron maius Zn strain:Zn Genome sequencing and assembly

| PRJNA74727 | ENA

Low Zn vs high Zn in CDM

Project description:Comparison of the Streptococcus pneumoniae D39 wild-type in CDM Plus 0mM Zn and CDM plus 0.2 mM Zn Two condition design comparison of Wild-type strain including a dye swap

2011-05-13 | E-GEOD-29235 | biostudies-arrayexpress

RNAseq Analysis of Transcriptomic Response to Zn Resupply in Chlamydomonas reinhardtii

Project description:Zn-limited cells accumulate Cu in intracellular structures in a reversable manner. We used RNAseq analysis to monitor gene expression in Zn-limited cells, and during a time course (0 - 24 h) after Zn resupply. Comparison of Chlamydomonas reinhardtii gene expression when Zn deficient cells are resupplied with 2.5 M-BM-5M Zn. Time points 0 (before resupply), 1.5, 3, 4.5, 12, and 24 hours after resupply. Four biological replicates per condition.

2014-11-01 | E-GEOD-58786 | biostudies-arrayexpress

Transcriptional responses of V. parahaemolyticus to Zn limitation.

Project description:RNA sequencing analysis of the transcriptome of V. parahaemolyticus RIMD2210633 strain grown under Zn-deficient (LB pretreated with 35 μM TPEN) and Zn-replete conditions (LB pretreated with 35 μM TPEN along with 500 μM Zn).

2022-04-24 | GSE200927 | GEO

Combining P and Zn fertilization to enhance yield, grain Zn availability and protein profile in maize grown on Mediterranean soils

Project description:Alkaline soils such as those found in some Mediterranean areas typically have a low phosphorus (P) and zinc (Zn) phytoavailability that detracts from plant growth and yield. We examined the effects of P and Zn fertilization individually and in combination on growth, yield and grain protein content in maize grown in pots filled with three Mediterranean soils. P and Zn translocation was impaired, and yield reduced by 8–85%, in plants treated with Zn or P alone. In contrast, joint fertilization with P and Zn enhanced translocation to grain and nutrient use efficiency, thereby increasing plant growth, yield (31–121%) and grain Zn availability. Fertilization with P or Zn also influenced the abundance of specific proteins affecting grain quality (viz., storage, lys-rich and cell wall proteins), which were more abundant in mature grains from plants fertilized with Zn alone and, to a lesser extent, P + Zn.

2021-09-09 | PXD021503 | Pride

Transcriptomic study of rice crowns from genotypes differing in tolerance to Zn deficiency

Project description:The transcriptome of crown tissue from several Zn-efficient and Zn-inefficient rice genotypes, exposed or not to Zn deficiency, was investigated using RNA sequencing. By grouping data from different genotypes within each efficiency group, we were able to 1) identify several well-known and novel Zn transporters involved in Zn retranslocation from the crown to the shoot and roots in response to Zn deficiency; 2) determine that Zn deficiency triggers the conversion of soluble sugars into starch; and 3) detect several candidate genes possibly conferring Zn efficiency.

2017-03-01 | GSE86272 | GEO

RNAseq Analysis of Transcriptomic Response to Zn Resupply in Chlamydomonas reinhardtii

2014-11-01 | GSE58786 | GEO

RNA-seq of PBT2-Zn treated Fusobacterium nucleatum cells in vitro

Project description:To investigate the effect of the Zn ionophore, PBT2, on the transcriptomic response of Fusobacterium nucleatum ATCC 25586, RNA was extracted from bacterial samples which had been treated as follows: Untreated (0.006% DMSO v/v), DMSO-Zn treated (0.006% DMSO v/v + 200 uM ZnSO4), or PBT2-Zn treated (0.125 ug/mL PBT2 + 200 uM ZnSO4) (DMSO was the vehicle control). RNA samples were collected at 0h, 0.5h, and 1h post challenge in biological triplicate and sequenced using Illumina HiSeq platform. We mapped sequences to the reference genome F. nucleatum subsp. nucleatum ATCC 25586 and performed DEseq2 analysis to determine differentially expressed genes across time and treatment.

2021-07-15 | E-MTAB-8681 | biostudies-arrayexpress

ZN-c3 in Adult Participants With Metastatic Colorectal Cancer

Project description:The purpose of this study is to evaluate the safety, tolerability, and potential clinical benefits of ZN-c3 administered in combination with encorafenib and cetuximab in adult participants with metastatic BRAF V600E mutant colorectal cancer previously treated with one or two treatment regimens.

| 9490 | ecrin-mdr-crc

Lack of a Zn/Co substitution ability in the polar diatom Chaetoceros RS19

Project description:Functional substitution of the essential trace metals zinc (Zn) and cobalt (Co) within metalloenzymes has been well documented in marine diatoms and is known to be prevalent among varying genera and species. In contrast to the majority of species studied to date, we find that the polar diatom Chaetoceros RS19, originally isolated from the Ross Sea, Antarctica, has a Zn requirement that cannot be met by Co and thus does not demonstrate a Zn/Co substitution ability as assessed by growth rate. We investigate the underlying metabolic basis of Zn/Co substitution at the transporter, sensor/chaperone, and metalloenzyme level by employing metal quota, metal uptake rate, and proteomic analyses of this substitution-incapable diatom. Co appears to be transported into the cell, but not efficiently utilized by Zn metalloenzymes.

2022-03-02 | PXD026895 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data