Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Madison Aquifer 16S rRNA Pyrosequencing Wind Cave Lakes and Streeter Well

ABSTRACT: Madison Aquifer 16S rRNA Pyrosequencing Wind Cave Lakes and Streeter Well Raw sequence reads

PROVIDER: PRJNA471689 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR7171850.fastq.gz	Fastqsanger.gz
	SRR7171851.fastq.gz	Fastqsanger.gz
	SRR7171845.fastq.gz	Fastqsanger.gz
	SRR7171846.fastq.gz	Fastqsanger.gz
	SRR7171847.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 7

Similar Datasets

High-throughput 16S rRNA amplicon pyrosequencing of contaminated aquifer sediment

Project description:Contaminated aquifer (Dusseldorf-Flinger, Germany) templates extracted from 5 sediment depths ranging between 6.4 and 8.4 m below ground and over 3 years of sampling were amplified for amplicon pyrosequencing using the primers Ba27f (5’-aga gtt tga tcm tgg ctc ag-3’) and Ba519r (5’- tat tac cgc ggc kgc tg-3’), extended as amplicon fusion primers with respective primer A or B adapters, key sequence and multiplex identifiers (MID) as recommended by 454/Roche. Amplicons were purified and pooled as specified by the manufacturer. Emulsion PCR (emPCR), purification of DNA-enriched beads and sequencing run were performed following protocols and using a 2nd generation pyrosequencer (454 GS FLX Titanium, Roche) as recommended by the developer. Quality filtering of the pyrosequencing reads was performed using the automatic amplicon pipeline of the GS Run Processor (Roche), with a slight modification concerning the valley filter (vfScanAllFlows false instead of TiOnly) to extract the sequences. Demultiplexed raw reads were furhter trimmed for quality and lenght (>250 bp). 15 samples examined in total from important plume zones of the aquifer sampled in Feb. 2006, Sep. 2008 and Jun. 2009 (5 every year of sampling).

2012-11-11 | E-GEOD-25345 | biostudies-arrayexpress

High-throughput 16S rRNA amplicon pyrosequencing of contaminated aquifer sediment

2012-11-11 | GSE25345 | GEO

The quantitative biotinylproteomics studies reveals WInd-Related Kinase (WIRK1) functioning as a wind signaling component in Wind-induced Thigmomorphpgenesis and Gravitropism

Project description:Wind is one of the most prevalent environmental forces entraining plants to develop various mechano-responses, collectively called thigmomorphogenesis. Largely unknown is how plants transduce the complex wind force signals downstream to nuclear events and the development of thigmomorphogenic phenotype or anemotropic response. To identify molecular components of the wind drag force signaling, two force-regulated phosphoproteins, identified from our previous phosphoproteomic study of Arabidopsis touch response, mitogen-activated protein kinase kinase 1 (MKK1) and 2 (MKK2), were selected for performing in planta TurboID (ID)-based proximity-labeling (PL) proteomics. This quantitative biotinylproteomics was separately performed on MKK1-ID and MKK2-ID transgenic plants, respectively, using the TurboID overexpression transgenics as a universal control. This quantitative biotinylproteomic work successfully identified 11 and 71 MKK1- and MKK2 - associated proteins, respectively. A WInd-Related Kinase 1 (WIRK1), previously known as Rapidly Accelerated Fibrosarcoma 36 protein (RAF36), was eventually found to be a common interactor for both MKK1 and MKK2 kinases. Further molecular biology studies of the Arabidopsis RAF36 kinase found that it plays a role in wind regulation of the expression of touch-responsive TCH3 and CML38 genes and the phosphorylation of a touch-regulated PATL3 phosphoprotein. Measurement of leaf morphology and shoot gravitropic response of wirk1-1 mutant revealed that the WIRK1 gene is involved in both wind response and gravitropism of Arabidopsis, suggesting that WIRK1 protein may serve as the crosstalk point among multiple signal transduction pathways of both gravitropic and wind responses. It is likely that gravity force signaling may be an integral part of the wind mechano-signaling network in various parts of plant organs.

2024-06-22 | PXD048765 | Pride

aquifer metagenome

Project description:High-throughput 16S rRNA amplicon pyrosequencing of contaminated aquifer sediment

| PRJNA134929 | ENA

Wind-responsive changes in poplar leaves of different developmental stages

Project description:A developmental series of wind-treated Populus leaf tissue was subjected to array analyses in order to address the issue of age-dependent responsiveness to environmental changes. The following developmental stages were defined for the experiment: Y – “youngest leaf” including the shoot tip = smallest fully enrolled leaf; E – “expanded leaf” = oldest leaf that had not reached full leaf thickness; M – “mature leaf” = 5th leaf below E = has reached full leaf expansion and full leaf thickness; O – “old leaf” = 5th leaf below E. Keywords: transcription profiling Two-condition experiment, control (K) vs. Wind-treated (W) leaves. Biological replicates: 3 control (1-3), wind-exposed (1-3), independently grown and harvested. One swap replicate per array.

2008-04-03 | E-GEOD-11026 | biostudies-arrayexpress

Wind-responsive changes in poplar leaves of different developmental stages

2008-04-03 | GSE11026 | GEO

Expression analysis in anaerobic Hanford 100H aquifer flow-through columns receiving lactate and chromate

Project description:Columns containing Hanford 100H aquifer sediment continuously infused with 5 mM lactate, 5 uM Cr(VI), and either 7.5 mM sulfate or 12 mM nitrate as an electron acceptor.

2014-04-08 | GSE56554 | GEO

Transcriptome-stable isotope probing provides targeted functional and taxonomic insights into hypoxic pollutant-degrading aquifer microbiota

Project description:We investigated a contaminant-degrading microbial community by sequencing total RNA (without rRNA depletion) from microcosms containing sediment from a hypoxic contaminated aquifer fed with isotopically labeled toluene.

2018-09-07 | GSE119644 | GEO

Soil pyrosequencing

Project description:Soil pyrosequencing Raw sequence reads

| PRJNA422734 | ENA

Aquifer

Project description:Aquifer Raw sequence reads

| PRJNA509748 | ENA