Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

NLDM Set 2: Metabolomics of Chlamydomonas and Brevundimonas

ABSTRACT: Chlamydomonas and Brevundimonas, a bacterium co-isolated from wild Chlamydomonas, were grown separately and together in 3mL fresh NLDM, as well as 3mL of the other organism's spent media (separately only), at 28oC and 200RPM in a diel cycle of alternating 12 hours and light and dark for 24 hours, and samples were collected to understand their metabolic capacities and possible symbiotic relationship. This research was performed under the Facilities Integrating Collaborations for User Science (FICUS) program (proposal:https://doi.org/10.46936/fics.proj.2021.60010/60000390) and used resources at the DOE Joint Genome Institute (https://ror.org/04xm1d337) and the Environmental Molecular Sciences Laboratory (https://ror.org/04rc0xn13), which are DOE Office of Science User Facilities operated under Contract Nos. DE-AC02-05CH11231 (JGI) and DE-AC05-76RL01830 (EMSL).

INSTRUMENT(S): Q Exactive

ORGANISM(S): Chlamydomonas Reinhardtii Cc5390 Brevundimonas Sp.

SUBMITTER: Sabeeha Merchant

PROVIDER: MSV000098291 | MassIVE | Mon Jun 23 14:02:00 BST 2025

REPOSITORIES: MassIVE

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Discover ectomycorrhizal fungi-triggered macro- and micronutrient reactions and movements: From cell to ecosystem function

Project description:The samples were collected from pine seedling bioassay, consisting of pine root wash-off water samples and washed pine root samples. This research was performed under the Facilities Integrating Collaborations for User Science (FICUS) program (proposal:https://doi.org/10.46936/fics.proj.2019.50960/60000126) and used resources at the DOE Joint Genome Institute (https://ror.org/04xm1d337) and the Environmental Molecular Sciences Laboratory (https://ror.org/04rc0xn13), which are DOE Office of Science User Facilities operated under Contract Nos. DE-AC02-05CH11231 (JGI) and DE-AC05-76RL01830 (EMSL).

2025-04-24 | MSV000097719 | MassIVE

Plant-mycorrhizal-decomposer interactions under climate change: the role of shifting plant carbon allocation

Project description:Our work focuses on an economically and societally important plant-EMF system that dominates coniferous forests in U.S. and abroad; plants in the Pinaceae and their EMF symbionts in the genus Suillus. Pinaceae forests cover ~30% of U.S. land area and store approximately 57.8 billion tons of C. Pines have also been introduced to over 5 million Ha of land in the Southern Hemisphere, where populations of non-native Pinaceae species are escaping from original plantations and co- invading with their EMF symbionts, with unknown consequences to ecosystem biogeochemistry. At the DOE-funded Duke Free-Air CO2 Enrichment (FACE) experiment in North Carolina, U.S., Pinus taeda trees accumulated biomass quickly under elevated CO2, using unknown mechanisms for mining soil N to support rapid growth. Our analysis of the Suillus-Pinus system will generate molecular data on these responses, providing insight into the prospects for sustained plant productivity – and ecosystem C storage – under elevated CO2. By linking our molecular data with development of an ecosystem model, our proposed work directly meets DOE BER’s mission of translating genomics data into digestible units that can improve our predicative understanding of terrestrial biogeochemistry. This research was performed under the Facilities Integrating Collaborations for User Science (FICUS) program (proposal:https://doi.org/10.46936/fics.proj.2020.51536/60000208) and used resources at the DOE Joint Genome Institute (https://ror.org/04xm1d337) and the Environmental Molecular Sciences Laboratory (https://ror.org/04rc0xn13), which are DOE Office of Science User Facilities operated under Contract Nos. DE-AC02-05CH11231 (JGI) and DE-AC05-76RL01830 (EMSL).

2025-06-23 | MSV000098285 | MassIVE

Leveraging pan genomes to investigate diel transcriptomic and metabolomic responses to abiotic stress in Brassica. rapa and B. napus diversity panels.

Project description:Metabolomic analysis of the abiotic stress experiments on tissue from Brassicaceae genotypes. The work (proposal:https://doi.org/10.46936/10.25585/60001202) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231.

2023-11-02 | MSV000093268 | MassIVE

Comparative and Population Genomics of Xylariaceae

Project description:We are examining the metabolites produced during co-culture of Xylariaceae fungi. The work (proposal:https://doi.org/10.46936/10.25585/60001144) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231.

2023-11-02 | MSV000093277 | MassIVE

Exploring the role of drought-induced plant-associated microbes in promoting plant fitness in Sorghum bicolor and Oryza sativa

Project description:We investigate the role of root-associated Actinobacteria in promoting host fitness under drought stress in two plants important to the DOE mission of sustainable biofuels: Sorghum bicolor and Oryza sativa. The work (proposal:https://doi.org/10.46936/10.25585/60001083) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231.

2023-11-02 | MSV000093246 | MassIVE

Tracking the degradation of fresh particulate organic matter in permeable riverbed sediments

Project description:This project builds upon a DOE Subsurface Biogeochemical Research (SBR) project on the transport and metabolism of fresh, photosynthetically-derived (mainly periphyton) particulate organic matter (POM) in near-surface riverbed sediments at the PNNL SFA Hanford 300 Area study site. We propose to utilize a combination of Fourier-transform ion cyclotron resonance mass spectrometry (FT-ICR-MS) and polar metabolomics, together with metagenomic/transcriptomic sequencing to track, in a substrate-explicit manner, the degradation of fresh POM in Hanford 300 Area riverbed sediments. The overarching hypothesis behind our proposed research is that there will be detectable chemical and (meta)genomic responses to the input of fresh POM. Many previous studies have demonstrated distinct metabolic and bulk geochemical responses to fresh POM input, and a few studies have directly examined the uptake and degradation of POM in permeable marine sediments. In addition, our recent studies at the Hanford 300 Area indicate that in situ input of fresh POM (likely dominated by periphyton detritus) to the near-surface riverbed is an important driver of both microbial community composition and activity in the vicinity of the Hanford 300 Area. This research was performed under the Facilities Integrating Collaborations for User Science (FICUS) program (proposal:https://doi.org/10.46936/fics.proj.2021.60033/60000394) and used resources at the DOE Joint Genome Institute (https://ror.org/04xm1d337) and the Environmental Molecular Sciences Laboratory (https://ror.org/04rc0xn13), which are DOE Office of Science User Facilities operated under Contract Nos. DE-AC02-05CH11231 (JGI) and DE-AC05-76RL01830 (EMSL).

2025-04-24 | MSV000097722 | MassIVE

Homoserine lactone standards and heterologous expression of LuxI family synthases in E. coli

Project description:This dataset contains spectra of LuxI family synthases heterologously expressed and induced in E. coli as well as commercial homoserine lactones. The work (proposal:https://doi.org/10.46936/10.25585/60001376) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231.

2023-08-04 | MSV000092598 | MassIVE

Global metabolic profile comparison between 2 ecotypes upon inoculation with Azoarcus olearius

Project description:Arabidopsis thaliana associated with Plant Growth Promoting Bacteria (PGPB) Azoarcus olearius (DQS4) innoculated with WS (Wassilewskija) and Col0 (Columbia) ecotypes. The work (proposal:https://doi.org/10.46936/10.25585/60000448) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231.

2023-11-02 | MSV000093274 | MassIVE

Decoding the specificity between MCP chemotaxis receptors and root exudates of plants

Project description:33 total samples. * 1 is seed exudates (30 sprouts in nutrient water, 24 hours, ~30 mL). * 28 are from EcoFabs (14, 15, 16 and 17 days with 7 total individual plant replicates, ~8-10 mL each) * 4 are from "magenta box" hydroponics plants grown to 42 days old (2 replicates) and 48 days old (2 replicates). All of them were collected in sterile nutrient water, replaced 24 hours before I harvested, filter sterilized and flash frozen. The work (proposal:https://doi.org/10.46936/10.25585/60008098) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231.

2025-06-23 | MSV000098289 | MassIVE

Genetic, community, and ecosystem consequences of co-introduction of mycorrhizal fungiwith exotic pines

Project description:Suillus luteus mycorrhizae will be experimentally synthesized on the roots of pine seedlings, grown in aseptic conditions from seeds representing either native wild-type European genotypes of Pinus pinaster (a native host of S. luteus) or typical forestry production genotypes of P. radiata. The work (proposal:https://doi.org/10.46936/10.25585/60001406) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231.

2023-11-03 | MSV000093294 | MassIVE

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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