Co-limitation - OmicsDI

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Organisms

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Technology Type

Mass Spectrometry (24)
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Instrument Platform

Illumina NovaSeq 6000 (96)
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Illumina HiSeq 4000 (28)
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Illumina MiSeq (12)
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Illumina Genome Analyzer II (6)
Axon GenePix 4000B scanning hardware (6)
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Illumina NovaSeq X (5)
10x Genomics Chromium Controller (5)
Illumina HiSeq 1500 (5)
Illumina HiSeq 3000 (5)
GenePix 4000A [Axon Instruments] (4)
Axon- GenePix4000B (4)
Vortex (4)
Single cells were captured using the 10x Genomics Chromium Controller. (3)
G2565BA DNA microarray scanner [Agilent] (3)
N/A (3)
Single-Cell Extraction: For enzymatic digestion, pronase (Septomyces argeus, 1 mg/mL) was applied for 25 minutes at room temperature for P0 to P8 datasets. Cells were dissociated and triturated into a single-cell suspension in ACSF supplemented with 1% fetal calf serum (FCS) and DNase (1 µL/10 mL). Trituration was performed using three glass Pasteur pipettes of decreasing diameters. For P30 datasets, enzymatic digestion and cell dissociation were carried out using the Worthington Papain Dissociation System, following the manufacturer’s instructions. Single-Nuclei Extraction: For nuclei isolation, the Hibernate™-E Medium was removed, and 500 µL of chilled 0.1X NP40 Lysis Buffer was added. Tissue was homogenized using a Pellet Pestle (15 strokes) and incubated on ice for 5 minutes. The suspension was pipette-mixed 10 times using a wide-bore pipette tip and incubated for an additional 10 minutes on ice. Following lysis, 500 µL of chilled wash buffer was added, and the mixture was pipette-mixed 5 times using a regular-bore pipette tip. The suspension was filtered through a 30 µm cell strainer into a 50 mL tube to remove debris. The filtered suspension was transferred to a 1.5 mL tube and centrifuged at 950 × g for 10 minutes at 4°C. The supernatant was carefully removed, and the nuclei pellet was retained for downstream analysis. (2)
Element AVITI (2)
AB 5500 Genetic Analyzer (2)
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GenePix 4000B [Axon Instruments] (2)
Ion Torrent Proton (2)
DNBelab C Series High-throughput Single-cell RNA Library Preparation Set V3.0 (MGI Tech) (1)
DNBelab C-TaiM droplet generator (MGI Tech) (1)
Avatarget 12-well dual-chamber organ-on-chip system; AvatarFlow Organ Chip Flow Initiation Controller System (Avatarget Co., Ltd., Suzhou, China) (1)

Publication Date

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2003 (1)

CHEBI ID

CHEBI:32816 (3)
CHEBI:30769 (3)
CHEBI:4170 (2)
CHEBI:17562 (2)
CHEBI:25017 (2)
CHEBI:15428 (2)
CHEBI:28044 (2)
CHEBI:17821 (2)
CHEBI:27266 (2)
CHEBI:17750 (2)
CHEBI:16737 (2)
CHEBI:20067 (2)
CHEBI:72087 (1)
CHEBI:72086 (1)
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CHEBI:71847 (1)
CHEBI:71841 (1)
CHEBI:67073 (1)
CHEBI:74465 (1)
CHEBI:132785 (1)
CHEBI:72090 (1)
CHEBI:72091 (1)

Metabolite Name

Flavin Mononucleotide (2)
Citric acid (2)
Fasoracetam (2)
(+/-)-Tryptophan (2)
Gamma-Glutamylisoleucine (2)
Tetradecanedioic Acid (2)
Dodecanedioic Acid (2)
Flavin Adenine Dinucleotide (2)
Citric Acid (2)
Phosphonoacetic acid (1)
Dimethylsulfoniopropionic acid (1)
Aminomethylphosphonate (1)
Foeniculoside Iii (1)
Pelargonidin 3-Rutinoside (1)
Lapaquistat Acetate (1)
Uracil Analogue (1)
Beta-D-Fructofuranosyl-(2->1)-Beta-D-Fructofuranosyl-(2->6)-Alpha-D-Glucopyranosyl-(1->2)-Beta-D-Fructofuranosyl Beta-D-Fructofuranoside (1)
Pe(16:1(9Z)/Pgd2) (1)
Ts-943 (1)
4-Chloro-N-[2-Chloro-4-(Trifluoromethyl)Phenyl]Benzenesulfonamide (1)
17-O-Deacetylvindoline (1)
Calcitriol Phosphate (1)
5-Carboxypyranocyanidin 3-O-Beta-Glucopyranoside (1)
1,1'-Bis(2-Hydroxy-3-Methylcarbazole) (1)
5-[[5-[[5-(Pyrrol-2-Ylidenemethyl)Pyrrol-2-Ylidene]Methyl]-1H-Pyrrol-2-Yl]Methylidene]Pyrrole-2-Carboxylic Acid (1)
Hexanesulfonic Acid (1)
(5Z)-7-[(1R,2R,3R)-3-Hydroxy-2-[(1E,3S)-3-Hydroxy-5-Phenylpent-1-En-1-Yl]-5-Oxocyclopentyl]Hept-5-Enoylcarnitine (1)
N-(2,3-Dihydro-1H-Inden-2-Yl)-1-Methyl-4-Nitro-1H-Imidazol-5-Amine (1)
Ichangic Acid 17-Beta-D-Glucopyranoside (1)
Hordatine A Glucoside (1)

First Public Date

2026 (45)
2014 (19)
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2018 (9)
2020 (7)
2017 (6)
2016 (6)
2015 (6)
2021 (5)
2019 (5)
2023 (4)
2022 (2)
2013 (2)

Classification

fungi (5)
bacteria (5)

Modification

N6 (1)
N6-dimethyl-L-lysine (1)

Study type

Transcription profiling by array (497)
ChIP-seq (406)
ChIP-chip by tiling array (237)
RNA-seq of coding RNA (143)
ChIP-chip by array (91)
RNA-seq of coding RNA from single cells (78)
Methylation profiling by array (33)
Other (29)
Comparative genomic hybridization by array (20)
Methylation profiling by high throughput sequencing (20)
Unknown experiment type (19)
Transcription profiling by tiling array (10)
CLIP-seq (8)
RNA-seq of non coding RNA (7)
Cell line - High-throughput sequencing (6)
DNA-seq (6)
Animal - High-throughput sequencing (5)
Single nucleus RNA sequencing (5)
ATAC-seq (4)
RIP-seq (4)
RNA-seq of total RNA (4)
Transcription profiling by SAGE (3)
Genotyping by array (3)
Transcription profiling by RT-PCR (3)
ScATAC-seq (3)
Human - High-throughput sequencing (2)
High-throughput sequencing (2)
MicroRNA profiling by high throughput sequencing (2)
MicroRNA profiling by array (2)
ChIP-chip by SNP array (1)

Release Date

2013 (300)
2015 (198)
2014 (184)
2010 (180)
2025 (169)
2012 (166)
2011 (138)
2023 (137)
2016 (129)
2021 (123)
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2022 (117)
2020 (96)
2018 (84)
2019 (70)
2026 (64)
2008 (60)
2009 (59)
2017 (57)
2007 (45)
2005 (44)
2006 (38)
2004 (13)
2002 (2)
2003 (1)
1999 (1)
1998 (1)

Lab affiliation

Marine Chemistry/Geochemistry Woods Hole Oceanographic Institution USA (1)
Department of Pathology, Medical University of Vienna, Austria (1)
Chemical and Biological engineering, The University of Sheffield (1)
Group Leader. Laboratorio de Neurobiologia Molecular y Celular. Institutto de Investigaciones Biotecnologicas (IIBio) Consejo de Investigaciones Cientificas y Tecnicas (CONICET) Universidad Nacional de San Martin (UNSAM) (1)
Woods Hole Oceanographic Institution, Marine Chemistry and Geochemistry Department (1)
Department of Biological Sciences, University of Cyprus, Cyprus (1)
Department of Biochemistry and Microbiology, Rutgers, the State University of New Jersey, New Brunswick, NJ, USA. (1)
Helmholtz Institute for RNA-based Infection Research, Helmholtz-Center for Infection Research, Würzburg, Germany Faculty of Medicine, University of Würzburg, Würzburg, Germany (1)
Department of Ophthalmology University Medical Center Mainz Germany (1)
Marine Chemistry and Geochemistry Woods Hole Oceanographic Institution Woods Hole, MA USA (1)
Novo Nordisk Foundation Center for Protein Research (1)
Woods Hole Oceanographic Institute Woods Hole, MA 02543 (1)
Dalian Institute of Chemical Physics (1)
Woods Hole Oceanographic Institute, Marine Chemistry and Geochemistry Woods Hole, MA (1)
Department of Earth and Environmental Science, Columbia University; Lamont-Doherty Earth Observatory, Columbia University (1)
Cell Biology, Harvard Medical School, USA (1)
Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, MA (1)
Shenzhen Key Laboratory of Synthetic Genomics, Guangdong Provincial Key Laboratory of Synthetic Genomics, CAS Key Laboratory of Quantitative Engineering Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China (1)
Experimental Ophthalmo-Biology Group, Department of Cell Biology and Histology, University of the Basque Country UPV/EHU, Leioa, Spain (1)
Division of Molecular Genetics, German Cancer Research Center (DKFZ), Heidelberg, Germany (1)
University of Southern California (1)
Associate Professor Biology, Dalhousie University (1)
German Cancer Research Center (DKFZ), Heidelberg, Germany Functional Proteome Analysis (1)
Department of Chemistry, Yale University, New Haven, CT (1)

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FeLight Co-limitation Thalassiosira weissflogii

Effects of low light and iron/light co-limitation on Thalassiosira weissflogii

PRJEB12400 | ENA

Trichodesmium LC-MSMS iron and phosphorous co-limitation in the ocean

Nitrogen fixation by cyanobacteria supplies critical bioavailable nitrogen to marine ecosystems worldwide; however, field and lab data have demonstrated it to be limited by iron, phosphorus and/or CO2. To address unknown future interactions among these factors, we grew the nitrogen-fixing cyanobacte...

ORGANISM(S): Trichodesmium erythraeum IMS101

2018-08-09 | PXD010515 | Pride

Zinc-iron co-limitation of natural marine phytoplankton assemblages in coastal Antarctica

As an essential micronutrient that is scarce in surface ocean waters, zinc (Zn) has the potential to limit oceanic photosynthetic productivity and influence the global carbon cycle. Here we observed Zn co-limitation with iron (Fe) in the natural phytoplankton community of Terra Nova Bay, Antarctica,...

ORGANISM(S): phytoplankton metagenome

2025-09-29 | PXD037056 | Pride

Phytoplankton zinc iron limitation colimitation co-limitation antarctica

Global analysis of ocean phytoplankton nutrient limitation reveals high prevalence of co-limitation.

Not available

S-EPMC10435517 | biostudies-literature

Nitrogen and phosphorus co-limitation of tree growth in northern hardwood forests.

Not available

S-EPMC12501703 | biostudies-literature

Co-limitation of N and P is more prevalent in the Qinghai-Tibetan Plateau grasslands.

Not available

S-EPMC9975565 | biostudies-literature