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MetabolomicsProfiling of lignin metabolites associated with fruit russeting

Broad-Targeted Metabolite Profiling of the Lignin Biosynthesis Pathway

2026-01-13 | MTBLS13669 | MetaboLights
TranscriptomicsA systems biology view of responses to lignin biosynthesis perturbations in Arabidopsis
Inflorescence stems of 20 Arabidopsis thaliana mutants, each mutated in a single gene of the lignin biosynthetic pathway (PAL1 , PAL2, C4H, 4CL1, 4CL2, CCoAOMT1, CCR1, F5H1, COMT and CAD6, two mutant alleles each) were analyzed by microarrays.
ORGANISM(S): Arabidopsis thaliana 
2012-09-20 | E-MTAB-1284 | biostudies-arrayexpress
TranscriptomicsPtr-miR397a is a negative regulator of laccase genes affecting lignin content in Populus trichocarpa
Laccases were proposed to catalyze the oxidative polymerization of monolignols. We identified 49 laccase gene models in Populus trichocarpa, of which 29 were predicted to be targets of ptr-miR397a. We overexpressed Ptr-MIR397a in transgenic P. trichocarpa. In each of all 9 transgenic lines tested, 1...
ORGANISM(S): Populus trichocarpa 
2014-01-17 | E-GEOD-54153 | biostudies-arrayexpress
ProteomicsProteomics of exovesicle-enriched fraction of Norway spruce
Exovesicle-enriched fraction was isolated from the culture medium of tissue-cultured cells of Norway spruce during extracellular lignin formation and when lignin formation was hindered by scavenging of H2O2 from the culture medium. Proteomic analysis was conducted to investigate the protein cargo of...
ORGANISM(S): Picea Abies (ncbitaxon:3329) 
2023-05-16 | MSV000091958 | MassIVE
ProteomicsProteomics of exovesicle-enriched fraction of Norway Spruce, non-EDTA-extracted samples
Exovesicle-enriched fraction was isolated from the culture medium of tissue-cultured cells of Norway spruce during extracellular lignin formation and when lignin formation was hindered by scavenging of H2O2 from the culture medium. Proteomic analysis was conducted to investigate the protein cargo of...
ORGANISM(S): Picea Abies (ncbitaxon:3329) 
2023-06-30 | MSV000092312 | MassIVE
Genomicslignin
lignin Raw sequence reads
PRJNA1327111 | ENA
ProteomicsOuter membrane vesicles catabolize lignin-derived aromatic compounds in Pseudomonas putida KT2440
Lignin modifications and the exoproteome of three aromatic catabolic bacteria: Pseudomonas putida KT2440, Rhodoccocus jostii RHA1, and Amycolatopsis sp. ATCC 39116. Samples were digested with trypsin, then analyzed by LC-MS/MS. Data was searched with MSGF+ and abundances inferred using PNNL's DMS an...
ORGANISM(S): Pseudomonas Putida Kt2440 (ncbitaxon:160488) Amycolatopsis Sp. Atcc 39116 (ncbitaxon:385957) Rhodococcus Jostii Rha1 (ncbitaxon:101510) 
2019-11-01 | MSV000084524 | MassIVE
TranscriptomicsTranscription profiling by array of Arabidopsis thaliana stems to investigate the transcriptome of myb103 mutants to better understand the mechanism underlying MYB103 action
Two null mutants of MYB103 were found to have decreased expression of FERULATE-5-HYDROXYLASE and reduced syringyl lignin in the basal inflorescence stem. The aim with this microarray experiment was to investigate the transcriptome of these myb103 mutants to better understand the mechanism underlying...
ORGANISM(S): Arabidopsis thaliana 
2012-09-01 | E-MEXP-3680 | biostudies-arrayexpress
TranscriptomicsArabidopsis thaliana strain:Columbia 0Transcriptome or Gene expression
Mutation of the lignin biosynthetic gene REF8, which encodes p-coumaroylshikimate 3'-hydroxylase, causes widespread changes in gene expression in Arabidopsis thaliana. Disruption of the genes encoding MED5a and MED5b, subunits of the transcriptional coregulatory complex Mediator, rescue the stunted ...
ORGANISM(S): Arabidopsis thaliana 
2014-05-13 | E-MTAB-4193 | biostudies-arrayexpress
ProteomicsMeta-omics profiling of denitrifying bacterial communities with lignin as carbon source
Lignin is the most abundant renewable source of aromatic carbon and its microbial depolymerization and metabolism under aerobic conditions is well studied. However, lignin breakdown in the absence of oxygen remains poorly understood. Here, we established long-term bacterial enrichment cultures suppl...
ORGANISM(S): Simplicispira hankyongi Pseudomonas citronellolis 
2026-03-25 | PXD070955 | Pride
Denitrification Lignin Metaproteomics Bacteria 
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