ArticleThe Journal of biological chemistry2012
N-acetylgalactosamine utilization pathway and regulon in proteobacteria: genomic reconstruction and experimental characterization in Shewanella.
Article in The Journal of biological chemistry, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
25 citing papers in PubMed, 62 citations in OpenAlex.
- Establishment of the chromid database and analysis of evolutionary research.Molecular genetics and genomics : MGG · 2026Article
- New insights in amino sugar metabolism by the gut microbiome.Gut microbes · 2025Review
- The utilization of N-acetylgalactosamine and its effect on the metabolism of amino acids in Erysipelotrichaceae strain.BMC microbiology · 2024Article
- A pathway for chitin oxidation in marine bacteria.Nature communications · 2022Article
- Article
- Article
- Quantifying the regulatory role of individual transcription factors in Escherichia coli.Cell reports · 2021Article
- Comparative genomic analysis of obligately piezophilicMicrobial genomics · 2021Article
- Transcriptional Regulation of Plant Biomass Degradation and Carbohydrate Utilization Genes in the Extreme ThermophilemSystems · 2021Article
- Isolation and genomic characterization of five novel strains of Erysipelotrichaceae from commercial pigs.BMC microbiology · 2021Article
- Resource partitioning of phytoplankton metabolites that support bacterial heterotrophy.The ISME journal · 2021Article
- Compositional and functional characterisation of biomass-degrading microbial communities in guts of plant fibre- and soil-feeding higher termites.Microbiome · 2020Article
- Selective and Accurate Quantification ofAnalytical chemistry · 2020Article
- Galactitol catabolism in Sinorhizobium meliloti is dependent on a chromosomally encoded sorbitol dehydrogenase and a pSymB-encoded operon necessary for tagatose catabolism.Molecular genetics and genomics : MGG · 2019Article
- How Bioinformatic Tools Guide Experiments To Resolve the Chaos of Apparently Unlimited Metabolic Variation.Journal of bacteriology · 2019Article
- Transcriptional profiling of the mutualistic bacteriumNPJ microgravity · 2018Article
- Relationships between gastrointestinal microbiota and blood group antigens.Physiological genomics · 2017Article
- Comparative Genomic Analysis of the Human Gut Microbiome Reveals a Broad Distribution of Metabolic Pathways for the Degradation of Host-Synthetized Mucin Glycans and Utilization of Mucin-Derived Monosaccharides.Frontiers in genetics · 2017Article
- Genomic Reconstruction of Carbohydrate Utilization Capacities in Microbial-Mat Derived Consortia.Frontiers in microbiology · 2017Article
- Two novel regulators of N-acetyl-galactosamine utilization pathway and distinct roles in bacterial infections.MicrobiologyOpen · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 2 institutions in 3 countries.
Funding
Abstract
We used a comparative genomics approach to reconstruct the N-acetyl-d-galactosamine (GalNAc) and galactosamine (GalN) utilization pathways and transcriptional regulons in Proteobacteria. The reconstructed GalNAc/GalN utilization pathways include multiple novel genes with specific functional roles. Most of the pathway variations were attributed to the amino sugar transport, phosphorylation, and deacetylation steps, whereas the downstream catabolic enzymes in the pathway were largely conserved. The predicted GalNAc kinase AgaK, the novel variant of GalNAc-6-phosphate deacetylase AgaA(II) and the GalN-6-phosphate deaminase AgaS from Shewanella sp. ANA-3 were validated in vitro using individual enzymatic assays and reconstitution of the three-step pathway. By using genetic techniques, we confirmed that AgaS but not AgaI functions as the main GalN-6-P deaminase in the GalNAc/GalN utilization pathway in Escherichia coli. Regulons controlled by AgaR repressors were reconstructed by bioinformatics in most proteobacterial genomes encoding GalNAc pathways. Candidate AgaR-binding motifs share a common sequence with consensus CTTTC that was found in multiple copies and arrangements in regulatory regions of aga genes. This study provides comprehensive insights into the common and distinctive features of the GalNAc/GalN catabolism and its regulation in diverse Proteobacteria.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.