ArticleApplied and environmental microbiology2004
Diverse organization of genes of the beta-ketoadipate pathway in members of the marine Roseobacter lineage.
Article in Applied and environmental microbiology, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 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
24 citing papers in PubMed, 61 citations in OpenAlex.
- Aromatic acid metabolism inApplied and environmental microbiology · 2025Article
- Unlocking microbial potential: advances in omics and bioinformatics for aromatic hydrocarbon degradation.World journal of microbiology & biotechnology · 2025Review
- Pathway crosstalk enables degradation of aromatic compounds in marineApplied and environmental microbiology · 2025Article
- Function and regulation ofApplied and environmental microbiology · 2025Article
- Blue valorization of lignin-derived monomers via reprogramming marine bacteriumApplied and environmental microbiology · 2024Article
- Evidence for novel polycyclic aromatic hydrocarbon degradation pathways in culturable marine isolates.Microbiology spectrum · 2024Article
- Molecular evaluation of the metabolism of estrogenic di(2-ethylhexyl) phthalate in Mycolicibacterium sp.Microbial cell factories · 2023Article
- Article
- Quorum Sensing and Antimicrobial Production Orchestrate Biofilm Dynamics in Multispecies Bacterial Communities.Microbiology spectrum · 2022Article
- Aerobic Methoxydotrophy: Growth on Methoxylated Aromatic Compounds byFrontiers in microbiology · 2022Article
- Ecological and Biotechnological Aspects of Pigmented Microbes: A Way Forward in Development of Food and Pharmaceutical Grade Pigments.Microorganisms · 2021Review
- Complete Genome Sequence ofMicrobiology resource announcements · 2019Article
- Comparative Genomics and Mutational Analysis Reveals a Novel XoxF-Utilizing Methylotroph in the Roseobacter Group Isolated From the Marine Environment.Frontiers in microbiology · 2018Article
- A glimpse into the genetic basis of symbiosis betweenJournal of genomics · 2017Article
- Draft genome sequence of the marineStandards in genomic sciences · 2016Article
- Simultaneous catabolism of plant-derived aromatic compounds results in enhanced growth for members of the Roseobacter lineage.Applied and environmental microbiology · 2013Article
- Production of the antimicrobial secondary metabolite indigoidine contributes to competitive surface colonization by the marine roseobacter Phaeobacter sp. strain Y4I.Applied and environmental microbiology · 2012Article
- PcaO positively regulates pcaHG of the beta-ketoadipate pathway in Corynebacterium glutamicum.Journal of bacteriology · 2010Article
- Temporal dynamics of South End tidal creek (Sapelo Island, Georgia) bacterial communities.Applied and environmental microbiology · 2009Article
- Binding site determinants for the LysR-type transcriptional regulator PcaQ in the legume endosymbiont Sinorhizobium meliloti.Journal of bacteriology · 2008Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Members of the Roseobacter lineage, an ecologically important marine clade within the class alpha-Proteobacteria, harbor genes for the protocatechuate branch of the beta-ketoadipate pathway, a major catabolic route for lignin-related aromatic compounds. The genes of this pathway are typically clustered, although gene order varies among organisms. Here we characterize genes linked to pcaH and -G, which encode protocatechuate 3,4-dioxygenase, in eight closely related members of the Roseobacter lineage (pairwise 16S rRNA gene sequence identities, 92 to 99%). Sequence analysis of genomic fragments revealed five unique pca gene arrangements. Identical gene organization was found for isolates demonstrating species-level identity (i.e., >99% 16S rRNA gene similarity). In one isolate, six functionally related genes were clustered: pcaQ, pobA, pcaD, pcaC, pcaH, and pcaG. The remaining seven isolates lacked at least one of these genes in their clusters, although the relative order of the remaining genes was preserved. Three genes (pcaC, -H, and -G) were physically linked in all isolates. A highly conserved open reading frame (ORF) was found immediately downstream of pcaG in all eight isolates. Reverse transcription-PCR analysis of RNA from one isolate, Silicibacter pomeroyi DSS-3, provides evidence that this ORF is coexpressed with upstream pca genes. The absence of this ORF in similar bacterial pca gene clusters from diverse microbes suggests a niche-specific role for its protein product in Roseobacter group members. Collectively, these comparisons of bacterial pca gene organization illuminate a complex evolutionary history and underscore the widespread ecological importance of the encoded beta-ketoadipate pathway.
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.