ArticleJournal of molecular evolution2008
Is 16S rDNA a reliable phylogenetic marker to characterize relationships below the family level in the enterobacteriaceae?
Article in Journal of molecular evolution, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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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.
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Who cites it
36 citing papers in PubMed, 115 citations in OpenAlex.
- Enterobacter Species: Opportunistic Human and Plant Pathogens With Plant-Beneficial Traits.Molecular plant pathology · 2026Review
- Design of genus-specific semi-nested primers for simple and accurate identification of Enterobacter strains.BMC microbiology · 2025Article
- Assessing the impact of diet formulation and age on targeted bacterial establishment in laboratory and mass-reared Mediterranean fruit fly using full-length 16S rRNA sequencing.Microbiology spectrum · 2025Article
- Diversity of Gut Bacteria of Field-CollectedInsects · 2025Article
- Modeling the mosaic structure of bacterial genomes to infer their evolutionary history.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Response of Chinese cabbage (Frontiers in microbiology · 2024Article
- Description of Limnobaculum eriocheiris sp. nov., an intestinal bacterium of Eriocheir sinensis, and reclassification of the genera Jinshanibacter and Insectihabitans as Limnobaculum.Antonie van Leeuwenhoek · 2023Article
- Identification and characterization of opportunistic pathogenFrontiers in plant science · 2023Article
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- A New Approach Using the SYBR Green-Based Real-Time PCR Method for Detection of Soft Rot Pectobacterium odoriferum Associated with Kimchi Cabbage.The plant pathology journal · 2022Article
- The Impact of Environmental Habitats and Diets on the Gut Microbiota Diversity of True Bugs (Hemiptera: Heteroptera).Biology · 2022Article
- Reclassification ofMicroorganisms · 2022Article
- Exploring the Dynamic of Bacterial Communities in Manila Clam (Frontiers in microbiology · 2022Article
- Description of three novel species ofFrontiers in microbiology · 2022Article
- Genome of Superficieibacter maynardsmithii, a novel, antibiotic susceptible representative of Enterobacteriaceae.G3 (Bethesda, Md.) · 2021Article
- Draft Genome Sequence of Enterobacter kobei M4-VN, Isolated from Potatoes with Soft Rot Disease.Microbiology resource announcements · 2020Article
- Similar yet different: phylogenomic analysis to delineate Salmonella and Citrobacter species boundaries.BMC genomics · 2020Article
- Description ofInternational journal of systematic and evolutionary microbiology · 2020Article
- Identification of pathogens from native urine samples by MALDI-TOF/TOF tandem mass spectrometry.Clinical proteomics · 2020Article
- Genetic diversity of Pantoea stewartii subspecies stewartii causing jackfruit-bronzing disease in Malaysia.PloS one · 2020Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The phylogenetic relationships of multiple enterobacterial species were reconstructed based on 16S rDNA gene sequences to evaluate the robustness of this housekeeping gene in the taxonomic placement of the enteric plant pathogens Erwinia, Brenneria, Pectobacterium, and Pantoea. Four data sets were compiled, two of which consisted of previously published data. The data sets were designed in order to evaluate how 16S rDNA gene phylogenies are affected by the use of different plant pathogen accessions and varying numbers of animal pathogen and outgroup sequences. DNA data matrices were analyzed using maximum likelihood (ML) algorithms, and character support was determined by ML bootstrap and Bayesian analyses. As additional animal pathogen sequences were added to the phylogenetic analyses, taxon placement changed. Further, the phylogenies varied in their placement of the plant pathogen species, and only the genus Pantoea was monophyletic in all four trees. Finally, bootstrap and Bayesian support values were low for most of the nodes, and all nonterminal branches collapsed in strict consensus trees. Inspection of 16S rDNA nucleotide alignments revealed several highly variable blocks punctuated by regions of conserved sequence. These data suggest that 16S rDNA, while effective for both species-level and family-level phylogenetic reconstruction, may underperform for genus-level phylogenetic analyses in the Enterobacteriaceae.
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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.