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Microbial Genomics Dec 2021Beta-proteobacteria belonging to the genus have been described from various environments. Many strains can interact with a range of hosts, including humans and plants,...
Beta-proteobacteria belonging to the genus have been described from various environments. Many strains can interact with a range of hosts, including humans and plants, forming neutral, beneficial or detrimental associations. In the frame of this study, we investigated the genomic properties of 52 bacterial strains of the genus , isolated from healthy roots of with the intent of identifying traits important for effective plant-growth promotion. Based on single-strain inoculation bioassays with , performed in a gnotobiotic system, we distinguished seven robust plant-growth promoting strains from strains with no significant effects on plant-growth. We showed that the genomes of the two groups differed prominently in protein families linked to sensing and transport of organic acids, production of phytohormones, as well as resistance and production of compounds with antimicrobial properties. In a second step, we compared the genomes of the tested isolates with those of plant pathogens and free-living strains of the genus sourced from public repositories. Our pan-genomics comparison revealed features correlated with commensal and pathogenic lifestyle. We showed that commensals and pathogens differ mostly in their ability to use plant-derived lipids and in the type of secretion-systems being present. Most free-living strains did not harbour any secretion-systems. Overall, our data indicate that strains undergo extensive adaptations to their particular lifestyle by horizontal uptake of novel genetic information and loss of unnecessary genes.
Topics: Bacterial Proteins; Comamonadaceae; Genome, Bacterial; Genomics; High-Throughput Nucleotide Sequencing; Lotus; Phylogeny; Plant Diseases; Sequence Analysis, DNA; Symbiosis
PubMed: 34889729
DOI: 10.1099/mgen.0.000666 -
International Journal of Molecular... Oct 2022Bacterial fruit blotch (BFB) is a disease of cucurbit plants caused by . Although has great destructive potential, the molecular mechanisms of pathogenicity of are not...
Bacterial fruit blotch (BFB) is a disease of cucurbit plants caused by . Although has great destructive potential, the molecular mechanisms of pathogenicity of are not clear, particularly with regard to its type III secreted effectors. In this study, we characterized the type III secreted effector protein, AopV, from strain Aac5. We show that AopV significantly inhibits reactive oxygen species and the expression of PTI marker genes, and helps the growth of D36E in . In addition, we found that the aromatic dehydratase ADT6 from watermelon was a target of AopV. AopV interacts with ADT6 in vivo and in vitro. Subcellular localization indicated ADT6 and AopV were co-located at the cell membrane. Together, our results reveal that AopV suppresses plant immunity and targets ADT6 in the cell membrane. These findings provide an new characterization of the molecular interaction of effector protein AopV with host cells.
Topics: Citrullus; Comamonadaceae; Hydro-Lyases; Plant Diseases; Plant Immunity; Reactive Oxygen Species
PubMed: 36233021
DOI: 10.3390/ijms231911719 -
International Journal of Molecular... Aug 2022Bacterial fruit blotch (BFB) caused by (Ac) is a devastating watermelon disease that severely impacts the global watermelon industry. Like other Gram-negative bacteria,...
Bacterial fruit blotch (BFB) caused by (Ac) is a devastating watermelon disease that severely impacts the global watermelon industry. Like other Gram-negative bacteria, the type three secretion system (T3SS) is the main pathogenicity factor of . The T3SS apparatus gene codes for the Hrp pilus and serves as a conduit to secret effector proteins into host cells. In this study, we found that the deletion of in results in the loss of pathogenicity on hosts and the hypersensitive response on non-hosts. In addition, the mutant showed a reduction in in vitro growth, colonization, swimming and twitching motility, and displayed increases in biofilm formation ability compared to the wild type. However, when HrpE was transiently expressed in hosts, the defense responses, including reactive oxygen species bursts, callose deposition, and expression of defense-related genes, were activated. Thus, the growth in HrpE-pretreated hosts was suppressed. These results indicated that HrpE is essential for virulence but can also be used by hosts to help resist . Our findings provide a better understanding of the T3SS pathogenesis in , thus providing a molecular basis for biopesticide development, and facilitating the effective control of BFB.
Topics: Citrullus; Comamonadaceae; Immunity; Virulence
PubMed: 36012409
DOI: 10.3390/ijms23169144 -
Genome Biology Aug 2018Lung cancer is the leading cancer diagnosis worldwide and the number one cause of cancer deaths. Exposure to cigarette smoke, the primary risk factor in lung cancer,...
BACKGROUND
Lung cancer is the leading cancer diagnosis worldwide and the number one cause of cancer deaths. Exposure to cigarette smoke, the primary risk factor in lung cancer, reduces epithelial barrier integrity and increases susceptibility to infections. Herein, we hypothesize that somatic mutations together with cigarette smoke generate a dysbiotic microbiota that is associated with lung carcinogenesis. Using lung tissue from 33 controls and 143 cancer cases, we conduct 16S ribosomal RNA (rRNA) bacterial gene sequencing, with RNA-sequencing data from lung cancer cases in The Cancer Genome Atlas serving as the validation cohort.
RESULTS
Overall, we demonstrate a lower alpha diversity in normal lung as compared to non-tumor adjacent or tumor tissue. In squamous cell carcinoma specifically, a separate group of taxa are identified, in which Acidovorax is enriched in smokers. Acidovorax temporans is identified within tumor sections by fluorescent in situ hybridization and confirmed by two separate 16S rRNA strategies. Further, these taxa, including Acidovorax, exhibit higher abundance among the subset of squamous cell carcinoma cases with TP53 mutations, an association not seen in adenocarcinomas.
CONCLUSIONS
The results of this comprehensive study show both microbiome-gene and microbiome-exposure interactions in squamous cell carcinoma lung cancer tissue. Specifically, tumors harboring TP53 mutations, which can impair epithelial function, have a unique bacterial consortium that is higher in relative abundance in smoking-associated tumors of this type. Given the significant need for clinical diagnostic tools in lung cancer, this study may provide novel biomarkers for early detection.
Topics: Adult; Aged; Biodiversity; Comamonadaceae; Female; Humans; Lung Neoplasms; Male; Microbiota; Middle Aged; Mutation; Neoplasms, Squamous Cell; Proteobacteria; Reproducibility of Results; Smokers; Tumor Suppressor Protein p53
PubMed: 30143034
DOI: 10.1186/s13059-018-1501-6 -
Biodegradation Dec 2023Given the environmental challenge caused by the wide use of polyacrylamide (PAM), an environmental-friendly treatment method is required. This study demonstrates the...
Given the environmental challenge caused by the wide use of polyacrylamide (PAM), an environmental-friendly treatment method is required. This study demonstrates the role of Acidovorax sp. strain PSJ13 isolated from dewatered sludge in efficiently degrading PAM. To be specific, the strain PSJ13 can degrade 51.67% of PAM in 96 h (2.39 mg/(L h)) at 35 °C, pH 7.5 and 5% inoculation amount. Besides, scanning electron microscope, X-ray photoelectron spectroscopy, liquid chromatography-mass spectrometry and high-performance liquid chromatography were employed to analyze samples, and the nitrogen present in the degradation products was investigated. The results showed that the degradation of PAM by PSJ13 started from the side chain and then mainly the -C-C- main chain, which produced no acrylamide monomers. As the first study to report the role of Acidovorax in efficiently degrading PAM, this work may provide a solution for industries that require PAM management.
Topics: Acrylamide; Comamonadaceae; Carbon; Skeleton; Biodegradation, Environmental
PubMed: 37395852
DOI: 10.1007/s10532-023-10036-3 -
Journal of Clinical Microbiology Dec 2014Acidovorax oryzae is a bacterium that has never before been reported as pathogenic in human subjects. Here we describe the first case of a successfully treated A. oryzae...
Acidovorax oryzae is a bacterium that has never before been reported as pathogenic in human subjects. Here we describe the first case of a successfully treated A. oryzae catheter-associated bloodstream infection in an immunocompetent patient prior to heart transplantation.
Topics: Anti-Bacterial Agents; C-Reactive Protein; Catheter-Related Infections; Comamonadaceae; Gram-Negative Bacterial Infections; Humans; Male; Microbial Sensitivity Tests; Middle Aged; Sepsis
PubMed: 25275006
DOI: 10.1128/JCM.00657-14 -
International Journal of Systematic and... May 2018A Gram-stain-negative, rod-shaped, aerobic, straw yellow, motile strain, designated KNDSW-TSA6, belonging to the genus Acidovorax, was isolated from a water sample of...
A Gram-stain-negative, rod-shaped, aerobic, straw yellow, motile strain, designated KNDSW-TSA6, belonging to the genus Acidovorax, was isolated from a water sample of the river Ganges, downstream of the city of Kanpur, Uttar Pradesh, India. Cells were aerobic, non-endospore-forming and motile with single polar flagella. It differed from its phylogenetically related strains by phenotypic characteristics such as hydrolysis of urea, gelatin, casein and DNA, and the catalase reaction. The major fatty acids were C16 : 1ω7c/C16 : 1ω6c, C16 : 0 and C18 : 1ω7c/C18 : 1ω6c. Phylogenetic analysis based on 16S rRNA and housekeeping genes (gyrb, recA and rpoB gene sequences), confirmed its placement within the genus Acidovorax as a novel species. Strain KNDSW-TSA6 showed highest 16S rRNA sequence similarity to Acidovorax soli BL21 (98.9 %), Acidovorax delafieldii ATCC 17505 (98.8 %), Acidovorax temperans CCUG 11779 (98.2 %), Acidovorax caeni R-24608 (97.9 %) and Acidovorax radicis N35 (97.6 %). The digital DNA-DNA hybridization and average nucleotide identity values calculated from whole genome sequences between strain KNDSW-TSA6 and the two most closely related strains A. soli BL21 and A. delafieldii ATCC 17505 were below the threshold values of 70 and 95 % respectively. Thus, the data from the polyphasic taxonomic analysis clearly indicates that strain KNDSW-TSA6 represents a novel species, for which the name Acidovorax kalamii sp. nov. is proposed. The type strain is Acidovorax kalamii (=MTCC 12652=KCTC 52819=VTCC-B-910010).
Topics: Bacterial Typing Techniques; Base Composition; Comamonadaceae; DNA, Bacterial; Fatty Acids; Genes, Bacterial; India; Nucleic Acid Hybridization; Phylogeny; RNA, Ribosomal, 16S; Rivers; Sequence Analysis, DNA
PubMed: 29616893
DOI: 10.1099/ijsem.0.002736 -
Eye (London, England) Jul 2021
Topics: Comamonadaceae; Fruit; Humans; Keratitis
PubMed: 32620844
DOI: 10.1038/s41433-020-1073-z -
Journal of Microbiological Methods Aug 2015Environmental isolates belonging to the genus Acidovorax play a crucial role in degrading a wide range of pollutants. Studies on Acidovorax are currently limited for...
Environmental isolates belonging to the genus Acidovorax play a crucial role in degrading a wide range of pollutants. Studies on Acidovorax are currently limited for many species due to the lack of genetic tools. Here, we described the use of the replicon from a small, cryptic plasmid indigenous to Acidovorx temperans strain CB2, to generate stably maintained shuttle vectors. In addition, we have developed a scarless gene knockout technique, as well as establishing green fluorescent protein (GFP) reporter and complementation systems. Taken collectively, these tools will improve genetic manipulations in the genus Acidovorax.
Topics: Comamonadaceae; Genetic Techniques; Genetic Vectors; Plasmids; Replicon
PubMed: 26079987
DOI: 10.1016/j.mimet.2015.06.006 -
Phytopathology May 2020Strains of , the causal agent of bacterial fruit blotch (BFB) of cucurbits, can be assigned to two groups, I and II. The natural association of group I and II strains...
Strains of , the causal agent of bacterial fruit blotch (BFB) of cucurbits, can be assigned to two groups, I and II. The natural association of group I and II strains with different cucurbit species suggests host preference; however, there are no direct data to support this hypothesis under field conditions. Hence, the objective of this study was to assess differences in the prevalence of group I and II strains on cucurbit species in the field. From 2017 to 2019, we used group I and II strains to initiate BFB outbreaks in field plots planted with four cucurbit species. At different times, we collected symptomatic tissues and assayed them for group I and II strains using a group-specific PCR assay. Binary distribution data analysis revealed that the odds of melon, pumpkin, and squash foliage infection by group I strains were 21.7, 11.5, and 22.1 times greater, respectively, than the odds of watermelon foliage infection by the group I strain ( < 0.0001). More strikingly, the odds of melon fruit infection by the group I strain were 97.5 times greater than watermelon fruit infection by the same strain ( < 0.0001). Unexpectedly, some of the group II isolates recovered from the 2017 and 2019 studies were different from the group II strains used as inocula. Overall, data from these experiments confirm that strains exhibit a preference for watermelon and melon, which is more pronounced in fruit tissues.
Topics: Citrullus; Comamonadaceae; Fruit; Plant Diseases
PubMed: 32083507
DOI: 10.1094/PHYTO-10-19-0389-R