A5085876449- Plant Pathogenic Bacteria Studies
- Plant-Microbe Interactions and Immunity
- Legume Nitrogen Fixing Symbiosis
- RNA and protein synthesis mechanisms
- RNA regulation and disease
- Genomics and Phylogenetic Studies
- CRISPR and Genetic Engineering
- Bacterial Genetics and Biotechnology
- Bacteriophages and microbial interactions
- Gut microbiota and health
- Agricultural pest management studies
- Plant Disease Resistance and Genetics
- Nitrogen and Sulfur Effects on Brassica
- Circular RNAs in diseases
- Anaerobic Digestion and Biogas Production
- Microbial Natural Products and Biosynthesis
- Pharmaceutical and Antibiotic Environmental Impacts
- Oral Health Pathology and Treatment
- Studies on Chitinases and Chitosanases
- Microfinance and Financial Inclusion
- RNA modifications and cancer
- Microbial metabolism and enzyme function
- Methane Hydrates and Related Phenomena
- Interstitial Lung Diseases and Idiopathic Pulmonary Fibrosis
- Traditional Chinese Medicine Studies
Shanghai Jiao Tong University
2020-2024
National Institute of Infectious Diseases
2024
Sichuan Academy of Agricultural Sciences
2022
Ministry of Agriculture and Rural Affairs
2021
Weatherford College
2020
The exploration of antibiotic resistance genes (ARGs) in drinking water reservoirs is an emerging field. Using a curated database, we enhanced the ARG detection and conducted comprehensive analysis using 2.2 Tb deep metagenomic sequencing data to determine distribution ARGs across 16 associated environments. Our findings reveal greater diversity sediments than water, underscoring importance extensive background surveys. Crucial carriers—specifically Acinetobacter, Pseudomonas, Mycobacterium...
SUMMARY Bacteria have developed numerous defense systems to counter phage infections. However, the extent which phages possess countermeasures against these remains unclear. In this study, we combined a gene knockout library with system analyze mechanisms by counteract bacterial systems. After attempting deletions of 105 open reading frames (ORFs) in DruSM1 (ΦDruSM1), successfully generated 73 different ORF phages. By infecting bacteria harboring expression plasmids, identified inactivators...
The delivery of noncoding small RNAs (sRNAs) packaged in bacterial outer membrane vesicles (OMVs) can function as novel mediators interspecies communication. Although the role bacteria sRNAs enhancing virulence is well established, potential molecules interaction between phytopathogenic OMVs and their host plants remains unclear. In this study, we employed RNA-Seq to characterize differentially pathogen Xanthomonas oryzae pv. oryzicola (Xoc) OMVs. Our candidate sRNA (Xosr001), was found be...
Retrons are bacterial genetic elements that encode a reverse transcriptase and, in combination with toxic effector proteins, can serve as antiphage defense systems. However, the mechanisms of action most retron effectors, and how phages evade retrons, not well understood. Here, we show some retrons other systems by producing specific tRNAs. We find expression retron-Eco7 proteins (PtuA PtuB) leads to degradation tRNA
Adenosine-to-inosine (A-to-I) RNA editing is an important posttranscriptional event in eukaryotes; however, many features remain largely unexplored prokaryotes. This study focuses on a serine-to-proline recoding (S128P) that originated the mRNA of fliC, which encodes flagellar filament protein; was observed RNA-seq samples exposed to oxidative stress. Using Sanger sequencing, we show S128P induced by H2O2. To investigate vivo interaction between RNAs and TadA, principal enzyme for A-to-I...
An aerobic methanotroph was isolated from a secondary sedimentation tank of wastewater treatment plant and designated strain OY6 T . Cells were Gram-stain-negative, pink-pigmented, motile rods contained an intracytoplasmic membrane structure typical type I methanotrophs. could grow at pH range 4.5–7.5 (optimum 6.5) temperatures ranging 20 °C to 37 30 °C). The major cellular fatty acids C 14 : 0 , 16 1 ω7 c /C ω6 ω5 ; the predominant respiratory quinone MQ-8. genome size 5.41 Mbp with DNA G+C...
Pathogens integrate multiple environmental signals to navigate the host and control expression of virulence genes. In this process, small regulatory noncoding RNAs (sRNAs) may function in gene as post-transcriptional regulators. study, sRNA Xonc3711 functioned response rice pathogen, Xanthomonas oryzae pv. oryzicola ( Xoc ), oxidative stress. repressed production DNA-binding protein Xoc_3982 by binding xoc_3982 mRNA within coding region. Mutational analysis showed that regulation required an...
Abstract Bacterial outer membrane vesicles (OMVs)-packaged delivery of noncoding small RNAs (sRNAs) can function as novel mediators interspecies communication. However, the role which in interaction between phytopathogenic bacteria and their host plants is unclear. In this study, we characterized differentially packaged sRNAs Xanthomonas oryzae pv. oryzicola ( Xoc ) BLS256 OMVs using RNA-Seq, selected most abundant sRNA Xosr001 for further study based on its essential induction stomatal...
Iron is an essential element for the growth and survival of pathogenic bacteria; however, it not fully understood how bacteria sense respond to iron deficiency or excess. In this study, we show that xfeA in Xanthomonas oryzae pv. oryzicola senses extracytoplasmic changes hydrogen bonding network ligand channel domains by adenosine-to-inosine (A-to-I) RNA editing. The frequency A-to-I editing during iron-deficient conditions increased 76.87%, which facilitated passage through XfeA outer...
Ancylobacter pratisalsi sp. nov. strain E130 T is a Gram-negative, nonmotile, aerobic, and rod-shaped bacterium that was recently isolated from the rhizosphere of Plantago winteri Wirtg. natural salt meadow. This described as novel species in genus Ancylobacter; however, information about its complete genome has yet not been reported. In this study, completely sequenced by PacBio SMRT cell platform, analyzed, compared with other selected sequences to elucidate potential plant growth...
Pseudomonas is a complex genus with increasing numbers of new species. Recently, we isolated sp. strain L22-9, which showed antifungal activity against several fungal phytopathogens. Here, report the whole genome sequence L22-9. Genomic analysis revealed that L22-9 contains one circular DNA chromosome 6,730,360 bp length 60.9% GC content. Bioinformatics identified gene clusters in synthesize antimicrobial metabolites such as 2,4-diacetylphloroglucinol synthesis and hydrogen cyanide synthase....
Emerging roles of circular RNAs (circRNAs) in various biological processes have advanced our knowledge transcriptional and posttranscriptional gene regulation. To date, no research has been conducted to explore their the rice-Xanthomonas oryzae pv. interaction. Therefore, we identified 3,517 circRNAs from rice leaves infected with highly virulent X. strain PXO99A by using rRNA depleted RNA sequencing technique coupled CIRI2 CIRCexplorer2 pipeline. Characterization analyses showed that these...
Burkholderia glumae is a seedborne pathogen causing bacterial panicle blight of rice. Here, we report the complete genome B. strain GX, which represents first whole-genome sequence an isolate from China. The assembled consisted five contigs, with two circular chromosomes 3,712,850 and 2,750,046 bp three plasmids 201,571, 105,587, 96,100 bp. This will provide valuable resource for further studies on worldwide.
Horizontal gene transfer (HGT) has been proved a major driving force in prokaryotic evolution. However, the molecular functions of these transferred genes pathogenic bacteria especially plant are still not fully investigated. In this study, whole-genome silico analysis was performed and found syringopeptin synthetase (syp) homolog Burkholderia glumae, which can cause bacterial panicle blight rice, predicted to be horizontally from Pseudomonas ancestor with solid confidence by phylogenetic...
Burkholderia glumae is an important rice pathogen, thus the genomic and evolutionary history may be helpful to control this notorious pathogen. Here, we present two complete genomes of B. strains HN1 HN2, which were isolated from diseased seed in China. Average nucleotide identity (ANI) analysis shows greater than 99% similarity HN2 with other published genomes. Genomic annotation revealed that genome strain consists five replicons (6,680,415 bp) overall G + C content 68.06%, whereas...
HomePlant DiseaseVol. 106, No. 3Genome Resource of Pseudomonas chlororaphis L5734: A Bacterium Antagonistic to the Mulberry Gray Mold Pathogen Botrytis cinerea PreviousNext RESOURCE ANNOUNCEMENT OPENOpen Access licenseGenome cinereaXie Wang, Jin Huang, Jingling Liang, Tian Tang, Jianhua Zhang, Bo Zhu, Iftikhar Ahmad, Wenhan Nie, and Sai WangXie WangSouthwest China Mountain Agricultural Environment Key Laboratory, Ministry Agriculture Rural Areas, Institute Resources Environment, Sichuan...
Abstract BackgroundThe emerging role of circular RNAs (circRNAs) in various biological processes have advanced our knowledge transcriptional and post-transcriptional gene regulation. The number expression plant circRNAs vary with species treatments. However, the profile potential during response to pathogen invasion are still elusive. ResultsIn this study, we identified 3517 from PXO99 A -infected rice leaves using ribosomal RNA (rRNA) depleted RNA-Sequencing technique coupled CIRI2...
Conducting a comprehensive metagenomic survey is pivotal for formulating effective public health protection strategies concerning drinking water reservoirs. Utilizing curated database, deep sequencing (2.2 Tbps) was employed to analyze the antibiotic resistance genes (ARGs) panorama from 16 The discrepancy of ARG diversity in and sediments emphasizes pressing requirement ongoing sediment monitoring. Employing binning, Acinetobacter, Pseudomonas, Mycobacterium were identified as high-risk...
ABSTRACT Adenosine-to-inosine (A-to-I) RNA editing, which is catalyzed by the adenosine deaminase RNA-specific family of enzymes, a frequent post-transcriptional modification in metazoans. Research on A-to-I editing bacteria limited, and importance underestimated. In this study, we show that may use as an alternative strategy to promote uptake metabolic iron. The T408A event xfeA Xanthomonas oryzae pv. oryzicola ( Xoc ) senses extracytoplasmic iron changes hydrogen bonding network ligand...