Microbes and Environments最新文献_第3页

Role of Formate Chemoreceptor in Pseudomonas syringae pv. tabaci 6605 in Tobacco Infection. 甲酸化学受体在丁香假单胞菌中的作用。烟草侵染中的烟草6605。

IF 2.1 4区环境科学与生态学

Microbes and Environments Pub Date : 2025-01-01 DOI: 10.1264/jsme2.ME25019

Phuoc Quy Thang Nguyen, Yuta Watanabe, Hidenori Matsui, Nanami Sakata, Yoshiteru Noutoshi, Kazuhiro Toyoda, Yuki Ichinose

{"title":"Role of Formate Chemoreceptor in Pseudomonas syringae pv. tabaci 6605 in Tobacco Infection.","authors":"Phuoc Quy Thang Nguyen, Yuta Watanabe, Hidenori Matsui, Nanami Sakata, Yoshiteru Noutoshi, Kazuhiro Toyoda, Yuki Ichinose","doi":"10.1264/jsme2.ME25019","DOIUrl":"https://doi.org/10.1264/jsme2.ME25019","url":null,"abstract":"Chemotaxis is essential for infection by plant pathogenic bacteria. The causal agent of tobacco wildfire disease, Pseudomonas syringae pv. tabaci 6605 (Pta6605), is known to cause severe leaf disease and is highly motile. The requirement of chemotaxis for infection has been demonstrated through the inoculation of mutant strains lacking chemotaxis sensory component proteins. Pta6605 possesses 54 genes that encode chemoreceptors (known as methyl-accepting chemotaxis proteins, MCPs). Chemoreceptors are classified into several groups based on the type and localization of ligand-binding domains (LBD). Cache LBD-type chemoreceptors have been reported to recognize formate in several bacterial species. In the present study, we identified Cache_3 Cache_2 LBD-type Mcp26 encoded by Pta6605_RS00335 as a chemoreceptor for formate using a quantitative capillary assay, and named it McpF. Although the deletion mutant of mcpF (ΔmcpF) retained attraction to 1% yeast extract, its chemotactic response to formate was markedly reduced. Swimming and swarming motilities were also impaired in the mutant. To investigate the effects of McpF on bacterial virulence, we conducted inoculations on tobacco plants using several methods. The ΔmcpF mutant exhibited weaker virulence in flood and spray assays than wild-type and complemented strains, highlighting not only the involvement of McpF in formate recognition, but also its critical role in leaf entry during the early stages of infection.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"40 3","pages":""},"PeriodicalIF":2.1,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144708057","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A Rechargeable Biomineral Induced by the Sulfate-reducing Bacterium Nitratidesulfovibrio sp. HK-II. 硫酸盐还原菌Nitratidesulfovibrio sp. HK-II诱导的可充电生物矿物。

IF 2.1 4区环境科学与生态学

Microbes and Environments Pub Date : 2025-01-01 DOI: 10.1264/jsme2.ME24022

Yui Arashi, Hiroki Mochihara, Hiroko Kubota, Kei Suzuki, Yusuke Chiba, Yutaka Kato, Toshihiro Kogure, Ryota Moriuchi, Hideo Dohra, Yuto Nakamura, Yosuke Tashiro, Hiroyuki Futamata

{"title":"A Rechargeable Biomineral Induced by the Sulfate-reducing Bacterium Nitratidesulfovibrio sp. HK-II.","authors":"Yui Arashi, Hiroki Mochihara, Hiroko Kubota, Kei Suzuki, Yusuke Chiba, Yutaka Kato, Toshihiro Kogure, Ryota Moriuchi, Hideo Dohra, Yuto Nakamura, Yosuke Tashiro, Hiroyuki Futamata","doi":"10.1264/jsme2.ME24022","DOIUrl":"https://doi.org/10.1264/jsme2.ME24022","url":null,"abstract":"A sulfate-reducing bacterium was isolated from the anode surface of a microbial fuel cell (MFC) producing a high current density. 16S rRNA gene ana-lyses showed that the isolate was affiliated with the genus Nitratidesulfovibrio, and the strain was named HK-II. When Nitratidesulfovibrio sp. strain HK-II was incubated anaerobically under sulfate-reducing conditions with Fe(III) citrate, a black precipitate formed. The resulting black precipitate was investigated using multidisciplinary methods. An X-ray diffraction (XRD) ana-lysis revealed that the black precipitate was mainly composed of mackinawite. A cyclic voltammetry ana-lysis showed clear redox peaks, and biogenic mackinawite possessed rechargeable properties. The XRD ana-lysis also showed that the form of the rechargeable biogenic mineral induced by strain HK-II (RBM-II) was changed by discharge and recharge treatments. Field-emission transmission electron microscopy revealed that lepidocrocite and amorphous iron oxide formed from mackinawite under discharged conditions, and the three mineral types were intermingled via charge and discharge cycles. Physicochemical parameters regularly changed under the treatments, suggesting that discharge occurred via iron oxidation followed by sulfur reduction and vice versa. These results indicate that sulfur dynamics are important key processes in charge and discharge mechanisms. MFCs equipped with lactate, strain HK-II, and an anode containing RBM-II consumed lactate under open-circuit conditions, after which MFCs generated a higher current density under reclosed-circuit conditions. These results demonstrate that RBM-II is a rechargeable material that enables the capture of electrons produced by bacterial cells and is useful for enhancing the performance of MFCs.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"40 3","pages":""},"PeriodicalIF":2.1,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144553963","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Group-specific Quantification of mcrA genes of Methanogenic Archaea and "Candidatus Methanoperedens" by Digital PCR. 产甲烷古菌和“Methanoperedens Candidatus Methanoperedens”mcrA基因的群体特异性定量分析。

IF 2.1 4区环境科学与生态学

Microbes and Environments Pub Date : 2025-01-01 DOI: 10.1264/jsme2.ME24097

Takeshi Watanabe, Atsuya Endo, Rio Hamada, Rina Shinjo, Susumu Asakawa

引用次数: 0

Marked Genome Reduction Driven by a Parasitic Lifestyle: Two Complete Genomes of Endosymbiotic Bacteria Possibly Hosted by a Dinoflagellate. 由寄生生活方式驱动的标记基因组减少：可能由鞭毛藻宿主的内共生细菌的两个完整基因组。

IF 2.1 4区环境科学与生态学

Microbes and Environments Pub Date : 2025-01-01 DOI: 10.1264/jsme2.ME25005

Takuro Nakayama, Ryo Harada, Akinori Yabuki, Mami Nomura, Kogiku Shiba, Kazuo Inaba, Yuji Inagaki

{"title":"Marked Genome Reduction Driven by a Parasitic Lifestyle: Two Complete Genomes of Endosymbiotic Bacteria Possibly Hosted by a Dinoflagellate.","authors":"Takuro Nakayama, Ryo Harada, Akinori Yabuki, Mami Nomura, Kogiku Shiba, Kazuo Inaba, Yuji Inagaki","doi":"10.1264/jsme2.ME25005","DOIUrl":"10.1264/jsme2.ME25005","url":null,"abstract":"Bacteria with endosymbiotic lifestyles often show marked genome reduction. While the shrinkage of genomes in intracellular symbionts of animals, including parasitic bacteria, has been extensively exami-ned, less is known about symbiotic bacteria associated with single-celled eukaryotes. We herein report the genomes of two novel gammaproteobacterial lineages, RS3 and XS4, identified as putative parasitic endosymbionts of the dinoflagellate Citharistes regius. Phylogenetic ana-lyses suggest that RS3 and XS4 belong to the family Fastidiosibacteraceae within the order Beggiatoales, forming independent lineages therein. The genomes of RS3 and XS4 are 529 and 436‍ ‍kbp in size, respectively, revealing marked reductions from related bacterial genomes. XS4, which has a very reduced genome with a low GC content, uses a different genetic code, in which UGA assigned tryptophan. The small genomes of RS3 and XS4 encode a limited number of proteins, retaining only approximately 20% of the predicted ancestral proteome. Metabolic reconstruction suggests that RS3 and XS4 are parasitic symbionts that are heavily dependent on their host for essential metabolites. Furthermore, we found that the ancestor of both genomes likely acquired an ADP:ATP antiporter gene via horizontal gene transfer, an event that may have enabled their evolution as energy parasites by facilitating the acquisition of ATP from their host. These results on novel bacteria with highly reduced genomes expand our understanding of the phylogenetic and genomic diversities of endosymbiotic bacteria in protists.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"40 2","pages":""},"PeriodicalIF":2.1,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12213064/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144225884","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Massive RNA Editing in Ascetosporean Mitochondria. ascetospore线粒体中的大量RNA编辑。

IF 2.1 4区环境科学与生态学

Microbes and Environments Pub Date : 2025-01-01 DOI: 10.1264/jsme2.ME24070

Akinori Yabuki, Chihaya Fujii, Euki Yazaki, Akihiro Tame, Keiko Mizuno, Yumiko Obayashi, Yoshitake Takao

{"title":"Massive RNA Editing in Ascetosporean Mitochondria.","authors":"Akinori Yabuki, Chihaya Fujii, Euki Yazaki, Akihiro Tame, Keiko Mizuno, Yumiko Obayashi, Yoshitake Takao","doi":"10.1264/jsme2.ME24070","DOIUrl":"10.1264/jsme2.ME24070","url":null,"abstract":"Ascetosporeans are parasitic protists of invertebrates. A deep sequencing ana-lysis of species within the orders Mikrocytida, Paramyxida, and Haplosporida using metagenomic approaches revealed that their mitochondria were functionally reduced and their organellar genomes were lacking. Ascetosporeans belonging to the order Paradinida have not been sequenced, and the nature of their mitochondria remains unclear. We herein established two cultures of Paradinida and conducted DNA and RNA sequencing ana-lyses. The results obtained indicate that mitochondrial function in paradinids was not reduced and their organellar genomes were retained. In contrast, their mitochondrial genomes were involved in massive A-to-I and C-to-U substitution types of RNA editing. All edits in protein-coding genes were nonsynonymous substitutions, and likely had a restorative function against negative mutations. Furthermore, we detected possible sequences of DYW type of pentatricopeptide repeat (PPR-DYW) protein and a homologue of adenosine deaminase acting on RNA (ADAR-like), which are key enzymes for C-to-U and A-to-I substitutions, respectively. An immunofluorescence ana-lysis showed that ADAR-like of paradinids may specifically localize within mitochondria. These results expand our knowledge of the diversity and complexity of organellar RNA editing phenomena.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"40 1","pages":""},"PeriodicalIF":2.1,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11946409/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143639744","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Regulation of Root Nodule Symbiosis by Soybean Rj Genotypes and Rhizobial Effectors. 大豆Rj基因型和根瘤菌效应剂对根瘤共生的调控

IF 2 4区环境科学与生态学

Microbes and Environments Pub Date : 2025-01-01 DOI: 10.1264/jsme2.ME25027

Shogo Fukunaga, Safirah Tasa Nerves Ratu, Shin Okazaki

引用次数: 0

Distribution and Characterization of the Novel Quorum-quenching Enzyme AiiB in Priestia megaterium Isolated from a Natural Environment. 新型群体猝灭酶AiiB在自然环境中分离的巨型葡萄球菌中的分布和特性

IF 2.1 4区环境科学与生态学

Microbes and Environments Pub Date : 2025-01-01 DOI: 10.1264/jsme2.ME25004

Tomohiro Morohoshi, Waka Arai, Kanna Ueno, Nobutaka Someya

{"title":"Distribution and Characterization of the Novel Quorum-quenching Enzyme AiiB in Priestia megaterium Isolated from a Natural Environment.","authors":"Tomohiro Morohoshi, Waka Arai, Kanna Ueno, Nobutaka Someya","doi":"10.1264/jsme2.ME25004","DOIUrl":"https://doi.org/10.1264/jsme2.ME25004","url":null,"abstract":"Many plant pathogenic bacteria regulate the expression of virulence factors via N-acylhomoserine lactone (AHL), a quorum-sensing signaling compound. When numerous spore-forming bacteria were isolated from a natural environment, Priestia megaterium was the dominant species, and some P. megaterium strains exhibited AHL-degrading activity. The results of a HPLC ana-lysis of AHL degradation products demonstrated that P. megaterium degraded AHL by AHL lactonase, which hydrolyzes the lactone ring of AHL. The novel AHL lactonase gene, aiiB, was found in the whole genome sequence of AHL-degrading P. megaterium. The relationship between the presence of aiiB and AHL-degrading activity in P. megaterium strains revealed that P. megaterium may be classified into three AHL degradation groups: Group 1 (with AHL-degrading activity and aiiB), Group 2 (with neither AHL-degrading activity nor aiiB), and Group 3 (without AHL-degrading activity, but with aiiB). A comparative genome ana-lysis suggested that aiiB was obtained or missed by a non-transpositional event during the process of evolution in P. megaterium. The amino acid sequences of AiiB in Group 1 and 3 strains were almost identical, and Escherichia coli harboring aiiB from Groups 1 and 3 exhibited high AHL-degrading activity. Although the AHL-degrading activity of Group 3 strains was markedly weaker than that of Group 1 strains, they degraded AHL in a long-term incubation. Based on the present results, Group 1 and 3 strains, the genomes of which contain aiiB, may reduce potato maceration activity under the control of AHL-mediated quorum sensing in P. carotovorum subsp. carotovorum NBRC 12380.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"40 3","pages":""},"PeriodicalIF":2.1,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144682785","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Size Distribution and Pathogenic Potential of Culturable Airborne Clostridium spp. in a Suburb of Toyama City, Japan. 日本富山市郊区可培养空气中梭状芽孢杆菌的大小分布和致病潜力。

IF 2.1 4区环境科学与生态学

Microbes and Environments Pub Date : 2025-01-01 DOI: 10.1264/jsme2.ME24078

Makoto Seki, Reika Iwamoto, Jianjian Hou, So Fujiyoshi, Fumito Maruyama, Yukihiro Furusawa, Shigehiro Kagaya, Akihiro Sakatoku, Shogo Nakamura, Daisuke Tanaka

{"title":"Size Distribution and Pathogenic Potential of Culturable Airborne Clostridium spp. in a Suburb of Toyama City, Japan.","authors":"Makoto Seki, Reika Iwamoto, Jianjian Hou, So Fujiyoshi, Fumito Maruyama, Yukihiro Furusawa, Shigehiro Kagaya, Akihiro Sakatoku, Shogo Nakamura, Daisuke Tanaka","doi":"10.1264/jsme2.ME24078","DOIUrl":"10.1264/jsme2.ME24078","url":null,"abstract":"Clostridium spp. are anaerobic, Gram-positive, spore-forming bacteria comprising more than 150 species, some of which are important pathogens of humans and animals. Members of this genus have been isolated from a number of environments, but are rarely found in the atmosphere. In the present study, we exami-ned culturable airborne Clostridium spp. and clarified their pathogenicity. We obtained 19 culturable Clostridium isolates from size-fractionated samples collected at a suburban site in Toyama, central Japan. Culturable Clostridium spp. were detected in particles larger than 1.1‍ ‍μm, and the size distribution peaked at 2.1-3.3‍ ‍μm, corresponding to the spore size of Clostridium spp. More Clostridium spp. were detected in coarse particles >2.1‍ ‍μm not only by culture methods, but also by 16S rRNA gene amplicon sequencing. Whole-genome sequencing (WGS) identified seven Clostridium species, among which Clostridium perfringens was predominant. Moreover, WGS revealed that C. perfringens isolates harbored many virulence and antibiotic resistance genes with the potential to cause gas gangrene. The detection and characterization of potential airborne pathogens are crucial for preventing the spread of diseases caused by these pathogens. To the best of our knowledge, this is the first study to demonstrate that anaerobic Clostridium spp. may be transported under aerobic conditions in the atmosphere and pose potential risks to human health.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"40 1","pages":""},"PeriodicalIF":2.1,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11946412/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143256125","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Microbial Community Structure of Mesophilic and Low-temperature Partial Nitrification-anammox Reactors: Distribution and Functional Roles of the Core Microbiome. 中温和低温部分硝化-厌氧氨氧化反应器微生物群落结构：核心微生物群的分布和功能作用

IF 2.1 4区环境科学与生态学

Microbes and Environments Pub Date : 2025-01-01 DOI: 10.1264/jsme2.ME25001

Mamoru Oshiki, Kohei Takahashi, Seiya Kawasaki, Hyungmin Choi, Jihye Park, Kwiyong Kim, Hyokwan Bae, Satoshi Okabe, Changsoo Lee

引用次数: 0

Characterization of Frankia casuarinae Mutants Defective in Vesicle Envelope Development. 木麻黄小泡包膜发育缺陷突变体的研究。

IF 2 4区环境科学与生态学

Microbes and Environments Pub Date : 2025-01-01 DOI: 10.1264/jsme2.ME25037

Ken-Ichi Kucho, Kosuke Taniyama

引用次数: 0