Microbes and Environments最新文献_第4页

Application of Genomic Epidemiology of Pathogens to Farmed Yellowtail Fish Mycobacteriosis in Kyushu, Japan. 病原体基因组流行病学在日本九州养殖大黄鱼分枝杆菌病中的应用。

IF 2.1 4区环境科学与生态学

Microbes and Environments Pub Date : 2024-01-01 DOI: 10.1264/jsme2.ME24011

Takayuki Wada, Shiomi Yoshida, Takeshi Yamamoto, Lisa Nonaka, Yukari Fukushima, Chie Nakajima, Yasuhiko Suzuki, Masayuki Imajoh

{"title":"Application of Genomic Epidemiology of Pathogens to Farmed Yellowtail Fish Mycobacteriosis in Kyushu, Japan.","authors":"Takayuki Wada, Shiomi Yoshida, Takeshi Yamamoto, Lisa Nonaka, Yukari Fukushima, Chie Nakajima, Yasuhiko Suzuki, Masayuki Imajoh","doi":"10.1264/jsme2.ME24011","DOIUrl":"10.1264/jsme2.ME24011","url":null,"abstract":"To investigate mycobacterial cases of farmed yellowtail fish in coastal areas of western Japan (Kagoshima, Kyushu), where aquaculture fisheries are active, Mycobacterium pseudoshottsii, the causative agent, was isolated from six neighboring fishing ports in 2012 and 2013. A phylogenetic ana-lysis revealed that the strains isolated from one fishing port were closely related to those isolated from other regions of Japan, suggesting the nationwide spread of a single strain. However, strains from Japan were phylogenetically distinct from those from the Mediterranean and the United States; therefore, worldwide transmission was not observed based on the limited data obtained on the strains exami-ned in this study. The present results demonstrate that a bacterial genomic ana-lysis of infected cases, a mole-cular epidemiology strategy for public health, provides useful data for estimating the prevalence and transmission pathways of M. pseudoshottsii in farmed fish. A bacterial genome ana-lysis of strains, such as that performed herein, may play an important role in monitoring the prevalence of this pathogen in fish farms and possible epidemics in the future as a result of international traffic, logistics, and trade in fisheries.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"39 2","pages":""},"PeriodicalIF":2.1,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11220446/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141427191","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

Evaluation of Soil Antagonism against the White Root Rot Fungus Rosellinia necatrix and Pathogen Mycosphere Communities in Biochar-amended Soil. 生物炭改良土壤对白根腐菌rossellinia necatrix和病原菌球群落拮抗作用的评价

IF 2.1 4区环境科学与生态学

Microbes and Environments Pub Date : 2024-01-01 DOI: 10.1264/jsme2.ME24060

Yong Guo, Sachie Horii, Satoko Kanematsu

{"title":"Evaluation of Soil Antagonism against the White Root Rot Fungus Rosellinia necatrix and Pathogen Mycosphere Communities in Biochar-amended Soil.","authors":"Yong Guo, Sachie Horii, Satoko Kanematsu","doi":"10.1264/jsme2.ME24060","DOIUrl":"10.1264/jsme2.ME24060","url":null,"abstract":"White root rot disease caused by Rosellinia necatrix is a growing issue in orchards, and biochar pyrolyzed from the pruned branch residues of fruit trees has potential as a soil amendment agent with a number of benefits, such as long-term carbon sequestration. However, the effects of pruned branch biochar on white root rot disease remain unclear. Therefore, we compared direct antagonism against R. necatrix between soils with and without pruned pear branch biochar using a toothpick method and then linked soil physicochemical properties and microbial communities with soil antagonism. The results obtained showed that soil antagonism against the pathogen, that is, the extinction zone of R. necatrix in mycelial toothpicks, decreased in soils amended with 20% (v/v) pruned branch biochar. Soil pH was neutralized and aeration was promoted by the biochar amendment, which may be favorable for pathogen growth. An investigation of microbial communities surrounding R. necatrix mycelia indicated that antagonistic fungi affiliated with Chaetomiaceae and Trichoderma were selectively excluded from the mycosphere community in biochar-amended soil. Therefore, the enrichment of these indigenous antagonistic fungi may be important for controlling R. necatrix. Based on the present results, we do not recommend the application of pruned branch biochar to the soil area associated with the roots of fruit trees in order to avoid increasing the risk of white root rot in orchards.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"39 4","pages":""},"PeriodicalIF":2.1,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11821764/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142877444","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

Insights into Antifungal Mechanisms of Bacillus velezensis S141 against Cercospora Leaf Spot in Mungbean (V. radiata). 绿芽孢杆菌S141对绿豆麻孢叶斑病的抑菌机制研究

IF 2.2 4区环境科学与生态学

Microbes and Environments Pub Date : 2023-01-01 DOI: 10.1264/jsme2.ME22079

Pongpan Songwattana, Pakpoom Boonchuen, Pongdet Piromyou, Jenjira Wongdee, Teerana Greetatorn, Sukanya Inthaisong, Piyada Alisha Tantasawat, Kamonluck Teamtisong, Panlada Tittabutr, Nantakorn Boonkerd, Neung Teaumroong

{"title":"Insights into Antifungal Mechanisms of Bacillus velezensis S141 against Cercospora Leaf Spot in Mungbean (V. radiata).","authors":"Pongpan Songwattana, Pakpoom Boonchuen, Pongdet Piromyou, Jenjira Wongdee, Teerana Greetatorn, Sukanya Inthaisong, Piyada Alisha Tantasawat, Kamonluck Teamtisong, Panlada Tittabutr, Nantakorn Boonkerd, Neung Teaumroong","doi":"10.1264/jsme2.ME22079","DOIUrl":"https://doi.org/10.1264/jsme2.ME22079","url":null,"abstract":"Cercospora leaf spot (CLS) is caused by Cercospora canescens and is one of the most important diseases of mungbean (Vigna radiata). Cercospora leaf spot may result in economic loss in production areas. The present study investigated the potential of Bacillus velezensis S141 as a biocontrol agent for C. canescens PAK1 growth on culture plates. Cell-free secretions from a dual culture of S141+PAK1 inhibited fungal growth more than those from a single culture of S141. The biocontrol efficiency of S141 against Cercospora leaf spot on mungbean was then evaluated by spraying. The disease severity of Cercospora leaf spot was significantly reduced in plants treated with S141, with a control efficiency of 83% after 2 days of infection. Comparative transcriptomics and qRT-PCR ana-lyses of S141 during C. canescens inhibition were performed to elucidate the antifungal mechanisms underlying its antifungal activity against Cercospora leaf spot. According to the differentially expressed genes, most up-regulated genes involved in the biosynthetic genes encoding enzymatic hydrolases, including protease, β-glucanase, and N-acyl glucosaminase, were detected in strain S141 following its interaction. Moreover, genes related to secondary metabolites (surfactin, bacilysin, and bacillomycin D) were up-regulated. Collectively, these results suggest that S141 exhibited strong antifungal activity against C. canescens due to multiple enzymatic hydrolases and secondary metabolites. Therefore, the present study provides insights into the biological network responsible for the antifungal activity of B. velezensis S141 against C. canescens.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"38 1","pages":""},"PeriodicalIF":2.2,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10037098/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9365129","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: 3

A Simple and Effective Method for Solid Medium Cultivation of Strictly Hydrogen- and Sulfur-oxidizing Chemolithoautotrophs Predominant in Deep-‍sea Hydrothermal Fields. 深‍海热液场中主要的严格氢氧化和硫氧化化合自养菌的一种简单有效的固体培养基培养方法。

IF 2.2 4区环境科学与生态学

Microbes and Environments Pub Date : 2023-01-01 DOI: 10.1264/jsme2.ME23072

Hisashi Muto, Junichi Miyazaki, Shigeki Sawayama, Ken Takai, Satoshi Nakagawa

{"title":"A Simple and Effective Method for Solid Medium Cultivation of Strictly Hydrogen- and Sulfur-oxidizing Chemolithoautotrophs Predominant in Deep-‍sea Hydrothermal Fields.","authors":"Hisashi Muto, Junichi Miyazaki, Shigeki Sawayama, Ken Takai, Satoshi Nakagawa","doi":"10.1264/jsme2.ME23072","DOIUrl":"10.1264/jsme2.ME23072","url":null,"abstract":"Strictly hydrogen- and sulfur-oxidizing chemolithoautotrophic bacteria, particularly members of the phyla Campylobacterota and Aquificota, have a cosmopolitan distribution in deep-sea hydrothermal fields. The successful cultivation of these microorganisms in liquid media has provided insights into their physiological, evolutionary, and ecological characteristics. Notably, recent population genetic studies on Sulfurimonas (Campylobacterota) and Persephonella (Aquificota) revealed geographic separation in their populations. Advances in this field of research are largely dependent on the availability of pure cultures, which demand labor-intensive liquid cultivation procedures, such as dilution-to-extinction, given the longstanding assumption that many strictly or facultatively anaerobic chemolithoautotrophs cannot easily form colonies on solid media. We herein describe a simple and cost-effective approach for cultivating these chemolithoautotrophs on solid media. The results obtained suggest that not only the choice of gelling agent, but also the gas phase composition significantly affect the colony-forming ratio of diverse laboratory strains. The use of gellan gum as a gelling agent combined with high concentrations of H2 and CO2 in a pouch bag promoted the formation of colonies. This contrasted with the absence of colony formation on an agar-solidified medium, in which thiosulfate served as an electron donor, nitrate as an electron acceptor, and bicarbonate as a carbon source, placed in anaerobic jars under an N2 atmosphere. Our method efficiently isolated chemolithoautotrophs from a deep-sea vent sample, underscoring its potential value in research requiring pure cultures of hydrogen- and sulfur-oxidizing chemolithoautotrophs.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"38 6","pages":""},"PeriodicalIF":2.2,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10728628/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138806922","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

Species-specific Primer and Probe Sets for Detection of Syntrophic Long-chain Fatty Acid-degrading Bacteria in Anaerobic Digestion Using Quantitative PCR. 用定量PCR检测厌氧消化中合成长链脂肪酸降解菌的物种特异性引物和探针组。

IF 2.2 4区环境科学与生态学

Microbes and Environments Pub Date : 2023-01-01 DOI: 10.1264/jsme2.ME23023

Riku Sakurai, Yasuhiro Fukuda, Chika Tada

引用次数: 0

Relationship Between Rumen Microbial Composition and Fibrolytic Isozyme Activity During the Biodegradation of Rice Straw Powder Using Rumen Fluid. 瘤胃液降解稻草粉过程中瘤胃微生物组成与纤维分解同工酶活性的关系。

IF 2.1 4区环境科学与生态学

Microbes and Environments Pub Date : 2023-01-01 DOI: 10.1264/jsme2.ME23041

Shuhei Takizawa, Ryoki Asano, Kenichi Abe, Yasuhiro Fukuda, Yasunori Baba, Riku Sakurai, Chika Tada, Yutaka Nakai

{"title":"Relationship Between Rumen Microbial Composition and Fibrolytic Isozyme Activity During the Biodegradation of Rice Straw Powder Using Rumen Fluid.","authors":"Shuhei Takizawa, Ryoki Asano, Kenichi Abe, Yasuhiro Fukuda, Yasunori Baba, Riku Sakurai, Chika Tada, Yutaka Nakai","doi":"10.1264/jsme2.ME23041","DOIUrl":"10.1264/jsme2.ME23041","url":null,"abstract":"Rumen fibrolytic microorganisms have been used to increase the rate of lignocellulosic biomass biodegradation; however, the microbial and isozymatic characteristics of biodegradation remain unclear. Therefore, the present study investigated the relationship between rumen microorganisms and fibrolytic isozymes associated with lignocellulosic biomass hydrolysis. Rice straw, a widely available agricultural byproduct, was ground and used as a substrate. The biodegradation of rice straw powder was performed anaerobically in rumen fluid for 48 h. The results obtained revealed that 31.6 and 23.3% of cellulose and hemicellulose, respectively, were degraded. The total concentration of volatile fatty acids showed a 1.8-fold increase (from 85.4 to 151.6‍ ‍mM) in 48 h, and 1,230.1‍ ‍mL L-1 of CO2 and 523.5‍ ‍mL L-1 of CH4 were produced. The major isozymes identified by zymograms during the first 12‍ ‍h were 51- and 140-kDa carboxymethyl cellulases (CMCases) and 23- and 57-kDa xylanases. The band densities of 37-, 53-, and 58-kDa CMCases and 38-, 44-, and 130-kDa xylanases increased from 24 to 36 h. A microbial ana-lysis indicated that the relative abundances of Prevotella, Fibrobacter, and Bacteroidales RF16 bacteria, Neocallimastix and Cyllamyces fungi, and Dasytricha and Polyplastron protozoa were related to fibrolytic isozyme activity. The present results provide novel insights into the relationships between fibrolytic isozymes and rumen microorganisms during lignocellulose biodegradation.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"38 3","pages":""},"PeriodicalIF":2.1,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10522846/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41132851","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

Self-cloning of the Catalase Gene in Environmental Isolates Improves Their Colony-forming Abilities on Agar Media. 环境分离物过氧化氢酶基因的自克隆提高了其在琼脂培养基上的集落形成能力。

IF 2.2 4区环境科学与生态学

Microbes and Environments Pub Date : 2023-01-01 DOI: 10.1264/jsme2.ME23006

Motoyuki Watanabe, Kensuke Igarashi, Souichiro Kato, Yoichi Kamagata, Wataru Kitagawa

引用次数: 0

Reactive Sulfur Species Produced by Cystathionine γ-lyase Function in the Establishment of Mesorhizobium loti-Lotus japonicus Symbiosis. 胱氨酸γ-裂解酶产生的活性硫在莲藕中根瘤菌共生中的作用。

IF 2.2 4区环境科学与生态学

Microbes and Environments Pub Date : 2023-01-01 DOI: 10.1264/jsme2.ME23021

Mitsutaka Fukudome, Haruka Ishizaki, Yuta Shimokawa, Tomoko Mori, Nahoko Uchi-Fukudome, Kamolchanok Umnajkitikorn, Ei-Ichi Murakami, Toshiki Uchiumi, Masayoshi Kawaguchi

{"title":"Reactive Sulfur Species Produced by Cystathionine γ-lyase Function in the Establishment of Mesorhizobium loti-Lotus japonicus Symbiosis.","authors":"Mitsutaka Fukudome, Haruka Ishizaki, Yuta Shimokawa, Tomoko Mori, Nahoko Uchi-Fukudome, Kamolchanok Umnajkitikorn, Ei-Ichi Murakami, Toshiki Uchiumi, Masayoshi Kawaguchi","doi":"10.1264/jsme2.ME23021","DOIUrl":"10.1264/jsme2.ME23021","url":null,"abstract":"Reactive sulfur species (RSS) are present in root nodules; however, their role in symbiosis and the mechanisms underlying their production remain unclear. We herein investigated whether RSS produced by the cystathionine γ-lyase (CSE) of microsymbionts are involved in root nodule symbiosis. A cse mutant of Mesorhizobium loti exhibited the decreased production of hydrogen sulfide and other RSS. Although the CSE mutation of M. loti did not affect the early stages of symbiosis, i.e., infection and nodulation, with Lotus japonicus, it reduced the nitrogenase activity of nodules and induced their early senescence. Additionally, changes in the production of sulfur compounds and an increase in reactive oxygen species (ROS) were observed in the infected cells of nodules induced by the cse mutants. The effects of CSE inhibitors in the L. japonicus rhizosphere on symbiosis with M. loti were also investigated. All three CSE inhibitors suppressed infection and nodulation by M. loti concomitant with decreased RSS levels and increased ROS and nitric oxide levels. Therefore, RSS derived from the CSE activity of both the microsymbiont and host plant are required for symbiosis, but function at different stages of symbiosis, possibly with crosstalk with other reactive mole-cular species.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"38 3","pages":""},"PeriodicalIF":2.2,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10522845/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10245004","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

A Fast and Easy Method to Co-extract DNA and RNA from an Environmental Microbial Sample. 一种快速简便的环境微生物样品DNA和RNA联合提取方法。

IF 2.2 4区环境科学与生态学

Microbes and Environments Pub Date : 2023-01-01 DOI: 10.1264/jsme2.ME22102

Yusuke Okazaki, Tuyen Thi Nguyen, Arisa Nishihara, Hisashi Endo, Hiroyuki Ogata, Shin-Ichi Nakano, Hideyuki Tamaki

引用次数: 0

A Novel Rhizobium sp. Chiba-1 Strain Exhibits a Host Range for Nodule Symbiosis in Lotus Species. 一株新根瘤菌赤叶-1在莲藕中显示出根瘤共生的宿主范围。

IF 2.2 4区环境科学与生态学

Microbes and Environments Pub Date : 2023-01-01 DOI: 10.1264/jsme2.ME23056

Yuhei Chiba, Mao Sasaki, Sachiko Masuda, Arisa Shibata, Ken Shirasu, Yasuyuki Kawaharada

{"title":"A Novel Rhizobium sp. Chiba-1 Strain Exhibits a Host Range for Nodule Symbiosis in Lotus Species.","authors":"Yuhei Chiba, Mao Sasaki, Sachiko Masuda, Arisa Shibata, Ken Shirasu, Yasuyuki Kawaharada","doi":"10.1264/jsme2.ME23056","DOIUrl":"10.1264/jsme2.ME23056","url":null,"abstract":"Rhizobia are soil bacteria that induce the formation of nodules in the roots of leguminous plants for mutualistic establishment. Although the symbiotic mechanism between Lotus japonicus and its major symbiotic rhizobia, Mesorhizobium loti, has been extensively characterized, our understanding of symbiotic mechanisms, such as host specificity and host ranges, remains limited. In the present study, we isolated a novel Rhizobium strain capable of forming nodules on L. burttii from agricultural soil at Iwate prefecture in Japan. We conducted genomic and host range ana-lyses of various Lotus species. The results obtained revealed that the novel isolated Rhizobium sp. Chiba-1 was closely related to R. leguminosarum and had a wide host range that induced nodule development, including L. burttii and several L. japonicus wild-type accessions. However, L. japonicus Gifu exhibited an incompatible nodule phenotype. We also identified the formation of an epidermal infection threads that was dependent on the Lotus species and independent of nodule organ development. In conclusion, this newly isolated Rhizobium strain displays a distinct nodulation phenotype from Lotus species, and the results obtained herein provide novel insights into the functional mechanisms underlying host specificity and host ranges.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"38 4","pages":""},"PeriodicalIF":2.2,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10728632/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138478063","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