Microbes and Environments最新文献_第2页

Performance of Marine Anammox Candidatus Scalindua sp. under High Nitrate Conditions in a Biofilm Reactor. 生物膜反应器中高硝酸盐条件下海洋厌氧氨氧化候选菌Scalindua sp.的性能。

IF 2.6 4区环境科学与生态学

Microbes and Environments Pub Date : 2026-01-01 DOI: 10.1264/jsme2.ME25094

Jonathan A C Roques, Naoki Fujii, Ebuka Unegbu, Amélie Marqué, Emma Johansson, Kohei Yamamoto, Haruhi Iida, Tomonori Kindaichi

引用次数: 0

Oxic Subseafloor Microbial Communities Retain Anabolic Capacity under both Oxic and Oxygen-depleted Conditions. 含氧海底微生物群落在含氧和缺氧条件下都保持合成代谢能力。

IF 2.6 4区环境科学与生态学

Microbes and Environments Pub Date : 2026-01-01 DOI: 10.1264/jsme2.ME26008

Mako Takada, Motoo Ito, Shu Ying Wee, Jason B Sylvan, Rosalind M Coggon, Emily R Estes, William P Gilhooly Iii, Yi Wang, Masataka Aizawa, Susumu Yoshizawa, Yuki Morono

{"title":"Oxic Subseafloor Microbial Communities Retain Anabolic Capacity under both Oxic and Oxygen-depleted Conditions.","authors":"Mako Takada, Motoo Ito, Shu Ying Wee, Jason B Sylvan, Rosalind M Coggon, Emily R Estes, William P Gilhooly Iii, Yi Wang, Masataka Aizawa, Susumu Yoshizawa, Yuki Morono","doi":"10.1264/jsme2.ME26008","DOIUrl":"10.1264/jsme2.ME26008","url":null,"abstract":"Marine subseafloor sediments underlying open ocean regions are predominantly low-energy environments; however, they harbor vast microbial populations. How these communities persist and whether they retain anabolic capacity during transient oxygen depletion remain unclear. We herein investigated oxic sediments from the South Atlantic Gyre (SAG; IODP Site U1559D, core 7X-1) using paired incubations under oxic and anoxic (oxygen-depleted) conditions with defined C/N amendments. Sediments were amended with a 13C-amino acid mix+15N-ammonium, 13C-bicarbonate+15N-ammonium, or 15N-ammonium only and then incubated for 10, 30, and 75 d. Single-cell nanoscale secondary ion mass spectrometry (NanoSIMS) confirmed the assimilation of isotope-labeled substrates under oxic and anoxic conditions. Pronounced 13C enrichment occurred primarily in amino acid-amended incubations, whereas 15N incorporation from ammonium was widespread across all treatments, including ammonium-only incubations without added organic carbon, indicating assimilation supported by endogenous sedimentary carbon pools. Biomass-based growth responses varied among amendments and redox regimes, demonstrating that oxic-sourced communities may transition into measurable growth even under oxygen depletion. Amplicon-based community profiles exhibited directional, time-dependent shifts with limited segregation by substrate identity,‍ ‍suggesting that incubation time and shared successional dynamics dominated over amendment identity at the whole-community level. Collectively, these results indicate that SAG subseafloor communities retain a flexible anabolic potential that may be expressed under both oxic and oxygen-depleted conditions when substrates and/or oxidants become available.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"41 3","pages":""},"PeriodicalIF":2.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13659347/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148619960","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

Effects of Organic Substrate Concentrations on Biological Mn Oxidation and Reduction under Aerobic Conditions. 有机底物浓度对好氧条件下生物Mn氧化还原的影响

IF 2.6 4区环境科学与生态学

Microbes and Environments Pub Date : 2026-01-01 DOI: 10.1264/jsme2.ME26046

Yangbo Chen, Mizuki Yoshimura, Hiromi Kambara, Ahmad Shoiful, Shuji Matsushita, Tomonori Kindaichi, Yoshiteru Aoi, Akiyoshi Ohashi

{"title":"Effects of Organic Substrate Concentrations on Biological Mn Oxidation and Reduction under Aerobic Conditions.","authors":"Yangbo Chen, Mizuki Yoshimura, Hiromi Kambara, Ahmad Shoiful, Shuji Matsushita, Tomonori Kindaichi, Yoshiteru Aoi, Akiyoshi Ohashi","doi":"10.1264/jsme2.ME26046","DOIUrl":"10.1264/jsme2.ME26046","url":null,"abstract":"Biological Mn oxidation mediated by manganese-oxidizing bacteria (MnOB) plays a central role in Mn cycling in natural and engineered systems. Although most MnOB are heterotrophic and frequently associated with oligotrophic environments, the quantitative relationship between organic substrate concentrations and Mn oxidation activity remains unclear. We herein systematically evaluated the effects of organic substrate concentrations on MnOB activity using a down-flow hanging sponge (DHS) reactor (0-1,000 mg COD L-1), batch experiments with an enriched biomass, and the pure MnOB strain Pseudomonas resinovorans MO-1 (0-2,000 mg COD L-1). Mn(II) oxidation was favored at organic substrate concentrations below approximately 50 mg COD L-1, whereas concentrations around 100 mg COD L-1 were more favorable for MnOB growth. In contrast, elevated organic substrate concentrations induced substrate inhibition and suppressed Mn(II) oxidation. At high organic substrate concentrations (≥1,000 mg COD L-1), net Mn(IV) reduction by P. resinovorans MO-1 occurred even under aerobic conditions. An exploratory transcriptomic comparison showed patterns that were broadly consistent with the observed shifts in Mn redox behavior. Collectively, these results define an operational organic substrate concentration window for stable MnOB enrichment and efficient Mn(II) oxidation, and indicate the potential of excessive organic substrate concentrations to shift MnOB activity toward net Mn(IV) reduction under aerobic conditions.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"41 3","pages":""},"PeriodicalIF":2.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13659340/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148963509","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

Characterization of Culturable Plant Growth-promoting Bacteria Isolated from Amaranthus hypochondriacus L. Roots. 苋菜根中可培养植物促生长细菌的鉴定。

IF 2.6 4区环境科学与生态学

Microbes and Environments Pub Date : 2026-01-01 DOI: 10.1264/jsme2.ME26025

Fátima Alejandra Talamantes-Herrera, Alberto Barrera-Pacheco, Eduardo Espitia-Rangel, Ana Paulina Barba-de la Rosa

{"title":"Characterization of Culturable Plant Growth-promoting Bacteria Isolated from Amaranthus hypochondriacus L. Roots.","authors":"Fátima Alejandra Talamantes-Herrera, Alberto Barrera-Pacheco, Eduardo Espitia-Rangel, Ana Paulina Barba-de la Rosa","doi":"10.1264/jsme2.ME26025","DOIUrl":"10.1264/jsme2.ME26025","url":null,"abstract":"Amaranths plants grow under several abiotic stress conditions and produce high-quality edible seeds. Despite their high agronomic and nutritional potential, their endophytic bacteria have not yet been characterized. This study aimed to isolate Amaranthus hypochondriacus L. root endophytes and characterize their plant growth-promoting capacity. Twenty-six amaranth root putative diazotrophs were isolated and identified by 16S rRNA gene sequencing. Most of the isolated strains exhibited multiple plant growth-promoting traits, such as iron and phosphate solubilization and the capacity to form biofilms. Total indole production by one of the isolated bacteria, identified as Pantoea vagans, was high (124.6 μg mL-1). Four endophytes that showed coculture compatibility, identified as Lelliottia, Pantoea vagans, Pseudomonas cf. fluorescens, and Pseudomonas rhodesiae, were selected for their individual or combined (consortium) inoculation in the model plant Arabidopsis thaliana. The consortium resulted in significant increases in fresh and dry biomass accumulation in Arabidopsis plantlets. These results highlight the diversity of amaranth root endophytes and their potential as biofertilizers. Further research to verify the consortium in amaranths and other commercial crops under greenhouse and field conditions is warranted.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"41 3","pages":""},"PeriodicalIF":2.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13659344/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149030778","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

Temperature Effects on Symptom Expression of Lettuce Black Root Rot Caused by Berkeleyomyces rouxiae. 温度对生菜黑根腐病症状表达的影响。

IF 2.6 4区环境科学与生态学

Microbes and Environments Pub Date : 2026-01-01 DOI: 10.1264/jsme2.ME25065

Misaki Edamoto, Toshiyuki Usami

引用次数: 0

Genome-wide Characterization of Non-shared Sequences among Amphora-shaped Giant Viruses. 双耳形巨型病毒非共享序列的全基因组特征。

IF 2.6 4区环境科学与生态学

Microbes and Environments Pub Date : 2026-01-01 DOI: 10.1264/jsme2.ME25085

Motohiro Akashi, Masaharu Takemura, Seiichi Suzuki

{"title":"Genome-wide Characterization of Non-shared Sequences among Amphora-shaped Giant Viruses.","authors":"Motohiro Akashi, Masaharu Takemura, Seiichi Suzuki","doi":"10.1264/jsme2.ME25085","DOIUrl":"10.1264/jsme2.ME25085","url":null,"abstract":"Giant viruses are distinguished not only by their large particle size, but also by their extensive genomes, often reaching megabase levels. Many sequences within these genomes are considered to have been introduced by hosts, surrounding organisms, or other viruses. Since the natural hosts of many giant viruses remain unidentified, analyzing sequences potentially derived from other organisms may aid in clarifying their hosts. In the present study, we identified eukaryote-homologous sequences by isolating those not shared among viruses, an aspect previously overlooked. Our primary focus was on pandoravirus, which, with a genome size of ~2 Mb, is the largest among giant viruses. We obtained 375 BLAST hits with an average sequence identity of ~90%. Among the 102 detected species, those with higher hits included Mus musculus, Lampetra planeri, Melanogrammus aeglefinus, Lampetra fluviatilis, Scylla paramamosain, Cardiocondyla obscurior, Monodelphis domestica, Vespula pensylvanica, Micromonas pusilla, Physcomitrium patens, and Peromyscus californicus. Similar anal-yses of Cedratvirus and Pithovirus, which share an amphora-shaped particle structure with pandoraviruses, yielded fewer data (48 and 5 hits, respectively), with no common taxa at the order level. Thirteen BLAST hits exceeded 100 bp, including conserved non-coding elements (CNEs) in fish and other taxa, along with sequences of unknown functions. These results indicate the presence of short regions with sequence similarity in non-shared sequences, although direct host identification proved difficult.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"41 1","pages":""},"PeriodicalIF":2.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12999734/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147481001","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

Professional Dyeing Work Enriches Dye-decolorizing Bacteria in the Fingertip Microbiome. 专业染色工作丰富了指尖微生物群中的染料脱色细菌。

IF 2.6 4区环境科学与生态学

Microbes and Environments Pub Date : 2026-01-01 DOI: 10.1264/jsme2.ME26026

Tsukasa Ito

引用次数: 0

Dominance of Enterobacter spp. in Asymptomatic Sweet Potato Tubers Grown in Foot Rot-infested Fields. 脚腐地无症状地瓜块茎中肠杆菌的优势。

IF 2.6 4区环境科学与生态学

Microbes and Environments Pub Date : 2026-01-01 DOI: 10.1264/jsme2.ME26007

Chiyomi Kubota, Megumi Hashimoto, Yasutoshi Ougitani, Rinka Yujima, Matsujiro Ishibashi, Hirohito Tsurumaru

{"title":"Dominance of Enterobacter spp. in Asymptomatic Sweet Potato Tubers Grown in Foot Rot-infested Fields.","authors":"Chiyomi Kubota, Megumi Hashimoto, Yasutoshi Ougitani, Rinka Yujima, Matsujiro Ishibashi, Hirohito Tsurumaru","doi":"10.1264/jsme2.ME26007","DOIUrl":"10.1264/jsme2.ME26007","url":null,"abstract":"Since 2018, foot rot disease caused by Diaporthe destruens has emerged as a serious threat to sweet potato production in Japan. Although plant-associated bacteria have been suggested to contribute to disease suppression, the bacterial community structure of asymptomatic sweet potato tubers in foot rot-infested fields remains unclear. In the present study, we analyzed the bacterial communities of asymptomatic tubers collected adjacent to infected tubers from four foot rot-infested fields. Thirteen bacterial taxa with >1% relative abundance were detected, among which Enterobacter (ASV-129 sequence; 427 bp) was dominant, accounting for an average of 49.4% of total 16S rRNA gene amplicon reads. Forty bacterial strains were isolated from asymptomatic sweet potato tubers using R2A agar plates. Among them, strain 12CK showed 100% sequence identity to ASV-129 and was identified as Enterobacter hormaechei based on a genome anal-ysis (genome size: 4,832,483 bp). In the present study, D. destruens 2YO was also isolated from infected plants, and its pathogenicity was confirmed. In growth inhibition assays (dual culture assay), E. hormaechei 12CK strongly inhibited the growth of D. destruens 2YO. Pot and field trials will be required to examine the applicability of strain 12CK as a microbial biocontrol agent.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"41 2","pages":""},"PeriodicalIF":2.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13293704/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148157213","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

Anaerobic Biodegradation of Poly(3-hydroxybutyrate-co-3-hydroxyhexanoate) under Flooded Paddy Soil Conditions. 水淹稻田条件下聚（3-羟基丁酸-co-3-羟基己酸酯）厌氧生物降解研究

IF 2.6 4区环境科学与生态学

Microbes and Environments Pub Date : 2026-01-01 DOI: 10.1264/jsme2.ME26036

Hina Satone, Takashi Watanabe, Kenichi Abe, Yuji Nagashima

{"title":"Anaerobic Biodegradation of Poly(3-hydroxybutyrate-co-3-hydroxyhexanoate) under Flooded Paddy Soil Conditions.","authors":"Hina Satone, Takashi Watanabe, Kenichi Abe, Yuji Nagashima","doi":"10.1264/jsme2.ME26036","DOIUrl":"https://doi.org/10.1264/jsme2.ME26036","url":null,"abstract":"Plastic pollution in aquatic environments has become a global concern, and agricultural plastics are one potential source. Biodegradable plastics have been developed as an alternative; however, their degradation behavior under flooded soil conditions remains unclear. Therefore, we herein investigated the degradation of poly(3-hydroxybutyrate-co-3-hydroxyhexanoate) (PHBH), a biodegradable polymer, using an in vitro system simulating paddy soil environments. Microcosm experiments were conducted under different temperatures (14, 25, and 35°C) and soil-water ratios (1:1, 1:10, 1:100, and 1:1,000) to evaluate PHBH degradation and associated gas production. The results obtained showed that temperature and the soil-water ratio both significantly affected PHBH degradation and gas production. PHBH was almost completely degraded under the flooded soil condition (soil-water ratio 1:1) at 35°C, and was accompanied by the production of large amounts of methane and carbon dioxide, suggesting the involvement of anaerobic microbial processes. Degradation and gas production were markedly reduced under lower soil-content conditions. An amplicon sequencing anal-ysis of samples showing the highest degradation revealed the higher relative abundance of several anaerobic bacteria, including Ilyobacter delafieldii, Clostridium homopropionicum, and Syntrophomonas zehnderi, than in a control sample. These results suggest the involvement of an anaerobic metabolic network in the turnover of PHBH-derived intermediate metabolites. The present results will contribute to a more detailed understanding of the environmental fate of biodegradable plastics in paddy field environments.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"41 4","pages":""},"PeriodicalIF":2.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149111786","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

Horizontal Chromosome Transfer between Pathogenic and Non-pathogenic Fusarium oxysporum Strains Isolated from Cabbage. 白菜致病性与非致病性尖孢镰刀菌的水平染色体转移。

IF 2.6 4区环境科学与生态学

Microbes and Environments Pub Date : 2026-01-01 DOI: 10.1264/jsme2.ME25078

Yu Ayukawa, Misaki Kaino, Takashi Yaeno

{"title":"Horizontal Chromosome Transfer between Pathogenic and Non-pathogenic Fusarium oxysporum Strains Isolated from Cabbage.","authors":"Yu Ayukawa, Misaki Kaino, Takashi Yaeno","doi":"10.1264/jsme2.ME25078","DOIUrl":"10.1264/jsme2.ME25078","url":null,"abstract":"Horizontal chromosome transfer (HCT) has been demonstrated in Fusarium oxysporum. Several pathogenic F. oxysporum strains have been used as donors in HCT experiments, while the non-pathogenic strain Fo47 has mainly been employed as a recipient. It currently remains unknown whether other non-pathogenic F. oxysporum strains are recipients of mobile chromosomes. In the present study, we investigated whether the non-pathogenic strain 08C-3B, obtained from cabbage, acquired the mobile chromosomes of F. oxysporum f. sp. conglutinans strain Cong:1-1, which infects cabbage. We detected HCT between Cong:1-1 and 08C-3B in a conidial anastomosis tube (CAT) fusion-inductive medium, yielding HCT progeny strains that carried scaffolds (SCs) 8 and 9 of Cong:1-1. These progeny strains exhibited reduced colony growth on potato dextrose agar plates and produced no symptoms on cabbage. These results suggest that SC8 and/or SC9 hinder vegetative growth, but do not confer virulence to 08C-3B. We then conducted HCT experiments to assess whether the HCT progeny strain transfers the acquired chromosomes to other strains. However, no progeny strains were obtained, suggesting that 08C-3B does not function as a donor for mobile chromosomes.","PeriodicalId":18482,"journal":{"name":"Microbes and Environments","volume":"41 2","pages":""},"PeriodicalIF":2.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13293700/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147775660","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