Archives of Microbiology最新文献

{"title":"Selenium enrichment promotes selenium biotransformation and enhances antioxidant capacity in germination fungi associated with Gastrodia elata","authors":"Lu Ai,&nbsp;Mengqing Gao,&nbsp;Jun Du,&nbsp;Jianjian Liu,&nbsp;Xinyang Zhang,&nbsp;Yu Son,&nbsp;Yanming Qiao,&nbsp;Xiuchao Xie","doi":"10.1007/s00203-026-05264-z","DOIUrl":"10.1007/s00203-026-05264-z","url":null,"abstract":"<div><p>To investigate the selenium-enrichment capacity of <i>Gastrodia elata</i> germination fungi and the effects of selenium enrichment on their antioxidant function, four germination fungal strains were selected to systematically evaluate selenium accumulation, biotransformation characteristics, selenium distribution patterns, and antioxidant responses through selenium tolerance screening, selenium-enriched cultivation, and functional assessment. The results demonstrated that different germination fungi exhibited distinct responses to exogenous selenium. Among them, strain MFA showed superior selenium tolerance and selenium-enrichment efficiency and was identified as the elite selenium-enriched strain. Selenium enrichment significantly increased both total selenium and organic selenium contents in MFA mycelia, with an organic selenium conversion rate reaching 99.8%. Selenium distribution analysis revealed that selenium was predominantly accumulated in the protein fraction (70.64%), followed by the polysaccharide fraction, whereas only a small proportion was detected in nucleic acids, indicating that absorbed inorganic selenium could be effectively transformed and preferentially incorporated into protein-bound forms. Further investigation showed that selenium enrichment enhanced antioxidant enzyme activities and promoted soluble protein accumulation, while significantly improving the scavenging capacities against DPPH radicals, ABTS⁺ radicals, and hydroxyl radicals. These findings indicate that <i>G. elata</i> germination fungi possess strong abilities for selenium uptake, assimilation, and biotransformation. Selenium enrichment not only facilitates the conversion of inorganic selenium into organically bound forms but also enhances the antioxidant capacity of fungal mycelia. This study systematically elucidates the selenium-enrichment characteristics, biotransformation behavior, and functional responses of germination fungi, providing a theoretical basis for the development of novel selenium-enriched functional fungal resources.</p></div>","PeriodicalId":8279,"journal":{"name":"Archives of Microbiology","volume":"209 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2026-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149162997","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Antibiotic-producing microorganisms: taxonomic diversity, screening strategies, and emerging and underexploited antibacterial targets","authors":"Yuting Jiang,&nbsp;Senqing Mo,&nbsp;Yangyang Zhao,&nbsp;Xinyu Guo,&nbsp;Yihan Li,&nbsp;Kunqi Xia,&nbsp;Xintong Peng,&nbsp;Chengcheng Li,&nbsp;Yue Zhao,&nbsp;Xintong Wang,&nbsp;Xinliang Liu","doi":"10.1007/s00203-026-05251-4","DOIUrl":"10.1007/s00203-026-05251-4","url":null,"abstract":"<div><p>The discovery of antibiotics revolutionized modern medicine, but the escalating threat of antimicrobial resistance (AMR) now severely compromises treatment efficacy. This review critically examines the diversity of antibiotic-producing microorganisms, with particular emphasis on strains isolated from extreme and underexplored ecological niches, and discusses how microbial interactions influence antibiotic biosynthesis. We summarize recent technological advances that have accelerated antibiotic discovery, including genome mining, innovative cultivation strategies, co-culture systems, and microfluidic platforms. Furthermore, we distinguish established antibacterial targets from emerging or noncanonical ones and evaluate them in terms of mechanistic validation, resistance liability, druggability, and translational relevance, encompassing cell wall precursor Lipid II, division protein FtsZ, epigenetic regulators, cytoskeletal MreB, peptidoglycan and Lipid A biosynthetic enzymes, DNA gyrase, topoisomerase IV, aminoacyl-tRNA synthetases, efflux pumps, and ATP synthase. We further discuss emerging antibacterial strategies, including multi-target mechanisms and resistance-informed target prioritization, as complementary approaches to limiting resistance evolution. Looking forward, we propose an integrated framework that unites three strategic priorities: harnessing untapped microbial resources, establishing high-efficiency screening pipelines, and advancing targeted biosynthetic engineering alongside validation of emerging and underexploited antibacterial targets. Within this framework, multi-target strategies are discussed as one potential approach to reduce resistance liability. Collectively, this integrated approach will facilitate a more focused R&amp;D agenda, providing both a technical blueprint and strategic guidance for the development of next-generation antibiotics.</p></div>","PeriodicalId":8279,"journal":{"name":"Archives of Microbiology","volume":"209 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2026-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149163143","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Pseudomonas atacamensis SJA1 enhances root development and phosphorus accumulation in rice under organic fertilization","authors":"Dongrong Pan,&nbsp;Yuqi Huang,&nbsp;Kevin Chai,&nbsp;Qiuyue Wang,&nbsp;Meifang Hou,&nbsp;Bing He,&nbsp;Ping He,&nbsp;Xueqing Geng,&nbsp;Zhimin Sha","doi":"10.1007/s00203-026-05236-3","DOIUrl":"10.1007/s00203-026-05236-3","url":null,"abstract":"<div><p>Pseudomonas-based biofertilizers show strong potential in sustainable agriculture; however, their effects on rice growth and nutrient acquisition under organic fertilization remain insufficiently characterized. This study evaluated the effects of <i>Pseudomonas atacamensis</i> SJA1 (CGMCC No. 26128) on rice growth and nutrient accumulation using a pot experiment with four treatments: organic fertilizer (CK), SJA1 inoculation (S), mixed commercial biofertilizer (MC, <i>Bacillus subtilis</i> and <i>Pseudomonas atacamensis</i>), and a combination of organic fertilizer, SJA1 inoculation, and commercial biofertilizer (SC). Plant biomass and nutrient content were measured, and the expression of nutrient-related genes (<i>OsMGD2</i>, <i>OsMGD3</i>, <i>OsPHO2</i>, <i>OsPHR2</i>, <i>OsSAE1a</i>, and <i>OsSIZ2</i>) in leaves and roots was analyzed using qRT-PCR. Whole-genome sequencing and functional annotation of SJA1 were conducted to identify traits associated with plant growth promotion. SJA1 inoculation significantly increased root biomass and enhanced phosphorus accumulation and increased nitrogen accumulation particularly in roots. SJA1 inoculation strongly induced the expression of several phosphorus- and nutrient-responsive genes in roots, including <i>OsPHR2</i>, <i>OsPHO2</i>, <i>OsSAE1a</i>, <i>OsSIZ2</i>, and <i>OsMGD3</i>. Genomic analysis identified genes in SJA1 associated with phosphate solubilization (e.g., <i>gcd</i> and the <i>pqq</i> operon), nitrogen metabolism, and rhizosphere colonization. These results indicate that SJA1 enhances root development and phosphorus accumulation in rice under organic fertilization, and suggest potential roles in plant nutrient acquisition, although the underlying processes require further validation.</p><h3>Graphical abstract</h3><div><figure><div><div><picture><source><img></source></picture></div><div><p>Schematic diagram illustrating the effects of Pseudomonas atacamensis SJA1 on rice growth and nutrient uptake. Inoculation with SJA1 in combination with organic fertilizer enhances nitrogen and phosphorus availability in the rhizosphere and promotes nutrient acquisition by rice roots. SJA1 upregulates the expression of nutrient-related genes, including OsMGD2, OsMGD3, OsPHO2, OsSIZ2, OsPHR2, and OsSAE1a, thereby improving nutrient uptake and utilization efficiency. As a result, rice plants exhibit increased fresh weight, dry weight, and enhanced nitrogen and phosphorus accumulation in both shoots and roots after approximately 45 days of growth</p></div></div></figure></div></div>","PeriodicalId":8279,"journal":{"name":"Archives of Microbiology","volume":"209 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2026-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149162919","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Mechanistic insights into enhanced congo red biodegradation by a 3D scaffold-assisted biofilm formation by Bacillus tequilensis BS007","authors":"Barkha Verma,&nbsp;Puja Dokania,&nbsp;Angana Sarkar,&nbsp;Soham Chattopadhyay","doi":"10.1007/s00203-026-05244-3","DOIUrl":"10.1007/s00203-026-05244-3","url":null,"abstract":"<div><p>Biofilm-based degradation of toxic Congo red dye has gained importance recently. This study investigated the performance of Nonwoven nylon pads (NWN pads) as a three-dimensional (3D) scaffold for <i>Bacillus tequilensis</i> BS007 biofilm development. The matrix for effective biofilm formation is crucial for successful biodegradation. Biofilm growth was characterized by scanning electron microscopy (SEM) and quantified using the crystal violet staining assay. The kinetic profile indicates that biofilm began to dissociate after 25 days and was completely disrupted by 40 days. This profile was also confirmed by confocal laser scanning microscopy (CLSM). Biofilm grown on NWN pads was used to decolourize Congo red dye, and parameters were optimized to achieve maximum degradation. At 27 ℃ and pH 7, more than 97% of 100 PPM Congo red was degraded after 16 h. The biofilm’s dye-degradation efficiency significantly decreased after heat and chemical inactivation, indicating the requirement of active bacteria inside the biofilm. Degradation of Congo red into smaller derivatives was confirmed by UV-Visible spectrophotometry, and a Fourier-transform infrared spectroscopy (FTIR) study shows the absence of 1590 cm^− 1. Gas chromatography–mass spectrometry (GC-MS) profiles of various intermediates were used to elucidate a possible dye-degradation pathway, representing initial cleavage of azo bonds by azoreductase, followed by the formation of aromatic amines, and ultimately leading to mineralization into simpler inorganic compounds. Partial detoxification confirmed by phytotoxicity test, which provides insight into the environmental safety. The present study indicates that the NWN pad is an efficient, low-cost 3D scaffold for promoting effective biofilm formation and subsequent Congo red degradation.</p></div>","PeriodicalId":8279,"journal":{"name":"Archives of Microbiology","volume":"209 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2026-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149163142","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Experimental characterization of Pleurotus tuber-regium-derived silver nanoparticles and antifungal activity against Aspergillus fumigatus, Cryptococcus neoformans, and Candida albicans","authors":"Alya Aljuaid","doi":"10.1007/s00203-026-05257-y","DOIUrl":"10.1007/s00203-026-05257-y","url":null,"abstract":"<div><p>Mushroom-mediated silver nanoparticles (AgNPs) offer a lower-reagent synthetic route to antifungal nanomaterials, but the contribution of <i>Pleurotus tuber-regium</i> sclerotial chemistry and activity across morphologically distinct opportunistic fungi remain insufficiently defined. In this experimental study, an aqueous sclerotial extract was characterized by gas chromatography–mass spectrometry (GC–MS) and used to synthesize <i>P. tuber-regium</i>-derived AgNPs (Pt-AgNPs). Data from three independent synthesis batches were evaluated by ultraviolet–visible spectroscopy, Fourier-transform infrared spectroscopy, X-ray diffraction (XRD), transmission electron microscopy (TEM), dynamic light scattering (DLS), zeta potential analysis, and energy-dispersive X-ray spectroscopy (EDX). The resulting Pt-AgNPs showed a surface-plasmon peak at 421.7 ± 2.1 nm, a TEM diameter of 24.8 ± 5.4 nm, a DLS Z-average of 68.7 ± 3.8 nm, a polydispersity index of 0.246 ± 0.021, and a zeta potential of −26.4 ± 1.9 mV. Broth microdilution was performed using Clinical and Laboratory Standards Institute M38 and M27 procedures. Modal minimum inhibitory concentrations were 8, 4, and 4 µg/mL for <i>Aspergillus fumigatus</i>, <i>Cryptococcus neoformans</i>, and <i>Candida albicans</i>, respectively. Across 4–128 µg/mL, Pt-AgNPs produced larger inhibition zones than crude extract for each species (formulation effects, all <i>p</i> &lt; 0.001). At 2× MIC, viable counts fell by at least 3 log10 CFU/mL by 12 h for <i>A. fumigatus</i> and <i>C. neoformans</i>. These findings provide an integrated characterization and antifungal-testing dataset and warrant further experimental validation across a broader isolate panel, mechanistic investigation, and safety assessment.</p></div>","PeriodicalId":8279,"journal":{"name":"Archives of Microbiology","volume":"209 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2026-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149162917","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Tolerance to heavy metals of bacteria from Brazilian deep aquatic environments","authors":"Agatha do Canto Shubeita,&nbsp;Caroline Menegotto-Silva,&nbsp;Rafela Wong Davi,&nbsp;Audrey Menegaz Proença,&nbsp;Cássio Stein Moura,&nbsp;Renata Medina-Silva","doi":"10.1007/s00203-026-05226-5","DOIUrl":"10.1007/s00203-026-05226-5","url":null,"abstract":"<div><p>Bacterial tolerance to heavy metals (HM) poses a significant risk to ecosystems and human health. This study evaluated tolerance to HM of 24 bacterial isolates from two deep aquatic environments in southern Brazil: the Guarani Aquifer System (GAS) and the Rio Grande Cone (RGC). GAS wells were in a region of intense agricultural activity, with water levels of iron, selenium and aluminum above regulatory limits. RGC is a deep-sea environment considered pristine, although presenting evidence of human impact. <i>Bacillus, Lysinibacillus, Pseudomonas</i> and <i>Paenibacillus</i> isolates were subjected to HM minimum inhibitory concentration tests, biofilm formation, scanning electron microscopy (SEM) and analysis of metal-related genes. 58% of GAS isolates were more tolerant to (FeSO₄·7H₂O), 75% to (NH₄Al(SO₄)₂·12H₂O), and 67% to (Na₂SeO) than reference-comparative strains (RSs). RGC isolates were tolerant to ((CH₃COO)₂Hg) in low concentrations but equaled the RSs in (CuCl₂·2H₂O) and (NiCl₂·6H₂O) tolerance. Biofilm formation was intense in GAS isolates after 24 h-exposure to sodium selenite, while those from RGC showed weak biofilms under mercury (II) acetate. SEM revealed potential selenium nanoparticles and morphological alterations in GAS isolates, also evidencing external particles with high mercury content in marine bacteria. Three isolates from each environment presented genes related to selenium incorporation or mercury reduction. Results indicated that HM may interfere in structure and dynamics of microbial communities of these ecosystems, highlighting the relevance of these microbial phenotypic traits from unexplored (whereas impacted) aquatic environments as markers of water pollution and toxicity, and/or for bioremediation purposes, in line with the One Health principle.</p></div>","PeriodicalId":8279,"journal":{"name":"Archives of Microbiology","volume":"209 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2026-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s00203-026-05226-5.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149162914","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Artificial intelligence in human microbiome research: from data integration to explainable translation","authors":"Ikram Khan,&nbsp;Imran Khan,&nbsp;Uzma Noor,&nbsp;Muhammad Irfan,&nbsp;Li Zhiqiang","doi":"10.1007/s00203-026-05209-6","DOIUrl":"10.1007/s00203-026-05209-6","url":null,"abstract":"<div><p>The human microbiome is integral to health, metabolism, immunity, and physical protection, with dysbiosis linked to metabolic disorders, autoimmune conditions, and cancer. High-throughput sequencing has generated massive datasets, but analyzing these complex, multidimensional data poses significant challenges. Artificial intelligence (AI), including machine learning, deep learning, and related approaches, offers powerful solutions for data integration, pattern recognition, functional annotation, and predictive modeling. AI applications in microbiome research include identifying microbial biomarkers, predicting disease susceptibility, elucidating microbial interactions, and optimizing personalized interventions. AI also enables integration of microbiome data with host genomics, transcriptomics, and clinical metadata, providing a holistic view of host–microbiome dynamics. Despite advances, challenges such as data heterogeneity, model interpretability, and limited sample sizes remain. This narrative review synthesizes literature from 2015 to 2025 without a formal systematic methodology. We conclude with three priority areas for AI-microbiome translation: improved interpretability, longitudinal modeling, and clinical integration. Leveraging AI in this field holds significant promise for accelerating precision medicine, improving diagnostics, and developing microbiome-targeted therapies, if interpretability and validation challenges are addressed.</p><h3>Graphical abstract</h3><div><figure><div><div><picture><source><img></source></picture></div></div></figure></div></div>","PeriodicalId":8279,"journal":{"name":"Archives of Microbiology","volume":"209 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2026-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149163144","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Correction to: Diplotaxis erucoides-derived SynCom suppresses Alternaria blight in mustard by regulating ROS homeostasis and defense response","authors":"Chetana Aggarwal,&nbsp;Jogendra Singh,&nbsp;Ashish Kumar Gupta,&nbsp;Vijayata Singh,&nbsp;Muthukkaruppan Elakkya,&nbsp;Sonam Priyadarshani,&nbsp;Sangeeta Paul","doi":"10.1007/s00203-026-05207-8","DOIUrl":"10.1007/s00203-026-05207-8","url":null,"abstract":"","PeriodicalId":8279,"journal":{"name":"Archives of Microbiology","volume":"208 12","pages":""},"PeriodicalIF":3.4,"publicationDate":"2026-10-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149126328","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Klebsiella pneumoniae from community-acquired infections and an urban river share antimicrobial resistance profiles and high-risk lineages but differ in virulence","authors":"Adriano Souza Santos Monteiro,&nbsp;João Ricardo Filho,&nbsp;Vívian Santos Galvão,&nbsp;Vanessa Tibolla Moretto,&nbsp;Ana Beatriz Purificação,&nbsp;Lee Senhorinha Almeida Andrade,&nbsp;Camila Maria Piñeiro Silva,&nbsp;Lúcio Macedo Barbosa,&nbsp;Luciano Kalabric Silva,&nbsp;Soraia Machado Cordeiro,&nbsp;Ronald Edward Blanton,&nbsp;Joice Neves Reis,&nbsp;Mitermayer Galvão Reis","doi":"10.1007/s00203-026-05239-0","DOIUrl":"10.1007/s00203-026-05239-0","url":null,"abstract":"<div><p><i>Klebsiella pneumoniae</i> poses a significant public health threat, but the relationship between community-acquired (CA) infections and environmental isolates remains poorly understood. Therefore, this study aimed to assess whether <i>K. pneumoniae</i> from CA infections share microbiological and molecular features with isolates recovered from an urban river in Salvador, Brazil. A total of 115 isolates, including 65 from CA infections and 50 from river water, were analyzed using antimicrobial susceptibility testing, β-lactamase and virulence gene detection, and multilocus sequence typing (MLST). Resistance rates were similar between groups, including multidrug resistance (24.6% vs. 22.0%; <i>p</i> &gt; 0.05) and carbapenem resistance (4.6% vs. 4.0%; <i>p</i> &gt; 0.05). β-lactamase gene detection was consistent with observed resistance patterns, with <i>bla</i>_CTX−M detected in 18.5% of CA isolates and 12.0% of river isolates, while <i>bla</i>_KPC−2 (3.1% vs. 2.0%) and <i>bla</i>_NDM−1 (1.5% vs. 2.0%) occurred at comparable frequencies. However, hypervirulent <i>K. pneumoniae</i> isolates were identified only among CA infections (4.6%). MLST revealed high clonal diversity, with 88 sequence types (STs), including 14 novel STs, with most STs being singletons. Four STs were shared between groups, including the high-risk lineages ST11 and ST307. These findings indicate that clinically relevant <i>K. pneumoniae</i> lineages, including high-risk, occur beyond healthcare settings, with urban aquatic environments serving as potential environmental reservoirs.</p></div>","PeriodicalId":8279,"journal":{"name":"Archives of Microbiology","volume":"208 12","pages":""},"PeriodicalIF":3.4,"publicationDate":"2026-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s00203-026-05239-0.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149103511","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Phylogenomic analysis and characterization of a novel metagenome-assembled genome from the Bay of Bengal and description of Candidatus Niobacter visakhapatnamensis gen. nov., sp. nov","authors":"Naga Radha Srinivas Tanuku,&nbsp;Anil Kumar Pinnaka,&nbsp;Pradeep Kumar Patel,&nbsp;Hardik Chavda,&nbsp;Naveen Sagar Garbhapu,&nbsp;Satyanarayana Reddy Tadi,&nbsp;Ann Rose","doi":"10.1007/s00203-026-05238-1","DOIUrl":"10.1007/s00203-026-05238-1","url":null,"abstract":"<div><p>A metagenome-assembled genome (NIO.Bin9^T) belonging to the family <i>Nannocystaceae was</i> generated from a marine sample collected from the Bay of Bengal coastal water, Visakhapatnam, India. Phylogenetic analysis based on the 16 S rRNA gene placed NIO.Bin9^T within the family <i>Nannocystaceae</i>, showing the sequence similarity (92.4%) to <i>Pseudenhygromyxa salsuginis</i> SYR-2^T. Genome-wide comparisons revealed average amino acid identity (AAI) values ranging from 52.2% to 53.4% and average nucleotide identity (ANI) values between 75.8% and 75.9%, relative to closely related genera, including <i>Nannocystis</i>, <i>Pseudenhygromyxa</i>, <i>Plesiocystis</i>, and <i>Enhygromyxa</i>. Phylogenomic and 16 S rRNA gene-based analysis consistently supported the placement of NIO.Bin9^T within the <i>Nannocystaceae</i> but distinct from existing taxa. Comprises complete pathways for carbohydrate degradation, glycolysis, the TCA cycle, nitrogen assimilation, sulfur metabolism, and biosynthesis of vitamins and cofactors. In particular, 29 biosynthetic gene clusters and an expanded CAZyme repertoire indicated robust potential for secondary metabolite production and complex carbohydrate utilization. Distinctive characteristics, such as the Csa3-type CRISPR component, the rifampin-resistance gene (<i>arr</i>), and an enriched suite of flagellar chemotaxis genes, differentiate the lineage from closely related taxa. Genome-relatedness analyses showed that NIO.Bin9^T was distinct from members of genera of <i>Nanocystaceae</i>, with both AAI and ANI values falling below the established genus threshold (&lt; 65% AAI and &lt; 80–83% for ANI), supporting its designation as a novel genus and species, for which we propose the name “<i>Candidatus</i> Niobacter visakhapatnamensis” gen. nov., sp. nov.</p></div>","PeriodicalId":8279,"journal":{"name":"Archives of Microbiology","volume":"208 12","pages":""},"PeriodicalIF":3.4,"publicationDate":"2026-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149103461","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}