World journal of microbiology & biotechnology最新文献

{"title":"Interaction characteristics of bacterial communities in water and sediment in the Yellow River based on high-throughput absolute quantification.","authors":"Ming Chen, Wenxiu Bao, Wen Zhang, Minshi Wang, Qingqing Zhao, Yujie Huang, Yuan Lu","doi":"10.1007/s11274-025-04503-7","DOIUrl":"10.1007/s11274-025-04503-7","url":null,"abstract":"<p><p>Bacterial communities are crucial for connecting aquatic and sediment ecosystems. Water and sediment samples were collected from the Jinan section of the lower Yellow River, and absolute abundances of bacterial taxa were obtained via high-throughput absolute quantification. Integrating physicochemical properties, the water-sediment bacterial communities exhibited interactive characteristics of \"high connectivity and strong heterogeneity\". High connectivity was manifested in similar community and functional compositions and assembly mechanisms, along with shared core genera, in which high-concentration suspended particulates played a key role. Strong heterogeneity was reflected in distinct taxa abundances, diversity, co-occurrence network topologies, and functional specializations, all regulated by environmental factors. Sediments harbored total bacterial abundances and abundances of dominant phyla 1-2 orders of magnitude higher than those in water. Water community showed higher α-diversity and co-occurrence network complexity (edges, average degree, graph density). Eighteen shared genera (belonging to Pseudomonadota and Bacteroidota etc.) with cross-medium survival adaptability were identified. Functional connectivity was supported by 99.1% shared KOs, despite sediments had greater carbon/nitrogen cycling potential than that in water. Stochastic processes, mainly drift, dominated community assembly, contributing more in water (93.6%) than in sediment (75.5%). This study provides microbiological quantitative indicators for Yellow River ecological assessment, identifies cross-medium adaptive genera as potential bioremediation resources, and offers a microbiological perspective on ecosystem maintenance in adjacent river habitats.</p>","PeriodicalId":23703,"journal":{"name":"World journal of microbiology & biotechnology","volume":"41 8","pages":"268"},"PeriodicalIF":4.2,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144733525","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":"Enhancing probiotic stability of Heyndrickxia coagulans through synbiotic immobilization in bacterial cellulose.","authors":"Kittiya Khongkool, Waraporn Chamnankit, Korawan Thongnim, C-Reen Tonklang, Monthon Lertworapreecha","doi":"10.1007/s11274-025-04487-4","DOIUrl":"10.1007/s11274-025-04487-4","url":null,"abstract":"","PeriodicalId":23703,"journal":{"name":"World journal of microbiology & biotechnology","volume":"41 8","pages":"271"},"PeriodicalIF":4.2,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144733523","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":"Comprehensive genomic and pan-genomic analysis of the drought-tolerant Bacillus halotolerans strain OM-41 isolated from Olive rhizosphere, reveals potential plant growth-promoting and biocontrol traits.","authors":"Mohammed Ajdig, Ahlam Mbarki, Taha Chouati, Bahia Rached, Mouhcine Gardoul, Abdelkarim Filali-Maltouf, Chouhra Talbi, Elmostafa El Fahime, Marouane Melloul","doi":"10.1007/s11274-025-04488-3","DOIUrl":"10.1007/s11274-025-04488-3","url":null,"abstract":"<p><p>Abiotic and biotic stresses increasingly threaten plant health and productivity, causing substantial yield losses in vital crops. In this study, 99 rhizobacteria isolated from Moroccan olive rhizospheres, OM-41 was selected as the most potent strain, exhibiting exceptional drought tolerance (thriving at Aw 0.859), thermotolerance (up to 55 °C), and halotolerance (15% NaCl), alongside plant growth-promoting (PGP) traits such as phosphate solubilization, indole-acetic acid (IAA), gibberellic acid, siderophore production, and hydrolytic enzyme secretion. The strain suppressed V. dahliae via diffusible and volatile antifungal compounds, achieving 76% and 69% inhibition rates, respectively. Whole-genome sequencing revealed a 4.2 Mbp genome (43.5% GC content) with 4362 protein-coding genes. Phylogenetic analyses confirmed its classification as B. halotolerans. Genomic annotation identified 11 secondary metabolite clusters and stress-related genes, including those linked to phosphate solubilization (phy, pho, pst family), IAA synthesis (dhaS, trp operon), siderophores (dhb cluster), nitrogen fixation (nif, suf, urt genes), ammonia production (gudB, nasD/E), biofilm formation (tasA, bsl genes), antifungal volatiles (alsD, ilv operon), hydrolytic enzymes (e.g., amyE, eglS), and vitamin biosynthesis (thiamine/riboflavin operons). Pangenome analysis of 79 B. halotolerans strains highlighted an open pangenome with 12,679 total genes (2270 core, 2382 accessory and 8027 unique); OM-41 harbored 98 unique genes. These findings underscore potential of OM-41 as a biofertilizer and biocontrol agent, leveraging antibiosis, resource competition, and plant defense induction to mitigate pathogens and abiotic stresses. Up to our knowledge, this is the first work that evaluates the pangenome features of B. halotolerans, offering insights into its genomic plasticity and adaptive traits. The strain's multifunctional PGP capabilities and stress resilience position it as a promising solution for sustainable agriculture in challenging environments.</p>","PeriodicalId":23703,"journal":{"name":"World journal of microbiology & biotechnology","volume":"41 8","pages":"276"},"PeriodicalIF":4.2,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144733511","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":"Occurrence and microbial remediation of polycyclic aromatic hydrocarbons and heavy metals pollution in soils.","authors":"Yushan Chen, Ziwei Wang, Yun Fang, Guowei Wang, Fang Zhou, Junxia Yu, Ruan Chi, Chunqiao Xiao","doi":"10.1007/s11274-025-04498-1","DOIUrl":"10.1007/s11274-025-04498-1","url":null,"abstract":"<p><p>The presence of soils contaminated with polycyclic aromatic hydrocarbons and heavy metals presents a widespread environmental challenge in industrial areas. Unlike single-pollutant systems, co-pollution by polycyclic aromatic hydrocarbons and heavy metals exhibits synergistic toxicity that weakens traditional remediation technologies. This review systematically examines microbial remediation strategies for such co-polluted soils, focusing on three levels of intervention: functional microorganisms, compost-based enhancement, and engineered microbial solutions. We highlight the role of noncovalent interactions, especially cation-π bonding and hydrophobic partitioning, in decreasing pollutant bioavailability and increasing co-toxicity. Functional microbes improve pollutant removal through intracellular transformation, extracellular secretion of biosurfactants and chelators, and surface adsorption. Compost-enhanced systems incorporating biochar, vermicompost, and mycorrhizal fungi demonstrate improved pollutant breakdown and soil health. Engineered microbes offer advanced remediation capabilities but face challenges related to metabolic load, ecological safety, and regulation. Despite promising laboratory results, field implementation remains limited by low pollutant bioavailability, biosafety concerns, and uncertain cost efficiency. We propose critical future research directions to bridge this gap and enable practical remediation of soils co-contaminated with polycyclic aromatic hydrocarbons and heavy metals.</p>","PeriodicalId":23703,"journal":{"name":"World journal of microbiology & biotechnology","volume":"41 8","pages":"280"},"PeriodicalIF":4.2,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144733544","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":"Recent advances in the bioremediation of wastewater pollutants by using bacterial magnetic nanoparticles and magnetotactic bacteria.","authors":"Virendra Kumar Yadav, Nisha Choudhary, G Gnanamoorthy, Pankaj Kumar, Rupesh Gupta, Indra Jeet Choudhary, Apurva Singh, Vijendra Singh Solanki, Shreya Modi, Ashish Patel, Mamta Chahar, Rustem Zairov","doi":"10.1007/s11274-025-04447-y","DOIUrl":"10.1007/s11274-025-04447-y","url":null,"abstract":"<p><p>The potential of bacterial magnetic nanoparticles and magnetotactic bacteria has increased significantly in wastewater treatment. Magnetotactic bacteria and their magnetosomes exhibit unique magnetic and structural properties that facilitate the efficient removal of pollutants, including heavy metals, dyes, pesticides, and radionuclides. Unlike chemically synthesized nanoparticles, bacterial magnetosomes are biocompatible, recyclable, and can be manipulated using external magnetic fields, making them suitable for repeated use in treatment systems. This review examines the current advancements in the cultivation, large-scale manufacture, and functionalization of magnetotactic bacteria and magnetosomes, as well as their extensive applications in environmental and industrial sectors. Advanced analytical techniques play a crucial role in confirming the physical, chemical, and magnetic stability of these materials. Together, these properties make magnetotactic bacteria and their magnetosomes promising tools for eco-friendly and cost-effective wastewater treatment.</p>","PeriodicalId":23703,"journal":{"name":"World journal of microbiology & biotechnology","volume":"41 8","pages":"284"},"PeriodicalIF":4.2,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144733545","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":"Lecanicillium saksenae (Kushwaha) Kurihara and Sukarno, a versatile endophytic entomopathogenic fungus for plant growth promotion in rice (Oryza sativa L.).","authors":"P Shree Naveena, O P Reji Rani, P R Nithya, R Beena, K B Soni, V S Adarsh","doi":"10.1007/s11274-025-04486-5","DOIUrl":"10.1007/s11274-025-04486-5","url":null,"abstract":"","PeriodicalId":23703,"journal":{"name":"World journal of microbiology & biotechnology","volume":"41 8","pages":"270"},"PeriodicalIF":4.2,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144733526","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":"Nucleoid-associated proteins: molecular mechanisms in microbial adaptation.","authors":"Harsh V Purohit","doi":"10.1007/s11274-025-04419-2","DOIUrl":"10.1007/s11274-025-04419-2","url":null,"abstract":"<p><p>Nucleoid-associated proteins (NAPs) are essential regulators of bacterial chromosomal organization and gene expression, enabling microbes to adapt to environmental fluctuations. Bacteria are under increasing pressure from oxidative stress, temperature changes, osmotic fluctuations, and nutritional constraints, all of which are consequences of climate change. Major NAPs including H-NS, Fis, HU, IHF, Lrp, and Dps contribute significantly to microbial resilience by regulating genes that respond to stress and reshape chromosomal architecture. The ability to withstand extreme environments depends on these proteins, which mediate gene silencing, transcriptional activation, and DNA protection. In addition to their essential function in stress adaption, NAPs have tremendous promise for biotechnological developments. Their ability to regulate gene expression in reaction to stimuli in the environment can be used to create microbial strains that are more resistant to stress, which would be useful in fields such as bioremediation, farming, and industrial fermentation. Their impact on dormancy regulation and horizontal gene transfer opens doors for better microbial engineering techniques and the fight against antibiotic resistance. Enhancing heterologous gene expression, optimizing metabolic pathways, and designing biosensors responsive to changing environmental conditions are all possible through fine-tuning NAP activity in synthetic biology. Extremophilic NAP variations, their relationships with global regulators, and their possible utility in developing microbial systems that can withstand climate change are the topics of new research. An in-depth molecular-level understanding of these proteins may provide novel approaches to maintaining microbial-driven activities in dynamic ecosystems. Researchers can help with worldwide sustainability initiatives by creating more resilient microbial systems that can adapt to changing conditions by combining biotechnology with environmental microbiology and NAP-driven regulatory mechanisms.</p>","PeriodicalId":23703,"journal":{"name":"World journal of microbiology & biotechnology","volume":"41 8","pages":"277"},"PeriodicalIF":4.2,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144733543","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":"Role of organic acid-degrading bacteria in a microbial methanation system using a subterranean microbial community.","authors":"Makoto Kawano, Kohei Ikeura, Hiroki Taniguchi, Minako Terao, Kota Ichikawa, Takumi Higashi, Hiroyuki Futamata, Hiroyuki Kimura","doi":"10.1007/s11274-025-04496-3","DOIUrl":"10.1007/s11274-025-04496-3","url":null,"abstract":"<p><p>Microbial methanation, which produces CH₄ from H₂ and CO₂ (H₂/CO₂) using hydrogenotrophic methanogens, converts CO₂ into a resource. The proposed system utilizes an isolated strain of hydrogenotrophic methanogen and an anaerobic microbial community from a deep aquifer where H₂ and CO₂ are produced via biodegradation of organic matter by fermentative bacteria, which CH₄ is then produced from H₂ and CO₂ by hydrogenotrophic methanogens. The strain and microbial community were added separately to liquid medium in serum bottles. An H₂/CO₂ mixture was added to each bottle's gas phase and incubated. CH₄ was produced continuously across both cultures. However, CH₄ production rates in the bottle with a single methanogen strain gradually decreased during cultivation with H₂ and CO₂ exchange. In contrast, the culture using the microbial community derived from anaerobic groundwater maintained consistent CH₄ production throughout the experiment. Analysis of organic acids in the media revealed that the accumulation of formate, acetate, and propionate in the microbial community culture was significantly lower than in the single-strain methanogen culture. These findings suggest that anaerobic bacteria efficiently decompose and consume organic acids that inhibit methanogenic activity, improving the culture environment. This study demonstrates the microbial community's effectiveness in supporting and sustaining a microbial methanation system.</p>","PeriodicalId":23703,"journal":{"name":"World journal of microbiology & biotechnology","volume":"41 8","pages":"286"},"PeriodicalIF":4.2,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12304031/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144733547","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":"The crosstalk between host and rumen microbiome in cattle: insights from multi-omics approaches and genome-wide association studies.","authors":"Xiaoxing Ye, Goutam Sahana, Mogens Sandø Lund, Zexi Cai","doi":"10.1007/s11274-025-04504-6","DOIUrl":"10.1007/s11274-025-04504-6","url":null,"abstract":"<p><p>The rumen microbiome plays a pivotal role in cattle health, productivity, and environmental sustainability by driving key processes such as nutrient metabolism, feed efficiency, and methane emissions. The intricate interactions among host genome, microbiome composition, and dietary factors shape a dynamic ecosystem that underpins animal performance and sustainability outcomes. Leveraging recent advancements in sequencing technologies and multi-omics approaches, this review synthesizes emerging insights into the genetic and functional profile of the rumen microbiome. Meanwhile, association studies with microbiome and genome-wide markers have identified key microbial and genetic markers linked to methane emissions, paving the way for microbiome-driven breeding programs aimed at reducing environmental impacts. This review also addresses challenges in integrating microbiome datasets, bioinformatics workflows, and reference databases, offering strategies to overcome these obstacles through multi-omics and advanced computational tools. By highlighting actionable pathways for microbiome-informed breeding and management strategies, this work provides a novel framework for improving livestock productivity and mitigating environmental footprints.</p>","PeriodicalId":23703,"journal":{"name":"World journal of microbiology & biotechnology","volume":"41 8","pages":"267"},"PeriodicalIF":4.2,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12304033/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144733548","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":"Conversion of oleuropein to hydroxytyrosol by lactic acid bacteria fermentation of olive leaves in water solution with reduced glucose content.","authors":"Zuzana Farkas, Rosa Romeo, Domenico Pangallo, Lucia Kraková, Angelo M Giuffrè, Rossana Sidari","doi":"10.1007/s11274-025-04495-4","DOIUrl":"10.1007/s11274-025-04495-4","url":null,"abstract":"<p><p>Oleuropein is the most abundant bioactive phenolic compound olive trees (Olea europaea L.). It is found in all parts of the plant, but especially in the leaves. This study describes the bioconversion of oleuropein to hydroxytyrosol, a polyphenol with antioxidant and antibacterial properties, by the fermentation of olive leaves by lactic acid bacteria (LAB), using a new, more eco-friendly method that is not based on chemical solvent extraction. This method uses an aqueous solution with reduced glucose content to which ground leaves are added and subsequently inoculated with LAB strains. In this experiment, the pH, glucose, and LAB strains are key factors. We tested a total of fourteen LAB strains for β-glucosidase activity, from which we selected the five with the best demonstrated activity - Lactiplantibacillus plantarum PB22, Fructilactobacillus sanfranciscensis B415, Lactiplantibacillus pentosus B506, Lactiplantibacillus pentosus B307 and Lactiplantibacillus plantarum B329. The bioconversion was monitored over 28 days using a UPLC system coupled with a UV/Vis Photo Diode Array. The best strains for converting oleuropein to hydroxytyrosol were F. sanfranciscensis B415, L. pentosus B506, and L. pentosus B307 and the optimum fermentation time was found to be 3 days. This work proposes an environmentally friendly low-impact method for reusing agricultural plant wastes.</p>","PeriodicalId":23703,"journal":{"name":"World journal of microbiology & biotechnology","volume":"41 8","pages":"283"},"PeriodicalIF":4.2,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12304046/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144733520","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}