Frontiers in Microbiology最新文献

{"title":"Corrigendum: SARS-CoV-2 evolution among patients with immunosuppression in a nosocomial cluster of a Japanese medical center during the Delta (AY.29 sublineage) surge.","authors":"Yoshie Hosaka, Yan Yan, Toshio Naito, Rieko Oyama, Koji Tsuchiya, Norio Yamamoto, Shuko Nojiri, Satoshi Hori, Kazuhisa Takahashi, Yoko Tabe","doi":"10.3389/fmicb.2024.1478638","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1478638","url":null,"abstract":"<p><p>[This corrects the article DOI: 10.3389/fmicb.2023.944369.].</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":4.0,"publicationDate":"2024-08-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11377342/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142153591","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Efficient production of phenyllactic acid in <i>Escherichia coli</i> via metabolic engineering and fermentation optimization strategies.","authors":"Weibin Wu, Maosen Chen, Chenxi Li, Jie Zhong, Rusheng Xie, Zhibin Pan, Junhan Lin, Feng Qi","doi":"10.3389/fmicb.2024.1457628","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1457628","url":null,"abstract":"<p><p>Phenyllactic acid (PhLA), an important natural organic acid, can be used as a biopreservative, monomer of the novel polymeric material poly (phenyllactic acid), and raw material for various medicines. Herein, we achieved a high-level production of PhLA in <i>Escherichia coli</i> through the application of metabolic engineering and fermentation optimization strategies. First, the PhLA biosynthetic pathway was established in <i>E. coli</i> CGSC4510, and the phenylalanine biosynthetic pathway was disrupted to improve the carbon flux toward PhLA biosynthesis. Then, we increased the copy number of the key genes involved in the synthesis of the PhLA precursor phenylpyruvic acid. Concurrently, we disrupted the tryptophan biosynthetic pathway and enhanced the availability of phosphoenolpyruvate and erythrose 4-phosphate, thereby constructing the genetically engineered strain MG-P10. This strain was capable of producing 1.42 ± 0.02 g/L PhLA through shake flask fermentation. Furthermore, after optimizing the dissolved oxygen feedback feeding process and other conditions, the PhLA yield reached 52.89 ± 0.25 g/L in a 6 L fermenter. This study successfully utilized metabolic engineering and fermentation optimization strategies to lay a foundation for efficient PhLA production in <i>E. coli</i> as an industrial application.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":4.0,"publicationDate":"2024-08-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11377314/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142153603","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Niche-specification of aerobic 2,4-dichlorophenoxyacetic acid biodegradation by <i>tfd</i>-carrying bacteria in the rice paddy ecosystem.","authors":"Tran Quoc Tuan, Panji Cahya Mawarda, Norhan Ali, Arne Curias, Thi Phi Oanh Nguyen, Nguyen Dac Khoa, Dirk Springael","doi":"10.3389/fmicb.2024.1425193","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1425193","url":null,"abstract":"<p><p>This study aimed for a better understanding of the niche specification of bacteria carrying the <i>tfd</i>-genes for aerobic 2,4-dichlorphenoxyacetic acid (2,4-D) degradation in the rice paddy ecosystem. To achieve this, a dedicated microcosm experiment was set up to mimic the rice paddy system, with and without 2,4-D addition, allowing spatial sampling of the different rice paddy compartments and niches, i.e., the main anaerobic bulk soil and the aerobic surface water, surface soil, root surface and rhizosphere compartments. No effect of 2,4-D on the growth and morphology of the rice plant was noted. 2,4-D removal was faster in the upper soil layers compared to the deeper layers and was more rapid after the second 2,4-D addition compared to the first. Moreover, higher relative abundances of the 2,4-D catabolic gene <i>tfdA</i> and of the mobile genetic elements IncP-1 and IS<i>1071</i> reported to carry the <i>tfd</i>-genes, were observed in surface water and surface soil when 2,4-D was added. <i>tfdA</i> was also detected in the root surface and rhizosphere compartment but without response to 2,4-D addition. While analysis of the bacterial community composition using high-throughput 16S rRNA gene amplicon sequencing did not reveal expected <i>tfd</i>-carrying taxa, subtle community changes linked with 2,4-D treatment and the presence of the plant were observed. These findings suggest (i) that the surface soil and surface water are the primary and most favorable compartements/niches for <i>tfd</i>-mediated aerobic 2,4-D biodegradation and (ii) that the community structure in the 2,4-D treated rice paddy ecosystem is determined by a niche-dependent complex interplay between the effects of the plant and of 2,4-D.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":4.0,"publicationDate":"2024-08-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11377324/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142153606","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Deterministic processes influence bacterial more than fungal community assembly during the development of biological soil crusts in the desert ecosystem.","authors":"Hong Zhou, Ke Yu, Chunfang Deng, Bo Wu, Ying Gao","doi":"10.3389/fmicb.2024.1404602","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1404602","url":null,"abstract":"<p><p>Biological soil crusts (biocrusts) constitute a crucial biological component of the soil surface in arid and semi-arid ecosystems. Understanding the variations in soil microbial community assembly across biocrust successional stages is essential for a deeper comprehension of microbial biodiversity and desert ecosystem functioning. However, knowledge about the mechanisms of microbial community assembly and the factors influencing its development remains limited. In this study, we utilized amplicons sequencing to assess the compositions of bacterial and fungal communities in bare sand and three types of biocrusts (light cyanobacterial biocrusts, dark cyanobacterial biocrusts, and moss crusts). Subsequently, we analyzed the ecological processes shaping microbial community composition and structure, along with the influencing factors. Our results revealed a significant increase in bacterial diversity and no significant changes in fungal diversity during biocrust development. The relative abundances of the copiotrophic bacteria (e.g., Actinobacteria, Acidobacteria, and Bacteroidetes) showed significant increases, while oligotrophic bacteria (e.g., Proteobacteria and Firmicutes) decreased over time. Moreover, the relative abundances of Ascomycota, which exhibit strong resistance to adverse environmental conditions, significantly decreased, whereas Basidiomycota, known for their ability to degrade lignin, significantly increased throughout biocrust development. Additionally, stochastic processes (dispersal limitation and drift) predominantly drove the assemblies of both bacterial and fungal communities. However, the relative importance of deterministic processes (homogeneous selection) in bacterial assembly increased during biocrust development. Structural equation modeling indicated that bacterial community assembly was primarily related to soil water content, whereas fungal community assembly was primarily related to total organic carbon. These findings provide a scientific foundation for investigating the formation and development of biocrusts, and further insights into the conservation and sustainable management of biocrust resources under future climate change scenarios.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":4.0,"publicationDate":"2024-08-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11377341/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142153600","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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 impact of dysbiosis in oropharyngeal and gut microbiota on systemic inflammatory response and short-term prognosis in acute ischemic stroke with preceding infection.","authors":"Qiuxing He, Guoshun Li, Jiasheng Zhao, Huishan Zhu, Huanhao Mo, Zhanshi Xiong, Zhan Zhao, Jingyi Chen, Weimin Ning","doi":"10.3389/fmicb.2024.1432958","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1432958","url":null,"abstract":"<p><strong>Background: </strong>Stroke is a devastating disease and ranks as the second leading cause of death and disability globally. Several studies have shown that preceding infection (PI) of upper respiratory tract are strongly associated with acute ischemic stroke (AIS). However, the clinical implications and underlying pathological mechanisms remain unclear.</p><p><strong>Methods: </strong>In this study, 16S rRNA gene sequencing was employed to compare the structural characteristics of oropharyngeal and gut microbiota in AIS patients with or without PI and normal controls (NCs; 30 cases each), and systemic inflammatory markers were detected to explore the relationship between upper respiratory tract infections (URTIs) and subsequent stroke severity and functional outcome and the potential mechanism.</p><p><strong>Results: </strong>We found that patients with AIS-PI exhibited elevated serum WBC, NE, CRP, and Hcy levels, as well as a higher 90-day mRS score. Oropharyngeal and gut microbiota analysis showed that AIS and AIS-PI patients exhibited increased microbial richness in sequence. Principal coordinate analysis of the microbiota demonstrated significant differences in microbiota composition among the three groups. In AIS-PI patients, <i>Megamonas</i>, <i>Megasphaera</i>, <i>Ruminococcaceae UCG 004</i>, <i>Rothia</i>, and <i>Streptococcus</i> were significantly enriched in the gut. Opportunistic pathogens, including <i>Thermus</i>, <i>uncultured Veillonella</i> sp., and <i>Oribacterium sinu</i>, were found to be significantly enriched in the oropharynx. The dysregulated microbiota were positively correlated with systemic inflammatory markers, stroke severity, and poor prognosis. In contrast, short-chain fatty acid-producing bacteria <i>Eisenbergiella</i>, <i>bacterium NLAE</i>, <i>Fusicatenibacter</i>, <i>Ruminococcaceae</i>, and <i>Faecalibacterium</i> were enriched in NCs. Their abundances were negatively correlated with systemic inflammatory markers, stroke severity and poor prognosis.</p><p><strong>Conclusion: </strong>Our findings suggest that PIs of the upper respiratory tract may contribute to poor short-term functional outcome in AIS patients by causing disturbance of the oropharyngeal and gut microbiota and promoting elevated systemic inflammation levels.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":4.0,"publicationDate":"2024-08-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11374613/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142139788","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A novel polysaccharide-based bioflocculant produced by <i>Bacillus subtilis</i> 35A and its application in the treatment of dye decolorization, heavy metal ion adsorption and meat product wastewater.","authors":"Jinping Dai, Xingxiu Zhao, Shengdong Mu, Qinghuan Yang, Changqing Zhao, Zhifeng Zhao","doi":"10.3389/fmicb.2024.1457909","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1457909","url":null,"abstract":"<p><p>Optimizing the fermentation process of microorganisms with exceptional bioflocculant-producing capabilities is crucial for the production of bioflocculants. The application of bioflocculants to various pollutants highlights their significant advantages in water treatment. Therefore, the culture conditions of <i>Bacillus subtilis</i> 35A with exceptional bioflocculant-producing capabilities were optimized. The bioflocculant (MBF) was obtained by alcohol percipitation from the fermentation supernatant, and its physicochemical properties were analyzed to explore its application in the treatment of dyes, heavy metal ions, and organic wastewater. The results indicate that, using cyclodextrin and yeast extract as carbon and nitrogen sources, after 48 h of fermentation at the initial pH, the bioflocculant (MBF-35A) yielded 10.47 g/L with a flocculation rate of 96.57% for kaolin suspension. The chemical analysis demonstrated that MBF-35A is mainly composed of polysaccharide (81.74%) and protein (16.42%). FITR and XPS analysis indicated that MBF-35A mainly contains major elements such as carbon, nitrogen, and oxygen, with functional groups (-OH, C-O, C-H, and C-O-C) that are beneficial for flocculation. MBF-35A exhibited a dye decolorization efficiency exceeding 95% and removed 41.05 and 48.93% of Cr⁶⁺ and Cu²⁺ ions, respectively. In meat wastewater treatment, the effective removal rates of ammonia nitrogen (26.87%), COD (51.16%), total nitrogen (37.76%), and total phosphorus (55.81%) highlight its potential in organic waste treatment. In brief, not only does MBF-35A exhibit efficient production and excellent flocculation performance as a bioflocculant, but it also shows significant biological and environmental benefits in dye, heavy metal ions, and organic wastewater treatment.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":4.0,"publicationDate":"2024-08-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11374711/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142139787","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Three feminizing <i>Wolbachia</i> strains in a single host species: comparative genomics paves the way for identifying sex reversal factors.","authors":"Pierre Grève, Bouziane Moumen, Didier Bouchon","doi":"10.3389/fmicb.2024.1416057","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1416057","url":null,"abstract":"<p><strong>Introduction: </strong>Endosymbiotic bacteria in the genus <i>Wolbachia</i> have evolved numerous strategies for manipulating host reproduction in order to promote their own transmission. This includes the feminization of males into functional females, a well-studied phenotype in the isopod <i>Armadillidium vulgare</i>. Despite an early description of this phenotype in isopods and the development of an evolutionary model of host sex determination in the presence of <i>Wolbachia</i>, the underlying genetic mechanisms remain elusive.</p><p><strong>Methods: </strong>Here we present the first complete genomes of the three feminizing <i>Wolbachia</i> (<i>w</i>VulC, <i>w</i>VulP, and <i>w</i>VulM) known to date in <i>A. vulgare</i>. These genomes, belonging to <i>Wolbachia</i> B supergroup, contain a large number of mobile elements such as WO prophages with eukaryotic association modules. Taking advantage of these data and those of another <i>Wolbachia</i>-derived feminizing factor integrated into the host genome (<i>f</i> element), we used a comparative genomics approach to identify putative feminizing factors.</p><p><strong>Results: </strong>This strategy has enabled us to identify three prophage-associated genes secreted by the Type IV Secretion System: one ankyrin repeat domain-containing protein, one helix-turn-helix transcriptional regulator and one hypothetical protein. In addition, a latrotoxin-related protein, associated with phage relic genes, was shared by all three genomes and the <i>f</i> element.</p><p><strong>Conclusion: </strong>These putative feminization-inducing proteins shared canonical interaction features with eukaryotic proteins. These results pave the way for further research into the underlying functional interactions.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":4.0,"publicationDate":"2024-08-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11376236/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142139789","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Rapid and sensitive detection of methicillin-resistant <i>Staphylococcus aureus</i> through the RPA-<i>Pf</i>Ago system.","authors":"Weizhong Chen, Jiexiu Zhang, Huagui Wei, Jie Su, Jie Lin, Xueyan Liang, Jiangtao Chen, Rong Zhou, Lin Li, Zefang Lu, Guangyu Sun","doi":"10.3389/fmicb.2024.1422574","DOIUrl":"10.3389/fmicb.2024.1422574","url":null,"abstract":"<p><strong>Introduction: </strong>Both the incidence and mortality rates associated with methicillin-resistant <i>Staphylococcus aureus</i> (MRSA) have progressively increased worldwide. A nucleic acid testing system was developed in response, enabling swift and precise detection of <i>Staphylococcus aureus</i> (<i>S. aureus</i>) and its MRSA infection status. This facilitates improved prevention and control of MRSA infections.</p><p><strong>Methods: </strong>In this work, we introduce a novel assay platform developed by integrating <i>Pyrococcus furiosus</i> Argonaute (<i>Pf</i>Ago) with recombinase polymerase amplification (RPA), which was designed for the simultaneous detection of the <i>nuc</i> and <i>mecA</i> genes in MRSA.</p><p><strong>Results: </strong>This innovative approach enables visual MRSA detection within 55 mins, boasting a detection limit of 10² copies/μL. Characterized by its high specificity, the platform accurately identifies MRSA infections without cross-reactivity to other clinical pathogens, highlighting its unique capability for <i>S. aureus</i> infection diagnostics amidst bacterial diversity. Validation of this method was performed on 40 clinical isolates, demonstrating a 95.0% accuracy rate in comparison to the established Vitek2-COMPACT system.</p><p><strong>Discussion: </strong>The RPA-<i>Pf</i>Ago platform has emerged as a superior diagnostic tool, offering enhanced sensitivity, specificity, and identification efficacy for MRSA detection. Our findings underscore the potential of this platform to significantly improve the diagnosis and management of MRSA infection.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":4.0,"publicationDate":"2024-08-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11371615/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142132333","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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 signatures and crosstalk of gut microbiome, mycobiome, and metabolites in decompensated cirrhotic patients.","authors":"Yangjie Li, Danping Liu, Yanglan He, Zeming Zhang, Ajuan Zeng, Chunlei Fan, Lingna Lyu, Zilong He, Huiguo Ding","doi":"10.3389/fmicb.2024.1443182","DOIUrl":"10.3389/fmicb.2024.1443182","url":null,"abstract":"<p><strong>Background: </strong>Numerous studies have confirmed that gut microbiota plays a crucial role in the progression of cirrhosis. However, the contribution of gut fungi in cirrhosis is often overlooked due to the relatively low abundance.</p><p><strong>Methods: </strong>We employed 16S ribosomal RNA sequencing, internal transcribed spacer sequencing, and untargeted metabolomics techniques to investigate the composition and interaction of gut bacteria, fungi, and metabolites in cirrhotic patients.</p><p><strong>Results: </strong>Cirrhotic patients exhibited significant differences in the diversity and composition of gut microbiota and their metabolites in cirrhotic patients compared to healthy individuals. Increase in pathogenic microbial genera and a decrease in beneficial microbial genera including bacteria and fungi were observed. Various clinical indexes were closely connected with these increased metabolites, bacteria, fungi. Additionally, endoscopic treatment was found to impact the gut microbiota and metabolites in cirrhotic patients, although it did not significantly alter the gut ecology. Finally, we constructed a cirrhosis diagnostic model based on different features (bacteria, fungi, metabolites, clinical indexes) with an AUC of 0.938.</p><p><strong>Conclusion: </strong>Our findings revealed the characteristics of gut microbial composition and their intricate internal crosstalk in cirrhotic patients, providing cutting-edge explorations of potential roles of gut microbes in cirrhosis.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":4.0,"publicationDate":"2024-08-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11372394/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142132335","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification of the regulatory roles of water qualities on the spatio-temporal dynamics of microbiota communities in the water and fish guts in the Heilongjiang River.","authors":"Hongyu Jin, Lei Li, Wanqiao Lu, Zepeng Zhang, Yue Xing, Di Wu","doi":"10.3389/fmicb.2024.1435360","DOIUrl":"10.3389/fmicb.2024.1435360","url":null,"abstract":"<p><p>The Heilongjiang River is one of the largest rivers in the cool temperate zone and has an abundant fish source. To date, the microbiota community in water samples and fish guts from the Heilongjiang River is still unclear. In the present study, water samples and fish guts were collected from four locations of the Heilongjiang River during both the dry season and the wet season to analyze the spatio-temporal dynamics of microbiota communities in the water environment and fish guts through 16s ribosome RNA sequencing. The water qualities showed seasonal changes in which the pH value, dissolved oxygen, and total dissolved solids were generally higher during the dry season, and the water temperature was higher during the wet season. RDA indicated that higher pH values, dissolved oxygen, and total dissolved solids promoted the formation of microbiota communities in the water samples of the dry season, while higher water temperature positively regulated the formation of microbiota communities in the water samples of the wet season. LEFSe identified five biomarkers with the most abundant difference at the genus level, of which <i>TM7a</i> was upregulated in the water samples of the dry season, and <i>SM1A02, Rheinheimera, Gemmatimonas</i>, and <i>Vogesella</i> were upregulated in the water samples of the wet season. Pearson analysis revealed that higher pH values and dissolved oxygen positively regulated the formation of <i>TM7a</i> and negatively regulated the formation of <i>SM1A02, Rheinheimera, Gemmatimonas</i>, and <i>Vogesella</i> (<i>p</i> < 0.05), while higher water temperature had the opposite regulatory roles in the formation of these biomarkers. The relative abundance of microbiota diversity in fish guts varies greatly between different fish species, even if the fishes were collected from the same water source, indicating that dietary habits and fish species may be key factors, affecting the formation and construction of microbiome community in fish gut. <i>P. glenii, P. lagowskii, G. cynocephalus</i>, and <i>L. waleckii</i> were the main fish resources, which were collected and identified from at least six sample points. RDA indicated that the microbiota in the water environment regulated the formation of microbiota community in the guts of <i>G. cynocephalus</i> and <i>L. waleckii</i> and had limited regulated effects on <i>P. glenii</i> and <i>P. lagowskii</i>. The present study identified the regulatory effects of water qualities on the formation of microbiota communities in the water samples and fish guts, providing valuable evidence for the protection of fish resources in the Heilongjiang River.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":4.0,"publicationDate":"2024-08-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11372393/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142132315","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}