Pub Date : 2025-01-01DOI: 10.1016/j.crmicr.2025.100464
Farhan Muhib , Maisha Islam , Salman Ferdous Bhuiyan , Mir Sajedul Karim , Aunta Melan , Kakali Halder , Sarmin Satter , Parama Aminul , Fathma Farhana , Fahmida Rahman , Sazzad Bin Shahid , Mohsina Khatoon , Zahidul Hasan , Fazle Rabbi Chowdhury , Shariful Alam Jilani , Saika Farook
Melioidosis is a fatal infectious disease caused by the gram-negative soil dwelling bacterium Burkholderia pseudomallei. Bangladesh is considered a definite country for melioidosis owing to the isolation of the organism both from clinical samples as well as soil. Only around 100 cases of melioidosis have been diagnosed sporadically in the country for the past 60 years till October 2023 and about 90 % of these cases were detected in BIRDEM General Hospital. A dilemma existed for researchers worldwide whether the disease is actually rare in this part of the continent or whether it is the limitation of our clinicians and microbiologists keeping the disease neglected due to a lack of clinical and laboratory suspicion, knowledge gap and occasionally lack of adequate laboratory facilities. Consequently, to overcome these obstacles, a group of dedicated researchers began conducting workshops, seminars and finally arranged the 3rd South Asian Melioidosis Congress-2023 to disseminate knowledge on the fatality of the disease and ways to detect and manage the cases among the physicians all over the country. The outstanding outcome of these melioidosis centered educational sessions was the isolation and identification of nine melioidosis cases from different clinical settings of the country, other than BIRDEM. We present the nine melioidosis cases with different clinical manifestations. Interestingly, 33.3 % patients were non-diabetic, although two of the nine patients had other chronic illness, while a young patient of 28 years had no known co-morbidities at all. Eight of the nine patients recovered after six months treatment, while one patient unfortunately expired. The case series is expected to raise vigilance among the concerned physicians and microbiologists of the country to keep the suspicion of melioidosis at the back of their mind in high risk patients, thus improving the chance of early diagnoses and management.
{"title":"Melioidosis cases detected in Dhaka, Bangladesh: a positive impact of 3rd South Asian melioidosis congress-2023","authors":"Farhan Muhib , Maisha Islam , Salman Ferdous Bhuiyan , Mir Sajedul Karim , Aunta Melan , Kakali Halder , Sarmin Satter , Parama Aminul , Fathma Farhana , Fahmida Rahman , Sazzad Bin Shahid , Mohsina Khatoon , Zahidul Hasan , Fazle Rabbi Chowdhury , Shariful Alam Jilani , Saika Farook","doi":"10.1016/j.crmicr.2025.100464","DOIUrl":"10.1016/j.crmicr.2025.100464","url":null,"abstract":"<div><div>Melioidosis is a fatal infectious disease caused by the gram-negative soil dwelling bacterium <em>Burkholderia pseudomallei</em>. Bangladesh is considered a definite country for melioidosis owing to the isolation of the organism both from clinical samples as well as soil. Only around 100 cases of melioidosis have been diagnosed sporadically in the country for the past 60 years till October 2023 and about 90 % of these cases were detected in BIRDEM General Hospital. A dilemma existed for researchers worldwide whether the disease is actually rare in this part of the continent or whether it is the limitation of our clinicians and microbiologists keeping the disease neglected due to a lack of clinical and laboratory suspicion, knowledge gap and occasionally lack of adequate laboratory facilities. Consequently, to overcome these obstacles, a group of dedicated researchers began conducting workshops, seminars and finally arranged the 3rd South Asian Melioidosis Congress-2023 to disseminate knowledge on the fatality of the disease and ways to detect and manage the cases among the physicians all over the country. The outstanding outcome of these melioidosis centered educational sessions was the isolation and identification of nine melioidosis cases from different clinical settings of the country, other than BIRDEM. We present the nine melioidosis cases with different clinical manifestations. Interestingly, 33.3 % patients were non-diabetic, although two of the nine patients had other chronic illness, while a young patient of 28 years had no known co-morbidities at all. Eight of the nine patients recovered after six months treatment, while one patient unfortunately expired. The case series is expected to raise vigilance among the concerned physicians and microbiologists of the country to keep the suspicion of melioidosis at the back of their mind in high risk patients, thus improving the chance of early diagnoses and management.</div></div>","PeriodicalId":34305,"journal":{"name":"Current Research in Microbial Sciences","volume":"9 ","pages":"Article 100464"},"PeriodicalIF":5.8,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144931880","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-01-01DOI: 10.1016/j.crmicr.2025.100404
Pengfei Niu , Rong Guo , Chan Ding , Shengqing Yu
The type IX secretion system (T9SS) is specific to the Fibrobacteres-Chlorobi-Bacteroidetes superphylum, the members of which have many specialized features, including gliding motility and the transport of cargo proteins across the outer membrane. At least 20 proteins have been identified as the components of T9SS. Proteins secreted by T9SS use the Sec system to cross the inner membrane, and the conserved C-terminal domain targets them to the T9SS for delivery to the extracellular environment or attachment to the outer membrane. Riemerella anatipestifer is an important pathogen of waterfowl, causing septicemic and exudative diseases. A genetic analysis recently detected T9SS in R. anatipestifer, in which it transports proteins and affects virulence. Moreover, at least 19 T9SS-transported proteins in R. anatipestifer strain Yb2 were identified, with multiple functions and affecting R. anatipestifer in different ways. In this review, we focus on recent advances in our understanding of the structure, function, and organization of the T9SS machinery and new findings about this highly novel secretion system in R. anatipestifer.
{"title":"Advances in the type IX secretion system: an exploration focusing on Riemerella anatipestifer","authors":"Pengfei Niu , Rong Guo , Chan Ding , Shengqing Yu","doi":"10.1016/j.crmicr.2025.100404","DOIUrl":"10.1016/j.crmicr.2025.100404","url":null,"abstract":"<div><div>The type IX secretion system (T9SS) is specific to the Fibrobacteres-Chlorobi-Bacteroidetes superphylum, the members of which have many specialized features, including gliding motility and the transport of cargo proteins across the outer membrane. At least 20 proteins have been identified as the components of T9SS. Proteins secreted by T9SS use the Sec system to cross the inner membrane, and the conserved C-terminal domain targets them to the T9SS for delivery to the extracellular environment or attachment to the outer membrane. <em>Riemerella anatipestifer</em> is an important pathogen of waterfowl, causing septicemic and exudative diseases. A genetic analysis recently detected T9SS in <em>R. anatipestifer</em>, in which it transports proteins and affects virulence. Moreover, at least 19 T9SS-transported proteins in <em>R. anatipestifer</em> strain Yb2 were identified, with multiple functions and affecting <em>R. anatipestifer</em> in different ways. In this review, we focus on recent advances in our understanding of the structure, function, and organization of the T9SS machinery and new findings about this highly novel secretion system in <em>R. anatipestifer</em>.</div></div>","PeriodicalId":34305,"journal":{"name":"Current Research in Microbial Sciences","volume":"9 ","pages":"Article 100404"},"PeriodicalIF":5.8,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144893496","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-01-01DOI: 10.1016/j.crmicr.2025.100424
Paulo Fernandes , Concha Cano-Díaz , Rui Pinto , Isabel Mourão , Luís Miguel Brito , Luísa Moura
Photoselective nets in agriculture are typically designed to modify the light spectrum, intensity, and microclimate around crops, influencing plant growth, productivity, and quality. However, knowledge regarding their impact on the microbiota of plants and fruits remains limited. This study assessed the impact of pearl, grey, and yellow photoselective nets on the microbial communities present on kiwifruit surfaces using amplicon high-throughput sequencing of ITS and 16S metagenomic DNA. Kiwifruit pathogens associated with postharvest rot, such as Alternaria, Didymella, and Cladosporium, were significantly more prevalent on kiwis grown without nets. Additionally, different net types influenced microbial diversity, richness, and network structure. Pearl nets promoted bacterial richness and fungal diversity, while yellow nets enhanced overall diversity and resilience in both microbial communities. Grey nets resulted in evenness in fungal communities but led to less robust bacterial networks. Kiwifruit yield increased under photoselective nets compared to outside. At harvest, fruit dry matter, firmness, pH, total soluble solids, and titratable acidity were similar across treatments. However, fruits under yellow and grey nets showed significantly lower firmness compared to other treatments. Understanding these effects may contribute to optimizing fruit production and shelf-life management.
{"title":"The composition and structure of bacterial and fungal communities in kiwifruit are influenced by photoselective nets","authors":"Paulo Fernandes , Concha Cano-Díaz , Rui Pinto , Isabel Mourão , Luís Miguel Brito , Luísa Moura","doi":"10.1016/j.crmicr.2025.100424","DOIUrl":"10.1016/j.crmicr.2025.100424","url":null,"abstract":"<div><div>Photoselective nets in agriculture are typically designed to modify the light spectrum, intensity, and microclimate around crops, influencing plant growth, productivity, and quality. However, knowledge regarding their impact on the microbiota of plants and fruits remains limited. This study assessed the impact of pearl, grey, and yellow photoselective nets on the microbial communities present on kiwifruit surfaces using amplicon high-throughput sequencing of ITS and 16S metagenomic DNA. Kiwifruit pathogens associated with postharvest rot, such as <em>Alternaria, Didymella</em>, and <em>Cladosporium</em>, were significantly more prevalent on kiwis grown without nets. Additionally, different net types influenced microbial diversity, richness, and network structure. Pearl nets promoted bacterial richness and fungal diversity, while yellow nets enhanced overall diversity and resilience in both microbial communities. Grey nets resulted in evenness in fungal communities but led to less robust bacterial networks. Kiwifruit yield increased under photoselective nets compared to outside. At harvest, fruit dry matter, firmness, pH, total soluble solids, and titratable acidity were similar across treatments. However, fruits under yellow and grey nets showed significantly lower firmness compared to other treatments. Understanding these effects may contribute to optimizing fruit production and shelf-life management.</div></div>","PeriodicalId":34305,"journal":{"name":"Current Research in Microbial Sciences","volume":"9 ","pages":"Article 100424"},"PeriodicalIF":4.8,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144480469","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-01-01DOI: 10.1016/j.crmicr.2025.100440
Aldo Barrera , Constanza Martínez-Valdebenito , Bruno Nervi , Aracelly Gaete-Argel , Nicolás M.S. Gálvez , Catalina Osses , Cecilia Vizcaya , María E. Ceballos , Jaime Pereira , Mayling Chang , Luis Rojas , Sebastián Mondaca , Carolina Henríquez , Alexis M. Kalergis , Alessandro Sette , Alba Grifoni , Ricardo Soto-Rifo , Fernando Valiente-Echeverría , Marcela Ferres , María E. Balcells , Nicole Le Corre
During the SARS-CoV-2 pandemic, the use of convalescent plasma (CP) in high-risk patients was proposed and widely implemented in several countries as a potential COVID-19 therapy. Nonetheless, CP therapy’s impact on immune response is nowadays poorly understood, including the correlation between IgG levels, neutralization capacity, and cellular immune response against SARS-CoV-2. Here we evaluated, in a cohort of patients with COVID-19 requiring hospitalization and having received or not CP, as well as in CP donors (recovered from mild disease), the humoral and cellular immune response assessed by titers of SARS-CoV-2 IgG, neutralizing antibodies, and IFN-γ+/IL-2+ ELISpot during the first month (early) and up to nine months (long-term) after symptom onset. Results showed higher seropositivity and seroconversion rates between 7–12 days after plasma infusion in CP-recipients. However, similar IgG and neutralizing immune response kinetics between CP-recipients and non-recipients was observed during the first and until the ninth month of analysis. A positive correlation between IgG and neutralizing levels was detected. Compared to outpatient donors, hospitalized individuals showed a higher response at 3 and 6 months after symptoms onset. A sustained SARS-CoV-2-specific CD4+ and CD8+ T cell response was observed in outpatients and hospitalized patients, regardless of the CP treatment. We concluded that the CP infusion did not affect the long-term SARS-CoV-2 specific humoral and cellular immune responses. Nonetheless, CP may provide a therapeutic window by promoting a higher humoral response during the acute phase of COVID-19.
{"title":"Convalescent plasma therapy and long-term SARS-COV-2 antiviral immune response in a prospective cohort of patients with COVID-19","authors":"Aldo Barrera , Constanza Martínez-Valdebenito , Bruno Nervi , Aracelly Gaete-Argel , Nicolás M.S. Gálvez , Catalina Osses , Cecilia Vizcaya , María E. Ceballos , Jaime Pereira , Mayling Chang , Luis Rojas , Sebastián Mondaca , Carolina Henríquez , Alexis M. Kalergis , Alessandro Sette , Alba Grifoni , Ricardo Soto-Rifo , Fernando Valiente-Echeverría , Marcela Ferres , María E. Balcells , Nicole Le Corre","doi":"10.1016/j.crmicr.2025.100440","DOIUrl":"10.1016/j.crmicr.2025.100440","url":null,"abstract":"<div><div>During the SARS-CoV-2 pandemic, the use of convalescent plasma (CP) in high-risk patients was proposed and widely implemented in several countries as a potential COVID-19 therapy. Nonetheless, CP therapy’s impact on immune response is nowadays poorly understood, including the correlation between IgG levels, neutralization capacity, and cellular immune response against SARS-CoV-2. Here we evaluated, in a cohort of patients with COVID-19 requiring hospitalization and having received or not CP, as well as in CP donors (recovered from mild disease), the humoral and cellular immune response assessed by titers of SARS-CoV-2 IgG, neutralizing antibodies, and IFN-γ<sup>+</sup>/IL-2<sup>+</sup> ELISpot during the first month (early) and up to nine months (long-term) after symptom onset. Results showed higher seropositivity and seroconversion rates between 7–12 days after plasma infusion in CP-recipients. However, similar IgG and neutralizing immune response kinetics between CP-recipients and non-recipients was observed during the first and until the ninth month of analysis. A positive correlation between IgG and neutralizing levels was detected. Compared to outpatient donors, hospitalized individuals showed a higher response at 3 and 6 months after symptoms onset. A sustained SARS-CoV-2-specific CD4<sup>+</sup> and CD8<sup>+</sup> T cell response was observed in outpatients and hospitalized patients, regardless of the CP treatment. We concluded that the CP infusion did not affect the long-term SARS-CoV-2 specific humoral and cellular immune responses. Nonetheless, CP may provide a therapeutic window by promoting a higher humoral response during the acute phase of COVID-19.</div></div>","PeriodicalId":34305,"journal":{"name":"Current Research in Microbial Sciences","volume":"9 ","pages":"Article 100440"},"PeriodicalIF":4.8,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144680160","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-01-01DOI: 10.1016/j.crmicr.2025.100474
Hailing Yang , Yanxiu Sha , Chunmei Zhang , Xiuying Li , Yingying Xu , Te Liu
Endometriosis, a complex gynecological disorder characterized by aberrant growth of endometrial tissue outside the uterine cavity, poses a significant challenge to women's health. Emerging evidence implicates environmental pollutants, particularly di-(2-ethylhexyl) phthalate (DEHP), as potential contributors to endometriosis development. However, the precise molecular mechanisms underlying this effect remain poorly understood. Herein, we investigated the role of intestinal Odoribacter/butyric acid-mediated m6A methylation in METTL3/IGF-1 signaling in DEHP-induced epithelial-mesenchymal transition (EMT) and endometriosis in a rat model. Our study demonstrated that DEHP exposure alters the gut microbiota composition, leading to modulation of METTL3-mediated m6A modification in the insulin-like growth factor 1 (IGF-1) pathway. This modification enhances EMT in endometrial cells and promotes endometriotic lesion formation. We used a multi-layered approach, including 16S rRNA sequencing, targeted metabolomics, MeRIP-seq, quantitative polymerase chain reaction, western blotting, and immunohistochemistry, to elucidate the mechanistic role of intestinal Odoribacter/butyric acid pathway-mediated METTL3/IGF-1 m6A modification in DEHP-induced endometriosis. The results revealed a significant shift in microbial diversity and a corresponding increase in METTL3/IGF-1 m6A methylation in DEHP-exposed rats, which was directly linked to EMT markers such as E-cadherin and N-cadherin. Our findings reveal a novel gut microbiota-mediated mechanism by which DEHP exposure drives endometriosis via m6A methylation, providing valuable insights into the environmental and molecular basis of the disease. This study not only advances our understanding of the role of DEHP in endometriosis pathogenesis, but also suggests a putative intestinal Odoribacter–butyrate–METTL3/IGF-1 axis that may contribute to disease progression. However, these associations remain correlative, and causality requires further validation through functional experiments.
{"title":"Di-(2-ethylhexyl) phthalate induces endometriosis by modulating IGF-1 m6A methylation via the intestinal Odoribacter–butyric acid axis in female rats","authors":"Hailing Yang , Yanxiu Sha , Chunmei Zhang , Xiuying Li , Yingying Xu , Te Liu","doi":"10.1016/j.crmicr.2025.100474","DOIUrl":"10.1016/j.crmicr.2025.100474","url":null,"abstract":"<div><div>Endometriosis, a complex gynecological disorder characterized by aberrant growth of endometrial tissue outside the uterine cavity, poses a significant challenge to women's health. Emerging evidence implicates environmental pollutants, particularly di-(2-ethylhexyl) phthalate (DEHP), as potential contributors to endometriosis development. However, the precise molecular mechanisms underlying this effect remain poorly understood. Herein, we investigated the role of intestinal <em>Odoribacter</em>/butyric acid-mediated m6A methylation in METTL3/IGF-1 signaling in DEHP-induced epithelial-mesenchymal transition (EMT) and endometriosis in a rat model. Our study demonstrated that DEHP exposure alters the gut microbiota composition, leading to modulation of METTL3-mediated m6A modification in the insulin-like growth factor 1 (IGF-1) pathway. This modification enhances EMT in endometrial cells and promotes endometriotic lesion formation. We used a multi-layered approach, including 16S rRNA sequencing, targeted metabolomics, MeRIP-seq, quantitative polymerase chain reaction, western blotting, and immunohistochemistry, to elucidate the mechanistic role of intestinal <em>Odoribacter</em>/butyric acid pathway-mediated METTL3/IGF-1 m6A modification in DEHP-induced endometriosis. The results revealed a significant shift in microbial diversity and a corresponding increase in METTL3/IGF-1 m6A methylation in DEHP-exposed rats, which was directly linked to EMT markers such as E-cadherin and N-cadherin. Our findings reveal a novel gut microbiota-mediated mechanism by which DEHP exposure drives endometriosis via m6A methylation, providing valuable insights into the environmental and molecular basis of the disease. This study not only advances our understanding of the role of DEHP in endometriosis pathogenesis, but also suggests a putative intestinal <em>Odoribacter</em>–butyrate–METTL3/IGF-1 axis that may contribute to disease progression. However, these associations remain correlative, and causality requires further validation through functional experiments.</div></div>","PeriodicalId":34305,"journal":{"name":"Current Research in Microbial Sciences","volume":"9 ","pages":"Article 100474"},"PeriodicalIF":5.8,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145218938","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Increases in water temperature due to climate change are expected to lead to cyanobacterial blooms in various freshwater bodies, including reservoirs, posing a major challenge in terms of water quality management. Therefore, a detailed understanding of the dynamics of cyanobacteria in water bodies is required to increase our knowledge of cyanobacteria. In this study, we attempted to determine the spatial distribution of cyanobacteria in a water body by acoustic techniques, and to understand the distribution of cyanobacteria and how it is affected by the water environment. At the same time, the validity of acoustic measurements of cyanobacteria was verified. Comparison of the estimated abundance of cyanobacteria by acoustic measurements and the measured pigment values of cyanobacteria showed a positive correlation between them, suggesting that acoustic measurements of cyanobacteria are effective. The field survey provided us with a large number of data and allowed us to map the spatial distribution of cyanobacteria in the water body. The results suggest that cyanobacteria are propagated or transported by the water quality control facilities of the reservoir and the water environment. In particular, unlike natural environments, reservoirs are expected to undergo severe environmental changes due to artificial facilities such as water quality control measures, and it will be important to continue monitoring cyanobacteria on a detailed scale using acoustic techniques. Continued research in this area is anticipated to lead to more effective strategies for managing water bodies and mitigating cyanobacterial blooms.
{"title":"Assessing cyanobacterial spatial distribution in reservoirs using acoustic survey techniques for enhanced water quality management","authors":"Taisei Sugawara , Kenji Minami , Sangyeob Kim , Takashi Inagawa , Jiro Okitsu , Shougo Sakamoto , Tomonori Osugi , Nobuyuki Azuma , Yanhui Zhu , Kazushi Miyashita","doi":"10.1016/j.crmicr.2025.100477","DOIUrl":"10.1016/j.crmicr.2025.100477","url":null,"abstract":"<div><div>Increases in water temperature due to climate change are expected to lead to cyanobacterial blooms in various freshwater bodies, including reservoirs, posing a major challenge in terms of water quality management. Therefore, a detailed understanding of the dynamics of cyanobacteria in water bodies is required to increase our knowledge of cyanobacteria. In this study, we attempted to determine the spatial distribution of cyanobacteria in a water body by acoustic techniques, and to understand the distribution of cyanobacteria and how it is affected by the water environment. At the same time, the validity of acoustic measurements of cyanobacteria was verified. Comparison of the estimated abundance of cyanobacteria by acoustic measurements and the measured pigment values of cyanobacteria showed a positive correlation between them, suggesting that acoustic measurements of cyanobacteria are effective. The field survey provided us with a large number of data and allowed us to map the spatial distribution of cyanobacteria in the water body. The results suggest that cyanobacteria are propagated or transported by the water quality control facilities of the reservoir and the water environment. In particular, unlike natural environments, reservoirs are expected to undergo severe environmental changes due to artificial facilities such as water quality control measures, and it will be important to continue monitoring cyanobacteria on a detailed scale using acoustic techniques. Continued research in this area is anticipated to lead to more effective strategies for managing water bodies and mitigating cyanobacterial blooms.</div></div>","PeriodicalId":34305,"journal":{"name":"Current Research in Microbial Sciences","volume":"9 ","pages":"Article 100477"},"PeriodicalIF":5.8,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145219095","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
<div><div>This study aimed to evaluate the genomic characteristics of <em>Klebsiella</em> spp. from human, animal, and food sources, and to establish their clonal relationships with globally circulating sequence types (STs). Using both phenotypic and next-generation sequencing approaches, a total of 300 samples comprising food samples (<em>n</em> = 180) and human clinical samples (<em>n</em> = 120) were collected and analyzed. Of these, 45 <em>Klebsiella</em> spp. were isolated from human (<em>n</em> = 16), animal (<em>n</em> = 15), and food (<em>n</em> = 14) sources. <em>K. pneumoniae</em> was the predominant species (34/45; 75.5%), followed by <em>K. variicola</em> subsp<em>. variicola</em> (4/45; 8.8%), <em>K. quasipneumoniae</em> (3/45; 6.6%), <em>K. pneumoniae</em> subsp. <em>similipneumoniae</em> (2/45; 4.4%), <em>K. aerogenes</em> (1/45; 2.2%)<em>,</em> and <em>K. michiganensis</em> (1/45; 2.2%). Considering all the sources, 57.8 % of the isolates resulted in resistant to trimethoprim-sulfamethoxazole, while a lower percentage of strains showed resistance to aztreonam (17.8%), cefpodoxime (17.8%), cefotaxime (22.2%), ceftazidime (22.2%), ciprofloxacin (24.4%), colistin (15.6%), gentamicin (8.9%), levofloxacin (2.2%) and tobramycin (11.1%). In general, resistant strains were detected more frequently in samples of human and animal origin than in those of food origin. A total of 17 distinct STs were identified, including 9 novel STs. The fluoroquinolones resistance was mainly attributed to the presence of gene <em>qnrS1</em> (33%), while <em>strB</em> (22%), <em>strA</em> (17.7%), and <em>aac (6′)-Ibr-cr</em> (11.1%) for aminoglycoside. β-lactam resistance genes <em>bla</em><sub>CTX−</sub><sub>M</sub><em><sub>,</sub> bla</em><sub>SHV</sub>, <em>bla</em><sub>TEM</sub>, <em>bla</em><sub>OXA</sub>, and <em>bla</em><sub>OKP</sub>-<sub>B</sub> were considerably present in human (15/16; 93.7%) and animal (17/19; 89.5%) isolates. Among ESBL-encoding genes, <em>bla</em><sub>OXY-1</sub> (1/10; 10%) was exclusively found in food samples. The emergence of antibiotic-resistant and novel lineages of <em>Klebsiella</em> spp., with identical STs across human, animal, and food niches, indicates clonal expansion of high-risk strains. Surveillance and control of ESBL-producing <em>Enterobacteriaceae</em> using the One Health approach are urgently needed in Northern Nigeria.</div></div><div><h3>Importance</h3><div>. This study contributes to the understanding of the epidemiology of <em>Klebsiella</em> spp. in Nigeria. The study highlights that even in regions with relatively limited use of last resort antibiotics, high-risk global clones are circulating. These findings, aligned with the One Health approach, and emphasize the close interconnection between human, animal, and food sources, which facilitates the spread of common clones. Given the continuous emergence of new resistance mechanisms in <em>Klebsiella</em> spp., ongoing surveillance across Africa is war
{"title":"Antibiotic resistance and novel Sequence Types of Klebsiella spp. in human, animal, and food sources: a One Health perspective from Northern Nigeria","authors":"Ayodele Timilehin Adesoji , Vittoria Mattioni Marchetti , Claudia Cortimiglia , Francesca Piscopiello , Ilaria Petrizzi , Aurora Piazza , Emmanuel Dayo Alabi , Pier Sandro Cocconcelli , Roberta Migliavacca","doi":"10.1016/j.crmicr.2025.100458","DOIUrl":"10.1016/j.crmicr.2025.100458","url":null,"abstract":"<div><div>This study aimed to evaluate the genomic characteristics of <em>Klebsiella</em> spp. from human, animal, and food sources, and to establish their clonal relationships with globally circulating sequence types (STs). Using both phenotypic and next-generation sequencing approaches, a total of 300 samples comprising food samples (<em>n</em> = 180) and human clinical samples (<em>n</em> = 120) were collected and analyzed. Of these, 45 <em>Klebsiella</em> spp. were isolated from human (<em>n</em> = 16), animal (<em>n</em> = 15), and food (<em>n</em> = 14) sources. <em>K. pneumoniae</em> was the predominant species (34/45; 75.5%), followed by <em>K. variicola</em> subsp<em>. variicola</em> (4/45; 8.8%), <em>K. quasipneumoniae</em> (3/45; 6.6%), <em>K. pneumoniae</em> subsp. <em>similipneumoniae</em> (2/45; 4.4%), <em>K. aerogenes</em> (1/45; 2.2%)<em>,</em> and <em>K. michiganensis</em> (1/45; 2.2%). Considering all the sources, 57.8 % of the isolates resulted in resistant to trimethoprim-sulfamethoxazole, while a lower percentage of strains showed resistance to aztreonam (17.8%), cefpodoxime (17.8%), cefotaxime (22.2%), ceftazidime (22.2%), ciprofloxacin (24.4%), colistin (15.6%), gentamicin (8.9%), levofloxacin (2.2%) and tobramycin (11.1%). In general, resistant strains were detected more frequently in samples of human and animal origin than in those of food origin. A total of 17 distinct STs were identified, including 9 novel STs. The fluoroquinolones resistance was mainly attributed to the presence of gene <em>qnrS1</em> (33%), while <em>strB</em> (22%), <em>strA</em> (17.7%), and <em>aac (6′)-Ibr-cr</em> (11.1%) for aminoglycoside. β-lactam resistance genes <em>bla</em><sub>CTX−</sub><sub>M</sub><em><sub>,</sub> bla</em><sub>SHV</sub>, <em>bla</em><sub>TEM</sub>, <em>bla</em><sub>OXA</sub>, and <em>bla</em><sub>OKP</sub>-<sub>B</sub> were considerably present in human (15/16; 93.7%) and animal (17/19; 89.5%) isolates. Among ESBL-encoding genes, <em>bla</em><sub>OXY-1</sub> (1/10; 10%) was exclusively found in food samples. The emergence of antibiotic-resistant and novel lineages of <em>Klebsiella</em> spp., with identical STs across human, animal, and food niches, indicates clonal expansion of high-risk strains. Surveillance and control of ESBL-producing <em>Enterobacteriaceae</em> using the One Health approach are urgently needed in Northern Nigeria.</div></div><div><h3>Importance</h3><div>. This study contributes to the understanding of the epidemiology of <em>Klebsiella</em> spp. in Nigeria. The study highlights that even in regions with relatively limited use of last resort antibiotics, high-risk global clones are circulating. These findings, aligned with the One Health approach, and emphasize the close interconnection between human, animal, and food sources, which facilitates the spread of common clones. Given the continuous emergence of new resistance mechanisms in <em>Klebsiella</em> spp., ongoing surveillance across Africa is war","PeriodicalId":34305,"journal":{"name":"Current Research in Microbial Sciences","volume":"9 ","pages":"Article 100458"},"PeriodicalIF":5.8,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145018582","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-01-01DOI: 10.1016/j.crmicr.2025.100494
Yu-yan Tang , Dong-liang Zhang , Lu-sheng Huang , Ping Hu , Ping Liu, Jia-Jun Wu, Ting Xie, Wei-qian Sun, Xu-Dong XU, Mei-ping Jin , Hai-dong He
Introduction
IgA nephropathy (IgAN), the most prevalent primary glomerulonephritis subtype, affects many patients worldwide. To identify new therapeutic targets for IgAN, this study aimed to investigate the role and mechanisms of gut microbiota metabolites in mesangial cell proliferation.
Methods
Building on our prior finding of elevated serum sphingosine-1-phosphate (S1P) in IgAN patients versus healthy controls,we established complementary in vivo and in vitro models.Using humanized-gut microbiota mice and IgA1-stimulated mesangial cells, we examined S1P effects via receptor modulation and Chemokine ligand 2(CCL2)-Mesenchymal to epithelial transition factor(MET)-Focal Adhesion Kinase(FAK) pathway analysis, validated in renal biopsies.
Results
Treatment of human mesangial cells with aggregated IgA1 (aIgA1) successfully induced an IgAN phenotype, characterized by increased proliferation, reduced apoptosis, and significant intracellular IgA accumulation. This model demonstrated upregulated CCL2 expression, along with increased proportions of cells in S and G2 phases. Western blot analysis further revealed significant upregulation of MET, phosphorylated MET (Tyr1234/1235 and Tyr1349), Proliferating Cell Nuclear Antigen(PCNA), cyclin D1, S1PR1, and S1PR3 protein expression. Targeted intervention using CCL2 siRNA, the CCL2 inhibitor NOX-E36, and the MET inhibitor LY2801653 decreased IgA deposition, p-Met protein expression, and cell proliferation. Furthermore, S1P intervention in IgAN mesangial cell models significantly increased S1PR1, S1PR3, CCL2, and MET protein expression, promoting mesangial cell proliferation. Importantly, the CCL2-MET-FAK signaling pathway was activated in both the mice with an IgAN-like phenotype and IgAN patients.
Conclusions
Disruption of the gut microbiota in IgAN increases CCL2 expression in renal mesangial cells, driven by the metabolite S1P. This, activates the MET/FAK signaling pathway, promoting mesangial cell proliferation and contributing to IgAN progression.Our findings support targeting S1P as a therapeutic strategy for IgAN.
{"title":"Gut microbial metabolite, sphingosine-1-phosphate (S1P), drives mesangial cell phenotypic transformation and accelerates progression of IgA nephropathy via CCL2-MET-FAK pathway","authors":"Yu-yan Tang , Dong-liang Zhang , Lu-sheng Huang , Ping Hu , Ping Liu, Jia-Jun Wu, Ting Xie, Wei-qian Sun, Xu-Dong XU, Mei-ping Jin , Hai-dong He","doi":"10.1016/j.crmicr.2025.100494","DOIUrl":"10.1016/j.crmicr.2025.100494","url":null,"abstract":"<div><h3>Introduction</h3><div>IgA nephropathy (IgAN), the most prevalent primary glomerulonephritis subtype, affects many patients worldwide. To identify new therapeutic targets for IgAN, this study aimed to investigate the role and mechanisms of gut microbiota metabolites in mesangial cell proliferation.</div></div><div><h3>Methods</h3><div>Building on our prior finding of elevated serum sphingosine-1-phosphate (S1P) in IgAN patients versus healthy controls,we established complementary in vivo and in vitro models.Using humanized-gut microbiota mice and IgA1-stimulated mesangial cells, we examined S1P effects via receptor modulation and Chemokine ligand 2(CCL2)-Mesenchymal to epithelial transition factor(MET)-Focal Adhesion Kinase(FAK) pathway analysis, validated in renal biopsies.</div></div><div><h3>Results</h3><div>Treatment of human mesangial cells with aggregated IgA1 (aIgA1) successfully induced an IgAN phenotype, characterized by increased proliferation, reduced apoptosis, and significant intracellular IgA accumulation. This model demonstrated upregulated CCL2 expression, along with increased proportions of cells in S and G2 phases. Western blot analysis further revealed significant upregulation of MET, phosphorylated MET (Tyr1234/1235 and Tyr1349), Proliferating Cell Nuclear Antigen(PCNA), cyclin D1, S1PR1, and S1PR3 protein expression. Targeted intervention using CCL2 siRNA, the CCL2 inhibitor NOX-E36, and the MET inhibitor LY2801653 decreased IgA deposition, p-Met protein expression, and cell proliferation. Furthermore, S1P intervention in IgAN mesangial cell models significantly increased S1PR1, S1PR3, CCL2, and MET protein expression, promoting mesangial cell proliferation. Importantly, the CCL2-MET-FAK signaling pathway was activated in both the mice with an IgAN-like phenotype and IgAN patients.</div></div><div><h3>Conclusions</h3><div>Disruption of the gut microbiota in IgAN increases CCL2 expression in renal mesangial cells, driven by the metabolite S1P. This, activates the MET/FAK signaling pathway, promoting mesangial cell proliferation and contributing to IgAN progression.Our findings support targeting S1P as a therapeutic strategy for IgAN.</div></div>","PeriodicalId":34305,"journal":{"name":"Current Research in Microbial Sciences","volume":"9 ","pages":"Article 100494"},"PeriodicalIF":5.8,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145360997","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-01-01DOI: 10.1016/j.crmicr.2024.100297
Narpat Singh, Neha Chhangani, Sharad Bissa
Medicinal plants exhibited great role in drug industries. Herbal medicines and their derivative products are often prepared from crude plant extracts. Echinops echinatus and Tridax procumbens both are belonging to Asteraceae family and these plants are ethnomedicinally important due to their utilization as traditional medicine to cure various diseases. Aim of the current study is to evaluate the antimicrobial properties, preliminary phytochemical and GC-MS analysis of these ethnomedicinally important plants to identify the compounds which are responsible for antimicrobial properties. Their extracts exhibited antimicrobial activity against Enterobacter aerogenes, Escherichia coli, Agrobacterium tumefaciens, Staphylococcus aureus, Bacillus subtilis, Pseudomonas syringae and Pseudomonas putida. Both plants contain the active principles like flavonoids, alkaloids, glycosides, saponins, terpenoids and tannins. Result of GC-MS analysis showed the presence of many compounds such as n-Hexadecanoic acid, Hexadecanoic Acid, Methyl ester, Octadecanoic acid, Stigmasterol, Naphthalene, Squalene, 4H-Pyran-4-one, 2,3-dihydro-3,5-dihydroxy-6-methyl-, Squalene, 4H-Pyran-4-one, 2,3-dihydro-3,5-dihydroxy-6-methyl-,5 Hydroxymethylfurfural, Lupeol, Dodecanoic acid, Vitamin E (α-Tocopherol), Neophytadiene, Phytol and many other compounds. These compounds are responsible for antimicrobial, anticancer and medicinal properties.
{"title":"Antibacterial potential and phytochemical analysis of two ethnomedicinally important plants","authors":"Narpat Singh, Neha Chhangani, Sharad Bissa","doi":"10.1016/j.crmicr.2024.100297","DOIUrl":"10.1016/j.crmicr.2024.100297","url":null,"abstract":"<div><div>Medicinal plants exhibited great role in drug industries. Herbal medicines and their derivative products are often prepared from crude plant extracts. <em>Echinops echinatus</em> and <em>Tridax procumbens</em> both are belonging to Asteraceae family and these plants are ethnomedicinally important due to their utilization as traditional medicine to cure various diseases. Aim of the current study is to evaluate the antimicrobial properties, preliminary phytochemical and GC-MS analysis of these ethnomedicinally important plants to identify the compounds which are responsible for antimicrobial properties. Their extracts exhibited antimicrobial activity against <em>Enterobacter aerogenes, Escherichia coli, Agrobacterium tumefaciens, Staphylococcus aureus, Bacillus subtilis, Pseudomonas syringae</em> and <em>Pseudomonas putida</em>. Both plants contain the active principles like flavonoids, alkaloids, glycosides, saponins, terpenoids and tannins. Result of GC-MS analysis showed the presence of many compounds such as n-Hexadecanoic acid, Hexadecanoic Acid, Methyl ester, Octadecanoic acid, Stigmasterol, Naphthalene, Squalene, 4H-Pyran-4-one, 2,3-dihydro-3,5-dihydroxy-6-methyl-, Squalene, 4H-Pyran-4-one, 2,3-dihydro-3,5-dihydroxy-6-methyl-,5 Hydroxymethylfurfural, Lupeol, Dodecanoic acid, Vitamin E (α-Tocopherol), Neophytadiene, Phytol and many other compounds. These compounds are responsible for antimicrobial, anticancer and medicinal properties.</div></div>","PeriodicalId":34305,"journal":{"name":"Current Research in Microbial Sciences","volume":"8 ","pages":"Article 100297"},"PeriodicalIF":4.8,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11681831/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142903720","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-01-01DOI: 10.1016/j.crmicr.2025.100342
Sebastian Theobald , Tammi Vesth , Jane L. Nybo , Jens C. Frisvad , Inge Kjærbølling , Stephen Mondo , Kurt LaButti , Sajeet Haridas , Robert Riley , Alan A. Kuo , Asaf A. Salamov , Jasmyn Pangilinan , Anna Lipzen , Maxim Koriabine , Mi Yan , Kerrie Barry , Alicia Clum , Ellen K. Lyhne , Elodie Drula , Ad Wiebenga , Mikael R. Andersen
Aspergillus nidulans is an important model organism for eukaryotic biology and the reference for the section Nidulantes in comparative studies. In this study, we de novo sequenced the genomes of 25 species of this section. Whole-genome phylogeny of 34 Aspergillus species and Penicillium chrysogenum clarifies the position of clades inside section Nidulantes. Comparative genomics reveals a high genetic diversity between species with 684 up to 2433 unique protein families. Furthermore, we categorized 2118 secondary metabolite gene clusters (SMGC) into 603 families across Aspergilli, with at least 40 % of the families shared between Nidulantes species. Genetic dereplication of SMGC and subsequent synteny analysis provides evidence for horizontal gene transfer of a SMGC. Proteins that have been investigated in A. nidulans as well as its SMGC families are generally present in the section Nidulantes, supporting its role as model organism. The set of genes encoding plant biomass-related CAZymes is highly conserved in section Nidulantes, while there is remarkable diversity of organization of MAT-loci both within and between the different clades. This study provides a deeper understanding of the genomic conservation and diversity of this section and supports the position of A. nidulans as a reference species for cell biology.
{"title":"Comparative genomics of Aspergillus nidulans and section Nidulantes","authors":"Sebastian Theobald , Tammi Vesth , Jane L. Nybo , Jens C. Frisvad , Inge Kjærbølling , Stephen Mondo , Kurt LaButti , Sajeet Haridas , Robert Riley , Alan A. Kuo , Asaf A. Salamov , Jasmyn Pangilinan , Anna Lipzen , Maxim Koriabine , Mi Yan , Kerrie Barry , Alicia Clum , Ellen K. Lyhne , Elodie Drula , Ad Wiebenga , Mikael R. Andersen","doi":"10.1016/j.crmicr.2025.100342","DOIUrl":"10.1016/j.crmicr.2025.100342","url":null,"abstract":"<div><div><em>Aspergillus nidulans</em> is an important model organism for eukaryotic biology and the reference for the section <em>Nidulantes</em> in comparative studies. In this study, we <em>de novo</em> sequenced the genomes of 25 species of this section. Whole-genome phylogeny of 34 <em>Aspergillus</em> species and <em>Penicillium chrysogenum</em> clarifies the position of clades inside section <em>Nidulantes</em>. Comparative genomics reveals a high genetic diversity between species with 684 up to 2433 unique protein families. Furthermore, we categorized 2118 secondary metabolite gene clusters (SMGC) into 603 families across Aspergilli, with at least 40 % of the families shared between <em>Nidulantes</em> species. Genetic dereplication of SMGC and subsequent synteny analysis provides evidence for horizontal gene transfer of a SMGC. Proteins that have been investigated in <em>A. nidulans</em> as well as its SMGC families are generally present in the section <em>Nidulantes</em>, supporting its role as model organism. The set of genes encoding plant biomass-related CAZymes is highly conserved in section <em>Nidulantes</em>, while there is remarkable diversity of organization of MAT-<em>loci</em> both within and between the different clades. This study provides a deeper understanding of the genomic conservation and diversity of this section and supports the position of <em>A. nidulans</em> as a reference species for cell biology.</div></div>","PeriodicalId":34305,"journal":{"name":"Current Research in Microbial Sciences","volume":"8 ","pages":"Article 100342"},"PeriodicalIF":4.8,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11787670/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143081425","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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