Microbiological research最新文献_第9页

Novel plant-derived compounds modulate gut microbiome dysbiosis in colitis mice: A potential therapeutic avenue for inflammatory bowel disease 新型植物源化合物调节结肠炎小鼠肠道微生物群失调：炎症性肠病的潜在治疗途径

IF 6.9 1区生物学 Q1 MICROBIOLOGY

Microbiological research

Pub Date : 2025-09-16 DOI: 10.1016/j.micres.2025.128343

Md. Mizanur Rahaman , Karma Yeshi , Mehedi Hasan Bappi , Md. Zohorul Islam , Phurpa Wangchuk , Subir Sarker

Inflammatory bowel disease (IBD) is a chronic, multifactorial disorder of the gastrointestinal tract, often associated with dysbiosis in gut microbiota. While the exact cause of IBD remains unclear, alterations in gut microbiome composition and function are recognised as key contributors to IBD pathogenesis. Natural compounds with anti-inflammatory properties are increasingly explored as potential therapeutic options for IBD. This study evaluated the therapeutic effects of two newly isolated galloyl glucosides—galloyl-lawsoniaside A (comp-4) and uromyrtoside (comp-6)—alongside dexamethasone (DEX) on microbiome regulation in a 2, 4, 6-Trinitrobenzene sulfonic acid (TNBS)-induced colitis mouse model. We employed PacBio HiFi full-length 16S rRNA gene sequencing on mouse colon tissue to assess changes in the intestinal microbiome and its associated functional pathways. TNBS-induced colitis significantly altered microbial composition, increasing the abundance of Acutalibacter muris, Monoglobus pectinilyticus, Streptococcus pneumoniae, Parabacteroides merdae, and Haemophilus influenzae, while decreasing Staphylococcus ureilyticus and Mailhella massiliensis. Treatment with comps 4 and 6 effectively restored the imbalanced microbiota. Functional pathway analysis revealed that colitis reduced microbial pathways, including peptidoglycan biosynthesis and the Bifidobacterium shunt. These disruptions were restored following treatment with our plant-derived compounds. Functional improvements were likely associated with reduced IL-6 production and restoring intestinal barrier integrity. Notably, comp-4 exhibited the most pronounced therapeutic efficacy across both microbial and host-associated parameters. In silico docking further supported the anti-inflammatory and immunomodulatory potential of these compounds. Together, our findings highlight the interplay between microbial function and host immunity in IBD and identify plant-derived galloyl glucosides as promising candidates for microbiome-targeted IBD therapeutics.

炎症性肠病（IBD）是一种慢性、多因素的胃肠道疾病，通常与肠道微生物群的生态失调有关。虽然IBD的确切病因尚不清楚，但肠道微生物组组成和功能的改变被认为是IBD发病的关键因素。具有抗炎特性的天然化合物越来越多地被探索作为IBD的潜在治疗选择。本研究在2,4,6 -三硝基苯磺酸（TNBS）诱导的小鼠结肠炎模型中，评估了两种新分离的没食子酰葡萄糖苷——没食子酰lawsoniside A （comp-4）和尿myrtoside （comp-6）与地塞米松（DEX）一起对微生物组的调节作用。我们对小鼠结肠组织采用PacBio HiFi全长度16S rRNA基因测序来评估肠道微生物组及其相关功能通路的变化。tnbs诱导的结肠炎显著改变了微生物组成，增加了死亡针状杆菌、果胶单胞杆菌、肺炎链球菌、merdae副杆菌和流感嗜血杆菌的丰度，同时减少了尿毒葡萄球菌和马塞勒麦氏杆菌的丰度。对照4和对照6有效地恢复了不平衡的菌群。功能通路分析显示，结肠炎减少了微生物通路，包括肽聚糖生物合成和双歧杆菌分流。用我们的植物源性化合物处理后，这些破坏得以恢复。功能改善可能与减少IL-6产生和恢复肠屏障完整性有关。值得注意的是，comp-4在微生物和宿主相关参数中都表现出最显著的治疗效果。硅对接进一步支持了这些化合物的抗炎和免疫调节潜力。总之，我们的研究结果强调了IBD中微生物功能和宿主免疫之间的相互作用，并确定了植物来源的没食子酰糖苷是微生物组靶向IBD治疗的有希望的候选者。

{"title":"Novel plant-derived compounds modulate gut microbiome dysbiosis in colitis mice: A potential therapeutic avenue for inflammatory bowel disease","authors":"Md. Mizanur Rahaman , Karma Yeshi , Mehedi Hasan Bappi , Md. Zohorul Islam , Phurpa Wangchuk , Subir Sarker","doi":"10.1016/j.micres.2025.128343","DOIUrl":"10.1016/j.micres.2025.128343","url":null,"abstract":"<div><div>Inflammatory bowel disease (IBD) is a chronic, multifactorial disorder of the gastrointestinal tract, often associated with dysbiosis in gut microbiota. While the exact cause of IBD remains unclear, alterations in gut microbiome composition and function are recognised as key contributors to IBD pathogenesis. Natural compounds with anti-inflammatory properties are increasingly explored as potential therapeutic options for IBD. This study evaluated the therapeutic effects of two newly isolated galloyl glucosides—galloyl-lawsoniaside A (comp-4) and uromyrtoside (comp-6)—alongside dexamethasone (DEX) on microbiome regulation in a 2, 4, 6-Trinitrobenzene sulfonic acid (TNBS)-induced colitis mouse model. We employed PacBio HiFi full-length 16S rRNA gene sequencing on mouse colon tissue to assess changes in the intestinal microbiome and its associated functional pathways. TNBS-induced colitis significantly altered microbial composition, increasing the abundance of <em>Acutalibacter muris</em>, <em>Monoglobus pectinilyticus</em>, <em>Streptococcus pneumoniae</em>, <em>Parabacteroides merdae</em>, and <em>Haemophilus influenzae</em>, while decreasing <em>Staphylococcus ureilyticus</em> and <em>Mailhella massiliensis</em>. Treatment with comps 4 and 6 effectively restored the imbalanced microbiota. Functional pathway analysis revealed that colitis reduced microbial pathways, including peptidoglycan biosynthesis and the Bifidobacterium shunt. These disruptions were restored following treatment with our plant-derived compounds. Functional improvements were likely associated with reduced IL-6 production and restoring intestinal barrier integrity. Notably, comp-4 exhibited the most pronounced therapeutic efficacy across both microbial and host-associated parameters. <em>In silico</em> docking further supported the anti-inflammatory and immunomodulatory potential of these compounds. Together, our findings highlight the interplay between microbial function and host immunity in IBD and identify plant-derived galloyl glucosides as promising candidates for microbiome-targeted IBD therapeutics.</div></div>","PeriodicalId":18564,"journal":{"name":"Microbiological research","volume":"302 ","pages":"Article 128343"},"PeriodicalIF":6.9,"publicationDate":"2025-09-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145099372","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Faecalibacterium prausnitzii suppresses ovarian cancer by inducing ferroptosis via phenylalanine metabolism activation prausnitzii粪杆菌通过苯丙氨酸代谢激活诱导铁下垂抑制卵巢癌

IF 6.9 1区生物学 Q1 MICROBIOLOGY

Microbiological research

Pub Date : 2025-09-14 DOI: 10.1016/j.micres.2025.128342

Kaiyue Ding , Yuexue Huo , Kangzhe Fu , Yingting Chen , Lunyue Xia , Junhao Zhan , Jiahua Liu , Jiayu Liu , Yudi Liu , Mingyang Zhang , Xingchen Wu , HyokChol Choe , Danping Zhao , Junnan Ma , Chunmei Dai , Zhenlong Yu , Yulin Peng , Xiaochi Ma , Lin Zhang

Ovarian cancer (OC) is a highly lethal gynecologic malignancy characterized by limited availability of treatment options and frequent recurrence. The gut microbiota has emerged as a key regulator of tumor progression; however, the anticancer potential of individual probiotic species remains insufficiently characterized and warrants further investigation. Ferroptosis is a regulated iron-dependent cell death with therapeutic potential in cancer. In this study, we initially observed that the traditional herbal pair, Scutellaria barbata D. Don (SB) and Scleromitrion diffusum (Wild) R.J. Wang (SD) exerted antitumor effects in a mouse model of OC, which was accompanied by a marked increase in the abundance of Faecalibacterium prausnitzii (F.prausnitzii) — a beneficial commensal bacterium not previously associated with cancer or ferroptosis. This observation prompted us to explore the functional role of F.prausnitzii in OC and revealed that it significantly suppressed ovarian tumor growth both in vitro and in vivo. Mechanistically, F.prausnitzii treatment elevated Fe²⁺ levels, increased lipid peroxidation, and depleted glutathione (GSH), which are hallmarks of ferroptosis. Transcriptomic analysis of tumor tissues from F.prausnitzii-treated mice identified ferroptosis and metal ion homeostasis pathways as major regulatory networks. Furthermore, metabolomic profiling revealed the activation of phenylalanine metabolism and increased production of phenylacetylglutamine (PAGln), suggesting a microbiota-metabolite axis contributing to ferroptosis induction. Our findings reveal that F.prausnitzii represents a novel ferroptosis-inducing probiotic with potent antitumor activity in OC. This study reveals a previously unrecognized role for this gut commensal and provides a mechanistic basis for the development of microbiota-based, ferroptosis-targeted therapeutic strategies in oncology.

卵巢癌（OC）是一种高度致命的妇科恶性肿瘤，其特点是治疗选择有限，复发频繁。肠道微生物群已成为肿瘤进展的关键调节因子；然而，单个益生菌物种的抗癌潜力仍然不够充分，需要进一步研究。铁下垂是一种受调节的铁依赖性细胞死亡，具有治疗癌症的潜力。在这项研究中，我们最初观察到传统的草药对，黄芩（Scutellaria barbata D. Don， SB）和弥漫性白僵菌（scleroomitrion diffusum, Wild） R.J. Wang （SD）在OC小鼠模型中发挥抗肿瘤作用，同时伴随着Faecalibacterium prausnitzii （f.p prausnitzii）丰度的显著增加，Faecalibacterium prausnitzii是一种有益的共生细菌，以前与癌症或铁中毒无关。这一观察结果促使我们探索F.prausnitzii在卵巢癌中的功能作用，并发现其在体外和体内均能显著抑制卵巢肿瘤的生长。在机制上，F.prausnitzii处理升高了Fe 2 +水平，增加了脂质过氧化和谷胱甘肽（GSH）的消耗，这些都是铁死亡的标志。通过对prausnitzii治疗小鼠肿瘤组织的转录组学分析，发现铁凋亡和金属离子稳态通路是主要的调控网络。此外，代谢组学分析显示苯丙氨酸代谢的激活和苯乙酰谷氨酰胺（PAGln）的产生增加，表明微生物代谢轴有助于诱导铁下垂。我们的研究结果表明，F.prausnitzii是一种新的诱导铁中毒的益生菌，在OC中具有很强的抗肿瘤活性。这项研究揭示了这种肠道共生体以前未被认识到的作用，并为开发基于微生物群的肿瘤中以铁中毒为目标的治疗策略提供了机制基础。

{"title":"Faecalibacterium prausnitzii suppresses ovarian cancer by inducing ferroptosis via phenylalanine metabolism activation","authors":"Kaiyue Ding , Yuexue Huo , Kangzhe Fu , Yingting Chen , Lunyue Xia , Junhao Zhan , Jiahua Liu , Jiayu Liu , Yudi Liu , Mingyang Zhang , Xingchen Wu , HyokChol Choe , Danping Zhao , Junnan Ma , Chunmei Dai , Zhenlong Yu , Yulin Peng , Xiaochi Ma , Lin Zhang","doi":"10.1016/j.micres.2025.128342","DOIUrl":"10.1016/j.micres.2025.128342","url":null,"abstract":"<div><div>Ovarian cancer (OC) is a highly lethal gynecologic malignancy characterized by limited availability of treatment options and frequent recurrence. The gut microbiota has emerged as a key regulator of tumor progression; however, the anticancer potential of individual probiotic species remains insufficiently characterized and warrants further investigation. Ferroptosis is a regulated iron-dependent cell death with therapeutic potential in cancer. In this study, we initially observed that the traditional herbal pair, <em>Scutellaria barbata</em> D. Don (SB) and <em>Scleromitrion diffusum</em> (Wild) R.J. Wang (SD) exerted antitumor effects in a mouse model of OC, which was accompanied by a marked increase in the abundance of <em>Faecalibacterium prausnitzii</em> (<em>F.prausnitzii</em>) — a beneficial commensal bacterium not previously associated with cancer or ferroptosis. This observation prompted us to explore the functional role of <em>F.prausnitzii</em> in OC and revealed that it significantly suppressed ovarian tumor growth both <em>in vitro</em> and <em>in vivo</em>. Mechanistically, <em>F.prausnitzii</em> treatment elevated Fe²⁺ levels, increased lipid peroxidation, and depleted glutathione (GSH), which are hallmarks of ferroptosis. Transcriptomic analysis of tumor tissues from <em>F.prausnitzii</em>-treated mice identified ferroptosis and metal ion homeostasis pathways as major regulatory networks. Furthermore, metabolomic profiling revealed the activation of phenylalanine metabolism and increased production of phenylacetylglutamine (PAGln), suggesting a microbiota-metabolite axis contributing to ferroptosis induction. Our findings reveal that <em>F.prausnitzii</em> represents a novel ferroptosis-inducing probiotic with potent antitumor activity in OC. This study reveals a previously unrecognized role for this gut commensal and provides a mechanistic basis for the development of microbiota-based, ferroptosis-targeted therapeutic strategies in oncology.</div></div>","PeriodicalId":18564,"journal":{"name":"Microbiological research","volume":"304 ","pages":"Article 128342"},"PeriodicalIF":6.9,"publicationDate":"2025-09-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145616568","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

LicD-mediated cell wall decoration governs phage sensitivity in Enterococcus faecalis clinical isolates licd介导的细胞壁装饰支配着粪肠球菌临床分离株的噬菌体敏感性。

IF 6.9 1区生物学 Q1 MICROBIOLOGY

Microbiological research

Pub Date : 2025-09-12 DOI: 10.1016/j.micres.2025.128341

Muhammed Awad , George Bouras , Sholeh Feizi , Susanna R. Grigson , Peter-John Wormald , Alkis J. Psaltis , Sarah Vreugde

Enterococcus faecalis has emerged as a prevalent antibiotic-resistant pathogen in clinical settings. Herein, we report the identification of three novel lytic phages targeting vancomycin-resistant E. faecalis. While the isolated phages all belonged to the Kochikohdavirus genus, there were distinctive differences in their tail fibre proteins, affecting their adsorption. The phages showed strong antibacterial activity with wide host range, infecting > 90 % of the tested E. faecalis clinical and hospital wastewater isolates (n = 13) with variable efficiency. The variation in host range was genomically correlated to the presence of the licD gene in phage sensitive bacteria, which is responsible for phosphorylcholine decoration of the bacterial cell wall. Furthermore, the isolated phages were predicted to harbour genes encoding for depolymerase enzymes, which was confirmed by in vitro testing showing a > 80 % reduction in biofilm biomass. Phages inhibited bacterial growth for ≥ 12 h, followed by the emergence of bacteriophage insensitive mutants (BIMs) that were 4-fold more sensitive to vancomycin compared to parent strains. In addition, the isolated BIMs showed less capability of evading THP-1 macrophage and produced weaker biofilms. These findings underpin the potential of the isolated phages in combating recalcitrant E. faecalis associated biofilm-mediated infections.

粪肠球菌已成为一种普遍的抗生素耐药病原体在临床设置。在此，我们报道了三种针对万古霉素耐药粪肠杆菌的新型裂解噬菌体的鉴定。虽然分离的噬菌体都属于Kochikohdavirus属，但它们的尾部纤维蛋白存在显著差异，影响了它们的吸附。噬菌体表现出较强的抗菌活性，宿主范围广，对> 90 %的临床和医院废水分离株（n = 13）有不同的感染效率。宿主范围的变化与噬菌体敏感菌中licD基因的存在相关，该基因负责细菌细胞壁的磷胆碱装饰。此外，预计分离的噬菌体含有编码解聚合酶的基因，体外测试证实了这一点，表明生物膜生物量减少了> 80 %。噬菌体抑制细菌生长≥ 12 h，随后出现噬菌体不敏感突变体（BIMs），其对万古霉素的敏感性比亲本菌株高4倍。此外，分离的bim对THP-1巨噬细胞的逃避能力较差，产生的生物膜较弱。这些发现支持了分离噬菌体在对抗难治性粪肠球菌相关生物膜介导感染方面的潜力。

{"title":"LicD-mediated cell wall decoration governs phage sensitivity in Enterococcus faecalis clinical isolates","authors":"Muhammed Awad , George Bouras , Sholeh Feizi , Susanna R. Grigson , Peter-John Wormald , Alkis J. Psaltis , Sarah Vreugde","doi":"10.1016/j.micres.2025.128341","DOIUrl":"10.1016/j.micres.2025.128341","url":null,"abstract":"<div><div><em>Enterococcus faecalis</em> has emerged as a prevalent antibiotic-resistant pathogen in clinical settings. Herein, we report the identification of three novel lytic phages targeting vancomycin-resistant <em>E. faecalis</em>. While the isolated phages all belonged to the <em>Kochikohdavirus</em> genus, there were distinctive differences in their tail fibre proteins, affecting their adsorption. The phages showed strong antibacterial activity with wide host range, infecting > 90 % of the tested <em>E. faecalis</em> clinical and hospital wastewater isolates (n = 13) with variable efficiency. The variation in host range was genomically correlated to the presence of the <em>licD</em> gene in phage sensitive bacteria, which is responsible for phosphorylcholine decoration of the bacterial cell wall. Furthermore<em>,</em> the isolated phages were predicted to harbour genes encoding for depolymerase enzymes, which was confirmed by <em>in vitro</em> testing showing a > 80 % reduction in biofilm biomass. Phages inhibited bacterial growth for ≥ 12 h, followed by the emergence of bacteriophage insensitive mutants (BIMs) that were 4-fold more sensitive to vancomycin compared to parent strains. In addition, the isolated BIMs showed less capability of evading THP-1 macrophage and produced weaker biofilms. These findings underpin the potential of the isolated phages in combating recalcitrant <em>E. faecalis</em> associated biofilm-mediated infections.</div></div>","PeriodicalId":18564,"journal":{"name":"Microbiological research","volume":"302 ","pages":"Article 128341"},"PeriodicalIF":6.9,"publicationDate":"2025-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145075702","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Dual roles of MWCNTs on plant growth and remediation efficiency during PGPR-assisted phytoremediation of Cd-Ni contaminated soil 在pgpr辅助镉镍污染土壤的植物修复中，MWCNTs对植物生长和修复效率的双重作用

IF 6.9 1区生物学 Q1 MICROBIOLOGY

Microbiological research

Pub Date : 2025-09-10 DOI: 10.1016/j.micres.2025.128339

Wenqing Zhou, Xiaoxian Cai, Ke Chen, Lixue Zheng, Huijun Guan, Tianlong Hao, Jingjing Yang, Lihua Qi, Chunfeng Guan

As the main elements causing soil heavy metals (HMs) pollution, cadmium (Cd) and nickel (Ni) can cause irreversible harm to crops and ecosystems. Currently, research on plant growth-promoting rhizobacteria (PGPR)-assisted phytoremediation techniques for contaminated soil has received more attention. Meanwhile, multi-walled carbon nanotubes (MWCNTs) have also been explored for HMs pollution remediation in recent years due to their high specific surface area and strong adsorption. MWCNTs might improve phytoremediation efficiency of HMs-contaminated soil by directly immobilizing HMs and indirectly promoting plant growth, but less research has been devoted to the possible dual-enhancing roles of MWCNTs in PGPR-assisted phytoremediation process. Therefore, this study innovatively investigated the potential role of MWCNTs application in PGPR-assisted phytoremediation with Cd-Ni contaminated soil by rice. The results indicated that the presence of MWCNTs further improved the remediation efficiency of PGPR in assisting phytoremediation, reducing soil Cd^2 + and Ni²⁺ contents by 20.4 % and 13.7 %, respectively, superior to strain BT treatment individually. Scanning electron microscopy micrographs demonstrated that PGPR could attach to MWCNTs surface and be immobilized in MWCNTs. Meanwhile, MWCNTs application in PGPR-assisted phytoremediation could enhance rice survival under Cd and Ni stresses by stimulating antioxidant system and regulating Na⁺/K⁺ level in rice. Moreover, the increase in soil enzyme activities and relative abundance of beneficial microorganisms accelerated nitrogen and phosphorus nutrient cycling in the soil. In conclusion, MWCNTs might be used as adsorbent materials to directly immobilize Cd²⁺ and Ni²⁺ in soil, and also synergized with rice or PGPR to indirectly improve the phytoremediation efficiency of HMs.

镉（Cd）和镍（Ni）是造成土壤重金属污染的主要元素，对作物和生态系统造成不可逆转的危害。目前，植物促生根瘤菌（PGPR）辅助植物修复污染土壤的技术研究越来越受到重视。同时，近年来，多壁碳纳米管（MWCNTs）因其高比表面积和强吸附性也被探索用于HMs污染修复。MWCNTs可能通过直接固定HMs和间接促进植物生长来提高HMs污染土壤的植物修复效率，但关于MWCNTs在pgpr辅助植物修复过程中可能的双重增强作用的研究较少。因此，本研究创新性地探讨了MWCNTs在水稻镉镍污染土壤的pgpr辅助植物修复中的潜在作用。结果表明，MWCNTs的存在进一步提高了PGPR协助植物修复的修复效率，使土壤Cd2 +和Ni2+含量分别降低20.4 %和13.7 %，优于菌株BT单独处理。扫描电镜结果表明，PGPR可以附着在MWCNTs表面并固定在MWCNTs中。同时，在pgpr辅助植物修复中应用MWCNTs可通过刺激抗氧化系统和调节水稻Na+/K+水平，提高水稻在Cd和Ni胁迫下的存活率。此外，土壤酶活性和有益微生物相对丰度的增加加速了土壤氮磷养分循环。综上所述，MWCNTs可作为吸附材料直接固定土壤中的Cd2+和Ni2+，也可与水稻或PGPR协同作用，间接提高HMs的植物修复效率。

{"title":"Dual roles of MWCNTs on plant growth and remediation efficiency during PGPR-assisted phytoremediation of Cd-Ni contaminated soil","authors":"Wenqing Zhou, Xiaoxian Cai, Ke Chen, Lixue Zheng, Huijun Guan, Tianlong Hao, Jingjing Yang, Lihua Qi, Chunfeng Guan","doi":"10.1016/j.micres.2025.128339","DOIUrl":"10.1016/j.micres.2025.128339","url":null,"abstract":"<div><div>As the main elements causing soil heavy metals (HMs) pollution, cadmium (Cd) and nickel (Ni) can cause irreversible harm to crops and ecosystems. Currently, research on plant growth-promoting rhizobacteria (PGPR)-assisted phytoremediation techniques for contaminated soil has received more attention. Meanwhile, multi-walled carbon nanotubes (MWCNTs) have also been explored for HMs pollution remediation in recent years due to their high specific surface area and strong adsorption. MWCNTs might improve phytoremediation efficiency of HMs-contaminated soil by directly immobilizing HMs and indirectly promoting plant growth, but less research has been devoted to the possible dual-enhancing roles of MWCNTs in PGPR-assisted phytoremediation process. Therefore, this study innovatively investigated the potential role of MWCNTs application in PGPR-assisted phytoremediation with Cd-Ni contaminated soil by rice. The results indicated that the presence of MWCNTs further improved the remediation efficiency of PGPR in assisting phytoremediation, reducing soil Cd<sup>2 +</sup> and Ni<sup>2+</sup> contents by 20.4 % and 13.7 %, respectively, superior to strain BT treatment individually. Scanning electron microscopy micrographs demonstrated that PGPR could attach to MWCNTs surface and be immobilized in MWCNTs. Meanwhile, MWCNTs application in PGPR-assisted phytoremediation could enhance rice survival under Cd and Ni stresses by stimulating antioxidant system and regulating Na<sup>+</sup>/K<sup>+</sup> level in rice. Moreover, the increase in soil enzyme activities and relative abundance of beneficial microorganisms accelerated nitrogen and phosphorus nutrient cycling in the soil. In conclusion, MWCNTs might be used as adsorbent materials to directly immobilize Cd<sup>2+</sup> and Ni<sup>2+</sup> in soil, and also synergized with rice or PGPR to indirectly improve the phytoremediation efficiency of HMs.</div></div>","PeriodicalId":18564,"journal":{"name":"Microbiological research","volume":"302 ","pages":"Article 128339"},"PeriodicalIF":6.9,"publicationDate":"2025-09-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145045477","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Multiple catabolism contributes to biodegradation of phthalate-based plasticizers in Acinetobacter baumannii 多重分解代谢有助于鲍曼不动杆菌中邻苯二甲酸酯类增塑剂的生物降解

IF 6.9 1区生物学 Q1 MICROBIOLOGY

Microbiological research

Pub Date : 2025-09-10 DOI: 10.1016/j.micres.2025.128338

Yapeng Li , Huixin Fan , Boqiao Li , Xiaobo Liu

Phthalates (PAEs) have been widely used as plasticizers in the production of plastics. Unfortunately, PAEs released into the environment during plastic aging pose a threat to human life and health. Although microbial biodegradation of PAEs has proven to be an emerging bioremediation approach to modern plastic pollution, the microbial catabolism of PAEs remains elusive. Here, we isolate a PAE-degrading bacterium (identified as Acinetobacter baumannii EMB-1) from crude oil wastewater using Di-n-octylo-phthalate (DnOP) as the sole carbon source and unravel the PAE degradation pathway through a multi-omics approach. We observe that A. baumannii EMB-1 grows well both at low (2–5 g/L) and high (20–50 g/L) concentrations of DnOP but cannot grow on glucose due to a lack of hexokinase. The multi-omics analyses reveal that A. baumannii EMB-1 employs multiple catabolic pathways, including phenylacetic acid degradation, protocatechuic acid (PCA) degradation, and benzoate degradation, which synergistically degrade DnOP. Interestingly, phenylacetate and benzoate catabolism is directly linked to the tricarboxylic acid cycle, whereas partial PCA degradation is used to generate substrates for synthesizing aromatic amino acids. Our findings advance the understanding of microbial PAE catabolism and expand microbial resources that could benefit biological upcycling and bioremediation of recalcitrant phthalate-based plasticizers.

邻苯二甲酸酯（PAEs）在塑料生产中作为增塑剂被广泛使用。不幸的是，塑料老化过程中释放到环境中的PAEs对人类的生命和健康构成了威胁。尽管微生物生物降解PAEs已被证明是现代塑料污染的一种新兴生物修复方法，但PAEs的微生物分解代谢仍然难以捉摸。本研究以邻苯二甲酸二辛酯（DnOP）为唯一碳源，从原油废水中分离出一种PAE降解细菌（鉴定为鲍曼不动杆菌EMB-1），并通过多组学方法揭示了PAE降解途径。我们观察到鲍曼不动杆菌EMB-1在低（2-5 g/L）和高（20-50 g/L）浓度的DnOP下都能生长良好，但由于缺乏己糖激酶而不能在葡萄糖上生长。多组学分析表明，鲍曼不动杆菌EMB-1具有多种分解代谢途径，包括苯乙酸降解、原儿茶酸（PCA）降解和苯甲酸酯降解，协同降解DnOP。有趣的是，苯乙酸酯和苯甲酸酯的分解代谢与三羧酸循环直接相关，而部分PCA降解用于生成合成芳香氨基酸的底物。我们的研究结果促进了对微生物PAE分解代谢的理解，并扩大了微生物资源，可以促进顽固的邻苯二甲酸酯类增塑剂的生物升级循环和生物修复。

{"title":"Multiple catabolism contributes to biodegradation of phthalate-based plasticizers in Acinetobacter baumannii","authors":"Yapeng Li , Huixin Fan , Boqiao Li , Xiaobo Liu","doi":"10.1016/j.micres.2025.128338","DOIUrl":"10.1016/j.micres.2025.128338","url":null,"abstract":"<div><div>Phthalates (PAEs) have been widely used as plasticizers in the production of plastics. Unfortunately, PAEs released into the environment during plastic aging pose a threat to human life and health. Although microbial biodegradation of PAEs has proven to be an emerging bioremediation approach to modern plastic pollution, the microbial catabolism of PAEs remains elusive. Here, we isolate a PAE-degrading bacterium (identified as <em>Acinetobacter baumannii</em> EMB-1) from crude oil wastewater using Di-n-octylo-phthalate (DnOP) as the sole carbon source and unravel the PAE degradation pathway through a multi-omics approach. We observe that <em>A. baumannii</em> EMB-1 grows well both at low (2–5 g/L) and high (20–50 g/L) concentrations of DnOP but cannot grow on glucose due to a lack of hexokinase. The multi-omics analyses reveal that <em>A. baumannii</em> EMB-1 employs multiple catabolic pathways, including phenylacetic acid degradation, protocatechuic acid (PCA) degradation, and benzoate degradation, which synergistically degrade DnOP. Interestingly, phenylacetate and benzoate catabolism is directly linked to the tricarboxylic acid cycle, whereas partial PCA degradation is used to generate substrates for synthesizing aromatic amino acids. Our findings advance the understanding of microbial PAE catabolism and expand microbial resources that could benefit biological upcycling and bioremediation of recalcitrant phthalate-based plasticizers.</div></div>","PeriodicalId":18564,"journal":{"name":"Microbiological research","volume":"302 ","pages":"Article 128338"},"PeriodicalIF":6.9,"publicationDate":"2025-09-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145045476","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Impacts of mobile genetic elements on antimicrobial resistance genes in gram-negative pathogens: Current insights and genomic approaches 移动遗传元件对革兰氏阴性病原体抗菌素耐药基因的影响：当前的见解和基因组方法

IF 6.9 1区生物学 Q1 MICROBIOLOGY

Microbiological research

Pub Date : 2025-09-10 DOI: 10.1016/j.micres.2025.128340

Bethany J. Cross , Sally R. Partridge , Anna E. Sheppard

Antimicrobial resistance threatens to take 10 million lives per year by 2050. It is a recognised global health crisis and understanding the historic and current spread of resistance determinants is important for informing surveillance and control measures. The ‘inheritance’ of resistance is difficult to track because horizontal transfer is common. Antimicrobial resistance genes (ARGs) spread rapidly between bacteria, plasmids and chromosomes due to different mobile genetic elements (MGEs). This movement can increase the range of species carrying an ARG, simplify acquisition of multi-resistance, or otherwise alter the selective advantage associated with carriage of the ARG. MGE activity is therefore a significant factor in understanding routes of ARG dissemination. Characterising the combinations of MGEs contributing to the movement of individual ARGs is crucial. Each MGE category has unique genetic characteristics, and distinct impacts on the location and expression of associated ARGs. Here, the ways in which MGEs can meaningfully associate with ARGs are discussed. Approaches for extracting information about MGE associations from bacterial genome sequences are also considered. Accurate and informative annotations of the genetic contexts of relevant ARGs provide crucial insight into the presence of MGEs and their locations relative to ARGs. Combining this genomic information with knowledge about relevant biological processes allows more accurate conclusions to be drawn about transmission and dissemination of ARGs.

到2050年，抗菌素耐药性每年将夺走1000万人的生命。这是一个公认的全球卫生危机，了解耐药性决定因素的历史和当前传播情况对于通报监测和控制措施非常重要。阻力的“继承”很难追踪，因为水平转移是常见的。抗菌素耐药基因（ARGs）由于不同的移动遗传元件（MGEs）而在细菌、质粒和染色体之间迅速传播。这种移动可以增加携带ARG的物种范围，简化多重抗性的获得，或者改变与携带ARG相关的选择优势。因此，MGE活动是了解ARG传播途径的重要因素。描述影响单个arg移动的mge组合是至关重要的。每种MGE类型都具有独特的遗传特征，对相关ARGs的定位和表达有不同的影响。本文将讨论mge与arg之间的关联方式。从细菌基因组序列中提取MGE关联信息的方法也被考虑。对相关ARGs遗传背景的准确和翔实的注释为了解mge的存在及其相对于ARGs的位置提供了重要的见解。将这些基因组信息与相关生物学过程的知识相结合，可以得出有关ARGs传播和传播的更准确结论。

{"title":"Impacts of mobile genetic elements on antimicrobial resistance genes in gram-negative pathogens: Current insights and genomic approaches","authors":"Bethany J. Cross , Sally R. Partridge , Anna E. Sheppard","doi":"10.1016/j.micres.2025.128340","DOIUrl":"10.1016/j.micres.2025.128340","url":null,"abstract":"<div><div>Antimicrobial resistance threatens to take 10 million lives per year by 2050. It is a recognised global health crisis and understanding the historic and current spread of resistance determinants is important for informing surveillance and control measures. The ‘inheritance’ of resistance is difficult to track because horizontal transfer is common. Antimicrobial resistance genes (ARGs) spread rapidly between bacteria, plasmids and chromosomes due to different mobile genetic elements (MGEs). This movement can increase the range of species carrying an ARG, simplify acquisition of multi-resistance, or otherwise alter the selective advantage associated with carriage of the ARG. MGE activity is therefore a significant factor in understanding routes of ARG dissemination. Characterising the combinations of MGEs contributing to the movement of individual ARGs is crucial. Each MGE category has unique genetic characteristics, and distinct impacts on the location and expression of associated ARGs. Here, the ways in which MGEs can meaningfully associate with ARGs are discussed. Approaches for extracting information about MGE associations from bacterial genome sequences are also considered. Accurate and informative annotations of the genetic contexts of relevant ARGs provide crucial insight into the presence of MGEs and their locations relative to ARGs. Combining this genomic information with knowledge about relevant biological processes allows more accurate conclusions to be drawn about transmission and dissemination of ARGs.</div></div>","PeriodicalId":18564,"journal":{"name":"Microbiological research","volume":"302 ","pages":"Article 128340"},"PeriodicalIF":6.9,"publicationDate":"2025-09-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145155918","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Corrigendum to “A molecular overview of the polymyxin-LPS interaction in the context of its mode of action and resistance development” [Microbiol. Res. 283 (2024) 127679] “多粘菌素- lps相互作用在其作用模式和耐药性发展背景下的分子概述”[微生物杂志]的更正。[Res. 283(2024) 127679]。

IF 6.9 1区生物学 Q1 MICROBIOLOGY

Microbiological research

Pub Date : 2025-09-09 DOI: 10.1016/j.micres.2025.128335

Indira Padhy, Sambit K. Dwibedy, Saswat S. Mohapatra

引用次数: 0

Lactococcus formosensis and its metabolite 4-acetamidobutanoic acid induced caspase-11 dependent myenteric neuronal pyroptosis in intractable functional constipation 台湾乳球菌及其代谢物4-乙酰氨基丁酸诱导难固性功能性便秘患者半胱天冬酶-11依赖性肌内神经元焦凋亡

IF 6.9 1区生物学 Q1 MICROBIOLOGY

Microbiological research

Pub Date : 2025-09-03 DOI: 10.1016/j.micres.2025.128328

Xiaoqian Dong , Mengshi Chen , Haifeng Liu , Simin Zhou , Menglin Sun , Liwei Wang , Yuwei Li , Hao Zhang , Chen Xu , Bangmao Wang , Weilong Zhong

Intractable functional constipation (IFC), a severe form of chronic constipation characterized by slow transit and resistance to conventional treatments, posed a significant clinical challenge. Here, we identified Lactococcus formosensis (Lf), a Gram-positive bacterium prevalent in IFC patients, as a novel contributor to intestinal motility impairment. Clinically, IFC patients exhibited increased colonic mucosal colonization of Lf and significant myenteric neuronal loss and pyroptosis, particularly in excitatory choline acetyltransferase (ChAT)⁺ neurons, but not inhibitory neuronal nitric oxide synthase (nNOS)⁺ neurons. In mice, Lf and its supernatant impaired intestinal motility, reducing fecal water content, prolonging transit times, and inhibiting spontaneous contractions and maximum contractile force in isolated intestinal segments. RNA sequencing revealed that Lf disrupted neurochemical signaling, implicating neuronal damage in its pathogenic effects. Mechanistically, Lf and its supernatant selectively induced pyroptosis in ChAT⁺ neurons via caspase-1 activation. Metabolomic profiling identified 4-acetamidobutanoic acid (4-ABA) as a key metabolite shared between Lf supernatant and IFC patient feces. 4-ABA induced ChAT⁺ neuronal pyroptosis through a caspase-11-dependent pathway, further impairing intestinal motility, which was confirmed in Casp11⁻/⁻ mice. This study uncovered a previously unrecognized pathway of single microbiota-induced neuronal damage in IFC and provided a foundation for novel diagnostic and therapeutic strategies targeting gut microbiota-ENS interactions

顽固性功能性便秘（IFC）是一种严重的慢性便秘形式，其特点是转运缓慢且对常规治疗有耐药性，是一项重大的临床挑战。在这里，我们发现台湾乳球菌（Lf），一种在IFC患者中普遍存在的革兰氏阳性细菌，作为肠道运动障碍的新贡献者。在临床上，IFC患者表现出结肠粘膜Lf定植增加和明显的肌肠神经元丢失和焦亡，特别是在兴奋性胆碱乙酰转移酶(ChAT)+神经元中，但没有抑制性神经元一氧化氮合酶(nNOS)+神经元。在小鼠中，Lf及其上清液损害肠道运动，减少粪便含水量，延长运输时间，抑制离体肠段的自发收缩和最大收缩力。RNA测序显示，Lf破坏神经化学信号，暗示其致病作用中的神经元损伤。在机制上，Lf及其上清通过caspase-1激活选择性诱导ChAT+神经元焦亡。代谢组学分析发现，4-乙酰氨基丁酸（4-ABA）是Lf上清液和IFC患者粪便共享的关键代谢物。4-ABA通过caspase-11依赖性途径诱导ChAT+神经元焦亡，进一步损害肠道运动能力，这在Casp11（毒血症）/⁻（毒血症）中得到证实。本研究揭示了IFC中单一微生物群诱导的神经元损伤的一个以前未被认识的途径，并为针对肠道微生物群- ens相互作用的新型诊断和治疗策略提供了基础

{"title":"Lactococcus formosensis and its metabolite 4-acetamidobutanoic acid induced caspase-11 dependent myenteric neuronal pyroptosis in intractable functional constipation","authors":"Xiaoqian Dong , Mengshi Chen , Haifeng Liu , Simin Zhou , Menglin Sun , Liwei Wang , Yuwei Li , Hao Zhang , Chen Xu , Bangmao Wang , Weilong Zhong","doi":"10.1016/j.micres.2025.128328","DOIUrl":"10.1016/j.micres.2025.128328","url":null,"abstract":"<div><div>Intractable functional constipation (IFC), a severe form of chronic constipation characterized by slow transit and resistance to conventional treatments, posed a significant clinical challenge. Here, we identified <em>Lactococcus formosensis</em> (<em>Lf</em>), a Gram-positive bacterium prevalent in IFC patients, as a novel contributor to intestinal motility impairment. Clinically, IFC patients exhibited increased colonic mucosal colonization of <em>Lf</em> and significant myenteric neuronal loss and pyroptosis, particularly in excitatory choline acetyltransferase (ChAT)<sup>+</sup> neurons, but not inhibitory neuronal nitric oxide synthase (nNOS)<sup>+</sup> neurons. In mice, <em>Lf</em> and its supernatant impaired intestinal motility, reducing fecal water content, prolonging transit times, and inhibiting spontaneous contractions and maximum contractile force in isolated intestinal segments. RNA sequencing revealed that <em>Lf</em> disrupted neurochemical signaling, implicating neuronal damage in its pathogenic effects. Mechanistically, <em>Lf</em> and its supernatant selectively induced pyroptosis in ChAT<sup>+</sup> neurons via caspase-1 activation. Metabolomic profiling identified 4-acetamidobutanoic acid (4-ABA) as a key metabolite shared between <em>Lf</em> supernatant and IFC patient feces. 4-ABA induced ChAT<sup>+</sup> neuronal pyroptosis through a caspase-11-dependent pathway, further impairing intestinal motility, which was confirmed in <em>Casp11⁻/⁻</em> mice. This study uncovered a previously unrecognized pathway of single microbiota-induced neuronal damage in IFC and provided a foundation for novel diagnostic and therapeutic strategies targeting gut microbiota-ENS interactions</div></div>","PeriodicalId":18564,"journal":{"name":"Microbiological research","volume":"302 ","pages":"Article 128328"},"PeriodicalIF":6.9,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144997840","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Long-term compost fertilization enhanced soil disease suppressiveness by fostering interactions between root exudates and the rhizosphere microbiome 长期堆肥施肥通过促进根分泌物与根际微生物群之间的相互作用增强了土壤病害抑制能力

IF 6.9 1区生物学 Q1 MICROBIOLOGY

Microbiological research

Pub Date : 2025-09-03 DOI: 10.1016/j.micres.2025.128327

Ning Wang , Yu Shi , Yuelin Zhu , Yingjie Liu , Yudan Zhang , Fei Wang , Yanran Zhang , Zitong Kang , Xiaoyan Ding , Yuquan Wei , Ji Li , Guo-chun Ding

A comprehensive understanding of the interplay between agricultural practices and the rhizosphere microbiome particularly the role of root exudates is essential for harnessing microbial potential in sustainable agriculture. In this study, we investigated how disease-suppressive soil alters root exudate profiles in pepper plants and how these elevated exudates influence rhizosphere microbiome assembly and modulate the antagonistic activity of Bacillus methylotrophicus 400 (BM400) against Phytophthora capsici. GC-MS analysis identified distinct compositional profiles of root exudates in the disease-suppressive soil, with marked enrichment of seven compounds. Mini-rhizobox experiments revealed that a mixture of seven enriched compounds (MSEC) altered rhizosphere microbiome assembly, explaining 11% of bacterial community variation, and selected for in vitro antagonists of P. capsici, particularly within 20 mm proximity to chemical injection sites. Chemotactic assays indicated that most enriched compounds attract and are metabolized by BM400, enhancing its motility. RNA-seq analysis further demonstrated that MSEC suppressed transcription of BM400 genes linked to protein synthesis and sporulation, while upregulating urease-encoding genes. Notably, MSEC-driven microbiome modulation exhibited regional specificity across soils from Shanghai, Guangdong, and Yancheng. In summary, disease-suppressive soil alters root exudate composition, promoting recruitment of beneficial microbial taxa potentially via chemotaxis, and sustains the activity of BM400 by suppressing genes associated with excessive metabolic activity and sporulation.

全面了解农业实践与根际微生物群之间的相互作用，特别是根分泌物的作用，对于在可持续农业中利用微生物潜力至关重要。在这项研究中，我们研究了病害抑制土壤如何改变辣椒植物根系分泌物分布，以及这些升高的分泌物如何影响根际微生物群的聚集和调节甲基营养芽孢杆菌400 （BM400）对辣椒疫霉的拮抗活性。气相色谱-质谱分析鉴定出抗病土壤中根系分泌物的不同成分，其中7种化合物显著富集。迷你根箱实验显示，7种富集化合物（MSEC）的混合物改变了根际微生物组的组合，解释了11%的细菌群落变异，并被选为辣椒杆菌的体外拮抗剂，特别是在距离化学注射点20毫米的范围内。趋化试验表明，大多数富集的化合物吸引并被BM400代谢，增强了其运动性。RNA-seq分析进一步表明，MSEC抑制了与蛋白质合成和孢子形成相关的BM400基因的转录，同时上调了脲酶编码基因。值得注意的是，mscs驱动的微生物组调节在上海、广东和盐城的土壤中表现出区域特异性。综上所述，抗病土壤改变根系分泌物组成，通过趋化性促进有益微生物类群的招募，并通过抑制与过度代谢活性和产孢相关的基因来维持BM400的活性。

{"title":"Long-term compost fertilization enhanced soil disease suppressiveness by fostering interactions between root exudates and the rhizosphere microbiome","authors":"Ning Wang , Yu Shi , Yuelin Zhu , Yingjie Liu , Yudan Zhang , Fei Wang , Yanran Zhang , Zitong Kang , Xiaoyan Ding , Yuquan Wei , Ji Li , Guo-chun Ding","doi":"10.1016/j.micres.2025.128327","DOIUrl":"10.1016/j.micres.2025.128327","url":null,"abstract":"<div><div>A comprehensive understanding of the interplay between agricultural practices and the rhizosphere microbiome particularly the role of root exudates is essential for harnessing microbial potential in sustainable agriculture. In this study, we investigated how disease-suppressive soil alters root exudate profiles in pepper plants and how these elevated exudates influence rhizosphere microbiome assembly and modulate the antagonistic activity of <em>Bacillus methylotrophicus</em> 400 (BM400) against <em>Phytophthora capsici.</em> GC-MS analysis identified distinct compositional profiles of root exudates in the disease-suppressive soil, with marked enrichment of seven compounds. Mini-rhizobox experiments revealed that a mixture of seven enriched compounds (MSEC) altered rhizosphere microbiome assembly, explaining 11% of bacterial community variation, and selected for <em>in vitro</em> antagonists of <em>P. capsici</em>, particularly within 20mm proximity to chemical injection sites. Chemotactic assays indicated that most enriched compounds attract and are metabolized by BM400, enhancing its motility. RNA-seq analysis further demonstrated that MSEC suppressed transcription of BM400 genes linked to protein synthesis and sporulation, while upregulating urease-encoding genes. Notably, MSEC-driven microbiome modulation exhibited regional specificity across soils from Shanghai, Guangdong, and Yancheng. In summary, disease-suppressive soil alters root exudate composition, promoting recruitment of beneficial microbial taxa potentially via chemotaxis, and sustains the activity of BM400 by suppressing genes associated with excessive metabolic activity and sporulation.</div></div>","PeriodicalId":18564,"journal":{"name":"Microbiological research","volume":"302 ","pages":"Article 128327"},"PeriodicalIF":6.9,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144997839","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Metabolic rewiring and morphological adaptations drive bacterial strain-specific cadmium defense in the Yangtze River estuary 代谢重组和形态适应驱动长江口细菌菌株特异性镉防御

IF 6.9 1区生物学 Q1 MICROBIOLOGY

Microbiological research

Pub Date : 2025-09-02 DOI: 10.1016/j.micres.2025.128326

Wensi Zhang , Qian Liu , Bharat Manna , Naresh Singhal , Jian Wang , Boyu Lyu , Xueyang Zhou , Yurong Qian

Cadmium (Cd) contamination in coastal regions poses severe environmental risks, yet bacterial defense mechanisms against Cd remain poorly understood. This study unveils distinct tolerant strategies of two highly Cd-tolerant bacteria isolated from the Yangtze River estuary: Comamonas sp. Y49 and Aeromonas sp. Y23. We exposed two bacterial strains to Cd^2 + concentrations ranging from sub-lethal to near-lethal levels, based on their minimum inhibitory concentrations, to investigate their stress response mechanisms. The cellular adaptations were comprehensively analyzed through transcriptomic profiling and scanning electron microscopy coupled with energy dispersive X-ray spectroscopy (SEM-EDS). Transcriptomic analyses revealed that both strains significantly stimulated carbon, nitrogen and sulfur metabolism under Cd stress for maintaining essential substance and energy resources. They both enhanced reactive oxygen scavenger and polyamine biosynthesis gene regulation, suggesting a shared strategy for mitigating oxidative stress. Strain Comamonas sp. Y49 showed a 2.97-fold increase in metal efflux gene regulation and secreted extracellular polysaccharide-like substances with SEM-EDS detecting 0.50 % Cd on cell surfaces, while Aeromonas sp. Y23 potentially reduced Cd uptake by forming long-chain cellular structures. Besides, Comamonas sp. Y49 downregulated motility genes by 2.07-fold, while Aeromonas sp. Y23 upregulated them by 1.12-fold, indicating divergent biofilm formation strategies. This study provides novel insights into bacterial Cd resistance, revealing strain-specific adaptive mechanisms that combine metabolic rewiring, morphological changes, and molecular defense strategies. Our findings provide valuable insights on bacterial adaptations to metal stress and establish a molecular foundation for developing microbial-based strategies to address metal contamination in estuarine environments.

沿海地区的镉污染造成了严重的环境风险，但细菌对镉的防御机制尚不清楚。本研究揭示了从长江口分离的两种高cd耐受性细菌：Comamonas sp. Y49和Aeromonas sp. Y23的不同耐受策略。我们将两种细菌菌株暴露于从亚致死到近致死水平的Cd2 +浓度下，基于它们的最低抑制浓度，研究它们的应激反应机制。通过转录组学分析和扫描电镜结合能量色散x射线能谱（SEM-EDS）对细胞适应性进行了全面分析。转录组学分析表明，这两个菌株在Cd胁迫下显著促进碳、氮和硫代谢，以维持必需物质和能量资源。它们都增强了活性氧清除剂和多胺生物合成基因的调节，表明它们具有缓解氧化应激的共同策略。菌株Comamonas sp. Y49的金属外排基因调控增加了2.97倍，并分泌胞外多糖样物质，SEM-EDS检测到细胞表面0.50 %的Cd，而气单胞菌sp. Y23可能通过形成长链细胞结构来减少Cd的摄取。此外，Comamonas sp. Y49下调了2.07倍的运动基因，而气单胞菌sp. Y23上调了1.12倍，表明生物膜形成策略不同。这项研究为细菌Cd抗性提供了新的见解，揭示了菌株特异性的适应机制，结合了代谢重新布线，形态变化和分子防御策略。我们的研究结果为细菌对金属胁迫的适应提供了有价值的见解，并为开发基于微生物的策略来解决河口环境中的金属污染建立了分子基础。

{"title":"Metabolic rewiring and morphological adaptations drive bacterial strain-specific cadmium defense in the Yangtze River estuary","authors":"Wensi Zhang , Qian Liu , Bharat Manna , Naresh Singhal , Jian Wang , Boyu Lyu , Xueyang Zhou , Yurong Qian","doi":"10.1016/j.micres.2025.128326","DOIUrl":"10.1016/j.micres.2025.128326","url":null,"abstract":"<div><div>Cadmium (Cd) contamination in coastal regions poses severe environmental risks, yet bacterial defense mechanisms against Cd remain poorly understood. This study unveils distinct tolerant strategies of two highly Cd-tolerant bacteria isolated from the Yangtze River estuary: <em>Comamonas</em> sp. Y49 and <em>Aeromonas</em> sp. Y23. We exposed two bacterial strains to Cd<sup>2 +</sup> concentrations ranging from sub-lethal to near-lethal levels, based on their minimum inhibitory concentrations, to investigate their stress response mechanisms. The cellular adaptations were comprehensively analyzed through transcriptomic profiling and scanning electron microscopy coupled with energy dispersive X-ray spectroscopy (SEM-EDS). Transcriptomic analyses revealed that both strains significantly stimulated carbon, nitrogen and sulfur metabolism under Cd stress for maintaining essential substance and energy resources. They both enhanced reactive oxygen scavenger and polyamine biosynthesis gene regulation, suggesting a shared strategy for mitigating oxidative stress. Strain <em>Comamonas</em> sp. Y49 showed a 2.97-fold increase in metal efflux gene regulation and secreted extracellular polysaccharide-like substances with SEM-EDS detecting 0.50 % Cd on cell surfaces, while <em>Aeromonas</em> sp. Y23 potentially reduced Cd uptake by forming long-chain cellular structures. Besides, <em>Comamonas</em> sp. Y49 downregulated motility genes by 2.07-fold, while <em>Aeromonas</em> sp. Y23 upregulated them by 1.12-fold, indicating divergent biofilm formation strategies. This study provides novel insights into bacterial Cd resistance, revealing strain-specific adaptive mechanisms that combine metabolic rewiring, morphological changes, and molecular defense strategies. Our findings provide valuable insights on bacterial adaptations to metal stress and establish a molecular foundation for developing microbial-based strategies to address metal contamination in estuarine environments.</div></div>","PeriodicalId":18564,"journal":{"name":"Microbiological research","volume":"302 ","pages":"Article 128326"},"PeriodicalIF":6.9,"publicationDate":"2025-09-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145004977","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0