Letters in Applied Microbiology最新文献_第10页

Identification of Salmonella Infantis persistence in poultry products in the Netherlands with a role for the pESI plasmid. 荷兰家禽产品中婴儿沙门氏菌持久性鉴定与pESI质粒的作用。

IF 2 4区生物学

Letters in Applied Microbiology Pub Date : 2026-01-14 DOI: 10.1093/lambio/ovag006

Menno van der Voort, Greetje A A Castelijn, Joost H M Stassen

{"title":"Identification of Salmonella Infantis persistence in poultry products in the Netherlands with a role for the pESI plasmid.","authors":"Menno van der Voort, Greetje A A Castelijn, Joost H M Stassen","doi":"10.1093/lambio/ovag006","DOIUrl":"10.1093/lambio/ovag006","url":null,"abstract":"As Salmonella is known to be able to persist in processing environments, we investigated whether the detection of Salmonella clusters from retail poultry can be linked to a persistent source. A total of 69 Salmonella Infantis isolates from retail poultry products from four different producers between 2008 and 2020 were sequenced and their sensitivity to antibiotics was determined. The six phylogenetic clusters spanning multiple months identified by sequence analysis indicate persistence of Salmonella. In addition, the pESI megaplasmid, which is known to harbor a diversity of resistance and persistence factors, was identified in 53 of the 69 isolates. The pESI plasmid was shown to be more prevalent among more recent strains and was shown to be present in isolates from five out of six clusters. The identification of clusters by whole genome sequencing analyses helps to identify persistent strains, as was shown in this study for S. Infantis. Moreover, the detection of pESI in these S. Infantis isolates suggests that pESI has a role in persistence and thus in the further spread and increased prevalence of S. Infantis.","PeriodicalId":17962,"journal":{"name":"Letters in Applied Microbiology","volume":" ","pages":""},"PeriodicalIF":2.0,"publicationDate":"2026-01-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145934303","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

DSN-based host DNA depletion for simultaneous detection of DNA and RNA pathogens in next-generation sequencing. 基于dsn的宿主DNA耗尽在下一代测序中同时检测DNA和RNA病原体。

IF 2 4区生物学

Letters in Applied Microbiology Pub Date : 2026-01-14 DOI: 10.1093/lambio/ovaf145

Han Ren, Xinlin Jiao, Ruizhi Wang, Jiahui Liu, Delun Wu, Jiucheng Liu, Mingfei Wang, Wendan Shangguan, Shuai Cao, Peisong Chen

{"title":"DSN-based host DNA depletion for simultaneous detection of DNA and RNA pathogens in next-generation sequencing.","authors":"Han Ren, Xinlin Jiao, Ruizhi Wang, Jiahui Liu, Delun Wu, Jiucheng Liu, Mingfei Wang, Wendan Shangguan, Shuai Cao, Peisong Chen","doi":"10.1093/lambio/ovaf145","DOIUrl":"10.1093/lambio/ovaf145","url":null,"abstract":"In recent years, nucleic acid sequencing has been increasingly used in clinical pathogen detection. Typically, 20-100 million metagenomic reads are generated per sample, but 90%-99% originate from host nucleic acids, leaving only 1-2 million for microbial identification-potentially compromising detection sensitivity. Here, we present a novel duplex-specific nuclease (DSN)-based method to reduce host nucleic acid content in next-generation sequencing. Validated using mock communities and clinical samples, it yielded a 2- to 3-fold increase in pathogen RPM (reads per million) in metagenomic NGS (mNGS) and a more pronounced 3- to 10-fold improvement in probe-based targeted NGS (tNGS). Optimal performance was achieved with: 65°C annealing temperature; 2 μg Cot-1 DNA and 50 μmol rProbe as driver DNA; and 150 mmol·L-1 tetramethylammonium chloride (TMAC)-using 25 ng input nucleic acid for library preparation. The DSN workflow adds less than 30 min to library preparation and enables rapid, low-loss microbial enrichment, enhancing pathogen detection in clinical NGS. While effective, its host depletion efficiency could be further improved by expanding driver DNA coverage to additional abundant human genomic regions, such as LINE and LTR repeats.","PeriodicalId":17962,"journal":{"name":"Letters in Applied Microbiology","volume":" ","pages":""},"PeriodicalIF":2.0,"publicationDate":"2026-01-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145948515","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

Impact of pitaya pulp addition on cashew nut extract-based probiotic fermented beverages. 火龙果浆添加对腰果提取物益生菌发酵饮料的影响。

IF 2 4区生物学

Letters in Applied Microbiology Pub Date : 2026-01-14 DOI: 10.1093/lambio/ovaf144

Maristela Luft Palauro, Thamara Rosa de Souza, Maressa Caldeira Morzelle, Geriel Araújo Lemes, Wanessa Costa Silva Faria, Sabrina Neves Casarotti

{"title":"Impact of pitaya pulp addition on cashew nut extract-based probiotic fermented beverages.","authors":"Maristela Luft Palauro, Thamara Rosa de Souza, Maressa Caldeira Morzelle, Geriel Araújo Lemes, Wanessa Costa Silva Faria, Sabrina Neves Casarotti","doi":"10.1093/lambio/ovaf144","DOIUrl":"10.1093/lambio/ovaf144","url":null,"abstract":"Non-dairy probiotic formulations are gaining attention due to their health benefits, but it is essential to assess their ability to maintain probiotic viability while ensuring sensory acceptance, which may be achieved by the incorporation of fruit. This study evaluated the effect of pitaya pulp on probiotic viability, post-acidification, color, total phenolic compounds, and sensory characteristics of a cashew nut extract-based probiotic fermented beverage. Cashew nut extract was supplemented with 5% (B05) and 10% (B10) pitaya pulp and fermented by Streptococcus thermophilus and Lacticaseibacillus casei BGP93. The control (BC) contained no pulp. Pitaya pulp did not influence pH, titratable acidity, or probiotic counts, which ranged from 7.15 to 7.83 log CFU mL-1. However, it affected color parameters: treatments with pitaya pulp showed L values ∼12% and b* values 52%-73.7% lower than BC, while a* values were higher in B05 and B10, respectively, compared to BC. It also reduced phenolic compounds after 28 days (208.66, 124.70, and 134.50 µg EAG g-1 in BC, B05, and B10, respectively). Pitaya pulp enhanced appearance, flavor, overall acceptance, and purchase intention, with B05 achieving the highest scores. Its addition is a promising approach for developing probiotic plant-based fermented beverages.","PeriodicalId":17962,"journal":{"name":"Letters in Applied Microbiology","volume":" ","pages":""},"PeriodicalIF":2.0,"publicationDate":"2026-01-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145948518","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

Expression of Concern: A simple method of DNA isolation from jute (Corchorus olitorius) seed suitable for PCR-based detection of the pathogen Macrophomina phaseolina (Tassi) Goid. 关注表达：一种简便的黄麻（Corchorus olitorius）种子DNA分离方法，适用于基于pcr的病原菌phaseolina (Tassi) Goid检测。

IF 2.1 4区生物学

Letters in Applied Microbiology Pub Date : 2026-01-14 DOI: 10.1093/lambio/ovag004

引用次数: 0

Enhanced growth and microbial protein production of Methylotuvimicrobium alcaliphilum 20Z through process optimization. 通过工艺优化促进嗜酸甲基菌20Z的生长和微生物蛋白产量

IF 2 4区生物学

Letters in Applied Microbiology Pub Date : 2026-01-14 DOI: 10.1093/lambio/ovaf136

Dongni Yan, Qiaoling Yuan, Jialing Ye, Jie Zhao, Miao Yu

引用次数: 0

Expression of concern: Enhancement of microbial growth in Pseudomonas species through mutagenesis. 关注表达：通过诱变增强假单胞菌的微生物生长。

IF 2.1 4区生物学

Letters in Applied Microbiology Pub Date : 2025-11-28 DOI: 10.1093/lambio/ovaf139

引用次数: 0

Evaluation of colonization efficiency and migration pathways of Bacillus amyloliquefaciens GZY63 in Camellia oleifera. 解淀粉芽孢杆菌GZY63在油茶中的定殖效率及迁移途径评价。

IF 2.1 4区生物学

Letters in Applied Microbiology Pub Date : 2025-11-28 DOI: 10.1093/lambio/ovaf101

Haiyan Zhang, Yixuan Ning, Chongli Sun, Haoyu Du, Lei Lei, Yingchun Liao, Hongling Liu, Fenggang Luan

{"title":"Evaluation of colonization efficiency and migration pathways of Bacillus amyloliquefaciens GZY63 in Camellia oleifera.","authors":"Haiyan Zhang, Yixuan Ning, Chongli Sun, Haoyu Du, Lei Lei, Yingchun Liao, Hongling Liu, Fenggang Luan","doi":"10.1093/lambio/ovaf101","DOIUrl":"10.1093/lambio/ovaf101","url":null,"abstract":"Bacillus spp. can colonize various plant tissues, promoting growth and providing biocontrol. Bacillus amyloliquefaciens GZY63 exhibits strong antagonistic activity against anthracnose pathogens in Camellia oleifera. However, its potential as a biocontrol agent in Ca. oleifera remains underexplored, mainly because knowledge regarding its colonization behavior in this host plant is limited. In this study, we used a chloramphenicol-resistant GFP-tagged GZY63 strain to assess the colonization patterns of the bacterium in Ca. oleifera through quantitative Polymerase Chain Reaction (qPCR). In particular, we investigated the bacterium's colonization dynamics across three Ca. oleifera varieties, with a focusing on differences between the root and foliar inoculation methods. The results revealed that root inoculation of B. amyloliquefaciens GZY63 resulted in significantly higher colonization efficiency and more rapid bacterial translocation to leaf tissues than its foliar inoculation. Moreover, the colonization efficiency varied among the three Ca. oleifera varieties, indicating that host genotype influences the bacterium's endophytic compatibility. Although the underlying biochemical factors and regulatory mechanisms remain unclear, our results provide valuable insights into host-microbe interactions in Ca. oleifera. These findings provide a theoretical basis for optimizing the application of B. amyloliquefaciens GZY63 as biocontrol agent in Ca. oleifera and underscore the importance of selecting compatible host genotypes for effective microbial inoculation.","PeriodicalId":17962,"journal":{"name":"Letters in Applied Microbiology","volume":" ","pages":""},"PeriodicalIF":2.1,"publicationDate":"2025-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145355360","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

Microbial diversity in Salvia miltiorrhiza rhizosphere across cropping years. 不同种植年限丹参根际微生物多样性研究

IF 2.1 4区生物学

Letters in Applied Microbiology Pub Date : 2025-11-28 DOI: 10.1093/lambio/ovaf131

Lina Li, Qingdian Han, Weilong Liu, Meijuan Yang, Liang Shi, Juying Huang, Guangna Zhang, Feng Li, Yunguo Liu

{"title":"Microbial diversity in Salvia miltiorrhiza rhizosphere across cropping years.","authors":"Lina Li, Qingdian Han, Weilong Liu, Meijuan Yang, Liang Shi, Juying Huang, Guangna Zhang, Feng Li, Yunguo Liu","doi":"10.1093/lambio/ovaf131","DOIUrl":"10.1093/lambio/ovaf131","url":null,"abstract":"Continuous cultivation can lead to soil nutrient imbalances and have adverse effects on soil rhizosphere microorganisms. This study investigated the impact of continuous cultivation of Salvia miltiorrhiza on rhizosphere soil microbial communities by comparing four planting durations: CK (no cultivation), D1 (annual planting), D2 (two consecutive years), and D3 (three consecutive years). High-throughput sequencing technology was used to analyze changes in rhizosphere soil microbial communities. The results revealed that the planted soil of Salvia miltiorrhiza exhibited lower abundances of beneficial bacteria such as Bacillus and Acidothermus compared to CK. The pathogenic fungus Fusarium was found to found to have the highest abundance in D2 soil. Linear discriminant analysis effect size analysis at the genus level identified several biomarkers, including g_Candidatus_Solibacter, g_Sphingomonas, g_RB41, and g_Chitinophaga as bacterial markers, while g_Talaromyces, g_Thermomyces, g_Trichothecium, g_Solicoccozyma, and g_Pseudopithomyces as fungal markers. Correlation analysis between these microbial markers and environmental factors showed that total nitrogen had a significant positive correlation with bacteria g_Candidatus_Solibacter and fungi g_Solicoccozyma, but a significant negative correlation with bacteria g_Sphingomonas and g_RB41. Soil organic matter showed a negative correlation with g_Sphingomonas; g_Candidatus Solibacter was negatively correlated with g_Sphingomonas.","PeriodicalId":17962,"journal":{"name":"Letters in Applied Microbiology","volume":" ","pages":""},"PeriodicalIF":2.1,"publicationDate":"2025-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145495854","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

Inhibitory effects of cell-free supernatant of Bifidobacterium bifidum on biofilm formation and virulence gene expression in Group B Streptococcus clinical isolates. 两歧双歧杆菌无细胞上清液对B群链球菌临床分离株生物膜形成及毒力基因表达的抑制作用。

IF 2.1 4区生物学

Letters in Applied Microbiology Pub Date : 2025-11-28 DOI: 10.1093/lambio/ovaf133

Uosef Ramezani, Kumarss Amini, Parvaneh Jafari, Farzaneh Tafvizi

{"title":"Inhibitory effects of cell-free supernatant of Bifidobacterium bifidum on biofilm formation and virulence gene expression in Group B Streptococcus clinical isolates.","authors":"Uosef Ramezani, Kumarss Amini, Parvaneh Jafari, Farzaneh Tafvizi","doi":"10.1093/lambio/ovaf133","DOIUrl":"10.1093/lambio/ovaf133","url":null,"abstract":"Group B Streptococcus (GBS) is a major cause of maternal and neonatal infections, complicated by increasing antimicrobial resistance and high virulence. In this study, from 235 vaginal swabs, 45 GBS isolates were identified and screened; 12 representative isolates (strong biofilm producers with the complete virulence gene profile) were selected for downstream analyses. Molecular analysis showed high prevalence of virulence genes (fbsA 95.5%, lmb 91.1%, pavA 88.8%, fbsB 86.6%) and biofilm-related genes (pil-1 88.8%, pil-2a 91.1%, pil-2b 84.4%). Subsequently, a Bifidobacterium bifidum (designated B. bifidum BB-6; GenBank accession number PX474696) isolated from human breast milk was used to prepare a cell-free supernatant (CFS). Gas chromatography-mass spectrometry analysis (GC-MC) of the CFS of B. bifidum identified several bioactive compounds, including acetic acid, propionic acid, and lactic acid. Checkerboard assays indicated synergism between CFS and penicillin/vancomycin, with a fractional inhibitory concentration index (FICI) of ≤ 0.5 in most cases. Sub-minimum inhibitory concentration (sub-MIC) of CFS significantly inhibited biofilm formation (P < 0.01), and quantitative real-time PCR (qRT-PCR) revealed downregulation of virulence (fbsB down -4.40-fold) and biofilm genes (pil-2b down -5.49-fold). These results highlight the therapeutic potential of B. bifidum CFS against GBS, warranting further studies to isolate active compounds and evaluate safety and efficacy in vivo.","PeriodicalId":17962,"journal":{"name":"Letters in Applied Microbiology","volume":" ","pages":""},"PeriodicalIF":2.1,"publicationDate":"2025-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145635191","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

Characterization of carotenoid production and antioxidant capacity in an Egyptian soil bacterium. 埃及土壤细菌类胡萝卜素生产和抗氧化能力的表征。

IF 2.1 4区生物学

Letters in Applied Microbiology Pub Date : 2025-11-28 DOI: 10.1093/lambio/ovaf142

Nora Elfeky, Souzan Hassen A Helal, Abdallah A S Ahmed, Sabha M El-Sabbagh

{"title":"Characterization of carotenoid production and antioxidant capacity in an Egyptian soil bacterium.","authors":"Nora Elfeky, Souzan Hassen A Helal, Abdallah A S Ahmed, Sabha M El-Sabbagh","doi":"10.1093/lambio/ovaf142","DOIUrl":"10.1093/lambio/ovaf142","url":null,"abstract":"Bacterial carotenoids are of significant industrial interest due to their bioactive properties. This study aimed to isolate carotenoid-producing bacteria from Egyptian agricultural land and screen key parameters to enhance their pigment yield. The most productive isolatesse were identified as Exiguobacterium acetylicum and Arthrobacter gandavensis. A one-variable-at-a-time approach revealed that maximum carotenoid production was highly strain-specific. Following cell disruption via mild acid hydrolysis, the optimal extraction solvents were pure acetone for A. gandavensis (4.74 mg L-1) and a 1:1 acetone:methanol mixture for E. acetylicum (5.87 mg L-1). While both strains achieved peak carotenoid production in nutrient broth at 48 hours and pH 6.0, their optimal growth temperatures diverged; A. gandavensis thrived at 35°C and E. acetylicum at 25°C. Liquid chromatography mass spectrometery analysis of A. gandavensis revealed a carotenoid profile containing zeaxanthin, decaprenoxanthin, bacterioruberin, and arthroxanthin. The extract exhibited mechanism-dependent antioxidant activity, most notably a robust peroxyl radical scavenging capacity (421.13 µM TE/mg in ORAC). These findings underscore the necessity of strain-specific screening to maximize the potential of bacterial sources for producing natural carotenoids with distinct antioxidant profiles.","PeriodicalId":17962,"journal":{"name":"Letters in Applied Microbiology","volume":" ","pages":""},"PeriodicalIF":2.1,"publicationDate":"2025-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145804876","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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