Analysis of causal pathogens of mulberry bacterial blight in samples collected from eight provinces of China using culturomics and metagenomic sequencing methods by Xinpeng Huang, Ting Yuan, Yuxin Huang, Izhar Hyder Qazi, Jiping Liu

“…The MBB disease samples were collected and the composition of the MBB pathogenic microbiome was analyzed by combining culturomics and metagenomic sequencing methods. A total of 498 bacterial strains were isolated and identified through culturomics, and then 109 suspected pathogen strains were preliminarily screened based on metagenomic sequencing data. …”
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A cerium nanocluster for effective alleviation of inflammatory bowel disease by scavenging RONS and regulating gut microbiome by Dan Yang, Rong Wang, Lei Zhao, Ye Xu, Yufeng Zhu, Jingyan Zhang, Zhiguo Zhou, Yun Sun, Shiping Yang, Hong Yang, Wu Wang

“…Treatment significantly alleviated body weight loss, colon length reduction, and pathological injury of colon in mice with dextran sodium sulfate (DSS)-elicited colitis, thereby repairing the intestinal mucosal barrier and reducing inflammation. …”
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DNA Sequence Changes Resulting from Codon Optimization Affect Gene Expression in <i>Pichia pastoris</i> by Altering Chromatin Accessibility by Chaoyu Lu, Linna Guo, Bohao Fang, Jiacheng Shi, Mian Zhou

“…Both genes experienced severe mRNA reduction following codon optimization. Evidenced by histone H3 chromatin immunoprecipitation (ChIP) and a DNase I hypersensitivity assay, gene sequences with transcriptional repression displayed elevated nucleosome occupancy and reduced chromatin accessibility. …”
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High-throughput sequencing-based study on bacterial community structure and functional prediction of fermented bean curd from different regions in China by Xue Feng, Zhao Dong, Teng Hao

“…Additionally, significant variations were observed in functions such as nitrate reduction, nitrogen respiration, and nitrate respiration among different samples, suggesting that microbial diversity in nitrogen metabolism may influence the safety and quality of sufu. …”
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A Genomic Study of DNA Alteration Events Caused by Ionizing Radiation in Human Embryonic Stem Cells via Next-Generation Sequencing by Van Nguyen, Irina V. Panyutin, Igor G. Panyutin, Ronald D. Neumann

“…Using a semiconductor-based next-generation sequencing approach, we were able to consistently sequence these samples with deep coverage for reliable data analysis. …”
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Human papillomavirus genotyping using next generation sequencing (NGS) in cervical lesions: Genotypes by histologic grade and their relative proportion in multiple infections. by Jorge Alejandro Basiletti, Joan Valls, Tomás Poklépovich, María Dolores Fellner, Maryluz Rol, Rafael Alonso, Rita Mariel Correa, María Celeste Colucci, Mercedes Rodríguez de la Peña, Paula Gabriela Falabella, Agustina Saíno, Josefina Campos, Rolando Herrero, Maribel Almonte, María Alejandra Picconi

“…Here, HPV genotypes were identified in 137 cervical samples with different histology (79 ≤CIN1 and 58 CIN3+) using Nested-PCR followed by Next-Generation sequencing (NGS) and relative proportions for each genotype in multiple infections were computed. …”
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Efficient high-resolution microscopic ghost imaging via sequenced speckle illumination and deep learning from a single noisy image by Sukyoon Oh, Sukyoon Oh, Tong Tian, Tong Tian, Zhe Sun, Christian Spielmann, Christian Spielmann

“…By applying the N2V model to a single noisy ghost image, we achieved significant noise reduction, leading to high-resolution and high-quality reconstructions with low computational resources. …”
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High-throughput sequencing metabarcoding and network analysis elucidate the effects of soil fumigation and biostimulant on potato yield, rhizoctonia canker, and fungal community by Honoré Tekeu, Honoré Tekeu, Honoré Tekeu, Joël D’Astous-Pagé, Thomas Jeanne, Richard Hogue

“…Quantitative PCR and high throughput metabarcoding sequencing were used to assess soil fungal diversity, specifically biomass, richness, composition and network interactions. …”
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Identification and whole genome sequencing analysis of Bacillus subtilis K35-1, a highly efficient cellulose in forage degrading bacterium by Dan Wu, Jing Feng, Dongxu Wen, Hongzhuang Wang, Sijia Lu, Kun Li, Rizwana Sultan, Bin Li

“…From eight B. subtilis isolates obtained from yak rumen fluid through Congo red screening (hydrolysis capacity = 2.61 ± 0.23), K35-1 demonstrated superior enzymatic performance, achieving peak cellulase (77.26 U/mL) and hemicellulase (222.85 nmol/min/mL) activities at 36 h of fermentation. The whole genome sequencing revealed a 4.06 Mb circular chromosome (GC content 43.83%) encoding 3,980 protein-coding sequences. …”
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Global insights into the genome dynamics of Clostridioides difficile associated with antimicrobial resistance, virulence, and genomic adaptations among clonal lineages by Mohammad Sholeh, Mohammad Sholeh, Masoumeh Beig, Masoumeh Beig, Ebrahim Kouhsari, Mahdi Rohani, Mohammad Katouli, Farzad Badmasti

“…Trends of genome streamlining included reductions in chromosomal length, gene count, protein-coding genes, and pseudogenes. …”
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Unveiling organohalide respiration potential in River Nile sediments via 16S rRNA gene amplicon sequencing of endogenous bacterial communities by Hwayda Soliman, Mohamed Ismaeil, Hoda Soussa, Wael S. El-Sayed

“…Specifically, PICRUSt analysis predicted the presence of potential genes of tetrachloroethene reductive dehalogenase and 3-chloro-4-hydroxyphenylacetate reductive dehalogenase, previously linked to OHR. …”
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Whole genome sequencing and functional annotation of Fusarium oxysporum f. sp. lentis to unravel virulence and secondary metabolite biosynthesis gene clusters by Sanjay Kharte, Ashish Kumar, Priyamvada Mishra, R. S. Ramakrishnan, Stuti Sharma, Nishi Mishra, Puneet Singh Chauhan, Radheshyam Sharma, Vedant Gautam, Shweta Tiwari, Vinod Goyal, Sonu Sharma, G. K. Koutu, N. K. Joshi

“…BackgroundFusarium oxysporum f. sp. lentis is a major fungal pathogen that causes vascular wilt in lentil crops, leading to significant reductions in yield. Despite its importance, the genetic underpinnings of this pathogen remain poorly understood.MethodsWe performed whole-genome sequencing of F. oxysporum f. sp. lentis using the Illumina Shotgun Sequencing platform. …”
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Increased Preparedness During the 2025 Santorini–Amorgos (Greece) Earthquake Swarm and Comparative Insights from Recent Cases for Civil Protection and Disaster Risk Reduction by Spyridon Mavroulis, Maria Mavrouli, Andromachi Sarantopoulou, Assimina Antonarakou, Efthymios Lekkas

“…Beyond its seismological interest, the sequence was notable for triggering rare increased preparedness actions by Greek Civil Protection operational structures in anticipation of an imminent destructive earthquake. …”
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Reduction in SH-SY5Y Cell Stress Induced by Corticosterone and Attenuation of the Inflammatory Response in RAW 264.7 Cells Using Endomorphin Analogs by Renata Perlikowska, Angelika Długosz-Pokorska, Małgorzata Domowicz, Sylwia Grabowicz, Mariusz Stasiołek, Małgorzata Zakłos-Szyda

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Revealing the key role of the folate synthesis regulatory gene DHNA in tobacco leaf yellowing based on BSA-seq, RNA-seq, and proteomic sequencing by Qiuhe Pan, Rongli Jia, Kai Pi, Qin Tang, Jingyao Zhang, Ying Huang, Renxiang Liu

“…Results In this study, the phenotypes of the yellow-leaf K326 and K326 varieties were analysed, and it was observed that the yellow-leaf K326 variety exhibited a distinct yellow leaf phenotype with a significant reduction in chlorophyll content. Subsequently, using a combination of BSA-seq, transcriptomic sequencing (RNA-seq), and proteomic sequencing approaches, we identified the candidate gene Nitab4.5_0008674g0010 that encodes dihydroneopterin aldolase as a factor associated with tobacco leaf yellowing. …”
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Multimodal evaluation of cerebrospinal fluid from breast cancer leptomeningeal metastases using circulating tumor cell detection, single-cell sequencing, and proteomics by Elnaz Rahbarlayegh, Alexandre Wojcinski, Natsuko Nomura, Tiffany M. Juarez, Barbara Blouw, Santosh Kesari

“…Results A reduction in CSF tumor cells and absence of HER2-expressing cells was observed following treatment, with MRI confirming decreased tumor size. …”
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Effect of forging sequence and heat treatment on microstructure of high-duty power-plant shaft made of Cr-Mo ultra-high strength steel by Skubisz P., Lisiecki Ł.

“…By using unconventional forging conditions based on the assumption of large feed and reduction ratio and modifying the chemical composition, better control of the austenite grain was achieved to minimize abnormal grain growth and/or strain uniformity problems. …”
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Optimizing UK biobank cloud-based research analysis platform to fine-map coronary artery disease loci in whole genome sequencing data by Letitia M.F. Sng, Anubhav Kaphle, Mitchell J. O’Brien, Brendan Hosking, Roc Reguant, Johan Verjans, Yatish Jain, Natalie A. Twine, Denis C. Bauer

“…Abstract We conducted the first comprehensive association analysis of a coronary artery disease (CAD) cohort within the recently released UK Biobank (UKB) whole genome sequencing dataset. We employed fine mapping tool PolyFun and pinpoint rs10757274 as the most likely causal SNV within the 9p21.3 CAD risk locus. …”
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Dynamic relationship between gut microbiota and post-necrotizing pancreatitis: insights from a multi-stage 16S rRNA sequencing study by Jiongdi Lu, Jiongdi Lu, Zhe Wang, Zhe Wang, Feng Cao, Feng Cao, Jia Li, Guofeng Ji, Guofeng Ji, Fei Li, Fei Li

“…Dysbiosis was characterized by a reduction in beneficial bacteria such as Faecalibacterium prausnitzii and Bacteroidaceae, and an increase in opportunistic pathogens such as Streptococcus and Enterobacter. …”
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Fine mapping genetic variants affecting birth weight in sheep: a GWAS of 3007 individuals using low-coverage whole genome sequencing by Ran Li, Yuheng Bai, Maqiang Zhao, Xinyue Zhang, Haiyan Wang, Bo Feng, Shuo Zhang, Huanhuan Zhang, Gang Ren, Xihong Wang, Yu Jiang

“…In this study, we utilized low-coverage whole-genome sequencing (lcWGS) to genotype 3,007 Hu sheep, bypassing the cost and resolution constraints of conventional genotyping arrays while achieving scalable genome-wide variant detection. …”
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