Category Ranking
98%
Total Visits
921
Avg Visit Duration
2 minutes
Citations
20
Article Abstract
Carbohydrate-active enzyme (CAZyme) genes and their transcription factors (TFs) are crucial for the fermentation of lignocellulosic biomass to inhibit pathogen. However, the diversity of CAZyme genes and the complexity of TFs identification limit the efficient biovalorization of bio-resources. This study aimed to inhibit the pathogen Ralstonia solanacearum by fermenting two substrates (chrysanthemum and peanut stems) with Bacillus amyloliquefaciens, while employing multi-omics and machine learning to analyze key CAZyme genes as well as their TFs. The results showed that the water-soluble extracts (WSEs) from fermented chrysanthemum stem (days 6-7) exhibited strong antimicrobial activity. Glycosyl transferase (GT) and polysaccharide lyase (PL) gene sets were enriched significantly during chrysanthemum stem fermentation. Genes, encoding a UDP-glycosyltransferase (GT1) and a pectin lyase (PL1), were identified as key and correlated with the inhibition rate significantly. Through computational prediction, we further revealed the sigma factor RpoE as an indirect positive regulator of PL1 gene expression. Our study provides valuable insights into the identification of key CAZyme genes and the rapid discovery of their TFs, offering a foundation and promising direction for future optimization of fermentation technology.
Download full-text PDF |
Source |
|---|---|
| http://dx.doi.org/10.1016/j.biortech.2025.133102 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Structure and function of the topsoil microbiome in Chinese terrestrial ecosystems.
Front Microbiol
August 2025
State Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou, China.
While soil microorganisms underpin terrestrial ecosystem functioning, how their functional potential adapts across environmental gradients remains poorly understood, particularly for ubiquitous taxa. Employing a comprehensive metagenomic approach across China's six major terrestrial ecosystems (41 topsoil samples, 0-20 cm depth), we reveal a counterintuitive pattern: oligotrophic environments (deserts, karst) harbor microbiomes with significantly greater metabolic pathway diversity (KEGG) compared to resource-rich ecosystems. We provide a systematic catalog of key functional genes governing biogeochemical cycles in these soils, identifying: 6 core CAZyme genes essential for soil organic carbon (SOC) decomposition and biosynthesis; 62 nitrogen (N)-cycling genes (KOs) across seven critical enzymatic clusters; 15 sulfur (S)-cycling genes (KOs) within three key enzymatic clusters.
View Article and Find Full Text PDFBiosynthetic potential of the culturable foliar fungi associated with field-grown lettuce.
Appl Microbiol Biotechnol
September 2025
School of Plant Sciences, The University of Arizona, 1140 E South Campus Drive, Forbes 303, Tucson, AZ, 85721, USA.
Fungal endophytes and epiphytes associated with plant leaves can play important ecological roles through the production of specialized metabolites encoded by biosynthetic gene clusters (BGCs). However, their functional capacity, especially in crops like lettuce (Lactuca sativa L.), remains poorly understood.
View Article and Find Full Text PDFWhole-genome assembly and comparative genomic analyses provide insight into the endophytic lifestyle of Trichoderma lixii.
Curr Genet
September 2025
Fermentation and Microbial Biotechnology Division, CSIR-Indian Institute of Integrative Medicine, Canal Road, Jammu-Tawi, 180001, India.
Trichoderma species exhibit remarkable versatility in adaptability and in occupying habitats with lifestyles ranging from mycoparasitism and saprotrophy to endophytism. In this study, we present the first high-quality whole-genome assembly and annotation of T. lixii using Illumina HiSeq technology to explore the mechanisms of endophytic lifestyle and plant colonization.
View Article and Find Full Text PDFMetagenomic analysis reveals genetic coupling between TonB-dependent transporters and extracellular enzymes in coastal bacterial communities.
Mar Life Sci Technol
August 2025
State Key Laboratory of Marine Environmental Science, Fujian Key Laboratory of Marine Carbon Sequestration, College of Ocean and Earth Sciences, Xiamen University, Xiamen, 361005 China.
Unlabelled: Marine heterotrophic prokaryotes initially release extracellular enzymes to cleave large organic molecules and then take up ambient substrates via transporters. Given the direct influence of extracellular enzymes on nutrient availability, understanding their diversity and dynamics is crucial in comprehending microbial interactions and organic matter cycling in aquatic ecosystems. In this study, metagenomics was employed to investigate the functional diversity and dynamics of extracellular enzymes and transporters in coastal waters over a 22-day period.
View Article and Find Full Text PDFThe physiological functions of the Cbp2D and Cbp2E proteins are important for insoluble cellulose-dependent growth in .
Appl Environ Microbiol
September 2025
Department of Biological Sciences, University of Maryland - Baltimore County, Baltimore, Maryland, USA.
Unlabelled: Microbial deconstruction of plant polysaccharides is important for environmental nutrient cycling, and bacteria proficient at this process have extensive suites of polysaccharide-specific enzymes. In the gram-negative saprophyte , genome annotation suggests that 17 genes are predicted to encode Carbohydrate-Active enZymes (CAZymes) with roles in cellulose degradation; however, previous work suggested that only a subset of these genes is essential. Building upon that work, here, we identify the required and minimally sufficient set of enzymes for complete degradation of cellulose using a combination of transcriptomics, gene deletion analysis, heterologous expression studies, and metabolite analysis.
View Article and Find Full Text PDF