Genome Features and AntiSMASH Analysis of an Endophytic Strain Fusarium sp. R1

Liu, Yuanyuan; Xu, Meijie; Tang, Yuqi; Shao, Yilan; Wang, Hong; Zhang, Huawei

doi:10.3390/metabo12060521

Cited by 10 publications

(8 citation statements)

References 52 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Carbohydrate-active enzymes (CAZymes) are classes of enzymes that catalyze the breakdown and assembly of glycoconjugates as well as glycans (oligosaccharides and polysaccharides; Garron and Henrissat, 2019 ). These enzymes play an important role in fungal metabolism as they are accountable for carbohydrate degradation and modification as well as biosynthesis ( Liu et al, 2022 ). The CAZy is a specialized database for carbohydrate enzymes that have the capability to create, modify, and degrade glycosidic bonds ( Liu et al, 2022 ).…”

Section: Resultsmentioning

confidence: 99%

Insights into the genomic architecture of a newly discovered endophytic Fusarium species belonging to the Fusarium concolor complex from India

Rana,

Singh

2023

Front. Microbiol.

View full text Add to dashboard Cite

In this study, a new species Fusarium indicum belonging to the Fusarium concolor species complex is established to accommodate an endophytic fungus isolated from Bambusa sp. and collected from Himachal Pradesh. The identity of this isolate was confirmed based on the asexual morphs, its cultural characteristics, and phylogenetic analyses. This isolate revealed out to be distinct by showing less similarity with described species in the genus Fusarium based on molecular sequence data, approximately 93.9% similarity based on translation elongation factor 1-alpha, and 94.2% similarity based on RNA polymerase II subunit. Furthermore, to increase knowledge about this novel species, whole-genome sequencing was carried out. The results displayed that Fusarium indicum NFCCI 5145 possesses a 40.2 Mb genome and 48.39% of GC content. Approximately 12,963 functional protein-coding genes were carefully predicted and annotated using different BLAST databases, such as Uniprot, Kyoto Encyclopedia of Genes and Genomes (KEGG), Gene Ontology (GO), Pathogen Host Interactions (PHI), Clusters of Orthologous Groups (COG), and Carbohydrate-Active enzymes (CAZy). The orthologous proteins were identified using OrthoFinder and used for the phylogenetic analysis. ANIb confirmed that the isolate is closely related to the F. concolor species complex. It is known that Fusarium strains can produce a wide range of bioactive secondary metabolites. Therefore, in-depth mining for biosynthetic gene clusters for secondary metabolite biosynthesis of Fusarium indicum NFCCI 5145 was investigated using Antibiotics and Secondary Metabolites Analysis Shell (AntiSMASH) annotation. AntiSMASH results displayed that this isolate possesses 45 secondary metabolites of biosynthetic gene clusters (BGCs). These findings significantly improved our understanding of the strain Fusarium indicum NFCCI 5145 and its possible applications in different sectors including industry for the secondary metabolites and enzymes it can produce.

show abstract

Section: Resultsmentioning

confidence: 99%

Insights into the genomic architecture of a newly discovered endophytic Fusarium species belonging to the Fusarium concolor complex from India

Rana,

Singh

2023

Front. Microbiol.

View full text Add to dashboard Cite

show abstract

“…Fortunately, a growing number of evidence suggest that the potential of Fusarium spp. to make novel SMs is still immense since most of their SM biosynthetic gene clusters (BGCs) are inactive or un-awakened under traditional fermentation and culture conditions [107]. More and more cryptic BGCs responsible for the biosynthesis of novel SMs have been disclosed by various bio-informative tools and approaches and efficiently activated using genome mining strategies, such as BGC heterogeneous expression [108], promoter engineering [109] and gene transcriptional regulation [110].…”

Section: Discussionmentioning

confidence: 99%

Fusarium-Derived Secondary Metabolites with Antimicrobial Effects

Huang

Zhu

et al. 2023

Molecules

Self Cite

View full text Add to dashboard Cite

Fungal microbes are important in the creation of new drugs, given their unique genetic and metabolic diversity. As one of the most commonly found fungi in nature, Fusarium spp. has been well regarded as a prolific source of secondary metabolites (SMs) with diverse chemical structures and a broad spectrum of biological properties. However, little information is available concerning their derived SMs with antimicrobial effects. By extensive literature search and data analysis, as many as 185 antimicrobial natural products as SMs had been discovered from Fusarium strains by the end of 2022. This review first provides a comprehensive analysis of these substances in terms of various antimicrobial effects, including antibacterial, antifungal, antiviral, and antiparasitic. Future prospects for the efficient discovery of new bioactive SMs from Fusarium strains are also proposed.

show abstract

“…MF376147) and ITS sequence (GenBank accession No. ON545070) [11]. This strain R1 was deposited at the China General Microbiological Culture Collection Center under accession number CGMCC No.…”

Section: Strain and Cultivationmentioning

confidence: 99%

Optimization of Stationary Liquid Fermentation Conditions for N-Methylsansalvamide Production by the Endophytic Strain Fusarium sp. R1

Shao,

Bai,

Cai

et al. 2024

Fermentation

Self Cite

View full text Add to dashboard Cite

To improve the yield of the therapeutic agent N-methylsansalvamide (SA), optimization of stationary liquid fermentation conditions was conducted on an endophytic strain, Fusarium sp. R1, at flask level. Using a One-Factor-At-a-Time approach, the fermentation conditions for SA production were determined as follows: fermentation time of 13 d, 24 °C, initial pH of 6.5, seed age of 24 h, inoculum size of 5.0% (v/v), loading volume of 50% (v/v), and 20.0 g/L salinity. Sucrose, tryptone, and yeast extract were found to be the best sources of carbon and nitrogen. Using response surface methodology, the optimal medium compositions consisted of 22.5 g/L sucrose, 16.5 g/L tryptone, and 0.024 g/L yeast extract. Verification tests suggested that the SA yield under these optimal conditions reached up to 536.77 ± 2.67 mg/L, which was increased by almost ten times the initial yield (54.05 ± 3.45 mg/L). The findings indicate that a high SA production yield can be achieved by stationary culture of strain R1 under proper fermentation conditions using a low-cost medium. This study paves the way toward industrial-scale SA production by strain R1 for new drug development.

show abstract

Genome Features and AntiSMASH Analysis of an Endophytic Strain Fusarium sp. R1

Cited by 10 publications

References 52 publications

Insights into the genomic architecture of a newly discovered endophytic Fusarium species belonging to the Fusarium concolor complex from India

Insights into the genomic architecture of a newly discovered endophytic Fusarium species belonging to the Fusarium concolor complex from India

Fusarium-Derived Secondary Metabolites with Antimicrobial Effects

Optimization of Stationary Liquid Fermentation Conditions for N-Methylsansalvamide Production by the Endophytic Strain Fusarium sp. R1

Contact Info

Product

Resources

About