Frontiers in Bioscience-Elite, Journal Year: 2024, Volume and Issue: 16(4)
Published: Dec. 25, 2024
Actinobacteria are major producers of antibacterial and antifungal metabolites growing their search for substances biotechnological interest, especially use in agriculture, among other applications. The Amazon is potentially rich actinobacteria; however, almost no research studies exist. Thus, we present a study the occurrence potential actinobacteria from rhizosphere
Language: Английский
Genome biology, Journal Year: 2025, Volume and Issue: 26(1)
Published: Jan. 14, 2025
Background Streptomyces is a highly diverse genus known for the production of secondary or specialized metabolites with wide range applications in medical and agricultural industries. Several thousand complete nearly genome sequences are now available, affording opportunity to deeply investigate biosynthetic potential within these organisms advance natural product discovery initiatives. Results We perform pangenome analysis on 2371 genomes, including approximately 1200 assemblies. Employing data-driven approach based similarities, was classified into 7 primary 42 Mash-clusters, forming basis comprehensive mining. A refined workflow grouping gene clusters (BGCs) redefines their diversity across different Mash-clusters. This also reassigns 2729 BGC families only 440 families, reduction caused by inaccuracies boundary detections. When genomic location BGCs included analysis, conserved structure, synteny, among becomes apparent species synteny suggests that vertical inheritance major factor diversification BGCs. Conclusions Our dataset at scale thousands genomes refines predictions using Mash-clusters as analysis. The observed conservation order BGCs’ locations shows vertically inherited. presented in-depth pave way large-scale investigations enhance our understanding genus.
Language: Английский
Citations
1
Postharvest Biology and Technology, Journal Year: 2024, Volume and Issue: 212, P. 112899 - 112899
Published: March 26, 2024
Language: Английский
Citations
6
Frontiers in Microbiology, Journal Year: 2024, Volume and Issue: 15
Published: April 8, 2024
Fungal diseases such as the devastating rice blast pose severe threats to crop production worldwide. Biological control of caused by fungal pathogens is an environment-friendly approach for safeguarding production. But insufficient availability microbial agents effective against various has hampered development green in crops. In this study, we identified a broad-spectrum antifungal bacterium, Streptomyces graminearus STR-1, showing antagonistic activity diverse including Magnaporthe oryzae , Rhizoctonia solani Fusarium graminearum Ustilaginoidea virens and Bipolaris maydis . Its was relatively stable less affected temperature pH. Evaluation biocontrol STR-1 revealed that prevented controlled disease via eliciting plant immunity suppressing infection-structure development. broth extract inhibited spore germination, likely through inhibiting protein synthesis. Combining LC–MS chromatography analysis antimicrobial compounds purified from extract, together with decoding genomic sequence, 4-oxo-4-[(1-phenylethyl)amino]but-2-enoic acid, 1,3,5-Trimethylpyrazole SMA-1 potential main secondary metabolites associated its effects. This study suggests bacterial strain could be used identifying highly containing other diseases. The application active offers promising measure tackle disease.
Language: Английский
Citations
6
Microorganisms, Journal Year: 2023, Volume and Issue: 11(11), P. 2621 - 2621
Published: Oct. 24, 2023
Introducing cover crops into maize rotation systems is widely practiced to increase crop productivity and achieve sustainable agricultural development, yet the potential for rotational diversity contribute environmental benefits in soils remains uncertain. Here, we investigated effects of different patterns on physicochemical properties, enzyme activities, microbial biomass communities from field experiments. Crop included (i) pure monoculture (CC), (ii) maize-garlic (CG), (iii) maize-rape (CR) (iv) maize-annual ryegrass one year (Cir1), two years (Cir2) three (Cir3). Our results showed that soil properties varied all patterns, with higher total available phosphorus concentrations CG CR lower organic carbon nitrogen maize-ryegrass rotations compared CC. Specifically, fertility was ranked as > Cir2 Cir3 CC Cir1. decreased activities but enhanced biomass. (C) (N) acquiring C N concentrations, increased (P) P Soil bacterial fungal (Shannon index) were CC, while richness (Chao1 CG, CR, Cir1 Cir2. Most notably augmented relative abundance bacteria, including Chloroflexi, Gemmatimonadetes Rokubacteria, not necessarily decreasing fungi like Basidiomycota, Mortierellomycota Anthophyta. Redundancy analysis indicated nitrate-N, ammonium-N had a large impact communities, whereas nitrate-N ammonium-N, P, greater effect communities. In conclusion, garlic, rape distinctly modify compositions. Thus, advocate garlic annual recommend two-year perennial Southwest China.
Language: Английский
Citations
16
bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown
Published: Feb. 22, 2024
Abstract Background Streptomyces is a highly diverse genus known for the production of secondary or specialized metabolites with wide range applications in medical and agricultural industries. Several thousand complete nearly-complete genome sequences are now available, affording opportunity to deeply investigate biosynthetic potential within these organisms advance natural product discovery initiatives. Result We performed pangenome analysis on 2,371 genomes, including approximately 1,200 assemblies. Employing data-driven approach based similarities, was classified into 7 primary 42 MASH-clusters, forming basis comprehensive mining. A refined workflow grouping gene clusters (BGCs) redefined their diversity across different MASH-clusters. This also reassigned 2,729 BGC families only 440 families, reduction caused by inaccuracies boundary detections. When genomic location BGCs included analysis, conserved structure (synteny) among becomes apparent species synteny suggests that vertical inheritance major factor acquisition new BGCs. Conclusion Our dataset at scale thousands genomes predictions using MASH-clusters as analysis. The observed conservation order BGCs’ locations showed vertically inherited. presented in-depth pave way large-scale investigations enhance our understanding genus.
Language: Английский
Citations
5
Applied Microbiology and Biotechnology, Journal Year: 2024, Volume and Issue: 108(1)
Published: Aug. 30, 2024
Streptomyces species are experts in the production of bioactive secondary metabolites; however, their taxonomy has fallen victim tremendous interest shown by scientific community, evident discovery numerous synonymous public repositories. Based on genomic data from NCBI Datasets and nomenclature LPSN database, we compiled a dataset 600 along with annotations metadata. To pinpoint most suitable taxonomic classification method, conducted comprehensive assessment comparing multiple methodologies, including analysis 16S rRNA, individual housekeeping genes, multilocus sequence (MLSA), Fast Average Nucleotide Identity (FastANI) subset 409 complete data. Due to insufficient resolution rRNA inconsistency observed performed more in-depth analysis, only FastANI MLSA, which expanded our include 502 species. With validated as preferred pairwise entire identifying 59 non-unique among 600, subsequently refined 541 unique Additionally, collected 724 uncharacterized strains investigate uniqueness potential unannotated fraction genus. Utilizing FastANI, 289 could be successfully classified into one KEY POINTS: • Evaluation methods for Whole genome specifically been chosen method. Various reclassifications proposed within
Language: Английский
Citations
4
Universitas Scientiarum, Journal Year: 2025, Volume and Issue: unknown, P. 1 - 20
Published: Feb. 10, 2025
Most fungal infections are caused by species of the Candida genus, particularly C. albicans. The increasing number strains developing resistance to antifungals, resulting in treatment failures, underscores urgency finding new antifungal agents. Since many bacteria genus Streptomyces produce molecules that inhibit growth, this work aimed evaluate activity three native isolates obtained from a rhizosphere and an artisanal composting system. Based on 16S RNA gene sequences, as well biochemical morphological traits, we identified S. globisporus, bacillaris, cavourensis most closely related S1H, S40, S41 isolates, respectively. These have been reported compounds. Theinhibition antagonistic increased with longer incubation times, no differences observed between species. Few studies simultaneously evaluated inhibitory against different strains. In study, inhibited growth albicans, krusei, guilliermondii, glabrata, lusitaniae, including resistant fluconazole.
Language: Английский
Citations
0
Scientific Reports, Journal Year: 2025, Volume and Issue: 15(1)
Published: Feb. 27, 2025
Actinobacteria are well-known producers of diverse secondary metabolites by the presence biosynthetic gene clusters (BGCs). Biological control banana pathogens using antagonistic actinomycetes is recently considered a promising strategy. Therefore, this study aimed to assess plant growth-promoting activities and potential newly identified Streptomyces sp. VNUA74 strain that isolated from rhizosphere in Hung Yen province, Vietnam. The morphological, biochemical physiological characteristics together with whole genome 16S rRNA based taxonomic analyses confirmed belongs parvulus. In silico mining revealed S. parvulus contains rich source BGCs for involved activities. Notably, eleven showed 100% similarity contents known possessing antibacterial antifungal such as actimomycin D, germicidin, istamycins, albaflavenone, cyclic Lanthipeptide SapB. functional analysis also genes participated growth-promoting. Furthermore, vitro assays indicated exhibited strong against range important phytopathogens on banana, including Fusarium oxysporum f. cubense Tropical race 4, F. solani, oxysporum, Colletotrichum gloeosporioides, Corynespora cassiicola, Xanthomonas axonopodis, Ralstonia solanacearum Clavibacter michiganensis. Finally, notable enhancements all examined growth traits plantlets pot experiment. summary, results possesses multiple being effective biocontrol biofertilizer agents sustainable production other agricultural crops. further, genomic approaches will provide an opportunity discover novel bioactive compounds well manipulating strain.
Language: Английский
Citations
0
Microorganisms, Journal Year: 2025, Volume and Issue: 13(3), P. 576 - 576
Published: March 3, 2025
The growing threat of antimicrobial resistance underscores the urgent need to identify new bioactive compounds. In this study, a Streptomyces strain, ACT158, was isolated from Ramsar wetland ecosystem and found exhibit broad-spectrum effects against Gram-positive Gram-negative bacteria, as well fungal pathogens. active strain characterized S. cavourensis according its morphology, phylogenetic analysis, average nucleotide identity (ANI), digital DNA–DNA hybridization (dDDH). Whole-genome sequencing (WGS) annotation revealed genome size 6.86 Mb with 5122 coding sequences linked carbohydrate metabolism, secondary metabolite biosynthesis, stress responses. Genome mining through antiSMASH 32 biosynthetic gene clusters (BGCs), including those encoding polyketides, nonribosomal peptides, terpenes, many which showed low similarity known clusters. Comparative genomic showing high synteny closely related strains. Unique features ACT158 included additional BGCs distinct genes associated biosynthesis pathways adaptation. These findings highlight strain’s potential rich source compounds provide insights into basis for production ecological biotechnological significance.
Language: Английский
Citations
0
Archives of Microbiology, Journal Year: 2025, Volume and Issue: 207(5)
Published: April 2, 2025
Language: Английский
Citations
0