Structure and function of bacterial viruses and viral communities DOI Creative Commons
Ines Friedrich

Published: Jan. 1, 2023

Bacterial viruses, known as bacteriophages or phages, are the most abundant biological entities on planet and least studied in terms of abundance diversity. Searching sequence databases viral genomes, one becomes impression that sphere consists dsDNA bacteriophages. First objective studies was to verify whether this is true a methodical artefact our usual approach assessing world. Second, bacterial host strains were needed for investigation Third, besides classic overlay plaque assay isolation, dsDNA, ssDNA, dsRNA, ssRNA also isolated from phage plaques well. To accomplish endeavor, local system associated with various RNA DNA viruses required. Such hosts not available at beginning work making it necessary isolate suitable prokaryotic system. end, environmental samples successfully screened new hosts, resulting 37 candidate strains, eight which sequenced genomically analyzed (Brevundimonas pondensis, B. goettingensis, Serratia marcescens LVF3, Luteibacter flocculans, Stenotrophomonas indicatrix DAIF1, Kinneretia sp. DAIF2, Janthinobacterium lividum EIF1 EIF2). These evaluated their suitability systems (chapter 3.1 3.5, 3.8 3.9). A total four species discovered described. Using genomic analyses three these fully characterized Brevundimonas flocculans). pondensis LVF1 LVF3 proved be particularly promising candidates achieve main objectives thesis 3.7). They used classical 25 phages: 14 11 Serratia. TEM analysis revealed six myoviruses, 18 siphoviruses podovirus, while Brevundimonas-associated phages all siphoviruses. The complemented by Next Generation Sequencing (NGS)-based methods provided host-associated virome data. Furthermore, complementary NGS enabled identification vB_SmaP-Kaonashi vB_SmaM-Otaku. latter virus infects both systems. In addition, ssDNA results two contigs could detected. belong family Microviridae Inoviridae. Further, goettingensis contained contig Caulobacter-associated phiCb5 Leviviridae. bacteriophage isolates 3.8) 3.9) found. Here, using isolation approach, each produces medically relevant antivacterial substance violacein. We able identify, induction violacein phage-dependent organism. Both (Luteibacter vB_lflM-Pluto vB_JliS-Donnerlittchen) first respective conclusion, demeonstrates prominent. still practical but biased, has been demonstrated. Its limitations can overcome NGS-based access diversity efficiently possible.

Language: Английский

Immunomodulatory Compounds from the Sea: From the Origins to a Modern Marine Pharmacopoeia DOI Creative Commons
Edoardo Andrea Cutolo, Rosanna Campitiello, Roberto Caferri

et al.

Marine Drugs, Journal Year: 2024, Volume and Issue: 22(7), P. 304 - 304

Published: June 28, 2024

From sea shores to the abysses of deep ocean, marine ecosystems have provided humanity with valuable medicinal resources. The use organisms is discussed in ancient pharmacopoeias different times and geographic regions still deeply rooted traditional medicine. Thanks present-day, large-scale bioprospecting rigorous screening for bioactive metabolites, ocean coming back as an untapped resource natural compounds therapeutic potential. This renewed interest drugs propelled by a burgeoning research field investigating molecular mechanisms which newly identified intervene pathophysiology human diseases. Of great clinical relevance are molecules endowed anti-inflammatory immunomodulatory properties emerging applications management chronic inflammatory disorders, autoimmune diseases, cancer. Here, we review historical development pharmacology Eastern Western worlds describe status drug discovery. Finally, discuss importance conducting sustainable exploitation resources through biotechnology.

Language: Английский

Citations

4
Last Decade Insights in Exploiting Marine Microorganisms as Sources of New Bioactive Natural Products DOI Creative Commons

Costanza Ragozzino,

Vincenza Casella,

Alessandro Coppola

et al.

Marine Drugs, Journal Year: 2025, Volume and Issue: 23(3), P. 116 - 116

Published: March 7, 2025

Marine microorganisms have emerged as prolific sources of bioactive natural products, offering a large chemical diversity and broad spectrum biological activities. Over the past decade, significant progress has been made in discovering characterizing these compounds, pushed by technological innovations genomics, metabolomics, bioinformatics. Furthermore, innovative isolation cultivation approaches improved rare difficult-to-culture marine microbes, leading to identification novel secondary metabolites. Advances synthetic biology metabolic engineering further optimized product yields generation compounds with properties. This review highlights key developments exploitation bacteria, fungi, microalgae for discovery products potential applications diverse fields, underscoring immense growing Blue Economy sector.

Language: Английский

Citations

0
Enhancing Water Safety: Biospeckle Laser Approach for Bacterial Detection DOI
Melina Nisenbaum, Marcelo N. Guzmán, María Laura Patat

et al.

Sensing and Imaging, Journal Year: 2025, Volume and Issue: 26(1)

Published: March 7, 2025

Language: Английский

Citations

0
A prospective study on the biodegradation of petroleum hydrocarbons mediated by selected marine bacterial isolates DOI

Umaima Hamed Al Hoqani,

Syed Najmul Hejaz Azmi,

Jayachandran Vavolil P

et al.

Regional Studies in Marine Science, Journal Year: 2025, Volume and Issue: unknown, P. 104143 - 104143

Published: March 1, 2025

Language: Английский

Citations

0
Microbially mediated fossil concretions and their characterization by the latest methodologies: a review DOI Creative Commons
Navdeep Kaur Dhami, Paul F. Greenwood, Stephen F. Poropat

et al.

Frontiers in Microbiology, Journal Year: 2023, Volume and Issue: 14

Published: Sept. 29, 2023

The study of well-preserved organic matter (OM) within mineral concretions has provided key insights into depositional and environmental conditions in deep time. Concretions varied compositions, including carbonate, phosphate, iron-based minerals, have been found to host exceptionally preserved fossils. Organic geochemical characterization concretion-encapsulated OM promises valuable new information fossil preservation, paleoenvironments, even direct taxonomic further illuminate the evolutionary dynamics our planet its biota. Full exploitation this largely untapped archive, however, requires a sophisticated understanding prevalence, formation controls sequestration properties concretions. Past research led proposal different models concretion preservation. Nevertheless, mechanisms on preservation remain poorly understood. Here we provide detailed review main types pathways with focus role microbes their metabolic activities. In addition, comprehensive account geochemical, complimentary inorganic morphological, microbial paleontological, analytical methods, recent advancements, relevant sequestered OM. application outcome several early studies concretion-impregnated are included demonstrate how underexploited geo-biological record can Earth’s record. This paper also attempts shed light current status major challenges that lie ahead geo-paleo-microbial Recent efforts bridge knowledge communication gaps multidisciplinary area discussed, particular emphasis significance for interpreting molecular extraordinarily

Language: Английский

Citations

10
Bacterial microbiome dynamics in commercial integrated aquaculture systems growing Ulva in abalone effluent water DOI Creative Commons

Kristin de Jager,

Marissa Brink‐Hull, John J. Bolton

et al.

Journal of Applied Phycology, Journal Year: 2024, Volume and Issue: 36(5), P. 2823 - 2849

Published: July 18, 2024

Abstract In South Africa, the green seaweed Ulva lacinulata is grown in land-based integrated multi-trophic aquaculture (IMTA) farms with abalone Haliotis midae . The serves as a biofilter and co-produced often used feed for abalone. To better understand potential benefits risks associated this practice, study characterised bacterial microbiome seawater raceways receiving effluent (IMTA system) compared to tanks supplied fertilised (non-IMTA; control). samples were collected from each system, water at inlet outlet of system. Bacterial communities assessed using culture-based approach next-generation sequencing (NGS) V3-V4 16S rDNA region. It was observed that has reduce load effluent, total number culturable Vibrio species declining 150×10 3 cells mL -1 37×10 NGS dataset supported these findings, reduction Pseudoalteromonas samples. A lower genera ( p < 0.05) on when samples, indicating beneficial, modulatory effect bacteria. These findings contribute towards growing body evidence seaweeds IMTA addresses biosecurity concerns farmers wishing improve circularity their farming activities by incorporating seaweeds.

Language: Английский

Citations

3
The microbiome of the marine flatworm Macrostomum lignano provides fitness advantages and exhibits circadian rhythmicity DOI Creative Commons
Yuan‐Yuan Ma, Jinru He, Michael Sieber

et al.

Communications Biology, Journal Year: 2023, Volume and Issue: 6(1)

Published: March 18, 2023

The close association between animals and their associated microbiota is usually beneficial for both partners. Here, we used a simple marine model invertebrate, the flatworm Macrostomum lignano, to characterize host-microbiota interaction in detail. This analysis revealed that different developmental stages each harbor specific microbiota. Studies with gnotobiotic clarified physiological significance of While no fitness benefits were mediated by when food was freely available, showed significantly increased reduced supply. M. lignano shows circadian rhythmicity, affecting total bacterial load behavior taxa. Moreover, presence worm influences composition consortia environment. In summary, Macrostomum-microbiota system described here can serve as general host-microbe interactions invertebrates.

Language: Английский

Citations

8
Evaluating mechanism of banana pseudo-stem retting using seawater: A cost-effective surface pre-treatment approach DOI Creative Commons
Prince Hotor, Ahmed H. Hassanin, Osbert Akatwijuka

et al.

Journal of Bioresources and Bioproducts, Journal Year: 2024, Volume and Issue: 9(3), P. 322 - 335

Published: Aug. 1, 2024

Retting has been employed to extract natural fibers from agricultural wastes as a biological and cost-effective approach for centuries. With its global abundance, banana pseudo-stem is promising agro-waste lignocellulosic fiber extraction. In this study, were extracted the pseudo-stems after being pre-treated under four conditions using seawater at room temperature up 35 d. Bacterial isolation fresh sample screening ligninolytic ability conducted. load well laccase manganese peroxidase enzyme activity profile assay during retting duration analyzed. Fourier transform infrared (FT-IR) X-day diffraction (XRD) analyses also examined both untreated fibers. The results shows that six out of eight bacterial isolates had degrade lignin. treatments (Raw stem + Raw seawater) (Autoclaved recorded highest viable 9.24 × 102 4.46 CFU, respectively, on 14th day process. Additionally, enzymes was in second third week. FT-IR spectra revealed relative reductions peaks attributed polysaccharides other amorphous substances all conditions. XRD diffractogram crystallinity index (CI) increased treatment However, CI enzymatic enhanced even five weeks. Sequence analysis selected showed homology sequences Bacillus velezensis, Shewanella sp. L8-5, Citrobacter amalonaticus subtilis j8 strain. From these findings, it suggested physical, biological, chemical actions collectively involved process pseudo-stems.

Language: Английский

Citations

2
Insights into cyanobacterial blooms through the lens of omics DOI Creative Commons
Ve Van Le, Quynh-Giao Tran, So-Ra Ko

et al.

The Science of The Total Environment, Journal Year: 2024, Volume and Issue: 934, P. 173028 - 173028

Published: May 7, 2024

Cyanobacteria are oxygen-producing photosynthetic bacteria that convert carbon dioxide into biomass upon exposure to sunlight. However, favorable conditions cause harmful cyanobacterial blooms (HCBs), which the dense accumulation of at water surface or subsurface, posing threats freshwater ecosystems and human health. Understanding mechanisms underlying bloom formation is crucial for effective management. In this regard, recent advancements in omics technologies have provided valuable insights HCBs, raised expectations develop more control methods near future. This systematic literature review aims present genomic architecture, adaptive mechanisms, microbial interactions, ecological impacts HCBs through lens omics. Genomic analysis indicates genome plasticity cyanobacteria has enabled their resilience adaptation environmental changes. Transcriptomic investigations revealed use various strategies adapting stress. Additionally, metagenomic metatranscriptomic analyses emphasized significant role community regulating HCBs. Finally, we offer perspectives on potential opportunities further research field.

Language: Английский

Citations

2
Bioactivity Profiling and Untargeted Metabolomics of Microbiota Associated with Mesopelagic Jellyfish Periphylla Periphylla DOI Creative Commons
Ernest Oppong-Danquah, Martina Miranda, Martina Blümel

et al.

Marine Drugs, Journal Year: 2023, Volume and Issue: 21(2), P. 129 - 129

Published: Feb. 17, 2023

The marine mesopelagic zone extends from water depths of 200 m to 1000 and is home a vast number diversity species. It one the least understood regions environment with untapped resources pharmaceutical relevance. jellyfish Periphylla periphylla well-known widely distributed species in zone; however, or potential its cultivable microbiota has not been explored. In this study, we isolated microorganisms associated inner outer umbrella P. collected Irminger Sea by culture-dependent approach, profiled their chemical composition biological activities. Sixteen mostly gram-negative bacterial isolates were selected subjected an OSMAC cultivation regime approach using liquid solid broth (MB) glucose-yeast-malt (GYM) media. Their ethyl acetate (EtOAc) extracts assessed for cytotoxicity antimicrobial activity against fish human pathogens. All, except extract, displayed diverse levels Based on low IC50 values, four most bioactive strains; Polaribacter sp. SU124, Shewanella SU126, Psychrobacter SU143 SU137, prioritized in-depth comparative untargeted metabolomics analysis feature-based molecular networking. Various classes such as diketopiperazines, polyhydroxybutyrates (PHBs), bile acids other lipids putatively annotated, highlighting biotechnological periphylla-associated well bacteria. This first study providing insight into community and, indeed, mine metabolome activities these microorganisms.

Language: Английский

Citations

6