Sequencing and multiple antimicrobial resistance of Pseudomonas fluorescens isolated from Nile tilapia fish in Egypt

Shabana, B; Elkenany, Rasha; Younis, Gamal

doi:10.1590/1519-6984.257144

Cited by 9 publications

(8 citation statements)

References 30 publications

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“…in Turkey [42]. On the other hand, all P. fluorescence strains isolated from fish were resistant to piperacillin, ceftazidime, and cefepime in Egypt [43]. In the present study, psychrotrophic Pseudomonas strains were partially resistant (based on the EUCAST and CLSI) to antibiotics commonly used in fish farms.…”

Section: Antibiotic Susceptibility Of Pseudomonas Spp Using Disc Diff...mentioning

confidence: 46%

Bacterial Skin Microbiota of Seabass from Aegean Fish Farms and Antibiotic Susceptibility of Psychrotrophic Pseudomonas

Aydin,

Sudagidan,

Mamatova

et al. 2023

Foods

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Farming seabass (Dicentrarchus labrax) is an essential activity in the Mediterranean basin including the Aegean Sea. The main seabass producer is Turkey accounting for 155,151 tons of production in 2021. In this study, skin swabs of seabass farmed in the Aegean Sea were analysed with regard to the isolation and identification of Pseudomonas. Bacterial microbiota of skin samples (n = 96) from 12 fish farms were investigated using next-generation sequencing (NGS) and metabarcoding analysis. The results demonstrated that Proteobacteria was the dominant bacterial phylum in all samples. At the species level, Pseudomonas lundensis was identified in all samples. Pseudomonas, Shewanella, and Flavobacterium were identified using conventional methods and a total of 46 viable (48% of all NGS+) Pseudomonas were isolated in seabass swab samples. Additionally, antibiotic susceptibility was determined according to standards of the European Committee on Antimicrobial Susceptibility Testing (EUCAST) and Clinical and Laboratory Standards Institute (CLSI) in psychrotrophic Pseudomonas. Pseudomonas strains were tested for susceptibility to 11 antibiotics (piperacillin-tazobactam, gentamicin, tobramycin, amikacin, doripenem, meropenem, imipenem, levofloxacin, ciprofloxacin, norfloxacin, and tetracycline) from five different groups of antibiotics (penicillins, aminoglycosides, carbapenems, fluoroquinolones, and tetracyclines). The antibiotics chosen were not specifically linked to usage by the aquaculture industry. According to the EUCAST and CLSI, three and two Pseudomonas strains were found to be resistant to doripenem and imipenem (E-test), respectively. All strains were susceptible to piperacillin-tazobactam, amikacin, levofloxacin, and tetracycline. Our data provide insight into different bacteria that are prevalent in the skin microbiota of seabass sampled from the Aegean Sea in Turkey, and into the antibiotic resistance of psychrotrophic Pseudomonas spp.

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Section: Antibiotic Susceptibility Of Pseudomonas Spp Using Disc Diff...mentioning

confidence: 46%

Bacterial Skin Microbiota of Seabass from Aegean Fish Farms and Antibiotic Susceptibility of Psychrotrophic Pseudomonas

Aydin,

Sudagidan,

Mamatova

et al. 2023

Foods

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“…A literature search was conducted to analyze which bacterial species have been reported as pathogenic to fish using different terms or keywords such as pathogenic bacteria, fish pathogens, fish pathogenic bacteria, fish bacterial disease, fish diseases, and fish pathogens, among others. This search was performed using PubMed, PubMed Central, ScienceDirect, JSTOR and Scopus databases, resulting in 22 articles relevant to the objective (Almodóvar et al, 2004;Ellermeier and Slauch, 2007;Geng et al, 2007;Swain et al, 2007;Ilardi et al, 2009;Wang et al, 2009;Geng et al,2010a,b;Loch and Faisal, 2010;Troxell et al, 2010;Dang et al, 2011;Johnson et al, 2011;Humbert et al, 2013;Ngwa et al, 2014;Liu et al, 2015;Harke et al, 2016;Menanteau-Ledouble et al, 2016;Bukowska et al, 2017;Pękala-Safińska, 2018;Basri et al, 2020;Li et al, 2020;Shabana et al, 2022). These species were then compared with the taxonomic data obtained herein and were displayed using a relative read abundance on a chord diagram created with the circlize package (Gu et al, 2014).…”

Section: Statistical Analysesmentioning

confidence: 99%

“…P. fluorescens is one of the main causes of septicemic diseases in freshwater fish, causing severe economic losses in aquaculture (Swain et al, 2007;Wang et al, 2009;Shabana et al, 2022). This species is usually associated with pathologies of the skin and fins of fish and has also been reported to cause sudden mortality in fish (Pękala-Safińska, 2018).…”

Section: Bacterial Species and Their Virulence Factors Reported As Pa...mentioning

confidence: 99%

Characterizing a subtropical hypereutrophic lake: From physicochemical variables to shotgun metagenomic data

et al. 2022

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Lake Cajititlán is a subtropical and endorheic lake, which is heavily impacted by nutrient pollution. Agricultural runoff and poorly treated wastewater have entered this reservoir at alarming rates during past rainy seasons, causing the cultural eutrophication of this body of water and resulting in several massive fish kill events. In this study, shotgun metagenomic sequencing was used to examine the taxonomic and functional structure of microbial communities in Lake Cajititlán during the rainy season. Several water quality features and their interactions with microbial communities were also assessed to identify the major factors affecting the water quality and biota, specifically fish species. According to current water quality regulations, most of the physicochemical variables analyzed (dissolved oxygen, pH, Secchi disk, NH4+, NO3−, blue-green algae, total phosphorus, and chlorophyll-a) were outside of the permissible limits. Planktothrix agardhii and Microcystis aeruginosa were the most abundant phytoplankton species, and the dominant bacterial genera were Pseudomonas, Streptomyces, and Flavobacterium, with Pseudomonas fluorescens, Stenotrophomonas maltophilia, and Aeromonas veronii representing the most abundant bacterial species. All of these microorganisms have been reported to be potentially harmful to fish, and the latter three (P. fluorescens, S. maltophilia, A. veronii) also contain genes associated with pathogenicity in fish mortality (fur, luxS, aer, act, aha, exu, lip, ser). Genetic evidence from the microbial communities analyzed herein reveals that anthropogenic sources of nutrients in the lake altered genes involved in nitrogen, phosphorus, sulfur, and carbon metabolism, mainly at the beginning of the rainy season. These findings suggest that abiotic factors influence the structure of the microbial communities, along with the major biogeochemical cycles of Lake Cajititlán, resulting in temporal variations and an excess of microorganisms that can thrive in high-nutrient and low-oxygen environments. After reviewing the literature, this appears to be the first study that focuses on characterizing the water quality of a subtropical hypereutrophic lake through associations between physicochemical variables and shotgun metagenomic data. In addition, there are few studies that have coupled the metabolism of aquatic ecosystems with nutrient cycles.

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“…This microorganism has caused economic losses to the aquaculture industry since it was first described, but the early development of a vaccine has allowed relative control of the disease (Fernández et al, 2007). Pseudomonas fluorescens is a gram-negative, rod-shaped organism that is motile with polar flagella and can produce a fluorescent pigment (fluorescein) (Shabana et al, 2022). P. fluorescens is a common opportunistic psychrotrophic microorganism in aquaculture, causing pseudomoniasis in vertebrates such as freshwater and saltwater fish, and invertebrates such as shrimps, is widespread in soil, water, plants and animals, and can grow at 25-30 °C (Wang et al, 2009;Shabana et al, 2022).…”

Section: Introductionmentioning

confidence: 99%

“…Pseudomonas fluorescens is a gram-negative, rod-shaped organism that is motile with polar flagella and can produce a fluorescent pigment (fluorescein) (Shabana et al, 2022). P. fluorescens is a common opportunistic psychrotrophic microorganism in aquaculture, causing pseudomoniasis in vertebrates such as freshwater and saltwater fish, and invertebrates such as shrimps, is widespread in soil, water, plants and animals, and can grow at 25-30 °C (Wang et al, 2009;Shabana et al, 2022). Shewanella putrefaciens is a non-fermentative, motile, gram-negative bacillus with the main phenotypic characteristic of H 2 S production, which infects a variety of aquatic animals such as European sea bass (Dicentrarchus labrax), loach (Misgurnus anguillicaudatus), common carp (Cyprinus carpio), rainbow trout (Oncorhynchus mykiss), goldfish (Carassius auratus auratus), European eel (Anguilla anguilla), American eel (Anguilla rostrata), and tilapia (Oreochromis niloticus) (Jiang et al, 2022).…”

Section: Introductionmentioning

confidence: 99%

Antibacterial Activity of Extracts Derived from Leaves of Ficus lyrata Warb. and its Cultivar Bambino against Some Fish Bacterial Strains

Tkachenko

2024

Agrobiodivers Improv Nutr health life Qual

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The bioactive compounds present in various plant extracts offer a sustainable and environmentally friendly approach to the control of bacterial infections in farmed fish, thus contributing to the promotion of animal health, food safety and environmental sustainability in aquaculture. In the present study, we evaluated the antimicrobial activity of the ethanolic extracts of the leaves of Ficus lyrata Warb. and its F. lyrata cv. Bambino against Aeromonas sobria, Aeromonas hydrophila and Aeromonas salmonicida subsp. salmonicida, Serratia liquefaciens, Yersinia ruckeri, Pseudomonas fluorescens, Shewanella putrefaciens, to evaluate their possible use of these plants in the prevention of infections caused by these fish pathogens in aquaculture. The isolates used in our studies were Aeromonas sobria (K825), Aeromonas hydrophila (K886) and Aeromonas salmonicida subsp. salmonicida (St30), Serratia liquefaciens (Pt521), Yersinia ruckeri (UP 2), Pseudomonas fluorescens (Pt 433), Shewanella putrefaciens (St15). These strains, derived from freshwater fish species such as common carp (Cyprinus carpio L.) and rainbow trout (Oncorhynchus mykiss Walbaum), were isolated at the Department of Fish Diseases, National Veterinary Research Institute in Puławy (Poland). The antimicrobial susceptibility of the tested strains was determined by the Kirby-Bauer disc diffusion method (1966), according to the recommendations of the Clinical and Laboratory Standards Institute (2006, 2014), with our slight modifications. The results of our study showed that a group of Aeromonas strains showed resistance to F. lyrata and F. lyrata cv. Bambino extracts compared to oxytetracycline and enrofloxacin activity. Serratia liquefaciens, Yersinia ruckeri and Pseudomonas fluorescens strains were also resistant to the ethanolic extracts from the leaves of F. lyrata and its cv. Bambino. On the other hand, the Shewanella putrefaciens strain was sensitive to

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Sequencing and multiple antimicrobial resistance of Pseudomonas fluorescens isolated from Nile tilapia fish in Egypt

Cited by 9 publications

References 30 publications

Bacterial Skin Microbiota of Seabass from Aegean Fish Farms and Antibiotic Susceptibility of Psychrotrophic Pseudomonas

Bacterial Skin Microbiota of Seabass from Aegean Fish Farms and Antibiotic Susceptibility of Psychrotrophic Pseudomonas

Characterizing a subtropical hypereutrophic lake: From physicochemical variables to shotgun metagenomic data

Antibacterial Activity of Extracts Derived from Leaves of Ficus lyrata Warb. and its Cultivar Bambino against Some Fish Bacterial Strains

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