NCI CPTC Antibody Characterization Program, Bagge D., Hjelm M., Johansen C., Huber I., Gram L.. Shewanella putrefaciens adhesion and biofilm formation on food processing surfaces. J Fish Dis. In the next 48 hours, there was a slight improvement in his clinical condition and infective markers but continued to spike temperatures. The Derjaguin-Landau-Verwey-Overbeek (DLVO) theory was used to examine the relationship between adhesion and, The possibility that microorganisms might use reduced humic substances (humics) as an electron donor for the reduction of, Seventy-six presumed Shewanella putrefaciens isolates from fish, oil drillings, and clinical specimens, the type strain of, The influence of microbial Fe(III) reduction on the deflocculation of autoclaved activated sludge was investigated. implications for finding sequence motifs in regulatory regions. Scholarly Impact Quotient (SIQ) is our unique post-publication peer review rating process. He was seen by the plastic surgery team, and necrotizing fasciitis was excluded from the above corroborative detailed investigations. This bacterium can attach to biotic/abiotic surfaces to form biofilms which contribute to seafood quality degradation and shelf-life reduction. Since unique EcoRI and EcoRV cleavage sites were found in both plasmids, they were used for cloning and sequencing. 1A). An outbreak of Shewanella putrefaciens group in wild eels Anguilla [Opportunistic infections caused by Shewanella, new emergent bacteria]. Shewanella putrefaciens strain PIC1 [GQ359955] Shewanella putrefaciens strain Hac411 [DQ307731] Shewanella putrefaciens strain K717 [KC607526] Shewanella algae strain RM2 [KF896607] Shewanella algae strain ATCC 51192 [NR_117771] Shewanella haliotis strain O-17 [AB476818] Shewanella haliotis strain Z4 [JX286502] 100 100 100 100 100 86 98 0.005 . Antibiotic was changed to Cefepime 2g intravenously every 12h and Gentamicin 120mg intravenously every 8h for the treatment of endocarditis. Each of our projects demand unique, client-focused solutions, built on the solid knowledge-base we've developed from our diverse portfolio. Material and methods: a ORFs were named as ORFn followed by the plasmid name (pSH12 or pSH4), where n is the ORF id. Shewanella can be recovered from a variety of water sources, natural gas and petroleum reserves, dairy products, meat, and fish. Sirri R, Mandrioli L, Zamparo S, Errani F, Volpe E, Tura G, Barb T, Ciulli S. Animals (Basel). (2022). Shewanella are Gram negative bacilli associated with marine environments and have . Ayad LAK, Pissis SP. Financial relationships: All authors have declared that they have no financial relationships at present or within the previous three years with any organizations that might have an interest in the submitted work. The present work has characterized two new plasmids present in two strains of S. putrefaciens, SH4 and SH12, which despite having similar genomic and plasmid profiles with high levels of identity, turned out to be different strains of the same species. a + and indicate the presence or absence of plasmids, respectively. the display of certain parts of an article in other eReaders. The Phyre2 web portal for protein modeling, prediction and analysis. Management of most Shewanella infections includes combinations of surgical therapy (debridement or drainage) and antibiotics[6-7]. Shewanella spp. Cordero H, Guardiola FA, Tapia-Paniagua ST, Cuesta A, Meseguer J, Balebona MC, Moriigo MA, Esteban MA. These percentage values support the idea that SH4 and SH12 are different strains belonging to the same species. Conventionally, phenotypic, molecular and bioinformatic methods are used to identify genes of interest (virulence/resistance, beneficial) (Quainoo et al., 2017) that may reside either in the bacterial genome or in plasmids or both. Santos DDS, Calaa PRDA, Porto ALF, de Souza PRE, de Freitas NSA, Cavalcanti Vieira Soares MT. A type II TA system typically consists of two genes located in an operon encoding a stable toxin that disrupts essential cellular processes and a labile antitoxin that forms a tight protein complex with the cognate toxin to neutralize its activity (Yao et al., 2018). Worldwide, Shewanella putrefaciens is the predominant seafood spoilage microorganism during cold storage. Frontiers | Comparative Proteome Analysis of Shewanella putrefaciens Past medical history was significant for seizure disorder, dyslipidemia, tobacco use, asthma, bronchitis, sleep apnea, hypertension, hypothyroidism, osteoarthritis, right carpal tunnel release surgery, and venous insufficiency. In our patient, the source of S. putrefaciens was not identified. Shewanella putrefaciens - Missouri S&T S2). He was started on sepsis protocol, and flucloxacillin 1 gm (every six hours) was commenced after blood cultures drawn. Our case report further consolidates the correlation of Shewanella infection with exposure to marine water. Basic local alignment search tool. Shewanella putrefaciens rarely causes infection in humans. Probiotic Bacteria and Postbiotic Metabolites: Role in Animal and Human Health. ORFs encoded by the (+) strand of the nucleotide sequence are outside the circle and ORFs encoded by the () strand inside. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Plasmid maps were drawn with pDRAW32 version 1.1.146 (AcaClone software, Greeley, CO, USA) (https://www.acaclone.com/). Then, Sanger-Illumina hybrid assembly was performed with two assemblers, Mira (Chevreux, 2005) and Spades (Bankevich et al., 2012) using default parameter values. Terms of Use. Received 2022 Jul 21; Accepted 2022 Sep 26. Both host factors (Table 3) and the ability of Shewanella to produce hemolysin are responsible. CABI Publishing; Wallingford: 2014. pp. Differentiation of Shewanella putrefaciens and Shewanella alga on the basis of whole-cell protein profiles, ribotyping, phenotypic characterization, and 16S rRNA gene sequence analysis, Deflocculation of Activated Sludge by the Dissimilatory Fe(III)-Reducing Bacterium Shewanella alga BrY. Phylogeny of marine and freshwater Shewanella: reclassification of Shewanella putrefaciens NCIMB 400 as Shewanella frigidimarina. Journal of Bioengineering and Biomedicine Research. Dhawan et al.5 described a case of S. putrefaciens and viridans group streptococci polymicrobial mitral valve endocarditis in a patient with known rheumatic heart disease. Hmm version 2 program (Besemer, Lomsadze & Borodovsky, 2001) with Shewanella putrefaciens CN_32 as the selected species. The functionality is limited to basic scrolling. Lobo C, Tapia-Paniagua S, Moreno-Ventas X, Javier Alarcn F, Rodrguez C, Balebona MC, Moriigo MA, de La Banda IG. Careers. Werbowy K, Cieliski H, Kur Jzef. Biotechnology and Bioprocess Engineering. The rapid expansion of the genus over the 2000 s has prompted questions on the real taxonomic position of some isolates and species. 4. Therefore, different strains from the same species can be pathogenic or beneficial, as has been shown for Escherichia coli (Sonnenborn & Schulze, 2009), Bacillus cereus (Cui et al., 2019) or Vibrio proteolyticus (Bowden, Bricknell & Preziosi, 2018; Medina, Moriigo & Arijo, 2020), among others. https://doi.org/10.5281/zenodo.7092606) and GitHub: https://github.com/oliviaastencio/shewanella_plasmid). The common infections caused by Shewanella are shown in Table 2. While all registered Cureus users can rate any published article, the opinion of domain experts is weighted appreciably more than that of non-specialists. Herein, concanavalin A (Con A) was immobilized on Au nanoparticles (AuNPs) decorated carbon cloth (CC) electrode, and the as-prepared Con A/AuNPs/CC was employed as the anode for bacteria inoculation (Fig. Benefits of probiotic administration on growth and performance along metamorphosis and weaning of senegalese sole (, Macrina FL, Kopecko DJ, Jones KR, Ayers DJ, McCowen SM. Qasim MS, Lampi M, Heinonen MK, Garrido-Zabala B, Bamford DH, Kkel R, Roine E, Sarin LP. 2014;171:112. Dissemination of the carbapenem resistance gene Bla KPC. Pkala A, Koziska A, Padzior E, Gowacka H. J Fish Dis. Shewanella putrefaciens CN32 outer membrane cytochromes MtrC - PubMed Diagnosis and Control of Diseases of Fish and Shellfish. For this, one or two colonies of each strain were picked and cultured in 10 mL tubes of TSBs and minimal (M9) media, and incubated at 23 C or 4 C for 24 and 48 h on shaking at 80 rpm. As with all Shewanella, this organism produces hydrogen sulfide on TSI. Cureus | An Interesting Case of Cellulitis Caused by Shewanella Prevalence of antibiotic and heavy metal resistance determinants and virulence-related genetic elements in plasmids of. S. putrefaciens, when detected, is often a component of polymicrobial infections.4 This type of presentation has made it difficult to determine the significance of S. putrefaciens as an isolated pathogen. 168176. Given that plasmids were only detected in two of the five pathogenic strains, it cannot be ruled out that virulence factors in S. putrefaciens are chromosomally encoded nor that no other plasmids were detected because of the extraction methodology used in this work. The Brazilian Journal of Infectious Diseases, Holt H.M., Gahrn-Hansen B., Bruun B. Shewanella algae and, Khashe S., Janda J.M. The composition of the reaction mixture was done as above, except that 10 pmol of the primers pSH4_R 53 (reverse) and pSH4_F 53 (direct) were used to validate the assembly of pSH4, and of the primers pSH12_R 53 (reverse) and pSH12_F <5GCGAGCCCCTCCATGATTTT>3 (direct) to validate the assembly of pSH12. The patient is a 75-year-old male, known case of long-standing type II diabetes mellitus and extensive psoriasis. Abstract Shewanella (Pseudomonas) putrefaciens is a rare pathogen in humans, and to our knowledge only 13 cases of S. putrefaciens bacteremia have ever been reported in the literature. Initially, these species were named Achromobacter putrefaciens, later changed to Pseudomonas putrefaciens, and was finally, in 1985, classified as Shewanella genus. It is generally composed of repA (helicase), repB (initiator protein) and repC (initiator protein) proteins (Wawrzyniak et al., 2019) but only repB protein has been identified in pSH4 and pSH12. Systemic polymicrobic infection involving Shewanella putrefaciens group oliviaastencio/shewanella_plasmid: v1 (v1.0). The non-pathogenic. 3. Maguire F, Jia B, Gray KL, Lau WYV, Beiko RG, Brinkman FSL. Shewanella putrefaciens Group | Semantic Scholar The output of the Mira and Spades programs was a sequence generated from Illumina and Sanger reads (E), and circularized by the MARS method (F). PHYRE 2 version 2.0, was also used for subsequent protein prediction and modelling (Kelley et al., 2015). Type strain. https://github.com/oliviaastencio/shewanella_plasmid, repB family plasmid replication initiator protein, Superfamily: Winged helix DNA-binding domain, Type II toxin-antitoxin system PemK/MazF family toxin, Superfamily: Cell growth inhibitor/plasmid maintenance toxic component. [5]reviewed the in vitro antimicrobial susceptibility of Shewanella and found that most isolates were sensitive to third-generation cephalosporin, tazobactam/piperacillin, ciprofloxacin, and gentamicin. The repB protein sequences of plasmids from different bacterial species were downloaded in FASTA format in a single export file, and alignment was performed by the Clustal method (Sievers & Higgins, 2014). Conlan S, Thomas PJ, Deming C, Park M, Lau AF, Dekker JP, Snitkin ES, Clark TA, Luong K, Song Y, Tsai Y-C, Boitano M, Dayal J, Brooks SY, Schmidt B, Young AC, Thomas JW, Bouffard GG, Blakesley RW, Korlach J, Henderson DK, Frank KM, Palmore TN, Segre JA. E. coli V157 strain, used as a positive control, showed all seven plasmids previously described in the literature (Macrina et al., 1978). The Shewanella putrefaciens group are ubiquitous microorganisms recently isolated from different freshwater fish species and causing serious health disorders. An outbreak of Shewanella putrefaciens group in wild eels Anguilla anguilla L. favoured by hypoxic aquatic environments. Probiotics are widely used in aquaculture species with the aim of increasing the health and productivity of farmed fish as an important source of animal protein (Assefa & Abunna, 2018). The rest of ORFs are drawn with pink arrows. The complete putative pDNA sequences and their corresponding ORFs were also searched by blastn against the probiotic genome and all non-probiotic strains (NPS) genomes previously described by Seoane et al. Plasmids were aligned by the Clustal method of the Seaview program (G) to finally obtain the plasmid consensus sequences. The pSH4 gap was support only for first two short illumine ending, this no confirm the presence of this region in the SH12 plasmid (C) Agarose gel electrophoresis of amplicons from both, pSH4 and pSH12 plasmids non-validated regions. HHS Vulnerability Disclosure, Help Such is the case of Shewanella putrefaciens Pdp11 strain isolated from skin mucosa of healthy gilthead seabream (Sparus aurata L.) (Chabrilln et al., 2005; Daz-Rosales et al., 2009) that has been described as a probiotic for farmed fish species such as Solea senegalensis and Sparus aurata (Senz De Rodrigez et al., 2009; Garca de La Banda et al., 2010; Tapia-Paniagua et al., 2010; Lobo et al., 2014; Cordero et al., 2015). To remove the sequence of the pBSK S+ vector, different values of the two clean-up parameters k and hdist were applied, where k is the length of the k-mers and hdist is the hamming distance between two k-mers. PDF Reclassification of Shewanella putrefaciens Owen's genomic group II as Explored a cryptic plasmid PSXM33 from. study, we found nine Shewanella. The purpose of the study was to characterise isolates of the S. putrefaciens group with special emphasis on elucidating serological diversity and determining putative virulence factors. He had also been complaining of shaking chills for several days prior to admission. Front Microbiol. 1E). We are experimenting with display styles that make it easier to read articles in PMC. In particular, there are no specific antibiotics guidelines or protocols for Shewanella-associated infections. The interdomain linker of AAV-2 Rep68 is an integral part of its oligomerization domain: role of a conserved SF3 helicase residue in oligomerization. Anything above 5 should be considered above average. In the early 1990s, DNA homology group IV of Owen et al. Sonnenborn U, Schulze J. Adhesion ability of S. putrefaciens group to different fish cell lines The average, Congestion of internal organs in common carp, Exophthalmia, lesions on gill cover (A) and pale liver (B) in rainbow trout, MeSH Within a dashed box, the two sources of plasmid sequences are shown. We report a case of flexor tenosynovitis with Shewanella putrefaciens as the implicated organism, though the patient's mechanism of penetrating trauma did not involve a marine exposure. An Interesting Case of Cellulitis Caused by Shewanella. Marcos-Lpez M, Gale P, Oidtmann BC, Peeler EJ. With the high strigency threshold, a high quality read set for the final assembly is generated, denoted as Assembly read set (Fig. The bacterium's susceptibility to antimicrobial agents, its enzymatic properties, and its adhesion ability to fish cell lines were also tested. This rare case of monomicrobial infective endocarditis by S. putrefaciens in an immunocompetent host adds to the current literature of the increased numbers of human infection associated with the organism and highlights the pathogenic role of Shewanella spp. 3B), rendering these regions unreliable. Under the different conditions tested, plasmids were only found in two of the five pathogenic strains, but not in the probiotic strain nor in the two saprophytic strains tested. PMC SIQ assesses article importance and quality by embracing the collective intelligence of the Cureus community-at-large. Privacy Policy Finally, Dfast (Tanizawa, Fujisawa & Nakamura, 2018) was used for ORF protein identification and functional annotation. Serodiversity may play an important role in the virulence of particular isolates. Despite the vast prevalence of Shewanella spp. Shewanella - Wikipedia All S. putrefaciens strains were grown on tryptic soy agar plates (Oxoid Ltd., Basingstoke, UK) supplemented with NaCl (1.5%) (TSAs) for 24 h at 23 C. Med Mal Infect. Finally, selected isolates were used in challenge experiments in common carp and rainbow trout. nov. Int J Syst Bacteriol 1998; 48:179-186. ssrA . Shewanella bacteria are a normal component of the surface flora of . The patient was discharged home after seven days of intravenous antibiotics, and repeat blood cultures were negative. First, the Sanger plasmid sequences were pre-processed with BBDuk (Bushnell, 2015; Kechin et al., 2017) a tool developed for quality filtering and adapter trimming using k-mers matching, where k-mers are substrings of length k contained in the original nucleotide sequence. Padzior E, Pkala-Safiska A, Wasyl D. Phenotypic diversity and potential virulence factors of the. Appl Environ Microbiol. had reported Shewanella in abdominal and biliary tract infections[5]. Therefore, local microbiologist advice should be sought and followed. All registered users are invited to contribute to the SIQ of any published article. Cultures inoculated in parallel with TSBs medium containing glycerol (20%) were subjected to a freeze-thaw cycle (Pesaro et al., 2003) for 24 h at 80 C prior to incubation. Shewanella is the sole genus included in the marine bacteria family Shewanellaceae.Some species within it were formerly classed as Alteromonas. Domnguez-Maqueda M, Prez-Gmez O, Grande-Prez A, Esteve C, Seoane P, Tapia-Paniagua ST, Balebona MC, Moriigo MA. 1C). CLSI; Wayne: 2006. Plasmids normally include variable repertoires of accessory genes, such as those coding for antibiotic resistance and virulence factors. The different protein sequences were downloaded from the NCBI database, and alignment was performed by Clustal method followed by PhyML algorithm to infer distances by using the Seaview software. The following information was supplied regarding the deposition of DNA sequences: The sequencing data is available at NCBI: PRJNA798051; SAMN25041459 (pSH4 sequence) and SAMN25041460 (pSH12 sequence). For each of the identified ORFs, their amino acid sequence was obtained and queried in blastp (NCBI, Bethesda, Maryland, USA), to obtain clues about the ORF functions (Altschul et al., 1990; Gish & States, 1993). Only two ORFs with a high percentage of identity to known plasmid proteins were identified, while the rest of the ORFs belonged to hypothetical or unknown proteins. Yamaguchi Y, Park J-H, Inouye M. Toxin-antitoxin systems in bacteria and archaea. Several studies have reported isolated S. baltica from spoiled fish. Pathogenic strains of Shewanella putrefaciens contain plasmids that are His leg examination showed (Figure 1) bullous weeping lesions, skin thickening, and erythema. doi: 10.1016/j.vetmic.2014.03.008. The authors are grateful for the computing resources and technical support provided by the Plataforma Andaluza de Bioinformtica of the University of Malaga. is a facultative anaerobic psychrophile with relevance On HD 8, right hand erythema and pain symptoms worsened, warranting repeated ultrasound evaluation of right upper extremity, which revealed the presence of thrombus in the distal radial artery. Identification of Shewanella baltica as the Most Important H2S Human infection with, Dhawan B., Chaudhry R., Mishra B.M., Agarwal R. Isolation of. Then, one or two colonies of each strain were picked and grown in 10 mL tubes of tryptic soy broth (Oxoid Ltd., Basingstoke, UK) added with NaCl (1.5%) (TSBs) for 24 h at 23 C on shaking at 80 rpm (ELMI DOS-20M Digital Orbital Shaker, USA). In any case, the identification of the repB protein is interesting because it has been previously explored in S. xiamenensis BC01 and S. oneidensis MR-1 (Zhou & Ng, 2016) as functional ori for stable plasmid replication in Shewanella. Taxonomy/description (1410, 2346, 2990, 4902). Accessibility Antonio-Hernndez FM, Silva-Perez S, Osorio-Martnez AR, Alday-Reyes RD, Aguilera-Arreola MG, Gonzlez-Lugo GM, Abigail PV, Hernndez-Velez RM, Hernndez RLG, Contreras-Rodrguez A. Plasmids differed in one ORF and encoded a putative replication initiator protein of the repB family, as well as proteins related to plasmid stability and a toxin-antitoxin system. Homologous genetic recombination in the yellow head complex of nidoviruses infecting. Fe(III, International journal of systematic bacteriology, Four strains of tetrodotoxin-producing bacteria isolated from a red alga and from pufferfish were characterized. Comparison of the genomes of SH4 and SH12 and their respective plasmids yielded high similarity at the plasmid level with 94.24% coverage (Fig. Shewanella putrefaciens was named by MacDonell and Colwell in 1985. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD, Pyshkin AV, Sirotkin AV, Vyahhi N, Tesler G, Alekseyev MA, Pevzner PA. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. The gene prediction tools, fgenesB, GeneMark and ORF finder, confirmed that only four and three ORFs in pSH4 and pSH12, respectively, were common and highly similar in both plasmids (Table 1). the display of certain parts of an article in other eReaders. The site is secure. Automatic annotation of bacterial community sequences and application to infections diagnostic. Phenotypical and genotypical characterization of Shewanella putrefaciens strains isolated from diseased freshwater fish. They were then ligated employing T4 DNA ligase (Thermo Fisher Scientific, Waltham, MA, USA) to pBluescript SK (+) (pBSK S+) (Addgene, London, UK) previously treated with shrimp phosphatase alkaline (New England Biolabs, Ipswich, MA, USA). The genetic mobility of. Assefa A, Abunna F. Maintenance of fish health in aquaculture: review of epidemiological approaches for prevention and control of infectious disease of fish. Six sets of blood cultures, in a period of 9 days, turned out positive for S. putrefaciens resulting in the confirmation of monomicrobial infection due to S. putrefaciens. The horizontal mobile genetic element (MGE) products encoded by plasmids could be at the root of the differences between probiotic and pathogenic strains, as has been described for the Enterococcus group (Santos et al., 2020). On subsequent serum sample, it turned out to be 40 mmol/L. National Institutes of Health Create Alert Papers overview Semantic Scholar uses AI to extract papers important to this topic. Cureus 12(8): e9719. Intestinal microbiota diversity of the flat fish, Uhrynowski W, Radlinska M, Drewniak L. Genomic analysis of. Because of this we are asking our users located in the EU to opt in to the data we collect in order to bring a better web experience. Request PDF | On Sep 26, 2018, Monia Cocchi and others published Systemic polymicrobic infection involving Shewanella putrefaciens group in koi | Find, read and cite all the research you need on . Bioinformatic analysis shows that some of Shewanella species including S. putrefaciens CN32 encode a DGC protein with a globin domain 23. Excluding six isolates undeterminable for species, the bacteria were classified to three species: S. putrefaciens, S. xiamenensis, and S. oneidensis, and showed some phenotypic diversity. 2015 Mar;38(3):283-93. doi: 10.1111/jfd.12231. Shewanella putrefaciens group RAPID 20 E Ref. You may notice problems with Whole-Genome Sequencing Redefines Shewanella Taxonomy nov." Ziemke, Hofle, Lalucat, Rossello-Mora International Journal of Systematic Bacteriology 1998