1
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Bhattacharya S, Jenkins MC, Keshavarz-Joud P, Bourque AR, White K, Alvarez Barkane AM, Bryksin AV, Hernandez C, Kopylov M, Finn MG. Heterologous Prime-Boost with Immunologically Orthogonal Protein Nanoparticles for Peptide Immunofocusing. bioRxiv 2024:2024.02.24.581861. [PMID: 38464232 PMCID: PMC10925081 DOI: 10.1101/2024.02.24.581861] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/12/2024]
Abstract
Protein nanoparticles are effective platforms for antigen presentation and targeting effector immune cells in vaccine development. Encapsulins are a class of protein-based microbial nanocompartments that self-assemble into icosahedral structures with external diameters ranging from 24 to 42 nm. Encapsulins from Mxyococcus xanthus were designed to package bacterial RNA when produced in E. coli and were shown to have immunogenic and self-adjuvanting properties enhanced by this RNA. We genetically incorporated a 20-mer peptide derived from a mutant strain of the SARS-CoV-2 receptor binding domain (RBD) into the encapsulin protomeric coat protein for presentation on the exterior surface of the particle. This immunogen elicited conformationally-relevant humoral responses to the SARS-CoV-2 RBD. Immunological recognition was enhanced when the same peptide was presented in a heterologous prime/boost vaccination strategy using the engineered encapsulin and a previously reported variant of the PP7 virus-like particle, leading to the development of a selective antibody response against a SARS-CoV-2 RBD point mutant. While generating epitope-focused antibody responses is an interplay between inherent vaccine properties and B/T cells, here we demonstrate the use of orthogonal nanoparticles to fine-tune the control of epitope focusing.
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Affiliation(s)
- Sonia Bhattacharya
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Matthew C Jenkins
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Parisa Keshavarz-Joud
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Alisyn Retos Bourque
- Parker H. Petit Institute for Bioengineering and Biosciences, Georgia Institute of Technology, Atlanta, GA, 30332, USA
| | - Keiyana White
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Amina M Alvarez Barkane
- Parker H. Petit Institute for Bioengineering and Biosciences, Georgia Institute of Technology, Atlanta, GA, 30332, USA
| | - Anton V Bryksin
- Parker H. Petit Institute for Bioengineering and Biosciences, Georgia Institute of Technology, Atlanta, GA, 30332, USA
| | | | - Mykhailo Kopylov
- New York Structural Biology Center, New York, New York, 10027, USA
| | - M G Finn
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA 30332, USA
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA 30332, USA
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2
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Malla TN, Hernandez C, Menendez D, Bizhga D, Mendez JH, Muniyappan S, Schwander P, Stojković EA, Schmidt M. Signal Transduction in an Enzymatic Photoreceptor Revealed by Cryo-Electron Microscopy. bioRxiv 2023:2023.11.08.566274. [PMID: 37986774 PMCID: PMC10659365 DOI: 10.1101/2023.11.08.566274] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2023]
Abstract
Phytochromes are essential photoreceptor proteins in plants with homologs in bacteria and fungi that regulate a variety of important environmental responses. They display a reversible photocycle between two distinct states, the red-light absorbing Pr and the far-red light absorbing Pfr, each with its own structure. The reversible Pr to Pfr photoconversion requires covalently bound bilin chromophore and regulates the activity of a C-terminal enzymatic domain, which is usually a histidine kinase (HK). In plants, phytochromes translocate to nucleus where the C-terminal effector domain interacts with protein interaction factors (PIFs) to induce gene expression. In bacteria, the HK phosphorylates a response-regulator (RR) protein triggering downstream gene expression through a two-component signaling pathway. Although plant and bacterial phytochromes share similar structural composition, they have contrasting activity in the presence of light with most BphPs being active in the dark. The molecular mechanism that explains bacterial and plant phytochrome signaling has not been well understood due to limited structures of full-length phytochromes with enzymatic domain resolved at or near atomic resolution in both Pr and Pfr states. Here, we report the first Cryo-EM structures of a wild-type bacterial phytochrome with a HK enzymatic domain, determined in both Pr and Pfr states, between 3.75 and 4.13 Å resolution, respectively. Furthermore, we capture a distinct Pr/Pfr heterodimer of the same protein as potential signal transduction intermediate at 3.75 Å resolution. Our three Cryo-EM structures of the distinct signaling states of BphPs are further reinforced by Cryo-EM structures of the truncated PCM of the same protein determined for the Pr/Pfr heterodimer as well as Pfr state. These structures provide insight into the different light-signaling mechanisms that could explain how bacteria and plants see the light.
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3
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Keshavarz-Joud P, Zhao L, Bobe D, Hernandez C, Kopylov M, Yen LY, Djeddar N, Thompson B, Connors C, Gibson G, Bryksin A, Finn M. Exploring the Landscape of the PP7 Virus-like Particle for Peptide Display. ACS Nano 2023; 17:18470-18480. [PMID: 37669408 PMCID: PMC10540251 DOI: 10.1021/acsnano.3c06178] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2023] [Accepted: 08/29/2023] [Indexed: 09/07/2023]
Abstract
Self-assembling virus-like particles (VLPs) can tolerate a wide degree of genetic and chemical manipulation to their capsid protein to display a foreign molecule polyvalently. We previously reported the successful incorporation of foreign peptide sequences in the junction loop and onto the C-terminus of PP7 dimer VLPs, as these regions are accessible for surface display on assembled capsids. Here, we report the implementation of a library-based approach to test the assembly tolerance of PP7 dimer capsid proteins to insertions or terminal extensions of randomized 15-mer peptide sequences. By performing two iterative rounds of assembly-based selection, we evaluated the degree of favorability of all 20 amino acids at each of the 15 randomized positions. Deep sequencing analysis revealed a distinct preference for the inclusion of hydrophilic peptides and negatively charged amino acids (Asp and Glu) and the exclusion of positively charged peptides and bulky and hydrophobic amino acid residues (Trp, Phe, Tyr, and Cys). Within the libraries tested here, we identified 4000 to 22,000 unique 15-mer peptide sequences that can successfully be displayed on the surface of the PP7 dimer capsid. Overall, the use of small initial libraries consisting of no more than a few million members yielded a significantly larger number of unique and assembly-competent VLP sequences than have been previously characterized for this class of nucleoprotein particle.
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Affiliation(s)
- Parisa Keshavarz-Joud
- School
of Chemistry and Biochemistry, Georgia Institute
of Technology, Atlanta, Georgia 30306, United States
| | - Liangjun Zhao
- School
of Chemistry and Biochemistry, Georgia Institute
of Technology, Atlanta, Georgia 30306, United States
| | - Daija Bobe
- New
York Structural Biology Center, New York, New York 10027, United States
| | - Carolina Hernandez
- New
York Structural Biology Center, New York, New York 10027, United States
| | - Mykhailo Kopylov
- New
York Structural Biology Center, New York, New York 10027, United States
| | - Laura Y. Yen
- New
York Structural Biology Center, New York, New York 10027, United States
| | - Naima Djeddar
- Parker
H. Petit Institute for Bioengineering and Biosciences, Georgia Institute of Technology, Atlanta, Georgia 30306, United States
| | - Brianna Thompson
- School
of Chemistry and Biochemistry, Georgia Institute
of Technology, Atlanta, Georgia 30306, United States
| | - Caleb Connors
- School
of Biological Sciences, Georgia Institute
of Technology, Atlanta, Georgia 30306, United States
| | - Greg Gibson
- School
of Biological Sciences, Georgia Institute
of Technology, Atlanta, Georgia 30306, United States
| | - Anton Bryksin
- Parker
H. Petit Institute for Bioengineering and Biosciences, Georgia Institute of Technology, Atlanta, Georgia 30306, United States
| | - M.G. Finn
- School
of Chemistry and Biochemistry, Georgia Institute
of Technology, Atlanta, Georgia 30306, United States
- School
of Biological Sciences, Georgia Institute
of Technology, Atlanta, Georgia 30306, United States
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4
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Missirlian M, Firdaouss M, Richou M, Hernandez C, Gargiulo L, Bucalossi J, Brun C, Corre Y, Delmas E, Greuner H, Guillermin B, Gunn J, Hatchressian J, Jalageas R, Li Q, Lipa M, Lozano M, Luo G, Pocheau C, Roche H, Tsitrone E, Vignal N, Wang W, Saille A, Zago B. Manufacturing, testing and installation of the full tungsten actively cooled ITER-like divertor in the WEST tokamak. Fusion Engineering and Design 2023. [DOI: 10.1016/j.fusengdes.2023.113683] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/29/2023]
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5
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Luna N, Muñoz M, Castillo-Castañeda A, Hernandez C, Urbano P, Shaban M, Paniz-Mondolfi A, Ramírez JD. Characterizing the blood microbiota of omnivorous and frugivorous bats (Chiroptera: Phyllostomidae) in Casanare, eastern Colombia. PeerJ 2023; 11:e15169. [PMID: 37431467 PMCID: PMC10329821 DOI: 10.7717/peerj.15169] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2022] [Accepted: 03/13/2023] [Indexed: 07/12/2023] Open
Abstract
Bats are known reservoirs of seemingly-innocuous pathogenic microorganisms (including viruses, bacteria, fungi, and protozoa), which are associated with triggering disease in other zoonotic groups. The taxonomic diversity of the bats' microbiome is likely associated with species-specific phenotypic, metabolic, and immunogenic capacities. To date, few studies have described the diversity of bat blood microbial communities. Then, this study used amplicon-based next generation sequencing of the V4 hypervariable region of the 16S-rRNA gene in blood samples from omnivorous (n = 16) and frugivorous (n = 9) bats from the department of Casanare in eastern Colombia. We found the blood microbiota in bats to be composed of, among others, Bartonella and Mycoplasma bacterial genera which are associated with various disease phenotypes in other mammals. Furthermore, our results suggest that the bats' dietary habits might determine the composition and the persistence of some pathogens over others in their bloodstream. This study is among the first to describe the blood microbiota in bats, to reflect on co-infection rates of multiple pathogens in the same individual, and to consider the influence of diet as a factor affecting the animal's endogenous microbial community.
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Affiliation(s)
- Nicolas Luna
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Marina Muñoz
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Adriana Castillo-Castañeda
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Carolina Hernandez
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Plutarco Urbano
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
- Universidad Internacional del Tropico Americano (Unitropico), Yopal, Colombia
| | - Maryia Shaban
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-Based Medicine, Icahn School of Medicine at Mount Sinai, New York, United States of America
- Incubadora Venezolana de la Ciencia, Caracas, Venezuela
| | - Alberto Paniz-Mondolfi
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-Based Medicine, Icahn School of Medicine at Mount Sinai, New York, United States of America
- Incubadora Venezolana de la Ciencia, Caracas, Venezuela
| | - Juan David Ramírez
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-Based Medicine, Icahn School of Medicine at Mount Sinai, New York, United States of America
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6
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Subirá-Rios D, Hernandez C, Aragon J, Subira-Rios J, Rodriguez-Cabero M, Fernandez-Tamayo A, Ramón-Botella E, Perez-Mañanes R, Calvo-Haro J, Trapero D. Use of a 3d printed model of renal tumor as a single hemostatic device in renal laparoscopic surgery. Eur Urol 2023. [DOI: 10.1016/s0302-2838(23)01397-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/12/2023]
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7
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Subirá Rios D, Trapero D, Ascencios J, Hernandez C, Moncada I. Hemostatic Renal Surgical Device (RSD). EUR UROL SUPPL 2022. [DOI: 10.1016/s2666-1683(22)02239-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022] Open
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8
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Chahoud J, Mustasam A, Rose K, Spiess P, Moses K, Master V, Nazha B, Zhuang T, Schneider A, Marchetti K, Roussel E, Pham R, Zacharias N, Pagliaro L, Hernandez C, Montrose J, Alifrangis C, Albersen M, Protzel C, Pettaway C. 1310MO Neoadjuvant platinum-based chemotherapy (NAPC) for metastatic penile squamous cell carcinoma (PSCC): An international, multicenter, real-world study. Ann Oncol 2022. [DOI: 10.1016/j.annonc.2022.07.1443] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022] Open
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9
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Ramírez JD, Cao L, Cruz-Saavedra L, Hernandez C, Castañeda S, Muñoz M, Ballesteros N, Banu R, Shrestha P, Cordon-Cardo C, Sordillo EM, Paniz-Mondolfi A. Pan-stage real-time PCR for quantitation of Trypanosoma cruzi parasitic loads in blood samples. Int J Infect Dis 2022; 122:310-312. [PMID: 35690365 DOI: 10.1016/j.ijid.2022.06.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2022] [Revised: 05/19/2022] [Accepted: 06/04/2022] [Indexed: 11/24/2022] Open
Abstract
Chagas disease is a complex zoonosis caused by Trypanosoma cruzi. The diagnosis of this infection is complex and molecular tools are suggested to detect the parasite in blood samples. A long-standing question arises in Chagas disease molecular diagnostics and is related to the feasibility of using epimastigotes in standard curves to quantify parasitic loads. Herein, we conducted experiments running standard curves with all the known life stages of T. cruzi. Our results indicate that regardless of the life stage employed, there are no statistically significant differences when calculating parasitic loads in blood samples. Our results have practical implications from a laboratory perspective in terms of the usability of epimastigotes to build standard curves for T. cruzi pan-stage assessment. Future studies are needed to further improve T. cruzi molecular diagnostic methods and enhance their impact in clinical practice.
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Affiliation(s)
- Juan David Ramírez
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-based Medicine, Icahn School of Medicine at Mount Sinai, New York, NY, USA.; Centro de Investigaciones en Microbiología y Biotecnología-UR (CIM BIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia..
| | - Liyong Cao
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-based Medicine, Icahn School of Medicine at Mount Sinai, New York, NY, USA
| | - Lissa Cruz-Saavedra
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIM BIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Carolina Hernandez
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIM BIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia.; Centro de Tecnología en Salud (CETESA), Innovaseq SAS, Bogotá, Colombia
| | - Sergio Castañeda
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIM BIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Marina Muñoz
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIM BIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Nathalia Ballesteros
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIM BIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Radhika Banu
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-based Medicine, Icahn School of Medicine at Mount Sinai, New York, NY, USA
| | - Paras Shrestha
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-based Medicine, Icahn School of Medicine at Mount Sinai, New York, NY, USA
| | - Carlos Cordon-Cardo
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-based Medicine, Icahn School of Medicine at Mount Sinai, New York, NY, USA
| | - Emilia Mia Sordillo
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-based Medicine, Icahn School of Medicine at Mount Sinai, New York, NY, USA
| | - Alberto Paniz-Mondolfi
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-based Medicine, Icahn School of Medicine at Mount Sinai, New York, NY, USA.; Instituto de Investigaciones Biomédicas IDB/Incubadora Venezolana de la Ciencia, Barquisimeto, Venezuela
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10
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Mendoza C, Roman C, Vazquez A, Poupon C, Mangin JF, Hernandez C, Guevara P. Enhanced Automatic Segmentation for Superficial White Matter Fiber Bundles for Probabilistic Tractography Datasets. Annu Int Conf IEEE Eng Med Biol Soc 2021; 2021:3654-3658. [PMID: 34892029 DOI: 10.1109/embc46164.2021.9630529] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
This paper presents an enhanced algorithm for automatic segmentation of superficial white matter (SWM) bundles from probabilistic dMRI tractography datasets, based on a multi-subject bundle atlas. Previous segmentation methods use the maximum Euclidean distance between corresponding points of the subject fibers and the atlas centroids. However, this scheme might include noisy fibers. Here, we propose a three step approach to discard noisy fibers improving the identification of fibers. The first step applies a fiber clustering and the segmentation is performed between the centroids of the clusters and the atlas centroids. This step removes outliers and enables a better identification of fibers with similar shapes. The second step applies a fiber filter based on two different fiber similarities. One is the Symmetrized Segment-Path Distance (SSPD) over 2D ISOMAP and the other is an adapted version of SSPD for 3D space. The last step eliminates noisy fibers by removing those that connect regions that are far from the main atlas bundle connections. We perform an experimental evaluation using ten subjects of the Human Connectome (HCP) database. The evaluation only considers the bundles connecting precentral and postcentral gyri, with a total of seven bundles per hemisphere. For comparison, the bundles of the ten subjects were manually segmented. Bundles segmented with our method were evaluated in terms of similarity to manually segmented bundles and the final number of fibers. The results show that our approach obtains bundles with a higher similarity score than the state-of-the-art method and maintains a similar number of fibers.Clinical relevance-Many brain pathologies or disorders can occur in specific regions of the SWM automatic segmentation of reliable SWM bundles would help applications to clinical research.
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11
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Edigin E, Rivera Pavon MM, Eseaton PO, Hernandez C, Manadan A. National trends in psoriasis readmissions: a longitudinal study of the nationwide readmission database from 2010 to 2018. J Eur Acad Dermatol Venereol 2021; 35:e815-e817. [PMID: 34241931 DOI: 10.1111/jdv.17508] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Revised: 06/02/2021] [Accepted: 07/02/2021] [Indexed: 12/01/2022]
Affiliation(s)
- E Edigin
- Department of Internal Medicine, John H. Stroger Hospital of Cook County, Chicago, IL, USA
| | - M M Rivera Pavon
- Department of Internal Medicine, John H. Stroger Hospital of Cook County, Chicago, IL, USA
| | - P O Eseaton
- College of Medicine, University of Benin, Benin, Nigeria
| | - C Hernandez
- Department of Dermatology, Rush University Medical Center, Chicago, IL, USA
| | - A Manadan
- Division of Rheumatology, Rush University Medical Center, Chicago, IL, USA
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12
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Malone B, Chen J, Wang Q, Llewellyn E, Choi YJ, Olinares PDB, Cao X, Hernandez C, Eng ET, Chait BT, Shaw DE, Landick R, Darst SA, Campbell EA. Structural basis for backtracking by the SARS-CoV-2 replication-transcription complex. Proc Natl Acad Sci U S A 2021; 118:e2102516118. [PMID: 33883267 PMCID: PMC8126829 DOI: 10.1073/pnas.2102516118] [Citation(s) in RCA: 59] [Impact Index Per Article: 19.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022] Open
Abstract
Backtracking, the reverse motion of the transcriptase enzyme on the nucleic acid template, is a universal regulatory feature of transcription in cellular organisms but its role in viruses is not established. Here we present evidence that backtracking extends into the viral realm, where backtracking by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA-dependent RNA polymerase (RdRp) may aid viral transcription and replication. Structures of SARS-CoV-2 RdRp bound to the essential nsp13 helicase and RNA suggested the helicase facilitates backtracking. We use cryo-electron microscopy, RNA-protein cross-linking, and unbiased molecular dynamics simulations to characterize SARS-CoV-2 RdRp backtracking. The results establish that the single-stranded 3' segment of the product RNA generated by backtracking extrudes through the RdRp nucleoside triphosphate (NTP) entry tunnel, that a mismatched nucleotide at the product RNA 3' end frays and enters the NTP entry tunnel to initiate backtracking, and that nsp13 stimulates RdRp backtracking. Backtracking may aid proofreading, a crucial process for SARS-CoV-2 resistance against antivirals.
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Affiliation(s)
- Brandon Malone
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY 10065
| | - James Chen
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY 10065
| | - Qi Wang
- D. E. Shaw Research, New York, NY 10036
| | - Eliza Llewellyn
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY 10065
| | - Young Joo Choi
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY 10065
| | - Paul Dominic B Olinares
- Laboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, NY, 10065
| | - Xinyun Cao
- Department of Biochemistry, University of Wisconsin-Madison, Madison, WI 53706
| | - Carolina Hernandez
- The National Resource for Automated Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center, New York, NY 10027
| | - Edward T Eng
- The National Resource for Automated Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center, New York, NY 10027
| | - Brian T Chait
- Laboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, NY, 10065
| | - David E Shaw
- D. E. Shaw Research, New York, NY 10036
- Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY 10032
| | - Robert Landick
- Department of Biochemistry, University of Wisconsin-Madison, Madison, WI 53706
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI 53706
| | - Seth A Darst
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY 10065;
| | - Elizabeth A Campbell
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY 10065;
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13
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Bell J, Huang Y, Yung S, Qazi H, Hernandez C, Qiu J, Chan L. High-speed and high-precision fluorescence-based cell count and viability assays using the Cellaca™ MX high-throughput cell counter. Cytotherapy 2021. [DOI: 10.1016/s1465324921004242] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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14
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Malone B, Chen J, Wang Q, Llewellyn E, Choi YJ, Olinares PDB, Cao X, Hernandez C, Eng ET, Chait BT, Shaw DE, Landick R, Darst SA, Campbell EA. Structural basis for backtracking by the SARS-CoV-2 replication-transcription complex. bioRxiv 2021:2021.03.13.435256. [PMID: 33758867 PMCID: PMC7987028 DOI: 10.1101/2021.03.13.435256] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Backtracking, the reverse motion of the transcriptase enzyme on the nucleic acid template, is a universal regulatory feature of transcription in cellular organisms but its role in viruses is not established. Here we present evidence that backtracking extends into the viral realm, where backtracking by the SARS-CoV-2 RNA-dependent RNA polymerase (RdRp) may aid viral transcription and replication. Structures of SARS-CoV-2 RdRp bound to the essential nsp13 helicase and RNA suggested the helicase facilitates backtracking. We use cryo-electron microscopy, RNA-protein crosslinking, and unbiased molecular dynamics simulations to characterize SARS-CoV-2 RdRp backtracking. The results establish that the single-stranded 3'-segment of the product-RNA generated by backtracking extrudes through the RdRp NTP-entry tunnel, that a mismatched nucleotide at the product-RNA 3'-end frays and enters the NTP-entry tunnel to initiate backtracking, and that nsp13 stimulates RdRp backtracking. Backtracking may aid proofreading, a crucial process for SARS-CoV-2 resistance against antivirals.
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Affiliation(s)
- Brandon Malone
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY, 10065 USA
- These authors contributed equally: Brandon Malone, James Chen
| | - James Chen
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY, 10065 USA
- These authors contributed equally: Brandon Malone, James Chen
| | - Qi Wang
- D. E. Shaw Research, New York, NY 10036 USA
| | - Eliza Llewellyn
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY, 10065 USA
| | - Young Joo Choi
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY, 10065 USA
| | - Paul Dominic B. Olinares
- Laboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, NY, 10065 USA
| | - Xinyun Cao
- Department of Biochemistry, University of Wisconsin-Madison, Madison, WI 53706 USA
| | - Carolina Hernandez
- The National Resource for Automated Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center, New York, NY, 10027 USA
| | - Edward T. Eng
- The National Resource for Automated Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center, New York, NY, 10027 USA
| | - Brian T. Chait
- Laboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, NY, 10065 USA
| | - David E. Shaw
- D. E. Shaw Research, New York, NY 10036 USA
- Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY 10032 USA
| | - Robert Landick
- Department of Biochemistry, University of Wisconsin-Madison, Madison, WI 53706 USA
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI 53706 USA
| | - Seth A. Darst
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY, 10065 USA
| | - Elizabeth A. Campbell
- Laboratory of Molecular Biophysics, The Rockefeller University, New York, NY, 10065 USA
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15
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De Volder AL, Teves S, Isasmendi A, Pinheiro JL, Ibarra L, Breglia N, Herrera T, Vazquez M, Hernandez C, Degrossi J. Distribution of Burkholderia cepacia complex species isolated from industrial processes and contaminated products in Argentina. Int Microbiol 2020; 24:157-167. [PMID: 33184776 DOI: 10.1007/s10123-020-00151-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2020] [Revised: 10/21/2020] [Accepted: 10/29/2020] [Indexed: 01/03/2023]
Abstract
Burkholderia cepacia complex (Bcc) members have clinical relevance as opportunistic pathogens in patients with cystic fibrosis and are responsible of numerous nosocomial infections. These closely related bacteria are also reported as frequent contaminants of industrial products. In this retrospective study, we use PCR and recA gene sequence analysis to identify at species level Bcc isolates recovered from massive consumption products and industrial processes in Argentina during the last 25 years. The sequences obtained were also compared with recA sequences from clinical Bcc isolates deposited in GenBank database. We detected Bcc in purified water and preserved products from pharmaceutics, cosmetics, household cleaning articles, and beverages industries. B. contaminans (which is prevalent among people with cystic fibrosis in Argentina) was the most frequent Bcc species identified (42% of the Bcc isolates studied). B. cepacia (10%), B. cenocepacia (5%), B. vietnamiensis (16%), B. arboris (3%), and the recently defined B. aenigmatica (24%) were also detected. Rec A sequences from all B. cepacia and most B. contaminans industrial isolates obtained in this study displayed 100% identity with recA sequences from isolates infecting Argentinean patients. This information brings evidence for considering industrial massive consumption products as a potential source of Bcc infections. In addition, identification at species level in industrial microbiological laboratories is necessary for a better epidemiological surveillance. Particularly in Argentina, more studies are required in order to reveal the role of these products in the acquisition of B. contaminans infections.
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Affiliation(s)
- A López De Volder
- Cátedra de Microbiología, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Buenos Aires, Argentina.,Instituto de Investigaciones en Bacteriología y Virología Molecular (IBaViM), Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Buenos Aires, Argentina
| | - S Teves
- Cátedra de Microbiología, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Buenos Aires, Argentina
| | - A Isasmendi
- Servicio de Microbiología, Hospital de Pediatría Juan P. Garrahan, Buenos Aires, Argentina
| | - J L Pinheiro
- Servicio de Microbiología, Hospital de Pediatría Juan P. Garrahan, Buenos Aires, Argentina
| | - L Ibarra
- Servicio de Bacteriología Clínica, Hospital de Niños Ricardo Gutiérrez, Buenos Aires, Argentina
| | - N Breglia
- Cátedra de Microbiología, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Buenos Aires, Argentina
| | - T Herrera
- Facultad de Ciencias Exactas, Universidad de Buenos Aires, Buenos Aires, Argentina
| | - M Vazquez
- Servicio de Bacteriología Clínica, Hospital de Niños Ricardo Gutiérrez, Buenos Aires, Argentina
| | - C Hernandez
- Servicio de Microbiología, Hospital de Pediatría Juan P. Garrahan, Buenos Aires, Argentina
| | - José Degrossi
- Instituto de Investigaciones en Bacteriología y Virología Molecular (IBaViM), Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Buenos Aires, Argentina. .,Cátedra de Salud Pública e Higiene Ambiental, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Junín 956 4° Floor, Ciudad Autónoma de Buenos Aires, Argentina.
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16
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Flores K, Valdes C, Ramirez D, Eubanks TM, Lopez J, Hernandez C, Alcoutlabi M, Parsons JG. The effect of hybrid zinc oxide/graphene oxide (ZnO/GO) nano-catalysts on the photocatalytic degradation of simazine. Chemosphere 2020; 259:127414. [PMID: 32599381 DOI: 10.1016/j.chemosphere.2020.127414] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2020] [Revised: 06/11/2020] [Accepted: 06/11/2020] [Indexed: 06/11/2023]
Abstract
The photocatalytic degradation of simazine (SIM) was investigated using zinc oxide/graphene oxide (ZnO/GO) composite materials under visible light irradiation. The reaction kinetics was studied to optimize the reaction parameters for efficient degradation of SIM. Batch studies were performed to investigate the effects of initial reaction pH, the loading of the ZnO onto GO, and mass of catalyst on the removal of SIM from aqueous solution. A pH of 2 was determined to be the optimal reaction pH for the different ZnO-loaded GO catalysts. In addition, a mass of 40 mg of catalyst in the reaction was observed to be the most effective for the catalysts synthesized using 20 and 30 mmol of Zn2+ ions; whereas a mass of 10 mg was most effective for the ZnO/GO composite material synthesized using 10 mmol Zn2+ ions. The reaction was observed to follow a second-order kinetics for the degradation process. Furthermore, the synthesized ZnO/GO composite catalysts resulted in higher reaction rates than those observed for pure ZnO. The 30 mmol ZnO/GO composite expressed a rate of SIM degradation ten times greater than the rate observed for pure ZnO, and sixty-two times greater than the rate of photolysis. In addition, the catalyst cycling exhibited a constant photocatalytic activity for the ZnO/GO composite over three reaction cycles without the need of a conditioning cycle.
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Affiliation(s)
- K Flores
- Department of Chemistry, University of Texas Rio Grande Valley, 1 W University Blvd., Brownsville, TX, 78521, USA
| | - C Valdes
- Department of Chemistry, University of Texas Rio Grande Valley, 1 W University Blvd., Brownsville, TX, 78521, USA
| | - D Ramirez
- Department of Chemistry, University of Texas Rio Grande Valley, 1 W University Blvd., Brownsville, TX, 78521, USA
| | - T M Eubanks
- Department of Chemistry, University of Texas Rio Grande Valley, 1 W University Blvd., Brownsville, TX, 78521, USA
| | - J Lopez
- Department of Mechanical Engineering, University of Texas Rio Grande Valley, 1201 University Dr, Edinburg, TX, 78539, USA
| | - C Hernandez
- Department of Mechanical Engineering, University of Texas Rio Grande Valley, 1201 University Dr, Edinburg, TX, 78539, USA
| | - M Alcoutlabi
- Department of Mechanical Engineering, University of Texas Rio Grande Valley, 1201 University Dr, Edinburg, TX, 78539, USA
| | - J G Parsons
- Department of Chemistry, University of Texas Rio Grande Valley, 1 W University Blvd., Brownsville, TX, 78521, USA.
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17
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Saieh C, Cordero IT, Baeza I, Rodriguez E, Hernandez C. Manual Intermittent Peritoneal Dialysis: A Successful Alternative to CAPD in Developing Countries. Perit Dial Int 2020. [DOI: 10.1177/089686088500500319] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Affiliation(s)
- C.A. Saieh
- ICU Nurse Renal and Intensive Care Units Luis Calvo Mac Kenna Children's Hosp. Antonio Varas 360 Santiago 9, Chile
| | - I. T. Cordero
- ICU Nurse Renal and Intensive Care Units Luis Calvo Mac Kenna Children's Hosp. Antonio Varas 360 Santiago 9, Chile
| | - I. Baeza
- ICU Nurse Renal and Intensive Care Units Luis Calvo Mac Kenna Children's Hosp. Antonio Varas 360 Santiago 9, Chile
| | - E. Rodriguez
- ICU Nurse Renal and Intensive Care Units Luis Calvo Mac Kenna Children's Hosp. Antonio Varas 360 Santiago 9, Chile
| | - C. Hernandez
- ICU Nurse Renal and Intensive Care Units Luis Calvo Mac Kenna Children's Hosp. Antonio Varas 360 Santiago 9, Chile
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18
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Monteverde M, Sojo E, Grosman M, Hernandez C, Delgado N. RelapsingBacillus cereusPeritonitis in a Pediatric Patient on Chronic Peritoneal Dialysis. Perit Dial Int 2020. [DOI: 10.1177/089686080602600618] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Affiliation(s)
- M.L. Monteverde
- Service of Nephrology Hospital Garrahan Buenos Aires, Argentina
| | - E.T. Sojo
- Service of Nephrology Hospital Garrahan Buenos Aires, Argentina
| | - M. Grosman
- Service of Nephrology Hospital Garrahan Buenos Aires, Argentina
| | - C. Hernandez
- Service of Nephrology Hospital Garrahan Buenos Aires, Argentina
- Service of Bacteriology Hospital Garrahan Buenos Aires, Argentina
| | - N. Delgado
- Service of Nephrology Hospital Garrahan Buenos Aires, Argentina
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19
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Jechorek RP, Johnson RL, Agin J, Anderson G, Bennett R, Brown M, Dammann H, DuCloux W, Elems C, Hawryluk T, Hernandez C, Johnson LA, Koschmann C, Lugovaz I, Moon B, Moore S, Porter M, Purvis U, Riva J, Shaw C, Wessinger A. Evaluation of the VIDAS Staph Enterotoxin II (SET 2) Immunoassay Method for the Detection of Staphylococcal Enterotoxins in Selected Foods: Collaborative Study. J AOAC Int 2019. [DOI: 10.1093/jaoac/91.1.164] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Abstract
A multilaboratory study was conducted to determine the limit of detection (LOD) of Staphylococcal enterotoxins (SET) in 5 foods. Cooked chicken, ham, potato salad, pasteurized liquid whole milk, and canned mushrooms were each spiked with a different enterotoxin (A, B, C1, D, or E), and tested at 0.25 and 0.5 ng/g SET levels to determine the LOD of the assay for those foods in a collaborative study. Unspiked controls were also included. A total of 19 laboratories representing government and industry participated. In this study, 1674 test portions were analyzed, of which 1638 were used in the statistical analysis. Of the 1638 test portions used in the statistical analysis, 1104 were spiked test portions, of which 1073 were positive by the VIDAS Staph enterotoxin II (SET 2) method. The detection rates at the 0.25 ng/mL level were cooked chicken, 98.2; ham, 99.0; potato salad, 99.1; liquid whole milk, 85.2; and canned mushrooms, 100. The detection rates at the 0.5 ng/mL level were cooked chicken, 97.4; ham, 98.1; potato salad, 100; liquid whole milk, 99.0; and canned mushrooms, 100. The data indicate that the SET 2 method is capable of detecting SET at 0.25 ng/g in cooked chicken, ham, potato salad, and canned mushrooms and at 0.5 ng/g in pasteurized liquid whole milk.
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20
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Feldsine PT, Leung SC, Lienau AH, Mui LA, Townsend DE, Arling V, August L, Barham D, Bohnert M, Boville A, Brookman S, Chavey C, Clements S, Davis R, Devane S, Dissel S, Gartside S, Hagel D, Hernandez C, Hopkins S, Howell M, Humbert F, Hunsucker J, Jackson J, Koch S, Kuber C, Lamb J, Lewis L, Lightfoot B, Lin W, Musch S, Nieves K, Poumeyrol M, Qvist S, Rice J, Solis D, Terry J, in’t Veld P, Voermans R, Warburton D, Welch J. Enumeration of Total Aerobic Microorganisms in Foods by SimPlate® Total Plate Count–Color Indicator Methods and Conventional Culture Methods: Collaborative Study. J AOAC Int 2019. [DOI: 10.1093/jaoac/86.2.257] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Abstract
The relative efficacy of the SimPlate® Total Plate Count–Color Indicator (TPC–CI) method (SimPlate 35°C) was compared with the AOAC Official Method 966.23 (AOAC 35°C) for enumeration of total aerobic microorganisms in foods. The SimPlate TPC–CI method, incubated at 30°C (SimPlate 30°C), was also compared with the International Organization for Standardization (ISO) 4833 method (ISO 30°C). Six food types were analyzed: ground black pepper, flour, nut meats, frozen hamburger patties, frozen fruits, and fresh vegetables. All foods tested were naturally contaminated. Nineteen laboratories throughout North America and Europe participated in the study. Three method comparisons were conducted. In general, there was <0.3 mean log count difference in recovery among the SimPlate methods and their corresponding reference methods. Mean log counts between the 2 reference methods were also very similar. Repeatability (sr) and reproducibility (sR) standard deviations were similar among the 3 method comparisons. The SimPlate method (35°C) and the AOAC method were comparable for enumerating total aerobic microorganisms in foods. Similarly, the SimPlate method (30°C) was comparable to the ISO method when samples were prepared and incubated according to the ISO method.
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Affiliation(s)
| | | | - Andrew H Lienau
- BioControl Systems Inc., 12822 SE 32nd St, Bellevue, WA 98005
| | - Linda A Mui
- BioControl Systems Inc., 12822 SE 32nd St, Bellevue, WA 98005
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21
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Feldsine PT, Kerr DE, Leung SC, Lienau AH, Moser RF, Mui LA, Anderson G, Beasley M, Clements S, Dillon J, Dombroski P, Forgey R, Gartside S, Hernandez C, Hopkins S, Johnson K, Meier J, Nguyen T, Ortega R, Reynolds J, Smith J, Solis D, Summers C, Terry J, Tuncan E, Vrana D, Warren W, Wood S. Visual Immunoprecipitate Assay Eight Hour Method for Detection of Enterohemorrhagic Escherichia coli O157:H7 in Raw and Cooked Beef (Modification of AOAC Official Method 996.09): Collaborative Study. J AOAC Int 2019. [DOI: 10.1093/jaoac/85.5.1029] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Abstract
AOAC Official Method 996.09, Visual Immunoprecipitate Assay (VIP®) for Escherichia coli O157:H7, was modified to incorporate a new enrichment protocol using BioControl EHEC8™ medium for testing raw and cooked beef. Foods were tested by VIP assay and the U.S. Department of Agriculture/Food Safety and Inspection Service (USDA/FSIS) enrichment procedure and the FDA Bacteriological Analytical Manual (BAM) isolation and confirmation techniques. A total of 15 collaborators participated. Raw and cooked ground beef were inoculated with E. coli O157:H7 at 2 different levels: a high level, where predominantly positive results were expect d, and a low level where fractional recovery was anticipated. Collaborators tested 396 test portions and controls by both methods, for a total of 792 test portions. Of the 396 paired test portions, 75 were positive and 230 were negative by both the VIP and culture methods. Eleven test portions were presumptively positive by VIP and could not be confirmed culturally; 32 were negative by VIP, but confirmed positive by culture; and 65 were negative by the culture method, but confirmed positive by the VIP method. There was no statistical difference between results obtained with the VIP for EHEC 8 h method and the culture method except for cooked beef, where the VIP had significantly higher recovery for one inoculation level.
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Affiliation(s)
| | - David E Kerr
- BioControl Systems, Inc., 12822 SE 32nd St, Bellevue, WA 98005
| | | | - Andrew H Lienau
- BioControl Systems, Inc., 12822 SE 32nd St, Bellevue, WA 98005
| | - Ruth F Moser
- BioControl Systems, Inc., 12822 SE 32nd St, Bellevue, WA 98005
| | - Linda A Mui
- BioControl Systems, Inc., 12822 SE 32nd St, Bellevue, WA 98005
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22
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Feldsine PT, Kerr DE, Leung SC, Lienau AH, Miller SM, Mui LA, Anderson G, Beasley M, Dillon J, Dombroski P, Forgey R, Hernandez C, Hopkins S, Johnson K, Meier J, Nguyen T, Ortega R, Reynolds J, Smith J, Solis D, Summers C, Terry J, Tuncan E, Vrana D, Warren W, Wood S. Assurance® Enzyme Immunoassay Eight Hour Method for Detection of Enterohemorrhagic Escherichia coli O157:H7 in Raw and Cooked Beef (Modification of AOAC Official Method 996.10): Collaborative Study. J AOAC Int 2019. [DOI: 10.1093/jaoac/85.5.1037] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
Abstract
AOAC Official Method 996.10, Assurance® Enzyme Immunoassay (EIA) for Escherichia coli O157:H7 (EHEC), was modified to incorporate a new enrichment protocol using BioControl EHEC8™ medium for testing raw and cooked beef. Foods were tested by EIA and the U.S. Department of Agriculture/Food Safety and Inspection Service (USDA/FSIS) enrichment conditions and the FDA Bacteriological Analytical Manual (BAM) isolation and confirmation techniques. A total of 14 collaborators participated. Raw and cooked ground beef were inoculated with E. coli O157:H7 at 2 different levels: a high level where predominantly positive results were expected, and a low level where fractional recovery was anticipated. Collaborators tested 378 test portions and controls by both the 8 h EIA and the USDA/FSIS enrichment methods, for a total of 756 test portions. Of the 378 paired test portions, 75 were positive and 212 were negative by both methods. Thirteen test portions were presumptively positive by EIA and could not be confirmed culturally; 30 were negative by EIA, but confirmed positive by culture; and 65 were negative by the culture method, but confirmed positive by the EIA method. There was no statistical difference between results obtained with the Assurance EIA for EHEC 8 h method and the culture method for raw ground beef. The Assurance EIA had a significantly higher recovery for cooked beef.
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Affiliation(s)
| | - David E Kerr
- BioControl Systems, Inc., 12822 SE 32nd St, Bellevue, WA 98005
| | | | - Andrew H Lienau
- BioControl Systems, Inc., 12822 SE 32nd St, Bellevue, WA 98005
| | | | - Linda A Mui
- BioControl Systems, Inc., 12822 SE 32nd St, Bellevue, WA 98005
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Grigore E, Gherendi M, Baiasu F, Firdaouss M, Hernandez C, Weckmann A, Petersson P, Hakola A. The influence of N on the D retention within W coatings for fusion applications. Fusion Engineering and Design 2019. [DOI: 10.1016/j.fusengdes.2019.03.075] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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24
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Vives M, Hernandez A, Parramon F, Estanyol N, Pardina B, Muñoz A, Alvarez P, Hernandez C. Acute kidney injury after cardiac surgery: prevalence, impact and management challenges. Int J Nephrol Renovasc Dis 2019; 12:153-166. [PMID: 31303781 PMCID: PMC6612286 DOI: 10.2147/ijnrd.s167477] [Citation(s) in RCA: 73] [Impact Index Per Article: 14.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2018] [Accepted: 05/29/2019] [Indexed: 12/14/2022] Open
Abstract
Acute kidney injury (AKI) is a major medical problem that is of particular concern after cardiac surgery. Perioperative AKI is independently associated with an increase in short-term morbidity, costs of treatment, and long-term mortality. In this review, we explore the definition of cardiac surgery-associated acute kidney injury (CSA-AKI) and identify diverse mechanisms and risk factors contributing to the renal insult. Current theories of the pathophysiology of CSA-AKI and description of its clinical course will be addressed in this review. Data on the most promising renal protective strategies in cardiac surgery, from well-designed studies, will be scrutinized. Furthermore, diagnostic tools such as novel biomarkers of AKI and their potential utility will be discussed.
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Affiliation(s)
- M Vives
- Department of Anesthesiology & Critical Care, Clinical Research Lead, Hospital Universitari Dr Josep Trueta, Universitat de Girona, Institut d´Investigació Biomédica de Girona (IDIBGI), Girona, Spain
| | - A Hernandez
- Department of Anesthesia & Critical Care, Grupo Policlinica, Ibiza, Spain
| | - F Parramon
- Department of Anesthesiology & Critical Care Chief, Hospital Universitari Dr Josep Trueta, Universitat de Girona, Girona, Spain
| | - N Estanyol
- Department of Anesthesiology & Critical Care Chief, Hospital Universitari Dr Josep Trueta, Universitat de Girona, Girona, Spain
| | - B Pardina
- Department of Anesthesiology & Critical Care Chief, Hospital Universitari Dr Josep Trueta, Universitat de Girona, Girona, Spain
| | - A Muñoz
- Department of Anesthesiology & Critical Care Chief, Hospital Universitari Dr Josep Trueta, Universitat de Girona, Girona, Spain
| | - P Alvarez
- Department of Cardiac Surgery, Hospital Universitari Dr Josep Trueta, Universitat de Girona, Girona, Spain
| | - C Hernandez
- Department of Anesthesiology & Critical Care Chief, Hospital Universitari Dr Josep Trueta, Universitat de Girona, Girona, Spain
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25
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Aggarwal VK, Elbuluk A, Dundon J, Herrero C, Hernandez C, Vigdorchik JM, Schwarzkopf R, Iorio R, Long WJ. Surgical approach significantly affects the complication rates associated with total hip arthroplasty. Bone Joint J 2019; 101-B:646-651. [PMID: 31154834 DOI: 10.1302/0301-620x.101b6.bjj-2018-1474.r1] [Citation(s) in RCA: 122] [Impact Index Per Article: 24.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
AIMS A variety of surgical approaches are used for total hip arthroplasty (THA), all with reported advantages and disadvantages. A number of common complications can occur following THA regardless of the approach used. The purpose of this study was to compare five commonly used surgical approaches with respect to the incidence of surgery-related complications. PATIENTS AND METHODS The electronic medical records of all patients who underwent primary elective THA at a single large-volume arthroplasty centre, between 2011 and 2016, with at least two years of follow-up, were reviewed. After exclusion, 3574 consecutive patients were included in the study. There were 1571 men (44.0%) and 2003 women (56.0%). Their mean age and body mass index (BMI) was 63.0 years (sd 11.8) and 29.1 kg/m2 (sd 6.1), respectively. Data gathered included the age of the patient, BMI, the American Society of Anesthesiologists (ASA) score, estimated blood loss (EBL), length of stay (LOS), operating time, the presence of intra- or postoperative complications, type of complication, and the surgical approach. The approaches used during the study were posterior, anterior, direct lateral, anterolateral, and the northern approach. The complications that were recorded included prolonged wound drainage without infection, superficial infection, deep infection, dislocation, aseptic loosening, and periprosthetic fracture. Finally, the need for re-operation was recorded. Means were compared using analysis of variance (ANOVA) and Student's t-tests where appropriate and proportions were compared using the chi-squared test. RESULTS A total of 248 patients had 263 complications related to the surgery, with an incidence of 6.94%. The anterior approach had the highest incidence of complications (8.5% (113/1329)) and the posterior approach had the lowest, at 5.85% (97/1657; p = 0.006). Most complications were due to deep infection (22.8%), periprosthetic fracture (22.4%), and prolonged wound drainage (21.3%). The rate of dislocation was 0.84% (14/1657) with the posterior approach and 1.28% (17/1329) with the anterior approach (p = 0.32). CONCLUSION Overall, THA has a relatively low complication rate. However, the surgical approach plays a role in the incidence of complications. We found that the posterior approach had a significantly lower overall complication rate compared with the anterior approach, with an equal dislocation rate. Periprosthetic fracture and surgical site infection contributed most to the early complication rates. Cite this article: Bone Joint J 2019;101-B:646-651.
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Affiliation(s)
- Vinay K Aggarwal
- Department of Orthopaedic Surgery, NYU Langone Medical Center, New York, New York, USA
| | - A Elbuluk
- Department of Orthopaedic Surgery, NYU Langone Medical Center, New York, New York, USA
| | - J Dundon
- Department of Orthopaedic Surgery, NYU Langone Medical Center, New York, New York, USA
| | - C Herrero
- Department of Orthopaedic Surgery, NYU Langone Medical Center, New York, New York, USA
| | - C Hernandez
- Department of Orthopaedic Surgery, NYU Langone Medical Center, New York, New York, USA
| | - J M Vigdorchik
- Department of Orthopaedic Surgery, NYU Langone Medical Center, New York, New York, USA
| | - Ran Schwarzkopf
- Department of Orthopaedic Surgery, NYU Langone Medical Center, New York, New York, USA
| | - R Iorio
- Department of Orthopaedic Surgery, NYU Langone Medical Center, New York, New York, USA
| | - W J Long
- Department of Orthopaedic Surgery, NYU Langone Medical Center, New York, New York, USA
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Morales C, Giugno H, Isasmendi A, Pinheiro J, Hernandez C, Castaños C. P106 Prevalence of methicillin-resistant Staphylococcus aureus and its eradication in paediatric cystic fibrosis patients. J Cyst Fibros 2019. [DOI: 10.1016/s1569-1993(19)30400-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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27
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Lindell K, Collins E, Catanzarite L, Garvey C, Hernandez C, Mclaughlin S, Schneidman A, Meek P, Jacobs S. Equipment, access and worry about running short of oxygen: Key concerns in the ATS patient supplemental oxygen survey. Heart Lung 2019; 48:245-249. [DOI: 10.1016/j.hrtlng.2018.12.006] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2018] [Revised: 12/03/2018] [Accepted: 12/16/2018] [Indexed: 10/27/2022]
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Martinez JC, Chicas-Sett R, Godoy J, Hernandez C, Morales-Orue I, Zajac M, Zafra J, Lloret M, Lara P. EP-1443 Real-time tumor tracking in pancreatic SBRT by percutaneous US-guide implantation of transponders. Radiother Oncol 2019. [DOI: 10.1016/s0167-8140(19)31863-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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Mónaco A, Isasmendi A, Pinheiro J, Reijtman V, Mastroianni A, Hernandez C, Perez M. Aeromonas spp extraintestinal infection in children. Int J Infect Dis 2018. [DOI: 10.1016/j.ijid.2018.04.4162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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Reijtman V, Garcia M, Mastroianni A, Hernandez C, Guitter M, Felice M, Gomez S, Perez G. Epidemiology and antibiotic resistance of bacterial isolations in children with acute leukemia and bloodstream infections: Observational study. Int J Infect Dis 2018. [DOI: 10.1016/j.ijid.2018.04.4163] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022] Open
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León CM, Muñoz M, Tabares JH, Hernandez C, Florez C, Ayala MS, Ramírez JD. Analytical Performance of a Loop-Mediated Isothermal Amplification Assay for Leishmania DNA Detection in Sandflies and Direct Smears of Patients with Cutaneous Leishmaniasis. Am J Trop Med Hyg 2018; 98:1325-1331. [PMID: 29532767 PMCID: PMC5953379 DOI: 10.4269/ajtmh.17-0808] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2017] [Accepted: 12/26/2017] [Indexed: 12/12/2022] Open
Abstract
Loop-mediated isothermal amplification (LAMP) is ideal for the detection of Leishmania DNA as it is a quick and easy-to-perform test that does not require complex or sophisticated equipment or infrastructure. However, the application of this technique in the detection of Leishmania DNA has not been comprehensively analyzed to date (analytical validation). Our objective was to evaluate the sensitivity and analytical specificity (anticipated reportable range [ARR], the limit of detection [LoD], and accuracy) of LAMP targeting the 18S rRNA gene in the diagnosis of six New World Leishmania species. We then applied the validated LAMP assay across 50 samples of sandflies and 50 direct smears from a recent outbreak of cutaneous leishmaniasis in Colombia to determine its diagnostic performance. The LAMP assay exclusively amplified the DNA of Leishmania spp., and an ARR of between 1 × 104 and 1 × 10-2 equivalent parasites/mL was determined. An LoD of 1 × 10-2 equivalent parasites/mL was established and there was no statistically significant variation in terms of accuracy. Finally, a sensitivity of 100% in direct smears and sandflies samples was calculated and a specificity of 90.9% for direct smears using microscopy as reference and 96.8% for sandflies using real-time polymerase chain reaction as reference were determined. To our knowledge, this is the first attempt to analytically validate a LAMP test to detect Leishmania DNA, which showed good diagnostic potential from sandflies and direct smear samples.
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Affiliation(s)
- Cielo M. León
- Grupo de Investigaciones Microbiológicas-UR (GIMUR), Programa de Biología, Facultad de Ciencias Naturales y Matemáticas, Universidad del Rosario, Bogotá, Colombia
- Facultad de Medicina, Universidad Nacional de Colombia, Bogotá, Colombia
| | - Marina Muñoz
- Grupo de Investigaciones Microbiológicas-UR (GIMUR), Programa de Biología, Facultad de Ciencias Naturales y Matemáticas, Universidad del Rosario, Bogotá, Colombia
| | - Juan H. Tabares
- Facultad de Medicina, Universidad Nacional de Colombia, Bogotá, Colombia
| | - Carolina Hernandez
- Grupo de Investigaciones Microbiológicas-UR (GIMUR), Programa de Biología, Facultad de Ciencias Naturales y Matemáticas, Universidad del Rosario, Bogotá, Colombia
| | - Carolina Florez
- Grupo de Parasitología, Instituto Nacional de Salud, Bogotá, Colombia
| | - Martha S. Ayala
- Grupo de Parasitología, Instituto Nacional de Salud, Bogotá, Colombia
| | - Juan David Ramírez
- Grupo de Investigaciones Microbiológicas-UR (GIMUR), Programa de Biología, Facultad de Ciencias Naturales y Matemáticas, Universidad del Rosario, Bogotá, Colombia
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Firdaouss M, Desgranges C, Hernandez C, Richou M, Greuner H, Böswirth B, Zacharie-Aubrun I, Blay T, Bucalossi J, Missirlian M, Samaille F, Tsitrone E. Overview of the different processes of tungsten coating implemented into WEST tokamak. Fusion Engineering and Design 2017. [DOI: 10.1016/j.fusengdes.2017.02.087] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Hernandez C, Acuram Lovely K. Anti-hypertensive effect of Moringa oleifera. Am J Transl Res 2017. [DOI: 10.1055/s-0037-1608049] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- C Hernandez
- Institute of Chemistry, University of the Philippines Diliman, Quezon City, Philippines
| | - K Acuram Lovely
- Institute of Chemistry, University of the Philippines Diliman, Quezon City, Philippines
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Hernandez C, Hirji A, Kabbani D, Fuentes S, Mahli H, Chandrarathne S, Halloran K, Weinkauf J, Kapasi A, Lien D, Preiksaitis J, Cervera C. Influence of Donor Cytomegalovirus (CMV) Immunoglobulin G (IgG) Optical Density on CMV Transmission to CMV Naïve Lung Transplant Recipients. J Heart Lung Transplant 2017. [DOI: 10.1016/j.healun.2017.01.113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022] Open
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Hirji A, Kabbani D, Hernandez C, Malhi H, Chandrarathne S, Halloran K, Kapasi A, Weinkauf J, Lien D, Preiksaitis J, Cervera C. Is There a Role for Pre-Transplant Cytomegalovirus (CMV) Immunoglobulin G Optical Density to Predict CMV Infection in Seropositive Lung Transplant Recipients? J Heart Lung Transplant 2017. [DOI: 10.1016/j.healun.2017.01.627] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022] Open
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Grigore E, Gherendi M, Hernandez C, Desgranges C, Firdaouss M. Tungsten coatings for application in WEST project. Nuclear Materials and Energy 2016. [DOI: 10.1016/j.nme.2016.09.003] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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Beltran P, Espinoza C, Hernandez C, Chavez D, Reyna W, Cruz G, Perez Campos E. Ascariasis as cause of intestinal occlusion and concurrent appendicitis. Trop Biomed 2016; 33:833-836. [PMID: 33579082] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Intestinal occlusion by ascariasis is a commonly seen socio-economic status low, is associated with poor sanitary hygiene. It is rare to see a case with both intestinal occlusion and appendicitis at the same time, as described in this report.
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Affiliation(s)
| | - C Espinoza
- Department of Anesthesiology IMSS HRO-24
| | | | - D Chavez
- Rural Anesthesiology IMSS HRO-24
| | - W Reyna
- Rural Hospital of Opportunities number 24 Mexican Institute of Social Security (IMSS HRO 24)
- Faculty of Medicine and Surgery Autonomous University Benito Juarez of Oaxaca (UABJO)
| | - G Cruz
- Faculty of Medicine and Surgery Autonomous University Benito Juarez of Oaxaca (UABJO)
| | - E Perez Campos
- Faculty of Medicine and Surgery Autonomous University Benito Juarez of Oaxaca (UABJO)
- Immunology and Biochemistry Unit ITO-UNAM
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Ferchaud AL, Perrier C, April J, Hernandez C, Dionne M, Bernatchez L. Making sense of the relationships between Ne, Nb and Nc towards defining conservation thresholds in Atlantic salmon (Salmo salar). Heredity (Edinb) 2016; 117:268-78. [PMID: 27530910 PMCID: PMC5026759 DOI: 10.1038/hdy.2016.62] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2015] [Revised: 06/23/2016] [Accepted: 06/29/2016] [Indexed: 01/13/2023] Open
Abstract
Effective population size over a generation (Ne) or over a reproductive cycle (Nb) and the adult census size (Nc) are important parameters in both conservation and evolutionary biology. Ne provides information regarding the rate of loss of genetic diversity and can be tracked back in time to infer demographic history of populations, whereas Nb may often be more easily quantified than Nc for short-term abundance monitoring. In this study, we propose (1) an empirical context to Waples et al. (2014) who introduced a correction to bias due to overlapping generations, and (2) a mathematical relationship between Ne and Nb for direct application in Atlantic salmon populations in Québec, Canada. To achieve this, we investigate the relationships between Ne, Nb and Nc in 10 Atlantic salmon populations, Canada, for which we genotyped 100 randomly sampled young-of-the year individuals for 5 consecutive years. The results show a positive correlation between Ne, Nb and Nc, suggesting that Nb is an indicative parameter for tracking effective population size and abundance of Atlantic salmon. However, our model allows predicting Nc from Nb values at 27% that can be partly explained by high variance in Nb/Nc both among populations (37%) and among years (19%). This result illustrates the need for thorough calibration of Nb/Nc before using Nb in monitoring programs, as well as a full understanding of the limits of such an approach. Finally, we discuss the importance of these results for the management of wild populations.
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Affiliation(s)
- A-L Ferchaud
- Département de Biologie, Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, Canada
| | - C Perrier
- Département de Biologie, Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, Canada
- Centre d'Ecologie Fonctionnelle et Evolutive (UMR 5175 CNRS), Montpellier, France
| | - J April
- Direction de la Faune Aquatique, Ministère des Forêts, de la Faune et des Parcs du Québec, Québec, Canada
| | - C Hernandez
- Département de Biologie, Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, Canada
| | - M Dionne
- Direction de la Faune Aquatique, Ministère des Forêts, de la Faune et des Parcs du Québec, Québec, Canada
| | - L Bernatchez
- Département de Biologie, Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, Canada
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Lopez MA, Martin R, Hernandez C, Navarro JF, Navarro T, Perez B, Sierra I. THE CHALLENGE OF CIEMAT INTERNAL DOSIMETRY SERVICE FOR ACCREDITATION ACCORDING TO ISO/IEC 17025 STANDARD, FOR IN VIVO AND IN VITRO MONITORING AND DOSE ASSESSMENT OF INTERNAL EXPOSURES. Radiat Prot Dosimetry 2016; 170:31-34. [PMID: 26433182 DOI: 10.1093/rpd/ncv387] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
The accreditation of an Internal Dosimetry Service (IDS) according to ISO/IEC 17025 Standard is a challenge. The aim of this process is to guarantee the technical competence for the monitoring of radionuclides incorporated in the body and for the evaluation of the associated committed effective dose E(50). This publication describes the main accreditation issues addressed by CIEMAT IDS regarding all the procedures involving good practice in internal dosimetry, focussing in the difficulties to ensure the traceability in the whole process, the appropriate calculation of detection limit of measurement techniques, the validation of methods (monitoring and dose assessments), the description of all the uncertainty sources and the interpretation of monitoring data to evaluate the intake and the committed effective dose.
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Affiliation(s)
- M A Lopez
- Radiation Dosimetry Unit, CIEMAT, Centro de Investigaciones Energéticas Medioambientales y Tecnológicas, Avda. Complutense 40, 28040 Madrid, Spain
| | - R Martin
- Radiation Dosimetry Unit, CIEMAT, Centro de Investigaciones Energéticas Medioambientales y Tecnológicas, Avda. Complutense 40, 28040 Madrid, Spain
| | - C Hernandez
- Radiation Dosimetry Unit, CIEMAT, Centro de Investigaciones Energéticas Medioambientales y Tecnológicas, Avda. Complutense 40, 28040 Madrid, Spain
| | - J F Navarro
- Radiation Dosimetry Unit, CIEMAT, Centro de Investigaciones Energéticas Medioambientales y Tecnológicas, Avda. Complutense 40, 28040 Madrid, Spain
| | - T Navarro
- Radiation Dosimetry Unit, CIEMAT, Centro de Investigaciones Energéticas Medioambientales y Tecnológicas, Avda. Complutense 40, 28040 Madrid, Spain
| | - B Perez
- Radiation Dosimetry Unit, CIEMAT, Centro de Investigaciones Energéticas Medioambientales y Tecnológicas, Avda. Complutense 40, 28040 Madrid, Spain
| | - I Sierra
- Radiation Dosimetry Unit, CIEMAT, Centro de Investigaciones Energéticas Medioambientales y Tecnológicas, Avda. Complutense 40, 28040 Madrid, Spain
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Berberian G, Castro G, Monaco A, Lopardo H, Hernandez C, Rosanova M. Community acquired Staphylococcus aureus infection in previously healthy neonates in Argentina. Int J Infect Dis 2016. [DOI: 10.1016/j.ijid.2016.02.731] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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Rencic J, Liles A, Hernandez C. 397 THE RELATIONSHIP BETWEEN PATIENT RACE AND PATIENTS' PERCEPTIONS OF THEIR PHYSICIANS' CULTURAL COMPETENCE AND PATIENT-CENTERED COMMUNICATION SKILLS. J Investig Med 2015. [DOI: 10.2310/6650.2005.00006.396] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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Li C, Battisti P, Berard P, Cazoulat A, Cuellar A, Cruz-Suarez R, Dai X, Giardina I, Hammond D, Hernandez C, Kiser S, Ko R, Kramer-Tremblay S, Lecompte Y, Navarro E, Navas C, Sadi B, Sierra I, Verrezen F, Lopez MA. EURADOS intercomparison on emergency radiobioassay. Radiat Prot Dosimetry 2015; 167:472-484. [PMID: 25543132 DOI: 10.1093/rpd/ncu366] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2014] [Accepted: 12/03/2014] [Indexed: 06/04/2023]
Abstract
Nine laboratories participated in an intercomparison exercise organised by the European Radiation Dosimetry Group (EURADOS) for emergency radiobioassay involving four high-risk radionuclides ((239)Pu, (241)Am, (90)Sr and (226)Ra). Diverse methods of analysis were used by the participating laboratories for the in vitro determination of each of the four radionuclides in urine samples. Almost all the methods used are sensitive enough to meet the requirements for emergency radiobioassay derived for this project in reference to the Clinical Decision Guide introduced by the NCRP. Results from most of the methods meet the requirements of ISO 28218 on accuracy in terms of relative bias and relative precision. However, some technical gaps have been identified. For example, some laboratories do not have the ability to assay samples containing (226)Ra, and sample turnaround time would be expected to be much shorter than that reported by many laboratories, as timely results for internal contamination and early decisions on medical intervention are highly desired. Participating laboratories are expected to learn from each other on the methods used to improve the interoperability among these laboratories.
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Affiliation(s)
- Chunsheng Li
- Radiation Protection Bureau, Health Canada, Ottawa, Canada K1A 1C1
| | | | - Philippe Berard
- French Alternative Energies and Atomic Energy Commission, Fontenay aux Roses, France
| | - Alain Cazoulat
- Laboratoire de Contrôle Radiotoxicologique, Service de Protection Radiologique des Armées, Clamart, France
| | | | | | - Xiongxin Dai
- Chalk River Laboratory, Atomic Energy of Canada Limited, Chalk River, Canada K0J 1J0
| | | | | | - Carolina Hernandez
- Centro de Investigaciones Energéticas, Medioambientales y Tecnológicas, Madrid 28040, Spain
| | - Stephen Kiser
- Radiation Protection Bureau, Health Canada, Ottawa, Canada K1A 1C1
| | - Raymond Ko
- Radiation Protection Bureau, Health Canada, Ottawa, Canada K1A 1C1
| | | | - Yannick Lecompte
- Laboratoire de Contrôle Radiotoxicologique, Service de Protection Radiologique des Armées, Clamart, France
| | | | | | - Baki Sadi
- Radiation Protection Bureau, Health Canada, Ottawa, Canada K1A 1C1
| | - Inmaculada Sierra
- Centro de Investigaciones Energéticas, Medioambientales y Tecnológicas, Madrid 28040, Spain
| | - Freddy Verrezen
- Belgium Nuclear Research Center, SCK-CEN, Mol B-2400, Belgium
| | - Maria A Lopez
- Centro de Investigaciones Energéticas, Medioambientales y Tecnológicas, Madrid 28040, Spain
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Cruz C, Hernandez C, Parra S, Campuzano J, Calleja J, Hernandez A. Stroke in México: mortality trends 1980-2012. J Neurol Sci 2015. [DOI: 10.1016/j.jns.2015.08.678] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Buron A, Macia F, Grau J, Andreu M, Comas M, Salvador M, Hernandez C, Castells X, Castells A. Enhancing colorectal cancer screening evaluation: a proposal of comprehensive indicators. Eur J Public Health 2015. [DOI: 10.1093/eurpub/ckv176.063] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Richou M, Missirlian M, Guilhem D, Lipa M, Languille P, Ferlay F, Gallay F, Greuner H, Hernandez C, Firdaouss M, Bucalossi J. Design and preliminary thermal validation of the WEST actively cooled upper divertor. Fusion Engineering and Design 2015. [DOI: 10.1016/j.fusengdes.2014.12.017] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Verna EC, Patel J, Bettencourt R, Nguyen P, Hernandez C, Valasek MA, Kisselva T, Brenner DA, Loomba R. Novel association between serum pentraxin-2 levels and advanced fibrosis in well-characterised patients with non-alcoholic fatty liver disease. Aliment Pharmacol Ther 2015; 42:582-90. [PMID: 26119353 PMCID: PMC7979413 DOI: 10.1111/apt.13292] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/21/2015] [Revised: 04/28/2015] [Accepted: 06/02/2015] [Indexed: 02/06/2023]
Abstract
BACKGROUND Pentraxin-2 (PTX-2), a serum protein, inhibits inflammation and fibrosis, and recombinant PTX-2 is being tested as an anti-fibrotic agent. AIM To evaluate the association between serum PTX-2 levels and fibrosis stage in patients with non-alcoholic fatty liver disease (NAFLD). METHODS Serum pentraxin-2 levels were compared between four groups of well-characterised patients including NAFLD with no fibrosis, NAFLD with mild-moderate fibrosis (stage 1-2), NAFLD with advanced fibrosis (stage 3-4), and age-sex matched non-NAFLD controls. RESULTS Sixty subjects were included in the study. The mean age was 58.9 years, 68% were male and 58% were Caucasian. In univariate analysis, serum PTX-2 levels significantly decreased from non-NAFLD controls to mild NAFLD with no fibrosis, to NAFLD with mild-moderate fibrosis and were lowest in patients with NAFLD and advanced fibrosis, in a dose-dependent manner (P < 0.0001). In multivariable-adjusted analyses controlling for age, sex, albumin, and CRP, the results remained consistent and statistically significant. Serum PTX-2 level had an AUROC of 0.84 (95% CI: 0.71-0.97) for the diagnosis of NAFLD, and an AUROC of 0.77 (95% CI: 0.65-0.90) for the diagnosis of advanced fibrosis in NAFLD. Serum PTX-2 levels also decreased with increasing liver stiffness as estimated by magnetic resonance elastography (r = -0.31, P = 0.02). CONCLUSIONS PTX-2 levels are significantly lower in patients with NAFLD compared to non-NAFLD controls, and decline further in patients with advanced fibrosis. PTX-2 may therefore be both a biomarker of disease and a potential target for anti-fibrotic therapy with the recombinant pentraxin-2.
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Affiliation(s)
- E. C. Verna
- Center for Liver Disease and Transplantation, Columbia University College of Physicians and Surgeons, New York, NY, USA
| | - J. Patel
- Internal Medicine, Department of Medicine, University of California at San Diego, La Jolla, CA, USA
| | - R. Bettencourt
- NAFLD Translational Research Unit, University of California at San Diego, La Jolla, CA, USA,Division of Epidemiology, Department of Family and Preventive Medicine, University of California at San Diego, La Jolla, CA, USA
| | - P. Nguyen
- NAFLD Translational Research Unit, University of California at San Diego, La Jolla, CA, USA,Division of Gastroenterology, Department of Medicine, University of California at San Diego, La Jolla, CA, USA
| | - C. Hernandez
- NAFLD Translational Research Unit, University of California at San Diego, La Jolla, CA, USA,Division of Gastroenterology, Department of Medicine, University of California at San Diego, La Jolla, CA, USA
| | - M. A. Valasek
- Department of Pathology, University of California at San Diego, La Jolla, CA, USA
| | - T. Kisselva
- Division of Gastroenterology, Department of Medicine, University of California at San Diego, La Jolla, CA, USA
| | - D. A. Brenner
- Division of Gastroenterology, Department of Medicine, University of California at San Diego, La Jolla, CA, USA
| | - R. Loomba
- NAFLD Translational Research Unit, University of California at San Diego, La Jolla, CA, USA,Division of Gastroenterology, Department of Medicine, University of California at San Diego, La Jolla, CA, USA,Division of Epidemiology, Department of Family and Preventive Medicine, University of California at San Diego, La Jolla, CA, USA
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Krause B, Carrasco-Wong I, Hernandez C, Uauy R, Casanello P. Epigenetics and endothelial heterogeneity in the umbilico-placental unit: A landscape for epigenetic programming of vascular function. Placenta 2015. [DOI: 10.1016/j.placenta.2015.01.401] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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49
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McDermott N, Meunier A, Hernandez C, Bowman K, Jones G, Marignol L. EP-1237: Identification of MiRNAs associated with radioresistance in a prostate cancer model. Radiother Oncol 2015. [DOI: 10.1016/s0167-8140(15)41229-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Crespo MJ, Casiano H, Morales M, Torres H, Torres‐Grajales M, Hernandez C, Rivera M, Cruz N, Quidgley J. Deleterious Effects of Low and Medium Doses of Clonidine on Left Ventricular Function in Diabetic Rats. FASEB J 2015. [DOI: 10.1096/fasebj.29.1_supplement.1043.5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- M J. Crespo
- PhysiologyUPR‐School of MedicineSan JuanPuerto Rico
- AnesthesiologyUPR‐School of MedicineSan JuanPuerto Rico
| | - H Casiano
- AnesthesiologyUPR‐School of MedicineSan JuanPuerto Rico
| | - M Morales
- AnesthesiologyUPR‐School of MedicineSan JuanPuerto Rico
| | - H Torres
- AnesthesiologyUPR‐School of MedicineSan JuanPuerto Rico
| | | | - C Hernandez
- AnesthesiologyUPR‐School of MedicineSan JuanPuerto Rico
| | - M Rivera
- AnesthesiologyUPR‐School of MedicineSan JuanPuerto Rico
| | - N Cruz
- PhysiologyUPR‐School of MedicineSan JuanPuerto Rico
| | - J Quidgley
- PhysiologyUPR‐School of MedicineSan JuanPuerto Rico
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