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Erratum for Feldgarden et al., "Validating the AMRFinder Tool and Resistance Gene Database by Using Antimicrobial Resistance Genotype-Phenotype Correlations in a Collection of Isolates".

Michael Feldgarden, Vyacheslav Brover, Daniel H Haft, Arjun B Prasad, Douglas J Slotta, Igor Tolstoy, Gregory H Tyson, Shaohua Zhao, Chih-Hao Hsu, Patrick F McDermott, Daniel A Tadesse, Cesar Morales, Mustafa Simmons, Glenn Tillman, Jamie Wasilenko, Jason P Folster, William Klimke,

Antimicrob. Agents Chemother. (Antimicrobial agents and chemotherapy)
[2020, 64(4):]

Cited: 1 time

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Validating the AMRFinder Tool and Resistance Gene Database by Using Antimicrobial Resistance Genotype-Phenotype Correlations in a Collection of Isolates.

Michael Feldgarden, Vyacheslav Brover, Daniel H Haft, Arjun B Prasad, Douglas J Slotta, Igor Tolstoy, Gregory H Tyson, Shaohua Zhao, Chih-Hao Hsu, Patrick F McDermott, Daniel A Tadesse, Cesar Morales, Mustafa Simmons, Glenn Tillman, Jamie Wasilenko, Jason P Folster, William Klimke,

Antimicrobial resistance (AMR) is a major public health problem that requires publicly available tools for rapid analysis. To identify AMR genes in whole-genome sequences, the National Center for Biotechnology Information (NCBI) has produced AMRFinder, a tool that identifies AMR genes using a high-quality curated AMR gene reference database. The Bacterial ... Read more >>

Antimicrob Agents Chemother (Antimicrobial agents and chemotherapy)
[2019, 63(11):]

Cited: 28 times

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Genomic Analysis of Emerging Florfenicol-Resistant Campylobacter coli Isolated from the Cecal Contents of Cattle in the United States.

Shaohua Zhao, Sampa Mukherjee, Chih-Hao Hsu, Shenia Young, Cong Li, Heather Tate, Cesar A Morales, Jovita Haro, Sutawee Thitaram, Glenn E Tillman, Uday Dessai, Patrick McDermott,

Genomic analyses were performed on florfenicol-resistant (FFNr) Campylobacter coli isolates recovered from cattle, and the cfr(C) gene-associated multidrug resistance (MDR) plasmid was characterized. Sixteen FFNr C. coli isolates recovered between 2013 and 2018 from beef cattle were sequenced using MiSeq. Genomes and plasmids were found to be closed for three ... Read more >>

mSphere (mSphere)
[2019, 4(3):]

Cited: 0 times

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Genomic Analysis of Emerging Florfenicol-Resistant Campylobacter coli Isolated from the Intestinal Cecal Contents of Cattle in the United States

Shaohua Zhao, Sampa Mukherjee, Chih-Hao Hsu, Shenia Young, Cong Li, Heather Tate, Cesar Morales, Jovita Haro, Sutawee Thitaram, Glenn Tillman, Uday Dessai, Patrick McDermott,

Abstract Objective Genomic analyses were performed on florfenicol resistant (FFN R ) Campylobacter coli ( C. coli ) isolated from cattle and the cfr (C) gene-associated multi-drug resistance (MDR) plasmid was characterized. Methods Sixteen FFN R C. coli isolates recovered between 2013-2018 from beef cattle were sequenced using MiSeq. Genomes ... Read more >>

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Using the NCBI AMRFinder Tool to Determine Antimicrobial Resistance Genotype-Phenotype Correlations Within a Collection of NARMS Isolates

Michael Feldgarden, Vyacheslav Brover, Daniel Haft, Arjun Prasad, Douglas Slotta, Igor Tolstoy, Gregory Tyson, Shaohua Zhao, Chih-Hao Hsu, Patrick McDermott, Daniel Tadesse, Cesar Morales, Mustafa Simmons, Glenn Tillman, Jamie Wasilenko, Jason Folster, William Klimke,

Abstract Antimicrobial resistance (AMR) is a major public health problem that requires publicly available tools for rapid analysis. To identify acquired AMR genes in whole genome sequences, the National Center for Biotechnology Information (NCBI) has produced a high-quality, curated, AMR gene reference database consisting of up-to-date protein and gene nomenclature, ... Read more >>

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Cited: 4 times

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Proposed Epidemiological Cutoff Values for Ceftriaxone, Cefepime, and Colistin in Salmonella.

Gregory H Tyson, Sonya Bodeis-Jones, Hayat Caidi, Kimberly Cook, Uday Dessai, Jovita Haro, Andre E McCullough, Jianghong Meng, Cesar A Morales, Jodie Plumblee Lawrence, Glenn E Tillman, Angela Winslow, Ron A Miller,

We tested a diverse set of 500 isolates of nontyphoidal Salmonella enterica subsp. enterica from various animal, food, and human clinical sources for susceptibility to antimicrobials currently lacking epidemiological cutoff values (ECOFFs) set by the European Committee on Antimicrobial Susceptibility Testing. A consortium of five different laboratories each tested 100 ... Read more >>

Foodborne Pathog Dis (Foodborne pathogens and disease)
[2018, 15(11):701-704]

Cited: 0 times

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Comparative Analysis of Extended-Spectrum-β-Lactamase CTX-M-65-Producing Salmonella enterica Serovar Infantis Isolates from Humans, Food Animals, and Retail Chickens in the United States.

Heather Tate, Jason P Folster, Chih-Hao Hsu, Jessica Chen, Maria Hoffmann, Cong Li, Cesar Morales, Gregory H Tyson, Sampa Mukherjee, Allison C Brown, Alice Green, Wanda Wilson, Uday Dessai, Jason Abbott, Lavin Joseph, Jovita Haro, Sherry Ayers, Patrick F McDermott, Shaohua Zhao,

We sequenced the genomes of 10 Salmonella enterica serovar Infantis isolates containing blaCTX-M-65 obtained from chicken, cattle, and human sources collected between 2012 and 2015 in the United States through routine National Antimicrobial Resistance Monitoring System (NARMS) surveillance and product sampling programs. We also completely assembled the plasmids from four ... Read more >>

Antimicrob. Agents Chemother. (Antimicrobial agents and chemotherapy)
[2017, 61(7):]

Cited: 19 times

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Human Papilloma Virus Detection by INNOLiPA HPV in Prostate Tissue from Men of Northeast Mexico

Martha I Dávila-Rodríguez, Cesar V Ignacio Morales, Anel R Aragón Tovar, Delia Olache Jimenez, Edmundo Castelán Maldonado, Sandra Lara Miranda, Elva I Cortés Gutiérrez,

Background: Prostatic adenocarcinoma by Prosate cancer (PCa) is the most prevalent cancer and the second cause of cancer-related death among men in the Western world. Human papilloma virus (HPV) may be considered as a preventable risk factor. In this study, we assessed the frequencies of HPV infection in prostatic adenocarcinoma and benign ... Read more >>

Asian Pac J Cancer Prev (Asian Pacific journal of cancer prevention : APJCP)
[2016, 17(11):4863-4865]

Cited: 2 times

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A mathematics-based new penalty area in football: tackling diving.

César A Morales,

A novel penalty area (PA) for football (soccer) is proposed; it is based on considering mathematically the actual scoring possibility on the 2 dimensions near the goal. It is shown that the 150-year-old rectangular area is mathematically disproportionate; this can be causing too much diving or simulation by players around ... Read more >>

J Sports Sci (Journal of sports sciences)
[2016, 34(24):2233-2237]

Cited: 0 times

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Reduction of Salmonella Enteritidis in the spleens of hens by bacterins that vary in fimbrial protein SefD.

Roxana Sanchez-Ingunza, Jean Guard, Cesar A Morales, Alan H Icard,

The objective of this research was to determine whether variation in the presence of fimbrial protein SefD would impact efficacy of bacterins as measured by recovery of Salmonella enterica serovar Enteritidis (Salmonella Enteritidis) from the spleens of hens. Two bacterins were prepared that varied in SefD content. Also, two adjuvants ... Read more >>

Foodborne Pathog Dis (Foodborne pathogens and disease)
[2015, 12(10):836-843]

Cited: 2 times

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The poultry-associated microbiome: network analysis and farm-to-fork characterizations.

Brian B Oakley, Cesar A Morales, J Line, Mark E Berrang, Richard J Meinersmann, Glenn E Tillman, Mark G Wise, Gregory R Siragusa, Kelli L Hiett, Bruce S Seal,

Microbial communities associated with agricultural animals are important for animal health, food safety, and public health. Here we combine high-throughput sequencing (HTS), quantitative-PCR assays, and network analysis to profile the poultry-associated microbiome and important pathogens at various stages of commercial poultry production from the farm to the consumer. Analysis of ... Read more >>

PLoS One (PloS one)
[2013, 8(2):e57190]

Cited: 39 times

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Comparison of dkgB-linked intergenic sequence ribotyping to DNA microarray hybridization for assigning serotype to Salmonella enterica.

Jean Guard, Roxana Sanchez-Ingunza, Cesar Morales, Tod Stewart, Karen Liljebjelke, Joann Van Kessel, Kim Ingram, Deana Jones, Charlene Jackson, Paula Fedorka-Cray, Jonathan Frye, Richard Gast, Arthur Hinton,

Two DNA-based methods were compared for the ability to assign serotype to 139 isolates of Salmonella enterica ssp. I. Intergenic sequence ribotyping (ISR) evaluated single nucleotide polymorphisms occurring in a 5S ribosomal gene region and flanking sequences bordering the gene dkgB. A DNA microarray hybridization method that assessed the presence ... Read more >>

FEMS Microbiol Lett (FEMS microbiology letters)
[2012, 337(1):61-72]

Cited: 16 times

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Serum cystatin C: a non-invasive marker of liver fibrosis or of current liver fibrogenesis in chronic hepatitis C? .

José M Ladero, María C Cárdenas, Luis Ortega, Andrea González-Pino, Francisca Cuenca, César Morales, Anna Lee-Brunner,

BACKGROUND: Serum levels of cystatin C, an endogenous inhibitor of cysteine proteases, provide an alternative method to creatinine-based criteria for measuring glomerular filtration rate. Preliminary data suggested that serum cystatin C levels parallel with the stage of liver fibrosis in chronic liver disorders. Our aim has been to evaluate the ... Read more >>

Ann Hepatol (Annals of hepatology)
[2012, 11(5):648-651]

Cited: 4 times

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Virulence and metabolic characteristics of Salmonella enterica serovar enteritidis strains with different sefD variants in hens.

Cesar A Morales, Jean Guard, Roxana Sanchez-Ingunza, Devendra H Shah, Mark Harrison,

Salmonella enterica serovar Enteritidis is one of a few Salmonella enterica serotypes that has SEF14 fimbriae encoded by the sef operon, which consists of 4 cotranscribed genes, sefABCD, regulated by sefR. A parental strain was used to construct a sefD mutant and its complement, and all 3 strains were compared ... Read more >>

Appl Environ Microbiol (Applied and environmental microbiology)
[2012, 78(18):6405-6412]

Cited: 4 times

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Recombinant Expression of a Putative Amidase Cloned from the Genome of Listeria monocytogenes that Lyses the Bacterium and its Monolayer in Conjunction with a Protease.

Mustafa Simmons, Cesar A Morales, Brian B Oakley, Bruce S Seal,

Listeria monocytogenes is a Gram-positive, non-spore forming, catalase-positive rod that is a major bacterial food-borne disease agent associated with uncooked meats, including poultry, uncooked vegetables, soft cheeses, and unpasteurized milk. The bacterium may be carried by animals without signs of disease, can replicate at refrigeration temperatures, and is frequently associated ... Read more >>

Probiotics Antimicrob Proteins (Probiotics and antimicrobial proteins)
[2012, 4(1):1-10]

Cited: 5 times

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Application of high-throughput sequencing to measure the performance of commonly used selective cultivation methods for the foodborne pathogen Campylobacter.

Brian B Oakley, Cesar A Morales, J Eric Line, Bruce S Seal, Kelli L Hiett,

Campylobacter is an important foodborne human pathogen, which has traditionally been studied using a variety of selective cultivation methods. Here we use next-generation sequencing to ask the following: (i) how selective are commonly used Campylobacter cultivation methods relative to the initial sample and (ii) how do the specificity and sensitivity ... Read more >>

FEMS Microbiol Ecol (FEMS microbiology ecology)
[2012, 79(2):327-336]

Cited: 14 times

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Single nucleotide polymorphisms that differentiate two subpopulations of Salmonella enteritidis within phage type.

Jean Guard, Cesar A Morales, Paula Fedorka-Cray, Richard K Gast,

BACKGROUND: Salmonella Enteritidis is currently the world's leading cause of salmonellosis, in part because of its ability to contaminate the internal contents of eggs. Previous analyses have shown that it is an exceptionally clonal serotype, which nonetheless generates considerable phenotypic heterogeneity. Due to its clonality, whole genome analysis is required ... Read more >>

BMC Res Notes (BMC research notes)
[2011, 4:369]

Cited: 31 times

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Comparative genomics of four closely related Clostridium perfringens bacteriophages reveals variable evolution among core genes with therapeutic potential.

Brian B Oakley, Eldin Talundzic, Cesar A Morales, Kelli L Hiett, Gregory R Siragusa, Nikolay V Volozhantsev, Bruce S Seal,

BACKGROUND: Because biotechnological uses of bacteriophage gene products as alternatives to conventional antibiotics will require a thorough understanding of their genomic context, we sequenced and analyzed the genomes of four closely related phages isolated from Clostridium perfringens, an important agricultural and human pathogen. RESULTS: Phage whole-genome tetra-nucleotide signatures and proteomic ... Read more >>

BMC Genomics (BMC genomics)
[2011, 12(1):282]

Cited: 14 times

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Detection of Salmonella enterica subpopulations by phenotype microarray antibiotic resistance patterns.

Jean Guard-Bouldin, Cesar A Morales, Jonathan G Frye, Richard K Gast, Michael Musgrove,

Three strains of Salmonella enterica serotype Enteritidis were compared to Salmonella enterica serotype Heidelberg, Salmonella enterica serotype Newport, and Salmonella enterica serovar Typhimurium for growth in the presence of 240 antibiotics arranged within a commercial high-throughput phenotype microarray. The results show that antibiotic resistances were different for subpopulations of serotype ... Read more >>

Appl. Environ. Microbiol. (Applied and environmental microbiology)
[2007, 73(23):7753-7756]

Cited: 6 times

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Pathotyping of Salmonella enterica by analysis of single-nucleotide polymorphisms in cyaA and flanking 23S ribosomal sequences.

Cesar A Morales, Michael Musgrove, T J Humphrey, Carolyn Cates, Richard Gast, J Guard-Bouldin,

The egg-contaminating phenotype of Salmonella enterica serotype Enteritidis was linked to single-nucleotide polymorphisms (SNPs) occurring in cyaA, which encodes adenylate cyclase that produces cAMP and pyrophosphate from ATP. Ribotyping indicated that SNPs in cyaA were linked to polymorphisms occurring in the rrlC and rrlA 23S ribosomal subunits. Phylogenetic analysis of ... Read more >>

Environ Microbiol (Environmental microbiology)
[2007, 9(4):1047-1059]

Cited: 7 times

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Linkage of avian and reproductive tract tropism with sequence divergence adjacent to the 5S ribosomal subunit rrfH of Salmonella enterica.

Cesar A Morales, Richard Gast, Jean Guard-Bouldin,

The 183 bp between the end of the 23S rrlH rRNA gene and the start of the 5S rrfH rRNA gene (ISR-1) and the 197 bp between the end of the rrfH rRNA gene and the start of the transfer RNA aspU (ISR-2) of Salmonella enterica ssp. enterica serotypes Enteritidis, ... Read more >>

FEMS Microbiol. Lett. (FEMS microbiology letters)
[2006, 264(1):48-58]

Cited: 11 times

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[The Chilaiditi syndrome and associated volvulus of the transverse colon].

Neil Flores, César Ingar, Juan Sánchez, José Fernández, César Lazarte, José Málaga, Marco Medina, Raúl Herrera, César Morales,

Hepatodiaphragmatic interposition of the colon, known as Chilaiditi's sign, is generally discovered by chance, during an x-ray study for a different cause as its appearance usually lacks symptoms. When the discovery is accompanied by clinical symptoms such as: abdominal pain, nausea, vomiting, constipation, it is known as the Chilaiditi's syndrome. ... Read more >>

Rev Gastroenterol Peru (Revista de gastroenterologia del Peru : organo oficial de la Sociedad de Gastroenterologia del Peru)
[2005, 25(3):279-284]

Cited: 2 times

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Correlation of phenotype with the genotype of egg-contaminating Salmonella enterica serovar Enteritidis.

Cesar A Morales, Steffen Porwollik, Jonathan G Frye, Hailu Kinde, Michael McClelland, Jean Guard-Bouldin,

The genotype of Salmonella enterica serovar Enteritidis was correlated with the phenotype using DNA-DNA microarray hybridization, ribotyping, and Phenotype MicroArray analysis to compare three strains that differed in colony morphology and phage type. No DNA hybridization differences were found between two phage type 13A (PT13A) strains that varied in biofilm ... Read more >>

Appl Environ Microbiol (Applied and environmental microbiology)
[2005, 71(8):4388-4399]

Cited: 33 times

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Subpopulation characteristics of egg-contaminating Salmonella enterica serovar Enteritidis as defined by the lipopolysaccharide O chain.

Jean Guard-Bouldin, Richard K Gast, Thomas J Humphrey, David J Henzler, Cesar Morales, Karen Coles,

Characterization of Salmonella enterica serovar Enteritidis was refined by incorporating new data from isolates obtained from avian sources, from the spleens of naturally infected mice, and from the United Kingdom into an existing lipopolysaccharide (LPS) O-chain compositional database. From least to greatest, the probability of avian isolates producing high-molecular-mass LPS ... Read more >>

Appl Environ Microbiol (Applied and environmental microbiology)
[2004, 70(5):2756-2763]

Cited: 24 times

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Detection of a novel virulence gene and a Salmonella virulence homologue among Escherichia coli isolated from broiler chickens.

Cesar Morales, Margie D Lee, Charles Hofacre, John J Maurer,

Despite the diversity of Escherichia coli pathotypes, there are many virulence genes common to isolates from food animals and humans, suggesting that opportunity exists for genetic exchange between human and animal isolates to create the next emerging, foodborne pathogen. Hemolytic activity in E. coli has been attributed to hemolysin genes ... Read more >>

Foodborne Pathog Dis (Foodborne pathogens and disease)
[2004, 1(3):160-165]

Cited: 21 times

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