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Plasma Fibroblast Growth Factor-21 Levels In Patients With Inborn Errors Of Metabolism, Brian Kirmse, Juan Cabrera-Luque, Omar Ayyub, Kristina Cusmano-Ozog, Kimberly A. Chapman, Marshall L. Summar 2017 George Washington University

Plasma Fibroblast Growth Factor-21 Levels In Patients With Inborn Errors Of Metabolism, Brian Kirmse, Juan Cabrera-Luque, Omar Ayyub, Kristina Cusmano-Ozog, Kimberly A. Chapman, Marshall L. Summar

Pediatrics Faculty Publications

Fibroblast growth factor-21 (FGF21) levels are elevated in patients with primary mitochondrial disorders but have not been studied in patients with inborn errors of metabolism (IEM) known to have secondary mitochondrial dysfunction. We measured plasma FGF21 by ELISA in patients with and without IEM. FGF21 levels were higher in patients with IEM compared to without IEM (370 pg/dL vs. 0–65 pg/dL). Further study of FGF21 as a biomarker in IEM is warranted.


Introgression Makes Waves In Inferred Histories Of Effective Population Size, John Hawks 2017 University of Wisconsin-Madison

Introgression Makes Waves In Inferred Histories Of Effective Population Size, John Hawks

Human Biology Open Access Pre-Prints

Human populations have a complex history of introgression and of changing population size. Human genetic variation has been affected by both these processes, so that inference of past population size depends upon the pattern of gene flow and introgression among past populations. One remarkable aspect of human population history as inferred from genetics is a consistent “wave” of larger effective population size, found in both African and non-African populations, that appears to reflect events prior to the last 100,000 years. Here I carry out a series of simulations to investigate how introgression and gene flow from genetically divergent ancestral ...


Background, Needs And Expectations For Genetic Counseling In Adults With Ehlers-Danlos Syndrome, Pooja Swaroop 2017 Long Island University

Background, Needs And Expectations For Genetic Counseling In Adults With Ehlers-Danlos Syndrome, Pooja Swaroop

Post & Beyond

Ehlers-Danlos Syndrome (EDS) is a heterogeneous group of heritable connective

tissue disorders. Patients with EDS often show a wide range of

clinical manifestations, which most often include joint hypermobility, connective

tissue fragility and skin hyperextensibility. The symptomatology of

individuals with EDS-Hypermobile Type (EDS-HT) is complex and can range

in severity from mild to profound with several studies reporting multisystem

involvement. In addition to the aforementioned symptoms, there

is a significant risk for comorbid psychiatric disorders. Currently, genetics

professionals and genetic counselors act primarily as diagnosticians and

provide tertiary support for the ongoing care, coordination and management

of patients with EDS ...


A Polyglot Approach To Bioinformatics Data Integration: A Phylogenetic Analysis Of Hiv-1, Steven Reisman, Thomas Hatzopoulos, Konstantin Laufer, George K. Thiruvathukal, Catherine Putonti 2017 Loyola University Chicago

A Polyglot Approach To Bioinformatics Data Integration: A Phylogenetic Analysis Of Hiv-1, Steven Reisman, Thomas Hatzopoulos, Konstantin Laufer, George K. Thiruvathukal, Catherine Putonti

Konstantin Läufer

As sequencing technologies continue to drop in price and increase in throughput, new challenges emerge for the management and accessibility of genomic sequence data. We have developed a pipeline for facilitating the storage, retrieval, and subsequent analysis of molecular data, integrating both sequence and metadata. Taking a polyglot approach involving multiple languages, libraries, and persistence mechanisms, sequence data can be aggregated from publicly available and local repositories. Data are exposed in the form of a RESTful web service, formatted for easy querying, and retrieved for downstream analyses. As a proof of concept, we have developed a resource for annotated HIV-1 ...


A Polyglot Approach To Bioinformatics Data Integration: Phylogenetic Analysis Of Hiv-1, Steven Reisman, Catherine Putonti, George K. Thiruvathukal, Konstantin Läufer 2017 Loyola University Chicago

A Polyglot Approach To Bioinformatics Data Integration: Phylogenetic Analysis Of Hiv-1, Steven Reisman, Catherine Putonti, George K. Thiruvathukal, Konstantin Läufer

Konstantin Läufer

RNA-interference has potential therapeutic use against HIV-1 by targeting highly-functional mRNA sequences that contribute to the virulence of the virus. Empirical work has shown that within cell lines, all of the HIV-1 genes are affected by RNAi-induced gene silencing. While promising, inherent in this treatment is the fact that RNAi sequences must be highly specific. HIV, however, mutates rapidly, leading to the evolution of viral escape mutants. In fact, such strains are under strong selection to include mutations within the targeted region, evading the RNAi therapy and thus increasing the virus’ fitness in the host. Taking a phylogenetic approach, we ...


Bioinformatic Analysis Of The Evolution And Function Of Parasitoid Wasp Venom, Nathan T. Mortimer 2017 Illinois State University

Bioinformatic Analysis Of The Evolution And Function Of Parasitoid Wasp Venom, Nathan T. Mortimer

Annual Symposium on Biomathematics and Ecology: Education and Research

No abstract provided.


G-Onramp: Create Genome Browsers That Enable Undergraduate Students To Participate In Collaborative Genome Annotations, Wilson Leung, Yating Liu, Luke Sargent, Jeremy Goecks, Sarah C.R. Elgin 2017 Washington University in St. Louis

G-Onramp: Create Genome Browsers That Enable Undergraduate Students To Participate In Collaborative Genome Annotations, Wilson Leung, Yating Liu, Luke Sargent, Jeremy Goecks, Sarah C.R. Elgin

Annual Symposium on Biomathematics and Ecology: Education and Research

No abstract provided.


Chromosome Conformation In Context, James Taylor 2017 Illinois State University

Chromosome Conformation In Context, James Taylor

Annual Symposium on Biomathematics and Ecology: Education and Research

No abstract provided.


A Systems Level Approach To Temporal Expression Dynamics In Drosophila Reveals Clusters Of Long Term Memory Genes, Julianna Bozler, Balint Kacsoh, Giovanni Bosco 2017 Dartmouth College

A Systems Level Approach To Temporal Expression Dynamics In Drosophila Reveals Clusters Of Long Term Memory Genes, Julianna Bozler, Balint Kacsoh, Giovanni Bosco

Annual Symposium on Biomathematics and Ecology: Education and Research

No abstract provided.


Cage: A Tool For Identifying Genes With Correlated Spatiotemporal Expression, Basheer Becerra 2017 Illinois State University

Cage: A Tool For Identifying Genes With Correlated Spatiotemporal Expression, Basheer Becerra

Annual Symposium on Biomathematics and Ecology: Education and Research

No abstract provided.


Study Of Antidepressant Molecular Structure Leading To Safer Dosing, Meera Garg 2017 Illinois State University

Study Of Antidepressant Molecular Structure Leading To Safer Dosing, Meera Garg

Annual Symposium on Biomathematics and Ecology: Education and Research

No abstract provided.


Functional Characteristics And Genomic Sequencing Of Antarctic Environmental Isolates, Amanda Kemper, Christina Aigner, Michelle Tigges, Sara Anderson 2017 Minnesota State University Moorhead

Functional Characteristics And Genomic Sequencing Of Antarctic Environmental Isolates, Amanda Kemper, Christina Aigner, Michelle Tigges, Sara Anderson

Annual Symposium on Biomathematics and Ecology: Education and Research

No abstract provided.


Characterization Of A Novel Mitochondrial Plasmid In Brassica, Mackenzie Strehle 2017 University of Nebraska - Lincoln

Characterization Of A Novel Mitochondrial Plasmid In Brassica, Mackenzie Strehle

UCARE Research Products

Possessing some of the largest and most complex genomes of any eukaryotic organelles, plant mitochondria are notorious for their rapidly rearranging genetic framework. In addition to containing a large and complex mitochondrial genome, the mitochondria of several plants in the genus Brassica have also been shown to contain an independent, self-replicating linear plasmid. Interestingly, the plasmid appears to be able to move independently between the cytoplasm and the mitochondria, and it can be paternally inherited, unlike the rest of the mitochondrial genome. The plasmid also has features similar to those of adenoviruses, including terminal inverted repeats and covalently bound proteins ...


Structural And Functional Analysis Of The Transcriptional Regulator Rv3066 Of Mycobacterium Tuberculosis, Jani Reddy Bolla, Sylvia V. Do, Feng Long, Lei Dai, Chih-Chia Su, Hsiang-Ting Lei, Xiao Chen, Jillian E. Gerkey, Daniel C. Murphy, Kanagalaghatta R. Rajashankar, Qijing Zhang, Edward W. Yu 2017 Iowa State University

Structural And Functional Analysis Of The Transcriptional Regulator Rv3066 Of Mycobacterium Tuberculosis, Jani Reddy Bolla, Sylvia V. Do, Feng Long, Lei Dai, Chih-Chia Su, Hsiang-Ting Lei, Xiao Chen, Jillian E. Gerkey, Daniel C. Murphy, Kanagalaghatta R. Rajashankar, Qijing Zhang, Edward W. Yu

Qijing Zhang

The Mmr multidrug efflux pump recognizes and actively extrudes a broad range of antimicrobial agents, and promotes the intrinsic resistance to these antimicrobials in Mycobacterium tuberculosis . The expression of Mmr is controlled by the TetR-like transcriptional regulator Rv3066, whose open reading frame is located downstream of the mmr operon. To understand the structural basis of Rv3066 regulation, we have determined the crystal structures of Rv3066, both in the absence and presence of bound ethidium, revealing an asymmetric homodimeric two-domain molecule with an entirely helical architecture. The structures underscore the flexibility and plasticity of the regulator essential for multidrug recognition. Comparison ...


Transferable Multiresistance Plasmids Carrying Cfr In Enterococcus Spp. From Swine And Farm Environment, Yang Liu, Yang Wang, Stefan Schwarz, Yun Li, Zhangqi Shen, Qijing Zhang, Congming Wu, Jianzhong Shen 2017 China Agricultural University

Transferable Multiresistance Plasmids Carrying Cfr In Enterococcus Spp. From Swine And Farm Environment, Yang Liu, Yang Wang, Stefan Schwarz, Yun Li, Zhangqi Shen, Qijing Zhang, Congming Wu, Jianzhong Shen

Qijing Zhang

Seventy-seven porcine Enterococcus isolates with florfenicol MICs of ≥16 μg of were/ml screened for the presence of the multiresistance gene cfr, its location on plasmids, and its genetic environment. Three isolates—Enterococcus thailandicus 3-38 (from a porcine rectal swab collected at a pig farm), Enterococcus thailandicus W3, and Enterococcus faecalis W9-2 (the latter two from sewage at a different farm), carried the cfr gene. The SmaI pulsed-field gel electrophoresis patterns of the three isolates differed distinctly. In addition, E. faecalis W9-2 was assigned to a new multilocus sequence type ST469. Mating experiments and Southern blot analysis indicated that cfr ...


The New Genetic Environment Of Cfr On Plasmid Pbs-02 In A Bacillus Strain, Wan-Jiang Zhang, Cong-Ming Wu, Yang Wang, Zhang-Qi Shen, Lei Dai, Jing Han, Steven L. Foley, Jian-Zhong Shen, Qijing Zhang 2017 China Agricultural University

The New Genetic Environment Of Cfr On Plasmid Pbs-02 In A Bacillus Strain, Wan-Jiang Zhang, Cong-Ming Wu, Yang Wang, Zhang-Qi Shen, Lei Dai, Jing Han, Steven L. Foley, Jian-Zhong Shen, Qijing Zhang

Qijing Zhang

Sir, The gene cfr, encoding a 23S rRNA methyltransferase, confers resistance to five chemically unrelated antimicrobial classes, including phenicols, lincosamides, oxazolidinones, pleuromutilins and streptogramin A (PhLOPSA), and has been observed mainly in staphylococcal isolates over the past decade.1–3 Our previous study reported a cfr-carrying plasmid, pBS-01, in a novel strain (BS-01) of a Bacillus species isolated from a pig farm in China.4 In our routine surveillance study on antimicrobial resistance in farm animals in 2010, another florfenicol and chloramphenicol-resistant Bacillus species strain (named BS-02) from swine faeces was identified. Gram staining, sequence analysis of the 16S rRNA ...


Synergistic Effects Of Anti-Cmea And Anti-Cmeb Peptide Nucleic Acids On Sensitizing Campylobacter Jejuni To Antibiotics, Yang Mu, Zhangqi Shen, Byeonghwa Jeon, Lei Dai, Qijing Zhang 2017 Iowa State University

Synergistic Effects Of Anti-Cmea And Anti-Cmeb Peptide Nucleic Acids On Sensitizing Campylobacter Jejuni To Antibiotics, Yang Mu, Zhangqi Shen, Byeonghwa Jeon, Lei Dai, Qijing Zhang

Qijing Zhang

The CmeABC efflux pump in Campylobacter jejuni confers resistance to structurally divergent antimicrobials, and inhibition of CmeABC represents a promising strategy to control antibiotic-resistant Campylobacter. Antisense peptide nucleic acids (PNAs) targeting the three components of CmeABC were evaluated for inhibition of CmeABC expression. The result revealed a synergistic effect of the PNAs targeting CmeA and CmeB on sensitizing C. jejuni to antibiotics. This finding further demonstrates the feasibility of using PNAs to potentiate antibiotics against antibiotic-resistant Campylobacter.


Mutational And Transcriptomic Changes Involved In The Development Of Macrolide Resistance In Campylobacter Jejuni, Haihong Hao, Zonghui Yuan, Zhangqi Shen, Jing Han, Orhan Sahin, Peng Liu, Qijing Zhang 2017 Iowa State University

Mutational And Transcriptomic Changes Involved In The Development Of Macrolide Resistance In Campylobacter Jejuni, Haihong Hao, Zonghui Yuan, Zhangqi Shen, Jing Han, Orhan Sahin, Peng Liu, Qijing Zhang

Qijing Zhang

Macrolide antibiotics are important for clinical treatment of infections caused by Campylobacter jejuni. Development of resistance to this class of antibiotics in Campylobacter is a complex process, and the dynamic molecular changes involved in this process remain poorly defined. Multiple lineages of macrolide-resistant mutants were selected by stepwise exposure of C. jejuni to escalating doses of erythromycin or tylosin. Mutations in target genes were determined by DNA sequencing, and the dynamic changes in the expression of antibiotic efflux transporters and the transcriptome of C. jejuni were examined by real-time reverse transcription-PCR, immunoblotting, and DNA microarray analysis. Multiple types of mutations ...


High Incidence And Endemic Spread Of Ndm-1-Positive Enterobacteriaceae In Henan Province, China, Shangshang Qin, Ying Fu, Qijing Zhang, Hui Qi, Jian Guo Wen, Hui Xu, Lijuan Xu, Li Zeng, Hao Tian, Lijuan Rong, Yonghong Li, Lihong Shan, Hongde Xu, Yunsong Yu, Xianju Feng, Hong-Min Liu 2017 Zhengzhou University

High Incidence And Endemic Spread Of Ndm-1-Positive Enterobacteriaceae In Henan Province, China, Shangshang Qin, Ying Fu, Qijing Zhang, Hui Qi, Jian Guo Wen, Hui Xu, Lijuan Xu, Li Zeng, Hao Tian, Lijuan Rong, Yonghong Li, Lihong Shan, Hongde Xu, Yunsong Yu, Xianju Feng, Hong-Min Liu

Qijing Zhang

The emergence and spread of New Delhi metallo-β-lactamase 1 (NDM-1)-producing carbapenem-resistant Enterobacteriaceae (CRE) present an urgent threat to human health. In China, the blaNDM-1 gene has been reported mostly in Acinetobacter spp. but is rarely found in Enterobacteriaceae. Here, we report a high incidence and endemic spread of NDM-1-producing CRE in Henan Province in China. Sixteen (33.3%) of the 48 CRE isolates obtained from patients during June 2011 to July 2012 were positive for blaNDM-1, and the gene was found to be carried on plasmids of various sizes (∼55 to ∼360 kb). These plasmids were readily transferrable to ...


Fitness Of Antimicrobial-Resistant Campylobacter And Salmonella, Qijing Zhang, Orhan Sahin, Patrick F. McDermott, Sophie Payot 2017 Iowa State University

Fitness Of Antimicrobial-Resistant Campylobacter And Salmonella, Qijing Zhang, Orhan Sahin, Patrick F. Mcdermott, Sophie Payot

Qijing Zhang

Campylobacter and Salmonella are the most commonly reported bacterial causes of human foodborne infections, and increasing proportions of these pathogens become resistant to medically important antimicrobial agents, imposing a burden on public health. Acquisition of resistance to antibiotics affects the adaptation and evolution of Salmonella and Campylobacter in various environments. Many resistance-conferring mutations entail a biological fitness cost, while others (e.g. fluoroquinolone resistance in Campylobacter) have no cost or even enhanced fitness. In Salmonella, the fitness disadvantage due to antimicrobial resistance can be restored by acquired compensatory mutations, which occur both in vitro and in vivo. The compensated or ...


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