May 2, 2018

DNAp: A Pipeline for DNA-seq Data Analysis

Scientific Reports (2018) volume 8, Article number: 6793  doi:10.1038/s41598-018-25022-6 Jason L. Causey, Cody Ashby, Karl Walker, Zhiping Paul Wang, Mary Yang, Yuanfang Guan, Jason H. Moore & Xiuzhen Huang ABSTRACT: Next-generation sequencing is empowering genetic disease research. However, it also brings significant challenges for efficient and effective sequencing data analysis. We built a pipeline, called…

March 23, 2018

Temporal Dynamics of Gut Microbiota in Triclocarban-Exposed Weaned Rats

Authors: Rebekah C. Kennedy, Russell R. Fling, Michael S. Robeson, Arnold M. Saxton, Liesel G. Schneider, John L. Darcy, David A. Bemis, Ling Zhao, Jiangang Chen ABSTRACT: Widely used as an antimicrobial in antibacterial bar soaps, triclocarban (3,4,4′-trichlorocarbanilide; TCC) is effective against Gram-positive bacteria but shows little efficacy against Gram-negative strains, potentially altering the composition…

March 7, 2018

UAMS Team First to Add Directly Sequenced RNA to Public Database

A group of UAMS researchers is the first to deposit directly sequenced RNA to the National Center for Biotechnology Information databases, made possible by their utilization of a novel, handheld genetic sequencing technology. The federal government maintains a collection of databases with the aim of advancing science and health by providing public access to biomedical…

February 14, 2018

Genome-Based Comparison of Clostridioides difficile : Average Amino Acid Identity Analysis of Core Genomes

Adriana Cabal, Se-Ran Jun, Piroon Jenjaroenpun, Visanu Wanchai, Intawat Nookaew, Thidathip Wongsurawat, Mary J. Burgess, Atul Kothari, Trudy M. Wassenaar1, David W. Ussery Received: 30 August 2017 /Accepted: 2 February 2018 # The Author(s) 2018. This article is an open access publication Abstract Infections due to Clostridioides difficile (previously known as Clostridium difficile) are a…

February 6, 2018

Interspecific plant interactions reflected in soil bacterial community structure and nitrogen cycling in primary succession.

Front. Microbiology, in the press, January 2018  | doi: 10.3389/fmicb.2018.00128 Joseph E. Knelman, Emily B. Graham, Janet S. Prevéy, Michael S. Robeson, Patrick Kelly, Eran Hood and Steve K. Schmidt Past research demonstrating the importance plant-microbe interactions as drivers of ecosystem succession has focused on how plants condition soil microbial communities, impacting subsequent plant…

January 23, 2018

Genome Characterization of Oleaginous Aspergillus oryzae BCC7051: A Potential Fungal-Based Platform for Lipid Production

Curr Microbiol. 2018 Jan;75(1):57-70. doi: 10.1007/s00284-017-1350-7. Epub 2017 Sep 1. Thammarongtham C, Nookaew I, Vorapreeda T, Srisuk T, Land ML, Jeennor S, Laoteng K Abstract The selected robust fungus, Aspergillus oryzae strain BCC7051 is of interest for biotechnological production of lipid-derived products due to its capability to accumulate high amount of intracellular lipids using various…

Abiotic Stresses Shift Belowground Populus-Associated Bacteria Toward a Core Stress Microbiome

mSystems, 3:e00070-17. mSystems.00070-17. DOI: 10.1128/mSystems.00070-17 Abiotic Stresses Shift Belowground Populus-Associated Bacteria Toward a Core Stress Microbiome Collin M. Timm, Kelsey R. Carter, Alyssa A. Carrell, Se-Ran Jun, Sara S. Jawdy, Jessica M. Vélez, Lee E. Gunter, Zamin Yang, Intawat Nookaew, Nancy L. Engle, Tse-Yuan S. Lu, Christopher W. Schadt, Timothy J. Tschaplinski, Mitchel J….

January 20, 2018

Gender Differences in the Pathogenesis and Management of Heart Disease

Chapter 7 in the book “Gender Differences in the Pathogenesis and Management of Heart Disease”, Springer/Nature publishing company, in the press (January 2018).   ISBN:978-3-319-71134-8 Adriana Cabal, Trudy M. Wassenaar, and David W. Ussery Abstract The literature was reviewed to search for consistently reported differences in the gut microbiome between females and males, in an…

January 16, 2018

Distinctive molecular signature and activated signaling pathways in aortic smooth muscle cells of patients with myocardial infarction DOI: Atherosclerosis, manuscript in the press, accepted 16 January, 2028 Thidathip Wongsurawat, Chin Cheng Woo, Antonis Giannakakis, Xiao Yun Lin, Esther Sok Hwee Cheow, Chuen Neng Lee, Mark Richards, Siu Kwan Sze, Intawat Nookaew, Vladimir A. Kuznetsov’Correspondence information about the author Vladimir A. Kuznetsov, Vitaly Sorokin Abstract Background and aims: We aim to…

January 13, 2018

Complete genomic and transcriptional landscape analysis using third-generation sequencing: a case study of Saccharomyces cerevisiae CEN.PK113-7D

Introduction: The genome of the most well studied eukaryotic model organism, Saccharomyces cerevisiae strain S288c, was sequenced and released in 1996; it was the first complete, high quality genome sequence of an eukaryal organism (1). Since then, the development ofDNAsequencing technologies has yielded scientific breakthroughs that enable us to obtain and analyze genomic DNA sequences…

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