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Bioscience

Microbial measurements

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Displaying 26 - 49 of 49

Zero-valent iron sand filtration can reduce human and plant pathogenic bacteria while increasing plant growth promoting bacteria in reclaimed water

November 2, 2020
Author(s)
Prachi Kulkarni, Nathanael David Olson, Joseph N. Paulson, Emmanuel F. Mongodin, Mihai Pop, Amy R. Sapkota
The increasing use of reclaimed water for irrigation in areas that lack access to advanced wastewater treatment and reclaimed water distribution systems calls for an examination of irrigation-site-based treatment technologies that can improve the quality

Niche partitioning of microbial communities at an ancient vitrified hillfort: implications for vitrified radioactive waste disposal

August 30, 2020
Author(s)
Andrew Plymale, Jacqueline Wells, Carolyn Pearce, Colin Brislawn, Emily Graham, Tanya Cheeke, Jessica Allen, Sarah Fansler, Bruce Arey, Mark Bowden, Danielle Saunders, Vincent Danna, Kimberly Tyrrell, Jamie Weaver, Rolf Sjoblom, Rick L. Paul, John McCloy, Eva Hjarthner-Holdar, Mia Englund, Erik Ogenhall, David Peeler, Albert Kruger
A pre-Viking era vitrified hillfort, Broborg, provides a habitat analogue for disposed radioactive waste glass and shows strong niche partitioning among the organisms involved in glass alteration. Microbes cannot be eliminated from radioactive waste

A framework for assessing 16S rRNA marker-gene survey data analysis methods using mixtures.

March 13, 2020
Author(s)
Nathanael David Olson, Senthil Kumar, Stephanie Hao, Winston Timp, Marc L. Salit, O Colin Stine, Hector Corrada Bravo
Background: There are a variety of bioinformatic pipelines and downstream analysis methods for analyzing 16S rRNA marker-gene surveys. However, appropriate assessment datasets and metrics are needed as there is limited guidance to decide between available

Key Considerations for Microbial Viability Measurements

January 14, 2020
Author(s)
Joy Dunkers, Sandra M. Da Silva, Stephanie Servetas, James J. Filliben, Guilherme L. Pinheiro, Nancy Lin
Making reliable measurements of antimicrobial killing efficacy requires careful consideration of the sources of biological variability, measurement bias and error throughout the entire workflow. For ultraviolet-C (UV-C) disinfection, killing efficacy is

The FeoC [4Fe4S] Cluster Is Redox-Active and Rapidly Oxygen-Sensitive

November 12, 2019
Author(s)
Aaron T. Smith, Richard O. Linkous, Nathan Max, Alexandrea E. Sestok, Veronika Szalai, Kelly N. Chacon
The acquisition of iron is essential to establishing virulence among most pathogens. Under acidic and/or anaerobic conditions, most bacteria utilize the widely-distributed ferrous iron (Fe2+) uptake (Feo) system to import metabolically-required iron. The

Characterization of the internal translation initiation region in monoclonal antibodies expressed in Escherichia coli

October 11, 2019
Author(s)
Erik M. Leith, William Brad O'Dell, Na Ke, Colleen McClung, Mehmet Berkmen, Christina Bergonzo, Robert G. Brinson, Zvi Kelman
Monoclonal antibodies (mAbs) represent an important platform for the development of biotherapeutic products. While most mAbs are produced in mammalian cells, there are several examples of mAbs made in Escherichia coli, including therapeutic fragments. When

A Novel Dental Sealant Containing Dimethylaminohexadecyl Methacrylate Suppresses the Cariogenic Pathogenicity of Streptococcus mutans Biofilms

July 16, 2019
Author(s)
Nancy Lin, Maria S. Ibrahim, Ahmed Ibrahim, Abdulrahman Balhaddad, Michael D. Weir, Franklin Tay, Thomas Oates, Hockin H. Xu, Mary A. Melo
Cariogenic oral biofilms are strongly linked to dental caries around dental sealants. Quaternary ammonium monomers copolymerized with dental resin systems have been increasingly explored for modulation of biofilm growth. Here, we investigated the effect of

Structure and Function in Antimicrobial Piscidins: Histidine Position, Directionality of Membrane Insertion, and pH-Dependent Permeabilization

May 30, 2019
Author(s)
Mihaela Mihailescu, Mirco Sorci, Jolita Seckute, Vitalii I. Silin, Janet Hammer, B. Scott Perrin, Jorge Hernandez, Nedzada Smajic, Akritee Shrestha, Kimberly Bogadardus, Alexander Greenwood, Riqiang Fu, Jack Blazyk, Richard W. Pastor, Linda Nicholson, Georges Belfort, Myriam Cotten
Piscidins are histidine-enriched antimicrobial peptides that interact with lipid bilayers as amphipathic alpha-helices. Their activity at acidic and basic pH in vivo makes them promising templates for biomedical applications. This study focuses on p1 and

Measuring Ion-Pairing and Hydration in Variable Charge Supramolecular Cages with Microwave Microfluidics

May 17, 2019
Author(s)
Angela C. Stelson, Cynthia M. Hong, Mitchell C. Groenenboom, Charles A. Little, James C. Booth, Nathan D. Orloff, Robert G. Bergman, Kenneth N. Raymond, Kathleen A. Schwarz, F. D. Toste, Christian J. Long
MetaMetal–organic supramolecular cages can act as charged molecular containers that mediate reactions, mimic enzymatic catalysis, and selectively sequester chemicals.1,2 The hydration of these cages in solution plays a crucial role in their interactions

Impact of conventional wastewater treatment and reuse site practices on the bacterial community structure of reclaimed water

October 15, 2018
Author(s)
Prachi Kulkarni, Nathanael David Olson, Joseph N. Paulson, Mihai Pop, Cynthia Maddox, Emma Claye, Rachel E. Rosenberg Goldstein, Manan Sharma, Amy R. Sapkota
Reclaimed water use continues to expand across the United States, from areas that have access to advanced, potable-level treated reclaimed water, to areas that only have access to reclaimed water treated at conventional municipal wastewater treatment

Innovative Approaches to Combat Healthcare-Associated Infections Using Efficacy Standards Developed Through Industry and Federal Collaboration

October 5, 2018
Author(s)
Dianne L. Poster, Carl C. Miller, Yaw S. Obeng, Michael T. Postek, Troy E. Cowan, Richard A. Martinello
Nation-wide, healthcare-associated infections (HAIs) infect one in every 25 hospital patients, account for more than 100,000 deaths and increase medical costs by around $96-147B, each year. Ultraviolet-C (UV-C) antimicrobial devices are shown to reduce the

Certification of Standard Reference Material 2365 BK Virus DNA Quantitative Standard

August 29, 2018
Author(s)
Megan H. Cleveland, Natalia Farkas, Kevin M. Kiesler, Blaza Toman, Peter M. Vallone
Standard Reference Material (SRM) 2365 is intended for use in the value assignment of BK virus deoxyribonucleic acid (DNA) to BK DNA controls and standards. A unit of SRM 2365 consists of a well characterized, linearized plasmid, containing BK virus DNA

Acid-induced and pH-controlled Reversible Switching of Broad-Spectrum Antibacterial Activity

February 13, 2018
Author(s)
Yin Y. Nelson, Vytautas Reipa, Xiaohong Wang, Kenneth Mineart, Vivek M. Prabhu, Nancy J. Lin, Jirun Sun
Bacterial resistance to antimicrobials is threatening millions of human lives due to indiscriminate overuse and environmental build-up of antibiotics. We present the smart regulation of antibacterial activity in biologically relevant conditions to reduce

Using metagenomic methods to detect organismal contaminants in microbial materials.

September 12, 2017
Author(s)
Nathanael D. Olson, Justin M. Zook, Jayne B. Morrow, Nancy J. Lin
High sensitivity methods as next generation sequencing and PCR are adversely impacted by organismal and DNA contaminants. Current methods for detecting contaminants in microbial materials (genomic DNA and cultures) are not sensitive enough and require

Measurements of translation initiation from all 64 codons in E. coli

February 21, 2017
Author(s)
Ariel H. Hecht, Jeff E. Glasgow, Paul Jaschke, Lukmaan Bawazer, Matthew S. Munson, Jennifer R. Cochran, Drew Endy, Marc L. Salit
Our understanding of translation represents a cornerstone of molecular biology and underpins our capacity to engineer living matter. For decades, the codon AUG and a few near-cognates (GUG, UUG) have been exclusively considered as “start codons” for
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