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Bioscience

Microbial measurements

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Displaying 1 - 25 of 89

The Application of Digital PCR as a Reference Measurement Procedure to Support the Accuracy of Quality Assurance for Infectious Disease Molecular Diagnostic Testing

December 26, 2024
Author(s)
Samreen Falak, Denise O'Sullivan, Megan Cleveland, Simon Cowen, Eloise Busby, Alison Devonshire, Esmeralda Valiente, Gerwyn Jones, Martin Kammel, Mojca Milavec, Laura Vierbaum, Ingo Schellenberg, Heinz Zeichhardt, Andreas Kummrow, Peter Vallone, Rainer Macdonald, Jim Huggett
Background Nucleic Acid Amplification Tests (NAATs) are used to diagnose many infectious diseases. They are typically sensitive and specific and can be quickly developed and adapted. It is more challenging to develop standards to ensure NAATs perform

Results from a multi-laboratory ocean metaproteomic intercomparison: effects of LC-MS acquisition and data analysis procedures

November 8, 2024
Author(s)
Mak Saito, Jaclyn Saunders, Matthew McIlvin, Erin Bertrand, John Breier, Margaret Brisbin, Sophie Colston, Jaimee Compton, Tim Griffin, Judson Harvey, Robert Hettich, Pratik Jagtap, Michael Janech, Rod Johnson, Rick Keil, Hugo Kleikamp, Dasha Leary, Scott McCain, Eli Moore, Subina Mehta, Dawn Moran, Jacqui Neibauer, Benjamin Neely, Michael Jakuba, Jim Johnson, Megan Duffy, Gerhard Herndl, Richard Giannone, Ryan Mueller, Brook Nunn, Martin Pabst, Samantha Peters, Andrew Rajczewski, Elden Rowland, Brian Searle, Tim Van Den Bossche, Gary Vora, Jacob Waldbauer, Haiyan Zheng, Zihao Zhao
Metaproteomics is an increasingly popular methodology that provides information regarding the metabolic functions of specific microbial taxa and has potential for contributing to ocean ecology and biogeochemical studies. A blinded multi-laboratory

The Association of Biomolecular Resource Facilities Proteome Informatics Research Group Study on Metaproteomics (iPRG-2020)

August 7, 2023
Author(s)
Pratik Jagtap, Michael Hoopmann, Ben Neely, Anthony Harvey, Lukas Kall, Yasset Perez-Riverol, Milky Abajorga, Julie Thomas, Susan Weintraub, Magnus Palmblad
Metaproteomics research using mass spectrometry data has emerged as a powerful strategy to understand the mechanisms underlying microbiome dynamics and the interaction of microbiomes with their immediate environment. Recent advances in sample preparation

Report from the NIST Workshop: Launch of the Rapid Microbial Testing Methods Consortium

September 27, 2022
Author(s)
Nancy Lin, Scott Jackson, Stephanie Servetas, Kirsten Parratt, Joy Dunkers, Tara Eskandari, Sheng Lin-Gibson
On September 17, 2020, NIST hosted a virtual workshop to launch the Rapid Microbial Testing Methods (RMTM) Consortium. The RMTM Consortium aims to address the need for measurements and standards to increase confidence in the use of rapid testing for

Enhancing untargeted metabolomics using metadata-based source annotation

July 7, 2022
Author(s)
Scott Jackson, Paulina Piotrowski, Nancy Lin, Sandra M. Da Silva, Katrice Lippa, Christina Jones, Stephanie Servetas, Julia Gauglitz, Kiana West, Wout Bittremieux, Candace Williams, Kelly Weldon, Morgan Panitchpakdi, Francesca Ottavio, Christine Aceves, Elizabeth Brown, Nicole Sikora, Alan Jarmusch, Cameron Martino, Pieter Dorrestein, Rob Knight, Rachel Dutton, Austin Swafford, Monica Guma, Norberto Peporine Lopes, Brigid Boland, Michelli Oliveira, Mark Manary, Maria Gloria Dominguez-Bello, Kenneth Wright, Julia Beauchamp-Walters, Kyung Rhee, Jae Kim, Megan Doty, Robert Terkeltaub, David Gonzalez, Curt Wittenberg, Tatyana Kalashnikova, Parambir Dulai, Douglas Galasko, Rima Kaddurah Daouk, Robert Mills, Paulo Louzada-Junior, Rene Donizeti Ribeiro Oliveira, Thaigo Mattar Cunha, Flavio Protaso Veras, Rodrigo Moreira Silva, Juliano Geraldo Amaral, Lucas Maciel Mauriz Marques, Barry Bradford, Lourdes Herrera, Gail Ackermann, Dana Withrow, Daniela Vargas Robles, Kate Sprecher, Clarisse Marotz, Mingxun Wang, Emmanuel Elijah, Dominic Nguyen, Qiyun Zhu, Daniel McDonald, Edgar Diaz, Pedro Belda-Ferre, Katharina Spengler, Abigail Johnson, Gregory Humphrey, MacKenzie Bryant, Tara Schwartz, Lindsay Goldasich, Fernando Vargas, Roxana Coras, Justin Schaffer, Erfan Sayyari, Kathleen Dorrestein, Michael Meehan, Anupriya Tripathi
Human untargeted metabolomics studies annotate only 10% of molecular features. We introduce reference-data-driven analysis to match metabolomics tandem mass spectrometry (MS/MS) data against metadata-annotated source data as a pseudo-MS/MS reference

Reference Material 8376 Microbial Pathogen DNA Standards for Detection and Identification

June 1, 2022
Author(s)
Jason Kralj, Dieter Tourlousse, Monique Hunter, Erica Romsos, Blaza Toman, Peter Vallone, Scott Jackson
Reference Material (RM) 8376 is intended for NGS-based measurements quantitative to the chromosome. A unit of RM 8376 consists of 20 components (A-T, 19 bacteria and 1 human) each containing well-characterized DNA in 10 mmol/L Tris-HCl, 1 mmol/L EDTA pH 8

Federal Research Priorities to Support Wastewater Surveillance for SARS-CoV-2

March 30, 2022
Author(s)

Sally Gutierrez, Nancy Lin, Jessica Sweeney

Almost immediately after the start of the COVID-19 pandemic in 2020, researchers and wastewater utilities around the world began analyzing untreated wastewater for the SARS-CoV-2 RNA. These efforts were largely based on prior experience analyzing

Performance of NIST SRM(R) 2917 with 13 Recreational Water Quality Monitoring qPCR Assays

February 10, 2022
Author(s)
Jessica Willis, Mano Sivaganesan, Richard Haugland, Jason Kralj, Stephanie Servetas, Monique Hunter, Scott Jackson, Orin Shanks
Fecal pollution remains a significant challenge for recreational water quality management worldwide. In response, there is a growing interest in the use of real-time quantitative PCR (qPCR) methods to achieve same-day notification of recreational water

RNA reference materials with defined viral RNA loads of SARS-CoV-2 - A useful tool towards a better PCR assay harmonization

January 20, 2022
Author(s)
Laura Vierbaum, Nathalie Wojtalewicz, Vanessa Lindig, Ulf Duhring, Hans-Peter Grunert, Christian Drosten, Victor Corman, Daniela Niemeyer, Sandra Ciesek, Holger Rabenau, Annemarie Berger, Martin Obermeier, Andreas Nitsche, Janine Michel, Martin Mielke, Jim Huggett, Denise O'Sullivan, Simon Cowen, Megan Cleveland, Peter Vallone, Samreen Falak, Andreas Kummrow, Thomas Keller, Ingo Schellenberg, Heinz Zeichhardt, Martin Kammel
The outbreak and pandemic spread of SARS-CoV-2, the cause of the novel coronavirus disease (COVID-19), led to the need for a reliable detection method to track the circulation of this virus. After introducing PCR methods for genome detection of SARS-CoV-2