Adam Waalkes

Affiliations

Department of Laboratory Medicine, University of Washington, Seattle, WA, USA.

Publications (26)

Occurrence of cross-resistance and β-lactam seesaw effect in glycopeptide-, lipopeptide- and lipoglycopeptide-resistant MRSA correlates with membrane phosphatidylglycerol levels.

The Journal of antimicrobial chemotherapy

Avec: Kelly M Hines , Tianwei Shen , Nathaniel K Ashford , Adam Waalkes , Kelsi Penewit , Elizabeth A Holmes , Kathryn McLean , Stephen J Salipante , Brian J Werth , Libin Xu

Dalbavancin exposure in vitro selects for dalbavancin-non-susceptible and vancomycin-intermediate strains of methicillin-resistant Staphylococcus aureus.

Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases

Avec: Brian J Werth , Nathaniel K Ashford , Kelsi Penewit , Adam Waalkes , Elizabeth A Holmes , Dylan H Ross , Tianwei Shen , Kelly M Hines , Stephen J Salipante , Libin Xu

Whole-genome sequencing of clinical Clostridioides difficile isolates reveals molecular epidemiology and discrepancies with conventional laboratory diagnostic testing.

The Journal of hospital infection

Avec: K McLean , J-M Balada-Llasat , A Waalkes , P Pancholi , S J Salipante

Contaminated Incubators: Source of a Multispecies Enterobacter Outbreak of Neonatal Sepsis.

Microbiology spectrum

Avec: Enrique Hernandez-Alonso , Nadège Bourgeois-Nicolaos , Margaux Lepainteur , Véronique Derouin , Simon Barreault , Adam Waalkes , Luis A Augusto , Stuti Gera , Orane Gleizes , Pierre Tissieres , Stephen J Salipante , Daniele de Luca , Florence Doucet-Populaire

Genome Capture Sequencing Selectively Enriches Bacterial DNA and Enables Genome-Wide Measurement of Intrastrain Genetic Diversity in Human Infections.

mBio

Avec: Hillary S Hayden , Snehal Joshi , Matthew C Radey , Anh T Vo , Cara Forsberg , Sarah J Morgan , Adam Waalkes , Elizabeth A Holmes , Sara M Klee , Mary J Emond , Pradeep K Singh , Stephen J Salipante

Open-Sourced CIViC Annotation Pipeline to Identify and Annotate Clinically Relevant Variants Using Single-Molecule Molecular Inversion Probes.

JCO clinical cancer informatics

Avec: Erica K Barnell , Adam Waalkes , Matt C Mosior , Kelsi Penewit , Kelsy C Cotto , Arpad M Danos , Lana M Sheta , Katie M Campbell , Kilannin Krysiak , Damian Rieke , Nicholas C Spies , Zachary L Skidmore , Colin C Pritchard , Todd A Fehniger , Ravindra Uppaluri , Ramaswamy Govindan , Malachi Griffith , Stephen J Salipante , Obi L Griffith

Genomic Analysis Identifies Novel Pseudomonas aeruginosa Resistance Genes under Selection during Inhaled Aztreonam Therapy

Antimicrobial agents and chemotherapy

Avec: Kathryn McLean , Duankun Lee , Elizabeth A Holmes , Kelsi Penewit , Adam Waalkes , Mingxin Ren , Samuel A Lee , Joseph Gasper , Colin Manoil , Stephen J Salipante

Identification of a novel tedizolid resistance mutation in rpoB of MRSA after in vitro serial passage.

The Journal of antimicrobial chemotherapy

Avec: Tianwei Shen , Kelsi Penewit , Adam Waalkes , Libin Xu , Stephen J Salipante , Abhinav Nath , Brian J Werth

Longitudinal profiling of the intestinal microbiome in children with cystic fibrosis treated with elexacaftor-tezacaftor-ivacaftor.

mBio

Avec: Seth A Reasoner , Rachel Bernard , Adam Waalkes , Kelsi Penewit , Janessa Lewis , Andrew G Sokolow , Rebekah F Brown , Kathryn M Edwards , Stephen J Salipante , Maria Hadjifrangiskou , Maribeth R Nicholson

Genomic reconstruction and directed interventions in a multidrug-resistant Shigellosis outbreak in Seattle, WA, USA: a genomic surveillance study.

The Lancet. Infectious diseases

Avec: Giannoula S Tansarli , Dustin R Long , Adam Waalkes , Lori A Bourassa , Stephen J Libby , Kelsi Penewit , Jared Almazan , Jason Matsumoto , Chloe Bryson-Cahn , Krista Rietberg , BreeAnna M Dell , Noël V Hatley , Stephen J Salipante , Ferric C Fang

Synergy Between Beta-Lactams and Lipo-, Glyco-, and Lipoglycopeptides, Is Independent of the Seesaw Effect in Methicillin-Resistant

Frontiers in molecular biosciences

Avec: Rutan Zhang , Ismael A Barreras Beltran , Nathaniel K Ashford , Kelsi Penewit , Adam Waalkes , Elizabeth A Holmes , Kelly M Hines , Stephen J Salipante , Libin Xu , Brian J Werth

Identifying Optimal Loci for the Molecular Diagnosis of Microsatellite Instability.

Clinical chemistry

Avec: Dustin R Long , Adam Waalkes , Varun P Panicker , Ronald J Hause , Stephen J Salipante

Contribution of the patient microbiome to surgical site infection and antibiotic prophylaxis failure in spine surgery.

Science translational medicine

Avec: Dustin R Long , Chloe Bryson-Cahn , Adam Waalkes , Elizabeth A Holmes , Kelsi Penewit , Celeste Tavolaro , Carlo Bellabarba , Fangyi Zhang , Jeannie D Chan , Ferric C Fang , John B Lynch , Stephen J Salipante

Infection and immunity

Avec: Dustin R Long , Kelsi Penewit , Hsin-Yu Lo , Jared Almazan , Elizabeth A Holmes , Andrew B Bryan , Daniel J Wolter , Janessa D Lewis , Adam Waalkes , Stephen J Salipante

The Rhododendron Genome and Chromosomal Organization Provide Insight into Shared Whole-Genome Duplications across the Heath Family (Ericaceae).

Genome biology and evolution

Avec: Valerie L Soza , Dale Lindsley , Adam Waalkes , Elizabeth Ramage , Rupali P Patwardhan , Joshua N Burton , Andrew Adey , Akash Kumar , Ruolan Qiu , Jay Shendure , Benjamin Hall

Repeated isolation of an antibiotic-dependent and temperature-sensitive mutant of Pseudomonas aeruginosa from a cystic fibrosis patient.

The Journal of antimicrobial chemotherapy

Avec: Daniel J Wolter , Alison Scott , Catherine R Armbruster , Dale Whittington , John S Edgar , Xuan Qin , Anne Marie Buccat , Sharon McNamara , Marcella Blackledge , Adam Waalkes , Stephen J Salipante , Robert K Ernst , Lucas R Hoffman

Characterizing the molecular composition and diagnostic potential of Mycobacterium tuberculosis urinary cell-free DNA using next-generation sequencing.

International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases

Avec: Amy Oreskovic , Adam Waalkes , Elizabeth A Holmes , Christopher A Rosenthal , Douglas P K Wilson , Adrienne E Shapiro , Paul K Drain , Barry R Lutz , Stephen J Salipante

Ultrasensitive Quantitation of Genomic Chimerism by Single-Molecule Molecular Inversion Probe Capture and High-Throughput Sequencing of Copy Number Deletion Polymorphisms.

The Journal of molecular diagnostics : JMD

Avec: David Wu , Sami B Kanaan , Kelsi Penewit , Adam Waalkes , Francesca Urselli , J Lee Nelson , Jerald Radich , Stephen J Salipante

Evolution of cefiderocol resistance in

JAC-antimicrobial resistance

Avec: Brian J Werth , Nathaniel K Ashford , Kelsi Penewit , Adam Waalkes , Elizabeth A Holmes , Andrew Bryan , Stephen J Salipante

Clinical and in vitro models identify distinct adaptations enhancing Staphylococcus aureus pathogenesis in human macrophages.

PLoS pathogens

Avec: Dustin R Long , Elizabeth A Holmes , Hsin-Yu Lo , Kelsi Penewit , Jared Almazan , Taylor Hodgson , Nova F Berger , Zoe H Bishop , Janessa D Lewis , Adam Waalkes , Daniel J Wolter , Stephen J Salipante

Artificial Selection for Pathogenicity Mutations in

Infection and immunity

Avec: Kathryn McLean , Elizabeth A Holmes , Kelsi Penewit , Duankun K Lee , Samantha R Hardy , Mingxin Ren , Maxwell P Krist , Kevin Huang , Adam Waalkes , Stephen J Salipante

Whole Genome Sequencing of Peruvian

Open forum infectious diseases

Avec: David Roach , Adam Waalkes , Jorge Abanto , Joseph Zunt , Carolina Cucho , Jaime Soria , Stephen J Salipante

Emergence of Dalbavancin, Vancomycin, and Daptomycin Nonsusceptible Staphylococcus aureus in a Patient Treated With Dalbavancin: Case Report and Isolate Characterization.

Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Avec: Rutan Zhang , Hari Polenakovik , Ismael A Barreras Beltran , Adam Waalkes , Stephen J Salipante , Libin Xu , Brian J Werth

Longitudinal Profiling of the Intestinal Microbiome in Children with Cystic Fibrosis Treated with Elexacaftor-Tezacaftor-Ivacaftor.

medRxiv : the preprint server for health sciences

2023 Neer Award for Basic Science: Genetics of Cutibacterium acnes in Revision Shoulder Arthroplasty: A Large-Scale Bacterial Whole-Genome Sequencing Study.

Journal of shoulder and elbow surgery

Avec: Jason E Hsu , Frederick A Matsen , Anastasia J Whitson , Adam Waalkes , Jared Almazan , Lori A Bourassa , Stephen J Salipante , Dustin R Long

Mechanisms of

mBio

Avec: Lauren J Gonsalves , Allyson Tran , Tessa Gardiner , Tiia Freeman , Angshita Dutta , Carson J Miller , Sharon McNamara , Adam Waalkes , Dustin R Long , Stephen J Salipante , Lucas R Hoffman , Daniel J Wolter

Réseau de co-auteurs

Stephen J Salipante 24 collaborations

Kelsi Penewit 15 collaborations

Elizabeth A Holmes 11 collaborations

Dustin R Long 7 collaborations

Brian J Werth 6 collaborations

Libin Xu 5 collaborations

Nathaniel K Ashford 4 collaborations

Jared Almazan 4 collaborations

Daniel J Wolter 4 collaborations

Kelly M Hines 3 collaborations

Tianwei Shen 3 collaborations

Kathryn McLean 3 collaborations

Mingxin Ren 2 collaborations

Seth A Reasoner 2 collaborations

Rachel Bernard 2 collaborations

Janessa Lewis 2 collaborations

Andrew G Sokolow 2 collaborations

Rebekah F Brown 2 collaborations

Kathryn M Edwards 2 collaborations

Maria Hadjifrangiskou 2 collaborations

Maribeth R Nicholson 2 collaborations

Lori A Bourassa 2 collaborations

Chloe Bryson-Cahn 2 collaborations

Ferric C Fang 2 collaborations

Rutan Zhang 2 collaborations

Ismael A Barreras Beltran 2 collaborations

Hsin-Yu Lo 2 collaborations

Janessa D Lewis 2 collaborations

Sharon McNamara 2 collaborations

Lucas R Hoffman 2 collaborations

Dylan H Ross 1 collaboration

K McLean 1 collaboration

J-M Balada-Llasat 1 collaboration

A Waalkes 1 collaboration

P Pancholi 1 collaboration

S J Salipante 1 collaboration

Enrique Hernandez-Alonso 1 collaboration

Nadège Bourgeois-Nicolaos 1 collaboration

Margaux Lepainteur 1 collaboration

Véronique Derouin 1 collaboration

Simon Barreault 1 collaboration

Luis A Augusto 1 collaboration

Stuti Gera 1 collaboration

Orane Gleizes 1 collaboration

Pierre Tissieres 1 collaboration

Daniele de Luca 1 collaboration

Florence Doucet-Populaire 1 collaboration

Hillary S Hayden 1 collaboration

Snehal Joshi 1 collaboration

Matthew C Radey 1 collaboration

Anh T Vo 1 collaboration

Cara Forsberg 1 collaboration

Sarah J Morgan 1 collaboration

Sara M Klee 1 collaboration

Mary J Emond 1 collaboration

Pradeep K Singh 1 collaboration

Erica K Barnell 1 collaboration

Matt C Mosior 1 collaboration

Kelsy C Cotto 1 collaboration

Arpad M Danos 1 collaboration

Lana M Sheta 1 collaboration

Katie M Campbell 1 collaboration

Kilannin Krysiak 1 collaboration

Damian Rieke 1 collaboration

Nicholas C Spies 1 collaboration

Zachary L Skidmore 1 collaboration

Colin C Pritchard 1 collaboration

Todd A Fehniger 1 collaboration

Ravindra Uppaluri 1 collaboration

Ramaswamy Govindan 1 collaboration

Malachi Griffith 1 collaboration

Obi L Griffith 1 collaboration

Duankun Lee 1 collaboration

Samuel A Lee 1 collaboration

Joseph Gasper 1 collaboration

Colin Manoil 1 collaboration

Abhinav Nath 1 collaboration

Giannoula S Tansarli 1 collaboration

Stephen J Libby 1 collaboration

Jason Matsumoto 1 collaboration

Krista Rietberg 1 collaboration

BreeAnna M Dell 1 collaboration

Noël V Hatley 1 collaboration

Varun P Panicker 1 collaboration

Ronald J Hause 1 collaboration

Celeste Tavolaro 1 collaboration

Carlo Bellabarba 1 collaboration

Fangyi Zhang 1 collaboration

Jeannie D Chan 1 collaboration

John B Lynch 1 collaboration

Andrew B Bryan 1 collaboration

Valerie L Soza 1 collaboration

Dale Lindsley 1 collaboration

Elizabeth Ramage 1 collaboration

Rupali P Patwardhan 1 collaboration

Joshua N Burton 1 collaboration

Andrew Adey 1 collaboration

Akash Kumar 1 collaboration

Ruolan Qiu 1 collaboration

Jay Shendure 1 collaboration

Benjamin Hall 1 collaboration

Alison Scott 1 collaboration

Catherine R Armbruster 1 collaboration

Dale Whittington 1 collaboration

John S Edgar 1 collaboration

Xuan Qin 1 collaboration

Anne Marie Buccat 1 collaboration

Marcella Blackledge 1 collaboration

Robert K Ernst 1 collaboration

Amy Oreskovic 1 collaboration

Christopher A Rosenthal 1 collaboration

Douglas P K Wilson 1 collaboration

Adrienne E Shapiro 1 collaboration

Paul K Drain 1 collaboration

Barry R Lutz 1 collaboration

David Wu 1 collaboration

Sami B Kanaan 1 collaboration

Francesca Urselli 1 collaboration

J Lee Nelson 1 collaboration

Jerald Radich 1 collaboration

Andrew Bryan 1 collaboration

Taylor Hodgson 1 collaboration

Nova F Berger 1 collaboration

Zoe H Bishop 1 collaboration

Duankun K Lee 1 collaboration

Samantha R Hardy 1 collaboration

Maxwell P Krist 1 collaboration

Kevin Huang 1 collaboration

David Roach 1 collaboration

Jorge Abanto 1 collaboration

Joseph Zunt 1 collaboration

Carolina Cucho 1 collaboration

Jaime Soria 1 collaboration

Hari Polenakovik 1 collaboration

Jason E Hsu 1 collaboration

Frederick A Matsen 1 collaboration

Anastasia J Whitson 1 collaboration

Lauren J Gonsalves 1 collaboration

Allyson Tran 1 collaboration

Tessa Gardiner 1 collaboration

Tiia Freeman 1 collaboration

Angshita Dutta 1 collaboration

Carson J Miller 1 collaboration