Lye M Markillie

Affiliations

Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, USA.

Publications (20)

Re-routing of Sugar Catabolism Provides a Better Insight Into Fungal Flexibility in Using Plant Biomass-Derived Monomers as Substrates.

Frontiers in bioengineering and biotechnology

Avec: Tania Chroumpi , Mao Peng , Lye Meng Markillie , Hugh D Mitchell , Carrie D Nicora , Chelsea M Hutchinson , Vanessa Paurus , Nikola Tolic , Chaevien S Clendinen , Galya Orr , Scott E Baker , Miia R Mäkelä , Ronald P de Vries

Novel metabolic interactions and environmental conditions mediate the boreal peatmoss-cyanobacteria mutualism.

The ISME journal

Avec: Alyssa A Carrell , Dušan Veličković , Travis J Lawrence , Benjamin P Bowen , Katherine B Louie , Dana L Carper , Rosalie K Chu , Hugh D Mitchell , Galya Orr , Lye Meng Markillie , Sara S Jawdy , Jane Grimwood , A Jonathan Shaw , Jeremy Schmutz , Trent R Northen , Christopher R Anderton , Dale A Pelletier , David J Weston

Rosette core fungal resistance in Arabidopsis thaliana.

Planta

Avec: Yanwan Dai , Huw A Ogilvie , Yuan Liu , Michael Huang , Lye Meng Markillie , Hugh D Mitchell , Eli J Borrego , Michael V Kolomiets , Matthew J Gaffrey , Galya Orr , E Wassim Chehab , Wan-Ting Mao , Janet Braam

Metabolic Interactions between

mSystems

Avec: Rene M Boiteau , Lye Meng Markillie , David W Hoyt , Dehong Hu , Rosalie K Chu , Hugh D Mitchell , Ljiljana Pasa-Tolic , Janet K Jansson , Christer Jansson

A crucial role for dynamic expression of components encoding the negative arm of the circadian clock.

bioRxiv : the preprint server for biology

Avec: Bin Wang , Xiaoying Zhou , Arminja N Kettenbach , Hugh D Mitchell , Lye Meng Markillie , Jennifer J Loros , Jay C Dunlap

Colonies of the fungus Aspergillus niger are highly differentiated to adapt to local carbon source variation.

Environmental microbiology

Avec: Paul Daly , Mao Peng , Hugh D Mitchell , Young-Mo Kim , Charles Ansong , Heather Brewer , Peter de Gijsel , Mary S Lipton , Lye Meng Markillie , Carrie D Nicora , Galya Orr , Ad Wiebenga , Kristiina S Hildén , Mirjam A Kabel , Scott E Baker , Miia R Mäkelä , Ronald P de Vries

Reference genes for accurate normalization of gene expression in wood-decomposing fungi.

Fungal genetics and biology : FG & B

Avec: Jiwei Zhang , Hugh D Mitchell , Lye Meng Markillie , Matthew J Gaffrey , Galya Orr , Jonathan Schilling

Intracellular pathways for lignin catabolism in white-rot fungi.

Proceedings of the National Academy of Sciences of the United States of America

Avec: Carlos Del Cerro , Erika Erickson , Tao Dong , Allison R Wong , Elizabeth K Eder , Samuel O Purvine , Hugh D Mitchell , Karl K Weitz , Lye Meng Markillie , Meagan C Burnet , David W Hoyt , Rosalie K Chu , Jan-Fang Cheng , Kelsey J Ramirez , Rui Katahira , Wei Xiong , Michael E Himmel , Venkataramanan Subramanian , Jeffrey G Linger , Davinia Salvachúa

Capturing an Early Gene Induction Event during Wood Decay by the Brown Rot Fungus

Applied and environmental microbiology

Avec: Claire E Anderson , Jiwei Zhang , Lye Meng Markillie , Hugh D Mitchell , William B Chrisler , Matthew J Gaffrey , Galya Orr , Jonathan S Schilling

Diverse electron carriers drive syntrophic interactions in an enriched anaerobic acetate-oxidizing consortium.

The ISME journal

Avec: Elizabeth A McDaniel , Matthew Scarborough , Daniel Girma Mulat , Xuan Lin , Pranav S Sampara , Heather M Olson , Robert P Young , Elizabeth K Eder , Isaac K Attah , Lye Meng Markillie , David W Hoyt , Mary S Lipton , Steven J Hallam , Ryan M Ziels

Wetland Sediments Host Diverse Microbial Taxa Capable of Cycling Alcohols.

Applied and environmental microbiology

Avec: Paula Dalcin Martins , Jeroen Frank , Hugh Mitchell , Lye Meng Markillie , Michael J Wilkins

Counting mRNA Copies in Intact Bacterial Cells by Fluctuation Localization Imaging-Based Fluorescence In Situ Hybridization (fliFISH).

Methods in molecular biology (Clifton, N.J.)

Avec: Dehong Hu , Yi Cui , Lye M Markillie , William B Chrisler , Qian Wang , Roland Hatzenpichler , Galya Orr

Synthetic Soil Aggregates: Bioprinted Habitats for High-Throughput Microbial Metaphenomics.

Microorganisms

Avec: Darian Smercina , Neerja Zambare , Kirsten Hofmockel , Natalie Sadler , Erin L Bredeweg , Carrie Nicora , Lye Meng Markillie , Jayde Aufrecht

A crucial role for dynamic expression of components encoding the negative arm of the circadian clock.

Nature communications

Avec: Bin Wang , Xiaoying Zhou , Arminja N Kettenbach , Hugh D Mitchell , Lye Meng Markillie , Jennifer J Loros , Jay C Dunlap

Proteome-scale tissue mapping using mass spectrometry based on label-free and multiplexed workflows.

bioRxiv : the preprint server for biology

Avec: Yumi Kwon , Jongmin Woo , Fengchao Yu , Sarah M Williams , Lye Meng Markillie , Ronald J Moore , Ernesto S Nakayasu , Jing Chen , Martha Campbell-Thompson , Clayton E Mathews , Alexey I Nesvizhskii , Wei-Jun Qian , Ying Zhu

High-throughput and high-efficiency sample preparation for single-cell proteomics using a nested nanowell chip.

Nature communications

Avec: Jongmin Woo , Sarah M Williams , Lye Meng Markillie , Song Feng , Chia-Feng Tsai , Victor Aguilera-Vazquez , Ryan L Sontag , Ronald J Moore , Dehong Hu , Hardeep S Mehta , Joshua Cantlon-Bruce , Tao Liu , Joshua N Adkins , Richard D Smith , Geremy C Clair , Ljiljana Pasa-Tolic , Ying Zhu

Cell-type-specific transcriptomics uncovers spatial regulatory networks in bioenergy sorghum stems.

The Plant journal : for cell and molecular biology

Avec: Jie Fu , Brian McKinley , Brandon James , William Chrisler , Lye Meng Markillie , Matthew J Gaffrey , Hugh D Mitchell , Muhammad Rizwan Riaz , Brenda Marcial , Galya Orr , Kankshita Swaminathan , John Mullet , Amy Marshall-Colon

Oligosaccharide production and signaling correlate with delayed flowering in an Arabidopsis genotype grown and selected in high [CO2].

PloS one

Avec: Hannah Kinmonth-Schultz , Stephen Michael Walker , Kerem Bingol , David W Hoyt , Young-Mo Kim , Lye Meng Markillie , Hugh D Mitchell , Carrie D Nicora , Ronald Taylor , Joy K Ward

Spatial Proteomics toward Subcellular Resolution by Coupling Deep Ultraviolet Laser Ablation with Nanodroplet Sample Preparation.

ACS measurement science au

Avec: Piliang Xiang , Andrey Liyu , Yumi Kwon , Dehong Hu , Sarah M Williams , Dušan Veličković , Lye Meng Markillie , William B Chrisler , Ljiljana Paša-Tolić , Ying Zhu

Proteome-scale tissue mapping using mass spectrometry based on label-free and multiplexed workflows.

Molecular & cellular proteomics : MCP

Réseau de co-auteurs

Lye Meng Markillie 19 collaborations

Hugh D Mitchell 12 collaborations

Galya Orr 8 collaborations

Matthew J Gaffrey 4 collaborations

David W Hoyt 4 collaborations

Dehong Hu 4 collaborations

Sarah M Williams 4 collaborations

Ying Zhu 4 collaborations

Carrie D Nicora 3 collaborations

Rosalie K Chu 3 collaborations

William B Chrisler 3 collaborations

Yumi Kwon 3 collaborations

Jongmin Woo 3 collaborations

Ronald J Moore 3 collaborations

Mao Peng 2 collaborations

Scott E Baker 2 collaborations

Miia R Mäkelä 2 collaborations

Ronald P de Vries 2 collaborations

Dušan Veličković 2 collaborations

Ljiljana Pasa-Tolic 2 collaborations

Bin Wang 2 collaborations

Xiaoying Zhou 2 collaborations

Arminja N Kettenbach 2 collaborations

Jennifer J Loros 2 collaborations

Jay C Dunlap 2 collaborations

Young-Mo Kim 2 collaborations

Mary S Lipton 2 collaborations

Jiwei Zhang 2 collaborations

Elizabeth K Eder 2 collaborations

Fengchao Yu 2 collaborations

Ernesto S Nakayasu 2 collaborations

Jing Chen 2 collaborations

Martha Campbell-Thompson 2 collaborations

Clayton E Mathews 2 collaborations

Alexey I Nesvizhskii 2 collaborations

Wei-Jun Qian 2 collaborations

Tania Chroumpi 1 collaboration

Chelsea M Hutchinson 1 collaboration

Vanessa Paurus 1 collaboration

Nikola Tolic 1 collaboration

Chaevien S Clendinen 1 collaboration

Alyssa A Carrell 1 collaboration

Travis J Lawrence 1 collaboration

Benjamin P Bowen 1 collaboration

Katherine B Louie 1 collaboration

Dana L Carper 1 collaboration

Sara S Jawdy 1 collaboration

Jane Grimwood 1 collaboration

A Jonathan Shaw 1 collaboration

Jeremy Schmutz 1 collaboration

Trent R Northen 1 collaboration

Christopher R Anderton 1 collaboration

Dale A Pelletier 1 collaboration

David J Weston 1 collaboration

Yanwan Dai 1 collaboration

Huw A Ogilvie 1 collaboration

Yuan Liu 1 collaboration

Michael Huang 1 collaboration

Eli J Borrego 1 collaboration

Michael V Kolomiets 1 collaboration

E Wassim Chehab 1 collaboration

Wan-Ting Mao 1 collaboration

Janet Braam 1 collaboration

Rene M Boiteau 1 collaboration

Janet K Jansson 1 collaboration

Christer Jansson 1 collaboration

Paul Daly 1 collaboration

Charles Ansong 1 collaboration

Heather Brewer 1 collaboration

Peter de Gijsel 1 collaboration

Ad Wiebenga 1 collaboration

Kristiina S Hildén 1 collaboration

Mirjam A Kabel 1 collaboration

Jonathan Schilling 1 collaboration

Carlos Del Cerro 1 collaboration

Erika Erickson 1 collaboration

Tao Dong 1 collaboration

Allison R Wong 1 collaboration

Samuel O Purvine 1 collaboration

Karl K Weitz 1 collaboration

Meagan C Burnet 1 collaboration

Jan-Fang Cheng 1 collaboration

Kelsey J Ramirez 1 collaboration

Rui Katahira 1 collaboration

Wei Xiong 1 collaboration

Michael E Himmel 1 collaboration

Venkataramanan Subramanian 1 collaboration

Jeffrey G Linger 1 collaboration

Davinia Salvachúa 1 collaboration

Claire E Anderson 1 collaboration

Jonathan S Schilling 1 collaboration

Elizabeth A McDaniel 1 collaboration

Matthew Scarborough 1 collaboration

Daniel Girma Mulat 1 collaboration

Xuan Lin 1 collaboration

Pranav S Sampara 1 collaboration

Heather M Olson 1 collaboration

Robert P Young 1 collaboration

Isaac K Attah 1 collaboration

Steven J Hallam 1 collaboration

Ryan M Ziels 1 collaboration

Paula Dalcin Martins 1 collaboration

Jeroen Frank 1 collaboration

Hugh Mitchell 1 collaboration

Michael J Wilkins 1 collaboration

Yi Cui 1 collaboration

Qian Wang 1 collaboration

Roland Hatzenpichler 1 collaboration

Darian Smercina 1 collaboration

Neerja Zambare 1 collaboration

Kirsten Hofmockel 1 collaboration

Natalie Sadler 1 collaboration

Erin L Bredeweg 1 collaboration

Carrie Nicora 1 collaboration

Jayde Aufrecht 1 collaboration

Song Feng 1 collaboration

Chia-Feng Tsai 1 collaboration

Victor Aguilera-Vazquez 1 collaboration

Ryan L Sontag 1 collaboration

Hardeep S Mehta 1 collaboration

Joshua Cantlon-Bruce 1 collaboration

Tao Liu 1 collaboration

Joshua N Adkins 1 collaboration

Richard D Smith 1 collaboration

Geremy C Clair 1 collaboration

Jie Fu 1 collaboration

Brian McKinley 1 collaboration

Brandon James 1 collaboration

William Chrisler 1 collaboration

Muhammad Rizwan Riaz 1 collaboration

Brenda Marcial 1 collaboration

Kankshita Swaminathan 1 collaboration

John Mullet 1 collaboration

Amy Marshall-Colon 1 collaboration

Hannah Kinmonth-Schultz 1 collaboration

Stephen Michael Walker 1 collaboration

Kerem Bingol 1 collaboration

Ronald Taylor 1 collaboration

Joy K Ward 1 collaboration

Piliang Xiang 1 collaboration

Andrey Liyu 1 collaboration

Ljiljana Paša-Tolić 1 collaboration