1
2020
Degradation of biological macromolecules supports uncultured microbial populations in Guaymas Basin hydrothermal sediments

Sherlynette Pérez Castro , Mikayla A Borton , Kathleen Regan , Isabella Hrabe de Angelis
The ISME Journal 15 ( 12) 3480 -3497

12
2021
Variation in root exudate composition influences soil microbiome membership and function

Valerie A Seitz , Bridget B McGivern , Rebecca A Daly , Jacqueline M Chaparro
Applied and Environmental Microbiology 88 ( 11) e00226 -22

7
2022
Microbial colonization and persistence in deep fractured shales is guided by metabolic exchanges and viral predation

Kaela K Amundson , Mikayla A Borton , Rebecca A Daly , David W Hoyt
Microbiome 10 ( 1) 1 -15

3
2022
Methylotrophy in the Mire: direct and indirect routes for methane production in thawing permafrost

Jared B Ellenbogen , Mikayla A Borton , Bridget B McGivern , Dylan R Cronin
Msystems 9 ( 1) e00698 -23

1
2024
A functional microbiome catalog crowdsourced from North American rivers

Mikayla A Borton , Bridget B McGivern , Kathryn R Willi , Ben J Woodcroft
bioRxiv 2023.07. 22.550117 -2023.07. 22.550117

1
2023
Population ecology and potential biogeochemical impacts of ssDNA and dsDNA soil viruses along a permafrost thaw gradient

Gareth Trubl , Simon Roux , Mikayla A Borton , Arvind Varsani
bioRxiv 2023.06. 13.544858 -2023.06. 13.544858

1
2023
Microbial polyphenol metabolism is part of the thawing permafrost carbon cycle

Bridget B McGivern , Dylan R Cronin , Jared B Ellenbogen , Mikayla A Borton
Nature Microbiology 1 -13

2024
Rendering the metabolic wiring powering wetland soil methane production

Angela M Oliverio , Adrienne B Narrowe , Jorge A Villa , Christian Rinke
bioRxiv 2024.02. 06.579222 -2024.02. 06.579222

2024
Identification of bacterial species that can utilize fructose-asparagine

Anice Sabag-Daigle , Jikang Wu , Mikayla A Borton , Anindita Sengupta
Applied and Environmental Microbiology 84 ( 5) e01957 -17

15
2018
Genome-resolved metaproteomics decodes the microbial and viral contributions to coupled carbon and nitrogen cycling in river sediments

Josué A Rodríguez-Ramos , Mikayla A Borton , Bridget B McGivern , Garrett J Smith
Msystems 7 ( 4) e00516 -22

2022
ORT: a workflow linking genome-scale metabolic models with reactive transport codes

Rebecca L Rubinstein , Mikayla A Borton , Haiyan Zhou , Michael Shaffer
Bioinformatics 38 ( 3) 778 -784

6
2022
Targeted curation of the gut microbial gene content modulating human cardiovascular disease

Mikayla A Borton , Michael Shaffer , David W Hoyt , Ruisheng Jiang
Mbio 14 ( 5) e01511 -23

3
2023
Exposing new taxonomic variation with inflammation—a murine model-specific genome database for gut microbiome researchers

Ikaia Leleiwi , Josue Rodriguez-Ramos , Michael Shaffer , Anice Sabag-Daigle
Microbiome 11 ( 1) 114 -114

3
2023
kb_DRAM: annotation and metabolic profiling of genomes with DRAM in KBase

Michael Shaffer , Mikayla A Borton , Ben Bolduc , José P Faria
Bioinformatics 39 ( 4) btad110 -btad110

2
2023
Dominant nitrogen metabolisms of a warm, seasonally anoxic freshwater ecosystem revealed using genome resolved metatranscriptomics

Jemma M Fadum , Mikayla A Borton , Rebecca A Daly , Kelly C Wrighton
Msystems 9 ( 2) e01059 -23

1
2024
Untargeted, tandem mass spectrometry metaproteome of Columbia River sediments

Josué Rodríguez-Ramos , Carrie D Nicora , Samuel O Purvine , Mikayla A Borton
Microbiology Resource Announcements e00033 -24

2024
Time resolved multi-omics reveals diverse metabolic strategies of Salmonella during diet-induced inflammation

Katherine Kokkinias , Anice Sabag-Daigle , Yongseok Kim , Ikaia Leleiwi
bioRxiv 2024.02. 03.578763 -2024.02. 03.578763

2024
Gut microbiome carbon and sulfur metabolisms support Salmonella during pathogen infection

Ikaia Leleiwi , Katherine Kokkinias , Yongseok Kim , Maryam Baniasad
bioRxiv 2024.01. 16.575907 -2024.01. 16.575907

2024
Spatial and temporal metagenomics of river compartments reveals viral community dynamics in an urban impacted stream

Josué Rodríguez-Ramos , Angela Oliverio , Mikayla A Borton , Robert Danczak
Frontiers in Microbiomes 2 1199766 -1199766

2023