VEBA: a modular end-to-end suite for in silico recovery, clustering, and analysis of prokaryotic, microeukaryotic, and viral genomes from metagenomes

por Espinoza, Josh L., Dupont, Chris L.
Publicado 2022

Trace Metal Acquisition by Marine Heterotrophic Bacterioplankton with Contrasting Trophic Strategies

por Hogle, Shane L., Thrash, J. Cameron, Dupont, Chris L., Barbeau, Katherine A.
Publicado 2016

Genomic and phenotypic characterization of Burkholderia isolates from the potable water system of the International Space Station

por O’Rourke, Aubrie, Lee, Michael D., Nierman, William C., Everroad, R. Craig, Dupont, Chris L.
Publicado 2020

The Airplane Cabin Microbiome

por Weiss, Howard, Hertzberg, Vicki Stover, Dupont, Chris, Espinoza, Josh L., Levy, Shawn, Nelson, Karen, Norris, Sharon
Publicado 2018

Reference-guided metagenomics reveals genome-level evidence of potential microbial transmission from the ISS environment to an astronaut's microbiome

por Lee, Michael D., O'Rourke, Aubrie, Lorenzi, Hernan, Bebout, Brad M., Dupont, Chris L., Everroad, R. Craig
Publicado 2021

Connecting biodiversity and potential functional role in modern euxinic environments by microbial metagenomics

por Llorens-Marès, Tomàs, Yooseph, Shibu, Goll, Johannes, Hoffman, Jeff, Vila-Costa, Maria, Borrego, Carles M, Dupont, Chris L, Casamayor, Emilio O
Publicado 2015

Genus-Wide Transcriptional Landscapes Reveal Correlated Gene Networks Underlying Microevolutionary Divergence in Diatoms

por Walworth, Nathan G, Espinoza, Josh L, Argyle, Phoebe A, Hinners, Jana, Levine, Naomi M, Doblin, Martina A, Dupont, Chris L, Collins, Sinéad
Publicado 2023

Impact of DNA damaging agents on genome-wide transcriptional profiles in two marine Synechococcus species

por Tetu, Sasha G., Johnson, Daniel A., Varkey, Deepa, Phillippy, Katherine, Stuart, Rhona K., Dupont, Chris L., Hassan, Karl A., Palenik, Brian, Paulsen, Ian T.
Publicado 2013

Diversity and Expression of Bacterial Metacaspases in an Aquatic Ecosystem

por Asplund-Samuelsson, Johannes, Sundh, John, Dupont, Chris L., Allen, Andrew E., McCrow, John P., Celepli, Narin A., Bergman, Birgitta, Ininbergs, Karolina, Ekman, Martin
Publicado 2016

Universal loop assembly: open, efficient and cross-kingdom DNA fabrication

por Pollak, Bernardo, Matute, Tamara, Nuñez, Isaac, Cerda, Ariel, Lopez, Constanza, Vargas, Valentina, Kan, Anton, Bielinski, Vincent, von Dassow, Peter, Dupont, Chris L, Federici, Fernán
Publicado 2020

Differential network analysis of oral microbiome metatranscriptomes identifies community scale metabolic restructuring in dental caries

por Espinoza, Josh L, Torralba, Manolito, Leong, Pamela, Saffery, Richard, Bockmann, Michelle, Kuelbs, Claire, Singh, Suren, Hughes, Toby, Craig, Jeffrey M, Nelson, Karen E, Dupont, Chris L
Publicado 2022

Nutrient Stoichiometry Shapes Microbial Community Structure in an Evaporitic Shallow Pond

por Lee, Zarraz M.-P., Poret-Peterson, Amisha T., Siefert, Janet L., Kaul, Drishti, Moustafa, Ahmed, Allen, Andrew E., Dupont, Chris L., Eguiarte, Luis E., Souza, Valeria, Elser, James J.
Publicado 2017

Genomic adaptations in information processing underpin trophic strategy in a whole-ecosystem nutrient enrichment experiment

por Okie, Jordan G, Poret-Peterson, Amisha T, Lee, Zarraz MP, Richter, Alexander, Alcaraz, Luis D, Eguiarte, Luis E, Siefert, Janet L, Souza, Valeria, Dupont, Chris L, Elser, James J
Publicado 2020

Cross‐compartment metabolic coupling enables flexible photoprotective mechanisms in the diatom Phaeodactylum tricornutum

por Broddrick, Jared T., Du, Niu, Smith, Sarah R., Tsuji, Yoshinori, Jallet, Denis, Ware, Maxwell A., Peers, Graham, Matsuda, Yusuke, Dupont, Chris L., Mitchell, B. Greg, Palsson, Bernhard O., Allen, Andrew E.
Publicado 2019

Mechanism-of-Action Classification of Antibiotics by Global Transcriptome Profiling

por O’Rourke, Aubrie, Beyhan, Sinem, Choi, Yongwook, Morales, Pavel, Chan, Agnes P., Espinoza, Josh L., Dupont, Chris L., Meyer, Kirsten J., Spoering, Amy, Lewis, Kim, Nierman, William C., Nelson, Karen E.
Publicado 2020

Predicting antimicrobial mechanism-of-action from transcriptomes: A generalizable explainable artificial intelligence approach

por Espinoza, Josh L., Dupont, Chris L., O’Rourke, Aubrie, Beyhan, Sinem, Morales, Pavel, Spoering, Amy, Meyer, Kirsten J., Chan, Agnes P., Choi, Yongwook, Nierman, William C., Lewis, Kim, Nelson, Karen E.
Publicado 2021

Microbial functional diversity across biogeochemical provinces in the central Pacific Ocean

por Saunders, Jaclyn K., McIlvin, Matthew R., Dupont, Chris L., Kaul, Drishti, Moran, Dawn M., Horner, Tristan, Laperriere, Sarah M., Webb, Eric A., Bosak, Tanja, Santoro, Alyson E., Saito, Mak A.
Publicado 2022

Closing the gaps on the viral photosystem‐I  psaDCAB gene organization

por Roitman, Sheila, Flores‐Uribe, José, Philosof, Alon, Knowles, Ben, Rohwer, Forest, Ignacio‐Espinoza, J. Cesar, Sullivan, Matthew B., Cornejo‐Castillo, Francisco M., Sánchez, Pablo, Acinas, Silvia G., Dupont, Chris L., Béjà, Oded
Publicado 2015

Transcriptional Orchestration of the Global Cellular Response of a Model Pennate Diatom to Diel Light Cycling under Iron Limitation

por Smith, Sarah R., Gillard, Jeroen T. F., Kustka, Adam B., McCrow, John P., Badger, Jonathan H., Zheng, Hong, New, Ashley M., Dupont, Chris L., Obata, Toshihiro, Fernie, Alisdair R., Allen, Andrew E.
Publicado 2016

Correction: Transcriptional Orchestration of the Global Cellular Response of a Model Pennate Diatom to Diel Light Cycling under Iron Limitation

por Smith, Sarah R., Gillard, Jeroen T. F., Kustka, Adam B., McCrow, John P., Badger, Jonathan H., Zheng, Hong, New, Ashley M., Dupont, Chris L., Obata, Toshihiro, Fernie, Alisdair R., Allen, Andrew E.
Publicado 2017