Jacob Lucas Steenwyk (Jacob Steenwyk, Jacob L Steenwyk)

Loop profile ORCID

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 94

Top Venues

G3 (Bethesda, Md.)

bioRxiv : the preprint server for biology

PLoS biology

Microbiology spectrum

Vanderbilt University (PHD)

This page only lists publications with an associated author ORCID identifier.

Education History

Vanderbilt University

United States

PHD :: Biological Sciences

Clark University

United States

MSC :: Biochemistry and Molecular Biology

Clark University

United States

BSC :: Biochemistry and Molecular Biology

Publications

Johnson J-T Wang, Jacob Lucas Steenwyk, Rachel B Brem
Natural trait variation across Saccharomycotina species. FEMS yeast research 24 (2024)
Johnson J-T Wang, Jacob Lucas Steenwyk, Rachel B Brem
Natural trait variation across Saccharomycotina species. FEMS yeast research 24 (2024)
Dana A Opulente, Abigail Leavitt LaBella, Marie-Claire Harrison, John F Wolters, Chao Liu, Yonglin Li, Jacek Kominek, Jacob Lucas Steenwyk, Hayley R Stoneman, Jenna VanDenAvond, Caroline R Miller, Quinn K Langdon, Margarida Silva, Carla Gonçalves, Emily J Ubbelohde, Yuanning Li, Kelly V Buh, Martin Jarzyna, Max A B Haase, Carlos A Rosa, Neža Čadež, Diego Libkind, Jeremy H DeVirgilio, Amanda Beth Hulfachor, Cletus P Kurtzman, José Paulo Sampaio, Paula Gonçalves, Xiao-Fan Zhou, Xing-Xing Shen, Marizeth Groenewald, Antonis Rokas, Chris Todd Hittinger
Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts. Science (New York, N.Y.) 384 (6694) (2024)
Jacob Lucas Steenwyk, Charu Balamurugan, Huzefa A Raja, Carla Gonçalves, Ningxiao Li, Frank Martin, Judith Berman, Nicholas H Oberliels, John G Gibbons, Gustavo Henrique Goldman, David M Geiser, Jos Houbraken, David S Hibbett, Antonis Rokas
Phylogenomics reveals extensive misidentification of fungal strains from the genus Aspergillus . Microbiology spectrum 12 (4) (2024)
Dana A Opulente, Abigail Leavitt LaBella, Marie-Claire Harrison, John F Wolters, Chao Liu, Yonglin Li, Jacek Kominek, Jacob Lucas Steenwyk, Hayley R Stoneman, Jenna VanDenAvond, Caroline R Miller, Quinn K Langdon, Margarida Silva, Carla Gonçalves, Emily J Ubbelohde, Yuanning Li, Kelly V Buh, Martin Jarzyna, Max A B Haase, Carlos A Rosa, Neža Čadež, Diego Libkind, Jeremy H DeVirgilio, Amanda Beth Hulfachor, Cletus P Kurtzman, José Paulo Sampaio, Paula Gonçalves, Xiao-Fan Zhou, Xing-Xing Shen, Marizeth Groenewald, Antonis Rokas, Chris Todd Hittinger
Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts. Science (New York, N.Y.) 384 (6694) (2024)
Matthew J O'Meara, Jackson R Rapala, Connie B Nichols, A Christina Alexandre, R Blake Billmyre, Jacob Lucas Steenwyk, J Andrew Alspaugh, Teresa R O'Meara
CryptoCEN: A Co-Expression Network for Cryptococcus neoformans reveals novel proteins involved in DNA damage repair. PLoS genetics 20 (2) (2024)
Alec Brown, Jacob Lucas Steenwyk, Antonis Rokas
Genome-wide patterns of non-coding sequence variation in the major fungal pathogen Aspergillus fumigatus . bioRxiv : the preprint server for biology (2024)
Alec Brown, Jacob Lucas Steenwyk, Antonis Rokas
Genome-wide patterns of noncoding and protein-coding sequence variation in the major fungal pathogen Aspergillus fumigatus. G3 (Bethesda, Md.) 14 (7) (2024)
Jacob Lucas Steenwyk, Charu Balamurugan, Huzefa A Raja, Carla Gonçalves, Ningxiao Li, Frank Martin, Judith Berman, Nicholas H Oberliels, John G Gibbons, Gustavo Henrique Goldman, David M Geiser, Jos Houbraken, David S Hibbett, Antonis Rokas
Phylogenomics reveals extensive misidentification of fungal strains from the genus Aspergillus . Microbiology spectrum 12 (4) (2024)
Jacob Lucas Steenwyk, Nicole King
The promise and pitfalls of synteny in phylogenomics. PLoS biology 22 (5) (2024)
Charu Balamurugan, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Antonis Rokas
The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi. G3 (Bethesda, Md.) 14 (5) (2024)
Jacob Lucas Steenwyk, Charu Balamurugan, Huzefa A Raja, Carla Gonçalves, Ningxiao Li, Frank Martin, Judith Berman, Nicholas H Oberliels, John G Gibbons, Gustavo Henrique Goldman, David M Geiser, Jos Houbraken, David S Hibbett, Antonis Rokas
Phylogenomics reveals extensive misidentification of fungal strains from the genus Aspergillus . Microbiology spectrum 12 (4) (2024)
Jacob Lucas Steenwyk, Charu Balamurugan, Huzefa A Raja, Carla Gonçalves, Ningxiao Li, Frank Martin, Judith Berman, Nicholas H Oberliels, John G Gibbons, Gustavo Henrique Goldman, David M Geiser, Jos Houbraken, David S Hibbett, Antonis Rokas
Phylogenomics reveals extensive misidentification of fungal strains from the genus Aspergillus . Microbiology spectrum (2024)
Matthew J O'Meara, Jackson R Rapala, Connie B Nichols, A Christina Alexandre, R Blake Billmyre, Jacob Lucas Steenwyk, J Andrew Alspaugh, Teresa R O'Meara
CryptoCEN: A Co-Expression Network for Cryptococcus neoformans reveals novel proteins involved in DNA damage repair. PLoS genetics 20 (2) (2024)
Alec Brown, Jacob Lucas Steenwyk, Antonis Rokas
Genome-wide patterns of non-coding and protein-coding sequence variation in the major fungal pathogen Aspergillus fumigatus. G3 (Bethesda, Md.) (2024)
Matthew J O'Meara, Jackson R Rapala, Connie B Nichols, A Christina Alexandre, R Blake Billmyre, Jacob Lucas Steenwyk, J Andrew Alspaugh, Teresa R O'Meara
CryptoCEN: A Co-Expression Network for Cryptococcus neoformans reveals novel proteins involved in DNA damage repair. PLoS genetics 20 (2) (2024)
Alec Brown, Jacob Lucas Steenwyk, Antonis Rokas
Genome-wide patterns of non-coding sequence variation in the major fungal pathogen Aspergillus fumigatus . bioRxiv : the preprint server for biology (2024)
Dana A Opulente, Abigail Leavitt LaBella, Marie-Claire Harrison, John F Wolters, Chao Liu, Yonglin Li, Jacek Kominek, Jacob Lucas Steenwyk, Hayley R Stoneman, Jenna VanDenAvond, Caroline R Miller, Quinn K Langdon, Margarida Silva, Carla Gonçalves, Emily J Ubbelohde, Yuanning Li, Kelly V Buh, Martin Jarzyna, Max A B Haase, Carlos A Rosa, Neža Čadež, Diego Libkind, Jeremy H DeVirgilio, Amanda Beth Hulfachor, Cletus P Kurtzman, José Paulo Sampaio, Paula Gonçalves, Xiao-Fan Zhou, Xing-Xing Shen, Marizeth Groenewald, Antonis Rokas, Chris Todd Hittinger
Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts. Science (New York, N.Y.) 384 (6694) (2024)
Alec Brown, Jacob Lucas Steenwyk, Antonis Rokas
Genome-wide patterns of non-coding sequence variation in the major fungal pathogen Aspergillus fumigatus . bioRxiv : the preprint server for biology (2024)
Charu Balamurugan, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Antonis Rokas
The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi. G3 (Bethesda, Md.) (2024)
Alec Brown, Jacob Lucas Steenwyk, Antonis Rokas
Genome-wide patterns of noncoding and protein-coding sequence variation in the major fungal pathogen Aspergillus fumigatus. G3 (Bethesda, Md.) 14 (7) (2024)
Dana A Opulente, Abigail Leavitt LaBella, Marie-Claire Harrison, John F Wolters, Chao Liu, Yonglin Li, Jacek Kominek, Jacob Lucas Steenwyk, Hayley R Stoneman, Jenna VanDenAvond, Caroline R Miller, Quinn K Langdon, Margarida Silva, Carla Gonçalves, Emily J Ubbelohde, Yuanning Li, Kelly V Buh, Martin Jarzyna, Max A B Haase, Carlos A Rosa, Neža Čadež, Diego Libkind, Jeremy H DeVirgilio, Amanda Beth Hulfachor, Cletus P Kurtzman, José Paulo Sampaio, Paula Gonçalves, Xiao-Fan Zhou, Xing-Xing Shen, Marizeth Groenewald, Antonis Rokas, Chris Todd Hittinger
Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts. Science (New York, N.Y.) 384 (6694) (2024)
Jacob Lucas Steenwyk, Charu Balamurugan, Huzefa A Raja, Carla Gonçalves, Ningxiao Li, Frank Martin, Judith Berman, Nicholas H Oberliels, John G Gibbons, Gustavo Henrique Goldman, David M Geiser, Jos Houbraken, David S Hibbett, Antonis Rokas
Phylogenomics reveals extensive misidentification of fungal strains from the genus Aspergillus . Microbiology spectrum 12 (4) (2024)
Jacob Lucas Steenwyk, Nicole King
The promise and pitfalls of synteny in phylogenomics. PLoS biology 22 (5) (2024)
Alec Brown, Jacob Lucas Steenwyk, Antonis Rokas
Genome-wide patterns of non-coding sequence variation in the major fungal pathogen Aspergillus fumigatus . bioRxiv : the preprint server for biology (2024)
Matthew J O'Meara, Jackson R Rapala, Connie B Nichols, A Christina Alexandre, R Blake Billmyre, Jacob Lucas Steenwyk, J Andrew Alspaugh, Teresa R O'Meara
CryptoCEN: A Co-Expression Network for Cryptococcus neoformans reveals novel proteins involved in DNA damage repair. PLoS genetics 20 (2) (2024)
Bo Feng, Yonglin Li, Hongyue Liu, Jacob Lucas Steenwyk, Kyle T David, Xiaolin Tian, Biyang Xu, Carla Gonçalves, Dana A Opulente, Abigail Leavitt LaBella, Marie-Claire Harrison, John F Wolters, Shengyuan Shao, Zhaohao Chen, Kaitlin J Fisher, Marizeth Groenewald, Chris Todd Hittinger, Xing-Xing Shen, Antonis Rokas, Xiao-Fan Zhou, Yuanning Li
Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage. bioRxiv : the preprint server for biology (2024)
Alec Brown, Jacob Lucas Steenwyk, Antonis Rokas
Genome-wide patterns of noncoding and protein-coding sequence variation in the major fungal pathogen Aspergillus fumigatus. G3 (Bethesda, Md.) 14 (7) (2024)
Charu Balamurugan, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Antonis Rokas
The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi. G3 (Bethesda, Md.) 14 (5) (2024)
Charu Balamurugan, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Antonis Rokas
The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi. G3 (Bethesda, Md.) 14 (5) (2024)
Max A B Haase, Jacob Lucas Steenwyk, Jef D Boeke
Gene loss and cis-regulatory novelty shaped core histone gene evolution in the apiculate yeast Hanseniaspora uvarum. Genetics 226 (3) (2024)
Matthew J O'Meara, Jackson R Rapala, Connie B Nichols, A Christina Alexandre, R Blake Billmyre, Jacob Lucas Steenwyk, J Andrew Alspaugh, Teresa R O'Meara
CryptoCEN: A Co-Expression Network for Cryptococcus neoformans reveals novel proteins involved in DNA damage repair. PLoS genetics 20 (2) (2024)
Max A B Haase, Jacob Lucas Steenwyk, Jef D Boeke
Gene loss and cis-regulatory novelty shaped core histone gene evolution in the apiculate yeast Hanseniaspora uvarum. Genetics 226 (3) (2024)
Johnson J-T Wang, Jacob Lucas Steenwyk, Rachel B Brem
Natural trait variation across Saccharomycotina species. FEMS yeast research 24 (2024)
Charu Balamurugan, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Antonis Rokas
The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi. G3 (Bethesda, Md.) (2024)
Charu Balamurugan, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Antonis Rokas
The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi. G3 (Bethesda, Md.) (2024)
Charu Balamurugan, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Antonis Rokas
The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi. G3 (Bethesda, Md.) 14 (5) (2024)
Weiwei Zhang, Yani Fan, Wei Deng, Yue Chen, Shunxian Wang, Seogchan Kang, Jacob Lucas Steenwyk, Meichun Xiang, Xingzhong Liu
Characterization of genome-wide phylogenetic conflict uncovers evolutionary modes of carnivorous fungi. mBio (2024)
Max A B Haase, Jacob Lucas Steenwyk, Jef D Boeke
Gene loss and cis-regulatory novelty shaped core histone gene evolution in the apiculate yeast Hanseniaspora uvarum. Genetics (2024)
Alec Brown, Jacob Lucas Steenwyk, Antonis Rokas
Genome-wide patterns of non-coding sequence variation in the major fungal pathogen Aspergillus fumigatus . bioRxiv : the preprint server for biology (2024)
Jacob Lucas Steenwyk, Charu Balamurugan, Huzefa A Raja, Carla Gonçalves, Ningxiao Li, Frank Martin, Judith Berman, Nicholas H Oberliels, John G Gibbons, Gustavo Henrique Goldman, David M Geiser, Jos Houbraken, David S Hibbett, Antonis Rokas
Phylogenomics reveals extensive misidentification of fungal strains from the genus Aspergillus . Microbiology spectrum 12 (4) (2024)
Alec Brown, Jacob Lucas Steenwyk, Antonis Rokas
Genome-wide patterns of non-coding sequence variation in the major fungal pathogen Aspergillus fumigatus . bioRxiv : the preprint server for biology (2024)
Alec Brown, Jacob Lucas Steenwyk, Antonis Rokas
Genome-wide patterns of non-coding and protein-coding sequence variation in the major fungal pathogen Aspergillus fumigatus. G3 (Bethesda, Md.) (2024)
Bo Feng, Yonglin Li, Hongyue Liu, Jacob Lucas Steenwyk, Kyle T David, Xiaolin Tian, Biyang Xu, Carla Gonçalves, Dana A Opulente, Abigail Leavitt LaBella, Marie-Claire Harrison, John F Wolters, Shengyuan Shao, Zhaohao Chen, Kaitlin J Fisher, Marizeth Groenewald, Chris Todd Hittinger, Xing-Xing Shen, Antonis Rokas, Xiao-Fan Zhou, Yuanning Li
Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage. bioRxiv : the preprint server for biology (2024)
Matthew E Mead, Patrícia Alves de Castro, Jacob Lucas Steenwyk, Jean-Pierre Gangneux, Martin Hoenigl, Juergen Prattes, Riina Rautemaa-Richardson, Hélène Guegan, Caroline B Moore, Cornelia Lass-Flörl, Florian Reizine, Clara Valero, Norman van van Rhijn, Michael J Bromley, Antonis Rokas, Gustavo Henrique Goldman, Sara Gago, null null
COVID-19-Associated Pulmonary Aspergillosis Isolates Are Genomically Diverse but Similar to Each Other in Their Responses to Infection-Relevant Stresses. Microbiology spectrum (2023)
Sean Sierra-Patev, Byoungnam Min, Miguel Naranjo-Ortiz, Brian Looney, Zachary Konkel, Jason C Slot, Yuichi Sakamoto, Jacob Lucas Steenwyk, Antonis Rokas, Juan Carro, Susana Camarero, Patricia Ferreira, Gonzalo Molpeceres, Francisco Javier Ruiz-Dueñas, Ana Serrano, Bernard Henrissat, Elodie Drula, Karen W Hughes, Juan L Mata, Noemia Kazue Ishikawa, Ruby Vargas-Isla, Shuji Ushijima, Chris A Smith, John Donoghue, Steven Ahrendt, William Andreopoulos, Guifen He, Kurt M LaButti, Anna Lipzen, Vivian Ng, Robert Riley, Laura Sandor, Kerrie Barry, Angel T Martínez, Yang Xiao, John G Gibbons, Kazuhisa Terashima, Igor V Grigoriev, David S Hibbett
A global phylogenomic analysis of the shiitake genus Lentinula . Proceedings of the National Academy of Sciences of the United States of America 120 (10) (2023)
Sean Sierra-Patev, Byoungnam Min, Miguel Naranjo-Ortiz, Brian Looney, Zachary Konkel, Jason C Slot, Yuichi Sakamoto, Jacob Lucas Steenwyk, Antonis Rokas, Juan Carro, Susana Camarero, Patricia Ferreira, Gonzalo Molpeceres, Francisco Javier Ruiz-Dueñas, Ana Serrano, Bernard Henrissat, Elodie Drula, Karen W Hughes, Juan L Mata, Noemia Kazue Ishikawa, Ruby Vargas-Isla, Shuji Ushijima, Chris A Smith, John Donoghue, Steven Ahrendt, William Andreopoulos, Guifen He, Kurt M LaButti, Anna Lipzen, Vivian Ng, Robert Riley, Laura Sandor, Kerrie Barry, Angel T Martínez, Yang Xiao, John G Gibbons, Kazuhisa Terashima, Igor V Grigoriev, David S Hibbett
A global phylogenomic analysis of the shiitake genus Lentinula . Proceedings of the National Academy of Sciences of the United States of America 120 (10) (2023)
Robert A Drewell, Tayla C Cormier, Jacob Lucas Steenwyk, James St Denis, Javier F Tabima, Jacqueline M Dresch, Denis A Larochelle
The Dictyostelium discoideum genome lacks significant DNA methylation and uncovers palindromic sequences as a source of false positives in bisulfite sequencing. NAR genomics and bioinformatics 5 (2) (2023)
Jacob Lucas Steenwyk, Yuanning Li, Xiao-Fan Zhou, Xing-Xing Shen, Antonis Rokas
Incongruence in the phylogenomics era. Nature reviews. Genetics (2023)
Jacob Lucas Steenwyk, Antonis Rokas, Gustavo H Goldman
Know the enemy and know yourself: Addressing cryptic fungal pathogens of humans and beyond. PLoS pathogens 19 (10) (2023)
Jacob Lucas Steenwyk, Antonis Rokas
The dawn of relaxed phylogenetics. PLoS biology 21 (1) (2023)
Sean Sierra-Patev, Byoungnam Min, Miguel Naranjo-Ortiz, Brian Looney, Zachary Konkel, Jason C Slot, Yuichi Sakamoto, Jacob Lucas Steenwyk, Antonis Rokas, Juan Carro, Susana Camarero, Patricia Ferreira, Gonzalo Molpeceres, Francisco Javier Ruiz-Dueñas, Ana Serrano, Bernard Henrissat, Elodie Drula, Karen W Hughes, Juan L Mata, Noemia Kazue Ishikawa, Ruby Vargas-Isla, Shuji Ushijima, Chris A Smith, John Donoghue, Steven Ahrendt, William Andreopoulos, Guifen He, Kurt M LaButti, Anna Lipzen, Vivian Ng, Robert Riley, Laura Sandor, Kerrie Barry, Angel T Martínez, Yang Xiao, John G Gibbons, Kazuhisa Terashima, Igor V Grigoriev, David S Hibbett
A global phylogenomic analysis of the shiitake genus Lentinula . Proceedings of the National Academy of Sciences of the United States of America 120 (10) (2023)
Robert A Drewell, Tayla C Cormier, Jacob Lucas Steenwyk, James St Denis, Javier F Tabima, Jacqueline M Dresch, Denis A Larochelle
The Dictyostelium discoideum genome lacks significant DNA methylation and uncovers palindromic sequences as a source of false positives in bisulfite sequencing. NAR genomics and bioinformatics 5 (2) (2023)
Jacob Lucas Steenwyk, Antonis Rokas
The dawn of relaxed phylogenetics. PLoS biology 21 (1) (2023)
Matthew J O'Meara, Jackson R Rapala, Connie B Nichols, Christina Alexandre, R Blake Billmyre, Jacob Lucas Steenwyk, J Andrew Alspaugh, Teresa R O'Meara
CryptoCEN: A Co-Expression Network for Cryptococcus neoformans reveals novel proteins involved in DNA damage repair. bioRxiv : the preprint server for biology (2023)
Robert A Drewell, Tayla C Cormier, Jacob Lucas Steenwyk, James St Denis, Javier F Tabima, Jacqueline M Dresch, Denis A Larochelle
The Dictyostelium discoideum genome lacks significant DNA methylation and uncovers palindromic sequences as a source of false positives in bisulfite sequencing. NAR genomics and bioinformatics 5 (2) (2023)
Sean Sierra-Patev, Byoungnam Min, Miguel Naranjo-Ortiz, Brian Looney, Zachary Konkel, Jason C Slot, Yuichi Sakamoto, Jacob Lucas Steenwyk, Antonis Rokas, Juan Carro, Susana Camarero, Patricia Ferreira, Gonzalo Molpeceres, Francisco Javier Ruiz-Dueñas, Ana Serrano, Bernard Henrissat, Elodie Drula, Karen W Hughes, Juan L Mata, Noemia Kazue Ishikawa, Ruby Vargas-Isla, Shuji Ushijima, Chris A Smith, John Donoghue, Steven Ahrendt, William Andreopoulos, Guifen He, Kurt M LaButti, Anna Lipzen, Vivian Ng, Robert Riley, Laura Sandor, Kerrie Barry, Angel T Martínez, Yang Xiao, John G Gibbons, Kazuhisa Terashima, Igor V Grigoriev, David S Hibbett
A global phylogenomic analysis of the shiitake genus Lentinula . Proceedings of the National Academy of Sciences of the United States of America 120 (10) (2023)
Carla Gonçalves, Marie-Claire Harrison, Jacob Lucas Steenwyk, Dana A Opulente, Abigail Leavitt LaBella, John F Wolters, Xiao-Fan Zhou, Xing-Xing Shen, Marizeth Groenewald, Chris Todd Hittinger, Antonis Rokas
Diverse signatures of convergent evolution in cacti-associated yeasts. bioRxiv : the preprint server for biology (2023)
Robert A Drewell, Tayla C Cormier, Jacob Lucas Steenwyk, James St Denis, Javier F Tabima, Jacqueline M Dresch, Denis A Larochelle
The Dictyostelium discoideum genome lacks significant DNA methylation and uncovers palindromic sequences as a source of false positives in bisulfite sequencing. NAR genomics and bioinformatics 5 (2) (2023)
Jacob Lucas Steenwyk, Antonis Rokas
The dawn of relaxed phylogenetics. PLoS biology 21 (1) (2023)
Alec Brown, Matthew E Mead, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Antonis Rokas
Extensive non-coding sequence divergence between the major human pathogen Aspergillus fumigatus and its relatives. Frontiers in fungal biology 3 (2022)
Matthew E Mead, Jacob Lucas Steenwyk, Lilian P Silva, Patrícia A de Castro, Nauman Saeed, Falk Hillmann, Gustavo Henrique Goldman, Antonis Rokas
An evolutionary genomic approach reveals both conserved and species-specific genetic elements related to human disease in closely related Aspergillus fungi. Genetics 218 (2) (2022)
Megan A Phillips, Jacob Lucas Steenwyk, Xing-Xing Shen, Antonis Rokas
Examination of Gene Loss in the DNA Mismatch Repair Pathway and Its Mutational Consequences in a Fungal Phylum. Genome biology and evolution 13 (10) (2022)
Noah P Bradley, Katherine L Wahl, Jacob Lucas Steenwyk, Antonis Rokas, Brandt F Eichman
Resistance-Guided Mining of Bacterial Genotoxins Defines a Family of DNA Glycosylases. mBio 13 (2) (2022)
Patrícia Alves de Castro, Ana Cristina Colabardini, Maísa Moraes, Maria Augusta Crivelente Horta, Sonja L Knowles, Huzefa A Raja, Nicholas H Oberliels, Yasuji Koyama, Masahiro Ogawa, Katsuya Gomi, Jacob Lucas Steenwyk, Antonis Rokas, Relber Aguiar Gonçales, Cláudio Duarte-Oliveira, Agostinho Carvalho, Laure Nicolas Annick Ries, Gustavo Henrique Goldman
Regulation of gliotoxin biosynthesis and protection in Aspergillus species. PLoS genetics 18 (1) (2022)
Jacob Lucas Steenwyk, Thomas J Buida, Carla Gonçalves, Dayna C Goltz, Grace Morales, Matthew E Mead, Abigail Leavitt LaBella, Christina M Chavez, Jonathan E Schmitz, Maria Hadjifrangiskou, Yuanning Li, Antonis Rokas
BioKIT: a versatile toolkit for processing and analyzing diverse types of sequence data. Genetics 221 (3) (2022)
Jacob Lucas Steenwyk, Megan A Phillips, Feng Yang, Swapneeta S Date, Todd R Graham, Judith Berman, Chris Todd Hittinger, Antonis Rokas
An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function. Science advances 8 (18) (2022)
Alec Brown, Matthew E Mead, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Antonis Rokas
Extensive non-coding sequence divergence between the major human pathogen Aspergillus fumigatus and its relatives. Frontiers in fungal biology 3 (2022)
Maria Augusta Crivelente Horta, Jacob Lucas Steenwyk, Matthew E Mead, Luciano H Braz Dos Santos, Shu Zhao, John G Gibbons, Marina Marcet-Houben, Toni Gabaldón, Antonis Rokas, Gustavo Henrique Goldman
Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus. mBio 13 (4) (2022)
Alec Brown, Matthew E Mead, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Antonis Rokas
Extensive non-coding sequence divergence between the major human pathogen Aspergillus fumigatus and its relatives. Frontiers in fungal biology 3 (2022)
Jacob Lucas Steenwyk, Dayna C Goltz, Thomas J Buida, Yuanning Li, Xing-Xing Shen, Antonis Rokas
OrthoSNAP: A tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees. PLoS biology 20 (10) (2022)
Alec Brown, Matthew E Mead, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Antonis Rokas
Extensive non-coding sequence divergence between the major human pathogen Aspergillus fumigatus and its relatives. Frontiers in fungal biology 3 (2022)
Jacob Lucas Steenwyk
Evolutionary Divergence in DNA Damage Responses among Fungi. mBio 12 (2) (2021)
Abigail Leavitt LaBella, Dana A Opulente, Jacob Lucas Steenwyk, Chris Todd Hittinger, Antonis Rokas
Signatures of optimal codon usage in metabolic genes inform budding yeast ecology. PLoS biology 19 (4) (2021)
Jacob Lucas Steenwyk, Antonis Rokas
orthofisher: a broadly applicable tool for automated gene identification and retrieval. G3 (Bethesda, Md.) 11 (9) (2021)
Jacob Lucas Steenwyk, Matthew E Mead, Patrícia Alves de Castro, Clara Valero, André Damasio, Renato A C Dos Santos, Abigail L Labella, Yuanning Li, Sonja L Knowles, Huzefa A Raja, Nicholas H Oberlies, Xiaofan Zhou, Oliver A Cornely, Frieder Fuchs, Philipp Koehler, Gustavo Henrique Goldman, Antonis Rokas
Genomic and Phenotypic Analysis of COVID-19-Associated Pulmonary Aspergillosis Isolates of Aspergillus fumigatus. Microbiology spectrum 9 (1) (2021)
Jacob Lucas Steenwyk, Antonis Rokas
ggpubfigs: Colorblind-Friendly Color Palettes and ggplot2 Graphic System Extensions for Publication-Quality Scientific Figures. Microbiology resource announcements 10 (44) (2021)
Yuanning Li, Kyle T David, Xing-Xing Shen, Jacob Lucas Steenwyk, Kenneth M Halanych, Antonis Rokas
Feature frequency profile-based phylogenies are inaccurate. Proceedings of the National Academy of Sciences of the United States of America 117 (50) (2020)
Jacob Lucas Steenwyk, Matthew E Mead, Sonja L Knowles, Huzefa A Raja, Christopher D Roberts, Oliver Bader, Jos Houbraken, Gustavo Henrique Goldman, Nicholas H Oberliels, Antonis Rokas
Variation Among Biosynthetic Gene Clusters, Secondary Metabolite Profiles, and Cards of Virulence Across Aspergillus Species. Genetics 216 (2) (2020)
Xing-Xing Shen, Jacob Lucas Steenwyk, Abigail Leavitt LaBella, Dana A Opulente, Xiaofan Zhou, Jacek Kominek, Yuanning Li, Marizeth Groenewald, Chris Todd Hittinger, Antonis Rokas
Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota. Science advances 6 (45) (2020)
Antonis Rokas, Matthew E Mead, Jacob Lucas Steenwyk, Nicholas H Oberliels, Gustavo Henrique Goldman
Evolving moldy murderers: Aspergillus section Fumigati as a model for studying the repeated evolution of fungal pathogenicity. PLoS pathogens 16 (2) (2020)
Rafael Wesley Bastos, Clara Valero, Lilian Pereira Silva, Taylor Schoen, Milton T Drott, Verônica Brauer, Rafael Silva-Rocha, Abigail Lind, Jacob Lucas Steenwyk, Antonis Rokas, Fernando Rodrigues, Agustin Resendiz-Sharpe, Katrien Lagrou, Marina Marcet-Houben, Toni Gabaldón, Erin McDonnell, Ian Reid, Adrian Tsang, Berl R Oakley, Flávio Vieira Loures, Fausto Almeida, Anna Huttenlocher, Nancy P Keller, Laure Nicolas Annick Ries, Gustavo Henrique Goldman
Functional Characterization of Clinical Isolates of the Opportunistic Fungal Pathogen Aspergillus nidulans. mSphere 5 (2) (2020)
Renato Augusto Corrêa Dos Santos, Olga Rivero-Menendez, Jacob Lucas Steenwyk, Matthew E Mead, Gustavo Henrique Goldman, Ana-Alastruey Izquierdo, Antonis Rokas
Draft Genome Sequences of Four Aspergillus Section Fumigati Clinical Strains. Microbiology resource announcements 9 (40) (2020)
Sonja L Knowles, Matthew E Mead, Lilian Pereira Silva, Huzefa A Raja, Jacob Lucas Steenwyk, Gustavo Henrique Goldman, Nicholas H Oberliels, Antonis Rokas
Gliotoxin, a Known Virulence Factor in the Major Human Pathogen Aspergillus fumigatus, Is Also Biosynthesized by Its Nonpathogenic Relative Aspergillus fischeri. mBio 11 (1) (2020)
Aílton Pereira da Costa Filho, Guilherme Thomaz Pereira Brancini, Patrícia Alves de Castro, Clara Valero, Jaire Alves Ferreira Filho, Lilian Pereira Silva, Marina Campos Rocha, Iran Malavazi, João Guilherme de Moraes Pontes, Taícia Fill, Roberto Nascimento Silva, Fausto Almeida, Jacob Lucas Steenwyk, Antonis Rokas, Thaila F Dos Reis, Laure N A Ries, Gustavo Henrique Goldman
Aspergillus fumigatus G-Protein Coupled Receptors GprM and GprJ Are Important for the Regulation of the Cell Wall Integrity Pathway, Secondary Metabolite Production, and Virulence. mBio 11 (5) (2020)
Jacob Lucas Steenwyk
A portrait of budding yeasts: A symbol of the arts, sciences and a whole greater than the sum of its parts. Yeast (Chichester, England) 38 (1) (2020)
Laure N A Ries, Lakhansing Pardeshi, Zhiqiang Dong, Kaeling Tan, Jacob Lucas Steenwyk, Ana Cristina Colabardini, Jaire A Ferreira Filho, Patricia A de Castro, Lilian Pereira Silva, Nycolas Willian Preite, Fausto Almeida, Leandro Jose de Assis, Renato A C Dos Santos, Paul Bowyer, Michael J Bromley, Rebecca A Owens, Sean Doyle, Marilene Demasi, Diego C R Hernández, Luis Eduardo Soares Netto, Monica T Pupo, Antonis Rokas, Flavio V Loures, Koon Ho Wong, Gustavo Henrique Goldman
The Aspergillus fumigatus transcription factor RglT is important for gliotoxin biosynthesis and self-protection, and virulence. PLoS pathogens 16 (7) (2020)
Jacob Lucas Steenwyk, Thomas J Buida, Yuanning Li, Xing-Xing Shen, Antonis Rokas
ClipKIT: A multiple sequence alignment trimming software for accurate phylogenomic inference. PLoS biology 18 (12) (2020)
Abigail Leavitt LaBella, Dana A Opulente, Jacob Lucas Steenwyk, Chris Todd Hittinger, Antonis Rokas
Variation and selection on codon usage bias across an entire subphylum. PLoS genetics 15 (7) (2019)
Matthew E Mead, Huzefa A Raja, Jacob Lucas Steenwyk, Sonja L Knowles, Nicholas H Oberliels, Antonis Rokas
Draft Genome Sequence of the Griseofulvin-Producing Fungus Xylaria flabelliformis Strain G536. Microbiology resource announcements 8 (38) (2019)
Jacob Lucas Steenwyk, Xing-Xing Shen, Abigail L Lind, Gustavo Henrique Goldman, Antonis Rokas
A Robust Phylogenomic Time Tree for Biotechnologically and Medically Important Fungi in the Genera Aspergillus and Penicillium. mBio 10 (4) (2019)
Jacob Lucas Steenwyk, Dana A Opulente, Jacek Kominek, Xing-Xing Shen, Xiao-Fan Zhou, Abigail Leavitt LaBella, Noah P Bradley, Brandt F Eichman, Neža Čadež, Diego Libkind, Jeremy DeVirgilio, Amanda Beth Hulfachor, Cletus P Kurtzman, Chris Todd Hittinger, Antonis Rokas
Extensive loss of cell-cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts. PLoS biology 17 (5) (2019)
Matthew E Mead, Sonja L Knowles, Huzefa A Raja, Sarah R Beattie, Caitlin H Kowalski, Jacob Lucas Steenwyk, Lilian P Silva, Jessica Chiaratto, Laure N A Ries, Gustavo Henrique Goldman, Robert A Cramer, Nicholas H Oberlies, Antonis Rokas
Characterizing the Pathogenic, Genomic, and Chemical Traits of Aspergillus fischeri, a Close Relative of the Major Human Fungal Pathogen Aspergillus fumigatus. mSphere 4 (1) (2019)
Jacob Lucas Steenwyk, Antonis Rokas
Extensive Copy Number Variation in Fermentation-Related Genes Among Saccharomyces cerevisiae Wine Strains. G3 (Bethesda, Md.) 7 (5) (2017)

Jacob Lucas Steenwyk.css-eqlu8i{font-size:small;padding-left:4px;} (Jacob Steenwyk, Jacob L Steenwyk)

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Jacob Lucas Steenwyk (Jacob Steenwyk, Jacob L Steenwyk)