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Consecutive low-frequency shifts in A/T content denote nucleosome positions across microeukaryotes Mondo, Stephen J.; He, Guifen; Sharma, Aditi; Ciobanu, Doina; Riley, Robert; Andreopoulos, William B.; Lipzen, Anna; Kuo, Alan; LaButti, Kurt; Pangilinan, Jasmyn; Salamov, Asaf; Salamon, Hugh; Shu, Lili; Gladden, John; Magnuson, Jon; Aime, M. Catherine; O'Malley, Ronan; Grigoriev, Igor V. Share Save
Section-level genome sequencing and comparative genomics of Aspergillus sections Cavernicolus and Usti Nybo, J. L.; Vesth, T. C.; Theobald, S.; Frisvad, J. C.; Larsen, T. O.; Kjaerboelling, I.; Rothschild-Mancinelli, K.; Lyhne, E. K.; Barry, K.; Clum, A.; Yoshinaga, Y.; Ledsgaard, L.; Daum, C.; Lipzen, A.; Kuo, A.; Riley, R.; Mondo, S.; Labutti, K.; Haridas, S.; Pangalinan, J.; Salamov, A. A.; Simmons, B. A.; Magnuson, J. K.; Chen, J.; Drula, E.; Henrissat, B.; Wiebenga, A.; Lubbers, R. J. M.; Muller, A.; Gomes, A. C. dos Santos; Makela, M. R.; Stajich, J. E.; Grigorie, I., V; Mortensen, U. H.; Andersen, M. R. Share Save
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Corn stover variability drives differences in bisabolene production by engineered Rhodotorula toruloides Okonkwo, Onyinye; Dou, Chang; Oksen, Ethan; Narani, Akash; Marcondes, Wilian; Chen, Xiaowen; Kim, Joonhoon; Gao, Yuqian; Burnet, Meagan C.; Webb-Robertson, Bobbie-Jo M.; Poirier, Brenton C.; Tanjore, Deepti; Magnuson, Jon K.; Munoz, Nathalie Munoz; Gardner, James Share Save
Identification of a specific exporter that enables high production of aconitic acid in Aspergillus pseudoterreus Deng, Shuang; Kim, Joonhoon; Pomraning, Kyle R.; Gao, Yuqian; Evans, James E.; Hofstad, Beth A.; Dai, Ziyu; Webb-Robertson, Bobbie-Jo; Powell, Samantha M.; Novikova, Irina V.; Munoz, Nathalie; Kim, Young-Mo; Swita, Marie; Robles, Ana L.; Lemmon, Teresa; Duong, Rylan D.; Nicora, Carrie; Burnum-Johnson, Kristin E.; Magnuson, Jon Share Save
Engineering transcriptional regulation of pentose metabolism in Rhodosporidiumtoruloides for improved conversion of xylose to bioproducts Coradetti, Samuel T.; Adamczyk, Paul A.; Liu, Di; Gao, Yuqian; Otoupal, Peter B.; Geiselman, Gina M.; Webb-Robertson, Bobbie-Jo M.; Burnet, Meagan C.; Kim, Young-Mo; Burnum-Johnson, Kristin E.; Magnuson, Jon; Gladden, John M. Share Save
Engineering Rhodosporidium toruloides for production of 3-hydroxypro- pionic acid from lignocellulosic hydrolysate Liu, Di; Hwang, Hee Jin; Otoupal, Peter B.; Geiselman, Gina M.; Kim, Joonhoon; Pomraning, Kyle R.; Kim, Young-Mo; Munoz, Nathalie; Nicora, Carrie D.; Gao, Yuqian; Burnum-Johnson, Kristin E.; Jacobson, Oslo; Coradetti, Samuel; Kim, Jinho; Deng, Shuang; Dai, Ziyu; Prahl, Jan-Philip; Tanjore, Deepti; Lee, Taek Soon; Magnuson, Jon K.; Gladden, John M. Share Save
PeakDecoder enables machine learning-based metabolite annotation and accurate profiling in multidimensional mass spectrometry measurements Bilbao, Aivett; Munoz, Nathalie; Kim, Joonhoon; Orton, Daniel J.; Gao, Yuqian; Poorey, Kunal; Pomraning, Kyle R.; Weitz, Karl; Burnet, Meagan; Nicora, Carrie D.; Wilton, Rosemarie; Deng, Shuang; Dai, Ziyu; Oksen, Ethan; Gee, Aaron; Fasani, Rick A.; Tsalenko, Anya; Tanjore, Deepti; Gardner, James; Smith, Richard D.; Michener, Joshua K.; Gladden, John M.; Baker, Erin S.; Petzold, Christopher J.; Kim, Young-Mo; Apffel, Alex; Magnuson, Jon K.; Burnum-Johnson, Kristin E. Share Save
Metabolic engineering to improve production of 3-hydroxypropionic acid from corn-stover hydrolysate in Aspergillus species Dai, Ziyu; Pomraning, Kyle R. R.; Deng, Shuang; Kim, Joonhoon; Campbell, Kristen B. B.; Robles, Ana L. L.; Hofstad, Beth A. A.; Munoz, Nathalie; Gao, Yuqian; Lemmon, Teresa; Swita, Marie S. S.; Zucker, Jeremy D. D.; Kim, Young-Mo; Burnum-Johnson, Kristin E. E.; Magnuson, Jon K. K. Share Save
Initiation of fatty acid biosynthesis in Pseudomonas putida KT2440 McNaught, Kevin J.; Kuatsjah, Eugene; Zahn, Michael; Prates, Erica T.; Shao, Huiling; Bentley, Gayle J.; Pickford, Andrew R.; Gruber, Josephine N.; V. Hestmark, Kelley; Jacobson, Daniel A.; Poirier, Brenton C.; Ling, Chen; San Marchi, Myrsini; Michener, William E.; Nicora, Carrie D.; Sanders, Jacob N.; Szostkiewicz, Caralyn J.; Velickovic, Dusan; Zhou, Mowei; Munoz, Nathalie; Kim, Young-Mo; Magnuson, Jon K.; Burnum-Johnson, Kristin E.; Houk, K. N.; McGeehan, John E.; Johnson, Christopher W.; Beckham, Gregg T. Share Save
Itaconic acid production is regulated by LaeA in Aspergillus pseudoterreus Pomraning, Kyle R.; Dai, Ziyu; Munoz, Nathalie; Kim, Young-Mo; Gao, Yuqian; Deng, Shuang; Lemmon, Teresa; Swita, Marie S.; Zucker, Jeremy D.; Kim, Joonhoon; Mondo, Stephen J.; Panisko, Ellen; Burnet, Meagan C.; Webb-Robertson, Bobbie-Jo M.; Hofstad, Beth; Baker, Scott E.; Burnum-Johnson, Kristin E.; Magnuson, Jon K. Share Save
Muconic acid production from glucose and xylose in Pseudomonas putida via evolution and metabolic engineering Ling, Chen; Peabody, George L.; Salvachua, Davinia; Kim, Young-Mo; Kneucker, Colin M.; Calvey, Christopher H.; Monninger, Michela A.; Munoz, Nathalie Munoz; Poirier, Brenton C.; Ramirez, Kelsey J.; St John, Peter C.; Woodworth, Sean P.; Magnuson, Jon K.; Burnum-Johnson, Kristin E.; Guss, Adam M.; Johnson, Christopher W.; Beckham, Gregg T. Share Save
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Further engineering of R. toruloides for the production of terpenes from lignocellulosic biomass Kirby, James; Geiselman, Gina M.; Yaegashi, Junko; Kim, Joonhoon; Zhuang, Xun; Tran-Gyamfi, Mary Bao; Prahl, Jan-Philip; Sundstrom, Eric R.; Gao, Yuqian; Munoz, Nathalie; Burnum-Johnson, Kristin E.; Benites, Veronica T.; Baidoo, Edward E. K.; Fuhrmann, Anna; Seibel, Katharina; Webb-Robertson, Bobbie-Jo M.; Zucker, Jeremy; Nicora, Carrie D.; Tanjore, Deepti; Magnuson, Jon K.; Skerker, Jeffrey M.; Gladden, John M. Share Save
Gene family expansions and transcriptome signatures uncover fungal adaptations to wood decay Hage, Hayat; Miyauchi, Shingo; Viragh, Mate; Drula, Elodie; Min, Byoungnam; Chaduli, Delphine; Navarro, David; Favel, Anne; Norest, Manon; Lesage-Meessen, Laurence; Balint, Balazs; Merenyi, Zsolt; de Eugenio, Laura; Morin, Emmanuelle; Martinez, Angel T.; Baldrian, Petr; Stursova, Martina; Martinez, Maria Jesus; Novotny, Cenek; Magnuson, Jon K.; Spatafora, Joey W.; Maurice, Sundy; Pangilinan, Jasmyn; Andreopoulos, Willian; LaButti, Kurt; Hundley, Hope; Na, Hyunsoo; Kuo, Alan; Barry, Kerrie; Lipzen, Anna; Henrissat, Bernard; Riley, Robert; Ahrendt, Steven; Nagy, Laszlo G.; Grigoriev, Igor, V; Martin, Francis; Rosso, Marie-Noelle Share Save
Evaluation of chromosomal insertion loci in the Pseudomonas putida KT2440 genome for predictable biosystems design Chaves, Julie E.; Wilton, Rosemarie; Gao, Yuqian; Munoz, Nathalie Munoz; Burnet, Meagan C.; Schmitz, Zachary; Rowan, John; Burdick, Leah H.; Elmore, Joshua; Guss, Adam; Close, Dan; Magnuson, Jon K.; Burnum-Johnson, Kristin E.; Michener, Joshua K. Share Save
Conversion of poplar biomass into high-energy density tricyclic sesquiterpene jet fuel blendstocks Geiselman, Gina M.; Kirby, James; Landera, Alexander; Otoupal, Peter; Papa, Gabriella; Barcelos, Carolina; Sundstrom, Eric R.; Das, Lalitendu; Magurudeniya, Harsha D.; Wehrs, Maren; Rodriguez, Alberto; Simmons, Blake A.; Magnuson, Jon K.; Mukhopadhyay, Aindrila; Lee, Taek Soon; George, Anthe; Gladden, John M. Share Save
Large-scale genome sequencing of mycorrhizal fungi provides insights into the early evolution of symbiotic traits Miyauchi, Shingo; Kiss, Eniko; Kuo, Alan; Drula, Elodie; Kohler, Annegret; Sanchez-Garcia, Marisol; Morin, Emmanuelle; Andreopoulos, Bill; Barry, Kerrie W.; Bonito, Gregory; Buee, Marc; Carver, Akiko; Chen, Cindy; Cichocki, Nicolas; Clum, Alicia; Culley, David; Crous, Pedro W.; Fauchery, Laure; Girlanda, Mariangela; Hayes, Richard D.; Keri, Zsofia; LaButti, Kurt; Lipzen, Anna; Lombard, Vincent; Magnuson, Jon; Maillard, Francois; Murat, Claude; Nolan, Matt; Ohm, Robin A.; Pangilinan, Jasmyn; Pereira, Maira de Freitas; Perotto, Silvia; Peter, Martina; Pfister, Stephanie; Riley, Robert; Sitrit, Yaron; Stielow, J. Benjamin; Szollosi, Gergely; Zifcakova, Lucia; Stursova, Martina; Spatafora, Joseph W.; Tedersoo, Leho; Vaario, Lu-Min; Yamada, Akiyoshi; Yan, Mi; Wang, Pengfei; Xu, Jianping; Bruns, Tom; Baldrian, Petr; Vilgalys, Rytas; Dunand, Christophe; Henrissat, Bernard; Grigoriev, Igor V.; Hibbett, David; Nagy, Laszlo G.; Martin, Francis M. Share Save
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