Genome-scale model development and genomic sequencing of the oleaginous clade Lipomyces .

Autor: Czajka JJ; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, United States.; US Department of Energy Agile BioFoundry, Emeryville, CA, United States., Han Y; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, United States.; US Department of Energy Agile BioFoundry, Emeryville, CA, United States., Kim J; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, United States.; US Department of Energy Agile BioFoundry, Emeryville, CA, United States.; US Department of Energy Joint BioEnergy Institute, Emeryville, CA, United States., Mondo SJ; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States.; Department of Agricultural Biology, Colorado State University, Fort Collins, CO, United States.; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Hofstad BA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, United States.; US Department of Energy Agile BioFoundry, Emeryville, CA, United States., Robles A; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, United States.; US Department of Energy Agile BioFoundry, Emeryville, CA, United States., Haridas S; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Riley R; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., LaButti K; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Pangilinan J; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Andreopoulos W; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Lipzen A; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Yan J; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Wang M; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Ng V; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Grigoriev IV; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, United States.; Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA, United States., Spatafora JW; Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, United States., Magnuson JK; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, United States.; US Department of Energy Agile BioFoundry, Emeryville, CA, United States.; US Department of Energy Joint BioEnergy Institute, Emeryville, CA, United States., Baker SE; US Department of Energy Agile BioFoundry, Emeryville, CA, United States.; US Department of Energy Joint BioEnergy Institute, Emeryville, CA, United States.; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, United States., Pomraning KR; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, United States.; US Department of Energy Agile BioFoundry, Emeryville, CA, United States.

Publikováno v: Frontiers in bioengineering and biotechnology [Front Bioeng Biotechnol] 2024 Apr 04; Vol. 12, pp. 1356551. Date of Electronic Publication: 2024 Apr 04 (Print Publication: 2024).

Identification of a specific exporter that enables high production of aconitic acid in Aspergillus pseudoterreus.

Autor: Deng S; DOE Agile Biofoundry, Emeryville, CA, 94608, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: shuang.deng@pnnl.gov., Kim J; DOE Agile Biofoundry, Emeryville, CA, 94608, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: joonhoon.kim@pnnl.gov., Pomraning KR; DOE Agile Biofoundry, Emeryville, CA, 94608, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: kyle.pomraning@pnnl.gov., Gao Y; DOE Agile Biofoundry, Emeryville, CA, 94608, USA; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: Yuqian.gao@pnnl.gov., Evans JE; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: James.Evans@pnnl.gov., Hofstad BA; DOE Agile Biofoundry, Emeryville, CA, 94608, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: beth.hofstad@pnnl.gov., Dai Z; DOE Agile Biofoundry, Emeryville, CA, 94608, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: ziyu.dai@pnnl.gov., Webb-Robertson BJ; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: bobbie-jo.webb-robertson@pnnl.gov., Powell SM; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: samantha.powell@pnnl.gov., Novikova IV; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: irina.novikova@pnnl.gov., Munoz N; DOE Agile Biofoundry, Emeryville, CA, 94608, USA; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: nathalie.munozmunoz@pnnl.gov., Kim YM; DOE Agile Biofoundry, Emeryville, CA, 94608, USA; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: young-mo.kim@pnnl.gov., Swita M; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: marie.swita@pnnl.gov., Robles AL; DOE Agile Biofoundry, Emeryville, CA, 94608, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: ana.robles@pnnl.gov., Lemmon T; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: Teresa.lemmon@pnnl.gov., Duong RD; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: rylan.duong@pnnl.gov., Nicora C; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: carrie.nicora@pnnl.gov., Burnum-Johnson KE; DOE Agile Biofoundry, Emeryville, CA, 94608, USA; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: Kristin.burnum-johnson@pnnl.gov., Magnuson J; DOE Agile Biofoundry, Emeryville, CA, 94608, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA.

Publikováno v: Metabolic engineering [Metab Eng] 2023 Nov; Vol. 80, pp. 163-172. Date of Electronic Publication: 2023 Sep 29.

Metabolic engineering to improve production of 3-hydroxypropionic acid from corn-stover hydrolysate in Aspergillus species.

Autor: Dai Z; DOE Agile Biofoundry, Emeryville, CA, 94608, USA. ziyu.dai@pnnl.gov.; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. ziyu.dai@pnnl.gov., Pomraning KR; DOE Agile Biofoundry, Emeryville, CA, 94608, USA.; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Deng S; DOE Agile Biofoundry, Emeryville, CA, 94608, USA.; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Kim J; DOE Agile Biofoundry, Emeryville, CA, 94608, USA.; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Campbell KB; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Robles AL; DOE Agile Biofoundry, Emeryville, CA, 94608, USA.; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Hofstad BA; DOE Agile Biofoundry, Emeryville, CA, 94608, USA.; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Munoz N; DOE Agile Biofoundry, Emeryville, CA, 94608, USA.; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Gao Y; DOE Agile Biofoundry, Emeryville, CA, 94608, USA.; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Lemmon T; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Swita MS; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Zucker JD; DOE Agile Biofoundry, Emeryville, CA, 94608, USA.; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Kim YM; DOE Agile Biofoundry, Emeryville, CA, 94608, USA.; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Burnum-Johnson KE; DOE Agile Biofoundry, Emeryville, CA, 94608, USA.; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Magnuson JK; DOE Agile Biofoundry, Emeryville, CA, 94608, USA. jon.magnuson@pnnl.gov.; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. jon.magnuson@pnnl.gov.

Publikováno v: Biotechnology for biofuels and bioproducts [Biotechnol Biofuels Bioprod] 2023 Mar 29; Vol. 16 (1), pp. 53. Date of Electronic Publication: 2023 Mar 29.

Integration of Proteomics and Metabolomics Into the Design, Build, Test, Learn Cycle to Improve 3-Hydroxypropionic Acid Production in Aspergillus pseudoterreus .

Autor: Pomraning KR; Pacific Northwest National Laboratory, Richland, WA, United States., Dai Z; Pacific Northwest National Laboratory, Richland, WA, United States., Munoz N; Pacific Northwest National Laboratory, Richland, WA, United States., Kim YM; Pacific Northwest National Laboratory, Richland, WA, United States., Gao Y; Pacific Northwest National Laboratory, Richland, WA, United States., Deng S; Pacific Northwest National Laboratory, Richland, WA, United States., Kim J; Pacific Northwest National Laboratory, Richland, WA, United States.; Joint BioEnergy Institute, Emeryville, CA, United States., Hofstad BA; Pacific Northwest National Laboratory, Richland, WA, United States., Swita MS; Pacific Northwest National Laboratory, Richland, WA, United States., Lemmon T; Pacific Northwest National Laboratory, Richland, WA, United States., Collett JR; Pacific Northwest National Laboratory, Richland, WA, United States., Panisko EA; Pacific Northwest National Laboratory, Richland, WA, United States., Webb-Robertson BM; Pacific Northwest National Laboratory, Richland, WA, United States., Zucker JD; Pacific Northwest National Laboratory, Richland, WA, United States., Nicora CD; Pacific Northwest National Laboratory, Richland, WA, United States., De Paoli H; Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Baker SE; Pacific Northwest National Laboratory, Richland, WA, United States., Burnum-Johnson KE; Pacific Northwest National Laboratory, Richland, WA, United States., Hillson NJ; Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Magnuson JK; Pacific Northwest National Laboratory, Richland, WA, United States.; Joint BioEnergy Institute, Emeryville, CA, United States.

Publikováno v: Frontiers in bioengineering and biotechnology [Front Bioeng Biotechnol] 2021 Apr 07; Vol. 9, pp. 603832. Date of Electronic Publication: 2021 Apr 07 (Print Publication: 2021).

Deletion of the KU70 homologue facilitates gene targeting in Lipomyces starkeyi strain NRRL Y-11558.

Autor: Dai Z; Chemical and Biological Processes Development Group, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. ziyu.dai@pnnl.gov., Pomraning KR; Chemical and Biological Processes Development Group, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Deng S; Chemical and Biological Processes Development Group, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Hofstad BA; Chemical and Biological Processes Development Group, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Panisko EA; Chemical and Biological Processes Development Group, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Rodriguez D; Chemical and Biological Processes Development Group, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Butcher MG; Chemical and Biological Processes Development Group, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Culley DE; Chemical and Biological Processes Development Group, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Magnuson JK; Chemical and Biological Processes Development Group, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. jon.magnuson@pnnl.gov.

Publikováno v: Current genetics [Curr Genet] 2019 Feb; Vol. 65 (1), pp. 269-282. Date of Electronic Publication: 2018 Aug 18.