Nutrient and moisture limitations reveal keystone metabolites linking rhizosphere metabolomes and microbiomes.

Autor: Baker NR; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720., Zhalnina K; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720., Yuan M; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720., Herman D; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720., Ceja-Navarro JA; Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ 86011.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720., Sasse J; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720.; Institute for Plant and Microbial Biology, University of Zurich, CH-8008 Zurich, Switzerland., Jordan JS; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720.; Department of Chemistry, University of California, Berkeley, CA 94720., Bowen BP; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720., Wu L; Institute for Environmental Genomics, University of Oklahoma, Norman, OK 73019., Fossum C; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720., Chew A; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720.; Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA 94550., Fu Y; Institute for Environmental Genomics, University of Oklahoma, Norman, OK 73019., Saha M; Noble Research Institute, Ardmore, OK 73401., Zhou J; Institute for Environmental Genomics, University of Oklahoma, Norman, OK 73019., Pett-Ridge J; Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA 94550.; Life and Environmental Sciences Department, University of California Merced, Merced, CA 95343., Northen TR; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720., Firestone MK; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720.

Publikováno v: Proceedings of the National Academy of Sciences of the United States of America [Proc Natl Acad Sci U S A] 2024 Aug 06; Vol. 121 (32), pp. e2303439121. Date of Electronic Publication: 2024 Aug 02.

Low-abundance populations distinguish microbiome performance in plant cell wall deconstruction.

Autor: Tom LM; Joint BioEnergy Institute, Emeryville, CA, USA.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Aulitto M; Joint BioEnergy Institute, Emeryville, CA, USA.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Wu YW; Graduate Institute of Biomedical Informatics, College of Medical Science and Technology, Taipei Medical University, Taipei, 110, Taiwan., Deng K; Joint BioEnergy Institute, Emeryville, CA, USA.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Gao Y; Joint BioEnergy Institute, Emeryville, CA, USA.; Environmental Systems and Genome Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Xiao N; Institute of Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, USA., Rodriguez BG; College of Natural Sciences, University of Puerto Rico, Rio Piedras, Puerto Rico., Louime C; College of Natural Sciences, University of Puerto Rico, Rio Piedras, Puerto Rico., Northen TR; Joint BioEnergy Institute, Emeryville, CA, USA.; Environmental Systems and Genome Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Eudes A; Joint BioEnergy Institute, Emeryville, CA, USA.; Environmental Systems and Genome Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Mortimer JC; Joint BioEnergy Institute, Emeryville, CA, USA.; Environmental Systems and Genome Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.; School of Agriculture, Food and Wine, & Waite Research Institute, University of Adelaide, Glen Osmond, SA, Australia., Adams PD; Joint BioEnergy Institute, Emeryville, CA, USA.; Molecular Biophysics and Integrated Bioimaging, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.; Department of Bioengineering, University of California Berkeley, Berkeley, CA, USA., Scheller HV; Joint BioEnergy Institute, Emeryville, CA, USA.; Environmental Systems and Genome Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.; Department of Plant and Microbial Biology, University of California-Berkeley, Berkeley, CA, USA., Simmons BA; Joint BioEnergy Institute, Emeryville, CA, USA.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Ceja-Navarro JA; Joint BioEnergy Institute, Emeryville, CA, USA. JCNavarro@lbl.gov.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA. JCNavarro@lbl.gov.; Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ, USA. JCNavarro@lbl.gov.; Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA. JCNavarro@lbl.gov., Singer SW; Joint BioEnergy Institute, Emeryville, CA, USA. SWSinger@lbl.gov.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA. SWSinger@lbl.gov.

Publikováno v: Microbiome [Microbiome] 2022 Oct 25; Vol. 10 (1), pp. 183. Date of Electronic Publication: 2022 Oct 25.

The power of poop: Defecation behaviors and social hygiene in insects.

Autor: Cole ME; Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, North Carolina, United States of America., Ceja-Navarro JA; Joint BioEnergy Institute, Emeryville, California, United States of America.; Bioengineering and Biomedical Sciences Department, Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, California, United States of America.; Institute for Biodiversity Science and Sustainability, California Academy of Sciences, San Francisco, California, United States of America., Mikaelyan A; Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, North Carolina, United States of America.

Publikováno v: PLoS pathogens [PLoS Pathog] 2021 Oct 28; Vol. 17 (10), pp. e1009964. Date of Electronic Publication: 2021 Oct 28 (Print Publication: 2021).

Protist diversity and community complexity in the rhizosphere of switchgrass are dynamic as plants develop.

Autor: Ceja-Navarro JA; Bioengineering and Biomedical Sciences Department, Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA. jcnavarro@lbl.gov.; Institute for Biodiversity Science and Sustainability, California Academy of Sciences, San Francisco, CA, USA. jcnavarro@lbl.gov., Wang Y; Noble Research Institute, LLC, Ardmore, OK, USA., Ning D; Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, USA.; State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing, China., Arellano A; Bioengineering and Biomedical Sciences Department, Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Ramanculova L; Bioengineering and Biomedical Sciences Department, Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Yuan MM; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA, USA., Byer A; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA, USA., Craven KD; Noble Research Institute, LLC, Ardmore, OK, USA., Saha MC; Noble Research Institute, LLC, Ardmore, OK, USA., Brodie EL; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA, USA.; Ecology Department, Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Pett-Ridge J; Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA, USA., Firestone MK; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA, USA. mkfstone@berkeley.edu.; Ecology Department, Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, USA. mkfstone@berkeley.edu.

Publikováno v: Microbiome [Microbiome] 2021 Apr 28; Vol. 9 (1), pp. 96. Date of Electronic Publication: 2021 Apr 28.

A novel D-xylose isomerase from the gut of the wood feeding beetle Odontotaenius disjunctus efficiently expressed in Saccharomyces cerevisiae.

Autor: Silva PC; CBMA - Center of Molecular and Environmental Biology, University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal. pcfernandesdasilva@gmail.com., Ceja-Navarro JA; Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.; Institute for Biodiversity Science and Sustainability, California Academy of Sciences, San Francisco, CA, USA., Azevedo F; CBMA - Center of Molecular and Environmental Biology, University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal., Karaoz U; Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Brodie EL; Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, USA. ELBrodie@lbl.gov.; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA, USA. ELBrodie@lbl.gov., Johansson B; CBMA - Center of Molecular and Environmental Biology, University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal. bjorn_johansson@bio.uminho.pt.

Publikováno v: Scientific reports [Sci Rep] 2021 Feb 26; Vol. 11 (1), pp. 4766. Date of Electronic Publication: 2021 Feb 26.