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Tytuł:
Prokaryotic innate immunity through pattern recognition of conserved viral proteins.
Autorzy:
Gao LA; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.; McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Society of Fellows, Harvard University, Cambridge, MA 02138, USA.
Wilkinson ME; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.; McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Strecker J; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.; McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Makarova KS; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.
Macrae RK; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.; McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Koonin EV; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.
Zhang F; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.; McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
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Źródło:
Science (New York, N.Y.) [Science] 2022 Aug 12; Vol. 377 (6607), pp. eabm4096. Date of Electronic Publication: 2022 Aug 12.
Typ publikacji:
Journal Article
MeSH Terms:
Archaea*/immunology
Archaea*/virology
Archaeal Proteins*/chemistry
Archaeal Proteins*/classification
Archaeal Proteins*/genetics
Bacteria*/immunology
Bacteria*/virology
Bacterial Proteins*/chemistry
Bacterial Proteins*/classification
Bacterial Proteins*/genetics
Immunity, Innate*
NLR Proteins*/chemistry
NLR Proteins*/genetics
Receptors, Pattern Recognition*/chemistry
Receptors, Pattern Recognition*/classification
Receptors, Pattern Recognition*/genetics
Viral Proteins*/chemistry
Viral Proteins*/genetics
Animals ; Bacteriophages ; Cryoelectron Microscopy ; Phylogeny
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Machine learning and statistics shape a novel path in archaeal promoter annotation.
Autorzy:
Martinez GS; Programa de Pós-Graduação em Biotecnologia, Universidade de Caxias do Sul, Av. Francisco Getúlio Vargas, 1130, Caxias do Sul, RS, CEP 95070-560, Brazil.
Pérez-Rueda E; Instituto de Investigaciones en Matemáticas Aplicadas y en Sistemas, Universidad Nacional Autónoma de México, Unidad Académica de Yucatán, Yucatán, Mérida, Mexico.
Sarkar S; Department of Molecular Biology and Biotechnology, Tezpur University, Tezpur, Assam, 784028, India.
Kumar A; Department of Molecular Biology and Biotechnology, Tezpur University, Tezpur, Assam, 784028, India.
de Ávila E Silva S; Programa de Pós-Graduação em Biotecnologia, Universidade de Caxias do Sul, Av. Francisco Getúlio Vargas, 1130, Caxias do Sul, RS, CEP 95070-560, Brazil. .
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Źródło:
BMC bioinformatics [BMC Bioinformatics] 2022 May 10; Vol. 23 (1), pp. 171. Date of Electronic Publication: 2022 May 10.
Typ publikacji:
Journal Article
MeSH Terms:
Archaea*/genetics
Archaeal Proteins*/chemistry
Archaeal Proteins*/genetics
Machine Learning ; Promoter Regions, Genetic ; Transcription, Genetic
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Structural insights into bifunctional thaumarchaeal crotonyl-CoA hydratase and 3-hydroxypropionyl-CoA dehydratase from Nitrosopumilus maritimus.
Autorzy:
Destan E; Department of Molecular Biology and Genetics, Koc University, 34450, Istanbul, Turkey.
Yuksel B; Department of Molecular Biology and Genetics, Koc University, 34450, Istanbul, Turkey.
Tolar BB; Department of Earth System Science, Stanford University, Stanford, CA, 94305, USA.
Ayan E; Department of Molecular Biology and Genetics, Koc University, 34450, Istanbul, Turkey.
Deutsch S; Nutcracker Therapeutics, Inc 5858 Horton Street, Suite 540, Emeryville, CA, 94608, USA.
Yoshikuni Y; The US Department of Energy, Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Wakatsuki S; Department of Structural Biology, Stanford University, Palo Alto, CA, 94305, USA. .; Biosciences Division, SLAC National Laboratory, Menlo Park, CA, 94025, USA. .
Francis CA; Department of Earth System Science, Stanford University, Stanford, CA, 94305, USA. .
DeMirci H; Department of Molecular Biology and Genetics, Koc University, 34450, Istanbul, Turkey. .; Stanford PULSE Institute, SLAC National Laboratory, Menlo Park, CA, 94025, USA. .
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Źródło:
Scientific reports [Sci Rep] 2021 Nov 24; Vol. 11 (1), pp. 22849. Date of Electronic Publication: 2021 Nov 24.
Typ publikacji:
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.
MeSH Terms:
Acyl Coenzyme A/*metabolism
Archaea/*enzymology
Archaeal Proteins/*metabolism
Carbon Dioxide/*metabolism
Enoyl-CoA Hydratase/*metabolism
Archaea/genetics ; Archaeal Proteins/chemistry ; Archaeal Proteins/genetics ; Catalysis ; Crystallography, X-Ray ; Enoyl-CoA Hydratase/chemistry ; Enoyl-CoA Hydratase/genetics ; Models, Molecular ; Protein Conformation ; Structure-Activity Relationship ; Substrate Specificity
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
The leucine-responsive regulatory proteins/feast-famine regulatory proteins: an ancient and complex class of transcriptional regulators in bacteria and archaea.
Autorzy:
Ziegler CA; Department of Biological Chemistry, University of Michigan Medical School, Ann Arbor, MI, USA.
Freddolino PL; Department of Biological Chemistry, University of Michigan Medical School, Ann Arbor, MI, USA.; Department of Computational Medicine and Bioinformatics, University of Michigan Medical School, Ann Arbor, MI, USA.
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Źródło:
Critical reviews in biochemistry and molecular biology [Crit Rev Biochem Mol Biol] 2021 Aug; Vol. 56 (4), pp. 373-400. Date of Electronic Publication: 2021 Jun 20.
Typ publikacji:
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Review; Video-Audio Media
MeSH Terms:
Archaea/*metabolism
Archaeal Proteins/*metabolism
Escherichia coli/*metabolism
Escherichia coli Proteins/*metabolism
Leucine-Responsive Regulatory Protein/*metabolism
Archaea/genetics ; Archaeal Proteins/genetics ; Escherichia coli/genetics ; Escherichia coli Proteins/genetics ; Leucine-Responsive Regulatory Protein/genetics
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Structure and Dynamics of an Archeal Monoglyceride Lipase from Palaeococcus ferrophilus as Revealed by Crystallography and In Silico Analysis.
Autorzy:
Labar G; Institut de Recherches Labiris, 1 Avenue E. Gryson, B-1070 Bruxelles, Belgium.
Brandt N; Institut de Recherches Labiris, 1 Avenue E. Gryson, B-1070 Bruxelles, Belgium.
Flaba A; Institut de Recherches Labiris, 1 Avenue E. Gryson, B-1070 Bruxelles, Belgium.
Wouters J; Laboratoire de Chimie Biologique Structurale, Department of Chemistry, Namur Medicine & Drug Innovation Center (NAMEDIC-NARILIS), Namur Research Institute for Life Sciences (NARILIS), University of Namur, Rue de Bruxelles 61, B-5000 Namur, Belgium.; Laboratoire de Chimie Biologique Structurale, Department of Chemistry, Namur Medicine & Drug Innovation Center (NAMEDIC-NARILIS), Namur Institute of Structured Matter (NISM), University of Namur, Rue de Bruxelles 61, B-5000 Namur, Belgium.
Leherte L; Laboratoire de Chimie Biologique Structurale, Department of Chemistry, Namur Medicine & Drug Innovation Center (NAMEDIC-NARILIS), Namur Research Institute for Life Sciences (NARILIS), University of Namur, Rue de Bruxelles 61, B-5000 Namur, Belgium.; Laboratoire de Chimie Biologique Structurale, Department of Chemistry, Namur Medicine & Drug Innovation Center (NAMEDIC-NARILIS), Namur Institute of Structured Matter (NISM), University of Namur, Rue de Bruxelles 61, B-5000 Namur, Belgium.
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Źródło:
Biomolecules [Biomolecules] 2021 Apr 03; Vol. 11 (4). Date of Electronic Publication: 2021 Apr 03.
Typ publikacji:
Journal Article
MeSH Terms:
Archaea/*enzymology
Archaeal Proteins/*chemistry
Monoacylglycerol Lipases/*chemistry
Archaeal Proteins/genetics ; Archaeal Proteins/metabolism ; Binding Sites ; Catalytic Domain ; Crystallography, X-Ray ; Glycerol/chemistry ; Glycerol/metabolism ; Humans ; Molecular Dynamics Simulation ; Monoacylglycerol Lipases/genetics ; Monoacylglycerol Lipases/metabolism ; Protein Structure, Tertiary ; Recombinant Proteins/biosynthesis ; Recombinant Proteins/chemistry ; Recombinant Proteins/isolation & purification ; Substrate Specificity
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknieSzczegóły
Tytuł:
Deciphering the functional diversity of DNA-binding transcription factors in Bacteria and Archaea organisms.
Autorzy:
Flores-Bautista E; Instituto de Investigaciones en Matemáticas Aplicadas y en Sistemas, Universidad Nacional Autónoma de México, Unidad Académica Yucatán, Mérida, Yucatán, México.
Hernandez-Guerrero R; Instituto de Investigaciones en Matemáticas Aplicadas y en Sistemas, Universidad Nacional Autónoma de México, Unidad Académica Yucatán, Mérida, Yucatán, México.
Huerta-Saquero A; Centro de Nanociencias y Nanotecnología, Universidad Nacional Autónoma de México, Ensenada, Baja California, México.
Tenorio-Salgado S; Tecnológico Nacional de México, Instituto Tecnológico de Mérida, Mérida, Yucatán, México.
Rivera-Gomez N; Instituto Nacional de Salud Pública, Cuernavaca, Morelos, México.
Romero A; Microbiota Host Interactions and Clostridia Research Group, Universidad Nacional Andrés Bello, Santiago de Chile, Chile.
Ibarra JA; Laboratorio de Genética Microbiana, Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Ciudad de México, México.
Perez-Rueda E; Instituto de Investigaciones en Matemáticas Aplicadas y en Sistemas, Universidad Nacional Autónoma de México, Unidad Académica Yucatán, Mérida, Yucatán, México.; Centro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago, Chile.
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Źródło:
PloS one [PLoS One] 2020 Aug 21; Vol. 15 (8), pp. e0237135. Date of Electronic Publication: 2020 Aug 21 (Print Publication: 2020).
Typ publikacji:
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms:
Archaea/*genetics
Archaeal Proteins/*genetics
Bacterial Proteins/*genetics
DNA-Binding Proteins/*genetics
Escherichia coli K12/*genetics
Transcription Factors/*genetics
Archaea/pathogenicity ; Archaeal Proteins/metabolism ; Bacterial Proteins/metabolism ; Binding Sites ; DNA, Archaeal/metabolism ; DNA, Bacterial/metabolism ; DNA-Binding Proteins/metabolism ; Escherichia coli K12/pathogenicity ; Gene Expression Regulation, Archaeal ; Gene Expression Regulation, Bacterial ; Genome, Archaeal ; Genome, Bacterial ; Protein Binding ; Transcription Factors/metabolism ; Virulence/genetics
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Characterisation of a solvent-tolerant haloarchaeal (R)-selective transaminase isolated from a Triassic period salt mine.
Autorzy:
Kelly SA; School of Pharmacy, Queen's University Belfast, Belfast, UK.
Magill DJ; School of Biological Sciences, Queen's University Belfast, Belfast, UK.
Megaw J; School of Pharmacy, Queen's University Belfast, Belfast, UK.
Skvortsov T; School of Pharmacy, Queen's University Belfast, Belfast, UK.
Allers T; School of Life Sciences, University of Nottingham, Queen's Medical Centre, Nottingham, UK.
McGrath JW; School of Biological Sciences, Queen's University Belfast, Belfast, UK.
Allen CCR; School of Biological Sciences, Queen's University Belfast, Belfast, UK.
Moody TS; Almac, Department of Biocatalysis & Isotope Chemistry, 20 Seagoe Industrial Estate, Craigavon, UK.; Arran Chemical Company Limited, Unit 1 Monksland Industrial Estate, Athlone, Co. Roscommon, Ireland.
Gilmore BF; School of Pharmacy, Queen's University Belfast, Belfast, UK. .
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Źródło:
Applied microbiology and biotechnology [Appl Microbiol Biotechnol] 2019 Jul; Vol. 103 (14), pp. 5727-5737. Date of Electronic Publication: 2019 May 23.
Typ publikacji:
Journal Article
MeSH Terms:
Mining*
Sodium Chloride*
Archaea/*enzymology
Archaeal Proteins/*metabolism
Transaminases/*metabolism
Amines/metabolism ; Archaea/genetics ; Archaeal Proteins/genetics ; Biocatalysis ; Haloferax volcanii/enzymology ; Haloferax volcanii/genetics ; Molecular Dynamics Simulation ; Solvents/metabolism ; Substrate Specificity ; Thermotolerance ; Transaminases/genetics
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
An alkaline active feruloyl-CoA synthetase from soil metagenome as a potential key enzyme for lignin valorization strategies.
Autorzy:
Sodré V; Faculty of Chemical Engineering, University of Campinas (UNICAMP), Campinas, SP, Brazil.; Department of Biochemistry and Tissue Biology, Institute of Biology, University of Campinas (UNICAMP), Campinas, SP, Brazil.
Araujo JN; Centro de Ciências Naturais e Humanas, Universidade Federal do ABC (UFABC), Santo André, SP, Brazil.
Gonçalves TA; Department of Biochemistry and Tissue Biology, Institute of Biology, University of Campinas (UNICAMP), Campinas, SP, Brazil.; Programa de Processos Tecnológicos e Ambientais, Universidade de Sorocaba (UNISO), Sorocaba, SP, Brazil.
Vilela N; Department of Biochemistry and Tissue Biology, Institute of Biology, University of Campinas (UNICAMP), Campinas, SP, Brazil.; Programa de Processos Tecnológicos e Ambientais, Universidade de Sorocaba (UNISO), Sorocaba, SP, Brazil.
Braz ASK; Centro de Ciências Naturais e Humanas, Universidade Federal do ABC (UFABC), Santo André, SP, Brazil.
Franco TT; Faculty of Chemical Engineering, University of Campinas (UNICAMP), Campinas, SP, Brazil.
de Oliveira Neto M; Departamento de Física e Biofísica, Instituto de Biociências, Universidade Estadual Paulista (UNESP), Botucatu, SP, Brazil.
Damasio ARL; Department of Biochemistry and Tissue Biology, Institute of Biology, University of Campinas (UNICAMP), Campinas, SP, Brazil.
Garcia W; Centro de Ciências Naturais e Humanas, Universidade Federal do ABC (UFABC), Santo André, SP, Brazil.
Squina FM; Faculty of Chemical Engineering, University of Campinas (UNICAMP), Campinas, SP, Brazil.; Programa de Processos Tecnológicos e Ambientais, Universidade de Sorocaba (UNISO), Sorocaba, SP, Brazil.
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Źródło:
PloS one [PLoS One] 2019 Feb 25; Vol. 14 (2), pp. e0212629. Date of Electronic Publication: 2019 Feb 25 (Print Publication: 2019).
Typ publikacji:
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms:
Archaea*/enzymology
Archaea*/genetics
Archaeal Proteins*/chemistry
Archaeal Proteins*/genetics
Archaeal Proteins*/metabolism
Coenzyme A Ligases*/chemistry
Coenzyme A Ligases*/genetics
Coenzyme A Ligases*/metabolism
Metagenome*
Soil Microbiology*
Lignin/*chemistry
Benzaldehydes/chemistry ; Benzaldehydes/metabolism ; Coumaric Acids/chemistry ; Coumaric Acids/metabolism ; Hydrogen-Ion Concentration ; Lignin/metabolism ; Protein Domains ; Soil
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Comparative population genomic analyses of transporters within the Asgard archaeal superphylum.
Autorzy:
Russum S; Division of Biological Sciences, Department of Molecular Biology, University of California at San Diego, La Jolla, CA, United States of America.
Lam KJK; Division of Biological Sciences, Department of Molecular Biology, University of California at San Diego, La Jolla, CA, United States of America.
Wong NA; Division of Biological Sciences, Department of Molecular Biology, University of California at San Diego, La Jolla, CA, United States of America.
Iddamsetty V; Division of Biological Sciences, Department of Molecular Biology, University of California at San Diego, La Jolla, CA, United States of America.
Hendargo KJ; Division of Biological Sciences, Department of Molecular Biology, University of California at San Diego, La Jolla, CA, United States of America.
Wang J; Division of Biological Sciences, Department of Molecular Biology, University of California at San Diego, La Jolla, CA, United States of America.
Dubey A; Division of Biological Sciences, Department of Molecular Biology, University of California at San Diego, La Jolla, CA, United States of America.
Zhang Y; Division of Biological Sciences, Department of Molecular Biology, University of California at San Diego, La Jolla, CA, United States of America.
Medrano-Soto A; Division of Biological Sciences, Department of Molecular Biology, University of California at San Diego, La Jolla, CA, United States of America.
Saier MH Jr; Division of Biological Sciences, Department of Molecular Biology, University of California at San Diego, La Jolla, CA, United States of America.
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Źródło:
PloS one [PLoS One] 2021 Mar 26; Vol. 16 (3), pp. e0247806. Date of Electronic Publication: 2021 Mar 26 (Print Publication: 2021).
Typ publikacji:
Comparative Study; Journal Article; Research Support, N.I.H., Extramural
MeSH Terms:
Genome, Archaeal*
Archaea/*genetics
Archaeal Proteins/*genetics
Carrier Proteins/*genetics
Biological Transport/genetics ; Metagenomics
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Reconstructing the evolutionary history of F 420 -dependent dehydrogenases.
Autorzy:
Mascotti ML; IMIBIO-SL CONICET, Facultad de Química Bioquímica y Farmacia, Universidad Nacional de San Luis, Ejército de los Andes 950, D5700HHW, San Luis, Argentina.
Kumar H; Molecular Enzymology Group, University of Groningen, Nijenborgh 4, 9747 AG, Groningen, The Netherlands.
Nguyen QT; Molecular Enzymology Group, University of Groningen, Nijenborgh 4, 9747 AG, Groningen, The Netherlands.; Scuola Universitaria Superiore IUSS Pavia, Piazza della Vittoria 15, 27100, Pavia, Italy.; Faculty of Pharmacy, University of Medicine and Pharmacy, Ho Chi Minh City, 41 Dinh Tien Hoang Street, Ben Nghe Ward, District 1, Ho Chi Minh City, Vietnam.
Ayub MJ; IMIBIO-SL CONICET, Facultad de Química Bioquímica y Farmacia, Universidad Nacional de San Luis, Ejército de los Andes 950, D5700HHW, San Luis, Argentina.
Fraaije MW; Molecular Enzymology Group, University of Groningen, Nijenborgh 4, 9747 AG, Groningen, The Netherlands. .
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Źródło:
Scientific reports [Sci Rep] 2018 Dec 04; Vol. 8 (1), pp. 17571. Date of Electronic Publication: 2018 Dec 04.
Typ publikacji:
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms:
Evolution, Molecular*
Archaea/*enzymology
Archaeal Proteins/*classification
Bacteria/*enzymology
Bacterial Proteins/*classification
Oxidoreductases/*classification
Riboflavin/*analogs & derivatives
Archaeal Proteins/chemistry ; Archaeal Proteins/genetics ; Bacterial Proteins/chemistry ; Bacterial Proteins/genetics ; Biocatalysis ; Escherichia coli/genetics ; Oxidoreductases/chemistry ; Oxidoreductases/genetics ; Phylogeny ; Riboflavin/chemistry ; Substrate Specificity
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Navigating the structure-function-evolutionary relationship of CsaA chaperone in archaea.
Autorzy:
Sharma A; a Department of Biophysics , University of Delhi South Campus , New Delhi , India.
Rani S; a Department of Biophysics , University of Delhi South Campus , New Delhi , India.
Goel M; a Department of Biophysics , University of Delhi South Campus , New Delhi , India.
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Źródło:
Critical reviews in microbiology [Crit Rev Microbiol] 2018 May; Vol. 44 (3), pp. 274-289. Date of Electronic Publication: 2017 Sep 18.
Typ publikacji:
Journal Article; Review
MeSH Terms:
Evolution, Molecular*
Archaea/*metabolism
Archaeal Proteins/*chemistry
Archaeal Proteins/*metabolism
Molecular Chaperones/*chemistry
Molecular Chaperones/*metabolism
Archaea/chemistry ; Archaea/classification ; Archaea/genetics ; Archaeal Proteins/genetics ; Molecular Chaperones/genetics ; Phylogeny
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Bioinformatics Analysis of Metabolism Pathways of Archaeal Energy Reserves.
Autorzy:
Wang L; Department of Bioinformatics, School of Medical Informatics, Xuzhou Medical University, Xuzhou, Jiangsu, China. .; Jiangsu Key Laboratory of New Drug Research and Clinical Pharmacy, School of Pharmacy, Xuzhou Medical University, Xuzhou, Jiangsu, China. .
Liu Q; Jiangsu Key Laboratory of New Drug Research and Clinical Pharmacy, School of Pharmacy, Xuzhou Medical University, Xuzhou, Jiangsu, China.
Wu X; Department of Bioinformatics, School of Medical Informatics, Xuzhou Medical University, Xuzhou, Jiangsu, China.
Huang Y; Department of Bioinformatics, School of Medical Informatics, Xuzhou Medical University, Xuzhou, Jiangsu, China.
Wise MJ; The Marshall Centre for Infectious Diseases Research and Training, University of Western Australia, Perth, Western Australia, Australia.; Department of Computer Science and Software Engineering, School of Physics, Mathematics and Computing, University of Western Australia, Perth, Western Australia, Australia.
Liu Z; Xuzhou Infectious Diseases Hospital, Xuzhou, Jiangsu, China.
Wang W; Department of Bioinformatics, School of Medical Informatics, Xuzhou Medical University, Xuzhou, Jiangsu, China.; School of Public Health, Capital Medical University, Beijing, China.; School of Medical Sciences, Edith Cowan University, Perth, WA, Australia.
Hu J; Department of Bioinformatics, School of Medical Informatics, Xuzhou Medical University, Xuzhou, Jiangsu, China.; Department of Computer Science, School of Medical Informatics, Xuzhou Medical University, Xuzhou, Jiangsu, China.
Wang C; Xuzhou Infectious Diseases Hospital, Xuzhou, Jiangsu, China.
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Źródło:
Scientific reports [Sci Rep] 2019 Jan 31; Vol. 9 (1), pp. 1034. Date of Electronic Publication: 2019 Jan 31.
Typ publikacji:
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms:
Archaea/*metabolism
Archaeal Proteins/*metabolism
Computational Biology/*methods
Archaea/genetics ; Archaeal Proteins/genetics ; Energy Metabolism/genetics ; Energy Metabolism/physiology ; Gene Editing ; Glycogen/metabolism ; Polyhydroxyalkanoates/metabolism ; Triglycerides/metabolism
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
G-Quadruplexes in the Archaea Domain.
Autorzy:
Brázda V; Institute of Biophysics of the Czech Academy of Sciences, Královopolská 135, 612 65 Brno, Czech Republic.
Luo Y; Institut Curie, CNRS UMR9187, INSERM U1196, Universite Paris Saclay, 91400 Orsay, France.
Bartas M; Department of Biology and Ecology/Institute of Environmental Technologies, Faculty of Science, University of Ostrava, 710 00 Ostrava, Czech Republic.
Kaura P; Faculty of Mechanical Engineering, Brno University of Technology, Technicka 2896/2, 616 69 Brno, Czech Republic.
Porubiaková O; Institute of Biophysics of the Czech Academy of Sciences, Královopolská 135, 612 65 Brno, Czech Republic.; Faculty of Chemistry, Brno University of Technology, Purkyňova 464/118, 612 00 Brno, Czech Republic.
Šťastný J; Faculty of Mechanical Engineering, Brno University of Technology, Technicka 2896/2, 616 69 Brno, Czech Republic.; Mendel University in Brno, Zemědělská 1, 613 00 Brno, Czech Republic.
Pečinka P; Department of Biology and Ecology/Institute of Environmental Technologies, Faculty of Science, University of Ostrava, 710 00 Ostrava, Czech Republic.
Verga D; Institut Curie, CNRS UMR9187, INSERM U1196, Universite Paris Saclay, 91400 Orsay, France.
Da Cunha V; Institut de Biologie Intégrative de la Cellule (I2BC), CNRS, Université Paris-Saclay, CEDEX, 91198 Gif-sur-Yvette, France.
Takahashi TS; Institut de Biologie Intégrative de la Cellule (I2BC), CNRS, Université Paris-Saclay, CEDEX, 91198 Gif-sur-Yvette, France.
Forterre P; Institut de Biologie Intégrative de la Cellule (I2BC), CNRS, Université Paris-Saclay, CEDEX, 91198 Gif-sur-Yvette, France.
Myllykallio H; Laboratoire d'Optique et Biosciences, Ecole Polytechnique, CNRS, INSERM, Institut Polytechnique de Paris, 91128 Palaiseau, France.
Fojta M; Institute of Biophysics of the Czech Academy of Sciences, Královopolská 135, 612 65 Brno, Czech Republic.
Mergny JL; Institute of Biophysics of the Czech Academy of Sciences, Královopolská 135, 612 65 Brno, Czech Republic.; Laboratoire d'Optique et Biosciences, Ecole Polytechnique, CNRS, INSERM, Institut Polytechnique de Paris, 91128 Palaiseau, France.
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Źródło:
Biomolecules [Biomolecules] 2020 Sep 21; Vol. 10 (9). Date of Electronic Publication: 2020 Sep 21.
Typ publikacji:
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms:
G-Quadruplexes*
Archaea/*genetics
DNA/*chemistry
Genome, Archaeal/*genetics
RNA/*chemistry
Archaea/classification ; Archaea/metabolism ; Archaeal Proteins/genetics ; Archaeal Proteins/metabolism ; Circular Dichroism ; DNA/genetics ; DNA/metabolism ; DNA-Binding Proteins/genetics ; DNA-Binding Proteins/metabolism ; Genomics/methods ; Nucleic Acid Conformation ; Phylogeny ; RNA/genetics ; RNA/metabolism ; Species Specificity
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Precursor peptide-targeted mining of more than one hundred thousand genomes expands the lanthipeptide natural product family.
Autorzy:
Walker MC; Department of Chemistry and Chemical Biology, University of New Mexico, 346 Clark Hall, 300 Terrace St. NE, Albuquerque, NM, 87131, USA. .; Department of Chemistry, University of Illinois at Urbana-Champaign, Roger Adams Laboratory, 600 S. Mathews Ave, Urbana, IL, 61801, USA. .
Eslami SM; Department of Chemistry, University of Illinois at Urbana-Champaign, Roger Adams Laboratory, 600 S. Mathews Ave, Urbana, IL, 61801, USA.
Hetrick KJ; Department of Chemistry, University of Illinois at Urbana-Champaign, Roger Adams Laboratory, 600 S. Mathews Ave, Urbana, IL, 61801, USA.
Ackenhusen SE; Department of Chemistry, University of Illinois at Urbana-Champaign, Roger Adams Laboratory, 600 S. Mathews Ave, Urbana, IL, 61801, USA.
Mitchell DA; Department of Chemistry, University of Illinois at Urbana-Champaign, Roger Adams Laboratory, 600 S. Mathews Ave, Urbana, IL, 61801, USA.; Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana, IL, 61801, USA.; Department of Microbiology, University of Illinois at Urbana-Champaign, 601 S. Goodwin Ave, Urbana, IL, 61801, USA.
van der Donk WA; Department of Chemistry, University of Illinois at Urbana-Champaign, Roger Adams Laboratory, 600 S. Mathews Ave, Urbana, IL, 61801, USA.; Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana, IL, 61801, USA.; Howard Hughes Medical Institute, University of Illinois at Urbana-Champaign, 600 S. Mathews Ave, Urbana, IL, 61801, USA.
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Źródło:
BMC genomics [BMC Genomics] 2020 Jun 03; Vol. 21 (1), pp. 387. Date of Electronic Publication: 2020 Jun 03.
Typ publikacji:
Journal Article
MeSH Terms:
Multigene Family*
Archaea/*genetics
Bacteria/*genetics
Data Mining/*methods
Peptides, Cyclic/*genetics
Archaea/classification ; Archaea/metabolism ; Archaeal Proteins/genetics ; Archaeal Proteins/metabolism ; Bacteria/classification ; Bacteria/metabolism ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; Biological Products/metabolism ; Biosynthetic Pathways ; Computational Biology ; Databases, Genetic ; Genome, Archaeal ; Genome, Bacterial ; Peptides, Cyclic/metabolism
Czasopismo naukowe
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Tytuł:
The Role of Stress Proteins in Haloarchaea and Their Adaptive Response to Environmental Shifts.
Autorzy:
Matarredona L; Agrochemistry and Biochemistry Department, Biochemistry and Molecular Biology Area, Faculty of Science, University of Alicante, Ap 99, 03080 Alicante, Spain.
Camacho M; Agrochemistry and Biochemistry Department, Biochemistry and Molecular Biology Area, Faculty of Science, University of Alicante, Ap 99, 03080 Alicante, Spain.
Zafrilla B; Agrochemistry and Biochemistry Department, Biochemistry and Molecular Biology Area, Faculty of Science, University of Alicante, Ap 99, 03080 Alicante, Spain.
Bonete MJ; Agrochemistry and Biochemistry Department, Biochemistry and Molecular Biology Area, Faculty of Science, University of Alicante, Ap 99, 03080 Alicante, Spain.
Esclapez J; Agrochemistry and Biochemistry Department, Biochemistry and Molecular Biology Area, Faculty of Science, University of Alicante, Ap 99, 03080 Alicante, Spain.
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Źródło:
Biomolecules [Biomolecules] 2020 Sep 29; Vol. 10 (10). Date of Electronic Publication: 2020 Sep 29.
Typ publikacji:
Journal Article; Review
MeSH Terms:
Environmental Microbiology*
Archaea/*genetics
Archaeal Proteins/*genetics
Heat-Shock Proteins/*genetics
Adaptation, Physiological/genetics ; Heat-Shock Response/genetics ; Salinity ; Stress, Physiological/genetics
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknieSzczegóły
Tytuł:
Effect of sequence padding on the performance of deep learning models in archaeal protein functional prediction.
Autorzy:
Lopez-Del Rio A; B2SLab, Department d'Enginyeria de Sistemes, Automàtica i Informàtica Industrial, Universitat Politècnica de Catalunya, 08028, Barcelona, Spain. .; Department of Biomedical Engineering, Institut de Recerca Pediàtrica Hospital Sant Joan de Dèu, 08950, Esplugues de Llobregat, Spain. .
Martin M; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Hinxton, CB10 1SD, UK.
Perera-Lluna A; B2SLab, Department d'Enginyeria de Sistemes, Automàtica i Informàtica Industrial, Universitat Politècnica de Catalunya, 08028, Barcelona, Spain.; Department of Biomedical Engineering, Institut de Recerca Pediàtrica Hospital Sant Joan de Dèu, 08950, Esplugues de Llobregat, Spain.
Saidi R; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Hinxton, CB10 1SD, UK.
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Źródło:
Scientific reports [Sci Rep] 2020 Sep 03; Vol. 10 (1), pp. 14634. Date of Electronic Publication: 2020 Sep 03.
Typ publikacji:
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms:
Deep Learning*
Archaea/*metabolism
Archaeal Proteins/*metabolism
Amino Acid Sequence
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Diverse enzymatic activities mediate antiviral immunity in prokaryotes.
Autorzy:
Gao L; Howard Hughes Medical Institute, Cambridge, MA 02139, USA.; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Altae-Tran H; Howard Hughes Medical Institute, Cambridge, MA 02139, USA.; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Böhning F; Howard Hughes Medical Institute, Cambridge, MA 02139, USA.; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Makarova KS; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.
Segel M; Howard Hughes Medical Institute, Cambridge, MA 02139, USA.; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Schmid-Burgk JL; Howard Hughes Medical Institute, Cambridge, MA 02139, USA.; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Koob J; Howard Hughes Medical Institute, Cambridge, MA 02139, USA.; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Wolf YI; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.
Koonin EV; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.
Zhang F; Howard Hughes Medical Institute, Cambridge, MA 02139, USA. .; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.; Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
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Źródło:
Science (New York, N.Y.) [Science] 2020 Aug 28; Vol. 369 (6507), pp. 1077-1084.
Typ publikacji:
Journal Article; Research Support, N.I.H., Extramural; Research Support, N.I.H., Intramural; Research Support, Non-U.S. Gov't
MeSH Terms:
CRISPR-Cas Systems*
RNA Editing*
Adenosine Deaminase/*chemistry
Archaea/*virology
Archaeal Viruses/*immunology
Bacteria/*virology
Bacteriophages/*immunology
Adenosine Deaminase/classification ; Adenosine Deaminase/genetics ; Archaea/enzymology ; Archaeal Proteins ; Bacteria/enzymology ; Bacterial Proteins ; Genes, Archaeal ; Genes, Bacterial ; Protein Domains
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Methane, arsenic, selenium and the origins of the DMSO reductase family.
Autorzy:
Wells M; Department of Biological Sciences, Duquesne University, 600 Forbes Ave., Pittsburgh, PA, 15282, USA.
Kanmanii NJ; Department of Biological Sciences, Duquesne University, 600 Forbes Ave., Pittsburgh, PA, 15282, USA.
Al Zadjali AM; Department of Biological Sciences, Duquesne University, 600 Forbes Ave., Pittsburgh, PA, 15282, USA.
Janecka JE; Department of Biological Sciences, Duquesne University, 600 Forbes Ave., Pittsburgh, PA, 15282, USA.
Basu P; Department of Chemistry and Chemical Biology, Indiana University Purdue University Indianapolis, Indianapolis, IN, 46202, USA.
Oremland RS; U.S. Geological Survey, Menlo Park, CA, 94025, USA.
Stolz JF; Department of Biological Sciences, Duquesne University, 600 Forbes Ave., Pittsburgh, PA, 15282, USA. .
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Źródło:
Scientific reports [Sci Rep] 2020 Jul 02; Vol. 10 (1), pp. 10946. Date of Electronic Publication: 2020 Jul 02.
Typ publikacji:
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms:
Archaea/*enzymology
Archaeal Proteins/*metabolism
Arsenic/*metabolism
Bacteria/*enzymology
Bacterial Proteins/*metabolism
Iron-Sulfur Proteins/*metabolism
Methane/*metabolism
Oxidoreductases/*metabolism
Selenium/*metabolism
Evolution, Molecular ; Phylogeny
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Response of ammonia-oxidizing Bacteria and Archaea to long-term saline water irrigation in alluvial grey desert soils.
Autorzy:
Guo H; Department of Resources and Environmental Science, Shihezi University, Shihezi, Xinjiang, 832003, People's Republic of China.
Ma L; Department of Resources and Environmental Science, Shihezi University, Shihezi, Xinjiang, 832003, People's Republic of China.
Liang Y; Ministry of Education Key Laboratory of Environment Remediation and Ecological Health, College of Environmental & Resource Sciences, Zhejiang University, Hangzhou, 310058, P.R. China.
Hou Z; Department of Resources and Environmental Science, Shihezi University, Shihezi, Xinjiang, 832003, People's Republic of China. .
Min W; Department of Resources and Environmental Science, Shihezi University, Shihezi, Xinjiang, 832003, People's Republic of China. .
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Źródło:
Scientific reports [Sci Rep] 2020 Jan 16; Vol. 10 (1), pp. 489. Date of Electronic Publication: 2020 Jan 16.
Typ publikacji:
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms:
Nitrification*
Soil Microbiology*
Agricultural Irrigation/*methods
Ammonia/*chemistry
Archaea/*metabolism
Bacteria/*metabolism
Saline Waters/*chemistry
Archaeal Proteins/genetics ; Archaeal Proteins/metabolism ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; DNA Copy Number Variations ; Ecosystem
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Experimental characterization of two archaeal inosine 5'-monophosphate cyclohydrolases.
Autorzy:
Hunter CA; Department of Chemistry, Roanoke College, Salem, Virginia, United States of America.
Plymale NI; Department of Chemistry, Roanoke College, Salem, Virginia, United States of America.
Smee KM; Department of Chemistry, Roanoke College, Salem, Virginia, United States of America.
Sarisky CA; Department of Chemistry, Roanoke College, Salem, Virginia, United States of America.
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Źródło:
PloS one [PLoS One] 2019 Oct 17; Vol. 14 (10), pp. e0223983. Date of Electronic Publication: 2019 Oct 17 (Print Publication: 2019).
Typ publikacji:
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms:
Archaea/*enzymology
Cloning, Molecular/*methods
IMP Dehydrogenase/*genetics
Archaea/genetics ; Archaeal Proteins/genetics ; Archaeal Proteins/metabolism ; Archaeoglobus fulgidus/enzymology ; Archaeoglobus fulgidus/genetics ; IMP Dehydrogenase/metabolism ; Multigene Family ; Ribonucleotides/metabolism ; Thermococcus/enzymology ; Thermococcus/genetics
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
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