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Tytuł :
Effect of genome composition and codon bias on infectious bronchitis virus evolution and adaptation to target tissues.
Autorzy :
Franzo G; Microbiology and Infectious Diseases, Department of Animal Medicine, Production and Health (MAPS), University of Padua, Viale dell'Università 16 - 35020 Legnaro, Padua, Italy. .
Tucciarone CM; Microbiology and Infectious Diseases, Department of Animal Medicine, Production and Health (MAPS), University of Padua, Viale dell'Università 16 - 35020 Legnaro, Padua, Italy.
Legnardi M; Microbiology and Infectious Diseases, Department of Animal Medicine, Production and Health (MAPS), University of Padua, Viale dell'Università 16 - 35020 Legnaro, Padua, Italy.
Cecchinato M; Microbiology and Infectious Diseases, Department of Animal Medicine, Production and Health (MAPS), University of Padua, Viale dell'Università 16 - 35020 Legnaro, Padua, Italy.
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Źródło :
BMC genomics [BMC Genomics] 2021 Apr 07; Vol. 22 (1), pp. 244. Date of Electronic Publication: 2021 Apr 07.
Typ publikacji :
Journal Article
MeSH Terms :
Codon Usage*
Infectious bronchitis virus*/genetics
Adaptation, Physiological/genetics ; Codon/genetics ; Evolution, Molecular ; Open Reading Frames
Czasopismo naukowe
Tytuł :
Analysis of codon usage patterns in citrus based on coding sequence data.
Autorzy :
Shen Z; High Performance Computer Research Center, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China.; University of Chinese Academy of Sciences, Beijing, 100000, China.
Gan Z; Key Laboratory of Horticultural Plant Biology (Ministry of Education), College of Horticulture and Forestry Science, Huazhong Agricultural University, Wuhan, 430070, China.
Zhang F; High Performance Computer Research Center, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China.; University of Chinese Academy of Sciences, Beijing, 100000, China.
Yi X; Department of Computer Science and Engineering, University of South Carolina, Colombia, 29201, USA.
Zhang J; Key Laboratory of Horticultural Plant Biology (Ministry of Education), College of Horticulture and Forestry Science, Huazhong Agricultural University, Wuhan, 430070, China.
Wan X; High Performance Computer Research Center, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, 100190, China. .; University of Chinese Academy of Sciences, Beijing, 100000, China. .
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Źródło :
BMC genomics [BMC Genomics] 2020 Dec 16; Vol. 21 (Suppl 5), pp. 234. Date of Electronic Publication: 2020 Dec 16.
Typ publikacji :
Journal Article
MeSH Terms :
Citrus*/genetics
Codon Usage*
Base Composition ; Codon/genetics ; Evolution, Molecular ; Open Reading Frames
Czasopismo naukowe
Tytuł :
Effects of codon usage on gene expression are promoter context dependent.
Autorzy :
Yang Q; Department of Physiology, University of Texas Southwestern Medical Center, Dallas, TX 75390-9040, USA.
Lyu X; Department of Physiology, University of Texas Southwestern Medical Center, Dallas, TX 75390-9040, USA.; State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, China.
Zhao F; Department of Physiology, University of Texas Southwestern Medical Center, Dallas, TX 75390-9040, USA.
Liu Y; Department of Physiology, University of Texas Southwestern Medical Center, Dallas, TX 75390-9040, USA.
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Źródło :
Nucleic acids research [Nucleic Acids Res] 2021 Jan 25; Vol. 49 (2), pp. 818-831.
Typ publikacji :
Comparative Study; Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
MeSH Terms :
Codon Usage*
Drosophila melanogaster/*genetics
Gene Expression Regulation/*genetics
Promoter Regions, Genetic/*genetics
Acetylation ; Animals ; Base Composition ; Cell Line ; Chromatin/genetics ; Chromatin/ultrastructure ; Codon, Nonsense ; Drosophila Proteins/physiology ; Drosophila melanogaster/cytology ; Genes, Reporter ; Histone Code ; Humans ; Luciferases, Renilla/biosynthesis ; Luciferases, Renilla/genetics ; Mice ; Neurospora crassa/genetics ; Nucleosomes/metabolism ; Protein Processing, Post-Translational ; RNA Stability ; RNA, Messenger/biosynthesis ; RNA, Messenger/genetics ; Saccharomyces cerevisiae/genetics ; Species Specificity
Czasopismo naukowe
Tytuł :
Network analysis of synonymous codon usage.
Autorzy :
Newaz K; Department of Computer Science and Engineering.; Center for Network and Data Science.; Eck institute for Global Health.
Wright G; Department of Computer Science and Engineering.; Eck institute for Global Health.
Piland J; Department of Computer Science and Engineering.; Center for Network and Data Science.; Eck institute for Global Health.
Li J; Department of Applied and Computational Mathematics and Statistics.
Clark PL; Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, IN 46556, USA.
Emrich SJ; Department of Electrical Engineering and Computer Science, University of Tennessee, Knoxville, TN 37996, USA.
Milenković T; Department of Computer Science and Engineering.; Center for Network and Data Science.; Eck institute for Global Health.
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Źródło :
Bioinformatics (Oxford, England) [Bioinformatics] 2020 Dec 08; Vol. 36 (19), pp. 4876-4884.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural
MeSH Terms :
Codon Usage*
Protein Folding*
Amino Acid Sequence ; Codon/genetics ; Proteins/genetics
Czasopismo naukowe
Tytuł :
Understanding the codon usage patterns of mitochondrial CO genes among Amphibians.
Autorzy :
Barbhuiya PA; Department of Biotechnology, Assam University, Silchar 788150, Assam, India.
Uddin A; Department of Zoology, Moinul Hoque Choudhury Memorial Science College, Algapur, Hailakandi 788150, Assam, India.
Chakraborty S; Department of Biotechnology, Assam University, Silchar 788150, Assam, India. Electronic address: .
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Źródło :
Gene [Gene] 2021 Apr 20; Vol. 777, pp. 145462. Date of Electronic Publication: 2021 Jan 27.
Typ publikacji :
Journal Article
MeSH Terms :
Amphibians/*genetics
Codon Usage/*genetics
Genes, Mitochondrial/*genetics
Amphibians/metabolism ; Animals ; Biological Evolution ; Codon/genetics ; Computational Biology ; Electron Transport Chain Complex Proteins/genetics ; Electron Transport Chain Complex Proteins/metabolism ; Evolution, Molecular ; Mutation/genetics ; Selection, Genetic/genetics
Czasopismo naukowe
Tytuł :
Diversity of tRNA Clusters in the Chloroviruses.
Autorzy :
Duncan GA; Nebraska Center for Virology, University of Nebraska-Lincoln, Lincoln, NE 68583-0900, USA.
Dunigan DD; Nebraska Center for Virology, University of Nebraska-Lincoln, Lincoln, NE 68583-0900, USA.; Department of Plant Pathology, University of Nebraska-Lincoln, Lincoln, NE 68583-0833, USA.
Van Etten JLV; Nebraska Center for Virology, University of Nebraska-Lincoln, Lincoln, NE 68583-0900, USA.; Department of Plant Pathology, University of Nebraska-Lincoln, Lincoln, NE 68583-0833, USA.
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Źródło :
Viruses [Viruses] 2020 Oct 16; Vol. 12 (10). Date of Electronic Publication: 2020 Oct 16.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Codon Usage*
Genetic Variation*
Genome, Viral*
Phycodnaviridae/*genetics
RNA, Transfer/*genetics
Codon ; Cyanobacteria/virology ; Host Microbial Interactions ; Multigene Family ; Phycodnaviridae/classification ; Phylogeny
Czasopismo naukowe
Tytuł :
Analysis of codon usage bias of chloroplast genes in Oryza species : Codon usage of chloroplast genes in Oryza species.
Autorzy :
Chakraborty S; Department of Biotechnology, Assam University, Silchar, 788011, Assam, India. .
Yengkhom S; Department of Biotechnology, Assam University, Silchar, 788011, Assam, India.
Uddin A; Department of Zoology, Moinul Hoque Choudhury Memorial Science College, Algapur, Hailakandi, 788150, Assam, India.
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Źródło :
Planta [Planta] 2020 Sep 28; Vol. 252 (4), pp. 67. Date of Electronic Publication: 2020 Sep 28.
Typ publikacji :
Journal Article
MeSH Terms :
Codon Usage*
Genes, Chloroplast*/genetics
Oryza*/genetics
Base Composition ; Codon/genetics ; Selection, Genetic
Czasopismo naukowe
Tytuł :
Analysis of the Codon Usage Pattern of HA and NA Genes of H7N9 Influenza A Virus.
Autorzy :
Sun J; College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China.
Zhao W; College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China.
Wang R; College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China.
Zhang W; College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China.
Li G; College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China.
Lu M; College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China.
Shao Y; College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China.
Yang Y; College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China.
Wang N; College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China.
Gao Q; College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China.
Su S; College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China.
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Źródło :
International journal of molecular sciences [Int J Mol Sci] 2020 Sep 27; Vol. 21 (19). Date of Electronic Publication: 2020 Sep 27.
Typ publikacji :
Journal Article
MeSH Terms :
Codon Usage*
Genes, Viral*
Hemagglutinin Glycoproteins, Influenza Virus/*genetics
Host Adaptation/*genetics
Influenza A Virus, H7N9 Subtype/*genetics
Influenza in Birds/*genetics
Influenza, Human/*genetics
Neuraminidase/*genetics
Animals ; Chickens/virology ; Codon ; CpG Islands/genetics ; Host Specificity/genetics ; Humans ; Influenza in Birds/virology ; Influenza, Human/virology ; Phylogeny
Czasopismo naukowe
Tytuł :
Characterization of codon usage pattern in SARS-CoV-2.
Autorzy :
Hou W; Tianjin Second People's Hospital and Tianjin Institute of Hepatology, 7 Sudi South Road, Nankai District, Tianjin, 300192, China. .
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Źródło :
Virology journal [Virol J] 2020 Sep 14; Vol. 17 (1), pp. 138. Date of Electronic Publication: 2020 Sep 14.
Typ publikacji :
Journal Article
MeSH Terms :
Codon Usage*
Genome, Viral*
Betacoronavirus/*genetics
Coronavirus Infections/*virology
Pneumonia, Viral/*virology
Animals ; Base Sequence ; COVID-19 ; Cluster Analysis ; Codon ; Computational Biology ; Evolution, Molecular ; Humans ; Mutation ; Pandemics ; Phylogeny ; SARS-CoV-2 ; Selection, Genetic ; Viral Proteins/genetics ; Whole Genome Sequencing
Czasopismo naukowe
Tytuł :
Codon usage bias affects α-amylase mRNA level by altering RNA stability and cytosine methylation patterns in Escherichia coli .
Autorzy :
Xing Y; State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, P.R. China.; State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, P.R. China.
Gong R; State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, P.R. China.; State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, P.R. China.
Xu Y; State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, P.R. China.; State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, P.R. China.
Liu K; State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, P.R. China.; State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, P.R. China.
Zhou M; State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, P.R. China.; State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, P.R. China.
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Źródło :
Canadian journal of microbiology [Can J Microbiol] 2020 Sep; Vol. 66 (9), pp. 521-528. Date of Electronic Publication: 2020 Apr 07.
Typ publikacji :
Journal Article
MeSH Terms :
Codon Usage*
DNA Methylation*
Cytosine/*metabolism
Escherichia coli/*genetics
RNA, Bacterial/*genetics
RNA, Messenger/*genetics
alpha-Amylases/*genetics
Codon ; Neurospora crassa/genetics ; RNA Stability ; alpha-Amylases/metabolism
Czasopismo naukowe
Tytuł :
Analysis of Stop Codons within Prokaryotic Protein-Coding Genes Suggests Frequent Readthrough Events.
Autorzy :
Belinky F; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.
Ganguly I; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.
Poliakov E; National Eye Institute, National Institutes of Health, Bethesda, MD 20892, USA.
Yurchenko V; Life Science Research Centre, Faculty of Science, University of Ostrava, 710 00 Ostrava, Czech Republic.; Martsinovsky Institute of Medical Parasitology, Tropical and Vector Borne Diseases, Sechenov University, 119435 Moscow, Russia.
Rogozin IB; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.
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Źródło :
International journal of molecular sciences [Int J Mol Sci] 2021 Feb 14; Vol. 22 (4). Date of Electronic Publication: 2021 Feb 14.
Typ publikacji :
Journal Article
MeSH Terms :
Codon, Nonsense*
Codon, Terminator/*genetics
Open Reading Frames/*genetics
Prokaryotic Cells/*metabolism
Bacteria/classification ; Bacteria/genetics ; Bacterial Proteins/classification ; Bacterial Proteins/genetics ; Base Sequence ; Evolution, Molecular ; Models, Genetic ; Phylogeny ; Point Mutation ; Pseudogenes/genetics ; Selection, Genetic ; Sequence Homology, Nucleic Acid
Czasopismo naukowe
Tytuł :
Detection, genetic, and codon usage bias analyses of the VP2 gene of mink bocavirus.
Autorzy :
Xin W; College of Veterinary Medicine, Northeast Agricultural University, Harbin, 150030, China.
Liu Y; College of Veterinary Medicine, Northeast Agricultural University, Harbin, 150030, China.
Yang Y; Heilongjiang Provincial Key Laboratory of Laboratory Animal and Comparative Medicine, State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, 150069, People's Republic of China.
Sun T; College of Veterinary Medicine, Northeast Agricultural University, Harbin, 150030, China.
Niu L; College of Veterinary Medicine, Northeast Agricultural University, Harbin, 150030, China.
Ge J; College of Veterinary Medicine, Northeast Agricultural University, Harbin, 150030, China. .; Northeastern Science Inspection Station, China Ministry of Agriculture Key Laboratory of Animal Pathogen Biology, Harbin, 150030, China. .
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Źródło :
Virus genes [Virus Genes] 2020 Jun; Vol. 56 (3), pp. 306-315. Date of Electronic Publication: 2020 Feb 04.
Typ publikacji :
Journal Article
MeSH Terms :
Codon Usage*
Bocavirus/*genetics
Capsid Proteins/*genetics
Mink/*virology
Amino Acid Substitution ; Animal Diseases/diagnosis ; Animal Diseases/virology ; Animals ; Bocavirus/classification ; Codon ; Mutation ; Parvoviridae Infections/veterinary ; Phylogeny
Czasopismo naukowe
Tytuł :
Genome-wide codon usage pattern analysis reveals the correlation between codon usage bias and gene expression in Cuscuta australis.
Autorzy :
Liu XY; Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants (Ministry of Education), Hainan Key Laboratory for Biology of Tropical Ornamental Plant Germplasm, College of Forestry, Hainan University, Haikou 570228, China.
Li Y; Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants (Ministry of Education), Hainan Key Laboratory for Biology of Tropical Ornamental Plant Germplasm, College of Forestry, Hainan University, Haikou 570228, China.
Ji KK; Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants (Ministry of Education), Hainan Key Laboratory for Biology of Tropical Ornamental Plant Germplasm, College of Forestry, Hainan University, Haikou 570228, China.
Zhu J; Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants (Ministry of Education), Hainan Key Laboratory for Biology of Tropical Ornamental Plant Germplasm, College of Forestry, Hainan University, Haikou 570228, China.
Ling P; Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants (Ministry of Education), Hainan Key Laboratory for Biology of Tropical Ornamental Plant Germplasm, College of Forestry, Hainan University, Haikou 570228, China.
Zhou T; Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants (Ministry of Education), Hainan Key Laboratory for Biology of Tropical Ornamental Plant Germplasm, College of Forestry, Hainan University, Haikou 570228, China.
Fan LY; Shanxi Academy of Forestry Sciences, Taiyuan 030012, China. Electronic address: .
Xie SQ; Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants (Ministry of Education), Hainan Key Laboratory for Biology of Tropical Ornamental Plant Germplasm, College of Forestry, Hainan University, Haikou 570228, China. Electronic address: .
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Źródło :
Genomics [Genomics] 2020 Jul; Vol. 112 (4), pp. 2695-2702. Date of Electronic Publication: 2020 Mar 04.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Codon Usage*
Gene Expression*
Cuscuta/*genetics
Plant Proteins/*genetics
Codon ; Cuscuta/metabolism ; Genome, Plant ; Plant Proteins/metabolism ; Pseudogenes
Czasopismo naukowe
Tytuł :
Selection constraints determine preference for A/U-ending codons in Taxus contorta .
Autorzy :
Majeed A; Molecular Genetics Laboratory, Department of Botany, Central University of Punjab, City Campus, Mansa Road, Bathinda-151001, India.; Molecular Genetics Laboratory, Department of Botany, Central University of Punjab, City Campus, Mansa Road, Bathinda-151001, India.
Kaur H; Molecular Genetics Laboratory, Department of Botany, Central University of Punjab, City Campus, Mansa Road, Bathinda-151001, India.; Molecular Genetics Laboratory, Department of Botany, Central University of Punjab, City Campus, Mansa Road, Bathinda-151001, India.
Bhardwaj P; Molecular Genetics Laboratory, Department of Botany, Central University of Punjab, City Campus, Mansa Road, Bathinda-151001, India.; Molecular Genetics Laboratory, Department of Botany, Central University of Punjab, City Campus, Mansa Road, Bathinda-151001, India.
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Źródło :
Genome [Genome] 2020 Apr; Vol. 63 (4), pp. 215-224. Date of Electronic Publication: 2020 Jan 27.
Typ publikacji :
Journal Article
MeSH Terms :
Codon Usage*
Taxus/*genetics
Base Composition/genetics ; Biological Evolution ; Codon/genetics ; Mutation ; Selection, Genetic ; Sequence Analysis, RNA
Czasopismo naukowe
Tytuł :
Comprehensive Analysis of Codon Usage on Porcine Astrovirus.
Autorzy :
Wu H; College of Veterinary Medicine, Yangzhou University, Yangzhou 225009, China.; Institute of Comparative Medicine, Yangzhou University, Yangzhou 225009, China.; Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou University, Yangzhou 225009, China.; Joint International Research Laboratory of Agriculture and Agri-Product Safety, The Ministry of Education of China, Yangzhou University, Yangzhou 225009, China.
Bao Z; College of Veterinary Medicine, Yangzhou University, Yangzhou 225009, China.
Mou C; College of Veterinary Medicine, Yangzhou University, Yangzhou 225009, China.; Institute of Comparative Medicine, Yangzhou University, Yangzhou 225009, China.; Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou University, Yangzhou 225009, China.
Chen Z; College of Veterinary Medicine, Yangzhou University, Yangzhou 225009, China.; Institute of Comparative Medicine, Yangzhou University, Yangzhou 225009, China.; Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou University, Yangzhou 225009, China.; Joint International Research Laboratory of Agriculture and Agri-Product Safety, The Ministry of Education of China, Yangzhou University, Yangzhou 225009, China.
Zhao J; College of Animal Science and Technology, Yangzhou University, Yangzhou 225009, China.
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Źródło :
Viruses [Viruses] 2020 Sep 06; Vol. 12 (9). Date of Electronic Publication: 2020 Sep 06.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Codon Usage*
Astroviridae/*genetics
Astroviridae Infections/*veterinary
Codon/*genetics
Swine Diseases/*virology
Adaptation, Physiological ; Animals ; Astroviridae/classification ; Astroviridae/isolation & purification ; Astroviridae/physiology ; Astroviridae Infections/virology ; Genome, Viral ; Phylogeny ; Swine
Czasopismo naukowe
Tytuł :
Dissimilation of synonymous codon usage bias in virus-host coevolution due to translational selection.
Autorzy :
Chen F; Program in Cancer Research, Zhongshan School of Medicine, The Fifth Affiliated Hospital, Sun Yat-sen University, Guangzhou, China.; Department of Biomedical Informatics, Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China.; Key Laboratory of Tropical Disease Control, Ministry of Education, Sun Yat-sen University, Guangzhou, China.
Wu P; Department of Biomedical Informatics, Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China.
Deng S; Department of Medical Genetics, Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China.
Zhang H; Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China.
Hou Y; Department of Biomedical Informatics, Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China.
Hu Z; Department of Obstetrics and Gynecology, Precision Medicine Institute, The First Affiliated Hospital, Sun Yat-sen University, Guangzhou, China.
Zhang J; Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, USA. .
Chen X; Department of Medical Genetics, Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China. .; Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, USA. .
Yang JR; Program in Cancer Research, Zhongshan School of Medicine, The Fifth Affiliated Hospital, Sun Yat-sen University, Guangzhou, China. .; Department of Biomedical Informatics, Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China. .; Key Laboratory of Tropical Disease Control, Ministry of Education, Sun Yat-sen University, Guangzhou, China. .; Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, USA. .; RNA Biomedical Institute, Sun Yat-sen Memorial Hospital, Sun Yat-sen University, Guangzhou, China. .; Guangdong Provincial Key Laboratory of Biomedical Imaging, The Fifth Affiliated Hospital, Sun Yat-sen University, Zhuhai, Guangdong Province, China. .
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Źródło :
Nature ecology & evolution [Nat Ecol Evol] 2020 Apr; Vol. 4 (4), pp. 589-600. Date of Electronic Publication: 2020 Mar 02.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
MeSH Terms :
Codon Usage*
Viruses*
Codon ; RNA, Transfer ; Selection, Genetic
Czasopismo naukowe
Tytuł :
The optimization of mRNA expression level by its intrinsic properties-Insights from codon usage pattern and structural stability of mRNA.
Autorzy :
Victor MP; Bioinformatics Centre, Bose Institute, Kolkata, West Bengal, India.
Acharya D; Bioinformatics Centre, Bose Institute, Kolkata, West Bengal, India. Electronic address: .
Begum T; Department of Ecology and Evolution, University of Lausanne, Switzerland.
Ghosh TC; Bioinformatics Centre, Bose Institute, Kolkata, West Bengal, India. Electronic address: .
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Źródło :
Genomics [Genomics] 2019 Dec; Vol. 111 (6), pp. 1292-1297. Date of Electronic Publication: 2018 Sep 01.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Codon Usage*
RNA Stability*
RNA, Messenger/*metabolism
Codon ; RNA, Messenger/chemistry ; Saccharomyces cerevisiae/genetics ; Saccharomyces cerevisiae/metabolism
Czasopismo naukowe
Tytuł :
Analysis of synonymous codon usage patterns of HPRT1 gene across twelve mammalian species.
Autorzy :
De Mandal S; College of Agriculture, South China Agricultural University, Guangzhou, China.
Mazumder TH; Department of Biotechnology, Assam University, Silchar, Assam, India.
Panda AK; Department of Biotechnology, Sarguja University, Ambikapur 497001, Chhattisgarh, India.
Kumar NS; Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India.
Jin F; College of Agriculture, South China Agricultural University, Guangzhou, China. Electronic address: .
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Źródło :
Genomics [Genomics] 2020 Jan; Vol. 112 (1), pp. 304-311. Date of Electronic Publication: 2019 Feb 25.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Codon Usage*
Hypoxanthine Phosphoribosyltransferase/*genetics
Amino Acid Sequence ; Animals ; Base Composition ; Cattle ; Codon ; DNA/chemistry ; Gene Expression ; Humans ; Hypoxanthine Phosphoribosyltransferase/chemistry ; Hypoxanthine Phosphoribosyltransferase/metabolism ; Mammals/genetics ; Phylogeny ; Rats ; Selection, Genetic ; Sequence Alignment
Czasopismo naukowe
Tytuł :
vhcub : Virus-host codon usage co-adaptation analysis.
Autorzy :
Anwar AM; Department of Genetics, Faculty of Agriculture, Cairo University, Cairo, 12613, Egypt.
Soudy M; Bioinformatics program, Faculty of Computer Science, Ain Shams University, Ain Shams, Egypt.
Mohamed R; Department of Genetics, Faculty of Agriculture, Cairo University, Cairo, 12613, Egypt.
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Źródło :
F1000Research [F1000Res] 2019 Dec 23; Vol. 8, pp. 2137. Date of Electronic Publication: 2019 Dec 23 (Print Publication: 2019).
Typ publikacji :
Journal Article
MeSH Terms :
Codon Usage*
Genome, Viral*
Viruses*
Codon ; Evolution, Molecular
Czasopismo naukowe
Tytuł :
Co-evolution between codon usage and protein-protein interaction in bacteria.
Autorzy :
Dilucca M; Dipartimento di Fisica, Sapienza University of Rome, Italy. Electronic address: .
Cimini G; Dipartimento di Fisica and INFN Roma2 Unit, Tor Vergata University of Rome, Italy; Istituto dei Sistemi Complessi (CNR), UoS Sapienza University of Rome, Italy.
Forcelloni S; Max Planck Institute of Biochemistry, 82152 Martinsried, Germany; Department of Chemistry, Technical University of Munich, 85748 Garching, Germany.
Giansanti A; Dipartimento di Fisica, Sapienza University of Rome, Italy; INFN Roma1 Unit, Sapienza University of Rome, Italy.
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Źródło :
Gene [Gene] 2021 Apr 30; Vol. 778, pp. 145475. Date of Electronic Publication: 2021 Feb 04.
Typ publikacji :
Journal Article
MeSH Terms :
Codon Usage*
Protein Interaction Maps*
Bacteria/*genetics
Bacterial Proteins/genetics ; Computational Biology ; Evolution, Molecular ; Selection, Genetic
Czasopismo naukowe

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