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  1. Proceedings of the National Academy of Sciences, India Section B: Biological Sciences
  2. Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 86
  3. Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 86, Issue 2, June 2016
  4. In silico Analysis of Synonymous Codon Usage Pattern of Rhizobium etli CFN 42
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Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 87
Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 86
Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 86, Issue 4, December 2016
Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 86, Issue 3, September 2016
Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 86, Issue 2, June 2016
Research Trends in Cladoceran Diversity from Kashmir Himalaya
Varietal Spectrum of Seed Production of Pulses in India: An Updated Approach
Characterization of Metal Tolerant Serratia spp. Isolates from Sediments of Uranium Ore Deposit of Domiasiat in Northeast India
First Record of Some Insect Pests on Commercial Lac Host Plant, Ziziphus mauritiana from India
Impact of Temperature Gradient on the Indian Major Carp Catla catla Larvae
In Vitro Propagation of Ceropegia anjanerica Malpure et al.: A Rare Endemic Plant from Maharashtra
Effect of Azoxystrobin Based Fungicides in Management of Chilli and Tomato Diseases
Variations in Diterpenes-Cafestol and Kahweol Content in Beans of Robusta Coffee Grown at Different Altitudes
Effect of In situ Recycling of Sugarcane Crop Residues on Soil Enzyme Activities Under Soybean–Maize System
Purification and Characterization of Halophilic Alkaline Lipase from Halobacillus sp.
Effect of Sowing Date and Cultivars on Aphid Infestation in Wheat with Climate Change Adaptation Perspective
Morphological, Pathogenic and Molecular Characterizations of Alternaria Species Causing Early Blight of Tomato in Northern India
Genotypic and Phenotypic Profile of Alkalophile Proteolytic Bacillus sp. Associated with Rhizosphere of Apple Trees in Trans Himalayas
Influence of Growing Environment on Antinutrients/Bioactive Compounds in Soybean, Glycine max (L.) Merill Genotypes
Assessment of Morphological and Biochemical Diversity in Seabuckthorn (Hippophae salicifolia D. Don.) Populations of Indian Central Himalaya
Safety Assessment and Bioefficacy of Fluopyram 20 %+Tebuconazole 20 %-40 SC in Chilli, Capsicum annum L. Against Anthracnose Disease
Geographic Morphometric Variations of Freshwater Murrel, Channa punctatus from Northern and Eastern Parts of India
Tissue Culture Independent Agrobacterium tumefaciens Mediated In Planta Transformation Method for Tropical Maize (Zea mays.L)
In silico Analysis of Synonymous Codon Usage Pattern of Rhizobium etli CFN 42
Nutritional and Sensory Properties of Vegetable Oil Filled Milk Beverage Prepared with Pulp of Mangifera indica L
Sustained Shoot Multiplication and Method for Overcoming In Vitro Browning in Medicinally Important Plant, Piper chaba Hunt
A Temporal Study on the Effects of TiO$_{2}$ Nanoparticles in a Fresh Water Microcosm
Morphogenetic Studies on Two Mosses, Bryum dichotomum and Entodon macropodus Grown In Vitro
Citric Acid Induced Potassium and Silicon Release in Alfisols, Vertisols and Inceptisols of India
In Silico Characterization of Novel Chikungunya Non-Structural Protein 2 Target Peptides
Response of Genotypes to Cutting Management for Seed Yield in Cenchrus ciliaris Under Hot Arid Conditions
Comparative Screening of Biological Activities and Polyphenol Content in Extracts and Essential Oils of Chloroxylon swietenia DC
Microscopic Agglutination Test Analysis Identifies Prevalence of Intermediate Species Serovars in Ruminants in Endemic States of India
Antibacterial Activity of Extract of Endophytic Fungi of Gymnema sylvestre
Molecular and Cultural Characterization of Alternaria brassicae Infecting Cauliflower in Uttar Pradesh, India
Role of Red-Ant, Oecophylla smaragdina Fabricius (Formicidae: Hymenoptera) in Managing Tea Mosquito Bug, Helopeltis species (Miridae: Hemiptera) in Cashew
Bioefficacy of Beauveria bassiana (Balsamo) Vuillemin and Lecanicillium lecanii Zimmerman against Thrips tabaci Lindeman
Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 86, Issue 1, March 2016
Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 85
Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 84
Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 83
Proceedings of the National Academy of Sciences, India Section B: Biological Sciences : Volume 82

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In silico Analysis of Synonymous Codon Usage Pattern of Rhizobium etli CFN 42

Content Provider SpringerLink
Author Chaturvedi, Krishna Kumar Singh, Dhananjaya Pratap Farooqi, Mohammad Samir Mishra, Dwijesh Chandra Sharma, Naveen Sanjukta, R. K. Rai, Anil
Copyright Year 2014
Abstract Understanding the extent and pattern of codon bias and the forces affecting codon usage are the key steps towards elucidating choice of codons at the level of individual genes. In the present study, codon usage pattern among 3,703 genes of nitrogen fixing bacterium, Rhizobium etli CFN 42 was analyzed. The study aims to identify the factors responsible for codon usage bias and highly expressed genes of this bacterium. Multivariate statistical analysis revealed a single major explanatory axis accounting for codon usage variation among the genes. Correlation analysis suggested that the axis has strong significant positive correlation with GC$_{3s}$ i.e. GC content at the third codon position. A significant negative correlation between effective number of codons and GC$_{3s}$ content was observed suggesting that the codon usage was affected by gene nucleotide composition. These findings suggested mutational role as the major factor in shaping codon usage bias among the genes. Further, correspondence analysis of Relative Synonymous Codon Usage revealed cluster of highly expressed genes. Notably, 26 codons were determined as the ‘optimal codons’ that were significantly more frequent among the highly expressed genes tested by χ$^{2}$ test (P < 0.01). Such results may add value to the efforts of developing bio-fertilizers based on symbiotic or non-symbiotic bacteria for improving soil fertility.
Starting Page 385
Ending Page 393
Page Count 9
File Format PDF
ISSN 03698211
Journal Proceedings of the National Academy of Sciences, India Section B: Biological Sciences
Volume Number 86
Issue Number 2
e-ISSN 22501746
Language English
Publisher Springer India
Publisher Date 2014-11-19
Publisher Place New Delhi
Access Restriction One Nation One Subscription (ONOS)
Subject Keyword Life Sciences Plant Biochemistry Nucleic Acid Chemistry Mutational bias Behavioral Sciences Rhizobium etli CFN 42 Codon usage bias Optimal codons
Content Type Text
Resource Type Article
Subject Environmental Science Agricultural and Biological Sciences
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