Alteration of synonymous codon usage bias accompanies polyploidization in wheat

Alteration of synonymous codon usage bias accompanies polyploidization in wheat

The diploidization of polyploid genomes is accompanied by genomic variation, including synonymous nucleotide substitutions that may lead to synonymous codon usage bias (SCUB). SCUB can mirror the evolutionary specialization of plants, but its effect on the formation of polyploidies is not well docum...

Full description

Bibliographic Details
Main Authors:	Geng Tian, Guilian Xiao, Tong Wu, Junzhi Zhou, Wenjing Xu, Yanxia Wang, Guangmin Xia, Mengcheng Wang
Format:	Article
Language:	English
Published:	Frontiers Media S.A. 2022-10-01
Series:	Frontiers in Genetics
Subjects:	wheat polyploidy synonymous codon usage bias nucleotide substitution DNA methylation epigenetic variation
Online Access:	https://www.frontiersin.org/articles/10.3389/fgene.2022.979902/full

Similar Items

The Shift in Synonymous Codon Usage Reveals Similar Genomic Variation during Domestication of Asian and African Rice
by: Guilian Xiao, et al.
Published: (2022-10-01)

Compositional Analysis of Flatworm Genomes Shows Strong Codon Usage Biases Across All Classes
by: Guillermo Lamolle, et al.
Published: (2019-09-01)

Synonymous codon usage bias is correlative to intron number and shows disequilibrium among exons in plants
by: Qin Zhen, et al.
Published: (2013-01-01)

The Impact of Selection at the Amino Acid Level on the Usage of Synonymous Codons
by: Paweł Błażej, et al.
Published: (2017-03-01)

Genome-wide analysis of the synonymous codon usage patterns in apple
by: Ning LI, et al.
Published: (2016-05-01)

Analysis of codon usage bias of thioredoxin in apicomplexan protozoa
by: Dawei Wang, et al.
Published: (2023-11-01)

Codon Usage Bias in Autophagy-Related Gene 13 in Eukaryotes: Uncovering the Genetic Divergence by the Interplay Between Nucleotides and Codon Usages
by: Yicong Li, et al.
Published: (2021-11-01)

Analysis of Codon Usage Bias in the Genome of Trichoderma reesei
by: Xin YANG, et al.
Published: (2022-03-01)

Human genes with relative synonymous codon usage analogous to that of polyomaviruses are involved in the mechanism of polyomavirus nephropathy
by: Yu Fan, et al.
Published: (2022-09-01)

Codon Usage Profiling of Chloroplast Genome in Juglandaceae
by: Yajun Zeng, et al.
Published: (2023-02-01)

Synonymous Codon Usages as an Evolutionary Dynamic for <i>Chlamydiaceae</i>
by: Zhaocai Li, et al.
Published: (2018-12-01)

Codon Usage of Hepatitis E Viruses: A Comprehensive Analysis
by: Bingzhe Li, et al.
Published: (2022-06-01)

Application of codon usage and context analysis in genes up- or down-regulated in neurodegeneration and cancer to combat comorbidities
by: Rekha Khandia, et al.
Published: (2023-06-01)

Codon usage studies and epitope-based peptide vaccine prediction against Tropheryma whipplei
by: Amit Joshi, et al.
Published: (2022-03-01)

Analysis of codon usage pattern in Lonicera × heckrottii ‘Gold Flame’ based on chloroplast genome
by: Jiaqiang ZHANG, et al.
Published: (2022-02-01)

Deciphering Codon Usage Patterns in Genome of <i>Cucumis sativus</i> in Comparison with Nine Species of Cucurbitaceae
by: Yuan Niu, et al.
Published: (2021-11-01)

Base Composition and Translational Selection are Insufficient to Explain Codon Usage Bias in Plant Viruses
by: Siobain Duffy, et al.
Published: (2013-01-01)

Polyploidization is accompanied by synonymous codon usage bias in the chloroplast genomes of both cotton and wheat.
by: Geng Tian, et al.
Published: (2020-01-01)

Measurement of average decoding rates of the 61 sense codons in vivo
by: Justin Gardin, et al.
Published: (2014-10-01)

Analysis of codon usage bias of WRKY transcription factors in Helianthus annuus
by: Yue Gao, et al.
Published: (2022-06-01)

Codon Bias Can Determine Sorting of a Potassium Channel Protein
by: Anja J. Engel, et al.
Published: (2021-05-01)

Comparative analysis of codon usage patterns of Plasmodium helical interspersed subtelomeric (PHIST) proteins
by: Baoling Yang, et al.
Published: (2023-12-01)

Analysis of 3.5 million SARS-CoV-2 sequences reveals unique mutational trends with consistent nucleotide and codon frequencies
by: Sarah E. Fumagalli, et al.
Published: (2023-02-01)

Synonymous Dinucleotide Usage: A Codon-Aware Metric for Quantifying Dinucleotide Representation in Viruses
by: Spyros Lytras, et al.
Published: (2020-04-01)

Analysis of Codon Usage Bias in Xyloglucan Endotransglycosylase (XET) Genes
by: Bo Xiong, et al.
Published: (2023-03-01)

Synonymous Codon Usage Analysis of Three Narcissus Potyviruses
by: Zhen He, et al.
Published: (2022-04-01)

Strategies and Patterns of Codon Bias in Molluscum Contagiosum Virus
by: Rahul Raveendran Nair, et al.
Published: (2021-12-01)

Insights into Synonymous Codon Usage Bias in Hepatitis C Virus and Its Adaptation to Hosts
by: Rekha Khandia, et al.
Published: (2023-02-01)

Genome-wide analysis of codon usage bias in Bovine Coronavirus
by: Matías Castells, et al.
Published: (2017-06-01)

The Influence of the Selection at the Amino Acid Level on Synonymous Codon Usage from the Viewpoint of Alternative Genetic Codes
by: Konrad Pawlak, et al.
Published: (2023-01-01)

Differential Synonymous Codon Selection in the B56 Gene Family of PP2A Regulatory Subunits
by: Gabriel Corzo, et al.
Published: (2023-12-01)

Are synonymous codons indeed synonymous?
by: Venetianer Pál
Published: (2012-02-01)

Codon Usage Bias in Phytoplankton
by: Marc Krasovec, et al.
Published: (2022-01-01)

Analysis of Codon Usage of Speech Gene <i>FoxP2</i> among Animals
by: Tarikul Huda Mazumder, et al.
Published: (2021-10-01)

Soluble Expression of hFGF19 without Fusion Protein through Synonymous Codon Substitutions and DsbC Co-Expression in <i>E. coli</i>
by: Hye-Ji Choi, et al.
Published: (2020-12-01)

Differential bicodon usage in lowly and highly abundant proteins
by: Luis A. Diambra
Published: (2017-03-01)

The characteristics of the synonymous codon usage in hepatitis B virus and the effects of host on the virus in codon usage pattern
by: Ma Ming-ren, et al.
Published: (2011-12-01)

Analysis of synonymous codon usage patterns in mitochondrial genomes of nine Amanita species
by: Qiang Li, et al.
Published: (2023-03-01)

Codon Deviation Coefficient: a novel measure for estimating codon usage bias and its statistical significance
by: Zhang Zhang, et al.
Published: (2012-03-01)

Codon Usage Bias Correlates With Gene Length in Neurodegeneration Associated Genes
by: Rekha Khandia, et al.
Published: (2022-07-01)