(Q34769203)

4 August 2017

title

Analysis of codon usage bias of mitochondrial genome in Bombyx mori and its relation to evolution (English)

1 reference

4 August 2017

1 reference

1 reference

Lei Wei

1

1 reference

4 August 2017

Jian He

2

1 reference

4 August 2017

Xian Jia

3

1 reference

4 August 2017

Qi Qi

4

1 reference

4 August 2017

Zhisheng Liang

5

1 reference

4 August 2017

Hao Zheng

6

1 reference

4 August 2017

Yao Ping

7

1 reference

4 August 2017

Shuyu Liu

8

1 reference

4 August 2017

Jingchen Sun

9

1 reference

4 August 2017

publication date

17 December 2014

1 reference

4 August 2017

published in

BMC Evolutionary Biology

1 reference

4 August 2017

volume

14

1 reference

4 August 2017

page(s)

262

1 reference

Creative Commons Attribution 4.0 International

4 August 2017

copyright license

start time

1 December 2014

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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7 July 2018

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7 July 2018

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7 July 2018

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7 July 2018

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Characterization of the complete mitochondrial genome of Bombyx mori strain H9 (Lepidoptera: Bombycidae).

7 July 2018

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Predicting protein-ATP binding sites from primary sequence through fusing bi-profile sampling of multi-view features

7 July 2018

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Production of recombinant human DNA polymerase delta in a Bombyx mori bioreactor

7 July 2018

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Phylogenetic evaluation of the taxonomic status of Papilio maackii and P. syfanius (Lepidoptera: Papilionidae).

7 July 2018

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Genetic diversity, molecular phylogeny and selection evidence of the silkworm mitochondria implicated by complete resequencing of 41 genomes.

7 July 2018

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A detailed comparative analysis on the overall codon usage pattern in herpesviruses.

7 July 2018

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Mitochondrial DNA as a marker of molecular diversity: a reappraisal.

7 July 2018

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Complete resequencing of 40 genomes reveals domestication events and genes in silkworm (Bombyx).

7 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Analysis of synonymous codon usage in classical swine fever virus

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Evolutionary implications of non-neutral mitochondrial genetic variation

7 July 2018

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Evolution of the mitochondrial genome of Metazoa as exemplified by comparison of congeneric species

7 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Positive and negative selection on the mitochondrial genome

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Rapid divergence of codon usage patterns within the rice genome

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Gene expression and protein length influence codon usage and rates of sequence evolution in Populus tremula

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Cytonuclear coevolution: the genomics of cooperation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Mother's curse: the effect of mtDNA on individual fitness and population viability

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Molecular phylogeny of silkmoths reveals the origin of domesticated silkmoth, Bombyx mori from Chinese Bombyx mandarina and paternal inheritance of Antheraea proylei mitochondrial DNA.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Eukaryotic evolution, changes and challenges

7 July 2018

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A draft sequence for the genome of the domesticated silkworm (Bombyx mori).

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

The Genome Sequence of Silkworm, Bombyx mori

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Factors affecting codon usage in Yersinia pestis.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Biological identifications through DNA barcodes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Natural selection and the evolution of mtDNA-encoded peptides: evidence for intergenomic co-adaptation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Isochores result from mutation not selection

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Animal mitochondrial genomes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Nucleotide substitution rate of mammalian mitochondrial genomes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

An evaluation of measures of synonymous codon usage bias.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Mutation and selection at silent and replacement sites in the evolution of animal mitochondrial DNA.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Gene length and codon usage bias in Drosophila melanogaster, Saccharomyces cerevisiae and Escherichia coli

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Departure from neutrality at the mitochondrial NADH dehydrogenase subunit 2 gene in humans, but not in chimpanzees

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Evolution of codon usage bias in Drosophila

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Nonneutral mitochondrial DNA variation in humans and chimpanzees

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Hydrophobicity, expressivity and aromaticity are the major trends of amino-acid usage in 999 Escherichia coli chromosome-encoded genes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Unraveling selection in the mitochondrial genome of Drosophila.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Neutral and non-neutral evolution of Drosophila mitochondrial DNA

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

A simple method for displaying the hydropathic character of a protein

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

7 July 2018

Codon selection in yeast

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Codon catalog usage and the genome hypothesis

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Codon usage and tRNA content in unicellular and multicellular organisms

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Codon usage in regulatory genes in Escherichia coli does not reflect selection for 'rare' codons

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Codon usage in yeast: cluster analysis clearly differentiates highly and lowly expressed genes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Directional mutation pressure and neutral molecular evolution

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Synonymous codon usage in Bacillus subtilis reflects both translational selection and mutational biases

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Codon usage and gene expression level in Dictyostelium discoideum: highly expressed genes do 'prefer' optimal codons

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

The 'effective number of codons' used in a gene

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

The selection-mutation-drift theory of synonymous codon usage

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Nucleolus organizers in the wild silkworm Bombyx mandarina and the domesticated silkworm B. mori

7 July 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

Mitogenomics: digging deeper with complete mitochondrial genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

Significant levels of sequence divergence and gene rearrangements have occurred between the mitochondrial genomes of the wild mulberry silkmoth, Bombyx mandarina, and its close relative, the domesticated silkmoth, Bombyx mori

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

Animal mitochondrial DNA as a genetic marker in population and evolutionary biology

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

Patterns of codon usage bias in three dicot and four monocot plant species

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

The sorry state of F2 hybrids: consequences of rapid mitochondrial DNA evolution in allopatric populations

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

The Units of Selection on Mitochondrial DNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

The characteristics of the synonymous codon usage in enterovirus 71 virus and the effects of host on the virus in codon usage pattern

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

Patterns of Codon Usage Bias in Silene latifolia

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

Effects of gene expression on molecular evolution in Arabidopsis thaliana and Arabidopsis lyrata.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

Translation initiation AUG context varies with codon usage bias and gene length in Drosophila melanogaster.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

Gene expressivity is the main factor in dictating the codon usage variation among the genes in Pseudomonas aeruginosa.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

Two aspects of DNA base composition: G+C content and translation-coupled deviation from intra-strand rule of A = T and G = C.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12862-014-0262-4

Comparison of factors that may affect the inhibitory efficacy of transgenic RNAi targeting of baculoviral genes in silkworm, Bombyx mori.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4276022

Codon usage in mitochondrial genomes: distinguishing context-dependent mutation from translational selection

26 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25515024

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Evolutionary biology. Mitochondrial DNA: new clues about evolution

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25515024

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Codon Deviation Coefficient: a novel measure for estimating codon usage bias and its statistical significance

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25515024

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/S12862-014-0262-4

1 reference

Dimensions Publication ID

4 August 2017

0 references

1 reference

4 August 2017

1 reference