On the utility of short intron sequences as a reference for the detection of positive and negative selection in Drosophila (Q33883110)

29 July 2017

On the utility of short intron sequences as a reference for the detection of positive and negative selection in Drosophila (English)

1 reference

29 July 2017

0 references

Peter Andolfatto

5

0 references

author name string

John Parsch

1

1 reference

29 July 2017

Sergey Novozhilov

2

1 reference

29 July 2017

Sarah S Saminadin-Peter

3

1 reference

29 July 2017

Karen M Wong

4

1 reference

29 July 2017

11 February 2010

1 reference

Molecular Biology and Evolution

29 July 2017

1 reference

29 July 2017

27

1 reference

29 July 2017

6

1 reference

29 July 2017

1226-1234

1 reference

29 July 2017

Selection on Codon Bias

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Conflicting selection pressures on synonymous codon use in yeast suggest selection on mRNA secondary structures

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Positive and negative selection on noncoding DNA in Drosophila simulans

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Effects of X-linkage and sex-biased gene expression on the rate of adaptive protein evolution in Drosophila

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Evolution of genes and genomes on the Drosophila phylogeny

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Widely distributed noncoding purifying selection in the human genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

PAML 4: phylogenetic analysis by maximum likelihood

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Prevalence of positive selection among nearly neutral amino acid replacements in Drosophila

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Adaptive genic evolution in the Drosophila genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Reduced efficacy of selection in regions of the Drosophila genome that lack crossing over

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Synonymous codon usage in Escherichia coli: selection for translational accuracy.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Selection, recombination and demographic history in Drosophila miranda

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

The recent demographic and adaptive history of Drosophila melanogaster

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Widespread adaptive evolution of Drosophila genes with sex-biased expression

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Ubiquitous selective constraints in the Drosophila genome revealed by a genome-wide interspecies comparison

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Estimating the genomewide rate of adaptive protein evolution in Drosophila

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Patterns of intron sequence evolution in Drosophila are dependent upon length and GC content

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Multilocus patterns of nucleotide variability and the demographic and selection history of Drosophila melanogaster populations

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Intron size and exon evolution in Drosophila

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Population structure in African Drosophila melanogaster revealed by microsatellite analysis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Insertion/deletion and nucleotide polymorphism data reveal constraints in Drosophila melanogaster introns and intergenic regions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Identification of a locus under complex positive selection in Drosophila simulans by haplotype mapping and composite-likelihood estimation.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Pleiotropic effect of disrupting a conserved sequence involved in a long-range compensatory interaction in the Drosophila Adh gene

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Selective constraints on intron evolution in Drosophila

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Demography and natural selection have shaped genetic variation in Drosophila melanogaster: a multi-locus approach

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

In vivo introduction of unpreferred synonymous codons into the Drosophila Adh gene results in reduced levels of ADH protein

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Changing effective population size and the McDonald-Kreitman test

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

How intron splicing affects the deletion and insertion profile in Drosophila melanogaster

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Minimal introns are not "junk".

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Adaptive protein evolution in Drosophila

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Analysis of conserved noncoding DNA in Drosophila reveals similar constraints in intergenic and intronic sequences.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Positive and negative selection on the human genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Selective constraint in intergenic regions of human and mouse genomes.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

The correlation between intron length and recombination in drosophila. Dynamic equilibrium between mutational and selective forces.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Codon-substitution models for heterogeneous selection pressure at amino acid sites

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Intron-exon structures of eukaryotic model organisms

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

The nonrandom location of synonymous codons suggests that reading frame-independent forces have patterned codon preferences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

High genomic deleterious mutation rates in hominids

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Site-directed mutations reveal long-range compensatory interactions in the Adh gene of Drosophila melanogaster

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Population genetics of silent and replacement variation in Drosophila simulans and D. melanogaster: X/autosome differences?

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

A molecular approach to estimating the human deleterious mutation rate.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Synonymous codon usage in Drosophila melanogaster: natural selection and translational accuracy.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Molecular evolution of the metallothionein gene Mtn in the melanogaster species group: results from Drosophila ananassae

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Inferring weak selection from patterns of polymorphism and divergence at "silent" sites in Drosophila DNA.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Statistical method for testing the neutral mutation hypothesis by DNA polymorphism

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Adaptive protein evolution at the Adh locus in Drosophila

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Splicing signals in Drosophila: intron size, information content, and consensus sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

On the number of segregating sites in genetical models without recombination

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Adaptive evolution of non-coding DNA in Drosophila

5 July 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSQ046

The genomic rate of adaptive amino acid substitution in Drosophila.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSQ046

The cost of inbreeding in Arabidopsis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSQ046

Intron size and natural selection

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSQ046

Purifying selection maintains highly conserved noncoding sequences in Drosophila.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSQ046

The McDonald-Kreitman test and slightly deleterious mutations.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSQ046

Conserved noncoding sequences are selectively constrained and not mutation cold spots

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSQ046

The influence of demography and weak selection on the McDonald-Kreitman test: an empirical study in Drosophila.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSQ046

Intron length evolution in Drosophila.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSQ046

Controlling type-I error of the McDonald-Kreitman test in genomewide scans for selection on noncoding DNA.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Inference of positive and negative selection on the 5' regulatory regions of Drosophila genes

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877998

Evidence for Purifying Selection Against Synonymous Mutations in Mammalian Exonic Splicing Enhancers

29 October 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSQ046

Molecular population genetics of sequence length diversity in the Adh region of Drosophila pseudoobscura

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20150340

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Pattern of selective constraint in C. elegans and C. briggsae genomes

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20150340

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/MOLBEV/MSQ046

1 reference

29 July 2017

1 reference

29 July 2017

1 reference