Molecular adaptation of telomere associated genes in mammals (Q35044415)

6 August 2017

Molecular adaptation of telomere associated genes in mammals (English)

1 reference

6 August 2017

Emma C Teeling

6

0 references

Charles Spillane

object named as

Charles Spillane

5

0 references

author name string

Claire C Morgan

1

1 reference

6 August 2017

Ann M Mc Cartney

2

1 reference

6 August 2017

Mark T A Donoghue

3

1 reference

6 August 2017

Noeleen B Loughran

4

1 reference

6 August 2017

Mary J O'Connell

7

1 reference

6 August 2017

15 November 2013

1 reference

full work available at URL

6 August 2017

http://eprints.whiterose.ac.uk/103537/

content deliverer

White Rose Research Online

0 references

published in

BMC Evolutionary Biology

1 reference

6 August 2017

13

1 reference

6 August 2017

251

1 reference

https://scigraph.springernature.com/pub.10.1186/1471-2148-13-251

6 August 2017

0 references

cites work

Heterogeneous models place the root of the placental mammal phylogeny

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

The branch-site test of positive selection is surprisingly robust but lacks power under synonymous substitution saturation and variation in GC

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Comparative analysis of bat genomes provides insight into the evolution of flight and immunity

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Colon cancer associated genes exhibit signatures of positive selection at functionally significant positions

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Functional consequence of positive selection revealed through rational mutagenesis of human myeloperoxidase

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Opsin gene duplication and divergence in ray-finned fish

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Genome sequencing reveals insights into physiology and longevity of the naked mole rat

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Impacts of the Cretaceous Terrestrial Revolution and KPg extinction on mammal diversification

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Comparative biology of mammalian telomeres: hypotheses on ancestral states and the roles of telomeres in longevity determination

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

RDP3: a flexible and fast computer program for analyzing recombination

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Comparison of the structures and peptide binding specificities of the BRCT domains of MDC1 and BRCA1

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Positive selection neighboring functionally essential sites and disease-implicated regions of mammalian reproductive proteins

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Methusaleh's Zoo: how nature provides us with clues for extending human health span

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

SNP@Evolution: a hierarchical database of positive selection on the human genome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

A database of vertebrate longevity records and their relation to other life-history traits

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Patterns of positive selection in six Mammalian genomes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Phylogeny-aware gap placement prevents errors in sequence alignment and evolutionary analysis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Recent developments in the MAFFT multiple sequence alignment program

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Negligible senescence in the longest living rodent, the naked mole-rat: insights from a successfully aging species

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Adaptive evolution of conserved noncoding elements in mammals

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Adaptation or biased gene conversion? Extending the null hypothesis of molecular evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

An exact nonparametric method for inferring mosaic structure in sequence triplets

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

An analysis of the relationship between metabolism, developmental schedules, and longevity using phylogenetic independent contrasts

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Characterization of physical and functional anchor site interactions in human telomerase

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Tracking the connection between evolutionary and functional shifts using the fungal lipase/feruloyl esterase A family

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Refining multiple sequence alignments with conserved core regions

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

The spectrum of WRN mutations in Werner syndrome patients

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

A map of recent positive selection in the human genome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Disruption of BRCA1 function results in telomere lengthening and increased anaphase bridge formation in immortalized cell lines

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Telomeres and human disease: ageing, cancer and beyond

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Evaluation of an improved branch-site likelihood method for detecting positive selection at the molecular level

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Telomere attrition as ageing biomarker

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Diverse aging rates in metazoans: targets for functional genomics

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

MUSCLE: a multiple sequence alignment method with reduced time and space complexity

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Ageing studies on bats: a review

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Essential role of limiting telomeres in the pathogenesis of Werner syndrome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Dyskeratosis congenita and telomerase

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Evaluation of methods for detecting recombination from DNA sequences: empirical data

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

CONSEL: for assessing the confidence of phylogenetic tree selection

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Evaluation of methods for detecting recombination from DNA sequences: computer simulations

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

The RNA component of telomerase is mutated in autosomal dominant dyskeratosis congenita

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

MRBAYES: Bayesian inference of phylogenetic trees

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Does recombination improve selection on codon usage? Lessons from nematode and fly complete genomes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Evolutionary theories of ageing applied to long-lived organisms

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Recombination within natural populations of pathogenic bacteria: short-term empirical estimates and long-term phylogenetic consequences

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Morphological castes in a vertebrate

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

The evolutionary fate and consequences of duplicate genes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Sister-scanning: a Monte Carlo procedure for assessing signals in recombinant sequences

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Telomere dysfunction impairs DNA repair and enhances sensitivity to ionizing radiation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

A telomerase component is defective in the human disease dyskeratosis congenita

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Parenting and survival in anthropoid primates: caretakers live longer

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

X-linked dyskeratosis congenita is caused by mutations in a highly conserved gene with putative nucleolar functions

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Phylogenetic profiles: a graphical method for detecting genetic recombinations in homologous sequences.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Human telomerase contains evolutionarily conserved catalytic and structural subunits

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

PAML: a program package for phylogenetic analysis by maximum likelihood

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Telomeres in the mouse have large inter-chromosomal variations in the number of T2AG3 repeats

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Mammalian aging, metabolism, and ecology: evidence from the bats and marsupials.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Analyzing the mosaic structure of genes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Positive selection drives a correlation between non-synonymous/synonymous divergence and functional divergence

8 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-251

dN/dS-based methods detect positive selection linked to trade-offs between different fitness traits in the coat protein of potato virus Y.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-251

Models of amino acid substitution and applications to mitochondrial protein evolution.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-251

A codon-based model of host-specific selection in parasites, with an application to the influenza A virus

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-251

An improved likelihood ratio test for detecting site-specific functional divergence among clades of protein-coding genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-251

Looking for Darwin in genomic sequences--validity and success of statistical methods.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-251

Phylogenetic patterns of GC-biased gene conversion in placental mammals and the evolutionary dynamics of recombination landscapes

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-251

RASCAL: rapid scanning and correction of multiple sequence alignments.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-251

RDP: detection of recombination amongst aligned sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-251

Genotyping, gene genealogies and genomics bring fungal population genetics above ground.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

The evolution of genetic networks by non-adaptive processes.

25 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

A maximum likelihood method for detecting functional divergence at individual codon sites, with application to gene family evolution

25 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Missense mutation in a patient with X-linked dyskeratosis congenita

25 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

Genomic divergence between human and chimpanzee estimated from large-scale alignments of genomic sequences.

25 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3833184

AQUA: automated quality improvement for multiple sequence alignments

25 October 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-251

Likelihood-ratio tests for positive selection of human and mouse duplicate genes reveal nonconservative and anomalous properties of widely used methods

21 January 2018

1 reference

12 December 2020

Recombination and positive selection contribute to evolution of Listeria monocytogenes inlA

1 reference

12 December 2020

Towards a reliable objective function for multiple sequence alignments

1 reference

12 December 2020

Recent mammalian gene duplications: robust search for functionally divergent gene pairs

1 reference

12 December 2020

Possible emergence of new geminiviruses by frequent recombination

1 reference

12 December 2020

Identifiers

DOI

10.1186/1471-2148-13-251

1 reference

Dimensions Publication ID

6 August 2017

10.1186/1471-2148-13-251

0 references

CORE ID

81284353

0 references

0 references

1 reference

6 August 2017

1 reference