(Q24797719)

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Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes

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Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes (English)

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horizontal gene transfer

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4

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Michael Y. Galperin

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Michael Y Galperin

3

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author name string

Boris G Mirkin

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Trevor I Fenner

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publication date

6 January 2003

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BMC Evolutionary Biology

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3

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1

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2

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The process of genome shrinkage in the obligate symbiont Buchnera aphidicola

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Genome trees constructed using five different approaches suggest new major bacterial clades

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Two C or not two C: recurrent disruption of Zn-ribbons, gene duplication, lineage-specific gene loss, and horizontal gene transfer in evolution of bacterial ribosomal proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

The COG database: new developments in phylogenetic classification of proteins from complete genomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Aminoacyl-tRNA synthetases, the genetic code, and the evolutionary process

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Archaea and the prokaryote-to-eukaryote transition

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

The winds of (evolutionary) change: breathing new life into microbiology

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Bacterial evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Crystal structure of reverse gyrase: insights into the positive supercoiling of DNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

The Last Universal Common Ancestor (LUCA), Simple or Complex?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

A Genomic Perspective on Protein Families

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Classification and evolution of P-loop GTPases and related ATPases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Phylogenetic classification and the universal tree

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Prokaryotic evolution in light of gene transfer

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Mechanisms of evolution in Rickettsia conorii and R. prowazekii

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Horizontal gene transfer in prokaryotes: quantification and classification

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Genome phylogeny based on gene content

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Conservation of gene order: a fingerprint of proteins that physically interact

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

7 April 2017

Evolutionary relationship of archaebacteria, eubacteria, and eukaryotes inferred from phylogenetic trees of duplicated genes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

9 May 2017

Genome trees and the tree of life

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Critical issues in bacterial phylogeny

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Trends in protein evolution inferred from sequence and structure analysis.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Inferring genome trees by using a filter to eliminate phylogenetically discordant sequences and a distance matrix based on mean normalized BLASTP scores

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

How many genes can make a cell: the minimal-gene-set concept

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Detection of lateral gene transfer among microbial genomes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

On surrogate methods for detecting lateral gene transfer

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Universal trees based on large combined protein sequence data sets.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Something for everyone. Horizontal gene transfer in evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Genome alignment, evolution of prokaryotic genome organization, and prediction of gene function using genomic context

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Whole-genome trees based on the occurrence of folds and orthologs: implications for comparing genomes on different levels

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Orthologs, paralogs and genome comparisons

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Whole genome-based phylogenetic analysis of free-living microorganisms

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Evolution of aminoacyl-tRNA synthetases--analysis of unique domain architectures and phylogenetic trees reveals a complex history of horizontal gene transfer events.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Did DNA replication evolve twice independently?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

The genomic tree as revealed from whole proteome comparisons

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Variation and evolution of the citric-acid cycle: a genomic perspective.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Universally conserved translation initiation factors

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Comparison of archaeal and bacterial genomes: computer analysis of protein sequences predicts novel functions and suggests a chimeric origin for the archaea

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Selfish operons and speciation by gene transfer

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Comparative analysis of the genomes of the bacteria Mycoplasma pneumoniae and Mycoplasma genitalium

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Reconstruction of ancient molecular phylogeny

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Protein-based phylogenies support a chimeric origin for the eukaryotic genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

Evolution of the vacuolar H -ATPase: implications for the origin of eukaryotes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 September 2017

DNA repair systems in archaea: mementos from the last universal common ancestor?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

30 May 2018

On a Mirkin-Muchnik-Smith Conjecture for Comparing Molecular Phylogenies

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

30 May 2018

Horizontal transfer of ATPase genes--the tree of life becomes a net of life

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

30 May 2018

Genome plasticity as a paradigm of eubacteria evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

30 May 2018

Archaeal phylogeny based on ribosomal proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 November 2018

Genomics and early cellular evolution. The origin of the DNA world.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 November 2018

Genomes in Flux: The Evolution of Archaeal and Proteobacterial Gene Content

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 November 2018

Eubacterial phylogeny based on translational apparatus proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 November 2018

The universal ancestor was a thermophile or a hyperthermophile

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 November 2018

Genome size reduction through multiple events of gene disintegration in Buchnera APS.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 November 2018

Looking for the most "primitive" organism(s) on Earth today: the state of the art.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 November 2018

Evolutionary anomalies among the aminoacyl-tRNA synthetases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 November 2018

Duplication-Based Measures of Difference Between Gene and Species Trees

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 November 2018

A biologically consistent model for comparing molecular phylogenies.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=149225

28 November 2018

Is it time to uproot the tree of life?

1 reference

https://pubmed.ncbi.nlm.nih.gov/12515582

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Lateral genomics

1 reference

https://pubmed.ncbi.nlm.nih.gov/12515582

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The evolutionary history of ribosomal protein RpS14: horizontal gene transfer at the heart of the ribosome

1 reference

https://pubmed.ncbi.nlm.nih.gov/12515582

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

SHOT: a web server for the construction of genome phylogenies

1 reference

https://pubmed.ncbi.nlm.nih.gov/12515582

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A hot story from comparative genomics: reverse gyrase is the only hyperthermophile-specific protein

1 reference

https://pubmed.ncbi.nlm.nih.gov/12515582

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Universal tree of life

1 reference

https://pubmed.ncbi.nlm.nih.gov/12515582

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Gene order is not conserved in bacterial evolution

1 reference

https://pubmed.ncbi.nlm.nih.gov/12515582

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Non-orthologous gene displacement

1 reference

https://pubmed.ncbi.nlm.nih.gov/12515582

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The origin of the eukaryotic cell

1 reference

https://pubmed.ncbi.nlm.nih.gov/12515582

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Genome Data Shake Tree of Life

1 reference

https://pubmed.ncbi.nlm.nih.gov/12515582

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evidence for massive gene exchange between archaeal and bacterial hyperthermophiles

1 reference

https://pubmed.ncbi.nlm.nih.gov/12515582

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1186/1471-2148-3-2

1 reference

Consolidated OpenCitations Corpus – April 2017

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OpenCitations bibliographic resource ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

PMC publication ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

PubMed publication ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

ResearchGate publication ID

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