Evolution of genome architecture (Q33377709)

26 July 2017

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title

Evolution of genome architecture (English)

1 reference

26 July 2017

Eugene V Koonin

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26 July 2017

language of work or name

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26 September 2008

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International Journal of Biochemistry & Cell Biology

26 July 2017

published in

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26 July 2017

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26 July 2017

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26 July 2017

page(s)

298-306

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Intronic noncoding RNAs and splicing.

26 July 2017

cites work

1 reference

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Extremely intron-rich genes in the alveolate ancestors inferred with a flexible maximum-likelihood approach

21 June 2018

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Evolutionary dynamics of nematode operons: easy come, slow go.

21 June 2018

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Coexpression, coregulation, and cofunctionality of neighboring genes in eukaryotic genomes

21 June 2018

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Complete genome sequence of the myxobacterium Sorangium cellulosum

21 June 2018

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The evolution of resistance genes in multi-protein plant resistance systems

21 June 2018

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Patterns of intron gain and conservation in eukaryotic genes

21 June 2018

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The Chlamydomonas genome reveals the evolution of key animal and plant functions

21 June 2018

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A statistical analysis of the three-fold evolution of genomic compression through frame overlaps in prokaryotes

21 June 2018

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Eukaryote evolution: engulfed by speculation

21 June 2018

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Three distinct modes of intron dynamics in the evolution of eukaryotes

21 June 2018

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The frailty of adaptive hypotheses for the origins of organismal complexity

21 June 2018

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DNA replication initiation: mechanisms and regulation in bacteria

21 June 2018

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Draft genome sequence of the sexually transmitted pathogen Trichomonas vaginalis

21 June 2018

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Operon conservation and the evolution of trans-splicing in the phylum Nematoda

21 June 2018

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The lactose repressor system: paradigms for regulation, allosteric behavior and protein folding

21 June 2018

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The 160-Kilobase Genome of the Bacterial Endosymbiont Carsonella

21 June 2018

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Evolutionary relationships of vertebrate NACHT domain-containing proteins

21 June 2018

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Minimal ProtoHox cluster inferred from bilaterian and cnidarian Hox complements

21 June 2018

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The cnidarian-bilaterian ancestor possessed at least 56 homeoboxes: evidence from the starlet sea anemone, Nematostella vectensis

21 June 2018

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21 June 2018

Intron-rich ancestors

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Hox genes are not always Colinear.

21 June 2018

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Genomics and the irreducible nature of eukaryote cells

21 June 2018

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Evolutionary dynamics of olfactory and other chemosensory receptor genes in vertebrates

21 June 2018

1 reference

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Eukaryotic evolution, changes and challenges

21 June 2018

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A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with eukaryotic RNAi, and hypothetical mechanisms of action

21 June 2018

1 reference

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Introns and the origin of nucleus-cytosol compartmentalization

21 June 2018

1 reference

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Evolutionary genomics of nucleo-cytoplasmic large DNA viruses

21 June 2018

1 reference

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The evolution of spliceosomal introns: patterns, puzzles and progress

21 June 2018

1 reference

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Detecting overlapping coding sequences in virus genomes

21 June 2018

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A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes

21 June 2018

1 reference

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Concerted and birth-and-death evolution of multigene families

21 June 2018

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The role of chromatin structure in regulating the expression of clustered genes.

21 June 2018

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The genetic organization of chromosomes

21 June 2018

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Nested genes in the human genome

21 June 2018

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Features of MHC and NK gene clusters

21 June 2018

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Consistency of genome-based methods in measuring Metazoan evolution

21 June 2018

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Virology: Gulliver among the Lilliputians

21 June 2018

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Comparative evolutionary analysis of olfactory receptor gene clusters between humans and mice

21 June 2018

1 reference

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Complex spliceosomal organization ancestral to extant eukaryotes

21 June 2018

1 reference

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21 June 2018

Operons in eukaryotes

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Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution

21 June 2018

1 reference

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The 1.2-megabase genome sequence of Mimivirus

21 June 2018

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Analysis of genomic context: prediction of functional associations from conserved bidirectionally transcribed gene pairs

21 June 2018

1 reference

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The replication-related organization of bacterial genomes.

21 June 2018

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Coexpression of neighboring genes in the genome of Arabidopsis thaliana

21 June 2018

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The evolutionary dynamics of eukaryotic gene order

21 June 2018

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Genome sequence of the Brown Norway rat yields insights into mammalian evolution

21 June 2018

1 reference

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Evolution of the Hox/ParaHox gene clusters.

21 June 2018

1 reference

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Inter-species differences of co-expression of neighboring genes in eukaryotic genomes

21 June 2018

1 reference

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The origins of genome complexity

21 June 2018

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Gene essentiality determines chromosome organisation in bacteria

21 June 2018

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Gene Organization: Selection, Selfishness, and Serendipity

21 June 2018

1 reference

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Involvement of RNA in the synthesis of proteins

21 June 2018

1 reference

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Genetic regulatory mechanisms in the synthesis of proteins

21 June 2018

2 references

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21 June 2018

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Remarkable interkingdom conservation of intron positions and massive, lineage-specific intron loss and gain in eukaryotic evolution

31 October 2018

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The human transcriptome map reveals extremes in gene density, intron length, GC content, and repeat pattern for domains of highly and weakly expressed genes

21 June 2018

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Dosage sensitivity and the evolution of gene families in yeast

21 June 2018

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A quantitative analysis of intron effects on mammalian gene expression

21 June 2018

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Genomic gene clustering analysis of pathways in eukaryotes

21 June 2018

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Coexpression of neighboring genes in Caenorhabditis elegans is mostly due to operons and duplicate genes

21 June 2018

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Caenorhabditis elegans operons: form and function

21 June 2018

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Origin of a substantial fraction of human regulatory sequences from transposable elements

21 June 2018

1 reference

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Large clusters of co-expressed genes in the Drosophila genome.

21 June 2018

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Large-scale comparison of intron positions among animal, plant, and fungal genes

21 June 2018

1 reference

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Congruent evolution of different classes of non-coding DNA in prokaryotic genomes

21 June 2018

1 reference

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Chromosomal clustering of muscle-expressed genes in Caenorhabditis elegans

21 June 2018

1 reference

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Evidence for large domains of similarly expressed genes in the Drosophila genome

21 June 2018

1 reference

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Purifying and directional selection in overlapping prokaryotic genes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Connected gene neighborhoods in prokaryotic genomes

21 June 2018

1 reference

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Life without transcriptional control? From fly to man and back again

21 June 2018

1 reference

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An extensive network of coupling among gene expression machines

21 June 2018

1 reference

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Introns in protein-coding genes in Archaea

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

The complete genome of the crenarchaeon Sulfolobus solfataricus P2

21 June 2018

1 reference

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Evolution of gene order conservation in prokaryotes

21 June 2018

1 reference

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Chromosome territories, nuclear architecture and gene regulation in mammalian cells

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Ancient origin of the Hox gene cluster

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

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

21 June 2018

1 reference

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The human transcriptome map: clustering of highly expressed genes in chromosomal domains

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Evidence for symmetric chromosomal inversions around the replication origin in bacteria

21 June 2018

1 reference

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Genomic scrap yard: how genomes utilize all that junk

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Prediction of the archaeal exosome and its connections with the proteasome and the translation and transcription machineries by a comparative-genomic approach

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Gene context conservation of a higher order than operons.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Genome rearrangement by replication-directed translocation

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

A computational analysis of whole-genome expression data reveals chromosomal domains of gene expression

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Operons in Escherichia coli: genomic analyses and predictions

21 June 2018

1 reference

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Selfish operons: the evolutionary impact of gene clustering in prokaryotes and eukaryotes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

The recent origins of spliceosomal introns revisited

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

A comprehensive, high-resolution genomic transcript map of human skeletal muscle

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

A genome-wide transcriptional analysis of the mitotic cell cycle

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

A genomic perspective on protein families

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Selfish operons and speciation by gene transfer

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Selfish operons: horizontal transfer may drive the evolution of gene clusters

21 June 2018

1 reference

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Sequencing and analysis of bacterial genomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

When polymerases collide: replication and the transcriptional organization of the E. coli chromosome

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Complete nucleotide sequence of bacteriophage MS2 RNA: primary and secondary structure of the replicase gene

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Genetics of bacterial ribosomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

The urbilaterian Super-Hox cluster.

21 June 2018

1 reference

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The NK homeobox gene cluster predates the origin of Hox genes

31 October 2018

1 reference

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Organisation of the S10, spc and alpha ribosomal protein gene clusters in prokaryotic genomes

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Essentiality, not expressiveness, drives gene-strand bias in bacteria.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

A powerful non-homology method for the prediction of operons in prokaryotes

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Evolutionary instability of operon structures disclosed by sequence comparisons of complete microbial genomes.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Quantification of insect genome divergence

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3272702

Gene order is not conserved in bacterial evolution

31 October 2018

1 reference

12 December 2020

THE NATURE OF THE INTERMOLECULAR FORCES OPERATIVE IN BIOLOGICAL PROCESSES

1 reference

12 December 2020

Evolutionary Origin and Maintenance of Coexpressed Gene Clusters in Mammals

1 reference

12 December 2020

Transposable elements as a significant source of transcription regulating signals

1 reference

12 December 2020

10.1016/J.BIOCEL.2008.09.015

Identifiers

DOI

1 reference

26 July 2017

1 reference

26 July 2017

1 reference