4.7 Review

The evolutionary origin of orphan genes

Related references

Note: Only part of the references are listed.
Editorial Material Biochemistry & Molecular Biology

Lateral gene transfer

Olga Zhaxybayeva et al.

CURRENT BIOLOGY (2011)

Article Biochemistry & Molecular Biology

Protein disorder - a breakthrough invention of evolution?

Avner Schlessinger et al.

CURRENT OPINION IN STRUCTURAL BIOLOGY (2011)

Review Genetics & Heredity

APPLICATIONS OF NEXT-GENERATION SEQUENCING Genome structural variation discovery and genotyping

Can Alkan et al.

NATURE REVIEWS GENETICS (2011)

Article Multidisciplinary Sciences

The Ecoresponsive Genome of Daphnia pulex

John K. Colbourne et al.

SCIENCE (2011)

Article Biochemistry & Molecular Biology

Intrinsically disordered chaperones in plants and animals

Peter Tompa et al.

BIOCHEMISTRY AND CELL BIOLOGY-BIOCHIMIE ET BIOLOGIE CELLULAIRE (2010)

Review Biochemistry & Molecular Biology

How do new proteins arise?

Erich Bornberg-Bauer et al.

CURRENT OPINION IN STRUCTURAL BIOLOGY (2010)

Article Genetics & Heredity

RNA Dust: Where are the Genes?

Piero Carninci

DNA RESEARCH (2010)

Article Evolutionary Biology

Relaxed Purifying Selection and Possibly High Rate of Adaptation in Primate Lineage-Specific Genes

James J. Cai et al.

GENOME BIOLOGY AND EVOLUTION (2010)

Article Biochemistry & Molecular Biology

Young proteins experience more variable selection pressures than old proteins

Anchal Vishnoi et al.

GENOME RESEARCH (2010)

Review Biochemistry & Molecular Biology

Origins, evolution, and phenotypic impact of new genes

Henrik Kaessmann

GENOME RESEARCH (2010)

Article Biochemistry & Molecular Biology

Identifying and Quantifying Orphan Protein Sequences in Fungi

Diana Ekman et al.

JOURNAL OF MOLECULAR BIOLOGY (2010)

Article Multidisciplinary Sciences

A phylogenetically based transcriptome age index mirrors ontogenetic divergence patterns

Tomislav Domazet-Loso et al.

NATURE (2010)

Article Multidisciplinary Sciences

New Genes in Drosophila Quickly Become Essential

Sidi Chen et al.

SCIENCE (2010)

Article Biochemical Research Methods

A Human-Specific De Novo Protein-Coding Gene Associated with Human Brain Functions

Chuan-Yun Li et al.

PLOS COMPUTATIONAL BIOLOGY (2010)

Article Biochemical Research Methods

Expansion of the Protein Repertoire in Newly Explored Environments: Human Gut Microbiome Specific Protein Families

Kyle Ellrott et al.

PLOS COMPUTATIONAL BIOLOGY (2010)

Article Biotechnology & Applied Microbiology

Novel genes exhibit distinct patterns of function acquisition and network integration

John A. Capra et al.

GENOME BIOLOGY (2010)

Article Biotechnology & Applied Microbiology

Quantifying the mechanisms of domain gain in animal proteins

Marija Buljan et al.

GENOME BIOLOGY (2010)

Review Biochemistry & Molecular Biology

The life and death of gene families

Jeffery P. Demuth et al.

BIOESSAYS (2009)

Article Biochemistry & Molecular Biology

Emergence of a New Gene from an Intergenic Region

Tobias J. A. J. Heinen et al.

CURRENT BIOLOGY (2009)

Article Biochemistry & Molecular Biology

Darwinian alchemy: Human genes from noncoding DNA

Adam Siepel

GENOME RESEARCH (2009)

Article Biochemistry & Molecular Biology

Recent de novo origin of human protein-coding genes

David G. Knowles et al.

GENOME RESEARCH (2009)

Article Biochemistry & Molecular Biology

Origin of Primate Orphan Genes: A Comparative Genomics Approach

Macarena Toll-Riera et al.

MOLECULAR BIOLOGY AND EVOLUTION (2009)

Review Genetics & Heredity

Long non-coding RNAs: insights into functions

Tim R. Mercer et al.

NATURE REVIEWS GENETICS (2009)

Review Genetics & Heredity

RNA-based gene duplication: mechanistic and evolutionary insights

Henrik Kaessmann et al.

NATURE REVIEWS GENETICS (2009)

Article Multidisciplinary Sciences

Nature of the protein universe

Michael Levitt

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)

Article Multidisciplinary Sciences

The universal distribution of evolutionary rates of genes and distinct characteristics of eukaryotic genes of different apparent ages

Yuri I. Wolf et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)

Article Multidisciplinary Sciences

Rosid radiation and the rapid rise of angiosperm-dominated forests

Hengchang Wang et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)

Review Genetics & Heredity

More than just orphans: are taxonomically-restricted genes important in evolution?

Konstantin Khalturin et al.

TRENDS IN GENETICS (2009)

Article Biotechnology & Applied Microbiology

Identification and investigation of ORFans in the viral world

Yanbin Yin et al.

BMC GENOMICS (2008)

Article Biochemical Research Methods

Pfam 10 years on: 10 000 families and still growing

Stephen John Sammut et al.

BRIEFINGS IN BIOINFORMATICS (2008)

Article Biochemistry & Molecular Biology

Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution

D. Allan Drummond et al.

Article Biochemistry & Molecular Biology

On the origin of new genes in Drosophila

Qi Zhou et al.

GENOME RESEARCH (2008)

Review Biochemistry & Molecular Biology

On the origin and evolution of new genes-a genomic and experimental perspective

Qi Zhou et al.

JOURNAL OF GENETICS AND GENOMICS (2008)

Review Genetics & Heredity

Horizontal gene transfer in eukaryotic evolution

Patrick J. Keeling et al.

NATURE REVIEWS GENETICS (2008)

Review Genetics & Heredity

Turning a hobby into a job: How duplicated genes find new functions

Gavin C. Conant et al.

NATURE REVIEWS GENETICS (2008)

Article Biochemical Research Methods

Structural features and the persistence of acquired proteins

Hema Prasad Narra et al.

PROTEOMICS (2008)

Article Biochemistry & Molecular Biology

A Novel Gene Family Controls Species-Specific Morphological Traits in Hydra

Konstantin Khalturin et al.

PLOS BIOLOGY (2008)

Article Biochemistry & Molecular Biology

MALISAM: a database of structurally analogous motifs in proteins

Hua Cheng et al.

NUCLEIC ACIDS RESEARCH (2008)

Article Genetics & Heredity

A phylostratigraphy approach to uncover the genomic history of major adaptations in metazoan lineages

Tomislav Domazet-Loso et al.

TRENDS IN GENETICS (2007)

Article Biochemistry & Molecular Biology

Molecular principles of the interactions of disordered proteins

Balint Meszaros et al.

JOURNAL OF MOLECULAR BIOLOGY (2007)

Article Evolutionary Biology

On homology searches by protein Blast and the characterization of the age of genes

M. Mar Alba et al.

BMC EVOLUTIONARY BIOLOGY (2007)

Article Biochemistry & Molecular Biology

Gene loss rate: a probabilistic measure for the conservation of eukaryotic genes

Elhanan Borenstein et al.

NUCLEIC ACIDS RESEARCH (2007)

Review Biochemistry & Molecular Biology

The Sorcerer II Global Ocean Sampling expedition: Expanding the universe of protein families

Shibu Yooseph et al.

PLOS BIOLOGY (2007)

Article Biochemical Research Methods

TimeTree: a public knowledge-base of divergence times among organisms

S. Blair Hedges et al.

BIOINFORMATICS (2006)

Article Biochemistry & Molecular Biology

The MPI Bioinformatics toolkit for protein sequence analysis

Andreas Biegert et al.

NUCLEIC ACIDS RESEARCH (2006)

Article Biochemistry & Molecular Biology

Accelerated evolutionary rate may be responsible for the emergence of lineage-specific genes in Ascomycota

James J. Cai et al.

JOURNAL OF MOLECULAR EVOLUTION (2006)

Article Multidisciplinary Sciences

Novel genes derived from noncoding DNA in Drosophila melanogaster are frequently X-linked and exhibit testis-biased expression

Mia T. Levine et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Review Genetics & Heredity

An integrated view of protein evolution

C Pál et al.

NATURE REVIEWS GENETICS (2006)

Article Multidisciplinary Sciences

On the origin and highly likely completeness of single-domain protein structures

Y Zhang et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Article Biochemistry & Molecular Biology

A single determinant dominates the rate of yeast protein evolution

DA Drummond et al.

MOLECULAR BIOLOGY AND EVOLUTION (2006)

Article Biochemistry & Molecular Biology

Identification and distribution of protein families in 120 completed genomes using Gene3D

D Lee et al.

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2005)

Article Multidisciplinary Sciences

Functional genomic analysis of the rates of protein evolution

DP Wall et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)

Review Cell Biology

Intrinsically unstructured proteins and their functions

HJ Dyson et al.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2005)

Article Biochemistry & Molecular Biology

Inverse relationship between evolutionary rate and age of mammalian genes

MM Albà et al.

MOLECULAR BIOLOGY AND EVOLUTION (2005)

Review Biochemistry & Molecular Biology

Protein families and their evolution - A structural perspective

CA Orengo et al.

ANNUAL REVIEW OF BIOCHEMISTRY (2005)

Article Biochemistry & Molecular Biology

Structural biology sheds light on the puzzle genomic ORFans

N Siew et al.

JOURNAL OF MOLECULAR BIOLOGY (2004)

Article Biochemistry & Molecular Biology

An evolutionary analysis of orphan genes in Drosophila

T Domazet-Loso et al.

GENOME RESEARCH (2003)

Review Biochemistry & Molecular Biology

More than the sum of their parts:: on the evolution of proteins from peptides

J Söding et al.

BIOESSAYS (2003)

Review Ecology

Evolution by gene duplication: an update

JZ Zhang

TRENDS IN ECOLOGY & EVOLUTION (2003)

Review Genetics & Heredity

The origin of new genes: Glimpses from the young and old

M Long et al.

NATURE REVIEWS GENETICS (2003)

Letter Biotechnology & Applied Microbiology

Myriads of protein families, and still counting

V Kunin et al.

GENOME BIOLOGY (2003)

Article Evolutionary Biology

The relationship of protein conservation and sequence length

David J. Lipman et al.

BMC EVOLUTIONARY BIOLOGY (2002)

Article Biochemistry & Molecular Biology

Signatures of domain shuffling in the human genome

H Kaessmann et al.

GENOME RESEARCH (2002)

Review Multidisciplinary Sciences

Unique chromatin remodeling and transcriptional regulation in spermatogenesis

P Sassone-Corsi

SCIENCE (2002)

Article Multidisciplinary Sciences

Protein dispensability and rate of evolution

AE Hirsh et al.

NATURE (2001)

Article Genetics & Heredity

A genetic uncertainty problem

D Tautz

TRENDS IN GENETICS (2000)

Article Genetics & Heredity

Human LINE retrotransposons generate processed pseudogenes

C Esnault et al.

NATURE GENETICS (2000)