Appendage expression driven by the Hoxd Global Control Region is an ancient gnathostome feature.

PubWeight™: 1.09‹?› | Rank: Top 10%

🔗 View Article (PMC 3150877)

Published in Proc Natl Acad Sci U S A on July 15, 2011

Authors

Igor Schneider1, Ivy Aneas, Andrew R Gehrke, Randall D Dahn, Marcelo A Nobrega, Neil H Shubin

Author Affiliations

1: Department of Organismal Biology and Anatomy, University of Chicago, Chicago, IL 60637, USA.

Articles citing this

Hox genes regulate digit patterning by controlling the wavelength of a Turing-type mechanism. Science (2012) 2.38

Conservation and divergence of regulatory strategies at Hox Loci and the origin of tetrapod digits. PLoS Biol (2014) 1.89

Enhancers as information integration hubs in development: lessons from genomics. Trends Genet (2012) 1.52

Deep conservation of wrist and digit enhancers in fish. Proc Natl Acad Sci U S A (2014) 1.14

Coelacanth genomes reveal signatures for evolutionary transition from water to land. Genome Res (2013) 1.10

Community annotation and bioinformatics workforce development in concert--Little Skate Genome Annotation Workshops and Jamborees. Database (Oxford) (2012) 1.04

Nipbl and mediator cooperatively regulate gene expression to control limb development. PLoS Genet (2014) 0.92

SkateBase, an elasmobranch genome project and collection of molecular resources for chondrichthyan fishes. F1000Res (2014) 0.88

Posterior Hox gene reduction in an arthropod: Ultrabithorax and Abdominal-B are expressed in a single segment in the mite Archegozetes longisetosus. Evodevo (2013) 0.85

The making of differences between fins and limbs. J Anat (2012) 0.85

Organogenesis in deep time: A problem in genomics, development, and paleontology. Proc Natl Acad Sci U S A (2015) 0.82

HoxD expression in the fin-fold compartment of basal gnathostomes and implications for paired appendage evolution. Sci Rep (2016) 0.80

Cis-regulatory programs in the development and evolution of vertebrate paired appendages. Semin Cell Dev Biol (2016) 0.78

Characterization of the heart transcriptome of the white shark (Carcharodon carcharias). BMC Genomics (2013) 0.78

The fin-to-limb transition as the re-organization of a Turing pattern. Nat Commun (2016) 0.78

The origins, scaling and loss of tetrapod digits. Philos Trans R Soc Lond B Biol Sci (2017) 0.77

Characteristic tetrapod musculoskeletal limb phenotype emerged more than 400 MYA in basal lobe-finned fishes. Sci Rep (2016) 0.76

HoxA and HoxD expression in a variety of vertebrate body plan features reveals an ancient origin for the distal Hox program. Evodevo (2014) 0.75

Limb development: a paradigm of gene regulation. Nat Rev Genet (2017) 0.75

Articles cited by this

Stages of embryonic development of the zebrafish. Dev Dyn (1995) 42.72

Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype. Nature (2004) 11.03

A transposon-mediated gene trap approach identifies developmentally regulated genes in zebrafish. Dev Cell (2004) 6.03

A global control region defines a chromosomal regulatory landscape containing the HoxD cluster. Cell (2003) 4.85

Conservation of RET regulatory function from human to zebrafish without sequence similarity. Science (2006) 3.59

Evaluating the biological relevance of putative enhancers using Tol2 transposon-mediated transgenesis in zebrafish. Nat Protoc (2006) 3.57

The pectoral fin of Tiktaalik roseae and the origin of the tetrapod limb. Nature (2006) 3.38

Deep homology and the origins of evolutionary novelty. Nature (2009) 3.31

Survey sequencing and comparative analysis of the elephant shark (Callorhinchus milii) genome. PLoS Biol (2007) 2.90

A dual role for Hox genes in limb anterior-posterior asymmetry. Science (2004) 2.67

Developmental roles of pufferfish Hox clusters and genome evolution in ray-fin fish. Genome Res (2004) 1.74

The pectoral fin of Panderichthys and the origin of digits. Nature (2008) 1.66

An autopodial-like pattern of Hox expression in the fins of a basal actinopterygian fish. Nature (2007) 1.61

Inversion-induced disruption of the Hoxd cluster leads to the partition of regulatory landscapes. Nat Genet (2005) 1.59

Biphasic Hoxd gene expression in shark paired fins reveals an ancient origin of the distal limb domain. PLoS One (2007) 1.49

Elephant shark (Callorhinchus milii) provides insights into the evolution of Hox gene clusters in gnathostomes. Proc Natl Acad Sci U S A (2009) 1.33

Fish fingers: digit homologues in sarcopterygian fish fins. J Exp Zool B Mol Dev Evol (2007) 1.30

Transgenic analysis of Hoxd gene regulation during digit development. Dev Biol (2007) 1.22

Tri-phasic expression of posterior Hox genes during development of pectoral fins in zebrafish: implications for the evolution of vertebrate paired appendages. Dev Biol (2008) 1.19

Ancestral and recently recruited global control of the Hox genes in development. Curr Opin Genet Dev (2007) 1.10

HoxD cluster scanning deletions identify multiple defects leading to paralysis in the mouse mutant Ironside. Genes Dev (2005) 1.07

Genome-wide maps of transcription regulatory elements. Wiley Interdiscip Rev Syst Biol Med (2010) 0.98

Developmental biology. Hox genes in the limb: a play in two acts. Science (2004) 0.89

Articles by these authors

In vivo enhancer analysis of human conserved non-coding sequences. Nature (2006) 10.60

Diversity and complexity in DNA recognition by transcription factors. Science (2009) 9.07

Variation in homeodomain DNA binding revealed by high-resolution analysis of sequence preferences. Cell (2008) 7.93

Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo. EMBO J (2010) 4.78

ECR Browser: a tool for visualizing and accessing data from comparisons of multiple vertebrate genomes. Nucleic Acids Res (2004) 4.53

Comparative genomics at the vertebrate extremes. Nat Rev Genet (2004) 3.50

Shh and Gli3 are dispensable for limb skeleton formation but regulate digit number and identity. Nature (2002) 3.47

A Devonian tetrapod-like fish and the evolution of the tetrapod body plan. Nature (2006) 3.44

Specific DNA-binding by apicomplexan AP2 transcription factors. Proc Natl Acad Sci U S A (2008) 3.10

Evolution and functional classification of vertebrate gene deserts. Genome Res (2004) 2.92

A fine-scale chimpanzee genetic map from population sequencing. Science (2012) 2.83

Predicting tissue-specific enhancers in the human genome. Genome Res (2007) 2.72

Gene expression profiling leads to identification of GLI1-binding elements in target genes and a role for multiple downstream pathways in GLI1-induced cell transformation. J Biol Chem (2001) 2.56

Retinoic acid production by endocardium and epicardium is an injury response essential for zebrafish heart regeneration. Dev Cell (2011) 2.27

An 8q24 gene desert variant associated with prostate cancer risk confers differential in vivo activity to a MYC enhancer. Genome Res (2010) 2.24

Homotypic clusters of transcription factor binding sites are a key component of human promoters and enhancers. Genome Res (2010) 2.12

A molecular pathway including Id2, Tbx5, and Nkx2-5 required for cardiac conduction system development. Cell (2007) 2.12

Genome-wide discovery of human heart enhancers. Genome Res (2010) 1.85

Earliest known crown-group salamanders. Nature (2003) 1.79

LUX ARRHYTHMO encodes a nighttime repressor of circadian gene expression in the Arabidopsis core clock. Curr Biol (2011) 1.78

An autopodial-like pattern of Hox expression in the fins of a basal actinopterygian fish. Nature (2007) 1.61

Transcriptional enhancers in development and disease. Genome Biol (2012) 1.52

Alterations in TCF7L2 expression define its role as a key regulator of glucose metabolism. Genome Res (2011) 1.50

In vivo characterization of a vertebrate ultraconserved enhancer. Genomics (2005) 1.49

Enhancers: five essential questions. Nat Rev Genet (2013) 1.46

Tbx20 regulates a genetic program essential to adult mouse cardiomyocyte function. J Clin Invest (2011) 1.46

Regulatory variation in a TBX5 enhancer leads to isolated congenital heart disease. Hum Mol Genet (2012) 1.34

Sonic hedgehog function in chondrichthyan fins and the evolution of appendage patterning. Nature (2006) 1.32

Behavioral evidence for the evolution of walking and bounding before terrestriality in sarcopterygian fishes. Proc Natl Acad Sci U S A (2011) 1.29

Exploiting human--fish genome comparisons for deciphering gene regulation. Hum Mol Genet (2004) 1.25

The chick oligozeugodactyly (ozd) mutant lacks sonic hedgehog function in the limb. Development (2003) 1.19

A common genetic variant within SCN10A modulates cardiac SCN5A expression. J Clin Invest (2014) 1.17

Transcriptional regulation and stabilization of left-right neuronal identity in C. elegans. Genes Dev (2009) 1.17

FTO-mediated formation of N6-hydroxymethyladenosine and N6-formyladenosine in mammalian RNA. Nat Commun (2013) 1.10

Shared developmental mechanisms pattern the vertebrate gill arch and paired fin skeletons. Proc Natl Acad Sci U S A (2009) 1.09

Dual transcriptional activator and repressor roles of TBX20 regulate adult cardiac structure and function. Hum Mol Genet (2012) 1.08

The origin of the tetrapod limb: from expeditions to enhancers. Trends Genet (2013) 1.08

Genome-wide identification of conserved regulatory function in diverged sequences. Genome Res (2011) 1.07

Pectoral fin and girdle development in the basal actinopterygians Polyodon spathula and Acipenser transmontanus. J Morphol (2004) 1.06

TBX5 drives Scn5a expression to regulate cardiac conduction system function. J Clin Invest (2012) 1.06

Glyoxalase 1 increases anxiety by reducing GABAA receptor agonist methylglyoxal. J Clin Invest (2012) 1.06

Late Jurassic salamandroid from western Liaoning, China. Proc Natl Acad Sci U S A (2012) 1.03

Predicting the binding preference of transcription factors to individual DNA k-mers. Bioinformatics (2008) 1.01

Holocephalan embryos provide evidence for gill arch appendage reduction and opercular evolution in cartilaginous fishes. Proc Natl Acad Sci U S A (2011) 0.99

Genome-wide maps of transcription regulatory elements. Wiley Interdiscip Rev Syst Biol Med (2010) 0.98

The cranial endoskeleton of Tiktaalik roseae. Nature (2008) 0.97

A natural deletion of the HoxC cluster in elasmobranch fishes. Science (2011) 0.94

Identifying synonymous regulatory elements in vertebrate genomes. Nucleic Acids Res (2005) 0.92

Chondrogenesis and homology of the visceral skeleton in the little skate, Leucoraja erinacea (Chondrichthyes: Batoidea). J Morphol (2009) 0.92

An in vivo cis-regulatory screen at the type 2 diabetes associated TCF7L2 locus identifies multiple tissue-specific enhancers. PLoS One (2012) 0.90

Modulation ofTcf7l2 expression alters behavior in mice. PLoS One (2011) 0.87

Salamander limb development: integrating genes, morphology, and fossils. Dev Dyn (2011) 0.85

Beyond the ENCODE project: using genomics and epigenomics strategies to study enhancer evolution. Philos Trans R Soc Lond B Biol Sci (2013) 0.83

The emerging genetic landscape underlying cardiac conduction system function. Birth Defects Res A Clin Mol Teratol (2011) 0.79

Molecular development of chondrichthyan claspers and the evolution of copulatory organs. Nat Commun (2015) 0.79

Corrigendum: The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nat Genet (2016) 0.78

Evolutionary biology: lost and found. Nature (2004) 0.78

Objective sequence-based subfamily classifications of mouse homeodomains reflect their in vitro DNA-binding preferences. Nucleic Acids Res (2010) 0.78

Making limbs from fins. Dev Cell (2012) 0.76

Probing chromatin landscape reveals roles of endocardial TBX20 in septation. J Clin Invest (2016) 0.75

The evolution of gnathostome development: Insight from chondrichthyan embryology. Genesis (2009) 0.75