Searching across hundreds of databases

Our searching services are busy right now. Your search will reload in five seconds.

X
Forgot Password

If you have forgotten your password you can enter your email here and get a temporary password sent to your email.

X
Forgot Password

If you have forgotten your password you can enter your email here and get a temporary password sent to your email.

A retrotransposon insertion in the 5' regulatory domain of Ptf1a results in ectopic gene expression and multiple congenital defects in Danforth's short tail mouse.

PLoS genetics | 2013

Danforth's short tail mutant (Sd) mouse, first described in 1930, is a classic spontaneous mutant exhibiting defects of the axial skeleton, hindgut, and urogenital system. We used meiotic mapping in 1,497 segregants to localize the mutation to a 42.8-kb intergenic segment on chromosome 2. Resequencing of this region identified an 8.5-kb early retrotransposon (ETn) insertion within the highly conserved regulatory sequences upstream of Pancreas Specific Transcription Factor, 1a (Ptf1a). This mutation resulted in up to tenfold increased expression of Ptf1a as compared to wild-type embryos at E9.5 but no detectable changes in the expression levels of other neighboring genes. At E9.5, Sd mutants exhibit ectopic Ptf1a expression in embryonic progenitors of every organ that will manifest a developmental defect: the notochord, the hindgut, and the mesonephric ducts. Moreover, at E 8.5, Sd mutant mice exhibit ectopic Ptf1a expression in the lateral plate mesoderm, tail bud mesenchyme, and in the notochord, preceding the onset of visible defects such as notochord degeneration. The Sd heterozygote phenotype was not ameliorated by Ptf1a haploinsufficiency, further suggesting that the developmental defects result from ectopic expression of Ptf1a. These data identify disruption of the spatio-temporal pattern of Ptf1a expression as the unifying mechanism underlying the multiple congenital defects in Danforth's short tail mouse. This striking example of an enhancer mutation resulting in profound developmental defects suggests that disruption of conserved regulatory elements may also contribute to human malformation syndromes.

Pubmed ID: 23437001 RIS Download

Associated grants

  • Agency: NIDDK NIH HHS, United States
    Id: DK089523
  • Agency: NICHD NIH HHS, United States
    Id: R37 HD033082
  • Agency: NIDDK NIH HHS, United States
    Id: U01 DK089523
  • Agency: NICHD NIH HHS, United States
    Id: HD033082
  • Agency: NIDDK NIH HHS, United States
    Id: DK080099
  • Agency: NIDDK NIH HHS, United States
    Id: R01 DK080099
  • Agency: NICHD NIH HHS, United States
    Id: R01 HD033082

Publication data is provided by the National Library of Medicine ® and PubMed ®. Data is retrieved from PubMed ® on a weekly schedule. For terms and conditions see the National Library of Medicine Terms and Conditions.

This is a list of tools and resources that we have found mentioned in this publication.


Mouse Phenome Database (MPD) (tool)

RRID:SCR_003212

Database enables integration of genomic and phenomic data by providing access to primary experimental data, data collection protocols and analysis tools. Data represent behavioral, morphological and physiological disease-related characteristics in naive mice and those exposed to drugs, environmental agents or other treatments. Collaborative standardized collection of measured data on laboratory mouse strains to characterize them in order to facilitate translational discoveries and to assist in selection of strains for experimental studies. Includes baseline phenotype data sets as well as studies of drug, diet, disease and aging effect., protocols, projects and publications, and SNP, variation and gene expression studies. Provides tools for online analysis. Data sets are voluntarily contributed by researchers from variety of institutions and settings, or retrieved by MPD staff from open public sources. MPD has three major types of strain-centric data sets: phenotype strain surveys, SNP and variation data, and gene expression strain surveys. MPD collects data on classical inbred strains as well as any fixed-genotype strains and derivatives that are openly acquirable by the research community. New panels include Collaborative Cross (CC) lines and Diversity Outbred (DO) populations. Phenotype data include measurements of behavior, hematology, bone mineral density, cholesterol levels, endocrine function, aging processes, addiction, neurosensory functions, and other biomedically relevant areas. Genotype data are primarily in the form of single-nucleotide polymorphisms (SNPs). MPD curates data into a common framework by standardizing mouse strain nomenclature, standardizing units (SI where feasible), evaluating data (completeness, statistical power, quality), categorizing phenotype data and linking to ontologies, conforming to internal style guides for titles, tags, and descriptions, and creating comprehensive protocol documentation including environmental parameters of the test animals. These elements are critical for experimental reproducibility.

View all literature mentions

Jackson Laboratory (tool)

RRID:SCR_004633

An independent, nonprofit organization focused on mammalian genetics research to advance human health. Their mission is to discover the genetic basis for preventing, treating, and curing human disease, and to enable research for the global biomedical community. Jackson Laboratory breeds and manages colonies of mice as resources for other research institutions and laboratories, along with providing software and techniques. Jackson Lab also conducts genetic research and provides educational material for various educational levels.

View all literature mentions

UCSC Genome Browser (tool)

RRID:SCR_005780

Portal to interactively visualize genomic data. Provides reference sequences and working draft assemblies for collection of genomes and access to ENCODE and Neanderthal projects. Includes collection of vertebrate and model organism assemblies and annotations, along with suite of tools for viewing, analyzing and downloading data.

View all literature mentions

NCBI (tool)

RRID:SCR_006472

A portal to biomedical and genomic information. NCBI creates public databases, conducts research in computational biology, develops software tools for analyzing genome data, and disseminates biomedical information for the better understanding of molecular processes affecting human health and disease.

View all literature mentions

Genetic Information Research Institute (tool)

RRID:SCR_012762

GIRI is a private, non-profit research institution founded in 1994. Our mission is to understand biological processes which alter the genetic makeup of different organisms, as a basis for potential gene therapy and genome engineering techniques. We pursue and promote original peer-reviewed, public domain research on genetic information (DNA sequence data), as well as dissemination of databases and computer software related to this research. Our research is heavily based on computer power and human skills different from those applied in classical molecular biology and genetics.

View all literature mentions

dbSNP (tool)

RRID:SCR_002338

Database as central repository for both single base nucleotide substitutions and short deletion and insertion polymorphisms. Distinguishes report of how to assay SNP from use of that SNP with individuals and populations. This separation simplifies some issues of data representation. However, these initial reports describing how to assay SNP will often be accompanied by SNP experiments measuring allele occurrence in individuals and populations. Community can contribute to this resource.

View all literature mentions

R/QTL (tool)

RRID:SCR_009085

Software program for mapping quantitative trait loci in experimental crosses. (entry from Genetic Analysis Software)

View all literature mentions

FVB/NJ (tool)

RRID:IMSR_JAX:001800

Mus musculus with name FVB/NJ from IMSR.

View all literature mentions

NZW/LacJ (tool)

RRID:IMSR_JAX:001058

Mus musculus with name NZW/LacJ from IMSR.

View all literature mentions

C57BL/6NJ (tool)

RRID:IMSR_JAX:005304

Mus musculus with name C57BL/6NJ from IMSR.

View all literature mentions

DBA/2J (tool)

RRID:IMSR_JAX:000671

Mus musculus with name DBA/2J from IMSR.

View all literature mentions

SJL/J (tool)

RRID:IMSR_JAX:000686

Mus musculus with name SJL/J from IMSR.

View all literature mentions

C3H/HeJ (tool)

RRID:IMSR_JAX:000659

Mus musculus with name C3H/HeJ from IMSR.

View all literature mentions

CBA/J (tool)

RRID:IMSR_JAX:000656

Mus musculus with name CBA/J from IMSR.

View all literature mentions

129/SvEv (tool)

RRID:MGI:5653381

laboratory mouse with name 129/SvEv from MGI.

View all literature mentions

C57BL/6J (tool)

RRID:IMSR_JAX:000664

Mus musculus with name C57BL/6J from IMSR.

View all literature mentions

SWR/J (tool)

RRID:IMSR_JAX:000689

Mus musculus with name SWR/J from IMSR.

View all literature mentions

BALB/cJ (tool)

RRID:IMSR_JAX:000651

Mus musculus with name BALB/cJ from IMSR.

View all literature mentions

WSB/EiJ (tool)

RRID:IMSR_JAX:001145

Mus musculus with name WSB/EiJ from IMSR.

View all literature mentions

DBA/1J (tool)

RRID:IMSR_JAX:000670

Mus musculus with name DBA/1J from IMSR.

View all literature mentions

RSV/LeJ (tool)

RRID:IMSR_JAX:000268

Mus musculus with name RSV/LeJ from IMSR.

View all literature mentions

RSV/LeJ (tool)

RRID:IMSR_JAX:000268

Mus musculus with name RSV/LeJ from IMSR.

View all literature mentions