scholarly journals Unrealistic phylogenetic trees may improve phylogenetic footprinting

2017 ◽  
pp. btx033 ◽  
Author(s):  
Martin Nettling ◽  
Hendrik Treutler ◽  
Jesus Cerquides ◽  
Ivo Grosse
Keyword(s):  
Phylogenetic Trees ◽  
Phylogenetic Footprinting

Phylogenetic Footprinting of the Human Cytochrome c Oxidase Subunit Vb Promoter

1996 ◽  
Vol 333 (1) ◽  
pp. 152-162 ◽  
Author(s):  
Nancy J. Bachman ◽  
Tony L. Yang ◽  
Jeremy S. Dasen ◽  
Robin E. Ernst ◽  
Margaret I. Lomax
Keyword(s):  
Cytochrome C ◽  
Cytochrome C Oxidase ◽  
Phylogenetic Footprinting ◽  
Oxidase Subunit ◽  
Human Cytochrome ◽  
Human Cytochrome C

Using the Gibbs Motif Sampler for Phylogenetic Footprinting

2007 ◽  
pp. 403-424
Author(s):  
William Thompson ◽  
Sean Conlan ◽  
Lee Ann McCue ◽  
Charles E. Lawrence
Keyword(s):  
Phylogenetic Footprinting

Phylogenetic Footprinting to Find Functional DNA Elements

2007 ◽  
pp. 367-380
Author(s):  
Austen R. D. Ganley ◽  
Takehiko Kobayashi
Keyword(s):  
Phylogenetic Footprinting ◽  
Dna Elements ◽  
Functional Dna

scholarly journals Identification of Neuronal Enhancers of the Proopiomelanocortin Gene by Transgenic Mouse Analysis and Phylogenetic Footprinting

2005 ◽  
Vol 25 (8) ◽  
pp. 3076-3086 ◽  
Author(s):  
Flávio S. J. de Souza ◽  
Andrea M. Santangelo ◽  
Viviana Bumaschny ◽  
María Elena Avale ◽  
James L. Smart ◽  
...  
Keyword(s):  
Energy Homeostasis ◽  
Significant Quantitative Trait Locus ◽  
Phylogenetic Footprinting ◽  
Transcriptional Unit ◽  
Human Populations ◽  
Chromosome 2 ◽  
Loss Of Function ◽  
Trait Locus ◽  
Genomic Regions ◽  
Arcuate Neurons

ABSTRACT The proopiomelanocortin (POMC) gene is expressed in the pituitary and arcuate neurons of the hypothalamus. POMC arcuate neurons play a central role in the control of energy homeostasis, and rare loss-of-function mutations in POMC cause obesity. Moreover, POMC is the prime candidate gene within a highly significant quantitative trait locus on chromosome 2 associated with obesity traits in several human populations. Here, we identify two phylogenetically conserved neuronal POMC enhancers designated nPE1 (600 bp) and nPE2 (150 bp) located approximately 10 to 12 kb upstream of mammalian POMC transcriptional units. We show that mouse or human genomic regions containing these enhancers are able to direct reporter gene expression to POMC hypothalamic neurons, but not the pituitary of transgenic mice. Conversely, deletion of nPE1 and nPE2 in the context of the entire transcriptional unit of POMC abolishes transgene expression in the hypothalamus without affecting pituitary expression. Our results indicate that the nPEs are necessary and sufficient for hypothalamic POMC expression and that POMC expression in the brain and pituitary is controlled by independent sets of enhancers. Our study advances the understanding of the molecular nature of hypothalamic POMC neurons and will be useful to determine whether polymorphisms in POMC regulatory regions play a role in the predisposition to obesity.

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