Phylogenetic relationships in the subgenus Mus ( genus Mus, family Muridae, subfamily Murinae): examining gene trees and species trees

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/75415/1/j.1095-8312.2005.00462.x.pd

Morphological Variation, Karyology, and Systematic Relationships of \u3ci\u3eHeteromys gaumeri\u3c/i\u3e (Rodentia: Heteromyidae)

Morphological variation was assessed within and among populations of Heteromys gaumeri using univariate and multivariate statistical analyses of external and cranial measurements. Although patterns and amount of nongeographic variation in H. gaumeri were similar to other heteromyines, geographic variation was relatively conservative. Mean values of most characters were statistically homogeneous among localities and spatially unpatterned. Consequently, no association was found between levels of within- and among-sample variation for individual characters (the Kluge-Kerfoot phenomenon ). Populations of H. gaumeri were chromosomally monomorphic. The lack of morphological and chromosomal variation in H. gaumeri contrasts sharply with patterns in other heteromyines. Heteromys gaumeri is morphologically and chromosomally distinct from the H. desmarestianus species group (to which it is currently assigned) and appears to share some primitive characters with Liomys (the sister group of Heteromys). We recommend that H. gaumeri be removed from the H. desmarestianus group. Spanish abstract: La variación morfológica intra e interpoblacional de Heteromys gaumeri fue evaluada usando análisis estadísticos univariados y multivariados de medidas externas y craneales. A pesar de que los patrones y cantidad de variación intrapoblacional en H. gaumeri fue similar a la de otros heterominos, la variación geográfica fue relativamente conservadora. Los valores promedio de la mayoría de los caracteres fueron estadisticamente homogeneos entre las localidades, sin mostrar ningún patrón de variación espacial. En conservencia, no se encontró asociación alguna entre los niveles de variación intra e interpoblacional para caracteres individuates ( fenómena Kluge-Kerfoot ), Las poblaciones de H. gaumeri fueron monomórficas cromosómicamente. La falta de variacion tanto morfológica como cronosómica en H. gaumeri contrasta marcadamente con los patrones encontrados anteriormente para otros heteróminos. Heteromys gaumeri es morfológica y cromosómicamente distinguible del grupo H. desmarestianus (al cual se asigna actualmente) y aparentemente comparte algunos caracteres primitives con Liomys (el grupo hermano de Heteromys). Nosotros recomendamos que se remueva a H. gaumeri del grupo H. desmarestianus. Portuguese abstract: Avalia-se a variação morfológica intra- e interpopulacional de Heteromys gaumeri, através de análises estatisticas uni- e multivariadas de medidas externas e craniais. Apesar dos padrões, e da quantidade de variação intrapopulacional em H. gaumeri serem similares aos de outros heteromídeos, a variação geográfica é relativamente conservadora. Os valores médios da maior parte dos caráteres examinados são estatìsticamente homogeneos entre as localidades, e não surgiu nenhum padrão de variações locais. Consequentemente, não foram encontradas assoçiacões entre os níveis de varaiações intra- e interpopulacionais para caráteres individuais (o “fenômeno Kluge-Kerfoot”). Populações de H. gaumeri mostraram-se cromossômicamente monomórficas. A falta de variação morfológica ou cromossômica em H. gaumeri é altamente contrastante aos padrões encontrados em outros heteromídeos. Heteromys gaumeri distinguese tanto morfológica quanto cromossômicamente do grupo H. desmarestianus, ao qual está atualmente designado, e aparentemente possue caráteres primitivos em comum com Liomys—grupo irmão de Heteromys. Recomendamos que H. gaumeri seja removido do grupo H. desmarestianus

Morphological Variation, Karyology, and Systematic Relationships of \u3ci\u3eHeteromys gaumeri\u3c/i\u3e (Rodentia: Heteromyidae)

Morphological variation was assessed within and among populations of Heteromys gaumeri using univariate and multivariate statistical analyses of external and cranial measurements. Although patterns and amount of nongeographic variation in H. gaumeri were similar to other heteromyines, geographic variation was relatively conservative. Mean values of most characters were statistically homogeneous among localities and spatially unpatterned. Consequently, no association was found between levels of within- and among-sample variation for individual characters (the Kluge-Kerfoot phenomenon ). Populations of H. gaumeri were chromosomally monomorphic. The lack of morphological and chromosomal variation in H. gaumeri contrasts sharply with patterns in other heteromyines. Heteromys gaumeri is morphologically and chromosomally distinct from the H. desmarestianus species group (to which it is currently assigned) and appears to share some primitive characters with Liomys (the sister group of Heteromys). We recommend that H. gaumeri be removed from the H. desmarestianus group. Spanish abstract: La variación morfológica intra e interpoblacional de Heteromys gaumeri fue evaluada usando análisis estadísticos univariados y multivariados de medidas externas y craneales. A pesar de que los patrones y cantidad de variación intrapoblacional en H. gaumeri fue similar a la de otros heterominos, la variación geográfica fue relativamente conservadora. Los valores promedio de la mayoría de los caracteres fueron estadisticamente homogeneos entre las localidades, sin mostrar ningún patrón de variación espacial. En conservencia, no se encontró asociación alguna entre los niveles de variación intra e interpoblacional para caracteres individuates ( fenómena Kluge-Kerfoot ), Las poblaciones de H. gaumeri fueron monomórficas cromosómicamente. La falta de variacion tanto morfológica como cronosómica en H. gaumeri contrasta marcadamente con los patrones encontrados anteriormente para otros heteróminos. Heteromys gaumeri es morfológica y cromosómicamente distinguible del grupo H. desmarestianus (al cual se asigna actualmente) y aparentemente comparte algunos caracteres primitives con Liomys (el grupo hermano de Heteromys). Nosotros recomendamos que se remueva a H. gaumeri del grupo H. desmarestianus. Portuguese abstract: Avalia-se a variação morfológica intra- e interpopulacional de Heteromys gaumeri, através de análises estatisticas uni- e multivariadas de medidas externas e craniais. Apesar dos padrões, e da quantidade de variação intrapopulacional em H. gaumeri serem similares aos de outros heteromídeos, a variação geográfica é relativamente conservadora. Os valores médios da maior parte dos caráteres examinados são estatìsticamente homogeneos entre as localidades, e não surgiu nenhum padrão de variações locais. Consequentemente, não foram encontradas assoçiacões entre os níveis de varaiações intra- e interpopulacionais para caráteres individuais (o “fenômeno Kluge-Kerfoot”). Populações de H. gaumeri mostraram-se cromossômicamente monomórficas. A falta de variação morfológica ou cromossômica em H. gaumeri é altamente contrastante aos padrões encontrados em outros heteromídeos. Heteromys gaumeri distinguese tanto morfológica quanto cromossômicamente do grupo H. desmarestianus, ao qual está atualmente designado, e aparentemente possue caráteres primitivos em comum com Liomys—grupo irmão de Heteromys. Recomendamos que H. gaumeri seja removido do grupo H. desmarestianus

Length variation of CAG repeats in Sry across populations of Mus domesticus

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/47019/1/335_2004_Article_BF00293015.pd

A mouse Y Chromosome pseudogene is related to human ubiquitin activating enzyme E1

A 2041 bp DNA fragment isolated from the Sxr (sex reversed) region of the mouse Y Chromosome (Chr) was sequenced and characterized. The sequence, pY8/b, contains four exons that are highly similar to 525 contiguous bases from the cDNA of human ubiquitin activating enzyme El . Two of the exons contain stop codons, indicating that pY8/b is not part of a functional gene. Sequences related to pY8/b were amplified from the Y Chr of the inbred mouse strain, C57BL/6J. These sequences may be portions of the recently discovered functional equivalent of pY8/b. Despite a high degree of similarity with the human El gene, the functional equivalent of pY8/b is not the mouse El gene, because unlike El , the functional equivalent of pY8/b is expressed in a tissue-specific manner. These data are discussed with respect to theory on the evolution of the mammalian Y Chr, and in particular, to the prediction that functional genes on the Y Chr have a male-specific function.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/46990/1/335_2004_Article_BF00355838.pd

Tests for Positive Selection on Immune and Reproductive Genes in Closely Related Species of the Murine Genus Mus

AbstractPeer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/42372/1/30560294.pd

THE VARIABLE GENOMIC ARCHITECTURE OF ISOLATION BETWEEN HYBRIDIZING SPECIES OF HOUSE MICE

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/75350/1/EVO_846_sm_FigS3A.pdfhttp://deepblue.lib.umich.edu/bitstream/2027.42/75350/2/EVO_846_sm_legend.pdfhttp://deepblue.lib.umich.edu/bitstream/2027.42/75350/3/EVO_846_sm_FigS4.pdfhttp://deepblue.lib.umich.edu/bitstream/2027.42/75350/4/j.1558-5646.2009.00846.x.pdfhttp://deepblue.lib.umich.edu/bitstream/2027.42/75350/5/EVO_846_sm_FigS1.pdfhttp://deepblue.lib.umich.edu/bitstream/2027.42/75350/6/EVO_846_sm_FigS2.pdfhttp://deepblue.lib.umich.edu/bitstream/2027.42/75350/7/EVO_846_sm_FigS3B.pd

The eyeless mouse mutation (ey1) removes an alternative start codon from the Rx/rax homeobox gene

Summary: The eyeless inbred mouse strain ZRDCT has long served as a spontaneous model for human anophthalmia and the evolutionary reduction of eyes that has occurred in some naturally blind mammals. ZRDCT mice have orbits but lack eyes and optic tracts and have hypothalamic abnormalities. Segregation data suggest that a small number of interacting genes are responsible, including at least one major recessive locus, ey1 . Although predicted since the 1940s, these loci were never identified. We mapped ey1 to chromosome 18 using an F2 genome scan and there found a Met10→Leu mutation in Rx/rax , a homeobox gene that is expressed in the anterior headfold, developing retina, pineal, and hypothalamus and is translated via a leaky scanning mechanism. The mutation affects a conserved AUG codon that functions as an alternative translation initiation site and consequently reduces the abundance of Rx protein. In contrast to a targeted Rx null allele, which causes anophthalmia, central nervous system defects, and neonatal death, the hypomorphic M10L allele is fully viable. genesis 31:43–53, 2001. © 2001 Wiley-Liss, Inc.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/35266/1/10003_ftp.pd

The endothelial-specific regulatory mutation, Mvwf1, is a common mouse founder allele

Mvwf1 is a cis-regulatory mutation previously identified in the RIIIS/J mouse strain that causes a unique tissue-specific switch in the expression of an N-acetylgalactosaminyltransferase, B4GALNT2, from intestinal epithelium to vascular endothelium. Vascular B4galnt2 expression results in aberrant glycosylation of von Willebrand Factor (VWF) and accelerated VWF clearance from plasma. We now report that 13 inbred mouse strains share the Mvwf1 tissue-specific switch and low VWF phenotype, including five wild-derived strains. Genomic sequencing identified a highly conserved 97-kb Mvwf1 haplotype block shared by these strains that encompasses a 30-kb region of high nucleotide sequence divergence from C57BL6/J flanking B4galnt2 exon 1. The analysis of a series of bacterial artificial chromosome (BAC) transgenes containing B4galnt2 derived from the RIIIS/J or C57BL6/J inbred mouse strains demonstrates that the corresponding sequences are sufficient to confer the vessel (RIIIS/J) or intestine (C57BL6/J)-specific expression patterns. Taken together, our data suggest that the region responsible for the Mvwf1 regulatory switch lies within an approximately 30-kb genomic interval upstream of the B4galnt2 gene. The observation that Mvwf1 is present in multiple wild-derived strains suggests that this locus may be retained in wild mouse populations due to positive selection. Similar selective pressures could contribute to the high prevalence of von Willebrand disease in humans

Evidence for Multiple Functional Copies of the Male Sex-Determining Locus, Sry, in African Murine Rodents

Southern hybridization data suggest that the male sex-determining locus, Sry, is often duplicated in rodents. Here we explore DNA sequence evolution of orthologous and paralogous copies of Sry isolated from six species of African murines. PCR amplification followed by direct sequencing revealed from two to four copies of Sry per species. All copies include a long open reading frame, with a stop codon that coincides closely with the stop codon of the house mouse, Mus musculus, a species known to have a single copy of Sry. A phylogenetic analysis suggests that there are at least seven paralogous copies of Sry in this group of rodents. Putative orthologues are identical; sequence divergence among putative paralogues ranges from 1 to 8% (excluding the CAG repeat), with much lower levels of divergence in the high-mobility group (HMG-box) region than in the C-terminal region. A high proportion of nucleotide substitutions in both regions result in amino-acid replacement. The long open reading frame, conserved HMG-box, and pattern of evolution of the putative paralogues suggest that they are functional.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/42367/1/239-45-1-60_45n1p60.pd