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The pattern and timing of diversification of Philippine endemic rodents: evidence from mitochondrial and nuclear gene sequences.

TLDR
The results suggest that most of the diversification of Philippine murines took place within the archipelago, and that combination of mitochondrial and nuclear data to estimate relatively ancient divergence times can severely compromise those estimates, even when specific methods that account for rate heterogeneity among genes are employed.
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Phylogenetic Relationships and Classification of Didelphid Marsupials, an Extant Radiation of New World Metatherian Mammals

TLDR
A decade of morphological and molecular research on the phylogenetic relationships of didelphid marsupials (opossums) is summarized, with a completely resolved ingroup phylogeny with high support statistics at most nodes.
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On the Contents of Gracilinanus Gardner and Creighton, 1989, with the Description of a Previously Unrecognized Clade of Small Didelphid Marsupials

TLDR
Separate and combined phylogenetic analyses of nonmolecular data and nuclear gene sequences suggest that Cryptonanus and Gracilinanus are reciprocally monophyletic and closely related, although they were not consistently recovered as sister taxa in any analysis.
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Phylogeny of muroid rodents: relationships within and among major lineages as determined by IRBP gene sequences.

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PHYLOGENETIC STUDIES ON DIDELPHID MARSUPIALS II. NONMOLECULAR DATA AND NEW IRBP SEQUENCES: SEPARATE AND COMBINED ANALYSES OF DIDELPHINE RELATIONSHIPS WITH DENSER TAXON SAMPLING

TLDR
A combined (simultaneous) maximum-parsimony analysis of both datasets (nonmolecular + IRBP) produced a consensus topology that closely resembled the results of analyzing IRBP separately, and a new genus is described for “Marmosa” canescens.
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Phylogenetic relationships in the genus mus, based on paternally, maternally, and biparentally inherited characters.

TLDR
Analysis of DNA sequences from six genes representing paternally, maternALLY, and biparentally inherited regions of the genome to infer phylogenetic relationships among 10 species of Mus resulted in a fully resolved tree that strongly supports monophyly of the genus Mus, monophylies of the subgenus Mus, and a sister-group relationship between M. macedonicus and M. spicilegus.
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THE EARLY DIVERSIFICATION HISTORY OF DIDELPHID MARSUPIALS: A WINDOW INTO SOUTH AMERICA'S “SPLENDID ISOLATION”

TLDR
This study provides the first published molecular‐phylogenetic evidence for mass extinction in any animal clade, and it is the first time that evidence for such an event (in any plant or animal taxon) has been tested for statistical significance.
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Phylogenetic Studies on Didelphid Marsupials I. Introduction and Preliminary Results from Nuclear IRBP Gene Sequences

TLDR
Although some of the relationships supported by IRBP are not consistent with the results of published morphological analyses, the reassessment of the morphological data suggests that many conflicts are more apparent than real.
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Molecular Phylogeny and Biogeography of the Native Rodents of Madagascar (Muridae: Nesomyinae): A Test of the Single‐Origin Hypothesis

TLDR
The phylogenetic hypothesis indicates that rodents invaded Madagascar only once, they came from Asia not from Africa as is commonly assumed, and there was a secondary invasion of rodents from Madagascar into Africa.
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Base-compositional heterogeneity in the RAG1 locus among didelphid marsupials: implications for phylogenetic inference and the evolution of GC content.

TLDR
Observations consistent with RAG1 sequences having experienced a higher rate of recombination in the convergent lineages are observed, both mutation rate and substitution rate are higher in GC-rich didelphid taxa.
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