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      The record of Aplodontidae (Rodentia, Mammalia) in the Oligocene and Miocene of the Valley of Lakes (Central Mongolia) with some comments on the morphologic variability

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          Abstract

          The present publication reports new discoveries of Oligocene and early Miocene aplodontid rodents from the Taatsiin Gol area (Valley of Lakes) in Mongolia. The fossil aplodontids recovered in this area are mainly composed of dental remains, some fragmentary jaws plus one partially preserved skull. Aplodontid rodents have been found from the early Oligocene (local biozone A) to the early middle Miocene (local biozone D). Altogether, eight taxa belonging to five genera have been identified in the investigated deposits: Ninamys arboraptus, Ninamys kazimierzi, Promeniscomys cf. sinensis, Prosciurus? mongoliensis and Prosciurus? sp. nov. in the early Oligocene; N. arboraptus, Proansomys badamae sp. nov. and Ansomyinae indet. in the late Oligocene; and Ansomys sp.1 in the early Miocene. In addition, although outside of the topic of the present special issue, one additional taxon, Ansomys sp.2, is reported from the ?middle Miocene. The material of aplodontids is usually relatively scarce in Asian localities. For the first time, with a sample size of 81 specimens, the material from Central Mongolia (mainly from the Oligocene) now allows a more accurate description of the morphological and size variability and resolves some systematic problems. The study of these aplodontids reveals that they are more abundant and diverse in the early Oligocene and that the diversity decreases during the late Oligocene and Miocene. One hypothesis, to explain the opposite diversity trend observed previously for sciurids in the same region, is that both Sciuromorpha families might have competed for the same resources from the early Oligocene to the middle Miocene in Central Mongolia.

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          The online version of this article (doi:10.1007/s12549-016-0255-y) contains supplementary material, which is available to authorized users.

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          A glimpse on the pattern of rodent diversification: a phylogenetic approach

          Background Development of phylogenetic methods that do not rely on fossils for the study of evolutionary processes through time have revolutionized the field of evolutionary biology and resulted in an unprecedented expansion of our knowledge about the tree of life. These methods have helped to shed light on the macroevolution of many taxonomic groups such as the placentals (Mammalia). However, despite the increase of studies addressing the diversification patterns of organisms, no synthesis has addressed the case of the most diversified mammalian clade: the Rodentia. Results Here we present a rodent maximum likelihood phylogeny inferred from a molecular supermatrix. It is based on 11 mitochondrial and nuclear genes that covers 1,265 species, i.e., respectively 56% and 81% of the known specific and generic rodent diversity. The inferred topology recovered all Rodentia clades proposed by recent molecular works. A relaxed molecular clock dating approach provided a time framework for speciation events. We found that the Myomorpha clade shows a greater degree of variation in diversification rates than Sciuroidea, Caviomorpha, Castorimorpha and Anomaluromorpha. We identified a number of shifts in diversification rates within the major clades: two in Castorimorpha, three in Ctenohystrica, 6 within the squirrel-related clade and 24 in the Myomorpha clade. The majority of these shifts occurred within the most recent familial rodent radiations: the Cricetidae and Muridae clades. Using the topological imbalances and the time line we discuss the potential role of different diversification factors that might have shaped the rodents radiation. Conclusions The present glimpse on the diversification pattern of rodents can be used for further comparative meta-analyses. Muroid lineages have a greater degree of variation in their diversification rates than any other rodent group. Different topological signatures suggest distinct diversification processes among rodent lineages. In particular, Muroidea and Sciuroidea display widespread distribution and have undergone evolutionary and adaptive radiation on most of the continents. Our results show that rodents experienced shifts in diversification rate regularly through the Tertiary, but at different periods for each clade. A comparison between the rodent fossil record and our results suggest that extinction led to the loss of diversification signal for most of the Paleogene nodes.
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            Evaluating placental inter-ordinal phylogenies with novel sequences including RAG1, gamma-fibrinogen, ND6, and mt-tRNA, plus MCMC-driven nucleotide, amino acid, and codon models.

            It is essential to test a priori scientific hypotheses with independent data, not least to partly negate factors such as gene-specific base composition biases misleading our models. Seven new gene segments and sequences plus Bayesian likelihood phylogenetic methods were used to compare and test five recent placental phylogenies. These five phylogenies are similar to each other, yet quite different from Fthose of previously proposed trees, and span Waddell et al. [Syst. Biol. 48 (1999) 1] to Murphy et al. [Science 294 (2001b) 2348]. Trees for RAG1, gamma-fibrinogen, ND6, mt-tRNA, mt-RNA, c-MYC, epsilon -globin, and GHR are significantly congruent with the four main groups of mammals common to the five phylogenies, i.e., Afrotheria, Laurasiatheria, Euarchontoglires, Xenarthra plus Boreoeutheria (Laurasiatheria plus Euarchontoglires). Where these five a priori phylogenies differ, remain areas generally hard to resolve with the new sequences. The root remains ambiguous and does not reject a basal Afrotheria (the Exafroplacentalia hypothesis), Afrotheria plus Xenarthra together with basal (Atlantogenata), or Epitheria (Xenarthra basal) convincingly. Good evidence is found that Eulipotyphla is monophyletic and is located at the base of Laurasiatheria. The shrew mole, Uropsilus, is found to cluster consistently with other moles, while Solenodon may be the sister taxa to all other eulipotyphlans. Support is found for a probable sister pairing of just hedgehogs/gymnures and shrews. Relationships within Afrotheria, except the Paenungulata clade, remain hard to resolve, although there is congruent support for Afroinsectiphillia (aardvark, elephant shrews, golden moles, and tenrecs). A first-time use is made of MCMC enacted general time-reversible (GTR) amino acid and codon-based models for general tree selection. Even with ND6, a GTR amino acid model provided resolution of fine features, such as the sister group relationship of walrus to Otatriidae, and with BRCA a more reasonable rooting. An extensive analysis of GHR sequences reveals strong congruence with prior phylogenies, including strong support for Eulipotyphla, and good resolution within Rodentia. A codon model gives a worse likelihood than a nucleotide model and sometimes switches support, e.g., with RAG1+gamma-fibrinogen from a hyrax-sirenian association to support for Tethytheria. An analysis of the concatenated data is in accordance with well-resolved features of the gene trees. Taken all together, this work suggests that we are on the right path finding strong confirmation of prior phylogenies. However, with the use of robust criteria for assessing trees (i.e., not Bayesian posteriors), it is apparent parts of the tree remain hard to resolve. Since our current models are far from fitting the sequence data, we should continue with our exploratory analyses to arrive at a refined set of hypotheses for future testing using more model independent characters (e.g., rare indels, gene rearrangement, and SINE data).
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              The Mammalian Fauna of the White River Oligocene: Part II. Rodentia

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                Author and article information

                Contributors
                olivier.maridet@jurassica.ch
                Journal
                Paleobiodivers Paleoenviron
                Paleobiodivers Paleoenviron
                Palaeobiodiversity and Palaeoenvironments
                Springer Berlin Heidelberg (Berlin/Heidelberg )
                1867-1594
                1867-1608
                26 November 2016
                26 November 2016
                2017
                : 97
                : 1
                : 25-49
                Affiliations
                [1 ]JURASSICA Museum, route de Fontenais 21, 2900 Porrentruy, Switzerland
                [2 ]ISNI 0000 0004 0478 1713, GRID grid.8534.a, Department of Geosciences, Earth Sciences, , University of Fribourg, ; Chemin du Musée 6, Pérolles, 1700 Fribourg, Switzerland
                [3 ]Rupertusstr. 16, 5201 Seekirchen, Austria
                [4 ]ISNI 0000 0001 2112 4115, GRID grid.425585.b, Geologisch-Paläontologische Abt., , Naturhistorisches Museum Wien, ; Burgring 7 A, 1010 Vienna, Austria
                [5 ]ISNI 0000 0001 2157 7667, GRID grid.4795.f, Departamento de Paleontología, Facultad de Ciencias Geológicas, , Universidad Complutense de Madrid, ; C/ José Antonio Novais, 2, 28040 Madrid, Spain
                Author information
                http://orcid.org/0000-0002-0956-0712
                Article
                255
                10.1007/s12549-016-0255-y
                5367699
                a7f788f0-838c-4cd5-8f3f-baa34343be41
                © The Author(s) 2016

                Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.

                History
                : 8 June 2016
                : 17 August 2016
                : 21 September 2016
                Funding
                Funded by: FundRef http://dx.doi.org/10.13039/501100002428, Austrian Science Fund;
                Award ID: FWF-P-10505-GEO
                Award ID: FWF-P-15724-N06
                Award ID: FWF-P-23061-N19
                Award ID: FWF-M1375-B17
                Award Recipient :
                Categories
                Original Paper
                Custom metadata
                © Senckenberg Gesellschaft für Naturforschung and Springer-Verlag Berlin Heidelberg 2017

                mongolia,oligocene,miocene,rodentia,systematics
                mongolia, oligocene, miocene, rodentia, systematics

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