Early evolutionary differentiation of morphological variation in the mandible of South American caviomorph rodents (Rodentia, Caviomorpha)

Caviomorphs are a clade of South American rodents recorded at least since the early Oligocene (> 31.5 Ma) that exhibit ample eco-morphological variation. It has been proposed that phylogenetic structure is more important than ecological factors for understanding mandibular shape variation in this clade. This was interpreted as a result of the long-standing evolutionary history of caviomorphs and the early divergence of major lineages. In this work, we test this hypothesis through the analysis of morphological variation in the mandible of living and extinct species and compare this information with that obtained through comparative phylogenetic analyses. Our results support the hypothesis of early origin of mandibular variation; moreover, they suggest the conservation of early differentiated morphologies, which could indicate the existence of constrained evolutionary diversification.     

Scaling and adaptations of incisors and cheek teeth in caviomorph rodents (Rodentia,Hystricognathi)

The South American hystricognath rodents are one of the most diverse mammalian clades considering their occupied habitats, locomotor modes and body sizes. This might have been partly evolved by diversification of their masticatory apparatus' structure and its ecological commitment, for example, chisel‐tooth digging. In this phylogeny‐based comparative study, we test the relationship between ecological behavior and mechanical features of their incisors and molariforms. In 33 species of nine families of caviomorph rodents, we analyze incisor attributes related to structural stress resistance and molar features related with grinding capacity, for example, second moment of inertia and enamel index (EI) (enamel band length/occlusal surface area), respectively. Most of these variables scaled isometrically to body mass, with a strong phylogenetic effect. A principal component analysis discrimination on the EI clustered the species according to their geographic distribution. We presume that selective pressures in Andean–Patagonian regions, on particular feeding habits and chisel‐tooth digging behaviors, have modeled the morphological characteristics of the teeth. Subterranean/burrower ctenomyids, coruros, and plains viscachas showed the highest bending/torsion strength and anchorage values for incisors; a simplified enamel pattern in molariforms would be associated with a better grinding of the more abrasive vegetation present in more open and drier biomes. J. Morphol. 2012. © 2012 Wiley Periodicals, Inc.     

Late Quaternary caviomorph rodents (Rodentia: Hystricognathi) from the Serra da Capivara,northeastern Brazil,with description of a new taxon

In this paper, fossil rodents (Hystricognathi: Caviomorpha) from the late Quaternary of the southwestern State of Piauí, northeastern Brazil, are described. The material comes from archaeological/palaeontological sites located in the region of the Serra da Capivara. The late Quaternary taxa of this region include Galea Meyen, 1832, Kerodon rupestris Wied-Neuwied, 1820, Hydrochoeridae indet., Dasyprocta Illiger, 1811, cf. Myocastor Kerr, 1792, Thrichomys Trouessart, 1880, Phyllomys Lund, 1839, Coendou magnus Lund, 1839 and a new taxon with chinchilloid affinities. The Coendou magnus and cf. Myocastor material represents the northernmost records of these taxa. The unexpected presence of a new extinct taxon contributes to the understanding of the ancient rodent faunas from South America. Today, the studied area is located within the Caatinga Biome but some of the fossil taxa, such as Hydrochoeridae and cf. Myocastor, indicate wetter environments and permanent water bodies during the late Pleistocene–early Holocene.

http://www.zoobank.org/urn:lsid:zoobank.org:pub:92711BC3-8997-4474-A8AF-83DF4F91BB48     

Ecological and phylogenetic influence on mandible shape variation of South American caviomorph rodents (Rodentia: Hystricomorpha)

We analyzed mandible shape variation of 17 genera belonging to three superfamilies (Cavioidea, Chinchilloidea, and Octodontoidea) of South American caviomorph rodents using geometric morphometrics. The relative influence of phylogeny and ecology on this variation was assessed using phylogenetic comparative methods. Most morphological variation was concentrated in condylar, coronoid, and angular processes, as well as the diastema. Features potentially advantageous for digging (i.e. high coronoid and condylar processes, relatively short angular process, and diastema) were present only in octodontoids; cavioids showed opposing trends, which could represent a structural constraint for fossorial habits. Chinchilloids showed intermediate features. Genera were distributed in the morphospace according to their classification into superfamilial clades. The phylogenetic signal for shape components was significant along phylogeny, whereas the relationship between mandibular shape and ecology was nonsignificant when phylogenetic structure was taken into account. An early evolutionary divergence in the mandible shape among major caviomorph clades would explain the observed strong phylogenetic influence on the variation of this structure. © 2011 The Linnean Society of London, Biological Journal of the Linnean Society, 2011, 102 , 828–837.     

Geometric morphometrics of the skull of Tinamidae (Aves, Palaeognathae)

The Tinamidae comprise exclusively Neotropical palaegnathous birds, with homogeneous body morphology and no sexual dimorphism. The goal of this work was to explore the variation in skull morphology between taxa and its possible correspondence with features such as diet or gender using geometric morphometric tools. Eleven landmarks were analyzed in 53 skulls of 4 genera that inhabit grasslands: Nothoprocta, Eudromia, Nothura and Rhynchotus. Intrageneric and intergeneric variability was analyzed. The genera studied here can be distinguished based on the geometric shape of their skull, with prenarial region length and neurocranium shape as the most outstanding features. In the genus Eudromia, males and females could be differentiated, while in the genus Nothoprocta, the species differentiated according to their trophic habits. This study allows establishing that genera and, in some cases, the gender of the Tinamidae can be differentiated based on cranial shape.     

Relationships among extant and fossil echimyids (Rodentia: Hystricognathi)

The echimyid rodents are the most diverse group of Neotropical hystricognaths, with approximately 40 extant and fossil genera. Craniodental characters are proposed in order to formulate hypotheses of phylogenetic relationships within the Echimyidae. A data matrix of 54 taxa and 50 characters is constructed and submitted to parsimony analyses using PAUP and WinClada programs. Analysis of the complete data set results in 47 448 most parsimonious trees 107 steps long. These trees are summarized in a strict consensus tree, which is taken as the main phylogenetic hypothesis resulting from this study. The monophyly of several currently recognized supraspecific taxa is not corroborated. These are: the subfamilies Eumysopinae, Echimyinae, Myocastorinae and Adelphomyinae; and the genera Proechimys , Echimys and Makalata . Conversely, the monophyly of Dactylomyinae and Trinomys is supported. New associations are proposed: (1) a clade comprising the extant Carterodon , Clyomys and Euryzygomatomys and the fossil Pampamys and Theridomysops placed at the base of the crown-group Echimyidae; (2) a clade uniting Proechimys , Hoplomys and Trinomys , which is the sister-taxon of (3) a clade including Mesomys , Lonchothrix , Myocastor and a clade with extant dactylomyines and echimyines and associated fossil taxa. Based on this phylogenetic hypothesis, patterns of tooth evolution in Echimyidae are discussed, and minimum ages for the divergence events within the family are estimated.  © 2004 The Linnean Society of London, Zoological Journal of the Linnean Society , 2004, 142 , 445–477.     

Diversification and biogeography of the Neotropical caviomorph lineage Octodontoidea (Rodentia: Hystricognathi)

The rodent superfamily Octodontoidea comprises 6 families, 38 genera, and 193 living species of spiny rats, tuco-tucos, degus, hutias, and their relatives. All are endemic to the Neotropical Region where they represent roughly three-quarters of extant caviomorphs. Although caviomorph monophyly is well established and phylogenetic hypotheses exist for several families, understanding of octodontoid relationships is clouded by sparse taxon sampling and single-gene analyses. We examined sequence variation in one mitochondrial (12S rRNA) and three nuclear genes (vWF, GHR, and RAG1) across all caviomorph families (including 47 octodontoid species), all phiomorph families, and the sole remaining hystricognath family, using the gundi (Ctenodactylus) and springhaas (Pedetes) as outgroups. Our analyses support the monophyly of Phiomorpha, Caviomorpha, and the caviomorph superfamilies Cavioidea (Dasyproctidae, Cuniculidae, and Caviidae, the latter including Hydrochoerus), Erethizontoidea, Chinchilloidea (including Dinomyidae), and Octodontoidea. Cavioids and erethizontoids are strongly supported as sisters, whereas chinchilloids appear to be sister to octodontoids. Among octodontoids, Abrocomidae is consistently recovered as the basal element, sister to a pair of strongly supported clades; one includes Octodontidae and Ctenomyidae as reciprocally monophyletic lineages, whereas the other includes taxa currently allocated to Echimyidae, Capromyidae and Myocastoridae. Capromys appears near the base of this clade, in keeping with current classification, but Myocastor is nested securely inside a clade of Echimyidae that also contains eumysopines, echimyines and dactylomyines. Another, more weakly supported clade of Echimyidae contains fossorial and scansorial taxa from the Chaco-Cerrado-Caatinga and the Atlantic Forest. Biogeographic analyses robustly recover the Patagonia-Southern Andes complex as ancestral for the Octodontoidea, with three component lineages emerging by the Oligocene-Miocene boundary (～23Ma): (1) stem abrocomids in the Central and Southern Andes; (2) a lineage leading to octodontids plus ctenomyids in Patagonia, later dispersing into the Chaco-Cerrado-Caatinga; and (3) a lineage leading to echimyids, capromyids, and myocastorids that subsequently radiated in more mesic biomes, including Amazonia, Atlantic Forest, and the Antilles. This reconstruction refutes earlier ideas that the diverse, generalized, mainly lowland family Echimyidae, which appears early in the fossil record, gave rise to the Andean lineages of octodontoids-instead, the reverse derivation appears to be true. We recommend formal synonymy of Myocastoridae with Echimyidae but defer a similar treatment of Capromyidae until additional hutia taxa and sequences can be analyzed.     

Ecological and phylogenetic dimensions of cranial shape diversification in South American caviomorph rodents (Rodentia: Hystricomorpha)

Caviomorph rodents represent an excellent model to explore morphological diversification on a macroevolutionary scale, as they are ecologically and morphologically diverse. We analysed cranial shape variation using geometric morphometrics and phylogenetic comparative methods. Most variation involved the shape of the rostrum, basicranium, and cranial vault, and clearly matched the phylogenetic structure. At the same time, a strong allometric pattern was associated with the length of the rostrum and cranial vault, size of the auditory bulla, and depth of the zygomatic arch. After accounting for size influence, and taking phylogenetic structure into account, shape variation was significantly associated with habitat. Our results highlight the presence of complex relationships between morphological, phylogenetic, and ecological dimensions in the diversification of the caviomorph cranium. © 2013 The Linnean Society of London, Biological Journal of the Linnean Society, 2013, 110 , 898–913.     

Phylogenetic and environmental components of morphological variation: skull, mandible, and molar shape in marmots (Marmota, Rodentia)

The phenotype is a product of its phylogenetic history and its recent adaptation to local environments, but the relative importance of the two factors is controversial. We assessed the effects of diet, habitat, elevation, temperature, precipitation, body size, and mtDNA genetic divergence on shape variation in skulls, mandibles, and molars, structures that differ in their genetic and functional control. We asked whether these structures have adapted to environment to the same extent and whether they retain the same amount of phylogenetic signal. We studied these traits in intra- and interspecific populations of Eurasian marmots whose last common ancestor lived 2-5 million years ago. Path Analysis revealed that body size explained 10% of variation in skulls, 7% in mandibles, and 15% in molars. Local vegetation explained 7% of variation in skulls, 11% in mandibles, and 12% in molars. Dietary category explained 25% of variation in skulls, 11% in mandibles, and 9% in molars. Cyt b mtDNA divergence (phylogeny) explained 15% of variation in skulls, 7% in mandibles, and 5% in molars. Despite the percentages of phylogenetic variance, maximum-likelihood trees based on molar and skull shape recovered most phylogenetic groupings correctly, but mandible shape did not. The good performance of molars and skulls was probably due to different factors. Skulls are genetically and functionally more complicated than teeth, and they had more mathematically independent components of variation (5-6-in skulls compared to 3-in molars). The high proportion of diet-related variance was not enough to mask the phylogenetic signal. Molars had fewer independent components, but they also have less ecophenotypic variation and evolve more slowly, giving each component a proportionally stronger phylogenetic signal. Molars require larger samples for each operational taxonomic unit than the other structures because the proportion of within-taxon to between-taxon variation was higher. Good phylogenetic signal in quantitative skeletal morphology is likely to be found only when the taxa have a common ancestry no older than hundreds of thousands or millions of years (1% to 10% mtDNA divergence)--under these conditions skulls and molars provide stronger signal than mandibles.     

Geometric morphometrics, neural networks and diagnosis of sibling Taterillus species (Rodentia, Gerbillinae)

The lack of diagnostic traits in sibling species means that great quantities of biogeographical and ecological data held in museum collections cannot be utilized effectively, leading to underestimates of biodiversity. In this study we applied neural networks (NN) and canonical variates analyses (CVA) to landmark measurements on the skulls of the West African species Taterillus arenarius , T. petteri , T. gracilis and T. pygargus in an attempt to discriminate species previously identified unambiguously from their karyotypes. Among suggested differences, the relationship between inflation of the tympanic bullae and lower population density is discussed. Cross-validated classification rates did not exceed 73%. Two hypotheses are proposed to explain such high phenotypic similarity: morphological plasticity limited by environmental constraints and the possibility that speciation has been too recent to allow significant morphological divergence.  © 2002 The Linnean Society of London, Biological Journal of the Linnean Society , 2002, 77 , 319−327.     

草兔胚后发育过程中头骨大小与形状变化的几何形态学分析(兔形目:兔科)

在本文中,我们使用几何形态学的研究方法对58 个处于不同年龄阶段的草兔头骨进行了分析。分析中总共使用来自头骨背面、腹面和侧面的180 个标点和半标点。研究结果表明,草兔在胚后发育早期即迅速建立起与成年个体近似的形态结构,组成头骨的不同形态单元存在显著的异速生长现象,主要的形变发生在幼年至年龄1 阶段,即出生后的6 个月以内。从大小的变化来看,鼻骨在胚后发育过程中呈现正的异速生长,额骨和眼眶区则与头骨整体大小变化基本等速,而顶骨、听泡和枕骨大孔则呈现显著的负异速生长。我们亦用几何形态学的方法绘制出头骨在生长发育早期和晚期不同部位的形态变化轨迹,这一结果显示较显著的形状变化发生在鼻骨、前颌骨、眶上突和头骨的纵轴方向。头骨整体形态在胚后发育过程中伸长并变窄。这些变化将有利于幼兔较早实现完善的头部系统的建立,尤其有利于提高呼吸系统的通风能力,提高在高强度的捕食压力下保持警觉,在多样的运动过程中保持身体平稳的能力,也可能进一步提高了对固态食物的处理能力。这种异速生长模式可能是善于奔跑的植食性哺乳动物在功能需求上的一种适应性进化特征。     

Morphological cranial diversity contributes to phylogeny in soft-furred sengis (Afrotheria, Macroscelidea)

Despite the well-supported Macroscelidea phylogeny proposed at the end of the 1960s, several systematic arrangements have been suggested in the last 20 years, raising doubts about the phylogeny of the Macroscelidinae; sengi inter-specific relationships are still debated to this day. The main issue of concern involves the supposed Elephantulus diphyly. To solve this persisting debate about sengi phylogeny, we examined the cranium ventral surface of 13 species using geometric morphometric techniques and neighbour-joining algorithms. This study supported the idea that the ventral side of the sengi cranium has the potential to provide important signals for reconstructing the Macroscelidea phylogeny. The phylogenetic signals seemed to differentiate between two major clades in the sengi radiation. In the first clade, the two monospecific genera (Petrodromus and Macroscelides), the two African Horn species (Elephantulus revoilii and E. rufescens), and the only North African species (E. rozeti) were clustered together. The second clade includes the remnant south-central African Elephantulus species. Our results were in agreement with both mitochondrial and nuclear data, confirmed that there is no Elephantulus monophyly and highlighted the close relationship between Petrodromus and E. rozeti. It appears that all the soft-furred sengi species are organised in two evolutionary lines: an old monophyletic clade, comprising only Elephantulus species, and a new polyphyletic clade, including P. tetradactylus, M. proboscideus, and E. rozeti. This requires a taxonomic and nomenclatural rearrangement within Macroscelidinae, where the phylogenetic position of the remnant 4 (of 12) Elephantulus species has yet to be fully defined.     

Comparative study on the forefoot and hindfoot intrinsic muscles of some cavioidea rodents (Mammalia, Rodentia)

The present study compares the forefoot and hindfoot musculature of five representative species of Cavioidea rodents. In all species, the musculature of both forefeet and hindfeet have the same array regardless of the absence of digit I in the manus of Hydrochaeris hydrochaeris and Cavia porcellus. Our results suggest a tendency in these species towards a three-digit system, with a functional loss of digit V and a predominance of digit III in their forefeet. In the same way, the muscular reduction of digit I in the other rodents analyzed indicates a four-digit system with predominance of digit II in Myoprocta acouchy and Dasyprocta leporina and of digit V in Agouti paca. There seems to be an association between the muscular arrangement and functional axis of the foot, raising the general question why this axis runs between the third and forth digit, or along the third digit.     

Discrimination of the sibling species Apodemus flavicollis and A. sylvaticus (Rodentia,Muridae)

Karyotyping and several molecular methods have allowed successful identification of two morphologically similar wide-ranging Western Palearctic species, the yellow-necked field mouse Apodemus flavicollis (Melchior, 1934) and the long-tailed wood mouse A. sylvaticus (Linnaeus, 1758), but reliable species diagnosis on the basis of morphometric characters is particularly problematic. Although they are easily morphologically distinguishable in Central and Northern Europe, this is not the case in southern parts of their distribution areas. Despite that, we have successfully discriminated A. flavicollis and A. sylvaticus from Serbia (Southern Europe) using geometric and traditional morphometric methods on a data set for ventral crania of specimens previously genotyped by the Inter Simple Sequence Repeat-PCR (ISSR-PCR). Discrimination power of applied approaches was more or less similar. The majority of our results were consistent with those obtained for specimens collected across the Czech Republic (Central Europe). Morphological differences observed herein, as well as those already reported between A. flavicollis and A. sylvaticus from the central and northern parts of their distribution areas, could be the outcome of their biology, i.e. ecological discrepancies, different assumed evolutionary scenarios considering biogeography, phylogeny, history and ontogeny.     

Evolutionary transformation of the subcutaneous muscle in rodents of Ctenohystrica (Rodentia: Diatomyidae,Ctenodactylidae, and Hystricognathi)

The present study examined the subcutaneous muscle (m. cutaneus trunci) in a relict species Laonastes aenigmamus (Diatomyidae) and in two ctenodactylids (Ctenodactylidae: Ctenodactylus gundi and Pectinator spekei), which are closely related to Laonastes according to current phylogenetic hypotheses. The comparative morphological analysis also included four representatives of Hystricognathi: Echimys sp., Proechimys sp., Cercomys cunicularis, and Hystrix indica. Laonastes and ctenodactylids have a number of common ancestral traits in the morphology of m. cutaneus trunci. This suggests that they are probably related to the ancestral forms of Ctenohystrica. However, the structural similarity of the subcutaneous muscle in Diatomyidae and Ctenodactylidae is based not only on plesiomorphic (presence of the medial head of m. cutaneus trunci), but also on an apomorphic (the development of the thoracoabdominal portion) feature which is common to both branches of Ctenohystrica (Ctenodactiloidea and Hystricognathi). The results of the comparative analysis suggest a new scenario for the evolutionary transformations of m. cutaneus trunci within the clade Ctenohystrica. This scenario differs from earlier suggestions and proposes initial differentiation of the subcutaneous muscle and possibly its secondary simplification, but on a new basis. On this new basis a further secondary increase in complexity of subcutaneous muscle appears possible in response to various adaptations in hystricognaths.     

三维几何形态学概述及其在昆虫学中的应用

长期以来二维（two-dimensional, 2D）数据是几何形态学（geometric morphometrics）分析的最主要的数据类型,在推动几何形态学的发展过程中起到了奠基性的作用,并也解决了很多重大的科学问题,展示了几何形态学强大的科学计算能力与问题解决能力。但有些特殊的科学问题或者特殊的形态结构,无法通过二维数据完美解决,亟需大规模、大尺度三维（three-dimensional, 3D）数据的支持,这对几何形态学的三维化发展提出需求。更重要的是,随着三维数据获取成本的日渐降低,大量三维数据涌现出来。因此,三维几何形态学应运而生。本文对三维几何形态学的原理及其应用进行了概述,重点探讨了三维几何形态学与二维几何形态学的异同点,并对前者的两个发展阶段（少量样本的形态模拟与准定量比较及大量样本的定量比较）进行了概述,评价了四维数据和有限元等方法的应用,指出了该方法在昆虫学领域的发展潜力,最后对该方法在样本量增加、硬件提升、数据分辨率提高、新算法的开发、分析结果的呈现及3D打印等方面的发展趋势进行了展望。     

Morphological evolution in marmots (Rodentia, Sciuridae): size and shape of the dorsal and lateral surfaces of the cranium

Marmots are the largest ground squirrels and have been extensively studied by sociobiologists investigating the evolution of mammal societies. Being a member of the sciurid clade, traditionally considered inclined to convergence, they are also a group on which to test the hypothesis of sciurid propensity to homoplasy of osteological characters. In the present analysis, the dorsal and lateral surfaces of the cranium of all living marmot species are compared with geometric morphometric techniques. Phenetic groups are found which reflect the subgeneric classification of marmots and are consistent with previous morphometric analyses of the mandible and ventral cranium. Two species have distinctive morphologies and phenetic relationships not congruent with phylogeny. Marmota vancouverensis is highly divergent for osteological characters, fur colour and behaviour despite its young age and close genetic similarity to Marmota caligata . Its small population may represent a rare chance to study evolutionary processes during rapid allopatric speciation in mammals, but strong conservation efforts are required to preserve this unique component of the Vancouver Island biodiversity. Also, Marmota monax has distinctive cranial traits. These are possibly related to its long separate evolutionary history and unique ecology and behaviour. Size-related convergence is not evident in Marmota . When outgroup species are included, Spermophilus , Cynomys , Tamias , and Sciurus group together on one branch, Marmota on the other. This is best explained as a retention of the ancestral morphology in the smaller members of the Marmotini ( Spermophilus , Cynomys , and Tamias ) and the evolution of derived morphology in Marmota .     

Reappraisal of the giant caviomorph rodent Phoberomys burmeisteri (Ameghino, 1886) from the late Miocene of northeastern Argentina,and the phylogeny and diversity of Neoepiblemidae

Phoberomys is a giant caviomorph rodent included in the extinct Neoepiblemidae. It is recorded in the late Miocene-Pliocene of South America (Argentina, Venezuela, Brazil and Peru), and is one of the largest rodents that have ever lived. In this contribution we study specimens of Phoberomys from the ‘Mesopotamiense’, late Miocene of Entre Ríos Province (Argentina), including several unpublished specimens and the holotypes of the five nominal species (Ph. burmeisteri, Ph. praecursor, Ph. insolita, Ph. lozanoi and Ph. minima) previously recognised for this unit. Our study indicates that all Mesopotamian specimens belong to Phoberomys burmeisteri, and that the differences among them reveal individual and ontogenetic variation. Our phylogenetic analysis indicates that Neoepiblemidae is monophyletic and includes Phoberomys, Neoepiblema, and Perimys. Phoberomys species are recovered as a clade, which is more closely related to Neoepiblema than to the Patagonian Perimys. In addition, our study shows that Eusigmomys is not a Neoepiblemidae, but a Dinomyidae.