Vibrational Communication of Subterranean Rodents
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Activity Patterns in the Mole-Rats Tachyoryctes Splendens and Heliophobius Argenteocinereus
ACTIVITY PATTERNS IN THE MOLE-RATS TACHYORYCTES SPLENDENS AND HELIOPHOBIUS ARGENTEOCINEREUS JENNIFER u. M. JAR VIS *Zoology Department, University of Nairobi, Kenya ABSTRACT Activity in two unrelated genera of mol~rats, Tachyoryctes and Heiiophobius, was studied in the field by recording the movements of animals tagged with radioactive wire. Tachyoryctes shows a single marked activity peak and only leaves its nest between 10.00 and 19.00 hour. Heiiophobills shows a more dispersed and prolonged activity pattern although peak activity occurs over approximately the same period as in Tachyoryctes. Heilophoblus spends over 50 % of the day out of its nest, Tachyoryctes, under 25%. These differences can be attributed to a different function of the nest in the two genera (Tachy oryctes has a multipurpose nest; Heiiophoblus uses its nest solely for rest), and also to the fact that Tachyoryctes has light-sensitive eyes whereas Heiiophoblus appears unable to appreciate light; Tachyoryctes periodically comes to the surface to forage and this exposure to light may trigger the 24-hour activity cycle. INTRODUCTION The mole-rats Tachyoryctes splendens (Ruppell) and Heliophobius argenteocinereus (Peters) are strictly fossorial rodents, they live in burrow systems of their own making and rarely come above ground. Field observations of their activity are severely hampered by their fossorial existence. This indeed has, until recently, been a limiting factor in studies on activity in many fossorial . mammals. ) 0 1 The development of radioactive tagging techniques has made it possible to study the activity 0 2 of fossorial mammals in their burrows and under natural conditions. Godfrey (1955) labelled d e t Talpa with Cobalt-60 tail rings and then followed their movement underground with a Geiger a d ( Muller counter. -
Comparative Analyses of Past Population Dynamics Between Two Subterranean Zokor Species and the Response to Climate Changes
Turkish Journal of Zoology Turk J Zool (2013) 37: 143-148 http://journals.tubitak.gov.tr/zoology/ © TÜBİTAK Research Article doi:10.3906/zoo-1204-18 Comparative analyses of past population dynamics between two subterranean zokor species and the response to climate changes 1 1 1 1 1 1 Lizhou TANG , Long YU , Weidong LU , Junjie WANG , Mei MA , Xiaodong SHI , 1, 2 Jiangang CHEN *, Tongzuo ZHANG 1 College of Biologic Resource and Environmental Science, Qujing Normal University, Qujing, Yunnan 655011, China 2 Key Laboratory of the Qinghai-Tibetan Plateau Ecosystem and Biological Evolution and Adaptation, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, Qinghai 810001, China Received: 16.04.2012 Accepted: 21.09.2012 Published Online: 25.02.2013 Printed: 25.03.2013 Abstract: The mitochondrial cytochrome b sequences of 34 haplotypes from 114 individuals of Eospalax baileyi and GenBank data of 40 haplotypes from 121 individuals of Eospalax cansus were used to investigate if the Quaternary glaciations on the Qinghai-Tibetan Plateau (QTP) influenced the distribution and colonisation of these 2 species, and if both species presented congruous past population dynamics. The phylogenetic tree indicated a valid status for the genera Eospalax and Myospalax, and an independent species status for E. baileyi and E. cansus. The demographical population history of E. baileyi showed that the effective population size remained stable between 1.00 and 0.50 million years ago (Mya), increased quickly to a peak and fluctuated dramatically between 0.50 and 0.20 Mya, after which a stable level was maintained from 0.20 Mya to the present. -
Transcriptome Analysis of the Liver of Eospalax Fontanierii Under Hypoxia
Transcriptome Analysis of the Liver of Eospalax Fontanierii Under Hypoxia Zhiqiang Hao Shaanxi Normal University College of Life Sciences Lulu Xu Shaanxi Normal University College of Life Sciences Jianping He Shaanxi Normal University College of Life Sciences Guanglin Li Shaanxi Normal University College of Life Sciences Jingang Li ( [email protected] ) Shaanxi Normal University https://orcid.org/0000-0002-5664-0715 Research Keywords: Hypoxia adaptation, Eospalax fontanierii, transcriptome Posted Date: September 15th, 2020 DOI: https://doi.org/10.21203/rs.3.rs-74186/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/27 Abstract Background Hypoxia can induce cell damage, inammation, carcinogenesis, and inhibit liver regeneration in non- adapted species. Because of their excellent hypoxia adaptation features, subterranean rodents have been widely studied to clarify the mechanism of hypoxia adaptation. Eospalax fontanierii, which is a subterranean rodent found in China, can survive for more than 10 h under 4% O2 without observable injury, while Sprague-Dawle rats can survive for less than 6 h under the same conditions. To explore the potential mechanism of hypoxia adaptation in E. fontanierii, we performed RNA-seq analysis of the liver in E. fontanierii exposed to different oxygen levels (6.5%, 10.5%, and 21%). Results Based on the bioinformatics analysis, 39,439 unigenes were assembled, and 56.78% unigenes were annotated using public databases (Nr, GO, Swiss-Prot, KEGG, and Pfam). In total, 725 differentially expressed genes (DEGs) were identied in the response to hypoxia; six with important functions were validated by qPCR. -
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Lin et al. BMC Genomics 2014, 15:32 http://www.biomedcentral.com/1471-2164/15/32 RESEARCH ARTICLE Open Access Transcriptome sequencing and phylogenomic resolution within Spalacidae (Rodentia) Gong-Hua Lin1, Kun Wang2, Xiao-Gong Deng1,3, Eviatar Nevo4, Fang Zhao1, Jian-Ping Su1, Song-Chang Guo1, Tong-Zuo Zhang1* and Huabin Zhao5* Abstract Background: Subterranean mammals have been of great interest for evolutionary biologists because of their highly specialized traits for the life underground. Owing to the convergence of morphological traits and the incongruence of molecular evidence, the phylogenetic relationships among three subfamilies Myospalacinae (zokors), Spalacinae (blind mole rats) and Rhizomyinae (bamboo rats) within the family Spalacidae remain unresolved. Here, we performed de novo transcriptome sequencing of four RNA-seq libraries prepared from brain and liver tissues of a plateau zokor (Eospalax baileyi) and a hoary bamboo rat (Rhizomys pruinosus), and analyzed the transcriptome sequences alongside a published transcriptome of the Middle East blind mole rat (Spalax galili). We characterize the transcriptome assemblies of the two spalacids, and recover the phylogeny of the three subfamilies using a phylogenomic approach. Results: Approximately 50.3 million clean reads from the zokor and 140.8 million clean reads from the bamboo ratwere generated by Illumina paired-end RNA-seq technology. All clean reads were assembled into 138,872 (the zokor) and 157,167 (the bamboo rat) unigenes, which were annotated by the public databases: the Swiss-prot, Trembl, NCBI non-redundant protein (NR), NCBI nucleotide sequence (NT), Gene Ontology (GO), Cluster of Orthologous Groups (COG), and Kyoto Encyclopedia of Genes and Genomes (KEGG). -
Tissue Specific Regulatory Network Annotation for Non-Coding Elements
Quantitative Biology 2020, 8(1): 43–50 https://doi.org/10.1007/s40484-020-0195-4 RESEARCH ARTICLE ZokorDB: tissue specificregulatorynetwork annotation for non-coding elements of plateau zokor Jingxue Xin1,6,7,†, Junjun Hao2,†, Lang Chen1, Tao Zhang3, Lei Li1,5,7, Luonan Chen3,5, Wenmin Zhao4, Xuemei Lu2,5, Peng Shi2,5,*, Yong Wang1,5,7,* 1 CEMS, NCMIS, MDIS, Academy of Mathematics and Systems Science, Chinese Academy of Sciences, Beijing 100190, China 2 State Key Laboratory of Genetic Resources and Evolution, Laboratory of Evolutionary and Functional Genomics, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China 3 Key Laboratory of Systems Biology, Innovation Center for Cell Signaling Network, Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China 4 Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China 5 Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming 650223, China 6 Department of Statistics, Department of Biomedical Data Science, Bio-X Program, Stanford University, Stanford, CA 94305, USA 7 University of Chinese Academy of Sciences, Beijing 100049, China * Correspondence: [email protected], [email protected] Received September 4, 2019; Revised December 16, 2019; Accepted December 23, 2019 Background: Plateau zokor inhabits in sealed burrows from 2,000 to 4,200 meters at Qinghai-Tibet Plateau. This extreme living environment makes it a great model to study animal adaptation to hypoxia, low temperature, and high carbon dioxide concentration. Methods: We provide an integrated resource, ZokorDB, for tissue specific regulatory network annotation for zokor. -
Comparative Phylogeography of the Plateau Zokor (Eospalax Baileyi
Lin et al. BMC Evolutionary Biology 2014, 14:180 http://www.biomedcentral.com/1471-2148/14/180 RESEARCH ARTICLE Open Access Comparative phylogeography of the plateau zokor (Eospalax baileyi) and its host-associated flea (Neopsylla paranoma) in the Qinghai-Tibet Plateau Gonghua Lin1, Fang Zhao1,2, Hongjian Chen3, Xiaogong Deng1,2, Jianping Su1 and Tongzuo Zhang1* Abstract Background: Specific host-parasite systems often embody a particular co-distribution phenomenon, in which the parasite’s phylogeographic pattern is dependent on its host. In practice, however, both congruent and incongruent phylogeographic patterns between the host and the parasite have been reported. Here, we compared the population genetics of the plateau zokor (Eospalax baileyi), a subterranean rodent, and its host-associated flea species, Neopsylla paranoma, with an aim to determine whether the two animals share a similar phylogeographic pattern. Results: We sampled 130 host-parasite pairs from 17 localities in the Qinghai-Tibet Plateau (QTP), China, and sequenced a mitochondrial DNA (mtDNA) segment (~2,500 bp), including the complete COI and COII genes. We also detected 55 zokor and 75 flea haplotypes. AMOVA showed that the percentage of variation among the populations of zokors constituted 97.10%, while the within population variation was only 2.90%; for fleas, the values were 85.68% and 14.32%, respectively. Moreover, the flea Fst (fixation index) values were significantly smaller than in zokor. Although the Fst values between zokors and fleas were significantly and positively correlated (N =105, R =0.439, p =0.000), only a small amount (R2= 0.19) of the flea Fst variations could be explained by the zokor Fst variations. -
Mammals of the Kafa Biosphere Reserve Holger Meinig, Dr Meheretu Yonas, Ondřej Mikula, Mengistu Wale and Abiyu Tadele
NABU’s Follow-up BiodiversityAssessmentBiosphereEthiopia Reserve, Follow-up NABU’s Kafa the at NABU’s Follow-up Biodiversity Assessment at the Kafa Biosphere Reserve, Ethiopia Small- and medium-sized mammals of the Kafa Biosphere Reserve Holger Meinig, Dr Meheretu Yonas, Ondřej Mikula, Mengistu Wale and Abiyu Tadele Table of Contents Small- and medium-sized mammals of the Kafa Biosphere Reserve 130 1. Introduction 132 2. Materials and methods 133 2.1 Study area 133 2.2 Sampling methods 133 2.3 Data analysis 133 3. Results and discussion 134 3.1 Soricomorpha 134 3.2 Rodentia 134 3.3 Records of mammal species other than Soricomorpha or Rodentia 140 4. Evaluation of survey results 143 5. Conclusions and recommendations for conservation and monitoring 143 6. Acknowledgements 143 7. References 144 8. Annex 147 8.1 Tables 147 8.2 Photos 152 NABU’s Follow-up Biodiversity Assessment at the Kafa Biosphere Reserve, Ethiopia Small- and medium-sized mammals of the Kafa Biosphere Reserve Holger Meinig, Dr Meheretu Yonas, Ondřej Mikula, Mengistu Wale and Abiyu Tadele 130 SMALL AND MEDIUM-SIZED MAMMALS Highlights ´ Eight species of rodents and one species of Soricomorpha were found. ´ Five of the rodent species (Tachyoryctes sp.3 sensu (Sumbera et al., 2018)), Lophuromys chrysopus and L. brunneus, Mus (Nannomys) mahomet and Desmomys harringtoni) are Ethiopian endemics. ´ The Ethiopian White-footed Mouse (Stenocephalemys albipes) is nearly endemic; it also occurs in Eritrea. ´ Together with the Ethiopian Vlei Rat (Otomys fortior) and the African Marsh Rat (Dasymys griseifrons) that were collected only during the 2014 survey, seven endemic rodent species are known to occur in the Kafa region, which supports 12% of the known endemic species of the country. -
Micheal L. Dent Richard R. Fay Arthur N. Popper Editors Rodent Bioacoustics Springer Handbook of Auditory Research
Springer Handbook of Auditory Research Micheal L. Dent Richard R. Fay Arthur N. Popper Editors Rodent Bioacoustics Springer Handbook of Auditory Research Volume 67 Series Editor Richard R. Fay, Ph.D., Loyola University Chicago, Chicago, IL, USA Arthur N. Popper, Ph.D., University of Maryland, College Park, MD, USA Editorial Board Karen Avraham, Ph.D., Tel Aviv University, Israel Andrew Bass, Ph.D., Cornell University Lisa Cunningham, Ph.D., National Institutes of Health Bernd Fritzsch, Ph.D., University of Iowa Andrew Groves, Ph.D., Baylor University Ronna Hertzano, M.D., Ph.D., School of Medicine, University of Maryland Colleen Le Prell, Ph.D., University of Texas, Dallas Ruth Litovsky, Ph.D., University of Wisconsin Paul Manis, Ph.D., University of North Carolina Geoffrey Manley, Ph.D., University of Oldenburg, Germany Brian Moore, Ph.D., Cambridge University, UK Andrea Simmons, Ph.D., Brown University William Yost, Ph.D., Arizona State University More information about this series at http://www.springer.com/series/2506 The ASA Press The ASA Press imprint represents a collaboration between the Acoustical Society of America and Springer dedicated to encouraging the publication of important new books in acoustics. Published titles are intended to reflect the full range of research in acoustics. ASA Press books can include all types of books published by Springer and may appear in any appropriate Springer book series. Editorial Board Mark F. Hamilton (Chair), University of Texas at Austin James Cottingham, Coe College Diana Deutsch, University of California, San Diego Timothy F. Duda, Woods Hole Oceanographic Institution Robin Glosemeyer Petrone, Threshold Acoustics William M. -
Taxonomy and Phylogenetic Relationship of Zokors
Journal of Genetics (2020)99:38 Ó Indian Academy of Sciences https://doi.org/10.1007/s12041-020-01200-2 (0123456789().,-volV)(0123456789().,-volV) RESEARCH ARTICLE Taxonomy and phylogenetic relationship of zokors YAO ZOU1, MIAO XU1, SHIEN REN1, NANNAN LIANG1, CHONGXUAN HAN1*, XIAONING NAN1* and JIANNING SHI2 1Key Laboratory of National Forestry and Grassland Administration on Management of Western Forest Bio-Disaster, Northwest Agriculture and Forestry University, Yangling 712100, People’s Republic of China 2Ningxia Hui Autonomous Region Forest Disease and Pest Control Quarantine Station, Yinchuan 750001, People’s Republic of China *For correspondence. E-mail: Chongxuan Han, [email protected]; Xiaoning Nan, [email protected]. Received 24 October 2019; revised 19 February 2020; accepted 2 March 2020 Abstract. Zokor (Myospalacinae) is one of the subterranean rodents, endemic to east Asia. Due to the convergent and parallel evolution induced by its special lifestyles, the controversies in morphological classification of zokor appeared at the level of family and genus. To resolve these controversies about taxonomy and phylogeny, the phylogenetic relationships of 20 species of Muroidea and six species of zokors were studied based on complete mitochondrial genome and mitochondrial Cytb gene, respectively. Phylogeny analysis of 20 species of Muroidea indicated that the zokor belonged to the family Spalacidae, and it was closer to mole rat rather than bamboo rat. Besides, by investigating the phylogenetic relationships of six species of zokors, the status of two genera of Eospalax and Myospalax was affirmed because the two clades differentiated in phylogenetic tree represented two types of zokors, convex occiput type and flat occiput type, respectively. -
Chapter 4 the Antiquity of Rhizomys and Independent Acquisition of Fossorial Traits in Subterranean Muroids
Chapter 4 The Antiquity of Rhizomys and Independent Acquisition of Fossorial Traits in Subterranean Muroids LAWRENCE J. FLYNN1 ABSTRACT In parallel with the growing body of molecular data bearing on the relationships of muroids, particularly subterranean lineages, the relevant fossil record has improved to the point that its data constrain scenarios of evolution about both the timing and mode of evolution of burrowing muroids, especially bamboo rats, blind mole rats, and zokors. Morphologists have considered these groups phylogenetically distinct from each other, but the three lineages appear to be related as a monophyletic Family Spalacidae, sister taxon to all other living muroids, based on both nuclear and mitochondrial genes. Although living genera are fully subterranean, the fossil record shows that the three groups evolved burrowing characteristics independently. Bamboo rats (Rhizomyinae) have the longest fossil record, extending into the Late Oligocene, but do not show fossorial traits until the Late Miocene. Blind mole rats (Spalacinae) have a fossil record nearly that long, and its early members also lack burrowing traits. Zokors (Myospalacinae) show characteristics considered derived relative to other groups, and have a shorter fossil record. The fossil record of the Tribe Rhizomyini, living Asian bamboo rats, extends to about 10 million years ago, with early species distinct at the generic level from living Rhizomys. The oldest well- known species assignable to an extant genus is Rhizomys (Brachyrhizomys) shansius from the early Pliocene of Yushe Basin, China, north of the geographic range of modern Rhizomys.A hypothesis of close relationship of bamboo rats, blind mole rats, and zokors leads to a reevaluation of affinities of certain Asian fossil taxa and reevaluation of polarity of some features, but molecular data are not yet robust enough to clarify interrelationships of the groups. -
Hystrx It. J. Mamm. (Ns) Supp. (2007) V European Congress of Mammalogy
Hystrx It. J. Mamm . (n.s.) Supp. (2007) V European Congress of Mammalogy RODENTS AND LAGOMORPHS 51 Hystrx It. J. Mamm . (n.s.) Supp. (2007) V European Congress of Mammalogy 52 Hystrx It. J. Mamm . (n.s.) Supp. (2007) V European Congress of Mammalogy A COMPARATIVE GEOMETRIC MORPHOMETRIC ANALYSIS OF NON-GEOGRAPHIC VARIATION IN TWO SPECIES OF MURID RODENTS, AETHOMYS INEPTUS FROM SOUTH AFRICA AND ARVICANTHIS NILOTICUS FROM SUDAN EITIMAD H. ABDEL-RAHMAN 1, CHRISTIAN T. CHIMIMBA, PETER J. TAYLOR, GIANCARLO CONTRAFATTO, JENNIFER M. LAMB 1 Sudan Natural History Museum, Faculty of Science, University of Khartoum P. O. Box 321 Khartoum, Sudan Non-geographic morphometric variation particularly at the level of sexual dimorphism and age variation has been extensively documented in many organisms including rodents, and is useful for establishing whether to analyse sexes separately or together and for selecting adult specimens to consider for subsequent data recording and analysis. However, such studies have largely been based on linear measurement-based traditional morphometric analyses that mainly focus on the partitioning of overall size- rather than shape-related morphological variation. Nevertheless, recent advances in unit-free, landmark/outline-based geometric morphometric analyses offer a new tool to assess shape-related morphological variation. In the present study, we used geometric morphometric analysis to comparatively evaluate non-geographic variation in two geographically disparate murid rodent species, Aethmoys ineptus from South Africa and Arvicanthis niloticus from Sudan , the results of which are also compared with previously published results based on traditional morphometric data. Our results show that while the results of the traditional morphometric analyses of both species were congruent, they were not sensitive enough to detect some signals of non-geographic morphological variation. -
Ecologically-Based Management of Rodent Pests ECOLOGICALL V-BASED MANAGEMENT of RODENT PESTS
Ecologically-based Management of Rodent Pests ECOLOGICALL V-BASED MANAGEMENT OF RODENT PESTS Edited by: Grant R. Singleton, Lyn A. Hinds, Herwig Leirs and Zhibin Zhang Australian Centre for International Agricultural Research Canberra 1999 The Australian Centre for International Agricultural Research (ACIAR) was established in June 1982 by an Act of the Australian Parliament. Its primary mandate is to help identify agricultural problems in developing countries and to commission collaborative research between Australian and developing country researchers in fields where Australia has special competence. Where trade names are used this constitutes neither endorsement of nor discrimination against any product by the Centre. ACIAR MONOGRAPH SERIES This peer-reviewed series contains the results of original research supported by ACIAR, or deemed relevant to ACIAR's research objectives. The series is distributed internationally, with an emphasis on the Third World ©Australian Centre for International Agricultural Research GPO Box Canberra, ACT 2601. Singleton, C.R., Hinds, L.A., Leirs, H. and Zhang, Z.ed. 1999. Ecologically-based management of rodent ACIAR Monograph No. 59, 494p. ISBN 1 86320 262 5 Editing and design by Arawang Communication Croup, Canberra Printed by Brown Prior Anderson, Melbourne, Australia page Author Contact Details 8 Abbreviations 12 List of Species 13 Preface 15 1. Ecologically-based Management of Rodent Pests-Re-evaluating 17 Our Approach to an Old Problem Grant R. Singleton, Herwig Leirs, Lyn A. Hinds and Zhibin Zhang Section 1 Basic Research - the Foundation for Sound Management 31 2. Current Paradigms of Rodent Population Dynamics- 33 What Are We Missing? Charles J. Krebs 3. The Behaviour and Ecology of Rattus norvegicus: from Opportunism to 49 Kamikaze Tendencies David W.