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Borisova NG, Nikulin AA, Nikulina NA, Popov SV, Starkov AI, Lenkhoboeva SY. Finds of the Turuchan Pika (Ochotona turuchanensis Naumov 1934) on the Primorsky Mountain Ridge (Irkutsk Oblast). BIOL BULL+ 2022. [DOI: 10.1134/s1062359022090072] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
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2
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Zhao XX, Piao ZW, Yang QJ, Zhang Q, Yao QQ, Zhang JS, Liu Z. Sequencing and analysis of the complete mitochondrial genome of Ochotona hyperborea from China and its phylogenetic analysis. Mitochondrial DNA B Resour 2021; 6:1805-1807. [PMID: 34124354 PMCID: PMC8174475 DOI: 10.1080/23802359.2021.1934137] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2020] [Accepted: 05/15/2021] [Indexed: 12/05/2022] Open
Abstract
The complete mitogenome sequence of Ochotona hyperborea was determined using long PCR. The genome was 17,063 bp in length and contained 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA genes, one origin of L strand replication, and one control region. The overall base composition of the heavy strand is A (31.1%), C (28.7%), T (26.3%), and G (13.9%). The base compositions present clearly the A-T skew, which is most obvious in the control region and protein-coding genes. Mitochondrial genome analyses based on MP, ML, NJ, and Bayesian analyses yielded identical phylogenetic trees. This study verifies the evolutionary status of Ochotona hyperborea in Ochotonidae at the molecular level. The mitochondrial genome would be a significant supplement for the Ochotona hyperborea genetic background. The eight Ochotona species formed a monophyletic group with the high bootstrap value (100%) in all examinations.
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Affiliation(s)
- Xin-Xu Zhao
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Zhong-Wan Piao
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Qiao-Jiang Yang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Qi Zhang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Qian-Qian Yao
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Jun-Sheng Zhang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Zhu Liu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
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3
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Lissovsky AA, Obolenskaya EV, Dokuchaev NE, Okhlopkov IM. Intraspecific variation and taxonomy of northern pika Ochotona hyperborea (Mammalia, Lagomorpha). J Mammal 2021. [DOI: 10.1093/jmammal/gyaa150] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Abstract
Rock-dwelling pikas of the genus Ochotona have fragmented montane geographical distribution presumably associated with geological and climatic events of Late Quaternary. Within this genus, the northern pika, O. hyperborea has the widest distribution. Taxonomic composition and subspecific structure of this species has been controversial during the past century. Sixteen available names were combined in different manners into a variable number of weakly overlapping subspecies by previous authors. A comparison of data sets from the entire distribution range of northern pikas is presented here for the first time, including: craniometric, bioacoustic, and multilocus genetic data. We examined 301 skulls, and the mitochondrial COI gene and two nuclear introns in 79 specimens, as well as the structure of alarm calls from 107 individuals. Our results show that the six subspecies within O. hyperborea correspond to the six genetic parapatric lineages. Five of these are hypothesized to be involved in hybridization at the edges of their distribution. Three acoustic races completely correspond with the six genetic lineages: each acoustic race consists of two lineages. Morphometric data do not display any phylogenetic signal in our study. The subspecies from the Mountains of Khabarovsk Territory, north of Amur River, is described de novo as O. h. fedoseevi ssp. n. The type locality of O. hyperborea is defined more accurately. A neotype is designated for O. h. cinereofusca to stabilize use of names of pikas from the Amur region.
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Affiliation(s)
- Andrey A Lissovsky
- Zoological Museum, Moscow State University, B. Nikitskaya, 6, Moscow, Russia
| | | | - Nikolai E Dokuchaev
- Institute of Biological Problems of the North, Far East Branch of Russian Academy of Sciences, Portovaya str. 18, Magadan, Russia
| | - Innokentiy M Okhlopkov
- Institute of Biological Problems of Cryolithozone, prospekt Lenina, 41, Yakutsk, Sakha Republic (Yakutia), Russia
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The structure of morphological variation in the shape of occlusal surface of permanent teeth in pikas Ochotona (Lagomorpha: Ochotonidae). RUSSIAN JOURNAL OF THERIOLOGY 2018. [DOI: 10.15298/rusjtheriol.17.2.05] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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5
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Volodin IA, Matrosova VA, Frey R, Kozhevnikova JD, Isaeva IL, Volodina EV. Altai pika (Ochotona alpina) alarm calls: individual acoustic variation and the phenomenon of call-synchronous ear folding behavior. THE SCIENCE OF NATURE - NATURWISSENSCHAFTEN 2018; 105:40. [PMID: 29892847 DOI: 10.1007/s00114-018-1567-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/03/2018] [Revised: 05/25/2018] [Accepted: 05/29/2018] [Indexed: 11/24/2022]
Abstract
Non-hibernating pikas collect winter food reserves and store them in hay piles. Individualization of alarm calls might allow discrimination between colony members and conspecifics trying to steal food items from a colony pile. We investigated vocal posture, vocal tract length, and individual acoustic variation of alarm calls, emitted by wild-living Altai pikas Ochotona alpina toward a researcher. Recording started when a pika started calling and lasted as long as possible. The alarm call series of 442 individual callers from different colonies consisted of discrete short (0.073-0.157 s), high-frequency (7.31-15.46 kHz), and frequency-modulated calls separated by irregular intervals. Analysis of 442 discrete calls, the second of each series, revealed that 44.34% calls lacked nonlinear phenomena, in 7.02% nonlinear phenomena covered less than half of call duration, and in 48.64% nonlinear phenomena covered more than half of call duration. Peak frequencies varied among individuals but always fitted one of three maxima corresponding to the vocal tract resonance frequencies (formants) calculated for an estimated 45-mm oral vocal tract. Discriminant analysis using variables of 8 calls per series of 36 different callers, each from a different colony, correctly assigned over 90% of the calls to individuals. Consequently, Altai pika alarm calls are individualistic and nonlinear phenomena might further increase this acoustic individualization. Additionally, video analysis revealed a call-synchronous, very fast (0.13-0.23 s) folding, depression, and subsequent re-expansion of the pinna confirming an earlier report of this behavior that apparently contributes to protecting the hearing apparatus from damage by the self-generated high-intensity alarm calls.
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Affiliation(s)
- Ilya A Volodin
- Department of Vertebrate Zoology, Faculty of Biology, Lomonosov Moscow State University, Vorobievy Gory, 12/1, Moscow, 119234, Russia. .,Scientific Research Department, Moscow Zoo, B. Gruzinskaya str., 1, Moscow, 123242, Russia.
| | - Vera A Matrosova
- Department of Structural and Functional Genomics, Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Vavilov str., 32, Moscow, 119991, Russia
| | - Roland Frey
- Department of Reproduction Management, Leibniz Institute for Zoo and Wildlife Research (IZW), Alfred-Kowalke-Str. 17, Berlin, Germany
| | - Julia D Kozhevnikova
- Department of Vertebrate Zoology, Faculty of Biology, Lomonosov Moscow State University, Vorobievy Gory, 12/1, Moscow, 119234, Russia
| | - Inna L Isaeva
- Scientific Research Department, Khakasskiy State Nature Reserve, Tsukanov str., 164, Abakan, 655017, Russia
| | - Elena V Volodina
- Scientific Research Department, Moscow Zoo, B. Gruzinskaya str., 1, Moscow, 123242, Russia
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Cytogenetic characteristics of pikas Ochotona hyperborea and O. mantchurica (Lagomorpha, Mammalia) in the Amur River Basin. RUSSIAN JOURNAL OF THERIOLOGY 2016. [DOI: 10.15298/rusjtheriol.15.2.02] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Koju NP, He K, Chalise MK, Ray C, Chen Z, Zhang B, Wan T, Chen S, Jiang X. Multilocus approaches reveal underestimated species diversity and inter-specific gene flow in pikas (Ochotona) from southwestern China. Mol Phylogenet Evol 2016; 107:239-245. [PMID: 27838310 DOI: 10.1016/j.ympev.2016.11.005] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2016] [Revised: 11/05/2016] [Accepted: 11/08/2016] [Indexed: 11/30/2022]
Abstract
The phylogeny of living pikas (Ochotonidae, Ochotona) remains obscure, and pika species diversity in southwestern China has never been well explored. In this study, 96 tissue samples from 11 valid species in three classified subgenera (Pika, Ochotona and Conothoa) from 23 locations were characterized using multilocus sequences of 7031bp. Two mitochondrial (CYT B and COI) and five nuclear gene segments (RAG1, RAG2, TTN, OXAIL and IL1RAPL1) were sequenced. We analysed evolutionary histories using maximum likelihood (RAxML) and Bayesian analyses (BEAST), and we also used molecular species delimitation analyses (BPP) to explore species diversity. Our study supported O. syrinx (O. huangensis) as a distinct clade from all named subgenera. Relationships among subgenera were not fully resolved, which may be due to a rapid diversification in the middle Miocene (∼13.90Ma). Conflicting gene trees implied mitochondrial introgression from O. cansus to O. curzoniae. We uncovered three cryptic species from Shaanxi, Sichuan and Yunnan with strong support, suggesting an underestimation of species diversity in the "sky-island" mountains of southwest China.
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Affiliation(s)
- Narayan Prasad Koju
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China; Kunming College of Life Science, University of Chinese Academy of Sciences, Kunming 650223, China; Central Department of Zoology, Tribhuvan University, Kathmandu, Nepal
| | - Kai He
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China; Smithsonian Institution, National Museum of Natural History, Washington, DC 20004, USA; The Kyoto University Museum, Kyoto University, Kyoto 606-8501, Japan.
| | | | - Chris Ray
- Department of Ecology and Evolutionary Biology and Institute of Arctic and Alpine Research, University of Colorado-Boulder, 450 UCB, Boulder, CO 80309-0450, USA
| | - Zhongzheng Chen
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China; Kunming College of Life Science, University of Chinese Academy of Sciences, Kunming 650223, China
| | - Bin Zhang
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China; Kunming College of Life Science, University of Chinese Academy of Sciences, Kunming 650223, China
| | - Tao Wan
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
| | - Shunde Chen
- College of Life Sciences, Sichuan Normal University, Chengdu 610066, China
| | - Xuelong Jiang
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China.
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Lissovsky AA, Yatsentyuk SP, Ge D. Phylogeny and taxonomic reassessment of pikasOchotona pallasiiandO. argentata(Mammalia, Lagomorpha). ZOOL SCR 2016. [DOI: 10.1111/zsc.12180] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Andrey A. Lissovsky
- Zoological Museum; Moscow State University; B. Nikitskaya, 6 Moscow 125009 Russia
| | - Svetlana P. Yatsentyuk
- The All-Russian State Center for Quality and Standardization of Veterinary Drugs and Feed; Zvenigorodskoe Avenue, 5 Moscow 123022 Russia
| | - Deyan Ge
- Key Laboratory of Zoological Systematics and Evolution; Institute of Zoology; Chinese Academy of Sciences; Beichen West Road, Chaoyang District Beijing 100101 China
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A new subspecies of Manchurian pika Ochotona mantchurica (Lagomorpha, Ochotonidae) from the Lesser Khinggan Range, China. RUSSIAN JOURNAL OF THERIOLOGY 2015. [DOI: 10.15298/rusjtheriol.14.2.03] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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10
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Melo-Ferreira J, Lemos de Matos A, Areal H, Lissovsky AA, Carneiro M, Esteves PJ. The phylogeny of pikas (Ochotona) inferred from a multilocus coalescent approach. Mol Phylogenet Evol 2015; 84:240-4. [PMID: 25637497 DOI: 10.1016/j.ympev.2015.01.004] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2014] [Revised: 12/18/2014] [Accepted: 01/19/2015] [Indexed: 11/18/2022]
Abstract
The clarification of the systematics of pikas (genus Ochotona) has been hindered by largely overlapping morphological characters among species and the lack of a comprehensive molecular phylogeny. Here we estimate the first multilocus phylogeny of the genus to date, by analysing 12 nuclear DNA markers (total of 7.5Kb) in 11 species of pikas from the four classified subgenera (Pika, Ochotona, Lagotona and Conothoa) using a multispecies coalescent-based framework. The species-tree confirmed the subgeneric classification by retrieving as monophyletic the subgenera represented here by more than one species. Contrary to previous phylogenies based on mtDNA alone, Lagotona was found to be sister to Pika. Also, support for the monophyly of the alpina group was not strong, thus caution should be used in future analyses of this group. A relaxed molecular clock calibrated using the Ochotonidae-Leporidae divergence resulted in more recent estimates of divergence times relative to previous studies. Strong concordance with inferences based on fossil records was found, suggesting that the initial diversification of the genus took place by the end of late Miocene. Finally, this work sets up methodologies and gathers molecular markers that can be used to extend the understanding of the evolutionary history of the genus.
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Affiliation(s)
- José Melo-Ferreira
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, InBIO, Laboratório Associado, Campus Agrário de Vairão, 4485-661 Vairão, Portugal.
| | - Ana Lemos de Matos
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, InBIO, Laboratório Associado, Campus Agrário de Vairão, 4485-661 Vairão, Portugal; Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, 4099-002 Porto, Portugal
| | - Helena Areal
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, InBIO, Laboratório Associado, Campus Agrário de Vairão, 4485-661 Vairão, Portugal; Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, 4099-002 Porto, Portugal
| | - Andrey A Lissovsky
- Zoological Museum of Moscow State University, B. Nikitskaya, 6, Moscow 125009, Russia
| | - Miguel Carneiro
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, InBIO, Laboratório Associado, Campus Agrário de Vairão, 4485-661 Vairão, Portugal
| | - Pedro J Esteves
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, InBIO, Laboratório Associado, Campus Agrário de Vairão, 4485-661 Vairão, Portugal; CITS, Centro de Investigação em Tecnologias da Saúde, IPSN, CESPU, Gandra, Portugal
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A cytogenetic, molecular genetic and morphological study of Patagonian chinchilla mice Euneomys (Rodentia, Cricetidae) in the Southern Central Andes. MAMMAL RES 2014. [DOI: 10.1007/s13364-014-0200-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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12
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Korrodi-Gregório L, Margarida Lopes A, Esteves SLC, Afonso S, Lemos de Matos A, Lissovsky AA, da Cruz e Silva OAB, da Cruz e Silva EF, Esteves PJ, Fardilha M. An intriguing shift occurs in the novel protein phosphatase 1 binding partner, TCTEX1D4: evidence of positive selection in a pika model. PLoS One 2013; 8:e77236. [PMID: 24130861 PMCID: PMC3795061 DOI: 10.1371/journal.pone.0077236] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2013] [Accepted: 09/01/2013] [Indexed: 12/21/2022] Open
Abstract
T-complex testis expressed protein 1 domain containing 4 (TCTEX1D4) contains the canonical phosphoprotein phosphatase 1 (PPP1) binding motif, composed by the amino acid sequence RVSF. We identified and validated the binding of TCTEX1D4 to PPP1 and demonstrated that indeed this protein is a novel PPP1 interacting protein. Analyses of twenty-one mammalian species available in public databases and seven Lagomorpha sequences obtained in this work showed that the PPP1 binding motif 90RVSF93 is present in all of them and is flanked by a palindromic sequence, PLGS, except in three species of pikas (Ochotona princeps, O. dauurica and O. pusilla). Furthermore, for the Ochotona species an extra glycosylation site, motif 96NLS98, and the loss of the palindromic sequence were observed. Comparison with other lagomorphs suggests that this event happened before the Ochotona radiation. The dN/dS for the sequence region comprising the PPP1 binding motif and the flanking palindrome highly supports the hypothesis that for Ochotona species this region has been evolving under positive selection. In addition, mutational screening shows that the ability of pikas TCTEX1D4 to bind to PPP1 is maintained, although the PPP1 binding motif is disrupted, and the N- and C-terminal surrounding residues are also abrogated. These observations suggest pika as an ideal model to study novel PPP1 complexes regulatory mechanisms.
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Affiliation(s)
- Luís Korrodi-Gregório
- Laboratory of Signal Transduction, Centre for Cell Biology, Health Sciences Department and Biology Department, University of Aveiro, Aveiro, Portugal
| | - Ana Margarida Lopes
- CIBIO/UP, Centro de Investigação em Biodiversidade e Recursos Genéticos/Universidade do Porto, InBio, Laboratório Associado, Vairão, Portugal
- Departamento de Zoologia e Antropologia, Faculdade de Ciências da Universidade do Porto, Porto, Portugal
- INSERM, Institut National de la Santé et de la Recherche Médicale, Unit 892, Université de Nantes, Nantes, France
| | - Sara L. C. Esteves
- Laboratory of Signal Transduction, Centre for Cell Biology, Health Sciences Department and Biology Department, University of Aveiro, Aveiro, Portugal
| | - Sandra Afonso
- CIBIO/UP, Centro de Investigação em Biodiversidade e Recursos Genéticos/Universidade do Porto, InBio, Laboratório Associado, Vairão, Portugal
| | - Ana Lemos de Matos
- CIBIO/UP, Centro de Investigação em Biodiversidade e Recursos Genéticos/Universidade do Porto, InBio, Laboratório Associado, Vairão, Portugal
- Department of Microbiology and Immunology, Stritch School of Medicine, Loyola University Chicago, Maywood, Illinois, United States of America
| | | | - Odete A. B. da Cruz e Silva
- Laboratory of Neurosciences, Centre for Cell Biology, Health Sciences Department and Biology Department, University of Aveiro, Aveiro, Portugal
| | - Edgar F. da Cruz e Silva
- Laboratory of Signal Transduction, Centre for Cell Biology, Health Sciences Department and Biology Department, University of Aveiro, Aveiro, Portugal
| | - Pedro José Esteves
- CIBIO/UP, Centro de Investigação em Biodiversidade e Recursos Genéticos/Universidade do Porto, InBio, Laboratório Associado, Vairão, Portugal
- CESPU, Instituto de Investigação e Formação Avançada em Ciências e Tecnologias da Saúde, Gandra PRD, Portugal
- * E-mail: (MF); (PJE)
| | - Margarida Fardilha
- Laboratory of Signal Transduction, Centre for Cell Biology, Health Sciences Department and Biology Department, University of Aveiro, Aveiro, Portugal
- * E-mail: (MF); (PJE)
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Reese AT, Lanier HC, Sargis EJ. Skeletal indicators of ecological specialization in pika (Mammalia, Ochotonidae). J Morphol 2013; 274:585-602. [DOI: 10.1002/jmor.20127] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2012] [Revised: 11/16/2012] [Accepted: 12/16/2012] [Indexed: 11/08/2022]
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Vakurin AA, Korablev VP, Xue-Long J, Grigor'eva TV. The chromosomes of Tsing-Ling pika, Ochotona huangensis Matschie, 1908 (Lagomorpha, Ochotonidae). COMPARATIVE CYTOGENETICS 2012; 6:347-58. [PMID: 24260675 PMCID: PMC3834567 DOI: 10.3897/compcytogen.v6i4.3183] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/03/2012] [Accepted: 09/18/2012] [Indexed: 06/02/2023]
Abstract
The karyotype of the Tsing-Ling (Huanghe) pika, Ochotona huangensis Matschie, 1908 from the forest habitats of the Qinling Mountains (Shaanxi Province, China) was described for the first time. The chromosome set contains 42 chromosomes (NFa=80). The autosomes are 15 meta-submetacentric pairs and 5 subtelocentric pairs. The X chromosome is a medium sized submetacentric; the Y chromosome is a small sized acrocentric. C-banding revealed a localization of heterochromatin in the pericentromeric regions of all autosomes.
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Affiliation(s)
- Alexey A. Vakurin
- Institute of Biology and Soil Science, Far Eastern Branch of the Russian Academy of Sciences; pr. Stoletiya 159, Vladivostok, 690022, Russia
| | - Vladimir P. Korablev
- Institute of Biology and Soil Science, Far Eastern Branch of the Russian Academy of Sciences; pr. Stoletiya 159, Vladivostok, 690022, Russia
| | - Jiang Xue-Long
- Kunming Institute of Zoology, the Chinese Academy of Sciences; Kunming, Yunnan, 650223, China
| | - Tat'iana V. Grigor'eva
- Faculty of Biology, M. V. Lomonosov Moscow State University; Vorob’evy Gory 1, p. 12, Moscow, 119991, Russia
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15
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Yu F, Li S, Kilpatrick WC, McGuire PM, He K, Wei W. Biogeographical Study of Plateau PikasOchotona curzoniae(Lagomorpha, Ochotonidae). Zoolog Sci 2012; 29:518-26. [DOI: 10.2108/zsj.29.518] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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16
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Galbreath KE, Hoberg EP. Return to Beringia: parasites reveal cryptic biogeographic history of North American pikas. Proc Biol Sci 2012; 279:371-8. [PMID: 21676975 PMCID: PMC3223664 DOI: 10.1098/rspb.2011.0482] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2011] [Accepted: 05/24/2011] [Indexed: 11/12/2022] Open
Abstract
Traditional concepts of the Bering Land Bridge as a zone of predominantly eastward expansion from Eurasia and a staging area for subsequent colonization of lower latitudes in North America led to early inferences regarding biogeographic histories of North American faunas, many of which remain untested. Here we apply a host-parasite comparative phylogeographical (HPCP) approach to evaluate one such history, by testing competing biogeographic hypotheses for five lineages of host-specific parasites shared by the collared pika (Ochotona collaris) and American pika (Ochotona princeps) of North America. We determine whether the southern host species (O. princeps) was descended from a northern ancestor or vice versa. Three parasite phylogenies revealed patterns consistent with the hypothesis of a southern origin, which is corroborated by four additional parasite lineages restricted to O. princeps. This finding reverses the traditional narrative for the origins of North American pikas and highlights the role of dispersal from temperate North America into Beringia in structuring northern diversity considerably prior to the Holocene. By evaluating multiple parasite lineages simultaneously, the study demonstrates the power of HPCP for resolving complex biogeographic histories that are not revealed by characteristics of the host alone.
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Affiliation(s)
- Kurt E Galbreath
- Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, NY 14853, USA.
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Abstract
DNA barcoding provides an operational framework for mammalian taxonomic identification and cryptic species discovery. Focused effort to build a reference library of genetic data has resulted in the assembly of over 35 K mammalian cytochrome c oxidase subunit I sequences and outlined the scope of mammal-related barcoding projects. Based on the above experience, this chapter recounts three typical methodological pathways involved in mammalian barcoding: routine methods aimed at assembling the reference sequence library from high quality samples, express approaches used to attain cheap and fast taxonomic identifications for applied purposes, and forensic techniques employed when dealing with degraded material. Most of the methods described are applicable to a range of vertebrate taxa outside Mammalia.
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Cervantes FA, Arcangeli J, Hortelano-Moncada Y, Borisenko AV. DNA barcodes effectively identify the morphologically similar Common Opossum (Didelphis marsupialis) and Virginia Opossum (Didelphis virginiana) from areas of sympatry in Mexico. ACTA ACUST UNITED AC 2011; 21 Suppl 1:44-50. [PMID: 21271858 DOI: 10.3109/19401736.2010.538051] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Two morphologically similar species of opossum from the genus Didelphis-Didelphis virginiana and Didelphis marsupialis-cooccur sympatrically in Mexico. High intraspecific variation complicates their morphological discrimination, under both field and museum conditions. This study aims to evaluate the utility and reliability of using DNA barcodes (short standardized genome fragments used for DNA-based identification) to distinguish these two species. Sequences of the cytochrome c oxidase subunit I (Cox1) mitochondrial gene were obtained from 12 D. marsupialis and 29 D. virginiana individuals and were compared using the neighbor-joining (NJ) algorithm with Kimura's two-parameter (K2P) model of nucleotide substitution. Average K2P distances were 1.56% within D. virginiana and 1.65% in D. marsupialis. Interspecific distances between D. virginiana and D. marsupialis varied from 7.8 to 9.3% and their barcode sequences formed distinct non-overlapping clusters on NJ trees. All sympatric specimens of both species were effectively discriminated, confirming the utility of Cox1 barcoding as a tool for taxonomic identification of these morphologically similar taxa.
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Affiliation(s)
- Fernando A Cervantes
- Departamento de Zoología, Instituto de Biología, Universidad Nacional Autónoma de México, C.P. 04510 México, Distrito Federal, Mexico.
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Fostowicz-Frelik Ł, Frelik GJ, Gasparik M. Morphological Phylogeny of Pikas (Lagomorpha:Ochotona), with a Description of a New Species from the Pliocene/Pleistocene Transition of Hungary. PROCEEDINGS OF THE ACADEMY OF NATURAL SCIENCES OF PHILADELPHIA 2010. [DOI: 10.1635/053.159.0107] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Hafner DJ, Smith AT. Revision of the subspecies of the American pika, Ochotona princeps (Lagomorpha: Ochotonidae). J Mammal 2010. [DOI: 10.1644/09-mamm-a-277.1] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
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Comparative skull morphology of two pika species (Ochotona princeps and O. hyperborea): implications for differences in feeding habits. RUSSIAN JOURNAL OF THERIOLOGY 2009. [DOI: 10.15298/rusjtheriol.07.2.06] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Taxonomy and distribution of the pikas (Ochotona, Lagomorpha) of alpina-hyperborea group in North-East China and adjacent territories. RUSSIAN JOURNAL OF THERIOLOGY 2008. [DOI: 10.15298/rusjtheriol.07.1.02] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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