Anna Andreevna Bannikova

Lomonosov Moscow State University | MSU · Department of Biology

Five-toed jerboas of the subfamily Allactaginae comprise several complex taxa occurring over a wide distribution range covering a large part of the Eurasian arid belt. In this study, we employed current methods of molecular phylogenetics based on 15 nuclear genes and the mitochondrial gene cytb to revise relations and systematics within Allactagina...

The genus Chionomys includes two supraspecific groups: "nivalis" and "gud-roberti". For a long time, it has been thought that the nivalis group includes only C. nivalis. Here, molecular phylogenetic analysis of nine specimens from Turkey, Armenia, and Iran was performed using the Cytb gene and two nuclear genes: BRCA1 and GHR. In the results on Cyt...

The "out of Tibet" hypothesis that suggests an important role of Tibetan highlands in the evolution of Central Asian cold-adapted fauna is a matter of debate. The long-tailed hamster Cricetulus longicaudatus is an important member of both steppe/semidesert Mongolian and high altitude Tibetan faunas. In this study, we analyze the mitochondrial varia...

The genus status of Urocricetus was defined recently based on morphological and molecular data. Even though the amount of evidence for a separate phylogenetic position of this genus among Cricetinae continues to increase, there is still no consensus on its relationship to other groups. Here we give the first comprehensive description of the U. kame...

Eastern Afromontane region is a well-known hotspot of biodiversity and endemism; however, the relationships between groups of organisms inhabiting different highland areas are still poorly understood. Herein, the phylogenetic relationship between endemic Crocidura from Ethiopia and Tanzania was assessed using mitochondrial and nuclear data. At the...

Most of the molecular taxonomic studies on the Eurasian long-eared bats (Plecotus) are based on mitochondrial data only, which might lead to erroneous assessment of the phylogenetic relationships. Here, the genetic divergence among the Mongolian species of Plecotus is examined using sequences of two nuclear introns (THY and ABHD11) and the mitochon...

The Tianshan birch mouse Sicista tianschanica is an endemic of the Central Asian mountains and has previously been shown to include several karyomorphs ("Terskey", "Talgar", "Dzungar"); however, the taxonomic status of these forms has remained uncertain. We examined the genetic variation in S. tianschanica based on historical DNA samples from museu...

Secondary contact zones between related species are key to understanding speciation mechanisms. The Central European sympatry zone of West European (Erinaceus europaeus) and northern white-breasted (Erinaceus roumanicus) hedgehogs is well studied, whereas data on the Eastern European sympatry zone are scarce. We examined the genetic variation in Ru...

The mole vole subgenus Ellobius is currently considered to include three species: Ellobius talpinus (distributed from SE Europe and Turkmenistan through Kazakhstan to SW Siberia), Ellobius alaicus (S Tianshan, Pamir‐Alay) and Ellobius tancrei (East and West Central Asia, from the Amu‐Darya to Mongolia and N China). A study focusing on the genetic v...

The genus Hipposideros is one of the largest bat genera. The latest research on its Asian representatives has been done only with mitochondrial or sole nuclear markers. In the present study we compare the results of phylogenetic reconstructions, based on mitochondrial, on single nuclear genes and on multiple nuclear markers analyzed using the MRP a...

A range-wide phylogeographic study of the common shrew Sorex araneus was performed using the concatenation of cytb and ND2 mitochondrial genes. The data support two major lineages, one of which (European haplogroup) is distributed continuously from West Europe to West Siberia; the other (Siberian haplogroup) is found in two non-adjacent areas: in c...

Genetic variation in chromosomally polymorphic Sicista subtilis complex and related Sicista betulina species group was analysed using two mitochondrial markers ( COI and Cytb ). The S. subtilis group is shown to include six lineages, five of which correspond to species currently recognized based on cytogenetic and genetic data: Sicista nordmanni ,...

The first genetic study of the holotype of the Gansu short-tailed shrew, Blarinella griselda Thomas, 1912, is presented. The mitochondrial analysis demonstrated that the type specimen of B. griselda is close to several recently collected specimens from southern Gansu, northern Sichuan and Shaanxi, which are highly distinct from the two species of A...

Two names ( Clethrionomys and Myodes ) are used interchangeably for red-backed voles, which is contrary to one of the fundamental principles of zoological nomenclature, that each taxon has a single and unique valid name. Fixation of Mus lemmus Linnaeus, 1758, as the type of Myodes Pallas, 1811, meets the requirements stipulated in the Article 69.1....

In the present paper, we clarify the genetic structure and taxonomy of six vole species occurring in Mongolia including Microtus mongolicus, M. maximowiczii, M. limnophilus, Eolagurus luteus, E. przewalskii and Lagurus lagurus based on the sequence data of cytochrome b and three nuclear genes. All available genetic data indicate that M. mongolicus...

Phylogeny of birch mice is estimated using sequences of ten nuclear genes and one mitochondrial gene. Based on the results of tree reconstructions and molecular dating, five major lineages are recognized: “tianschanica,” “concolor,” “caudata,” “betulina,” and “caucasica.” It is established that the three latter lineages constitute a clade and that...

Cambridge Core - Cell Biology and Developmental Biology - Shrews, Chromosomes and Speciation - edited by Jeremy B. Searle

Shrews, Chromosomes and Speciation - edited by Jeremy B. Searle February 2019

Phylogeographical study of the small five-Toed jerboa (Scarturus elater) and examination of the phylogenetic position of S. vinogradovi were performed using the mitochondrial cytochrome b (cytb) gene and fragments of the BRCA1 and IRBP nuclear genes. Phylogenetic analysis of the cytb data including 115 specimens of S. elater from 47 localities acro...

The phylogeographic structure of Sorex araneus was assessed on the basis of the sequences of mitochondrial cytb gene sampled across the most of the species range. Two major haplogroups were revealed: a European group, which is distributed westwards from Western Siberia, and a Siberian group, which prevails in the eastern part of the range. The Sibe...

Fauna of small mammals of southern Gansu have been studied in three key areas: Lianhuashan Nature Reserve, Taizishan Nature Reserve, and the vicinity of Goin Ba and Lang Mu Monastery. All the key areas are associated with different altitudinal belts and, therefore, with different vegetation types. Altogether, 22 species of small mammals have been f...

The Hainan gymnure Neohylomys hainanensis (Mammalia, Lipotyphla), endemic to Hainan Island (China), is one of the rarest and least-known species within the family Galericidae. The IUCN Red List inferred it as an endangered species due to ongoing population decline caused by natural habitat loss. A recent biodiversity survey has revealed N.hainanens...

This article provides a phylogenetic analysis of five nuclear and mitochondrial cytochrome b genes of palaearctic serotines. Nuclear data yield five monophyletic clades: Botta’s serotine and the South African long-tailed house bat E. hottentottus; the common serotine bat (including all studied E. serotinus subspecies and andersoni form of undefined...

For the first time all members of Sicista caucasica species complex were genotyped using one mitochondrial and five nuclear markers. We revealed that there are two lineages in the group: western (caucasica + kluchorica) and south-eastern (armenica + kazbegica). This phylogeographic pattern corresponds with recent findings on several other species o...

The grey hamster Cricetulus migratorius is the most widespread and ecologically opportunistic species among Palearctic hamsters. Genetic diversity across most of its range was examined by using cytochrome b (cytb) and cytochrome oxidase I (coI) gene sequences. Phylogenetic analyses revealed three well-differentiated allopatric lineages. The western...

We hypothesize the phylogenetic relationships of the agamid genus Phrynocephalus to assess how past environmental changes shaped the evolutionary and biogeographic history of these lizards and especially the impact of paleogeography and climatic factors. Phrynocephalus is one of the most diverse and taxonomically confusing lizard genera. As a key e...

Review on history of phylogenetic studies of the genus Phrynocephalus.

Protocols of DNA PCR amplification used in this study.

Maximum likelihood inference tree of Phrynocephalus based on analysis of nuclear AKAP9 gene fragment. ML BSP/MP BSP values are given for strongly supported nodes.

Bayesian chronogram resulted from *BEAST analysis of the mitochondrial genes COI, Cytb, ND2 and ND4. Node values correspond to estimated divergence times (in Ma). Grey-bars correspond to 95%-confidence intervals. Color marking of species groups corresponds to Figs. 2 and 3.

Specimens used in this study and corresponding GenBank accession number information for four mtDNA and four nuDNA genes. Specimen ID/source: Museum ID or GB–sequences downloaded from GenBank.

Calibration points for divergence time estimation. Node–tree node used for calibration, for node names see Fig. S10; Divergence time given in millions years (Ma); Fossil record–reference on the fossil record used for node calibration; Dataset for analysis–calibration used for mtDNA (mt), nuDNA (nu) or both (mt,nu) datasets.

Step-matrix showing transition between substrate niche states. Numbers encode: (1) loose sand dunes; (2) sands with non-differentiated proluvial sediments, e.g. gravel or clay; (3) gravel and stone deserts; (4) clay soils and salines; (5) clay soils mixed with gravel; (6) large rocks and cliffs; see Fig. 7.

Values of AU-test for nuclear genes compatibility. H0–test hypothesis (analysis as a separate marker), H1–original analysis (analysis within the concatenated alignment); AU–AU-test value.

DNA alignment for BDNF nuDNA gene.

DNA alignment for NKTR nuDNA gene.

DNA alignment for COI mtDNA gene.

Biogeographic area definition for Central Eurasia.

Maximum likelihood inference tree of Phrynocephalus based on analysis of mtDNA dataset with all non-Agamidae outgroups excluded from the analyses. ML BSP/BI BPP values are given for resolved nodes only.

Maximum likelihood inference tree of Phrynocephalus based on analysis of mtDNA dataset with all non-Agaminae outgroups excluded from the analyses. ML BSP/BI BPP values are given for resolved nodes only.

Geographic localities and museum voucher information of specimens used in this study. ID/source–museum voucher/isolate ID; Locality–geographic locality of origin. No exact locality information is available for specimens obtained via pet trade.

Values of AU-tests for different topological hypotheses. H0–test hypothesis, H1–original topology; nu_vs_mt–testing nuclear topology on mitochondrial dataset, mt_vs_nu–testing mitochondrial topology on nuclear dataset; AU–AU-test value.

Divergence time and ancestral area estimates. For node names see Supplementary Figure S1. Estimated age is given in (Ma) for nuDNA and mtDNA datasets; results of ML biogeographic area reconstruction in Lagrange (Ancestral Area) is given for nuDNA topology only. For biogeographic areas definition see Fig. 6 and Supplementary File 2.

DNA alignment for RAG1 nuDNA gene.

DNA alignment for ND2 mtDNA gene.

Divergence time estimated nodes (black) and calibration points (red) in Agamidae phylogeny for mtDNA (left) and nuDNA (right) topologies. See Table S5 for calibrations and Table S10 for divergence time estimates.

Current distribution of matrilines, corresponding to species-groups and subgenera of Phrynocephalus. Color marking of species groups corresponds to Figs. 2 and 3.

Maximum likelihood inference tree of the concatenated nuclear DNA data-set with all non-Agamid outgroups excluded from the analyses. ML BSP/BI BPP values are given for resolved nodes only.

Maximum likelihood inference tree of Phrynocephalus based on analysis of nuclear BDNF gene fragment. ML BSP/MP BSP values are given for strongly supported nodes.

Maximum likelihood inference tree of Phrynocephalus based on analysis of nuclear NKTR gene fragment. ML BSP/MP BSP values are given for strongly supported nodes.

Maximum likelihood inference tree of Phrynocephalus based on analysis of nuclear RAG1 gene fragment. ML BSP/MP BSP values are given for strongly supported nodes.

Bayesian chronogram produced by *BEAST analysis based on exons of the nuclear genes RAG-1, BDNF, AKAP9 and NKTR.. Node values correspond to estimated divergence times (in Ma). Grey-bar corresponds to 95%-credibility interval. Color marking of species groups corresponds to Figs. 2 and 3.

Matrix of modern species distribution within Phrynocephalus, substrate niche and maximal body size data for Phrynocephalus and Agaminae outgroups. Geographic regions: AR–Near East and Arabia, MI–Asia Minor and Transcaucasia, KZ–Kazakhstan, northern Caspian and Ciscaucasian deserts, CA–Central Asia, TU–Turan, TI–Tibet, ME–Middle East. Maximum SVL (m...

DNA alignment for AKAP9 nuDNA gene.

DNA alignment for ND4 mtDNA gene.

DNA alignment for Cytb mtDNA gene.

Lineage through time plots (LTT) of Phrynocephalus inferred from (A) mitochondrial DNA and (B) nuclear DNA datasets.

Characteristics of analyzed mtDNA and nuDNA sequences. Total length (in b.p.), number of conservative (Cons.), variable (Var.) and parsimony-informative (Pars.-Inf.) sites are given (data presented only for the ingroup).

Primers used in this study. “F,” “L”–forward primer, “R,” “H”–reverse primer.

The adaptation to a particular function could directly influence the morphological evolution of an anatomical structure as well as its rates. The humeral morphology of moles (subfamily Talpinae) is highly modified in response to intense burrowing and fully fossorial lifestyle. However, little is known of the evolutionary pathways that marked its di...

First data on morphological and mitochondrial variation in the long-tailed hamster Cricetulus longicaudatus is presented. In contrast to genetically monomorphic populations of Mongolia and Tuva, the northeastern part of the Qinghai–Tibetian Plateau was found to harbor several divergent mtDNA lineages. This pattern suggests a recent expansion of the...

The taxonomy of the genus Cricetulus has been controversial. The phylogenetic relationships both within the genus and among Cricetulus lineages and other genera were examined using a set of five nuclear and two mitochondrial genes. The results demonstrate that Cricetulus in its current treatment is a polyphyletic assemblage because the subgenus Uro...

A phylogeographical study of the northern three-toed jerboa, Dipus sagitta, which has one of the largest geographical ranges among Palaearctic desert rodents, was performed using complete mitochondrial cytochrome b (Cytb) and fragments of two nuclear genes. Phylogenetic analysis of the Cytb data, including 222 specimens from 69 localities revealed,...

A phylogeographical study of the northern three-toed jerboa, Dipus sagitta, which has one of the largest geographical ranges among Palaearctic desert rodents, was performed using complete mitochondrial cytochrome b (Cytb) and fragments of two nuclear genes. Phylogenetic analysis of the Cytb data, including 222 specimens from 69 localities revealed,...

Phylogeographical study of the small five-toed jerboa (Scarturus elater) and examination of the phylogenetic position of S. vinogradovi were performed using the mitochondrial cytochrome b (cytb) gene and fragments of the BRCA1 and IRBP nuclear genes. Phylogenetic analysis of the cytb data including 115 specimens of S. elater from 47 localities acro...