Jiri Smid

Jiri Smid
National Museum, Prague, Czech Republic · Department of Zoology

PhD

About

106
Publications
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741
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Additional affiliations
January 2009 - August 2015
National Museum, Prague, Czech Republic
Position
  • Laboratory Manager

Publications

Publications (106)
Article
Full-text available
The systematic, phylogenetic, and biogeographic aspects of the rich squamate fauna of the Arabian Peninsula are becoming increasingly well understood. The Arabian members of the gecko genus Hemidactylus, the most diverse genus among Arabian squamates, have been the subject of several phylogenetic revisions in recent years. However, large parts of t...
Article
Full-text available
The family Buthidae represents an early-diverging and most species-rich lineage of extant scorpions, but its internal phylogenetic relationships are still poorly understood. The family is traditionally divided into six morpho-groups; however, the monophyly of some of them remains unclear. We combined multilocus sequence data with extensive taxon sa...
Article
Full-text available
The geological and geographical settings of the Eastern Mediterranean have resulted in complex patterns of intraspecific diversifications and phylogeographical histories that can be observed in squamates. In this study, we examined genetic differentiation of the Collared dwarf racer (Platyceps collaris) using a multilocus genetic dataset with a sam...
Article
Full-text available
There are currently 3,900 recognized, extant snake species belonging to 529 genera globally (Uetz et al. 2021; this study), making snakes one of the most diverse major groups of squamates. Of the 665 currently recognized species that were described between 2001 and 2020 (a ~17% increase in total species), ~34% of these (226 species) were described...
Article
Full-text available
The geographic distribution of biodiversity is central to understanding evolutionary biology. Paleogeographic and paleoclimatic histories often help to explain how biogeographic patterns unfold through time. However, such patterns are also influenced by a variety of other factors, such as lineage diversification, that may affect the probability of...
Article
Full-text available
Aim Deserts are generally perceived as areas of low diversity, and hence receive little attention from researchers and conservationists. Squamates are the dominant group of vertebrates in arid regions, and as such represent an ideal model to study biodiversity patterns in these areas. We examine spatial patterns of diversity, evolutionary history a...
Article
Full-text available
Geckos of the genus Trigonodactylus are widely distributed in the sand deserts of the Arabian Peninsula. Three species of this genus are currently recognized, with fourth Stenodactylus pulcher, which placement within Trigonodactylus has been tentatively suggested, but not yet confirmed. We present phylogenetic analysis of the genus Trigonodactylus...
Article
Large parts of the Sahara Desert and Arabia are covered by sand seas and sand dunes, which are inhabited by specialized animal communities. For example, many lizards have developed adaptations to life in loose sand, including sand-swimming behavior. The best-known sand swimmers of the Saharo-Arabia are the sandfish skinks (genus Scincus). Although...
Preprint
Full-text available
The geographic distribution of biodiversity is central to understanding evolutionary biology. Paleogeographic and paleoclimatic histories often help to explain how biogeographic patterns unfold through time. However, such patterns are also influenced by a variety of other factors, such as lineage diversification, that may affect the probability of...
Article
Full-text available
The Horn of Africa supports a unique and rich diversity of squamate reptiles. Among them, the gecko genus Hemidactylus stands out as the most species-rich genus of the region. In this study, we assembled a genetic and morphological data set of 22 Hemidactylus species that form a clade termed the African radiation, which is part of the arid clade of...
Article
Full-text available
A new record of the Midas free-tailed bat, Mops midas (Sundevall, 1843), from Saudi Arabia is presented. This new record is the northernmost occurrence point of this rare bat in Arabia (ca. 160 km NNW of the closest previous site) and also within its entire distribution range.
Article
Full-text available
The family of sheath-tailed bats (Emballonuridae) constitutes a considerable part of the bat fauna of the Middle East. This region on the crossroad of three biogeographical realms represents the sole significant extension of the family range into the Palaearctic, otherwise the family is distributed mostly in the tropics. Three emballonurid species...
Article
Full-text available
In the present study we use an unprecedented database of 5,535 distributional records to infer the diversity, ecological preferences and spatial distribution of the 60 species of terrestrial reptiles of the United Arab Emirates (UAE), and use the 57 native species to test the effectiveness of the protected areas’ network in conserving this unique v...
Data
Spatial data of the terrestrial reptiles of the UAE. Appendix including the spatial data of all the 60 species of terrestrial reptiles of the UAE in shapefile format. (ZIP)
Data
Main taxonomic groups observed. Pie charts showing higher taxonomic composition of the UAE terrestrial reptile species (A) and the number of observations for each of the taxonomic groups used in this study (B). Numbers in parenthesis are the number of species (A) and observations (B). (TIF)
Data
List of calibration points. List of the 13 calibration points used to calibrate the phylogenetic tree of Squamata and including all the UAE terrestrial species. Each calibration point includes the author and all the parameters used to implement the calibration point in BEAST. (PDF)
Data
Observations map. Map with all the 5,535 occurrence points of UAE terrestrial reptiles used in the present study. Credits: OpenStreetMap contributors, SRTM. (TIF)
Data
Species richness maps of the medically important venomous species. A) Venomous species richness by emirate inferred with the occurrence point data; B) Venomous species richness by a 10 arc-min grid inferred with the occurrence point data; C) Venomous species richness by emirate inferred with the species distribution models; D) Venomous species rich...
Data
Time calibrated tree of Squamata obtained with BEAST. Time calibrated tree based on the concatenated dataset of 15 genes and 146 species of Squamata including all 60 UAE terrestrial reptiles (highlighted in green) and one outgroup inferred with BEAST. The 13 calibration points are indicated as red circles and are labelled as in S2 Appendix which gi...
Data
List of all the 146 species of reptiles included in the phylogenetic analyses. For the UAE species the table includes species name, the country and specimen code. (PDF)
Data
Information on the 60 species of UAE terrestrial reptiles for the whole country and independently for each emirate. Number and percentage of the total number of species, threatened species and medically important venomous species based on presence data. (PDF)
Data
Loadings, eigenvalues, and variance explained by the two first components retained from the principal component analysis (PCA) performed on the 19 bioclimatic variables used in this study. BIO1 = Annual Mean Temperature, BIO4 = Temperature Seasonality, BIO5 = Max Temperature of Warmest Month, BIO6 = Min Temperature of Coldest Month, BIO7 = Temperat...
Data
Topoclimatic characterization of the UAE. A) Map of annual mean temperature in °C (BIO1); B) Map of annual mean precipitation in mm (BIO12); C) Map of land cover types (as of 2008); D) Graph of the frequency of elevations divided into 100-m bins. Credits: OpenStreetMap contributors, SRTM. (TIF)
Data
Maximum likelihood (ML) tree obtained with RaxML. Phylogenetic tree based on the concatenated dataset of 15 genes and 146 species of Squamata including all 60 UAE terrestrial reptiles (highlighted in green) and one outgroup. Asterisks highlight the three introduced species. (TIF)
Data
Correlation between species richness and phylogenetic diversity. Points in the graph are cells of the 10 arc-min grid. The regression line was fitted using a linear model. (TIF)
Data
Information on the dataset used for the phylogenetic analyses. Gene composition, fragment lengths, partitions, models and run specifications for the different phylogenetic analyses are shown. (PDF)
Data
Area of occupancy (AOO) and species potential distribution (SPD) at 4 km2 of all 60 terrestrial reptiles of the UAE. Number of occupied 4 km2 cells for each approach, area occupied by each species for each approach. Asterisks highlight the three introduced species. (PDF)
Data
Atlas of the terrestrial reptiles of the UAE. An appendix showing photographs, distribution and ecological preferences of the 60 species of terrestrial reptiles of the UAE. Species distribution models (SDMs) inferred for each species are also included. Credits for maps: OpenStreetMap contributors, SRTM. (PDF)
Data
Political map of the UAE. Map showing the political borders of the UAE and among the seven emirates. Credits: OpenStreetMap contributors, SRTM. (TIF)
Data
Checklist of the 60 species of UAE terrestrial reptiles. Table containing all the species recorded in this study grouped by families and higher taxa. The table contains information regarding the regional IUCN conservation category (yet unpublished) for all the species and indicates if they are endemic to the UAE and if it is a medically important v...
Data
Information from the gap analysis with distribution records with the AOO approach. List of all 60 UAE species, showing their regional IUCN conservation category, their area of occupancy, area of occupancy inside protected areas, and the percentage of area of occupancy inside protected areas. Asterisks highlight the three introduced species. The int...
Data
Information from the gap analysis with distribution records with the species potential distribution (SPD) approach obtained with species distribution modeling (SDM). List of all 60 species of the UAE, showing their regional IUCN conservation category, their SPD area, the SPD area inside protected areas, and the percentage of the SPD area inside pro...
Data
Evolutionary distinctiveness (ED) of each of the 60 species of UAE terrestrial reptiles. The numbers show the evolutionary uniqueness of each species with respect to other UAE reptiles in millions of years. Asterisks highlight the three introduced species. (PDF)
Data
Information on the protected areas of each emirate. The table contains: the name of each emirate, the area of each emirate in km2; the number of protected areas that are inside each emirate; the area in km2 that is protected inside each emirate and the percentage of protected areas by emirate. (PDF)
Article
Full-text available
Scaling evolutionary trees to time is essential for understanding the origins of clades. Recently developed methods allow including the entire fossil record known for the group of interest and eliminated the need for specifying prior distributions for node ages. Here we apply the fossilized birth-death (FBD) approach to reconstruct the diversificat...
Article
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We describe a new arboreal genus and species of the family Gymnophthalmidae, subfamily Cercosaurinae, from Peru on the basis of genetic and morphological characters. Dendrosauridion gen. n. can be distinguished morphologically from all other genera of Cercosaurinae by having the lower palpebral disc transparent and undivided, dorsal scales smooth,...
Article
Full-text available
Geckos are one of the most species‐rich, abundant, and widely distributed of all Squamata lineages and present several characteristics that have made them favorite model organisms for biogeographical, ecological, physiological, and evolutionary studies. One of the key aspects of any comparative study is to have a robust, comprehensive phylogeny, an...
Article
Full-text available
Telescopus pulcher is an enigmatic colubrid snake only known from the holotype and paratype specimens described from ‘Migiurtinia’ in Puntland (Somalia) in 1935. Herein we recorded the third and fourth-ever known specimens of this species from the Toon village, Woqooyi Galbeed Region, and 15 km southeast of Sheikh, Saahil Region, Somaliland. The sp...
Article
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Cercosaurine lizards (subfamily Cercosaurinae of the family Gymnophthalmidae) represent a substantial component of the reptile fauna in the Neotropics. Several attempts have been made to reconstruct the phylogenetic relationships within this group, but most studies focused on particular genera or regions and did not cover the subfamily as a whole....
Data
Supplementary phylogenetic trees and table of analysed samples
Article
Full-text available
Pachydactylus is the most species-rich reptile genus in southern Africa. Most species are habitat specialists adapted to hyper-arid conditions of the Namibian and north-western South African xeric regions. Although a fair number of phylogenetic studies and taxonomic revisions have been published, some species still remain rather enigmatic. In the t...
Article
Full-text available
In the present work, we use an exceptional database including 5,359 records of 101 species of Oman’s terrestrial reptiles together with spatial tools to infer the spatial patterns of species richness and endemicity, to infer the habitat preference of each species and to better define conservation priorities, with especial focus on the effectiveness...
Article
Full-text available
Mesalina are small lacertid lizards occurring in the Saharo-Sindian deserts from North Africa to the east of the Iranian plateau. Earlier phylogenetic studies indicated that there are several species complexes within the genus and that thorough taxonomic revisions are needed. In this study, we aim at resolving the phylogeny and taxonomy of the M. b...
Article
Background The colubrid snakes of the genus Rhynchocalamus are seldom studied and knowledge of their ecology and life history is scarce. Three species of Rhynchocalamus are currently recognized, R. satunini (from Turkey eastwards to Iran), R. arabicus (Yemen and Oman), and R. melanocephalus (from the Sinai Peninsula northwards to Turkey). All are s...
Data
Information on the phylogenetic analyses (A) Species-set A; (B) species-set B; (C) species-set C.
Data
Morphological dataset of all examined specimens of Rhynchocalamus Taxon names correspond to changes proposed in this paper. Specimens used in the genetic analyses (genetic; n = 26) are presented in Fig. 1. (*) Specimens of R. melanocephalus from the Negev region in Israel (n = 9). Dataset of the mensural characters is presented in millimetres. Meri...
Data
Results of the mPTP species delimitation analysis The Analysis was based on haplotype mtDNA (dataset 4). Asterisk indicates representatives used for the divergence time estimation analysis. Sample codes correlate to specimens in Table S1 and in Figs. 1–2,Tables S1–S3.
Data
Statistical results of the morphological dataset P-values in bold indicate high level of statistical significance. Abbreviations of each morphological variable, as in Table S3, are listed in the Material and Methods section.
Data
Data on the genetic datasets and the genetic distance within Rhynchocalamus Taxon names correspond to changes proposed in this paper. (A) Rhynchocalamus dataset. Localities for Rhynchocalamus are presented in Fig. 1. (*) Specimen used for the morphological examinations; (i) Haplotypes used for the species delimitation analyses (n = 28); (ii) Repres...
Data
Maximum likelihood gene tree of the Western Palearctic colubrid clade The tree was inferred from the concatenated dataset of the mitochondrial (12S, 16S, cytb) and nuclear (c-mos) gene fragments (dataset 1). Support values near the nodes indicate ML bootstrap and BI posterior probability (values ≥ 70%, ≥ 0.95; ML, BI, respectively). Sample codes an...
Data
Time calibrated Bayesian Inference tree of the Western Palearctic Colubrine clade The tree was inferred from the concatenated dataset of the mitochondrial (12S, 16S, cytb) and nuclear (c-mos) gene fragments (dataset 1), based on two calibration points of Hemorrhois and Hierophis subgroups (blue circles; see Material and Methods; dataset 2). Median...
Data
Species distribution models of Rhynchocalamus taxa Projected Maxent models of the potential presence/absence of R. dayanae sp. nov., R. melanocephalus and R. satunini. The cut-off threshold was Maximum Training Sensitivity plus Specificity (MTSS) to convert the continuous Maxent output to binary maps. Colours correspond to taxa in Table S1 and in F...
Article
Full-text available
In this study, we provide genetic, morphological, and geographical comparisons for 11 species of the southwestern Arabian radiation of Hemidactylus geckos, nine of which are endemic to the region. By using a coalescence-based species-tree reconstruction in combination with divergence time estimations and speciation probability testing, we show that...
Article
Full-text available
Hemidactylus laevis, a gekkonid lizard originally described from the Gaan Libah Mountains in Somaliland, is recorded herein from Erigavo, Sanaag Region, in the same state, which represents the second-ever known specimen and locality for this species in more than 100 years since its description. The species is endemic to Somaliland. Data on morpholo...