Evgeny V. Mavrodiev's research while affiliated with Florida Museum of Natural History and other places
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Publications (134)
Coronaviruses are highly virulent and therefore important human and veterinary pathogens worldwide. This study presents the first natural hierarchical classification of Coronaviridae. We also demonstrate a “one-step” solution to incorporate the principles of binomial (binary) nomenclature into taxonomy of Coronaviridae. We strongly support the comp...
Citation: Sukhorukov AP, Fedorova AV, Kushunina M, Mavrodiev EV (2022) Akhania, a new genus for Salsola daghestanica, Caroxylon canescens and C. carpathum (Salsoloideae, Chenopodiaceae, Amaranthaceae). PhytoKeys 211: 45-61. https://doi. Abstract Genus Salsola s.l. was recently split into several genera of different phylogenetic placements within Sa...
Tragopogon (Asteraceae) is an evolutionary model for the study of whole‐genome duplication, with two recently and repeatedly formed allopolyploids, T. mirus and T. miscellus, and many additional polyploid species. Tragopogon mirus and T. miscellus formed in western North America following the introduction of three diploids from Europe: T. dubius, T...
Typha lepechinii, a new species from European Russia, is described. In terms of the external morphology, it is similar to T. shuttleworthii but differs from the latter by the shape of female inflorescence, wider leaf blades and geographical distribution. Like T. shuttleworthii, T. lepechinii is clearly distinct from all other cattails of T. sect. E...
Premise:
Commonly used molecular techniques such as next-generation sequencing require reliable methods to extract DNA quickly and efficiently. Secondary compounds within plant tissues make this requirement all the more challenging, often forcing researchers to test different extraction methods tailored to their particular species of interest in o...
Coronaviruses are highly pathogenic and therefore important human and veterinary pathogens viruses worldwide. This study is the first that produced phylogenies based on all 39 species of Coronaviridae recognized by the Coronaviridae Study Group and International Committee on Taxonomy of Viruses and has, uniquely, used several methods of cladistic a...
Maximum Likelihood (ML) and Bayesian analyses (BI) applied for 3-plastid loci (cpDNA trnL(UAA) intron, trnL–trnF IGS, and rpl32–trnL(UAG) IGS regions) / 55 tips of Atraphaxis revealed a subclade of two endemics from Transbaikalia (Dahuria) which are often mistaken for A. pungens and A. frutescens but phylogenetically distant from both. Atraphaxis s...
Taxonomic revisions using newly available molecular data can have profound consequences for identifying areas of high endemism and, therefore, high conservation priority. A good example of the connection between taxonomy, biodiversity ecology, and conservation issues is genus Phaeiris (Iris subsect. Hexagonae), an endemic taxon of the southeastern...
The major goal of this study was to re-analyse a published molecular dataset based on ITS and matK sequences of the genus Ceratophyllum (Ceratophyllaceae) within a cladistic framework, operating only with rooted trees. The problem is lack of an identifiable suitable outgroup to Ceratophyllum. We show different ways to root trees and thus resolve th...
Campanula sect. Quinqueloculares (Campanulaceae), consisting of ca. 39 mostly chasmophytic species, is one of the most
morphologically variable groups in Campanula and includes numerous endemics occurring mostly in Greece and/or Turkey. In this
molecular study, we aim to test the monophyly of C. sect. Quinqueloculares and provide divergence time es...
Coronaviruses are highly pathogenic and therefore important human and veterinary pathogens viruses worldwide ( 1 ). Members of family Coronaviridae have previously been analysed phylogenetically, resulting in proposals of virus interrelationships ( 2–5 ). However, available Coronavirus phylogenies remain unrooted, based on limited sampling, and nor...
Alopecurus tzvelevii, a new species from Central European Russia, is described. It is closely related to A. pratensis but differs in its smaller spikelets which are brownish (not green) when mature, shorter anthers, and the distribution of hairs along the glume keel which are located along the entire glume in A. tzvelevii, but do not reach the glum...
The genus Bactria, recently described to house Atraphaxis ovczinnikovii from the Pamir and Bactria lazkovii from the Central Tien Shan, may also include Polygonum tianschanicum from the Eastern Tien Shan. In order to re-circumscribe Bactria and to clarify the place of P. tianschanicum in tribe Polygoneae, we performed Maximum Likelihood and Bayesia...
The Campanulaceae includes ca. 2400 species in five major lineages (Campanuloideae, Cyphioideae, Cyphocarpoideae, Lobelioideae and Nemacladoideae). Campanula represents the most speciose (ca. 420 species) and controversial taxon in the Campanuloideae. Up to now, all phylogenetic studies based on molecular data and modern analytical methods revealed...
Phylogenetic systematics (e.g., cladistics) is one of the most important analytical frameworks of modern Biology. It seems to be common knowledge that within phylogenetics, ‘groups’ must be defined based solely on the synapomorphies or on the “derived” characters that unite two or more taxa in a clade or monophyletic group. Thus, the idea of synapo...
The possibility of undertaking matrix/optimization-free cladistic analysis is one of the most interesting ideas to emerge in the last few decades from within the field of systematics, particularly in the development of cladistics. The purpose of this paper is to design further opportunities and prospects made possible by eliminating the matrix as t...
In a recent publication on nomenclature and taxonomy of the genus Juno, we have established several new combinations for irises, including Iris koyuncui Fırat. When stating the intended new combination in Juno for the latter name, a partially wrong citation of its basionym was made. Although the publication year, page number and holotype data were...
Juno (Iris subg. Scorpiris) is a distinct group of bulbous irises, widely diversified in central and southwestern Asia and the Caucasus with some representatives in the Mediterranean basin. It is a monophyletic group with remarkable morphological, biogeographical and molecular peculiarities, which is accepted here as an independent genus. In the pr...
A structural approach to temporality in distributional data for use in palaeobiogeography is described herein. Pre‐established areas in the distributional data matrix are split temporally, allowing a single geographical space to have multiple iterations [e.g. Area A (Lower Devonian), Area A (Middle Devonian)]. The resulting temporal matrix will all...
Tragopogon (Asteraceae) is an excellent natural system for studies of recent polyploidy. Development of an efficient CRISPR/Cas9‐based genome editing platform in Tragopogon will facilitate novel studies of the genetic consequences of polyploidy. Here, we report our initial results of developing CRISPR/Cas9 in Tragopogon. We have established a feasi...
The evolution of chemical complexity has been a major driver of plant diversification, with novel compounds serving as key innovations. The species-rich mint family (Lamiaceae) produces an enormous variety of compounds that act as attractants and defense molecules in nature and are used widely by humans as flavor additives, fragrances, and anti-her...
Recently Ulloa Ulloa et al. (2017) published a 2600-page online checklist of the New World vascular plants (the Checklist hereafter) that includes 124,993 species, 6227 genera, and 355 families associated with incomplete elementary taxonomy as well as with the distributional data provided for every species (Ulloa Ulloa et al., 2017). Givnish (2017)...
Recently Ulloa Ulloa et al. (2017) published a 2600-page online checklist of the New World vascular plants (the Checklist hereafter) that includes 124,993 species, 6227 genera, and 355 families associated with incomplete elementary taxonomy as well as with the distributional data provided for every species (Ulloa Ulloa et al., 2017). Givnish (2017)...
Understanding plant evolution and diversity in a phylogenomic context is an enormous challenge, due in part to limited availability of genome-scale data across phylodiverse species. The 10KP (10,000 Plants) Genome Sequencing Project will sequence and characterize representative genomes from every major clade of embryophytes, green algae, and protis...
Three-taxon statement analysis (3TA) is a method that may help to formalize the taxonomical intuition of the synapomorphy of the clade as a combination of its diagnostic traits, even if each trait, if taken separately, may be found in one or many other taxa of the same relationship. Using example based on the real morphological data, we are showing...
PREMISE OF THE STUDY
Polyploidy has extensively shaped the evolution of plants, but the early stages of polyploidy are still poorly understood. The neoallopolyploid species Tragopogon mirus and T. miscellus are both characterized by widespread karyotypic variation, including frequent aneuploidy and intergenomic translocations. Our study illuminates...
Recent molecular studies revealed the polyphyletic nature of the broadly defined genus Polygonum. This paper includes a standard maximum parsimony (MP) and three-taxon statement analyses (3TA) as well as a taxonomic revision of Polygonum sect. Avicularia subsect. Spinescentia (Polygonaceae) as compared with two closely related taxa: genus Atraphaxi...
Background
This paper is a comment on the idea of matrix-free Cladistics. Demonstration of this idea’s efficiency is a major goal of the study. Within the proposed framework, the ordinary (phenetic) matrix is necessary only as “source” of Hennigian trees, not as a primary subject of the analysis. Switching from the matrix-based thinking to the matr...
Tables, matrices and trees for Figs. 1–9.
Differences in the limits and range of aerobic activity levels between endotherms and ectotherms remain poorly understood, though such differences help explain basic differences in species’ lifestyles (e.g. movement patterns, feeding modes, and interaction rates). We compare the limits and range of aerobic activity in endotherms (birds and mammals)...
Three-taxon statement matrices can be analysed using the maximum-likelihood method. In the present paper, it is demonstrated that groups based solely on putative reversals are always recognisable after maximum-likelihood analysis of three-taxon statement matrices, even without a priori recoding of the putative reversals as new character states or f...
Binary matrix with an a priori defined plesiomorphic character-state may be re-written as a set of branching diagrams (as a “Hennigian forest”). The last might be analyzed by the average consensus method. This procedure eventually avoids the taxon-character matrix from the analysis of the data. Within this framework, the criteria of the best top...
Binary matrix with a priori defined plesiomorphic character‐state may be re-written as a simple set of branching diagrams (as a “Hennigian forest”). The last might be analyzed by the average consensus method. This procedure eventually avoids the taxon-‐character matrix from the analysis of the data. Within this framework, the criteria of the best...
Binary matrix with a priori defined plesiomorphic character-state may be re-written as a set of branching diagrams (as a “Hennigian forest”). The last might be analyzed by the average consensus method. This procedure eventually avoids the taxon-character matrix from the analysis of the data. Within this framework, the criteria of the best topolo...
Binary matrix with an a priori defined plesiomorphic character-state may be re-written as a set of branching diagrams (as a “Hennigian forest”). The last might be analyzed by the average consensus method. This procedure eventually avoids the taxon-character matrix from the analysis of the data. Within this framework, the criteria of the best top...
Binary matrix with an a priori defined plesiomorphic character-state may be simply re-written as a set of branching diagrams (as a “Hennigian forest”). The last might be analyzed by the average consensus method. This procedure eventually avoids the taxon-character matrix from the analysis of the data. Within this framework, the criteria of the b...
Maximum Likelihood (ML) and Bayesian analyses (BI) applied for 3-plastid loci (cpDNA trnL(UAA) intron, trnL–trnF IGS, and rpl32–trnL(UAG) IGS regions) / 65 tips matrix resulted in preliminary phylogenetic reconstruction of the genus Atraphaxis. In combination with the morphological data the obtained phylogeny appears sufficient for recognition of c...
Atraphaxis ovczinnikovii (= Bactria ovczinnikovii (Czuk.) O.V. Yurtseva et E.A. Mavrodiev; Polygonum ovczinnikovii Chukav). Tadjikistan, Khablon reg. Shuroabad d. the right bank of the river Piandzh, Bag × Bakhorak. h = 110 m a.s.l. 2.06.1960. No. 1624. C. Yu.
A dwarf shrub with divaricately branched shoots and frondulose terminal thyrses. Images:...
Origin of the material used for LM micrographs.
Background: The recently proposed recircumscription of the genus Atraphaxis (incl. Atraphaxis section Ovczinnikovia O.V. Yurtseva ex. S. Tavakkoli and Polygonum sect. Spinescentia Boissier (=A. sect. Polygonoides S. Tavakkoli, Kaz. Osaloo & Mozaff.) makes this genus fairly heterogeneous and therefore almost undefinable based on morphology. A critic...
Atraphaxis toktogulica (Lazkov). T.M. Schust. & Reveal. Kyrgyzstan, Toktogul d., Karajigach, left board of say Tor-Kolot. 5.07.1973. s.n. Ajdarova et al. (LE, Holotypus).
An undershrub or shrub with manyheaded caudex and numerous elongated generative shoots terminated by bracteose thyrses or racemes of thyrses. Images: O. Yurtseva.
Atraphaxis ariana Grigorj. Turkmenistan, environs of V. Kushka. In cliff Shur-Sufi. 5.05.1928. K.P. Volkov. (LE, Typus).
An undershrub or shrub with buried in sand manyheaded caudex and numerousl elongated generative shoots terminated by bracteose thyrses, or racemes of thyrses. Images: O. Yurtseva.
Classification history of the genus Atraphaxis L.
Atraphaxis spinosa L., Afghanistan, Prov. Samangan, N-Hänge des Koh-i-Chungar, 12 km SW Rabatak, 1,550 m, Lößboden; 68/21–36/05. 7.6.1978. n. 31519. Leg. et det. D. Podlech. (LE).
A shrub with elongated annual shoots and axillary short thyrses. Images: O. Yurtseva.
Atraphaxis tortuosa Lozinsk. [Mongolia occidentalis]: the Urot terra, Muni-Ula, (the north bend of the river Huang-He) ½.05.1872. Przhewalsky (LE, Isotypus).
(A) A shrub with elongated intensively branched shoots, terminated by bracteose thyrses (above). (B) A fragment of bracteose thyrse with axillary cymes of flowers and the achene (below). Image...
Characteristics of the perianth and the achene in Bactria, Polygonum sect. Spinescentia, and Atraphaxis s.str.
Taxonomic history of position of the genus Atraphaxis L. in Polygonoideae (Polygoneceae).
Origin of the material used for the SEM micrographs.
Polygonum salicornioides Jaub. et Spach (= Pol. oligophyllum Boiss.), Persia australis, In alpe Kuh-Delu. 10 June 1842. No. 468. Th. Kotschy. (LE, Isotypus).
A dwarf undershrub with branched annual shoots and axillary cymes of flowers in axils of deciduous leaves. Images: O. Yurtseva.
Atraphaxis ovczinnikovii from Tien Shan (= Bactria lazkovii O.V. Yurtseva & E.V. Mavrodiev sp. nov.). Kyrgyzstan, Naryn reg., Dzhumgal d., Kavak-Too Ridge, 5 km N of village Sary-Bulun, at rocks. 07.07.2006. n 24, G.A. Lazkov (MW, Holotypus).
A dwarf shrub with divaricately branched shoots and frondulose terminal thyrses. Images: O. Yurtseva.
Atraphaxis atraphaxiformis (Botsch.) T.M. Schust. & Reveal. [Kyrgyzstan], Alay Ridge, the interstream of the Isphara and the Sokh. Mts Baytok. At limestone rocks.15.07.1962. n.93. V.P. Botschantzev (LE, Typus).
A shrub with elongated intensively branched shoots terminated by bracteose thyrses. Images: O. Yurtseva.
Some perianth characteristics of the members of the tribe Polygoneae.
Atraphaxis pyrifolia Bunge. Tajikistan, Badakhshan, Shugnan d., the left board of the Gunt river, Vozh × Shtamm. 02.08.2011. No. 26. E.V. Klujkov, E.A. Zakharova, U.A. Ukrainskaja (MW).
A shrub with elongated prickly shoots and second-order branchlets, and congested thyrses lateral at the second-year branchlets. Images: O. Yurtseva.
Atraphaxis virgata (Regel) Krasn. Kazakhstan, South Kazakhstan reg., Tyulkubass d., the riverhead of Mashat, “Mashat,” the break stone slopes nearby the river. 29.09.2012. V.A. Sagalaev (MHA).
A shrub with elongated generative annual shoots each terminated by a raceme of bracteose thyrses, the central shoot with two paracladia. Images: O. Yurtseva.
Atraphaxis spinosa L. Armenia, Ararat reg., environs of the Mt. Goravan, the refuge «Goravan Sands», sandy slopes.13.08.2012. D. Lyskov (MW).
A shrub with prickly elongated shoots and branchlets. Images: O. Yurtseva.
Taxa, voucher information, current and GenBank accession numbers used in the study.
Main pollen characteristics in the tribe Polygoneae.
Atraphaxis avenia Botsch. Kyrgyzstan, Alay Ridge, the Gulcha basin, the river Irgailysu above Sufi-Kurgan. 16.07.1987. No.407. M.G. Pimenov, E.V. Klujkov (MW).
A shrub with elongatated generative shoots terminated by bracteose thyrses. Images: O. Yurtseva.
Atraphaxis laetevrens (Ledeb.) Jaub. & Spach. Kazakhstan, Dzhungar Alatau, nothers spurs, Mts. Kaykan to the NE of Glinovka. At stony slopes. 18.06.1959. n.s. V.P. Goloskokov (MW).
A shrub with lateral abracteose thyrses. Images: O. Yurtseva.
Significance
Biologists have long sought to understand how differences in the structure of vertebrate respiratory systems are related to differences in oxygen consumption rates associated with metabolism. In particular, they have sought to understand how structural constraints on passive oxygen diffusion through gills or lungs are related to the no...
When treated in a broad sense, Iris (the ‘rainbow-flowers’) is one of the most diverse and well-known genera in the Asparagales. However, recent conventional phylogenetic and three-taxon statement re-treatments of the molecular data (cpDNA) for the irises (‘Iris sensu latissimo' clade) showed that the obtained patterns of relationships appeared to...
Mayrose et al. (2011) and Arrigo and Barker (2012) concluded that neopolyploid lineages diversify more slowly than the diploid lineages from which they arise. We expressed concerns about this statement in Soltis et al. (2014a) to which Mayrose et al. (2014) responded. This article continues the discussion. We demonstrate a statistical problem with...
Hybridization between plant species can generate novel morphological diversity and lead to speciation at homoploid or polyploid
levels. Hybrids between biennial herbs Tragopogon pratensis and T. porrifolius have been studied in experimental and natural populations for over 250 years. Here we examine their current status in natural
populations in so...
In modern molecular systematics, matrices of unordered multistate characters, such as DNA sequence alignments, are used for analysis with no further re-coding procedures nor any a priori determination of character polarity. Here we present 1001, a simple freely available Python-based tool that helps re-code matrices of non-additive characters as di...
In modern molecular systematics, matrices of unordered multistate characters, such as DNA sequence alignments, are used for analysis with no further re-coding procedures nor any a priori determination of character polarity. Here we present 1001, a simple freely available Python-based tool that helps re-code matrices of non-additive characters as di...
Three-taxon analysis in it canonical form can always successfully recognize groups based on putative reversals if latter are coded as separate states before three-taxon permutations are derived from conventional matrices. This way of coding removes incongruence from either conventional multistate or three-taxon matrices and makes the discussions ab...
Three-taxon analysis in it canonical form can always successfully recognize groups based on putative reversals if latter are coded as separate states before three-taxon permutations are derived from conventional matrices. This way of coding removes incongruence from either conventional multistate or three-taxon matrices and makes the discussions ab...
Abstract. Diverse alien and native floras of the same region provide a good opportunity to test the influence of environmental variables in structuring of plant assemblages because both can be considered as a replicates of the assembly process under identical conditions but with different dispersal capabilities. We performed this test within 11 flo...
The core Caryophyllales consist of approximately 30 families (12 000 species) distributed worldwide. Many members evolved one-seeded or conjoined fruits, but their origin and structural diversity have not been investigated. A comparative anatomical investigation of the one-seeded fruits within the core Caryophyllales was conducted. The origin of th...
Tragopogon includes two classic examples of recently formed allopolyploid species in North America: T. mirus and T. miscellus. Older Tragopogon allotetraploids from Eurasia offer ideal taxa for comparing the longer term outcomes of allopolyploidy.To help resolve the ancestry of one of these older polyploids, phylogenetic analyses of multiple popula...
Background:
Iris L. s.l. is one of the most diverse and well-known genera in the Asparagales, with approximately 250-300 circumscribed species and significant economic impact. The taxonomy of the genus has suffered dramatic changes in the last century, particularly in the last decades after the application of molecular techniques. As a result seve...
Background:
The Campanuloideae (Campanulaceae) are a highly diverse clade of angiosperms found mostly in the Northern Hemisphere, with the highest diversity in temperate areas of the Old World. Chloroplast markers have greatly improved our understanding of this clade but many relationships remain unclear primarily due to low levels of molecular ev...
