Analysis Of Mitochondrial Genes Research Articles

Mitochondrial genome insights into the spatio-temporal distribution and genetic diversity of Dendrobium hancockii Rolfe (Orchidaceae).

With its distinctive evolutionary rate and inheritance patterns separate from the nuclear genome, mitochondrial genome analysis has become a prominent focus of current research. Dendrobium hancockii Rolfe, a species of orchid with both medicinal and horticultural value, will benefit from the application of the fully assembled and annotated mitochondrial genome. This will aid in elucidating its phylogenetic relationships, comparative genomics, and population genetic diversity. Based on sequencing results from Illumina combined with PacBio and Nanopore, the mitochondrial genome map of D. hancockii was constructed. Comparative analysis was conducted from the perspectives of phylogeny across multiple species, selection pressure on protein-coding genes, and homologous segments. The population diversity of D. hancockii was analyzed using single nucleotide polymorphism (SNP) data from the mitochondrial genome and single-copy nuclear genes. This research constructed a circular mitochondrial map for D. hancockii, spanning 523,952 bp, containing 40 unique protein-coding genes, 37 transfer RNA genes, and 4 ribosomal RNA genes. Comparative analysis of mitochondrial genes from 26 land plants revealed a conserved gene cluster, "rpl16-ccmFn-rps3-rps19," particularly within the Dendrobium genus. The mitochondrial genome of D. hancockii exhibits a lower point mutation rate but significant structural variation. Analysis of 103 resequencing samples identified 19,101 SNP sites, dividing D. hancockii into two major groups with limited gene flow between them, as supported by population diversity, genetic structure analysis, principal component analysis, and phylogenetic trees. The geographical distribution and genetic differentiation of D. hancockii into two major groups suggest a clear phytogeographical division, likely driven by ancient geological or climatic events. The close alignment of mitochondrial data with nuclear gene data highlights the potential of the mitochondrial genome for future studies on genetic evolution in this species.

Limnichthyskoreanus, a new species of creediid fish (Teleostei, Acropomatiformes, Creediidae) from Korea.

Limnichthyskoreanus sp. nov. is described on the basis of the holotype and 11 paratypes from subtidal waters of Seogwipo, Jeju Island, Korea. The new species had previously been regarded as the Northern Hemisphere population of the anti-equatorial L.fasciatus, but molecular analyses of mitochondrial COI and 16S genes recovers deep genetic divergences of 9.4% and 15.0% between the new species and topotypical specimens of L.fasciatus. Limnichthyskoreanus sp. nov. is distinguished from all other species of Limnichthys based on the following combination of colouration and morphological characteristics: 38-40 vertebrae; 0-6 dorsal saddles joining mid-lateral stripe; small infraorbital sensory pores; a single median interorbital pore; and well-developed vomerine teeth. Summary characters for comparative congeneric species are provided.

Generation and characterization of a novel ovariole cell line derived from Spodoptera frugiperda in China with sensitivity to both SfMNPV and AcMNPV

Spodoptera frugiperda multiple nucleopolyhedrovirus (SfMNPV), belonging to the species Alphabaculovirus spofrugiperdae, has been recently registered as an insecticide in China. This virus has a specific effect on the global major agricultural pest Spodoptera frugiperda. To gain insights into viral infection, replication processes, and the complex formation of viral particles, in vitro studies using cell lines are essential tools. Although the IPLB-Sf9 and IPLB-Sf21 cell lines derived from S. frugiperda are widely used for studies on the infection and replication mechanisms of Autographa californica multiple nucleopolyhedrovirus (AcMNPV), their capacity to produce viral polyhedra after SfMNPV infection is not optimal. To address this limitation, a novel cell line named IOZCAS-Sf-1 has been developed from a S. frugiperda population sourced Yunnan, China. The mitochondrial COX1 gene analysis confirmed the species origin of the IOZCAS-Sf-1 cell line. Furthermore, a comparative study was carried out to contrast the COX1 gene sequence of this novel cell line with that of IPLB-Sf9, highlighting the distinctions between the two. Importantly, the IOZCAS-Sf-1 cells exhibited a remarkable ability to generate polyhedra when infected with AcMNPV and SfMNPV, respectively. Consequently, this cellular lineage is considered a promising and valuable resource. It serves not only to investigate the molecular mechanisms of viral replication and its impact on host cells, but also to explore the transfection efficiency of SfMNPV DNA. This exploration further expands into its potential application in recombinant DNA experiments, laying a theoretical groundwork for the advancement of more effective biopesticides and sustainable agricultural practices.

Dendrodorididae (Heterobranchia, Nudibranchia) from Persian Gulf with a description of a new species of Doriopsilla and remarks on the family

The family Dendrodorididae has a global distribution, with prevalence in tropical and subtropical intertidal zones. Three species of Dendrodorididae were collected from the intertidal zone of the northern coast of the Persian Gulf in Iran. Based on anatomical, histological, and molecular investigations they can be assigned to Dendrodoris fumata, Dendrodoris nigra, and a new species of Doriopsilla, D. aroni sp. nov. Molecular analyses of CO1 and 16S, including all genera of Dendrodorididae, members of the sister taxon Phyllidiidae, and other dorid outgroups resulted in a polyphyletic genus Dendrodoris, which is in contrast to the nuclear gene studies. Our molecular results confirm the differentiation between Dendrodoris rubra and D. fumata. Dendrodoris nigra, D. fumata, and D. krusensternii each consist of several clades, indicating cryptic species complexes requiring further investigation. We describe the presence of bacteria for the first time in the vestibular gland of D. fumata. Validation of the specimens of Doriopsilla from the Persian Gulf as a new species is supported by haplotype networking, genetic distance, and ABGD analyses of mitochondrial genes. Our CO1 analysis confirms a previous hypothesis that Cariopsilla is a junior synonym of Doriopsilla.

Population Genetics of the Endemic Hemiculterella wui (Wang, 1935) in the Poyang Lake Basin (China)

The Yangtze River floodplain is an area with an extremely rich diversity of fish species. Poyang Lake, as an important part of this river–floodplain system, is a crucial habitat for the survival of fish. However, prolonged human activities, such as environmental pollution and hydroelectric development, have degraded the habitat in the Poyang Lake Basin, posing threats to fish populations. Understanding genetic diversity is crucial for maintaining fish populations and understanding their dynamics. The genetic diversity of Hemiculterella wui, an economically endemic species in China of subfamily Cultrinae (Cypriniformes: Cyprinidae), has been understudied. This study investigated the genetic diversity and structure of H. wui populations from the Ganjiang, Xinjiang, Fuhe, and Raohe rivers in the Poyang Lake Basin using mitochondrial Cytb gene analysis. Results showed high haplotype diversity but low nucleotide diversity in H. wui’s Cytb sequences. Analysis of molecular variance (AMOVA) showed no significant geographic genetic structure among populations. Haplotype network analysis revealed no clear geographical clustering. Neutrality tests and haplotype nucleotide mismatch distribution indicated that all populations had experienced expansion events. These findings suggest that H. wui in Poyang Lake does not show a distinct geographic structure. However, it is still necessary to monitor the genetic characteristics of H. wui to maintain the genetic diversity of fishes in Poyang Basin, considering the threat of habitat loss and fragmentation to the population.

Partial sequence analysis of mitochondrial D-loop gene in tukong chicken

Abstract Tukong chicken is called the rumples (no tailbone) chicken in Indonesia. This research was done to determine whether the D-loop in mitochondrial DNA might be used to distinguish between the Tukong chicken and other local chickens. The D-loop region’s first 630 base pairs were amplified and successfully sequenced. Our research displayed 34 nucleotide variants based on the alignment between the Tukong and GenBank of Gallus (25 accession number) sequences of Indonesian local chicken and several exotic chicken breeds. However, there were no specific mutations for Tukong chicken. The Tajima’s neutrality test showed that from 31 sequences and 34 total sites, the nucleotide diversity (π) was 0.013. The phylogenetic analysis by the maximum-likelihood method revealed that the Tukong chicken was in a different clade from the Araucana, Nunukan, and Piao chickens, which have similar rumples phenotypes. Meanwhile, the local chicken of Indonesia (Kampung Sumatera, Pelung, Cemani, and Bekikuk) and the Tukong chicken are closely related. It can be concluded that based on the partial D-loop sequences, the Tukong chicken is more closely related to Indonesian local chicken despite its different morphological appearance.

Molecular systematics of the subgenus Gephyromantis (Phylacomantis) with description of a new subspecies

The mantellid subgenus Phylacomantis (genus Gephyromantis) currently contains four species of frogs distributed in the South (G. corvus, G. kintana), West (G. atsingy), North East, North, and Sambirano regions (G. pseudoasper) in Madagascar. We assess the molecular systematics of these amphibians based on extended sampling and analysis of multiple nuclear-encoded and mitochondrial genes. We confirm the delimitation of the four known species, which form monophyletic groups in a mitochondrial tree and separate phylogroups without haplotype sharing in haplotype networks of four nuclear markers. Newly included samples of G. pseudoasper from the North and North East regions confirm a comparatively low genetic variation of this species across its range, with pairwise genetic distance in the 16S gene not exceeding 1.4%. On the contrary, newly collected specimens from three sites in the North East and North West of the island strongly differed from all other Phylacomantis, with genetic distances exceeding 4.8% for the16S gene. Mitochondrial and nuclear markers strongly suggest them to be sister to G. corvus from the South. Due to haplotype sharing in two nuclear genes, absence of detectable morphological differences, and lack of data on bioacoustic differentiation, we describe these populations as a new subspecies, G. corvus bakilana ssp. nov., emphasizing that this taxon may be elevated to species status in the future pending new data. This biogeographic pattern, with apparently disjunct sister lineages in the South vs. North West of Madagascar, is rare among Malagasy anurans and calls for increased exploration of the remaining humid forest fragments in the North West and West of the island.

Are abnormally large eastern bent-wing bats, <i>Miniopterus Fuliginosus</i> represent feature shift or result of hybridisation?

During a study of morphological variation in bent-wing bats (Miniopterus), we found that specimens originating from the Cao Bang province of Vietnam, identified as M. fuliginosus, were closer in size to the larger species, M. magnater. Mitochondrial gene analysis clearly places these specimens in the former species. At the same time, morphometric analysis of 21 cranial measurements definitely puts these specimens closer to M. magnater and shows their differences from M. fuliginosus samples from different parts of the species range. We assume that in the low mountains of northern Vietnam and southern China, M. fuliginosus, due to as yet unknown circumstances, occupies the niche of a larger species. However insufficient data on nuclear markers also assume a hybrid origin of this population, which borrowed the mtDNA of another species..

Seasonal impacts on gut microbial composition of the Eastern subterranean termite (Blattodea: Rhinotermitidae).

Termite hindguts are inhabited by symbionts that help with numerous processes, but changes in the gut microbiome due to season can potentially impact the physiology of termites. This study investigated the impact of seasonal changes on the composition of bacteria and protozoa in the termite gut. Termites were obtained monthly from May to October 2020 at a location in the central United States that typically experiences seasonal air temperatures ranging from < 0 to > 30 °C. The guts of 10 termites per biological replication were dissected and frozen within 1 day after collections. DNA was extracted from the frozen gut tissues and used for termite 16S rRNA mitochondrial gene analysis and bacterial 16S rRNA gene sequence surveys. Phylogenetic analysis of termite 16S rRNA gene sequences verified that the same colony was sampled across all time points. On processing bacterial 16S sequences, we observed alpha (observed features, Pielou's evenness, and Shannon diversity) and beta diversity (unweighted Unifrac, Bray-Curtis, and Jaccard) metrics to vary significantly across months. Based on the analysis of the composition of microbiomes with bias correction (ANCOM-BC) at the genus level, we found several significant bacterial taxa over collection months. In addition, Spearman correlation analysis demonstrated that 41 bacterial taxa were significantly correlated (positively and negatively) with average soil temperature. These results from a single termite colony suggest termite microbial communities go through seasonal changes in relative abundance related to temperature, although other seasonal effects cannot be excluded. Further investigations are required to conclusively define the consistency of microbial variation among different colonies with season.

Molecular insights into codon usage analysis of mitochondrial fission and fusion gene: relevance to neurodegenerative diseases.

Mitochondrial dysfunction is the leading cause of neurodegenerative disorders like Alzheimer's disease and Parkinson's disease. Mitochondria is a highly dynamic organelle continuously undergoing the process of fission and fusion for even distribution of components and maintaining proper shape, number, and bioenergetic functionality. A set of genes governs the process of fission and fusion. OPA1, Mfn1, and Mfn2 govern fusion, while Drp1, Fis1, MIEF1, and MIEF2 genes control fission. Determination of specific molecular patterns of transcripts of these genes revealed the impact of compositional constraints on selecting optimal codons. AGA and CCA codons were over-represented, and CCC, GTC, TTC, GGG, ACG were under-represented in the fusion gene set. In contrast, CTG was over-represented, and GCG, CCG, and TCG were under-represented in the fission gene set. Hydropathicity analysis revealed non-polar protein products of both fission and fusion gene set transcripts. AGA codon repeats are an integral part of translational regulation machinery and present a distinct pattern of over-representation and under-representation in different transcripts within the gene sets, suggestive of selective translational force precisely controlling the occurrence of the codon. Out of six synonymous codons, five synonymous codons encoding for leucine were used differently in both gene sets. Hence, forces regulating the occurrence of AGA and five synonymous leucine-encoding codons suggest translational selection. A correlation of mutational bias with gene expression and codon bias and GRAVY and AROMA signifies the selection pressure in both gene sets, while the correlation of compositional bias with gene expression, codon bias, protein properties, and minimum free energy signifies the presence of compositional constraints. More than 25% of codons of both gene sets showed a significant difference in codon usage. The overall analysis shed light on molecular features of gene sets involved in fission and fusion.

Screening of avian pathogens and genetic analysis of several mitochondrial genes in Dermanyssus gallinae populations in Türkiye&lt;/p &gt;

The poultry red mite, PRM, Dermanyssus gallinae (De Geer, 1778), is widely regarded as the primary ectoparasite affecting egg-laying hens around the world. Besides direct feeding damage, the transmission of avian pathogens by PRMs is also a significant concern. Therefore, we aimed to screen the presence of 14 common avian pathogens in 32 PRM populations from egg-laying hens in Türkiye. As a result, Salmonella enterica (n=3), Tsukamurella paurometabola (n=18), and Avian fowlpox virus (n=4) (3 of which were wild-type APV) were detected in tested PRM populations. The results showed that the prevalence of avian pathogens in Turkish PRM populations was low. Nevertheless, these findings suggested that PRM can harbor disease-causing agents and may act as a vector in the spread of these pathogens in farms. In addition, four mitochondrial genes (mtDNAs) of D. gallinae, namely ND4, ND5, cytb, and atp6, were amplified, and obtained sequences were submitted to the GenBank database for the first time, which will allow further analyses. The genetic variation within cytb sequences of Turkish PRMs was the highest (1.01%), whereas intra-specific genetic distance was 1.7% when compared to a Chinese population (only available cytb sequence in the GenBank), indicating increasing genetic differentiation by distance. Last, more sequences belonging to mitochondrial genes are required to reveal their potential as molecular markers.

First mitochondrial genome of Amblyomma triste Koch, 1844 (Acari: Ixodidae): Evidence for studying species within the A. maculatum group&lt;/p &gt;

The tick species that comprise the Amblyomma maculatum group (Acari: Ixodidae) are widely distributed in the Nearctic and Neotropical regions, ranging from the United States of America (USA) to Argentina. This group includes three species: Amblyomma maculatum, Amblyomma tigrinum, and Amblyomma triste, which parasitize a high number of vertebrates, including domestic mammals and humans, where they are the main vectors of Rickettsia parkeri s.s. The identification, distribution, and validity of the three species within the group have been controversial and continue to raise questions. Previous studies have mostly focused on the analysis of partial nuclear and mitochondrial genes, highlighting the need for new integrative analyses that contribute to clarifying their systematics and ecology. In this investigation, we obtained the first mitochondrial genome of A. triste (14,808 bp), which, upon comparison with the reported mitochondrial genomes of A. maculatum, exhibits a genetic distance of 4.2%, providing new evidence for the validity of the former species. The order, composition, and structure of the mitogenome of A. triste are consistent with the characteristics reported for most Metastriata including taxa within Amblyomma, that count with several mitochondrial genomes published in the last few years. The attributes of the mitogenomes, such as the absence of paralogs and a small genome, confirm the utility in studies involving complexes of cryptic species as it also serves as a robust tool for inferring phylogenies. Furthermore, we reported new molecular markers at the mitochondrial level which can be used in phylogenetic studies for other tick species, especially those with controversial or challenging taxonomy. We highlight the need of sequencing the mitochondrial genome of A. tigrinum, which is part of the A. maculatum group, as well as experimental crosses of populations from different places in the Americas to obtain additional evidence for species recognition.

Are Abnormally Large Eastern Bent-Wing Bats, Miniopterus fuliginosus, the Result of a Feature Shift or the Result of Hybridization?

During a study of morphological variations in bent-wing bats (Miniopterus), we found that specimens originating from the Cao Bang province of Vietnam, identified as M. fuliginosus, were closer in size to the larger species, M. magnater. Mitochondrial gene analysis clearly places these specimens in the former species. At the same time, morphometric analysis of 21 cranial measurements definitely puts these specimens closer to M. magnater and shows their differences from M. fuliginosus samples from different parts of the species range. We assume that, in the low mountains of northern Vietnam and southern China, M. fuliginosus, due to as yet unknown circumstances, occupies the niche of a larger species. However insufficient data on nuclear markers also assume a hybrid origin of this population, with mtDNA introgression from another species.

Different impact of vitamin D on mitochondrial activity and morphology in normal and malignant keratinocytes, the role of genomic pathway

Deregulation of mitochondria activity is one of the hallmarks of cancerogenesis and an important target for cancer therapy. Therefore, we compared the impact of an active form of vitamin D3 (1,25(OH)2D3) on mitochondrial morphology and bioenergetics in human squamous cell carcinoma (A431) and immortalized HaCaT keratinocytes. It was shown that mitochondria of cancerous A431 cells differ from that observed in HaCaT keratinocytes in terms of network, morphology, bioenergetics, glycolysis, and mitochondrial DNA copy number, while treatment of A431 with 1,25(OH)2D3 partially eliminates these differences. Furthermore, mitochondrial membrane potential, basal respiration, and mitochondrial reactive oxygen species production were decreased in A431 cells treated with 1,25(OH)2D3. Additionally, the expression and protein level of mitophagy marker PINK1 was significantly increased in A431 1,25(OH)2D3 treated cells, but not observed in treated HaCaT cells. Knockout of VDR (vitamin D receptor) or RXRA (binding partner retinoid X receptor) partially altered mitochondrial morphology and function as well as mitochondrial response to 1,25(OH)2D3. Transcriptomic analysis on A431 cells treated with 1,25(OH)2D3 revealed modulation of expression of several mitochondrial-related genes involved in mitochondrial depolarization, mitochondrial protein translation (i.e. LYRM9, MARS2), and fusion-fission (OPA1, FIS1, MFN1 and 2), however, none of the genes coded by mitochondrial DNA was affected. Interestingly, in silico analyses of nuclear-encoded mitochondrial genes revealed that they are rather activated by the secondary genomic response to 1,25(OH)2D3. Taken together, 1,25(OH)2D3 remodels mitochondrial architecture and bioenergetics through VDR-dependent and only partially RXRA-dependent activation of the genomic pathway, thus outlining a new perspective for anticancer properties of vitamin D3 in relation to mitochondria in squamous cell carcinoma.

Adaptive evidence of mitochondrial genes in Pteromalidae and Eulophidae (Hymenoptera: Chalcidoidea).

Pteromalidae and Eulophidae are predominant and abundant taxa within Chalcidoidea (Hymenoptera: Apocrita). These taxa are found in diverse ecosystems, ranging from basin deserts (200 m) to alpine grasslands (4500 m). Mitochondria, cellular powerhouses responsible for energy production via oxidative phosphorylation, are sensitive to various environmental factors such as extreme cold, hypoxia, and intense ultraviolet radiation characteristic of alpine regions. Whether the molecular evolution of mitochondrial genes in these parasitoids corresponds to changes in the energy requirements and alpine environmental adaptations remains unknown. In this study, we performed a comparative analysis of mitochondrial protein-coding genes from 11 alpine species of Pteromalidae and Eulophidae, along with 18 lowland relatives, including 16 newly sequenced species. We further examined the codon usage preferences (RSCU, ENC-GC3s, neutrality, and PR2 bias plot) in these mitochondrial protein-coding sequences and conducted positive selection analysis based on their Bayesian phylogenetic relationships, and identified positive selection sites in the ATP6, ATP8, COX1, COX3, and CYTB genes, emphasizing the crucial role of mitochondrial gene adaptive evolution in the adaptation of Pteromalidae and Eulophidae to alpine environments. The phylogenetically independent contrast (PIC) analysis results verified the ω ratio of 13 PCGs from Pteromalidae and Eulophidae increased with elevation, and results from generalized linear model confirm that ATP6, ATP8, COX3, and ND1 are closely correlated with temperature-related environmental factors. This research not only enriched the molecular data of endemic alpine species but also underscores the significance of mitochondrial genes in facilitating the adaptation of these minor parasitoids to plateau habitats.

Dryocoetiops krivetsae sp. n. (Coleoptera: Curculionidae: Scolytinae: Dryocoetini), the northernmost species of the genus: conflicts between molecular and morphological data in the tribe Dryocoetini.

A new species of bark beetle, Dryocoetiops krivetsae Kerchev, Mandelshtam, Bykov et Ilinsky, sp. n., from the southern part of Primorsky Krai (Russian Far East), is described. This is the northernmost discovery of the Oriental genus Dryocoetiops Schedl, 1957, and the first record of the genus in the Russian fauna. Phylogenetic analysis of nuclear and mitochondrial genes i) confirms an independent lineage of Dryocoetiops krivetsae and ii) indicates numerous conflicts of genera relationships in the tribe Dryocoetini.

Resolving phylogenetic relationships and taxonomic revision in the Pseudogastromyzon (Cypriniformes, Gastromyzonidae) genus: molecular and morphological evidence for a new genus, Labigastromyzon.

The Pseudogastromyzon genus, consisting of species predominantly distributed throughout southeastern China, has garnered increasing market attention in recent years due to its ornamental appeal. However, the overlapping diagnostic attributes render the commonly accepted criteria for interspecific identification unreliable, leaving the phylogenetic relationships among Pseudogastromyzon species unexplored. In the present study, we undertake molecular phylogenetic and morphological examinations of the Pseudogastromyzon genus. Our phylogenetic analysis of mitochondrial genes distinctly segregated Pseudogastromyzon species into two clades: the Pseudogastromyzon clade and the Labigastromyzon clade. A subsequent morphological assessment revealed that the primary dermal ridge (specifically, the second ridge) within the labial adhesive apparatus serves as an effective and precise interspecific diagnostic characteristic. Moreover, the distributional ranges of Pseudogastromyzon and Labigastromyzon are markedly distinct, exhibiting only a narrow area of overlap. Considering the morphological heterogeneity of the labial adhesive apparatus and the substantial division within the molecular phylogeny, we advocate for the elevation of the Labigastromyzon subgenus to the status of a separate genus. Consequently, we have ascertained the validity of the Pseudogastromyzon and Labigastromyzon species, yielding a total of six valid species. To facilitate future research, we present comprehensive descriptions of the redefined species and introduce novel identification keys.

Comprehensive analysis of mitochondrial dynamic-related genes on their functions and prognostic values for glioblastoma multiforme

Comprehensive analysis of mitochondrial dynamic-related genes on their functions and prognostic values for glioblastoma multiforme

The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)

Abstract The digestive tract of oligochaetes harbours a diverse ciliate community embracing plagiotomids, nyctotherids, astomes, and hysterocinetids. Although several hundred intestinal ciliate species are known, only two hysterocinetids have been reported from the intestine of Holarctic lumbricid earthworms hitherto. The present study is focused on the taxonomy, morphology, and molecular phylogeny of two lumbricid-dwelling taxa, the insufficiently known Protoptychostomum simplex and Hysterocineta bellerophon sp. nov., detected in Central Europe. Diagnoses of the genera Protoptychostomum and Hysterocineta were improved taking into account also features of the oral ciliature for the first time. In the past, the proper classification of hysterocinetids in the class Oligohymenophorea was hampered by the dramatic remodelling of the anterior body end into a thigmotactic sucker, as well as by the helicalization and transfer of the oral apparatus to the posterior body pole. The present phylogenetic analyses of nuclear and mitochondrial genes robustly reject the classification of hysterocinetids in subclass Scuticociliatia or as a distinct subclass, Hysterocinetia. However, hysterocinetids were consistently and robustly nested deep in subclass Hymenostomatia in a sister-position to the free-living Tetrahymena paravorax. The hymenostome affinity of hysterocinetids is also corroborated by the parakinetal stomatogenesis and the stichodyad paroral membrane accompanied by three regularly organized membranelles.

Evaluating the role of selection in the evolution of mitochondrial genomes of aboriginal peoples of Siberia.

Studies of the nature of mitochondrial DNA (mtDNA) variability in human populations have shown that protein-coding genes are under negative (purifying) selection, since their mutation spectra are characterized by a pronounced predominance of synonymous substitutions over non-synonymous ones (Ka/Ks < 1). Meanwhile, a number of studies have shown that the adaptation of populations to various environmental conditions may be accompanied by a relaxation of negative selection in some mtDNA genes. For example, it was previously found that in Arctic populations, negative selection is relaxed in the mitochondrial ATP6 gene, which encodes one of the subunits of ATP synthase. In this work, we performed a Ka/Ks analysis of mitochondrial genes in large samples of three regional population groups in Eurasia: Siberia (N = 803), Western Asia/Transcaucasia (N = 753), and Eastern Europe (N = 707). The main goal of this work is to search for traces of adaptive evolution in the mtDNA genes of aboriginal peoples of Siberia represented by populations of the north (Koryaks, Evens) and the south of Siberia and the adjacent territory of Northeast China (Buryats, Barghuts, Khamnigans). Using standard Ka/Ks analysis, it was found that all mtDNA genes in all studied regional population groups are subject to negative selection. The highest Ka/Ks values in different regional samples were found in almost the same set of genes encoding subunits of ATP synthase (ATP6, ATP8), NADH dehydrogenase complex (ND1, ND2, ND3), and cytochrome bc1 complex (CYB). The highest Ka/Ks value, indicating a relaxation of negative selection, was found in the ATP6 gene in the Siberian group. The results of the analysis performed using the FUBAR method (HyPhy software package) and aimed at searching for mtDNA codons under the influence of selection also showed the predominance of negative selection over positive selection in all population groups. In Siberian populations, nucleotide sites that are under positive selection and associated with mtDNA haplogroups were registered not in the north (which is expected under the assumption of adaptive evolution of mtDNA), but in the south of Siberia.