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Ancient lakes are hotspots of species diversity, posing challenges and opportunities for exploration of the dynamics of endemic diversification. Lake Baikal in Siberia, the oldest lake in the world, hosts a particularly rich crustacean fauna, including the largest known species flock of harpacticoid copepods with some 70 species. Here, we focused on exploring the diversity and evolution within a single nominal species, Harpacticella inopinata Sars, 1908, using molecular markers (mitochondrial COI, nuclear ITS1 and 28S rRNA) and a set of qualitative and quantitative morphological traits. Five major mitochondrial lineages were recognized, with model‐corrected COI distances of 0.20–0.37. A concordant pattern was seen in the nuclear data set, and qualitative morphological traits also distinguish a part of the lineages. All this suggests the presence of several hitherto unrecognized cryptic taxa within the baikalian H. inopinata, with long independent histories. The abundances, distributions and inferred demographic histories were different among taxa. Two taxa, H. inopinata CE and H. inopinata CW, were widespread on the eastern and western coasts, respectively, and were largely allopatric. Patterns in mitochondrial variation, that is, shallow star‐like haplotype networks, suggest these taxa have spread through the lake relatively recently. Three other taxa, H. inopinata RE, RW and RW2, instead were rare and had more localized distributions on either coast, but showed deeper intraspecies genealogies, suggesting older regional presence. The rare taxa were often found in sympatry with the others and occasionally introgressed by mtDNA from the common ones. The mitochondrial divergence between and within the H. inopinata lineages is still unexpectedly deep, suggesting an unusually high molecular rate. The recognition of true systematic diversity in the evaluation and management of ecosystems is important in hotspots, as it is everywhere else, while the translation of the diversity into a formal taxonomy remains a challenge. In this paper, we delved into the diversification and evolutionary history of endemic copepod crustacean Harpacticella inopinata from the ancient Lake Baikal. We found a complex of five cryptic species with deep levels of mitochondrial divergence and long independent evolutionary histories.

Eucyclops speratus (Lilljeborg, 1901) (Copepoda, Cyclopoida, Cyclopidae) was studied using various methods. Molecular genetic methods (comparison of COI and ITSn molecular markers) have shown that this species represents a species complex, and the following methods were used to search for differences between the species: analysis of qualitative and quantitative characters, linear morphometrics, landmark-based geometric morphometrics, and integumental pore pattern of the cephalothorax. Eucyclops sibiricus sp. nov. from Middle Siberia is described. The two studied species can be considered pseudocryptic; the main morphological difference between the species is the number of setules on the inner side of the first and second exopod segments of the fourth pair of swimming legs: E. sibiricus sp. nov. has 6–10 and 7–17 setules, respectively; E. speratus has 0–3 and 0–6 setules, respectively. The morphometry and integumental pore pattern of the cephalothorax were ineffective for identification and separation of species. The existing previous records of E. speratus were also analyzed, and the records of this species in the Irkutsk region (Russia), as well as in Japan and Korea, are attributed to E. sibiricus sp. nov.

A new species, Diacyclops dyabdar sp. nov. from the Diacyclops crassicaudis (Sars, 1863) species group from northern Middle Siberia, is described. This species is interesting from an ecological point of view, as it lives mainly in watercourses. It is well-distinguished from other species of the group by the presence of spinules on the first segments of the third and fourth pairs of swimming legs, details of the ornamentation on the fourth pair of legs and caudal rami. A detailed comparison of the new species and D. crassicaudis is presented. Molecular markers, including cytochrome c oxidase (COI) of mtDNA and 18S rRNA, ITS1 and ITS2 of nuclear DNA were obtained for a single female of D. dyabdar sp. nov. A morphometric analysis of species and subspecies of the D. crassicaudis group was carried out. It showed slight differences between the described subspecies and some species. On this basis, the subspecies D. crassicaudis, as well as D. iranicus Pesce & Maggi, 1982 and D. fontinalis Naidenow, 1969, are synonymized with the subspecies type. A more precise diagnosis of the D. crassicaudis group is indicated. This group now includes six species. The taxonomic position of several questionable taxa of Diacyclops Kiefer, 1927 described from Iran is discussed: D. landei Mahoon & Zia, 1985; D. bicuspidatus jurenei Najam-un-Nisa, Mahoon & Irfan Khan, 1987; D. landei richardi Parveen, Mahoon & Saleem, 1988 and D. jurenei Parveen, Mahoon & Saleem, 1988. These taxa are accepted as nomen dubium.

The larvae of the genus Chironomus are a common object for hydrobiological studies, as well as a model object for cytogenetics. Morphologically, the species are very similar. One of these species or species complex is Chironomus “annularius”, which has a Holarctic distribution. It has chromosomal banding sequences characteristic of Nearctic and Palearctic populations. Using an integrated method that included morphology, cytogenetics, and molecular genetics, we analyzed populations from Russia, Mongolia, and Armenia. We found through cytogenetics and larval morphology that the populations have high similarity. Molecular genetic studies have shown significant differences between the populations. The genetic distances between the populations, in some cases, exceed the interspecific threshold of 3%, and are 6.5%. In the South Caucasian population (Lake Sevan), a chromosomal banding sequence, h’annD3, that was previously observed only in North America, was found for the first time. The larvae from Lake Sevan have large genetic distances from others, and are morphologically similar to the species Chironomus markosjani Shilova 1983, described from this lake without comparison with Ch. annularius nor an exact description of the karyotype. The sequences of the COI genes from Montenegro (Lake Skadar) and West Siberia (Novosibirsk) found in GenBank may belong to a new undescribed species, or a species not represented in the database. Thus, the analyzed data on Chironomus “annularius” support the presence of the complex of homosequential species under this name.

Temperature adaptations of ectothermic species as well as the plasticity of their thermal strategies are important for survival during temperature fluctuations, in particular, caused by global warming. The critical thermal maximum (CTM)—the values of the water temperature at which heat shock was noted (loss of motor activity in case of copepods) was determined under laboratory conditions. The “chronic” method was used to identify the temperature preferences of the copepods in which a group of test organisms are placed into a thermogradient apparatus. The main result is that in the experiment for individuals of the summer generation C. bohater, the optimal thermal conditions (FTP) were within 6–11 °C. Summer generation of this copepod in natural water bodies develops at a temperature of 5–12 °C, which is close to FTP in the experiment. At the same time, the thermal resistance of C. bohater (CTM 31.5 °C) was found to be the lowest among the species of the genus Cyclops. The differences between the thermal preferences of the winter and summer generations expand the temperature of normal performance (TNP) range and indicate a high physiological plasticity of the C. bohater population. This property is likely to allow C. bohater to survive as the climate continues to warm.

The genus Eucyclops is the most species-rich within the subfamily Eucyclopinae. Despite the significant research of Eucyclops in Russia, there are still vast areas including Siberia, the Baikal region, and the Far East with fragmentary study of this genus, particular with regard to molecular methods. In this work we have sequenced four molecular markers with different evolutionary rates and inheritance types (COI and 12S rRNA mtDNA, 18S rRNA and ITSn rDNA) to estimate the biodiversity of Eucyclops in the Baikal region. Five species E. serrulatus, E. speratus, E. macruroides, E. arcanus, and E. macrurus baicalocorrepus were identified through a combination of morphological and genetic methods in the Baikal region. The necessity for a taxonomic revision of endemic Baikal E. macrurus baicalocorrepus and E. macruroides baicalensis has been established. We assume that two forms of E. macrurus baicalocorrepus with short and long caudal rami are distinct endemic Baikal species. The genetic analysis of E. serrulatus, E. speratus, and E. macruroides revealed that the Baikal Cyclopoida, along with the Far Eastern and other Siberian representatives of the genus, form a distinct genetic lineage that differs from the majority of European representatives, with some exceptions.

(Lilljeborg, 1901) (Copepoda, Cyclopoida, Cyclopidae) was studied using various methods. Molecular genetic methods (comparison of COI and ITSn molecular markers) have shown that this species represents a species complex, and the following methods were used to search for differences between the species: analysis of qualitative and quantitative characters, linear morphometrics, landmark-based geometric morphometrics, and integumental pore pattern of the cephalothorax. from Middle Siberia is described. The two studied species can be considered pseudocryptic; the main morphological difference between the species is the number of setules on the inner side of the first and second exopod segments of the fourth pair of swimming legs: has 6-10 and 7-17 setules, respectively; has 0-3 and 0-6 setules, respectively. The morphometry and integumental pore pattern of the cephalothorax were ineffective for identification and separation of species. The existing previous records of were also analyzed, and the records of this species in the Irkutsk region (Russia), as well as in Japan and Korea, are attributed to

The larvae of the genus Chironomus are a common object for hydrobiological studies, as well as a model object for cytogenetics. Morphologically, the species are very similar. One of these species or species complex is Chironomus “annularius”, which has a Holarctic distribution. It has chromosomal banding sequences characteristic of Nearctic and Palearctic populations. Using an integrated method that included morphology, cytogenetics, and molecular genetics, we analyzed populations from Russia, Mongolia, and Armenia. We found through cytogenetics and larval morphology that the populations have high similarity. Molecular genetic studies have shown significant differences between the populations. The genetic distances between the populations, in some cases, exceed the interspecific threshold of 3%, and are 6.5%. In the South Caucasian population (Lake Sevan), a chromosomal banding sequence, h’annD3, that was previously observed only in North America, was found for the first time. The larvae from Lake Sevan have large genetic distances from others, and are morphologically similar to the species Chironomus markosjani Shilova 1983, described from this lake without comparison with Ch. annularius nor an exact description of the karyotype. The sequences of the COI genes from Montenegro (Lake Skadar) and West Siberia (Novosibirsk) found in GenBank may belong to a new undescribed species, or a species not represented in the database. Thus, the analyzed data on Chironomus “annularius” support the presence of the complex of homosequential species under this name.

A new species, Diacyclops dyabdar sp. nov. from the Diacyclops crassicaudis (Sars, 1863) species group from northern Middle Siberia, is described. This species is interesting from an ecological point of view, as it lives mainly in watercourses. It is well-distinguished from other species of the group by the presence of spinules on the first segments of the third and fourth pairs of swimming legs, details of the ornamentation on the fourth pair of legs and caudal rami. A detailed comparison of the new species and D. crassicaudis is presented. Molecular markers, including cytochrome c oxidase (COI) of mtDNA and 18S rRNA, ITS1 and ITS2 of nuclear DNA were obtained for a single female of D. dyabdar sp. nov. A morphometric analysis of species and subspecies of the D. crassicaudis group was carried out. It showed slight differences between the described subspecies and some species. On this basis, the subspecies D. crassicaudis, as well as D. iranicus Pesce & Maggi, 1982 and D. fontinalis Naidenow, 1969, are synonymized with the subspecies type. A more precise diagnosis of the D. crassicaudis group is indicated. This group now includes six species. The taxonomic position of several questionable taxa of Diacyclops Kiefer, 1927 described from Iran is discussed: D. landei Mahoon & Zia, 1985; D. bicuspidatus jurenei Najam-un-Nisa, Mahoon & Irfan Khan, 1987; D. landei richardi Parveen, Mahoon & Saleem, 1988 and D. jurenei Parveen, Mahoon & Saleem, 1988. These taxa are accepted as nomen dubium.

Temperature adaptations of ectothermic species as well as the plasticity of their thermal strategies are important for survival during temperature fluctuations, in particular, caused by global warming. The critical thermal maximum (CTM)—the values of the water temperature at which heat shock was noted (loss of motor activity in case of copepods) was determined under laboratory conditions. The “chronic” method was used to identify the temperature preferences of the copepods in which a group of test organisms are placed into a thermogradient apparatus. The main result is that in the experiment for individuals of the summer generation C. bohater, the optimal thermal conditions (FTP) were within 6–11 °C. Summer generation of this copepod in natural water bodies develops at a temperature of 5–12 °C, which is close to FTP in the experiment. At the same time, the thermal resistance of C. bohater (CTM 31.5 °C) was found to be the lowest among the species of the genus Cyclops. The differences between the thermal preferences of the winter and summer generations expand the temperature of normal performance (TNP) range and indicate a high physiological plasticity of the C. bohater population. This property is likely to allow C. bohater to survive as the climate continues to warm.