Elena Shubina - Academia.edu (original) (raw)
Papers by Elena Shubina
U ovom radu je izložen komercijalni i akvakulturni značaj porodice lipljana (Thymallidae) na teri... more U ovom radu je izložen komercijalni i akvakulturni značaj porodice lipljana (Thymallidae) na teritoriji Rusije. Posebna pažnja je poklonjena genetičkim studijama ove familije, uzimajući u obzir da populacije evropskog lipljana u Rusiji još uvek nisu u dovoljnoj meri istražene. Rad zapravo predstavlja polaznu genetičku studiju evropskog lipljana u svrhu konzervacije ove vrste. Studija uključuje prikupljene uzorke od 5 jedinki evropskog lipljana (T. thymallus) iz slivova reka Severna Dvina i Kuloj, 2 sibirska lipljana (T. arcticus) iz sliva reke Ob i jednog uzorka lipljana iz gornjeg toka reke Jenisej. Analiza MtDNA je urađena koristeći 3 fragmenta gena ATP6, CR i COI. Po prvi put su dobijeni genetički podaci riba iz reke Kuloj. Od uzoraka svih riba, jedino su identifikovani haplotipovi evropskog lipljana
Russian Journal of Marine Biology, 2016
Environmental Biology of Fishes, 2004
The intraspecific structure of major populations of the walleye pollock Theragra chalcogramma fro... more The intraspecific structure of major populations of the walleye pollock Theragra chalcogramma from the northwestern part of the Bering Sea was studied. Specimens from Navarin, Olyutor and Shirshov shoals were sampled in the 2001 spawning season. Preliminary cluster analysis (TREECON) of PCR-RAPD data revealed the existence of cluster with low level of bootstrap support, which generally corresponds to geographic localization of the shoals. Processing of microsatellite sequence data (loci Tch12, Tch14, Tch15 and Tch18) with GENEPOP demonstrated the deviation from HWE and differentiation between the samples. The value of the inter-population variance (F st = 0.02) corresponded to published data on marine stocks, which were subject to high levels of gene flow. The Shirshov group was found to be equidistant from the Navarin and Olyutor groups, with the genetic distance between the latter two being significantly less. Analysis of the microsatellite loci inferred disparities in their selective capacities. Loci Tch12 and Tch15 are found to be highly homozygous with low levels of polymorphism. Tch12 clearly follows the '3 band' pattern. Tch15 shows sign of linkage disequilibrium. Comparison of F st values for the loci with the mean standardized variance f 0 suggests that Tch12 is under pressure of disruptive selection, while Tch15 is rather neutral and Tch14 and Tch18 are under the influence of balance selection. Also a discussion is conducted in the context of undeterminate group migration.
Biochemistry (Moscow), 2007
Genetic resemblance of chars Salvelinus alpinus krasheninnikovi (Salvelinus malma krasheninnikovi... more Genetic resemblance of chars Salvelinus alpinus krasheninnikovi (Salvelinus malma krasheninnikovi) of 35 samples collected in five Kuril Islands-Shumshu, Paramushir, Onekotan, Iturup, and Kunashir-has been studied by the PCR-RAPD method. In the limits of each island, both resident isolates and anadromous forms give strictly supported clusters distinct from samples from the other islands. The samples from five islands form three superclusters: the first from Kunashir and Iturup Islands, the second from Paramushir and Onekotan Islands, and the third from Shumshu Island. The possible reasons for genetic similarity of resident and anadromous forms of Dolly Varden chars inhabiting reservoirs of a definite island are considered (the founder effect, homing, limited migration).
Frontiers in Marine Science, 2019
International Journal of Genomics, 2013
The aim of the study is a comparative investigation of changes that certain genome parts undergo ... more The aim of the study is a comparative investigation of changes that certain genome parts undergo during speciation. The research was focused on divergence of coding and noncoding sequences in different groups of salmonid fishes of the Salmonidae (Salmo, Parasalmo, Oncorhynchus, andSalvelinusgenera) and the Coregonidae families under different levels of reproductive isolation. Two basic approaches were used: (1) PCR-RAPD with a 20–22 nt primer design with subsequent cloning and sequencing of the products and (2) a modified endonuclease restriction analysis. The restriction fragments were shown with sequencing to represent satellite DNA. Effects of speciation are found in repetitive sequences. The revelation of expressed sequences in the majority of the employed anonymous loci allows for assuming the adaptive selection during allopatric speciation in isolated char forms.
Molecular Biology, 2009
Walleye pollock Theragra chalcogramma Pallas occupies a central place in ecosystems of the North ... more Walleye pollock Theragra chalcogramma Pallas occupies a central place in ecosystems of the North Pacific and is an important target species of fisheries. The species is characterized by daily vertical, spawning, feeding, and wintering migrations and spawning occurring under the sea ice. Since population structure estimation by the tagging with recapture is inefficient in walleye pollock, the pollock resources are difficult to estimate by conventional methods, requiring population genetic studies with molecular markers. The population genetic structure of five spawning aggregations from the Bering Sea was for the first time studied with ten microsatellite loci: Tch5, Tch10, Tch11, Tch12, Tch14, Tch16, Tch17, Tch19, Tch20, and Tch22. A spatially distant sample from the Sea of Okhotsk was used as a reference group. Polymorphism for the markers reached 100%, and heterozygosity of individual loci ranged from 41 to 95% in different populations. It was shown the aggregations of interest are in goodness-to-fit the Hardy-Weinberg equilibrium (HWE) at hole, while the Sea of Okhotsk sample demonstrated a sex bias: the heterozygosity at Tch16 in males was significantly lower than in females. The highest discriminative power was observed for Tch10, Tch20, and Tch22. F ST genetic distances between populations were typical for marine fishes. A mixed composition was supposed for the sample from the region of the underwater Shirshov Ridge, which serves as a natural partial geographic barrier between the Olyutor-Karagin and Koryak walleye pollock stocks. With the Shirshov sample excluded, F ST scatter plots and the spatial autocorrelation approach supported isolation by distance for the aggregations. An influence of abiotic factors on the population structure was assumed for walleye pollock of the Bering Sea.
Journal of Ichthyology, 2014
ABSTRACT The phenetic variability (types of life strategy, age and sex structure of population, b... more ABSTRACT The phenetic variability (types of life strategy, age and sex structure of population, biological peculiarities), the anthropogenic pressure, and the genetic diversity were studied by five microsatellite loci for several minor populations of brown trout Salmo trutta inhabiting the waterbodies of Velikaya Salma Strait watershed area (Kandalaksha Bay, the White Sea). The level of genetic and phenetic diversity in small populations was comparable to those representing large water systems. Significant spatial dissimilarity of the populations located in less than 15-km distance was found. Low allelic and genetic diversity was observed for the studied populations. Variability of some studied loci through the time period was observed for the fish sampled from different populations. We assume that minor populations of brown trout may be treated as the standards of native populations for the monitoring activities on the brown trout populations and its environment both in short-term and long-term perspective.
U ovom radu je izložen komercijalni i akvakulturni značaj porodice lipljana (Thymallidae) na teri... more U ovom radu je izložen komercijalni i akvakulturni značaj porodice lipljana (Thymallidae) na teritoriji Rusije. Posebna pažnja je poklonjena genetičkim studijama ove familije, uzimajući u obzir da populacije evropskog lipljana u Rusiji još uvek nisu u dovoljnoj meri istražene. Rad zapravo predstavlja polaznu genetičku studiju evropskog lipljana u svrhu konzervacije ove vrste. Studija uključuje prikupljene uzorke od 5 jedinki evropskog lipljana (T. thymallus) iz slivova reka Severna Dvina i Kuloj, 2 sibirska lipljana (T. arcticus) iz sliva reke Ob i jednog uzorka lipljana iz gornjeg toka reke Jenisej. Analiza MtDNA je urađena koristeći 3 fragmenta gena ATP6, CR i COI. Po prvi put su dobijeni genetički podaci riba iz reke Kuloj. Od uzoraka svih riba, jedino su identifikovani haplotipovi evropskog lipljana
Russian Journal of Marine Biology, 2016
Environmental Biology of Fishes, 2004
The intraspecific structure of major populations of the walleye pollock Theragra chalcogramma fro... more The intraspecific structure of major populations of the walleye pollock Theragra chalcogramma from the northwestern part of the Bering Sea was studied. Specimens from Navarin, Olyutor and Shirshov shoals were sampled in the 2001 spawning season. Preliminary cluster analysis (TREECON) of PCR-RAPD data revealed the existence of cluster with low level of bootstrap support, which generally corresponds to geographic localization of the shoals. Processing of microsatellite sequence data (loci Tch12, Tch14, Tch15 and Tch18) with GENEPOP demonstrated the deviation from HWE and differentiation between the samples. The value of the inter-population variance (F st = 0.02) corresponded to published data on marine stocks, which were subject to high levels of gene flow. The Shirshov group was found to be equidistant from the Navarin and Olyutor groups, with the genetic distance between the latter two being significantly less. Analysis of the microsatellite loci inferred disparities in their selective capacities. Loci Tch12 and Tch15 are found to be highly homozygous with low levels of polymorphism. Tch12 clearly follows the '3 band' pattern. Tch15 shows sign of linkage disequilibrium. Comparison of F st values for the loci with the mean standardized variance f 0 suggests that Tch12 is under pressure of disruptive selection, while Tch15 is rather neutral and Tch14 and Tch18 are under the influence of balance selection. Also a discussion is conducted in the context of undeterminate group migration.
Biochemistry (Moscow), 2007
Genetic resemblance of chars Salvelinus alpinus krasheninnikovi (Salvelinus malma krasheninnikovi... more Genetic resemblance of chars Salvelinus alpinus krasheninnikovi (Salvelinus malma krasheninnikovi) of 35 samples collected in five Kuril Islands-Shumshu, Paramushir, Onekotan, Iturup, and Kunashir-has been studied by the PCR-RAPD method. In the limits of each island, both resident isolates and anadromous forms give strictly supported clusters distinct from samples from the other islands. The samples from five islands form three superclusters: the first from Kunashir and Iturup Islands, the second from Paramushir and Onekotan Islands, and the third from Shumshu Island. The possible reasons for genetic similarity of resident and anadromous forms of Dolly Varden chars inhabiting reservoirs of a definite island are considered (the founder effect, homing, limited migration).
Frontiers in Marine Science, 2019
International Journal of Genomics, 2013
The aim of the study is a comparative investigation of changes that certain genome parts undergo ... more The aim of the study is a comparative investigation of changes that certain genome parts undergo during speciation. The research was focused on divergence of coding and noncoding sequences in different groups of salmonid fishes of the Salmonidae (Salmo, Parasalmo, Oncorhynchus, andSalvelinusgenera) and the Coregonidae families under different levels of reproductive isolation. Two basic approaches were used: (1) PCR-RAPD with a 20–22 nt primer design with subsequent cloning and sequencing of the products and (2) a modified endonuclease restriction analysis. The restriction fragments were shown with sequencing to represent satellite DNA. Effects of speciation are found in repetitive sequences. The revelation of expressed sequences in the majority of the employed anonymous loci allows for assuming the adaptive selection during allopatric speciation in isolated char forms.
Molecular Biology, 2009
Walleye pollock Theragra chalcogramma Pallas occupies a central place in ecosystems of the North ... more Walleye pollock Theragra chalcogramma Pallas occupies a central place in ecosystems of the North Pacific and is an important target species of fisheries. The species is characterized by daily vertical, spawning, feeding, and wintering migrations and spawning occurring under the sea ice. Since population structure estimation by the tagging with recapture is inefficient in walleye pollock, the pollock resources are difficult to estimate by conventional methods, requiring population genetic studies with molecular markers. The population genetic structure of five spawning aggregations from the Bering Sea was for the first time studied with ten microsatellite loci: Tch5, Tch10, Tch11, Tch12, Tch14, Tch16, Tch17, Tch19, Tch20, and Tch22. A spatially distant sample from the Sea of Okhotsk was used as a reference group. Polymorphism for the markers reached 100%, and heterozygosity of individual loci ranged from 41 to 95% in different populations. It was shown the aggregations of interest are in goodness-to-fit the Hardy-Weinberg equilibrium (HWE) at hole, while the Sea of Okhotsk sample demonstrated a sex bias: the heterozygosity at Tch16 in males was significantly lower than in females. The highest discriminative power was observed for Tch10, Tch20, and Tch22. F ST genetic distances between populations were typical for marine fishes. A mixed composition was supposed for the sample from the region of the underwater Shirshov Ridge, which serves as a natural partial geographic barrier between the Olyutor-Karagin and Koryak walleye pollock stocks. With the Shirshov sample excluded, F ST scatter plots and the spatial autocorrelation approach supported isolation by distance for the aggregations. An influence of abiotic factors on the population structure was assumed for walleye pollock of the Bering Sea.
Journal of Ichthyology, 2014
ABSTRACT The phenetic variability (types of life strategy, age and sex structure of population, b... more ABSTRACT The phenetic variability (types of life strategy, age and sex structure of population, biological peculiarities), the anthropogenic pressure, and the genetic diversity were studied by five microsatellite loci for several minor populations of brown trout Salmo trutta inhabiting the waterbodies of Velikaya Salma Strait watershed area (Kandalaksha Bay, the White Sea). The level of genetic and phenetic diversity in small populations was comparable to those representing large water systems. Significant spatial dissimilarity of the populations located in less than 15-km distance was found. Low allelic and genetic diversity was observed for the studied populations. Variability of some studied loci through the time period was observed for the fish sampled from different populations. We assume that minor populations of brown trout may be treated as the standards of native populations for the monitoring activities on the brown trout populations and its environment both in short-term and long-term perspective.