Gene Differentiation in Pacific Salmon (Oncorhynchus sp.): Facts and Models with Reference to Pink Salmon (O. gorbuscha)

1994 ◽  
Vol 51 (S1) ◽  
pp. 223-232 ◽  
Author(s):  
Lev A. Zhivotovsky ◽  
A. J. Gharrett ◽  
A. J. McGregor ◽  
M. K. Glubokovsky ◽  
Marcus W. Feldman
Keyword(s):  
Pacific Salmon ◽  
Gene Diversity ◽  
Genetic Relationships ◽  
Pink Salmon ◽  
Theoretical Models ◽  
Genetic Distances ◽  
Gene Drift ◽  
Gene Differentiation ◽  
Or Gene ◽  
And Migration

Analyzing population genetic data usually involves examining relationships among populations followed by analysis of the distribution of genetic variability. Genetic relationships are often depicted with multidimensional scaling or trees constructed from genetic distances; genetic variation within and among populations is partitioned using gene diversity measures such as FST or GST. Genetic distances or gene diversity are often used to estimate influences of gene drift, migration, and/or selection on observed gene differentiation. We used allozyme data for pink salmon populations to examine the theoretical models available for estimating magnitudes of these factors in Pacific salmon populations. The models included (1) mutation and gene drift; (2) mutation and migration; (3) migration and gene drift; and (4) gene drift, migration, and selection. These models suggest that gene drift and migration are probably important at the lowest levels of population hierarchy, but even very small forces such as weak heterogeneous selection and low migration levels may be important at higher levels. The accuracy of some estimates should be questioned because for many situations appropriate models are either not yet available or are not sufficiently refined. Also, the dynamic genetic structure of salmon populations makes it unlikely that the steady state assumed for many theoretical models has obtained.

scholarly journals Genetic Relationships Among Representatives of Dasypyrum, Secale and Triticum Species Revealed with RAPD and ISSR Markers

2014 ◽  
Vol 42 (2) ◽  
pp. 420-430
Author(s):  
Agnieszka GRADZIELEWSKA ◽  
Mirosław TYRKA ◽  
Justyna LESNIOWSKA-NOWAK ◽  
Justyna NAZARUK
Keyword(s):  
Gene Diversity ◽  
Genetic Relationships ◽  
Issr Markers ◽  
Genetic Distances ◽  
Fixation Index ◽  
Triticum Species ◽  
The Difference ◽  
Bridge Species ◽  
Differentiation Gene ◽  
Rapd And Issr

In this study the genetic similarity among Dasypyrum, Secale andTriticum species with RAPDs and ISSRs was analyzed. To show a level of similarity between the species, 12 populations of Dasypyrum (11 D. villosum and 1 D. breviaristatum), together with 12 accessions belonging to 3 Secale species and 12 accessions from 4 Triticum species were used. Genetic distances (GD) and bootstrap values were calculated and PCA analysis was conducted to present the relationships among the species. To estimate the genetic structure among and inside genera, as well as population differentiation, gene diversity (He), total genetic variation (Ht) and Wright’s fixation index (Fst) were computed. The highest values were found in Triticum, within which Ht was equal to 0.332±0.023 and Fst was 0.42. It confirmed that the material studied was highly differentiated. Both systems found Dasypyrum more related with Triticum, as compared to Secale. With RAPDs, genetic distance (GD) between Triticum and Dasypyrum was 0.435, respectively 0.460 for Secale vs Dasypyrum. In the case of ISSRs these values were 0.374 and 0.407, respectively. Despite the fact that the difference between the two GD indices was insignificant, one should not exclude the possibility of successful hybridization of Dasypyrum and Secale, especially when using bridge species.

scholarly journals Factors determining spawning run dynamics and current state of sockeye salmon Oncorhynchus nerka resources in the Kamchatka River

2021 ◽  
Vol 57 (57) ◽  
pp. 5-66
Author(s):  
M. V. Koval ◽  
O. B. Tepnin ◽  
S. L. Gorin ◽  
E. S. Fadeev ◽  
O. V. Zikunova ◽  
...  
Keyword(s):  
Sockeye Salmon ◽  
Pacific Salmon ◽  
Pink Salmon ◽  
Hydrological Regime ◽  
Commercial Use ◽  
Current State ◽  
Kamchatka River ◽  
Anadromous Migration ◽  
Spawning Run ◽  
And Migration

Hydrological regime and morphodynamics of the outlet part of the Kamchatka River, dynamics of mixing zone, patterns of juvenile Pacific salmon distribution and migration in the coastal waters of Kamchatsky Gulf in the zone of operating trap nets were analyzed on the results of complex field works prowided in summer period in 2018–2019; fishing and specifics of sockeye salmon spawning run in the river was described. In the course of analyzing the entire complex of available long-term data, an assessment of the likely impact of some key factors on the dynamics of anadromous migration of sockeye salmon in the Kamchatka River was made; biological statistics of spawners and current state of reproduction of this stock was demonstrated. It is found, that natural environmental factors, neither abiotic nor biotic (including fish health as population internal factor), could not cause disturbance of sockeye salmon spawning run dynamics in the Kamchatka River in recent years. Smoller body size and physiological imperfection of the spawners before the anadromous migration due to effects of high number of pink salmon in recent years are suggested to be the most likely cause of spawning run delay in late sockeye salmon morph. Regime of commercial use of the stock and general increasing pressure on the spawning stock by coastal fisheries are demonstrated to be the strongest outer factors to affect modern state of the resources and sockeye salmon population structure in the Kamchatka River, causing permanent escapement deficiency on spawning grounds in the river basin (first of all in the late morph), and also infact lead to disballance between different subpopulation groups in the composition of the stock. Recommendations in order to provide recovery and sustainable level of the Kamchatka River sockeye salmon stock are given in the perspective of more efficient commercial use of the stock next several years; highlights for further researches are outlined.

scholarly journals Genetic Relationships and Diversity Analysis in Turkish Laurel (Laurus Nobilis L.) Germplasm Using ISSR and SCoT Markers

2021 ◽  
Author(s):  
Abdurrahim YILMAZ ◽  
Vahdettin Ciftci
Keyword(s):  
Genetic Diversity ◽  
Gene Diversity ◽  
Genetic Relationships ◽  
Genetic Distances ◽  
Laurus Nobilis ◽  
Information Index ◽  
Geographical Regions ◽  
Polymorphism Rate ◽  
Amova Analysis ◽  
Breeding Techniques

Abstract Laurel (Laurus nobilis L.) has been used in the Mediterranean basin since ancient ages. Nowadays, Turkey, Mexico, Portugal, Italy, Spain, France, Algeria, and Morocco use aromatic leaves for commercial purposes, and Turkey is the largest exporter in the world. In this study, molecular characterization and genetic relationships of 94 Turkish laurel genotypes were determined by ISSR and SCoT markers. The experiment was conducted with 16 ISSR and 10 SCoT markers. While 348 of 373 bands were polymorphic with a 94.04% polymorphism rate, Nei's genetic distances ranged between 0.17 and 0.70 with 0.39 mean in ISSR. In SCoT, 175 of 227 bands were polymorphic with 76.07% polymorphism rate, and Nei's distances varied between 0.12 and 0.51. Sufficient genetic diversity determined with diversity parameters consisting the average Shannon's information index (ISSR:0.46, SCoT:0.35), the overall gene diversity (ISSR:0.19, SCoT:0.18), and the effective number of alleles (ISSR:1.52, SCoT:1.38). AMOVA (Analysis of molecular variance) revealed most of the variation was within genotypes (%96). Neighbor-joining algorithms, principal coordinate analysis (PCoA), and model-based structure resulted in harmony and clustered according to the geographical regions and provinces they collected. Genotypes were divided into two groups in ISSR and SCoT with UPGMA clustering resulting in a similar polymorphism distribution. The correlation coefficient (r) determined by marker systems' Nei's genetic distance matrices was 0.88. The results of the study put forward resources for advanced breeding techniques, and contribute to the preservation of genetic diversity, and management of genetic resources for the breeders.

scholarly journals Physiological resilience of pink salmon to naturally occurring ocean acidification

2020 ◽  
Vol 8 (1) ◽  
Author(s):  
Andrea Y Frommel ◽  
Justin Carless ◽  
Brian P V Hunt ◽  
Colin J Brauner
Keyword(s):  
British Columbia ◽  
Elevated Co2 ◽  
Condition Factor ◽  
Pacific Salmon ◽  
Pink Salmon ◽  
Hypoxia Tolerance ◽  
High Co2 ◽  
The North ◽  
Naturally Occurring ◽  
Co2 Levels

Abstract Pacific salmon stocks are in decline with climate change named as a contributing factor. The North Pacific coast of British Columbia is characterized by strong temporal and spatial heterogeneity in ocean conditions with upwelling events elevating CO2 levels up to 10-fold those of pre-industrial global averages. Early life stages of pink salmon have been shown to be affected by these CO2 levels, and juveniles naturally migrate through regions of high CO2 during the energetically costly phase of smoltification. To investigate the physiological response of out-migrating wild juvenile pink salmon to these naturally occurring elevated CO2 levels, we captured fish in Georgia Strait, British Columbia and transported them to a marine lab (Hakai Institute, Quadra Island) where fish were exposed to one of three CO2 levels (850, 1500 and 2000 μatm CO2) for 2 weeks. At ½, 1 and 2 weeks of exposure, we measured their weight and length to calculate condition factor (Fulton’s K), as well as haematocrit and plasma [Cl−]. At each of these times, two additional stressors were imposed (hypoxia and temperature) to provide further insight into their physiological condition. Juvenile pink salmon were largely robust to elevated CO2 concentrations up to 2000 μatm CO2, with no mortality or change in condition factor over the 2-week exposure duration. After 1 week of exposure, temperature and hypoxia tolerance were significantly reduced in high CO2, an effect that did not persist to 2 weeks of exposure. Haematocrit was increased by 20% after 2 weeks in the CO2 treatments relative to the initial measurements, while plasma [Cl−] was not significantly different. Taken together, these data indicate that juvenile pink salmon are quite resilient to naturally occurring high CO2 levels during their ocean outmigration.

Genetic Diversity of Wild Oat (Avena fatua)Populations from China and the United States

Weed Science ◽  
2007 ◽  
Vol 55 (2) ◽  
pp. 95-101 ◽  
Author(s):  
Runzhi Li ◽  
Shiwen Wang ◽  
Liusheng Duan ◽  
Zhaohu Li ◽  
Michael J. Christoffers ◽  
...  
Keyword(s):  
United States ◽  
Genetic Diversity ◽  
Gene Diversity ◽  
Genetic Relationships ◽  
The United States ◽  
Mantel Test ◽  
Wild Oat ◽  
Chinese Populations ◽  
Nei's Distance ◽  
The Impact

Weed genetic diversity is important for understanding the ability of weeds to adapt to different environments and the impact of herbicide selection on weed populations. Genetic diversity within and among six wild oat populations in China varying in herbicide selection pressure and one population in North Dakota were surveyed using 64 polymorphic alleles resulting from 25 microsatellite loci. Mean Nei's gene diversity (h) for six wild oat populations from China was between 0.17 and 0.21, and total diversity (HT) was 0.23. A greater proportion of this diversity, however, was within (Hs= 0.19) rather than among (Gst= 0.15) populations. For the wild oat population from the United States,h= 0.24 andHT= 0.24 were comparable to the values for the six populations from China. Cluster analysis divided the seven populations into two groups, where one group was the United States population and the other group included the six Chinese populations. The genetic relationships among six populations from China were weakly correlated with their geographic distribution (r= 0.22) using the Mantel test. Minimal difference in gene diversity and small genetic distance (Nei's distance 0.07 or less) among six populations from China are consistent with wide dispersal of wild oat in the 1980s. Our results indicate that the wild oat populations in China are genetically diverse at a level similar to North America, and the genetic diversity of wild oat in the broad spatial scale is not substantially changed by environment, agronomic practices, or herbicide usage.

scholarly journals Genetic diversity in table grapes based on RAPD and microsatellite markers

2011 ◽  
Vol 46 (9) ◽  
pp. 1035-1044 ◽  
Author(s):  
Patrícia Coelho de Souza Leão ◽  
Sérgio Yoshimitsu Motoike
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Genetic Relationships ◽  
Similarity Index ◽  
Genetic Distances ◽  
Table Grape ◽  
Group Method ◽  
Molecular Characteristics ◽  
Table Grapes ◽  
Pair Group

The objective of this work was to analyze the genetic diversity of 47 table grape accessions, from the grapevine germplasm bank of Embrapa Semiárido, using 20 RAPD and seven microsatellite markers. Genetic distances between pairs of accessions were obtained based on Jaccard's similarity index for RAPD data and on the arithmetic complement of the weighted index for microsatellite data. The groups were formed according to the Tocher's cluster analysis and to the unweighted pair‑group method with arithmetic mean (UPGMA). The microsatellite markers were more efficient than the RAPD ones in the identification of genetic relationships. Information on the genetic distance, based on molecular characteristics and coupled with the cultivar agronomic performance, allowed for the recommendation of parents for crossings, in order to obtain superior hybrids in segregating populations for the table grape breeding program of Embrapa Semiárido.

scholarly journals The pink salmon genome: uncovering the genomic consequences of a strict two-year life-cycle

2021 ◽  
Author(s):  
Kris A. Christensen ◽  
Eric B. Rondeau ◽  
Dionne Sakhrani ◽  
Carlo A. Biagi ◽  
Hollie Johnson ◽  
...  
Keyword(s):  
Pacific Salmon ◽  
Pink Salmon ◽  
Chromosomal Polymorphism ◽  
Oncorhynchus Gorbuscha ◽  
Sequencing Data ◽  
Isolated Populations ◽  
Temporal Isolation ◽  
History Of ◽  
Genome Assemblies ◽  
Salmon Fishery

Pink salmon (Oncorhynchus gorbuscha) adults are the smallest of the five Pacific salmon native to the western Pacific Ocean. Pink salmon are also the most abundant of these species and account for a large proportion of the commercial value of the salmon fishery worldwide. A strict two-year life-history of most pink salmon generates temporally isolated populations that spawn either in even-years or odd-years. To uncover the influence of this genetic isolation, reference genome assemblies were generated for each year-class and whole genome re-sequencing data was collected from salmon of both year-classes. The salmon were sampled from six Canadian rivers and one Japanese river. At multiple centromeres we identified peaks of Fst between year-classes that were millions of base-pairs long. The largest Fst peak was also associated with a million base-pair chromosomal polymorphism found in the odd-year genome near a centromere. These Fst peaks may be the result of centromere drive or a combination of reduced recombination and genetic drift, and they could influence speciation. Other regions of the genome influenced by odd-year and even-year temporal isolation and tentatively under selection were mostly associated with genes related to immune function, organ development/maintenance, and behaviour.

scholarly journals Resources and fishery of Pacific salmon in Magadan region in the beginning of the 21st century

Trudy VNIRO ◽  
2020 ◽  
Vol 179 ◽  
pp. 90-102
Author(s):  
M. N. Gorokhov ◽  
V. V. Volobuev ◽  
I. S. Golovanov
Keyword(s):  
Chum Salmon ◽  
Coho Salmon ◽  
Pacific Salmon ◽  
Pink Salmon ◽  
Spawning Grounds ◽  
Magadan Region ◽  
Spawning Areas ◽  
Optimal Values ◽  
In The Beginning ◽  
Salmon Fishery

There are two main areas of pacific salmon fishing in the Magadan region: Shelikhova Gulf and Tauiskaya Bay. The main fishing species is pink salmon in the region. Its share of total salmon catch by odd-year returns reaches 85 %. Data on the dynamics of escapement to the spawning grounds of pink salmon of the Shelikhova Gulf and Tauiskaya Bay are presented. The displacement of the level of spawning returns of pink salmon into the Shelihova Gulf with the simultaneous reduction of its returns to the Tauiskaya Bay is shown. Data on the dynamics of the fishing indicators of pink salmon for the two main fishing areas are provided. The Tauiskaya Bay as the main pink salmon fishery area loses its importance is shown. Graphical data on the escapement of producers pink salmon to the spawning grounds are presented and the optimal values of spawning escapements are estimated. Chum salmon is the second largest and most fishing species. Information on the dynamics of the number of returns, catch and escapement to the spawning grounds of chum salmon is given. The indicators of escapement to the spawning areas and their compliance with the optimal passes of salmon producers are analyzed. The issues of the dynamics of returns number, catch and the escapement to the spawning grounds of coho salmon producers are considered. The level of the escapement to the spawning areas is shown and the ratio of actual to optimal values of passes is estimated. The role of coho salmon as an object of industrial fishing and amateur fishing is shown. The extent of fishing press on individual groups of salmon populations is discussed. It is concluded that it is necessary to remove the main salmon fishery from the Tauiskaya Bay to the Shelikhova Gulf.

scholarly journals Intersimple Sequence Repeat Markers for Fingerprinting and Determining Genetic Relationships of Walnut (Juglans regia) Cultivars

2002 ◽  
Vol 127 (1) ◽  
pp. 75-81 ◽  
Author(s):  
Daniel Potter ◽  
Fangyou Gao ◽  
Giovanna Aiello ◽  
Charles Leslie ◽  
Gale McGranahan
Keyword(s):  
Genetic Relationships ◽  
Juglans Regia ◽  
Issr Markers ◽  
Genetic Distances ◽  
Sequence Repeat ◽  
Geographic Origins ◽  
Pcr Products ◽  
Extensive Exchange ◽  
The One ◽  
Issr Primers

The utility of intersimple sequence repeat (ISSR) markers for identification of English or Persian walnut (Juglans regia L.) cultivars was explored. Four cultivars were screened with 47 ISSR primers; eight of these primers, which generated reproducible and informative data, were selected for further study. Two individuals from each of 48 cultivars, including many currently important in the California walnut industry as well as accessions from Europe and Asia, were then examined with the eight ISSR primers. Polymerase chain reaction (PCR) products were separated on agarose gels and stained with ethidium bromide. Fifty-four bands were scored as present or absent in each cultivar; of these, 31 (57%) were polymorphic among the 48 cultivars. Combined data from the eight ISSR primers provided a unique fingerprint for each of the cultivars tested. Fifteen of the cultivars could be distinguished from all others with just one primer, 31 with a minimum of two primers, and two required three primers. Pairwise genetic distances between the cultivars were calculated and a dendrogram was generated using the neighbor-joining algorithm. Some of the groupings in the dendrogram corresponded to groups which, based on known pedigrees, are genealogically closely related. Others included accessions from diverse genetic and/or geographic origins. These results can be attributed to a combination of the limitations of the ISSR method for inferring genetic relationships, on the one hand, and the complex history of walnut cultivar development involving extensive exchange and breeding of germplasm from different geographic regions, on the other.

Sign in / Sign up

Export Citation Format

Share Document