Population genetic variability and origin of Auckland Island feral pigs

2005 ◽  
Vol 35 (3) ◽  
pp. 279-285 ◽  
Author(s):  
Bin Fan ◽  
Jaime Gongora ◽  
Yizhou Chen ◽  
Olga Garkavenko ◽  
Kui Li ◽  
...  
2021 ◽  
Vol 52 (1) ◽  
pp. 177-197
Author(s):  
Brian Charlesworth ◽  
Jeffrey D. Jensen

Patterns of variation and evolution at a given site in a genome can be strongly influenced by the effects of selection at genetically linked sites. In particular, the recombination rates of genomic regions correlate with their amount of within-population genetic variability, the degree to which the frequency distributions of DNA sequence variants differ from their neutral expectations, and the levels of adaptation of their functional components. We review the major population genetic processes that are thought to lead to these patterns, focusing on their effects on patterns of variability: selective sweeps, background selection, associative overdominance, and Hill–Robertson interference among deleterious mutations. We emphasize the difficulties in distinguishing among the footprints of these processes and disentangling them from the effects of purely demographic factors such as population size changes. We also discuss how interactions between selective and demographic processes can significantly affect patterns of variability within genomes.


Phytotaxa ◽  
2018 ◽  
Vol 376 (4) ◽  
pp. 154 ◽  
Author(s):  
MEGHDAD MAGHSOODI ◽  
MASOUD SHEIDAI ◽  
FAHIMEH KOOHDAR

Juglans regia commonly known as Persian walnut of the genus Juglans (Juglandaceae) is cultivated throughout the temperate regions of the world for its high quality wood and edible nuts. Though Persian walnut grows on 70,000 ha in Iran, we have no detailed information on genetic structure of walnut cultivars in the country. A detailed knowledge of genetic diversity and spatial genetic structure is essential for conservation and management of tree species. The species like Persian walnut, which has wide range of geographical distribution, should harbor extensive genetic variability to adapt to environmental fluctuations they face. Therefore, detailed population genetic study of local populations become important for conservation and breeding studies. The main aim of the present study was to investigate the population genetic structure of seven Persian walnut populations including 3 wild and 4 cultivated populations by using ISSR and SRAP molecular markers. We also aimed to compare the genetic variability revealed by ISSR neutral multilocus marker and nrDNA ITS sequences. Finally, we tried to investigate the species relationship within the genus Juglans L. by using molecular phylogeny methods based on nrDNA ITS sequences. The results showed that both multilocus molecular markers and ITS sequences can differentiate Persian walnut populations. The studied populations differed genetically and showed isolation by distance (IBD).


1994 ◽  
Vol 1 (1) ◽  
pp. 46 ◽  
Author(s):  
Richard Southgate ◽  
Mark Adams

The taxonomic status of and genetic diversity amongst extant populations of the greater bilby, Macrotis lagotis, were assessed using allozyme electrophoresis. A total of 47 bilbies sampled from three geographic areas and two captive colonies were screened for 42 loci, six of which were polymorphic. The results are consistent with the view that all extant populations represent a single biological species. All populations were genetically very similar (Nei D's 0.000 to 0.004) and overall levels of within-population genetic variability were low (Ho 0.004 � 0.004 to 0.0026 � 0.017). The allozyme data support the hypothesis that there has been no significant loss of variability in the captive colonies when compared to the species as a whole.


2000 ◽  
Vol 57 (9) ◽  
pp. 1843-1852 ◽  
Author(s):  
Ian D Hogg ◽  
Yves de Lafontaine ◽  
John M Eadie

We examined the population genetic structure of the amphipod Gammarus fasciatus (Crustacea: Amphipoda) over two years from a total of 11 sites within the Great Lakes - St. Lawrence River system using allozyme electrophoresis. In 1995, we examined differences within the St. Lawrence River (Cornwall to Quebec City), and in 1996, we focused on larger scale, whole-system differences from Lake Superior to Lake Champlain. We found very low levels of genetic differentiation among sites (Wright's FST < 0.03). This was not unexpected for an active disperser in a relatively contiguous system. However, we also found low levels of genetic variability within sites (Hobs = 0.07- 0.15), a result that was not anticipated. We surveyed the available literature on gammarid and other amphipods and found that limited genetic variability is characteristic of continuously distributed taxa, contrary to the expectations of current conservation theory. This is potentially of concern, especially in light of recently reported declines of G. fasciatus at several locations within the St. Lawrence River and Great Lakes. Given the importance of species such as G. fasciatus in aquatic food webs, further work is clearly needed on the consequences of population genetic structure to species' responses to novel environmental changes (e.g., exotic species introductions).


2021 ◽  
Author(s):  
María Eugenia Barrandeguy ◽  
María Victoria García

Genetic diversity comprises the total of genetic variability contained in a population and it represents the fundamental component of changes since it determines the microevolutionary potential of populations. There are several measures for quantifying the genetic diversity, most notably measures based on heterozygosity and measures based on allelic richness, i.e. the expected number of alleles in populations of same size. These measures differ in their theoretical background and, in consequence, they differ in their ecological and evolutionary interpretations. Therefore, in the present chapter these measures of genetic diversity were jointly analyzed, highlighting the changes expected as consequence of gene flow and genetic drift. To develop this analysis, computational simulations of extreme scenarios combining changes in the levels of gene flow and population size were performed.


2010 ◽  
Vol 39 (2) ◽  
pp. 268-272
Author(s):  
Karine Vieira Antunes ◽  
Théa Mírian Medeiros Machado ◽  
Nicola Vergara Lopes Serão ◽  
Simone Eliza Facione Guimarães ◽  
Samuel Rezende Paiva

The genetic diversity was analyzed among spotted paca (Agouti paca) from three commercial flocks located in Brazil. As the genome of this species is unknown, the RAPD-PCR technique was used. Ten primers generated sixty polymorphic bands. The among and within population genetic variability estimated by analysis of molecular variance (AMOVA) was 12.55 and 87.45%, respectively. The shortest Nei distance value was 11.76% among the Carangola (CG) and São Francisco do Glória (SF) populations. This value can be explained by the exchange of reproduction males and females between the two geographically close breeding sites. The analysis of principal components showed well defined and structured groups aggregating animals according their population of origin, with some exceptions. Lower diversity was found in the São Francisco population than in the Carangola and Castelo (CS) populations. This result suggested the variability is better conserved in breeding farms with fifty or sixty animals (CG and CS) than in the breeding farm with a dozen animals (SF). The RADP-PCR technique proved to be informative for the quantification of among and within population genetic variability of the spotted paca. The phenogram generated by UPGMA using the NTSYS-PC software from the Nei Distance, grouped CG and SF on a single branch connected to the CS, with 76 and 100% accuracy, respectively, to the bootstrap. This result was not only consistent with the historical and geographical information on flocks, but also shows the need for periodic reproductive male replacement. Future studies should be developed with co-dominant markers and include spotted paca from more distant places.


2020 ◽  
Vol 49 (D1) ◽  
pp. D1130-D1137 ◽  
Author(s):  
María Peña-Chilet ◽  
Gema Roldán ◽  
Javier Perez-Florido ◽  
Francisco M Ortuño ◽  
Rosario Carmona ◽  
...  

Abstract The knowledge of the genetic variability of the local population is of utmost importance in personalized medicine and has been revealed as a critical factor for the discovery of new disease variants. Here, we present the Collaborative Spanish Variability Server (CSVS), which currently contains more than 2000 genomes and exomes of unrelated Spanish individuals. This database has been generated in a collaborative crowdsourcing effort collecting sequencing data produced by local genomic projects and for other purposes. Sequences have been grouped by ICD10 upper categories. A web interface allows querying the database removing one or more ICD10 categories. In this way, aggregated counts of allele frequencies of the pseudo-control Spanish population can be obtained for diseases belonging to the category removed. Interestingly, in addition to pseudo-control studies, some population studies can be made, as, for example, prevalence of pharmacogenomic variants, etc. In addition, this genomic data has been used to define the first Spanish Genome Reference Panel (SGRP1.0) for imputation. This is the first local repository of variability entirely produced by a crowdsourcing effort and constitutes an example for future initiatives to characterize local variability worldwide. CSVS is also part of the GA4GH Beacon network. CSVS can be accessed at: http://csvs.babelomics.org/.


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