scholarly journals Development and Utilization of Microsatellite Markers to Assess Genetic Variation Coupled with Modelling Range Shifts of Dodonaea Viscosa in Isolated Taita Hills and Mount Kenya Forests

2021 ◽  
Author(s):  
Josphat K. Saina ◽  
Andrew W. Gichira ◽  
Boniface K. Ngarega ◽  
Zhi Zhong Li ◽  
Robert W. Gituru ◽  
...  
Keyword(s):  
Genetic Variation ◽  
Microsatellite Markers ◽  
Ecological Niche Modeling ◽  
Past Century ◽  
Dodonaea Viscosa ◽  
Taita Hills ◽  
Development And Utilization ◽  
Rcp 8.5 ◽  
Suitable Habitats ◽  
Disturbed Habitats

Abstract For the protection and maintenance of fragmented and highly disturbed habitats, understanding genetic variation is essential. The Taita Hills of Kenya is the northernmost part of the Eastern Arc Mountains and has been identified as one of the top 10 biodiversity hotspots globally. The current forests in the Taita Hills have been highly fragmented over the past century. In order to appraise the influence of anthropological disturbance and fragmentation on the genetic variation of Dodonaea viscosa (Sapindaceae), we studied its preliminary genetic variability and population structure using newly developed microsatellite (SSR) markers, combined with ecological niche modeling analyses. We utilized the Illumina paired-end technology to sequence the D. viscosa’s genome and developed its microsatellite markers. In total, 646,428 sequences were analyzed and 49,836 SSRs were identified from 42,638 sequences. A total of 18 primer pairs were designed to test polymorphism among 92 individuals across eight populations. The average observed heterozygosity and expected heterozygosity ranged from 0.119 to 0.982 and from 0.227 to 0.691, respectively. Analysis of molecular variance (AMOVA) revealed 78% variance within individuals and only 20% among the eight populations. According to SDM results, D. viscosa’s suitable habitats have been gradually reducing since the last glacial maximum (LGM), and the situation will worsen under the extreme pessimist scenario of RCP 8.5. Moreover, genetic diversity was significantly greater in larger fragments. Therefore, urgent conservation management of smaller fragmented patches is necessary to protect this disturbed region and maintain the genetic resources.

scholarly journals Genetic diversity in the U.S. hard red winter wheat cultivars as revealed by microsatellite markers

2009 ◽  
Vol 60 (1) ◽  
pp. 16 ◽  
Author(s):  
B. Prasad ◽  
M. A. Babar ◽  
X. Y. Xu ◽  
G. H. Bai ◽  
A. R. Klatt
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Winter Wheat ◽  
Microsatellite Markers ◽  
Great Plains ◽  
Regional Distribution ◽  
Past Century ◽  
Breeding Programs ◽  
Hard Red Winter Wheat ◽  
Red Winter Wheat

Knowledge of the genetic diversity existing in previously released hard red winter wheat (HRWW, Triticum aestivum L.) cultivars in the Great Plains region, United States, is essential for effective utilisation of these genetic resources in the various HRWW breeding programs. To ascertain a measure of the genetic diversity of the existing US HRWW, 60 cultivars were analysed with 62 microsatellite markers distributed throughout the wheat genome. Marker data were subjected to distance-based analysis and analysis of molecular variances. In total, 341 polymorphic alleles were scored with a range of 2–12 alleles per locus. Genetic diversity gradually increased in cultivars released after the 1970s. Cultivars released in the 1990s had the highest allelic richness (4.79), gene diversity (0.60), and polymorphic information content (0.56). Levels of genetic diversity were similar between the major HRWW breeding programs. Cluster analysis resulted in eight clusters. Cluster grouping gave close matches with pedigrees and with regional distribution of the cultivars. Using decadal information, cultivars released from 1900–1969 were grouped into one cluster, cultivars from 1990–2005 were grouped into a separate cluster, whereas cultivars from the 1980s did not group with any other decades. Analysis of molecular variance revealed a significant variation among the clusters, signifying that a true genetic variation existed among the clusters. The higher proportion of genetic variation explained by cultivars within clusters compared with among clusters indicates greater genetic diversity among cultivars within clusters. Our results indicate that genetic diversity of Great Plains HRWW cultivars has increased in the past century, and the trend is continuing.

Genetic variation in three Chinese peat mosses (Sphagnum) based on microsatellite markers, with primer information and analysis of ascertainment bias

2008 ◽  
Vol 111 (2) ◽  
pp. 271-281 ◽  
Author(s):  
A. Jonathan Shaw ◽  
Tong Cao ◽  
Li-song Wang ◽  
Kjell Ivar Flatberg ◽  
Bergfrid Flatberg ◽  
...  
Keyword(s):  
Genetic Variation ◽  
Microsatellite Markers ◽  
Ascertainment Bias

scholarly journals Genetic variation analysis of superior cotton varieties of Gossypium hirsutum through microsatellite markers

2017 ◽  
Vol 8 (1) ◽  
Author(s):  
Dede Nuraida ◽  
Yusuf Abdurrajak ◽  
Moh Amin ◽  
Utami S. Hastutik
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Gossypium Hirsutum ◽  
Microsatellite Markers ◽  
Size Range ◽  
Allele Frequencies ◽  
Variation Analysis ◽  
Ctab Method

This study was conducted in order to obtain information on genetic variation in populations rated as superior cotton (<em>Gossypium</em> <em>hirsutum</em> L.) varieties in Balittas Malang, Indonesia. The samples used 10 varieties of cotton Kanesia series and 2 other superior varieties that are LRA 5166 and ISA 205A. Indicators of genetic diversity are the number of alleles per <em>locus</em>, allele frequencies, and heterozygosity values. DNA was isolated from the leaves of 3- week-old seedlings using the CTAB method. Amplification was performed using 5 SSRs primer pairs of the JESPR series. The results showed five microsatellite <em>loci</em>, yielding 12 alleles with a size range of 80–500 bp, with an average number of alleles per <em>locus</em> of 4.60. The average values of heterozygosity of the five loci was high, at 0.71. Based on the number of alleles, allele frequencies and heterozygosity values, the genetic variation sampled in the superior cotton varieties studied here is quite high.

scholarly journals Rapid climate-driven evolution of the invasive species Mytilus galloprovincialis over the past century

2020 ◽  
Vol 3 (1) ◽  
pp. 14-29
Author(s):  
Guo-Dong Han ◽  
Yun-Wei Dong
Keyword(s):  
Invasive Species ◽  
Genetic Variation ◽  
Mytilus Galloprovincialis ◽  
Climatic Factors ◽  
Northwestern Pacific ◽  
Past Century ◽  
Nucleotide Polymorphisms ◽  
Adaptive Genetic Variation ◽  
The Past ◽  
Wide Range

Climate-driven adaptive genetic variation is one of the most important ways for organisms to tolerate environmental change and succeed in altered environments. To understand rapid climate-driven evolution, and how this evolution might shift biogeographic distributions in response to global change, we measured the adaptive genetic variation to the local environment of a marine invasive species Mytilus galloprovincialis. The genetic structure of eight populations from the Mediterranean Sea, northeastern Atlantic, northeastern Pacific, and northwestern Pacific were determined using genome-wide screens for single nucleotide polymorphisms. The relationships of genetic variation to environmental (seawater and air) temperature were analyzed using redundancy analysis and BayeScEnv analysis to evaluate the impacts of temperature on the genetic divergences among these eight populations. We found that the genetic compositions were significantly different among populations and the adaptive genetic variation was associated with temperature variables. Further, we identified some genetic markers exhibiting signatures of divergent selection in association with environmental features that can be used in the future to closely monitor adaptive variation in this species. Our results suggest that divergent climatic factors have driven adaptive genetic variation in M. galloprovincialis over the past century. The rapid evolutionary adaptation has played a pivotal role in enabling this species to invade a wide range of thermal habitats successfully. Species like M. galloprovincialis that possess high levels of genetic variation may not only be especially capable of invading new habitats with different environmental conditions, but also poised to cope rapidly and successfully with rising global temperatures.

Genetic variation within and between five Iranian sheep populations using microsatellite markers

2003 ◽  
Vol 2003 ◽  
pp. 140-140
Author(s):  
M. H. Banabazi ◽  
S. Esmaeelkhanian ◽  
S. R. Miraei Ashtiani ◽  
M. Moradi Shahrbabak
Keyword(s):  
Genetic Variation ◽  
Microsatellite Markers ◽  
Domestic Animal

In Iran, sheep is a main domestic animal with population about 60 millions. So, evaluation of genetic variation in Iranian sheep is a critical necessity. This study is the first research on genetic variation within and between a small part of Iranian sheep using microsatellite markers.

scholarly journals Spatial distribution and impacts of climate change on Milicia excelsa in Benin, West Africa

2019 ◽  
Vol 32 (1) ◽  
pp. 143-150 ◽  
Author(s):  
Sunday Berlioz Kakpo ◽  
Augustin Kossi Nounangnon Aoudji ◽  
Denis Gnanguènon-Guéssè ◽  
Alain Jaures Gbètoho ◽  
Kourouma Koura ◽  
...  
Keyword(s):  
Climate Change ◽  
Ecological Niche Modeling ◽  
Area Under The Curve ◽  
Climatic Zone ◽  
Operating Characteristics ◽  
Rcp Scenarios ◽  
Suitable Habitats ◽  
Sustainable Conservation ◽  
Milicia Excelsa ◽  
The Impact

AbstractAfrican teak (Milicia excelsa (Welw.) C.C. Berg) is an endangered multi-use species. Understanding the impact of climate change on the distribution of this species may improve the ability to anticipate or recognize its decline or expansion and to take appropriate conservation measures if necessary. Ecological niche modeling was projected in geographical space to study the current and future distribution of M. excelsa in Bénin. MaxEnt was used to estimate the potential geographic distribution of the species under two Representative Concentration Pathways (RCP). Miroc 5 summaries and two RCP 4.5 and RCP 8.5 scenarios were used as predictor variables for projections of the geographic potential of this species. The performance of the model was assessed by the area under the curve (AUC), true skill statistics (TSS) and partial receiver operating characteristics (Partial ROC). From the results, M. excelsa was more a secondary species in the Guinean climatic zone and part of the Sudanian-Guinean and Sudanian climatic zone. The projections show a significant decrease in suitable habitats for the species from the two RCP scenarios. Only a part of the Guinean climatic zone remained suitable and few protected areas will conserve in situ M. excelsa. For the sustainable conservation of M. excelsa, it is essential to strengthen the protection of sacred forests located in the Guinean climatic zone.

Schistosome genetic diversity: the implications of population structure as detected with microsatellite markers

Parasitology ◽  
2002 ◽  
Vol 125 (7) ◽  
pp. S51-S59 ◽  
Author(s):  
J. CURTIS ◽  
R. E. SORENSEN ◽  
D. J. MINCHELLA
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Genetic Variation ◽  
Molecular Markers ◽  
Microsatellite Markers ◽  
Natural Populations ◽  
Mitochondrial Marker ◽  
Tropical Regions ◽  
Blood Flukes

Blood flukes in the genus Schistosoma are important human parasites in tropical regions. A substantial amount of genetic diversity has been described in populations of these parasites using molecular markers. We first consider the extent of genetic variation found in Schistosoma mansoni and some factors that may be contributing to this variation. Recently, though, attempts have been made to analyze not only the genetic diversity but how that diversity is partitioned within natural populations of schistosomes. Studies with non-allelic molecular markers (e.g. RAPDs and mtVNTRs) have indicated that schistosome populations exhibit varying levels of gene flow among component subpopulations. The recent characterization of microsatellite markers for S. mansoni provided an opportunity to study schistosome population structure within a population of schistosomes from a single Brazilian village using allelic markers. Whereas the detection of population structure depends strongly on the type of analysis with a mitochondrial marker, analyses with a set of seven microsatellite loci consistently revealed moderate genetic differentiation when village boroughs were used to define parasite subpopulations and greater subdivision when human hosts defined subpopulations. Finally, we discuss the implications that such strong population structure might have on schistosome epidemiology.

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