Development and utilization of microsatellite markers to assess genetic variation coupled with modelling range shifts of Dodonaea viscosa (L.) Jacq. 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 ◽  
Range Shifts ◽  
Dodonaea Viscosa ◽  
Taita Hills ◽  
Development And Utilization

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.

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.

Palaeoclimate-induced range shifts may explain current patterns of spatial genetic variation in renosterbos (Elytropappus rhinocerotis, Asteraceae)

Taxon ◽  
2007 ◽  
Vol 56 (2) ◽  
pp. 393-408 ◽  
Author(s):  
Nicola G. Bergh ◽  
Terry A. Hedderson ◽  
H. Peter Linder ◽  
William J. Bond
Keyword(s):  
Genetic Variation ◽  
Range Shifts ◽  
Spatial Genetic Variation

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.

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.

Genetic diversity in Elymus caninus as revealed by isozyme, RAPD, and microsatellite markers

Genome ◽  
1999 ◽  
Vol 42 (3) ◽  
pp. 420-431 ◽  
Author(s):  
Gen-Lou Sun ◽  
Oscar Díaz ◽  
Björn Salomon ◽  
Roland von Bothmer
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Microsatellite Markers ◽  
Correlation Coefficients ◽  
Geographic Isolation ◽  
Elymus Caninus ◽  
Distance Matrices ◽  
High Level ◽  
Mantel’S Test ◽  
Similarity Matrices

Genetic diversity of 33 Elymus caninus accessions was investigated using isozyme, RAPD, and microsatellite markers. The three assays differed in the amount of polymorphism detected. Microsatellites detected the highest polymorphism. Six microsatellite primer pairs generated a total of 74 polymorphic bands (alleles), with an average of 15.7 bands per primer pair. Three genetic similarity matrices were estimated based on band presence or absence. Genetic diversity trees (dendrograms) were derived from each marker technique, and compared using Mantel's test. The correlation coefficients were 0.204, 0.267, and 0.164 between isozyme and RAPD distance matrices, RAPD and microsatellite distance matrices, and between isozyme and microsatellite distance matrices, respectively. The three methodologies gave differing views of the amount of variation present but all showed a high level of genetic variation in E. caninus. The following points may be drawn from this study whether based on RAPD, microsatellite, or isozyme data: (i) The Icelandic populations are consistently revealed by the three dendrograms. The congruence of the discrimination of this accession group by RAPD, microsatellite, and isozyme markers suggests that geographic isolation strongly influenced the evolution of the populations; (ii) The degree of genetic variation within accessions was notably great; and (iii) The DNA-based markers will be the more useful ones in detecting genetic diversity in closely related accessions. In addition, a dendrogram, which took into account all fragments produced by isozymes, RAPDs, and microsatellites, reflected better the relationships than did dendrograms based on only one type of marker.Key words: Elymus caninus, genetic diversity, isozymes, RAPDs, microsatellites.

Sign in / Sign up

Export Citation Format

Share Document