scholarly journals Genetic Structure of Isolated Vaccinium oxycoccus Populations in Lithuania

2009 ◽  
Vol 63 (1-2) ◽  
pp. 33-36
Author(s):  
Judita Žukauskienė ◽  
Algimantas Paulauskas ◽  
Laima Česonienė ◽  
Remigijus Daubaras
Keyword(s):  
Genetic Structure ◽  
National Park ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Total Sample ◽  
Water Levels ◽  
Peat Bogs ◽  
Unique Haplotype ◽  
Genetic Population ◽  
Information Index

Genetic Structure of Isolated Vaccinium oxycoccus Populations in Lithuania The genetic population structure of the wild Cranberry Vaccinium oxycoccus was studied using RAPDs (random amplified polymorphic DNA). During the last century, intensive peat bogs drainage, regulation of water levels, and intensive cranberry picking has caused a risk for survival of wild cranberry Vaccinium oxycoccus populations in Lithuania. Genetic variation among and within isolated V. oxycoccus populations was investigated with RAPD profiles. Fifty-six clones were sampled in four populations at the Čepkeliai, Žuvintas, Kamanos Reserves and Aukštaitijos National Park. RAPD analyses of nine primers showed 213 polymorphic loci in the samples. The polymorphism level in the Čepkeliai rezerve population was 56.34%, in Žuvintas 49.77%, in Kamanos 46.95% and in Aukštatija 43.19%. Polymorphism among populations was 100%. For the total sample group, Shannon's Information Index was 0.2 and Nei's gene diversity 0.12. The estimated total proportion of diversity among populations (GST) and gene flow (Nm) were 0.14 and 3.1, respectively. The UPGMA analyses have revealed that populations of V. oxycoccus are clearly separated into four lineages and only one Čepkeliai lineage had a homogenous haplotype. Others Žuvintas, Kamanos and Aukštatijos lineages differed from each other. One clone sampled from Aukštatija National Park (a8) had a unique haplotype.

scholarly journals Genetic Structure of Cronartium ribicola Populations in Eastern Canada

1999 ◽  
Vol 89 (10) ◽  
pp. 915-919 ◽  
Author(s):  
K. Et-touil ◽  
L. Bernier ◽  
J. Beaulieu ◽  
J. A. Bérubé ◽  
A. Hopkin ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Genetic Differentiation ◽  
Distribution Systems ◽  
Gene Diversity ◽  
Isolation By Distance ◽  
Random Amplified Polymorphic Dna ◽  
Cronartium Ribicola ◽  
Eastern Canada ◽  
Long Distance ◽  
Evolutionary Forces

The genetic structure of populations of Cronartium ribicola was studied by sampling nine populations from five provinces in eastern Canada and generating DNA profiles using nine random amplified polymorphic DNA markers. Most of the total gene diversity (Ht = 0.386) was present within populations (Hw = 0.370), resulting in a low level of genetic differentiation among populations in northeastern North America (Fst = 0.062). A hierarchical analysis of genetic structure using an analysis of molecular variance (AMOVA) revealed no statistically significant genetic differentiation among provinces or among regions. Yet, genetic differentiation among populations within regions or provinces was small (AMOVA φst = 0.078) but statistically significant (P < 0.001) and was several orders of magnitude larger than differentiation among provinces. This is consistent with a scenario of subpopulations within a metapopulation, in which random drift following migration and new colonization are major evolutionary forces. A phenetic analysis using genetic distances revealed no apparent correlation between genetic distance and the province of origin of the populations. The hypothesis of isolation-by-distance in the eastern populations of C. ribicola was rejected by computing Mantel correlation coefficients between genetic and geographic distance matrices (P > 0.05). These results show that eastern Canadian provinces are part of the same white pine blister rust epidemiological unit. Nursery distribution systems are controlled provincially, with virtually no seedling movement among provinces; therefore, infected nursery material may not play an important role in the dissemination of this disease. Long-distance spore dispersal across provincial boundaries appears to be an epidemiologically important factor for this pathogen.

scholarly journals Breeding potential and genetic diversity of "Híbrido do Timor" coffee evaluated by molecular markers

2010 ◽  
Vol 10 (4) ◽  
pp. 298-304 ◽  
Author(s):  
Tesfahun Alemu Setotaw ◽  
Eveline Teixeira Caixeta ◽  
Guilherme Ferreira Pena ◽  
Eunize Maciel Zambolim ◽  
Antonio Alves Pereira ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Molecular Markers ◽  
Genetic Structure ◽  
Gene Diversity ◽  
High Genetic Diversity ◽  
Breeding Programs ◽  
Information Index ◽  
Upgma Cluster Analysis ◽  
Potential Use

AFLP, RAPD and SSR molecular markers were used to study the genetic diversity and genetic structure of the Híbrido de Timor germplasm. The principal coordinate analysis, UPGMA cluster analysis based on genetic dissimilarity of Jaccard, Bayesian model-based cluster analysis, percentage of polymorphic loci, Shannon's information index and Nei gene diversity were employed to assess the genetic diversity. The analyses demonstrated a high genetic diversity among Híbrido de Timor accessions. UPGMA and Bayesian cluster analyses grouped the accessions into three clusters. The genetic structure of Híbrido de Timor is reported. The management of Híbrido de Timor germplasm variability and its potential use in breeding programs are discussed.

The genetic structure of red raspberry (Rubus idaeus L.) populations in Lithuania

2010 ◽  
Vol 5 (4) ◽  
pp. 496-506 ◽  
Author(s):  
Jolanta Patamsytė ◽  
Violeta Kleizaitė ◽  
Tatjana Čėsnienė ◽  
Vytautas Rančelis ◽  
Donatas Žvingila
Keyword(s):  
Genetic Variation ◽  
Genetic Structure ◽  
Gene Diversity ◽  
Isolation By Distance ◽  
Rubus Idaeus ◽  
Gene Pools ◽  
Red Raspberry ◽  
Mean Values ◽  
Information Index ◽  
Different Populations

AbstractThe red raspberry (Rubus idaeus L.) is widely distributed in Lithuania and occupies a range of habitats. The presence of coadapted gene pools in local populations of R. idaeus is a question of interest not only to plant scientists, but also to plant breeders. In this study, we investigated the genetic structure of R. idaeus and the influence of local habitats on the genetic diversity within and among populations. Nineteen populations of R. idaeus were sampled from different habitats in various agroclimatic subregions of Lithuania, and analyzed using RAPD markers. 113 RAPD bands were identified among 315 individuals; 84.31% of these were polymorphic. The mean values of Shannon’s information index for different populations ranged from 0.341 to 0.455. Nei’s gene diversity established within populations averaged 0.266. An AMOVA revealed 74% of genetic variation among individuals within populations of R. idaeus, and 23% among populations. The remaining genetic variation was distributed among populations from different agroclimatic subregions (3%). The results of this study suggest that the genetic structure of R. idaeus populations in Lithuania may be influenced partially by isolation by distance as well as by local environmental conditions.

scholarly journals Effects of environmental and anthropogenic determinants on changes in groundwater levels in selected peat bogs of Slowinski National Park, northern Poland

Geologos ◽  
2018 ◽  
Vol 24 (1) ◽  
pp. 13-27 ◽  
Author(s):  
Izabela Chlost ◽  
Roman Cieśliński
Keyword(s):  
Water Level ◽  
National Park ◽  
Water Retention ◽  
Retention Rate ◽  
Coniferous Forest ◽  
Water Levels ◽  
Peat Bogs ◽  
Peat Bog ◽  
Potential Threat ◽  
Peat Formation

Abstract The present study focuses on two Baltic-type peat bogs in Slowinski National Park, namely that at Żarnowskie and at Kluki, located in the Lake Łebsko catchment and both characterised by a centrally located dome with a very marshy fringe area featuring an emerging marshy coniferous forest (Vaccinio uliginosi-Pinetum). The Żarnowskie bog is under active protection. A total of 24 flow barriers were installed in drainage ditches during the years 2006 and 2007. The purpose of these barriers was to put a halt to water outflow. In addition, 30 hectares of young pine forest were cleared in order to decrease loss of water via evapotranspiration. Kluki peat bog is only partially protected by Polish law. The lack of efforts to prevent outflow via the canal is due to the fact that the canal is utilised to drain meadows in the vicinity of the village of Łokciowe outside of the national park. Peat formation no longer occurs in this peat bog. The hydrological condition of the bog is catastrophic as a result of its main canal, referred to as Canal C9, which is 2.5 to 3.0 m deep and 10 m wide in places. Both peat bogs are monitored for fluctuations in groundwater. Research has shown that changes in water levels fluctuate based on season of the year and geographical location, which is illustrated quite well using the two studied peat bogs. The water retention rate of the Żarnowskie peat bog may be considered fairly high and is likely to improve due to protective measures enabled by Polish environmental laws. The water retention rate of the bog is consistently improving thanks to these measures, fluctuations in water level are small and the water level does not drop under 0.5 m below ground level even under extreme hydrometeorological conditions. This yields optimum conditions for renewed peat formation in this area. One potential threat is the Krakulice peat extraction facility, which is located in the southern part of the bog close to the boundary with the national park.

scholarly journals Genetic Dissection of New Genotypes of Drumstick Tree (Moringa oleiferaLam.) Using Random Amplified Polymorphic DNA Marker

2013 ◽  
Vol 2013 ◽  
pp. 1-6 ◽  
Author(s):  
Shamsuddeen Rufai ◽  
M. M. Hanafi ◽  
M. Y. Rafii ◽  
S. Ahmad ◽  
I. W. Arolu ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Dna Marker ◽  
Diversity Index ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Genetic Dissection ◽  
Improvement Program ◽  
Information Index ◽  
Upgma Cluster Analysis ◽  
Genetic Diversity Study

The knowledge of genetic diversity of tree crop is very important for breeding and improvement program for the purpose of improving the yield and quality of its produce. Genetic diversity study and analysis of genetic relationship among 20Moringa oleiferawere carried out with the aid of twelve primers from, random amplified polymorphic DNA marker. The seeds of twentyM. oleiferagenotypes from various origins were collected and germinated and raised in nursery before transplanting to the field at University Agricultural Park (TPU). Genetic diversity parameter, such as Shannon's information index and expected heterozygosity, revealed the presence of high genetic divergence with value of 1.80 and 0.13 for Malaysian population and 0.30 and 0.19 for the international population, respectively. Mean of Nei's gene diversity index for the two populations was estimated to be 0.20. In addition, a dendrogram constructed, using UPGMA cluster analysis based on Nei's genetic distance, grouped the twentyM. oleiferainto five distinct clusters. The study revealed a great extent of variation which is essential for successful breeding and improvement program. From this study,M. oleiferagenotypes of wide genetic origin, such as T-01, T-06, M-01, and M-02, are recommended to be used as parent in future breeding program.

Genetic Diversity of Stephanie kwangsiensis H. S. Lo and Salvia prionitis Hance after Transplanted and Micropropagated

2012 ◽  
Vol 518-523 ◽  
pp. 5460-5467
Author(s):  
Chuan Ming Fu ◽  
Yan Qin ◽  
Feng Luan Tang ◽  
Yun Ping Shi ◽  
Zhi Guo Zhao ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Tissue Culture ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Chinese Herbs ◽  
High Genetic Diversity ◽  
Information Index ◽  
Rapd Pcr

Stephanie Kwangsiensis H. S. Lo and Salvia prionitis Hance were two rare and valuable Chinese herbs. Genetic diversity of the two plants were studied by using random amplified polymorphic DNA (RAPD) and inter simple sequence repeat (ISSR) markers after they were transplantation and tissue culture. Results indicated that Nei’s gene diversity (H), Shannon’s information index (I), the percentage of polymorphic loci (PPL) of source / transplantation / tissue culture materials of S. Kwangsiensis H. S. Lo were H=0.282 / 0.195/ 0.056, I=0.415 / 0.290 / 0.087, PPL=75.6% / 56.1% /19.5% based on RAPDs and H=0.295 / 0.292 / 0.111, I=0.445 / 0.435 / 0.166, PPL=85.3% / 85.3% / 32.8% based ISSRs. And the same parameters of source / transplantation / tissue culture materials of S. prionitis Hance were H=0.193 / 0.192 / 0.231, I=0.291 / 0.289 /0.347, PPL=57.8% / 57.2% / 68.6% based on RAPDs and H=0.217 / 0.217 / 0.155, I=0.327 / 0.326 /0.235, and PPL=64.2% / 64.2% / 49.1% based on ISSRs instead. For the transplanted materials, genetic diversity was slightly declining with the disappearance of adversity. And for the tissue culture materials, more genets sampled for tissue culture, less reduction of genetic diversity; and fewer genets sampled, more reduction of genetic diversity. In addition, high genetic diversity appearing in tissue culture materials of S. prionitis Hance partially generate from somatic mutations. And these mutations maybe related to RAPD-PCR regions and just had been checked out by RAPDs.

Assessment of Genetic Diversity in Ethiopian Sesame (Sesamum indicum L.) Germplasm using Random Amplified Polymorphic DNA (RAPD) Markers

2015 ◽  
Vol 5 (2) ◽  
pp. 639-649
Author(s):  
Mohammed Abate Dawud ◽  
Firew Mekbib Alemu
Keyword(s):  
Genetic Diversity ◽  
Rapd Markers ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Sesamum Indicum ◽  
Dissimilarity Matrix ◽  
Information Index ◽  
Sesame Genotypes ◽  
High Level ◽  
Maximum Similarity

Genetic diversity among 128 sesame (Sesamum indicum L.) genotypes representing 10 geographically distinct populations in Ethiopia was assessed at DNA level using RAPD analysis. Eleven RAPD primers used amplified a total of 149 bands, of which 142 (95. 45%) were polymorphic. Each primer generated 7 to 23 amplified fragments with an average of 13.5 bands per primer. Percent of polymorphic loci (P%), number of different (Na) and effective (Ne) alleles along with Shannon information index (I) and Nei’s gene diversity (He) values suggested that the population of Oromia was the most diverse of all populations, while populations from Afar (cultivars) and AM-NSh were found to be the least diverse. Based on average dissimilarity values obtained with RAPD primers, AM-NG-25, SNNP-7 and SNNP-8 were the most distinct of all genotypes, while genotypes ORO-20 and TIGR-5 showed maximum similarity with others. The UPGMA clustering based on the dissimilarity matrix clustered the genotypes into 3 major groups and 11 subgroups, while three genotypes viz., BENSH-6, ORO-14 and SNNP-5 were found out-grouped from the rest and did not join any of the cluster; they are then most divergent genotypes. Generally, both clustering and PCoA patterns revealed that most genotypes located geographically far apart were found to cluster in the same group, while those genotypes from the same origin dispersed. Overall results indicated that RAPD technique revealed a high level of genetic variation among sesame genotypes collected from diverse ecologies of Ethiopia. 

scholarly journals Analysis of Genetic Diversity in Astragalus rhizanthus Benth. ssp. rhizanthus var. rhizanthus (Fabaceae) Using Molecular Markers from India

2010 ◽  
Vol 2010 ◽  
pp. 1-9 ◽  
Author(s):  
Kumar Kamal Anand ◽  
Ravi Kumar Srivastava ◽  
Lal Babu Chaudhary
Keyword(s):  
Genetic Diversity ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Morphological Diversity ◽  
Jammu And Kashmir ◽  
Indian Himalaya ◽  
Information Index ◽  
Inter Simple Sequence Repeats ◽  
Diversity Studies ◽  
The Himalaya

Astragalus rhizanthus with three infraspecific taxa (i.e., A. rhizanthus ssp. rhizanthus var. rhizanthus, A. rhizanthus ssp. rhizanthus var. pindreensis, and A. rhizanthus ssp. candolleanus) is widely scattered in the Himalaya from Jammu and Kashmir to Uttarakhand provinces in India. Among them, A. rhizanthus ssp. rhizanthus var. rhizanthus exhibits enormous morphological diversity throughout its range of distribution. An assessment of genetic diversity studies was undertaken to understand the level and pattern of diversity, using Inter simple sequence repeats (ISSR), Random amplified polymorphic DNA (RAPD) and Directed amplification of minisatellite DNA (DAMD) profiles. Fifteen ISSR, 18 RAPD and 6 DAMD primers were used to unravel the diversity among 20 genotypes collected from the known localities in the Indian Himalaya. A total of 242 bands from ISSR, 352 from RAPD and 142 from DAMD were obtained with an average of 92.23% polymorphism in the species. Pair-wise genetic similarity for the cumulative data was determined using Jaccard's similarity coefficient which varied from 0.19 to 0.84. A combined UPGMA dendrogram was generated which revealed that different genotypes exhibited their affinity according to their geographical distribution. Tree topology suggests the existence of two distinct groups of the genotypes. Gene diversity (H) and Shannon's information index (I) were estimated and these values were found higher in the genotypes collected from Jammu and Kashmir than Himachal Pradesh.

Molecular Characterization and Genetic Diversity Study in F3 Population of Rice

2013 ◽  
Vol 20 (1-2) ◽  
pp. 1-8
Author(s):  
MM Rahman ◽  
L Rahman ◽  
SN Begum ◽  
F Nur
Keyword(s):  
Genetic Distance ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Molecular Genetic ◽  
Molecular Genetic Analysis ◽  
Polymorphic Loci ◽  
Rice Genotypes ◽  
High Level ◽  
Genetic Diversity Study ◽  
Diversity Study

Random Amplified Polymorphic DNA (RAPD) assay was initiated for molecular genetic analysis among 13 F3 rice lines and their parents. Four out of 15 decamer random primers were used to amplify genomic DNA and the primers yielded a total of 41 RAPD markers of which 37 were considered as polymorphic with a mean of 9.25 bands per primer. The percentage of polymorphic loci was 90.24. The highest percentage of polymorphic loci (14.63) and gene diversity (0.0714) was observed in 05-6 F3 line and the lowest polymorphic loci (0.00) and gene diversity (0.00) was found in 05-12 and 05-15 F3 lines. So, relatively high level of genetic variation was found in 05-6 F3 line and it was genetically more diverse compared to others. The average co-efficient of gene differentiation (GST) and gene flow (Nm) values across all the loci were 0.8689 and 0.0755, respectively. The UPGMA dendrogram based on the Nei’s genetic distance differentiated the rice genotypes into two main clusters: PNR-519, 05-19, 05-14, 05-12 and 05-17 grouped in cluster 1. On the other hand, Baradhan, 05-9, 05-13, 05-11, 05-5, 05-6, 05-1, 05-4, 05-15 and 05-25 were grouped in cluster 2. The highest genetic distance (0.586) was found between 05-4 and 05-17 F3 lines and they remain in different cluster.DOI: http://dx.doi.org/10.3329/pa.v20i1-2.16839 Progress. Agric. 20(1 & 2): 1 – 8, 2009

scholarly journals Genetic population structure of the monogenean parasite Gyrodactylus thymalli and its host European grayling (Thymallus thymallus) in a large Norwegian lake

Hydrobiologia ◽  
2020 ◽  
Author(s):  
Ruben Alexander Pettersen ◽  
Claudia Junge ◽  
Kjartan Østbye ◽  
Tor Atle Mo ◽  
Leif Asbjørn Vøllestad
Keyword(s):  
Genetic Structure ◽  
Evolutionary Biology ◽  
Isolation By Distance ◽  
Genetic Structuring ◽  
Thymallus Thymallus ◽  
Homing Behavior ◽  
Genetic Population ◽  
Monogenean Parasite ◽  
European Grayling ◽  
Genetic Clusters

Abstract Understanding how populations are structured in space and time is a central question in evolutionary biology. Parasites and their hosts are assumed to evolve together, however, detailed understanding of mechanisms leading to genetic structuring of parasites and their hosts are lacking. As a parasite depends on its host, studying the genetic structure of both parasite and host can reveal important insights into these mechanisms. Here, genetic structure of the monogenean parasite Gyrodactylus thymalli and its host the European grayling (Thymallus thymallus) was investigated in 10 tributaries draining into the large Lake Mjøsa in Norway. The population genetic structure of spawning grayling was studied using microsatellite genotyping, while G. thymalli was studied by sequencing a mitochondrial DNA gene (dehydrogenase subunit 5). Two main genetic clusters were revealed in grayling, one cluster comprising grayling from the largest spawning population, while the remaining tributaries formed the second cluster. For both taxa, some genetic differentiation was observed among tributaries, but there was no clear isolation-by-distance signature. The structuring was stronger for the host than for the parasite. These results imply that moderate to high levels of gene flow occur among the sub-populations of both taxa. The high parasite exchange among tributaries could result from a lack of strong homing behavior in grayling as well as interactions among individual fish outside of the spawning season, leading to frequent mixing of both host and parasite.

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