scholarly journals cpDNA-Gene-Sequence-Based Genetic Diversity, Population Structure, and Gene Flow Analysis of Ethiopian Lowland Bamboo (Bambusinea: Oxytenanthera abyssinica (A. Rich.) Munro)

2021 ◽  
Vol 2021 ◽  
pp. 1-13
Author(s):  
Oumer Abdie Oumer ◽  
Kassahun Tesfaye ◽  
Tileye Feyissa ◽  
Dagnew Yibeyen ◽  
Jayaraman Durai ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Gene Flow ◽  
Genetic Differentiation ◽  
Gc Content ◽  
Wood Products ◽  
Population Structure Analysis ◽  
The World ◽  
Oxytenanthera Abyssinica ◽  
Metekel Zone

Background. As a member of Poaceae and subfamily Bambusoideae, Ethiopian lowland bamboo (Oxytenanthera abyssinica) is one of the most important nontimber forest resources or a potential alternative to wood and wood products. Ethiopia contributes 86% of the total area of bamboo on the continent, Africa, and 7% of the world. O. abyssinica in Ethiopia accounts for 85% of the total national coverage of bamboo. Several studies have been performed on the genetic diversity and population structure analysis of various bamboo species throughout the world but almost nothing in Ethiopia and O. abyssinica. Methods. Young fresh leaves of O. abyssinica from thirteen natural lowland bamboo growing areas across the country were collected. DNA was isolated using a modified CTAB DNA isolation method. Three cpDNA gene sequences (matK, ndhF3, and rps16) were used for the study. PCR products were analyzed, purified, and pair-end sequenced to calculate AC/GC content, average number of nucleotide differences (k), nucleotide diversity (π) and population mutation rates per 100 sites ( θ w ), InDel (Insertion-Deletion), DNA divergence, gene flow, and genetic differentiation. Results. Metekel Zone was found to have extremely higher k, π, and θ w . Higher frequency of genetic differentiation was found between Metekel Zone vs. the distant populations. Higher frequency of gene flow was found between Assosa Zone vs. Oromia populations. Kurmuk haplotype from gaps or missing data considered and Bambasi haplotype from not considered has descendants around them. Conclusion. Using sequences of cpDNA genes, populations of O. abyssinica collected in Ethiopia show clear diversity based on their geographic location. Metekel Zone was found to have the most diverse population, Assosa Zone has been found to be the source of evolution of O. abyssinica, and Gambella population shows a difference from other O. abyssinica populations.

scholarly journals Genetic diversity of Ethiopian durum wheat landraces

PLoS ONE ◽  
2021 ◽  
Vol 16 (2) ◽  
pp. e0247016
Author(s):  
Kefyalew Negisho ◽  
Surafel Shibru ◽  
Klaus Pillen ◽  
Frank Ordon ◽  
Gwendolin Wehner
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Gene Flow ◽  
Genetic Differentiation ◽  
Durum Wheat ◽  
Total Variation ◽  
Population Structure Analysis ◽  
Wheat Landraces ◽  
Wheat Lines ◽  
Durum Wheat Landraces

Genetic diversity and population structure assessment in crops is essential for marker trait association, marker assisted breeding and crop germplasm conservation. We analyzed a set of 285 durum wheat accessions comprising 215 Ethiopian durum wheat landraces, 10 released durum wheat varieties, 10 advanced durum wheat lines from Ethiopia, and 50 durum wheat lines from CIMMYT. We investigated the genetic diversity and population structure for the complete panel as well as for the 215 landraces, separately based on 11,919 SNP markers with known physical positions. The whole panel was clustered into two populations representing on the one hand mainly the landraces, and on the other hand mainly released, advanced and CIMMYT lines. Further population structure analysis of the landraces uncovered 4 subgroups emphasizing the high degree of genetic diversity within Ethiopian durum landraces. Population structure based AMOVA for both sets unveiled significant (P < 0.001) variation between populations and within populations. Total variation within population accessions (81%, 76%) was higher than total variation between populations (19%, 24%) for both sets. Population structure analysis based genetic differentiation (FST) and gene flow (Nm) for the whole set and the Ethiopian landraces were 0.19 and 0.24, 1.04, and 0.81, respectively indicating high genetic differentiation and limited gene flow. Diversity indices verify that the landrace panel was more diverse with (I = 0.7, He = 0.46, uHe = 0.46) than the advanced lines (I = 0.6, He = 0.42, uHe = 0.42). Similarly, differences within the landrace clusters were observed. In summary a high genetic diversity within Ethiopian durum wheat landraces was detected, which may be a target for national and international wheat improvement programs to exploit valuable traits for biotic and abiotic stresses.

scholarly journals Genetic diversity, population structure, and gene flow analysis of lowland bamboo [ Oxytenanthera abyssinica (A. Rich.) Munro] in Ethiopia

2020 ◽  
Vol 10 (20) ◽  
pp. 11217-11236
Author(s):  
Oumer Abdie Oumer ◽  
Kifle Dagne ◽  
Tileye Feyissa ◽  
Kassahun Tesfaye ◽  
Jayaraman Durai ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Gene Flow ◽  
Flow Analysis ◽  
Oxytenanthera Abyssinica

scholarly journals EVALUATION OF GENETIC DIVERSITY IN SELECTED BEEF BREEDS

AGROFOR ◽  
2020 ◽  
Vol 5 (3) ◽  
Author(s):  
Kristína LEHOCKÁ ◽  
Radovan KASARDA ◽  
Barbora OLŠANSKÁ ◽  
Nina MORAVČÍKOVÁ
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Gene Flow ◽  
Beef Cattle ◽  
Genetic Drift ◽  
High Linkage Disequilibrium ◽  
Snp Markers ◽  
Data Set ◽  
Population Structure Analysis ◽  
Red Angus

The aim of the study was to estimate genetic drift and gene flow related to population structure and genetic diversity in selected beef cattle. For the evaluation of the genetic drift and gene flow among analysed populations, the Bayesian Population Structure Analysis and software Treemix were used. The genetic analysis included two cattle breeds bred in Slovakia (Charolais and Limousine). In addition to the Limousine and Charolais breeds, other beef cattle (Angus N = 90, Belgian Blue N = 4, Blonde d'Aquitaine N= 5, Hereford N = 98 and Red Angus N = 15) were analysed. The 50k Bead chip was used; the dataset consisted of 34,834 SNPs. To avoid detection bias, SNPs with high linkage disequilibrium (r2 = 0.05) were pruned from the database; the final data set consisted of 296 animals and 2,539 SNP markers. Our results reflected four modes of gene flow between Angus, Red Angus, Charolais, Limousine and Hereford. Analysed breeds were not confirmed to influence genetic make-up of Belgian Blue and Blonde d'Aquitaine populations. All migration edges reached weight values below 0.2. The only two migration edges higher in weight was observed, first between the ancestor of Limousine breed into Blond d'Aquitaine, and second among historical ancestor of Hereford breed into Red Angus. Our results reflect that the donor population has made a significant contribution to the recipient population.

scholarly journals Genetic diversity of Indigofera kirilowii Maxim. ex Palibin using AFLP makers

2019 ◽  
Vol 48 (4) ◽  
pp. 1237-1241
Author(s):  
Qikui Wu ◽  
Limin Sun ◽  
Xiaojing Liu ◽  
Xuan Wang ◽  
Xia Sun ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Gene Flow ◽  
Genetic Differentiation ◽  
Length Polymorphism ◽  
North China ◽  
Fragment Length Polymorphism ◽  
Natural Populations ◽  
Geographic Location ◽  
High Genetic Diversity

The present studies were conducted to assess the genetic diversity and to infer population structure of 220 individuals of Indigofera kirilowii from 8 natural populations of Shandong province, north China, using amplified fragment length polymorphism (AFLP) markers. A total of 1589 AFLP bands were produced, of which 99.87% were polymorphic. High genetic diversity was considered (H = 0.1401; I = 0.2346), with high genetic differentiation (GST = 0.1058), while estimates of gene flow (Nm) were high in all analysis. No correlations were observed between geographic location and genetic diversity (r = –0.0901; p = 0.3293). Based on the results, here a strategy for the conservation of I. kirilowii germplasm was proposed.

scholarly journals Species identification and population structure analysis in Geranium subg. Geranium (Geraniaceae)

Hacquetia ◽  
2018 ◽  
Vol 17 (2) ◽  
pp. 235-246 ◽  
Author(s):  
Somayeh Esfandani-Bozchaloyi ◽  
Masoud Sheidai ◽  
Maryam Keshavarzi ◽  
Zahra Noormohammadi
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Genetic Structure ◽  
Species Identification ◽  
Structure Analysis ◽  
Issr Markers ◽  
Morphological Studies ◽  
Population Structure Analysis ◽  
The World

AbstractSpecies identification is fundamentally important within the fields of biology, biogeography, ecology and conservation. The genusGeraniumL. (Geraniaceae) comprises about 430 species distributed throughout most parts of the world. According to the most recent treatments, subg.Geraniumis the largest subgenus with over 370 species classified in ten sections. The subg.Geraniumis represented in Iran by 13 species. These species are grouped 3 sections. In spite vast distribution of manyGeraniumspecies that grow in Iran, there are not any available report on their genetic diversity, mode of divergence and patterns of dispersal.Therefore, we performed molecular (ISSR markers) and morphological studies of 102 accessions from 13 species ofGeranium(subg.Geranium) that were collected from different habitats in Iran. The aims of present study are: 1) can ISSR markers identifyGeraniumspecies, 2) what is the genetic structure of these taxa in Iran, and 3) to investigate the species inter-relationship? The present study revealed that combination of morphological and ISSR data can identify the species.

Genetic diversity and population structure of Korean alder (Alnus japonica; Betulaceae)

1999 ◽  
Vol 29 (9) ◽  
pp. 1311-1316 ◽  
Author(s):  
Man Kyu Huh
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Gene Flow ◽  
Genetic Structure ◽  
Genetic Differentiation ◽  
Population Genetic ◽  
Alnus Japonica ◽  
Alnus Crispa ◽  
The Mean ◽  
Fixation Indices

The genetic diversity and population genetic structure of Alnus japonica (Thunb.) Steudel in Korea were studied and compared with those of alder from Canada. Nineteen of the 25 loci studied (76.0%) showed detectable polymorphism. The mean genetic diversity within populations was 0.207, which was higher than that for two Canadian alder species (Alnus rugosa (Du Roi) Spreng. and Alnus crispa (Ait.) Pursh). Analysis of fixation indices, calculated for all polymorphic loci in each population, showed a substantial deficiency of heterozygotes relative to Hardy-Weinberg expectations. The mean population differentiation value of A. japonica in Korea (GST = 0.095) is similar to those of A. rugosa in Canada (GST = 0.052). These low values of GST in two countries, reflecting little spatial genetic differentiation, may indicate extensive gene flow (via pollen and (or) seeds) and (or) recent colonization.

scholarly journals Patterns of spatial genetic structures in Aedes albopictus (Diptera: Culicidae) populations in China

2019 ◽  
Vol 12 (1) ◽  
Author(s):  
Yong Wei ◽  
Jiatian Wang ◽  
Zhangyao Song ◽  
Yulan He ◽  
Zihao Zheng ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Gene Flow ◽  
Genetic Structure ◽  
Genetic Differentiation ◽  
Population Genetic ◽  
Spatial Genetic Structure ◽  
Vector Borne Diseases ◽  
Vector Borne ◽  
Genetic Structures

Abstract Background The Asian tiger mosquito, Aedes albopictus, is one of the 100 worst invasive species in the world and the vector for several arboviruses including dengue, Zika and chikungunya viruses. Understanding the population spatial genetic structure, migration, and gene flow of vector species is critical to effectively preventing and controlling vector-borne diseases. Little is known about the population structure and genetic differentiation of native Ae. albopictus in China. The aim of this study was to examine the patterns of the spatial genetic structures of native Ae. albopictus populations, and their relationship to dengue incidence, on a large geographical scale. Methods During 2016–2018, adult female Ae. albopictus mosquitoes were collected by human landing catch (HLC) or human-bait sweep-net collections in 34 localities across China. Thirteen microsatellite markers were used to examine the patterns of genetic diversity, population structure, and gene flow among native Ae. albopictus populations. The correlation between population genetic indices and dengue incidence was also examined. Results A total of 153 distinct alleles were identified at the 13 microsatellite loci in the tested populations. All loci were polymorphic, with the number of distinct alleles ranging from eight to sixteen. Genetic parameters such as PIC, heterozygosity, allelic richness and fixation index (FST) revealed highly polymorphic markers, high genetic diversity, and low population genetic differentiation. In addition, Bayesian analysis of population structure showed two distinct genetic groups in southern-western and eastern-central-northern China. The Mantel test indicated a positive correlation between genetic distance and geographical distance (R2 = 0.245, P = 0.01). STRUCTURE analysis, PCoA and GLS interpolation analysis indicated that Ae. albopictus populations in China were regionally clustered. Gene flow and relatedness estimates were generally high between populations. We observed no correlation between population genetic indices of microsatellite loci in Ae. albopictus populations and dengue incidence. Conclusion Strong gene flow probably assisted by human activities inhibited population differentiation and promoted genetic diversity among populations of Ae. albopictus. This may represent a potential risk of rapid spread of mosquito-borne diseases. The spatial genetic structure, coupled with the association between genetic indices and dengue incidence, may have important implications for understanding the epidemiology, prevention, and control of vector-borne diseases.

scholarly journals Genetic diversity and population structure analysis of Lateolabrax maculatus from Chinese coastal waters using polymorphic microsatellite markers

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Wei Wang ◽  
Chunyan Ma ◽  
Longling Ouyang ◽  
Wei Chen ◽  
Ming Zhao ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Structure Analysis ◽  
Principal Component ◽  
Genetic Constitution ◽  
Southern Group ◽  
Population Structure Analysis ◽  
Lateolabrax Maculatus ◽  
Geographic Populations ◽  
Geographic Separation

AbstractIn order to provide valuable guidelines for the conservation of germplasm of Lateolabrax maculatus, the genetic diversity and population structure analysis were evaluated for eight geographic populations along coastal regions of China, using 11 microsatellite DNA markers. The genetic parameters obtained showed that, eight populations can be clustered into two groups, the Northern group and the Southern group, concordant with their geographical positions. The UPGMA tree constructed according to the Nei’s genetic distance along with the structure analysis and discriminant analysis of principal component also supported this result. This might be explained by the geographic separation and the divergent environmental conditions among the populations. It's worth noting that, QD (Qingdao) population from northern area was assigned to the Southern group and showed a close genetic relationship and similar genetic constitution with the southern populations. We speculated that large scales of anthropogenic transportation of wild fries from QD populations to the southern aquaculture areas in history should be the primary cause. The populations from GY (Ganyu), RD (Rudong) and BH (Binhai) had higher genetic diversity and showed limited genetic exchange with other populations, indicating better conservation of the natural resources in these regions. All populations were indicated to have experienced bottleneck events in history.

Genetic diversity, population structure and gene flow pattern among populations of Lasiurus sindicus Henr. - an endemic, C4 grass of Indian Thar desert

Plant Gene ◽  
2020 ◽  
Vol 21 ◽  
pp. 100206 ◽  
Author(s):  
Bhuwnesh Goswami ◽  
Rekha Rankawat ◽  
Wahlang Daniel Regie ◽  
Bhana Ram Gadi ◽  
Satyawada Rama Rao
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Gene Flow ◽  
Flow Pattern ◽  
Thar Desert ◽  
C4 Grass
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