Population Genetic Difference of Pharmacogenomic VIP Variants in the Tibetan Population

Helichrysum armenium and H. rubicundum are two medicinally important plants of Iran that are distributed in various regions of the country. They are extensively used by locals as medicinal plants and a great negative selection pressure is applied on them. Therefore, due to importance of these plant species, we performed a population genetic study in both species. For this study, we used 66 randomly collected plants from 24 geographical populations of Helichrysum armenium and H. rubicundu. These species had areas of overlap and contact and we found some intermediate plants that were included in our study too. UPGMA and MDS analyses revealed morphological separation of these closely related species and placed intermediate plants in an intermediate position. ISSR analysis revealed inter-population genetic diversity and K-Means clustering and STRUCTURE analyses revealed populations. Genetic stratification in both species. Genetic difference of the studied populations was not correlated to geographical distance. Triangle plot of Bayesian analysis and NeighborNet plot showed inter-specific gene flow. The studied populations showed plants with 2n = 2x = 14 and 2n = 4x = 28 chromosomes and differed significantly in their meiotic behavior. Therefore, a combination of genetic stratification, and genetic admixture as well as polyploidy and chromosomes structural changes, have played rule in Helichrysum diversification.

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Molecular Characterization of Anguilla from Cibereum and Sapuregel Rivers Segara Anakan Watersheds Cilacap, Central Java

Biogenesis Jurnal Ilmiah Biologi ◽

10.24252/bio.v8i2.15532 ◽

2020 ◽

Vol 8 (2) ◽

pp. 145

Author(s):

Agus Nuryanto ◽

Dian Baghawati ◽

Kusbiyanto Kusbiyanto ◽

Moh Husein Sastranegara ◽

Farida Nur Rachmawati

Keyword(s):

Molecular Characterization ◽

Population Genetic ◽

Nucleotide Diversity ◽

Genetic Difference ◽

Taxonomic Status ◽

Population Divergence ◽

Local Alignment ◽

Reference Species ◽

Central Java ◽

Search Tool

The taxonomic status of Anguilla species' in river watershed that empties into Segara Anakan Cilacap is uncertain, thereby making it difficult for further studies to be carried out to determine its genetic in that area. Therefore, this study evaluates Anguilla's taxonomic status and population genetic in Cibeureum and Sapuregel River watersheds. Data were obtained from molecular characterization study using cytochrome c oxidase 1, with fourteen Anguilla specimens collected from two sequenced watersheds. Taxonomic status was determined based on homology and divergence values and monophyly of the samples to the reference species. Meanwhile, genetic divergences among samples to the reference species were calculated based on the Juke-Cantor substitution model in DnaSP6. A homology test was performed using a basic local alignment search tool, with monophyly inferred from the cladogram, which was developed using neighbor-joining and maximum likelihood algorithms in MEGAX with 1000 pseudoreplicates and out-group comparison. Furthermore, population genetic was analyzed through polymorphism, haplotype, nucleotide diversity within the population, divergence, and genetic differences. All calculations conducted in Arlequin 3.5 had Anguilla samples comprising of high (99.23% to 99.84%) to low genetic divergences (0.224% to 1.127%). The result shows that cladogram with all Anguilla samples formed a monophyletic clade with A. bicolor, separated from their taxa. Furthermore, Anguilla samples from both watersheds have low genetic polymorphisms with medium to high haplotype and nucleotide diversity. The population's comparison proved that both populations have low genetic divergence, and no genetic difference based on variance analysis (p=0761). Therefore, Anguilla resources in river watersheds that empty into Segara Anakan are a single genetic conservation unit.

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Contemporary inter-specific hybridization between Cirsium aduncum and C. haussknechtii (Asteraceae): Evidence from molecular and morphological data

Genetika ◽

10.2298/gensr1602497s ◽

2016 ◽

Vol 48 (2) ◽

pp. 497-514 ◽

Cited By ~ 1

Author(s):

Masoud Sheidai ◽

Mona Naji ◽

Zahra Noormohammadi ◽

Maryam Nouroozi ◽

Somayeh Ghasemzadeh-Baraki

Keyword(s):

Population Genetic ◽

Isolation By Distance ◽

Genetic Difference ◽

Morphological Difference ◽

Morphological Data ◽

Assignment Test ◽

Specific Gene ◽

Population Genetic Analysis ◽

Important Species ◽

Geographical Regions

Cirsium aduncum Fisch. & C.A.Mey. Ex DC. and C. haussknechtii Boiss., (Asteraceae) are important medicinal plant species that grow in different geographical regions of Iran. We had no knowledge about population genetic structure, intra-specific and inter-specific gene flow and the presence of hybrid zone for this two species in Iran. Therefore, in order to provide data for conservation of these two medicinally important species, the population genetic analysis and morphometric studies were performed in 18 geographical populations of these species. ANOVA and MDS analyses revealed significant morphological difference among the studied populations in either species, while MDS plot showed morphological overlap in plants of these two species. AMOVA test revealed significant genetic difference among the studied populations. Mantel test showed positive significant correlation between genetic and geographical distances and the occurrence of isolation by distance. Population assignment test and STRUCTURE plot of genetic data revealed inter-specific introgression between these species.

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ISSR markers and population differentiations in Erodium ciconium (L.) L'hér ex Aiton

Bangladesh Journal of Plant Taxonomy ◽

10.3329/bjpt.v28i1.54208 ◽

2021 ◽

Vol 28 (1) ◽

pp. 61-73

Author(s):

Xi Fei ◽

Ruan Xuejun ◽

Amir Abbas Minaeifar

Keyword(s):

Population Genetic ◽

Genetic Difference ◽

Morphological Variability ◽

Molecular Data ◽

Issr Markers ◽

Mantel Test ◽

Population Diversity ◽

Protein Supplements ◽

Population Genetic Differentiation ◽

Plant Taxon

Erodium ciconium is an important grazing plant and a source of protein supplements to straw for ruminants in semideserts and wastelands of the Middle East. There is no information on its population genetic structure, genetic diversity, and morphological variability in Iran. We performed molecular data for knowing the population differentiation in this species. For this study, we used 110 randomly collected plants from 15 geographical populations in 6 provinces of Iran. AMOVA test revealed significant genetic difference among the studied populations and also revealed that, 63% of total genetic variability was due to within population diversity while, 37% was due to among population genetic differentiation. Mantel test showed positive significant correlation between genetic distance and geographical distance of the studied populations. Networking, STRUCTURE analyses revealed some degree of gene flow among these populations. Bangladesh J. Plant Taxon. 28(1): 61-73, 2021 (June)

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HGPGD: The Human Gene Population Genetic Difference Database

PLoS ONE ◽

10.1371/journal.pone.0064150 ◽

2013 ◽

Vol 8 (5) ◽

pp. e64150 ◽

Cited By ~ 2

Author(s):

Yongshuai Jiang ◽

Ruijie Zhang ◽

Hongchao Lv ◽

Jin Li ◽

Miao Wang ◽

...

Keyword(s):

Population Genetic ◽

Human Gene ◽

Genetic Difference

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Population genetic structure and gene flow in Alcea aucheri (Boiss.) Alef.: A potential medicinal plant

Genetika ◽

10.2298/gensr2102867h ◽

2021 ◽

Vol 53 (2) ◽

pp. 867-882

Author(s):

Liu Hang ◽

Li Pan ◽

Tang Yong ◽

Luo Jianguo ◽

Xu Xingmin ◽

...

Keyword(s):

Gene Flow ◽

Genetic Structure ◽

Population Genetic Structure ◽

Population Genetic ◽

Genetic Difference ◽

Morphological Variability ◽

Molecular Data ◽

Mantel Test ◽

Population Diversity ◽

Population Genetic Differentiation

The genus Alcea, a member of Malvaceae family consists of approximately 75 species worldwide distributing mainly in South-West Asia. Among these, 33 species grow in Iran. Plants of the Alcea (or Althaea) are among important medicinal plants in Iranian traditional medicine. They have long been used in the treatment of health problems and diseases. Alcea aucheri (Boiss.) Alef. species are distributed in different habitats of Iran. There is no information on its population genetic structure, genetic diversity, and morphological variability in Iran. Therefore, due to the importance of these plant species, we performed a combination of morphological and molecular data for this species. For this study, we used 118 randomly collected plants from 10 geographical populations in 5 provinces. AMOVA test revealed significant genetic difference among the studied populations and also revealed that, 74% of total genetic variability was due to within population diversity while, 26% was due to among population genetic differentiation. Mantel test showed positive significant correlation between genetic distance and geographical distance of the studied populations. Networking, STRUCTURE analyses revealed some degree of gene flow among these populations.

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Genetic diversity and relationship among indigenous Turkish Karayaka sheep subpopulations

Archives Animal Breeding ◽

10.5194/aab-63-269-2020 ◽

2020 ◽

Vol 63 (2) ◽

pp. 269-275

Author(s):

Koray Kirikci ◽

M. Akif Cam ◽

Levent Mercan

Keyword(s):

Genetic Diversity ◽

Population Genetic ◽

Allelic Richness ◽

Genetic Difference ◽

Genetic Relationships ◽

Inbreeding Coefficient ◽

The Black Sea ◽

Breeding Strategies ◽

Black Sea Region ◽

Expected Heterozygosity

Abstract. The Karayaka is the most populous sheep breed in the Black Sea region of Turkey. In the present study, we investigated the intra- and inter-population genetic relationships among indigenous Karayaka sheep subpopulations. Nine microsatellites were genotyped for 64 individuals from Samsun, Ordu, Giresun and Tokat provinces. The average number of alleles (Na), allelic richness (Ar), observed heterozygosity (Ho), expected heterozygosity (He), polymorphism information content (PIC) and inbreeding coefficient (FIS) for all subpopulations were estimated as Na=16.44, Ar=9.887, Ho=0.303, He=0.886, PIC=0.866 and FIS=0.630, respectively. The observed and expected heterozygosity ranged from 0.171 (Giresun) to 0.376 (Ordu) and 0.757 (Samsun) to 0.845 (Ordu), respectively. It was determined that a 10.5 % of total genetic variation (FIT=66.9 %) in Karayaka sheep corresponded to genetic differences among subpopulations (FST), whereas 63.0 % was explained by genetic difference among individuals (FIS). This study gives the first evidence about genetic relationships of Karayaka subpopulations. The results show that Karayaka sheep subpopulations are genetically different from each other. These findings revealed that the Karayaka breed has discrete subpopulations and should be taken into consideration when preparing conservation programs and future breeding strategies.

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Population genetic difference of pharmacogenomic VIP gene variants in the Lisu population from Yunnan Province

Medicine ◽

10.1097/md.0000000000013674 ◽

2018 ◽

Vol 97 (52) ◽

pp. e13674 ◽

Cited By ~ 2

Author(s):

Chan Zhang ◽

Xiaochun Jiang ◽

Wanlu Chen ◽

Qi Li ◽

Fubin Yun ◽

...

Keyword(s):

Population Genetic ◽

Yunnan Province ◽

Genetic Difference ◽

Gene Variants

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Genetic diversity of pacu and piapara broodstocks in restocking programs in the rivers Paraná and Paranapanema (Brazil)

Semina Ciências Agrárias ◽

10.5433/1679-0359.2016v37n4supl1p2365 ◽

2016 ◽

Vol 37 (4Supl1) ◽

pp. 2365 ◽

Cited By ~ 1

Author(s):

Nelson Mauricio Lopera-Barrero ◽

Jayme Aparecido Povh ◽

Rodolfo Nardez Sirol ◽

Maria Del Pilar Rodriguez-Rodriguez ◽

Ed Christian Suzuki de Lima ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Variability ◽

Population Genetic ◽

Genetic Difference ◽

Shannon Index ◽

Fish Ponds ◽

Common Ancestry ◽

Molecular Variance ◽

Piaractus Mesopotamicus

The genetic diversity of Piaractus mesopotamicus (pacu) and Leporinus elongatus (piapara) broodstocks used in restocking programs in the rivers Paraná and Paranapanema is analyzed. One hundred and twenty specimens (two broodstocks of each species) from fish ponds in Palotina PR Brazil and in Salto Grande SP Brazil were assessed. Ten primers produced 96 fragments, comprising 68 (70.83%) and 94 (97.92%) polymorphic fragments for P. mesopotamicus and L. elongatus broodstocks, respectively. Differences (p < 0.05) in the frequency of 15 and 27 fragments were detected for each species, without exclusive fragments. Shannon Index (0.347 - 0.572) and the percentage of polymorphic fragments (57.3% - 94.8%) revealed high intra-population genetic variability for all broodstocks. Results of molecular variance analyses (AMOVA) showed that most variations do not lie between the broodstocks but within each broodstock (89%). Genetic (0.088 and 0.142) and identity (0.916 and 0.868) distance rates demonstrated similarity between the broodstocks of each species, corroborated by Fst (0.1023 and 010.27) and Nm (4.18 and 4.33) rates, with a slight genetic difference due to genic flux. High intrapopulation genetic variability and similarity between the broodstocks of each species was also detected, proving a common ancestry.

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Population genetic diversity and structure in Ziziphora tenuior L.: Identification of potential gene pools

Genetika ◽

10.2298/gensr1602565t ◽

2016 ◽

Vol 48 (2) ◽

pp. 565-578

Author(s):

Raheleh Tabaripoor ◽

Masoud Sheidai ◽

Seyyed Talebi ◽

Zahra Noormohammadi

Keyword(s):

Genetic Diversity ◽

Population Genetic ◽

Isolation By Distance ◽

Genetic Difference ◽

Gene Pools ◽

Diversity Analysis ◽

Genetic Diversity And Structure ◽

Main Gene ◽

Geographical Populations ◽

Issr Molecular Markers

Ziziphora tenuior L. is a medicinal plant species of the genus Ziziphora (Labiatae) that grows in different areas of Iran. In order to study the population genetic structure in Ziziphora tenuior, we collected 107 plant specimens from 20 geographical populations that are located in 17 provinces. ISSR molecular markers were used for genetic diversity analysis. The populations studied revealed intra- and inter-population genetic variability. AMOVA test showed significant genetic difference among the studied populations. STRUCTURE plot identified two main gene pools for Ziziphora tenuior in Iran. These populations showed isolation by distance and restrict gene flow occurred among them.

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