PENGEMBANGAN METODE PENANDA ISOZYME PADA TREMBESI

Fifty samples of raintree from Sangatta, the capital city of Kutai Timur Regency, East Kalimantan were analyzed using isozyme markers to determine the characteristics of the banding pattern. The use of isozymes was intended as a biochemical marker for genetic diversity analysis. This study aimed to determine the enzyme system that could be used to determine genetic diversity of raintree. The enzyme systems used were diaphorase, esterase, and peroxidase. Polymorphism assessments were carried out on the parameters of expected heterozygosity (H), polymorphism information content (PIC), effective multiplex ratio (E), marker index (MI), discriminanting power (D), and Resolving (R). Among the three enzyme systems used, diaphorase showed consistent performance against each of the parameters assessed, with a value of H =0.475; PIC = 0.362; E =6.1; MI = 2,2; D = 0.63: and R = 4.44. However, esterase had the highest multiplex effective ratio (E = 6.16). Therefore, diaphorase is the best isozyme marker that can be used to analyze the genetic diversity of raintree.

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Genetic diversity and population structure of date palms (Phoenix dactylifera L.) in Ethiopia using microsatellite markers

Journal of Genetic Engineering and Biotechnology ◽

10.1186/s43141-021-00168-5 ◽

2021 ◽

Vol 19 (1) ◽

Author(s):

Workia Ahmed ◽

Tileye Feyissa ◽

Kassahun Tesfaye ◽

Sumaira Farrakh

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Microsatellite Markers ◽

Information Content ◽

Date Palm ◽

Polymorphic Information Content ◽

Phoenix Dactylifera ◽

Mean Value ◽

Date Palms ◽

Expected Heterozygosity

Abstract Background Date palm tree (Phoenix dactylifera L.) is a perennial monocotyledonous plant belonging to the Arecaceae family, a special plant with extraordinary nature that gives eminent contributions in agricultural sustainability and huge socio-economic value in many countries of the world including Ethiopia. Evaluation of genetic diversity across date palms at DNA level is very important for breeding and conservation. The result of this study could help to design for genetic improvement and develop germplasm introduction programmes of date palms mainly in Ethiopia. Results In this study, 124 date palm genotypes were collected, and 10 polymorphic microsatellite markers were used. Among 10 microsatellites, MPdCIR085 and MPdCIR093 loci showed the highest value of observed and expected heterozygosity, maximum number of alleles, and highest polymorphic information content values. A total of 112 number of alleles were found, and the mean number of major allele frequency was 0.26, with numbers ranging from 0.155 (MPdCIR085) to 0.374 (MPdCIR016); effective number of alleles with a mean value of 6.61, private alleles ranged from 0.0 to 0.65; observed heterozygosity ranged from 0.355 to 0.726; expected heterozygosity varied from 0.669 to 0.906, polymorphic information content with a mean value of 0.809; fixation index individuals relative to subpopulations ranged from 0.028 for locus MPdCIR032 to 0.548 for locus MPdCIR025, while subpopulations relative to total population value ranged from − 0.007 (MPdCIR070) to 0.891 (MPdCIR015). All nine accesstions, neighbour-joining clustering analysis, based on dissimilarity coefficient values were grouped into five major categories; in population STRUCTURE analysis at highest K value, three groups were formed, whereas DAPC separated date palm genotypes into eight clusters using the first two linear discriminants. Principal coordinate analysis was explained, with a 17.33% total of variation in all populations. Generally, the result of this study revealed the presence of allele variations and high heterozygosity (> 0.7) in date palm genotypes. Conclusions Microsatellites (SSR) are one of the most preferable molecular markers for the study of genetic diversity and population structure of plants. In this study, we found the presence of genetic variations of date palm genotypes in Ethiopia; therefore, these genetic variations of date palms is important for crop improvement and conservation programmes; also, it will be used as sources of information to national and international genbanks.

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Statistical analysis in support of maintaining a healthy traditional Siamese cat population

Genetics Selection Evolution ◽

10.1186/s12711-020-00596-w ◽

2021 ◽

Vol 53 (1) ◽

Author(s):

Arthur M. A. Pistorius ◽

Ineke Blokker

Keyword(s):

Genetic Diversity ◽

Cluster Analysis ◽

Companion Animals ◽

Hereditary Diseases ◽

Small Scale ◽

Genetic Traits ◽

Inbreeding Coefficients ◽

A Value ◽

Siamese Cat ◽

Line Breeding

Abstract Background For many years, breeders of companion animals have applied inbreeding or line breeding to transfer desirable genetic traits from parents to their offspring. Simultaneously, this resulted in a considerable spread of hereditary diseases and phenomena associated with inbreeding depression. Results Our cluster analysis of kinship and inbreeding coefficients suggests that the Thai or traditional Siamese cat could be considered as a subpopulation of the Siamese cat, which shares common ancestors, although they are considered as separate breeds. In addition, model-based cluster analysis could detect regional differences between Thai subpopulations. We show that by applying optimal contribution selection and simultaneously limiting the contributions by other breeds, the genetic diversity within subpopulations can be improved. Conclusion In principle, the European mainland Thai cat population can achieve a genetic diversity of about 26 founder genome equivalents, a value that could potentially sustain a genetically diverse population. However, reaching such a target will be difficult in the absence of a supervised breeding program. Suboptimal solutions can be obtained by minimisation of kinships within regional subpopulations. Exchanging animals between different regions on a small scale might be already quite useful to reduce the kinship, by achieving a potential diversity of 23 founder genome equivalents. However, contributions by other breeds should be minimised to preserve the original Siamese gene pool.

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Microsatellite-Based Genetic Structure and Hybrid Detection in Alpacas Bred in Poland

Animals ◽

10.3390/ani11082193 ◽

2021 ◽

Vol 11 (8) ◽

pp. 2193

Author(s):

Angelika Podbielska ◽

Katarzyna Piórkowska ◽

Tomasz Szmatoła

Keyword(s):

Genetic Diversity ◽

Microsatellite Markers ◽

First Generation ◽

Expected Heterozygosity ◽

Hybrid Detection ◽

Average Coefficient ◽

Mixed Origin ◽

Generation Hybrid

This study aimed to characterize the population structure and genetic diversity of alpacas maintained in Poland using 17 microsatellite markers recommended by the International Society for Animal Genetics. The classification of llamas, alpacas, and hybrids of both based on phenotype is often difficult due to long-term admixture. Our results showed that microsatellite markers can distinguish alpacas from llamas and provide information about the level of admixture of one species in another. Alpacas admixed with llamas constituted 8.8% of the tested individuals, with the first-generation hybrid displaying only 7.4% of llama admixture. The results showed that Poland hosts a high alpaca genetic diversity as a consequence of their mixed origin. More than 200 different alleles were identified and the average observed heterozygosity and expected heterozygosity values were 0.745 and 0.768, respectively, the average coefficient of inbreeding was 0.034, and the average polymorphism information content value was 0.741. The probability of exclusion for one parent was estimated at 0.99995 and for two parents at 0.99999.

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Genetic Structure and Diversity among Species of Salacia: An Endangered Medicinal Herb of Western Ghats, India

South Asian Journal of Experimental Biology ◽

10.38150/sajeb.9(1).p23-33 ◽

2019 ◽

Vol 9 (1) ◽

pp. 23-33

Author(s):

Chandrashekhar G Patil ◽

Sheetal Ganapati Kamat ◽

R Vasudeva

Keyword(s):

Genetic Diversity ◽

Southern China ◽

Issr Marker ◽

Group Method ◽

Population Genetic Differentiation ◽

Expected Heterozygosity ◽

Marker Analysis ◽

Endangered Medicinal Herb ◽

High Level ◽

Genetic Structure And Diversity

Salacia is one of the medicinally valuable genus, distributed throughout tropical areas which include India, Sri Lanka, Southern China and other Southern Asian Countries. The genus Salacia is represented by 21 species in India, among them eight species are recorded from the state of Karnataka in the Southern part of India. Despite its pharmaceutical importance, very little information exists about the genetic diversity of Salacia at molecular level. Hence the present study was carried out to evaluate the genetic among six species of Salacia namely S. chinensis, S. malabarica, S. oblonga, S. macrosperma, S. reticulata and S. gambleana with the help of ISSR marker analysis. Dendrogram and genetic distance were generated adopting Unweighted Paired Group Method with Arithmetic mean (UPGMA) in the NTSYS-pc software. Basic genetic parameters were calculated by analysing the genetic data with Pop gene 1.32 and GenAlEx 6.2 software. The overall polymorphism across the ten primers screened revealed 26 % polymorphism. A 60% polymorphism was scored for the primer UBC 841, whereas, no polymorphism was observed for primer UBC 840 and ISSR 6. The average observed heterozygosity was more than expected heterozygosity. Observed heterozygosity (Ho) ranged from 0.15 (UBC 841) to 0.38 (ISSR 6) with an average of 0.25, whereas expected heterozygosity (He) ranged from 0.10 (UBC 843) to 0.35 (ISSR 6) with an average of 0.23 for Salacia species. The higher heterozygosity pointed towards increased genetic diversity amongst the species. ISSR marker analysis showed high level of inter and intra population genetic differentiation.

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Population structure and phylogenetic relationships in Brassica rapa L. subspecies by using isozyme markers

Brazilian Journal of Biology ◽

10.1590/1519-6984.226889 ◽

2020 ◽

Author(s):

R. H. Sammour ◽

M. A. Karam ◽

Y. S. Morsi ◽

R. M. Ali

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Brassica Rapa ◽

Phylogenetic Relationships ◽

Fixation Index ◽

Distribution Area ◽

Enzyme Analysis ◽

Breeding Programs ◽

Expected Heterozygosity ◽

Wide Range

Abstract The present study aimed to assess population structure and phylogenetic relationships of nine subspecies of Brassica rapa L. represented with thirty-five accessions cover a wide range of species distribution area using isozyme analysis in order to select more diverse accessions as supplementary resources that can be utilized for improvement of B. napus. Enzyme analysis resulted in detecting 14 putative polymorphic loci with 27 alleles. Mean allele frequency 0.04 (rare alleles) was observed in Cat4A and Cat4B in sub species Oleifera accession CR 2204/79 and in subspecies trilocularis accessions CR 2215/88 and CR 2244/88. The highest genetic diversity measures were observed in subspecies dichotoma, accession CR 1585/96 (the highest average of observed (H0) and expected heterozygosity (He), and number of alleles per locus (Ae)). These observations make this accession valuable genetic resource to be included in breeding programs for the improvement of oilseed B. napus. The average fixation index (F) is significantly higher than zero for the analysis accessions indicating a significant deficiency of heteozygosity. The divergence among subspecies indicated very great genetic differentiation (FST = 0.8972) which means that about 90% of genetic diversity is distributed among subspecies, while 10% of the diversity is distributed within subspecies. This coincides with low value of gene flow (Nm = 0.0287). B. rapa ssp. oleifera (turnip rape) and B. rapa ssp. trilocularis (sarson) were grouped under one cluster which coincides with the morphological classification.

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Morphological and genetic diversity of traditional varieties of agave in Hidalgo State, Mexico

10.21203/rs.3.rs-143808/v1 ◽

2021 ◽

Author(s):

Carmen Julia Figueredo-Urbina ◽

Gonzalo D. Álvarez-Ríos ◽

Mario Adolfo García-Montes ◽

Pablo Octavio-Aguilar

Keyword(s):

Genetic Diversity ◽

Morphological Characteristics ◽

Plant Size ◽

Structured Interviews ◽

Main Method ◽

Domestication Syndrome ◽

Cultural Importance ◽

Genetic Groups ◽

Expected Heterozygosity ◽

Distilled Beverages

Abstract Background: The agaves are plants of cultural importance that have been used by humans for about 10,000 years for about 40 specific uses, of which the most culturally and economically important are fermented (Pulque) and distilled beverages (Mescal). Pulque continues to be produced in nearly all of Mexico, and the agaves used for this propose have shown domestication syndrome and selected morphological characteristics, such as larger plant size (since size is positively related to sap production) and less dentition of the leaves.Methods: In this study, we carry out an ethnobotanical, morphological and genetic analysis of the traditional varieties of pulque agave used in the production of aguamiel (agave sap) and pulque in two localities of the state of Hidalgo. We did semi-structured interviews and tours with crop owners, tlachiqueros (sap harvesters), and people related to the production system. We analyzed the morphology of 111 plants, and we studied the diversity and genetic structure of 130 individuals using 16 nuclear microsatellites.Results: We found wild, tolerated, transplanted, and cultivated varieties of agave. Asexual reproduction was the main method of propagation. We recorded 19 traditional varieties of pulque agave, 12 of them in production during the study, which correspond to the species Agave americana, A. salmiana y A. mapisaga with five intraspecific entities. The varieties were grouped according to a management gradient; the wild varieties were the smallest, with more lateral teeth and a larger terminal spine. The cultivated varieties clearly exhibited domestication syndrome, with larger plants and smaller dentition. The expected heterozygosity (He) of the varieties ranged between 0.204 to 0.721. Bayesian clustering suggested the existence of three genetic groups (K = 3), both at the level of traditional varieties of pulque agaves and for management categories, a result that matches multivariate clustering.Conclusions: Pulque producers in the studied localities, maintain high agrobiodiversity. The cultivated varieties exhibit domestication syndrome, as has been reported for other species of the genus with the same selection purposes. Our results support the hypothesis of a decrease in genetic diversity in crops compared to wild agaves, which seems to be due to vegetative propagation, among other factors.

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Genetic diversity and structure of Dorstenia elata (Moraceae) in an Atlantic Forest remnant

Rodriguésia ◽

10.1590/2175-7860202172081 ◽

2021 ◽

Vol 72 ◽

Author(s):

Liliana Aparecida Ribeiro Martins ◽

Rodrigo Monte Lorenzoni ◽

Ronald Martins Pereira Júnior ◽

Fábio Demolinari de Miranda ◽

Milene Miranda Praça Fontes ◽

...

Keyword(s):

Genetic Diversity ◽

Atlantic Forest ◽

Shannon Index ◽

The Road ◽

Expected Heterozygosity ◽

Forest Remnant ◽

Genetic Diversity And Structure ◽

Native Populations ◽

The Matrix ◽

Issr Primers

Abstract Plant species that show gregarious spatial distribution and endemism to the Atlantic Forest, such as Dorstenia elata, are particularly sensitive to the effects of genetic diversity loss. In the present study, we aimed to quantify the genetic diversity in native populations of this species in an Atlantic Forest remnant. The sample included three aggregates of individuals, and molecular characterization was performed with twelve ISSR primers. Intrapopulation analyses were based on the calculation of the Shannon index; total expected heterozygosity and the matrix of distances between pairs of individuals were also calculated. The obtained grouping dendrogram evinced the formation of two groups. Interpopulation investigations were based on the analysis of molecular variance and the estimate of historical gene flow. The results demonstrate that one group comprised the genotypes from two subpopulations, and the other contained exclusively the genotypes of a third subpopulation. The greatest genetic variability was observed within rather than among populations, indicating that the geographical distance and the road that divides the studied populations are not causing loss of genetic diversity.

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GENOMIC DETERMINATION OF THE MOST IMPORTANT FATHER LINES OF SLOVAK PINZGAU COWS

AGROFOR ◽

10.7251/agreng1603110k ◽

2016 ◽

Vol 1 (3) ◽

Author(s):

Veronika KUKUČKOVÁ ◽

Nina MORAVČÍKOVÁ ◽

Radovan KASARDA

Keyword(s):

Genetic Diversity ◽

Genetic Structure ◽

The State ◽

Most Probable Number ◽

Pedigree Data ◽

Probable Number ◽

Expected Heterozygosity ◽

High Level ◽

The Bayesian Approach

The aim of this study was to assess genetic structure of Slovak Pinzgau populationbased on polymorphism at molecular markers using statistical methods. Femaleoffspring of 12 most frequently used bulls in Slovak Pinzgau breeding programmewere investigated. Pinzgau cattle were found to have a high level of diversity,supported by the number of alleles observed across loci (average 5.31, range 2-11)and by the high within-breed expected heterozygosity (average 0.66, range 0.64-0.73). The state of genetic diversity is satisfying and standard for local populations.Detection of 12 possible subpopulation structures provided us with detailedinformation of the genetic structure. The Bayesian approach was applied, detectingthree, as the most probable number of clusters. The similarity of eachsubpopulation using microsatellites was confirmed also by high-throughputmolecular data. The observed inbreeding (FROH=2.3%) was higher than thatexpected based on pedigree data (FPED=0.4%) due to the limited number ofavailable generations in pedigree data. One of the most important steps indevelopment of efficient autochthonous breed protection programs ischaracterization of genetic variability and assessment of the population structure.The chosen set of microsatellites confirmed the suitability in determination of thesubpopulations of Pinzgau cattle in Slovakia. The state of genetic diversity at moredetailed level was successfully performed using bovineSNP50 BeadChip.

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Genetic analysis of silver-fir populations in the Beskids

Acta Societatis Botanicorum Poloniae ◽

10.5586/asbp.2003.015 ◽

2011 ◽

Vol 72 (2) ◽

pp. 115-119 ◽

Cited By ~ 3

Author(s):

Leon Mejnartowicz

Keyword(s):

Genetic Diversity ◽

Genetic Variation ◽

Genetic Analysis ◽

Abies Alba ◽

Genetic Distances ◽

Silver Fir ◽

Geographical Distance ◽

Polymorphic Loci ◽

Expected Heterozygosity ◽

Rare Alleles

Twenty-eight isozymic loci were studied in the Beskid Mts., in four populations of common silver-fir (Abies alba): one in Beskid Makowski (BM) and three populations in Beskid Sądecki (BS). Their genetic variation and diversity were analyzed, and Nei's genetic distances between the populations were calculated. The results show that the geographical distance between the BM population and the three BS populations is reflected in genetic distances. The BM population is clearly distinct from the others. It has the lowest genetic diversity (I = 0.42), percentage of polymorphic loci (%PoL = 64.29) and number of rare alleles (NoRa = 5). Besides, the BM population has the highest observed heterozygosity (Ho = 0.291), which exceeds the expected heterozygosity (He = 0.254), estimated on the basis of the Hardy-Weinberg Principle. On the contrary, BS populations are in the state of equilibrium, which is manifested, in similar values of He = 0.262 and Ho = 0.264.

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DAMPAK PEMINDAHAN IBU KOTA NEGARA TERHADAP PENDUDUK DAN KETENAGAKERJAAN DI PROVINSI JAWA BARAT

Jurnal Kependudukan Indonesia ◽

10.14203/jki.v15i2.492 ◽

2021 ◽

Vol 15 (2) ◽

pp. 133

Author(s):

Janiar Ningrum ◽

Jamalludin Jamalludin ◽

Izzun Nafiah ◽

Ferry Maurist Sitorus ◽

Ferlistya Pratita Rari ◽

...

Keyword(s):

Secondary Data ◽

Civil Servants ◽

Capital City ◽

Medium Term ◽

The West ◽

West Java ◽

East Kalimantan ◽

Secondary Data Sources ◽

The Government ◽

Surrounding Areas

The plan to relocate the Indonesian capital as set out in the 2020-2024 National Medium-Term Development Plan (RPJMN) to East Kalimantan Province will start in 2024. During the process, the government also plans to move central civil servants to the new capital. The planned relocation of the capital city impacts all central civil servants located in DKI Jakarta and surrounding areas. This research used secondary data sources as a basis for population and employment projections. From the results obtained, West Java's population will continue to grow during the growth rate decline. The relocation plan will directly impact the West Java population, but the effect tends to be less significant given the small number of central civil servants located in west java compared to West Java's population as a whole. The relocation plan will impact social environment conditions, economic activity, and the environment in surrounding areas.

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