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Application of microsatellite markers for breeding and genetic conservation of herds of Pantaneiro sheep Electron. J. Biotechnol.
Crispim,Bruno do Amaral; Seno,Leonardo de Oliveira; Egito,Andréa Alves do; Vargas Junior,Fernando Miranda de; Grisolia,Alexéia Barufatti.
Background The aim of the present study was to assess the genetic diversity of Pantaneiro sheep, using microsatellite markers, in order to assist maintenance and management plans, enhance mating systems and reduce the inbreeding rate. A total of 127 animals were genotyped at eight microsatellite loci. They belonged to populations from the Experimental Farm of the Universidade Federal da Grande Dourados (UFGD) (Dourados/MS/Brazil) and Embrapa Pantanal (Corumbá/MS/Brazil). Results The population of Pantaneiro sheep from the UFGD exhibited a high mean number of alleles (11.13) and allelic richness (10.66). The polymorphic information content was highly informative in the locus studied, resulting in a mean value of 0.71. Observed heterozygosity was lower than...
Tipo: Journal article Palavras-chave: Animal genetic resources; Genetic diversity; Kinship; Locally adapted breed; STR.
Ano: 2014 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582014000600010
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Assessment of genetic diversity in sesame (Sesamum indicum L.) detected by Amplified Fragment Length Polymorphism markers Electron. J. Biotechnol.
Ali,Ghulam M; Yasumoto,Sirato; Seki-Katsuta,Masumi.
Sesame (Sesamum indicum L.) is one of the oldest oil crops and is widely cultivated in Asia and Africa. To determine the level of genetic diversity in relation to geographical origins and morphological characteristics, a total of 96 accessions have been collected from different parts of the world and were analyzed using AFLP techniques. Twenty-one primer pairs generated a total of 445 bands and among them 157 (35%) were polymorphic. Using UPGMA clustering analysis method based on the similarity coefficient, accessions were separated into two major groups. The first group mostly consists of Eastern Asian origin and another group consists of South Asian origin. Sub-clusters separated the accessions and form distinct diversity among groups. Considering the...
Tipo: Journal article Palavras-chave: AFLP; Genetic diversity; Geographical origin; Morphology; Sesame.
Ano: 2007 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582007000100002
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Genetic differentiation between Cinta Senese and commercial pig breeds using microsatellite Electron. J. Biotechnol.
Scali,Monica; Vignani,Rita; Bigliazzi,Jacopo; Paolucci,Elisa; Bernini,Andrea; Spiga,Ottavia; Niccolai,Neri; Cresti,Mauro.
Background: Cinta Senese (CS) is an autochthonous Tuscan breed, which risked extinction since the ‘60s. Results: Monitoring the genetic variability of the actual population by use of DNA molecular markers is essential to address a correct breeding policy, finalized to obtain the race preservation and its fitness in the future. 17 SSRs autosomal markers and 1 associated to the X chromosome were used to genotype 86 individuals belonging to the CS and 12 belonging to two main white races Landrace (L), Large White (LW) and crosses between LW and L and L and CS widespread in Tuscany and used in the recent past to obtain hybrids with the CS. Conclusions: A dendrogram of similarity measures the relative genetic distance between individuals in the population. Data...
Tipo: Journal article Palavras-chave: Cinta Senese; Genetic diversity; Genotyping; Microsatellites; Sus scrofa.
Ano: 2012 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582012000200001
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Assessment of genetic structure in Mexican charolais herds using microsatellite markers Electron. J. Biotechnol.
Sifuentes-Rincón,Ana María; Puentes-Montiel,Herlinda; Parra-Bracamonte,Gaspar Manuel.
Knowledge of livestock genetic diversity is an essential step to respond to commercial demands and reach production objectives in different environments and production systems. The evaluation of animal genetic diversity is achieved by using molecular markers. Microsatellites are the most used markers for studies of this type. Eleven microsatellites were used to evaluate the genetic variation from three populations of Charolais cattle located in northeast Mexico. The studied populations exhibited a high allelic variability with a mean heterozygosity of 0.5. A moderate genetic differentiation between the Charolais populations (F ST = 0.079; P < 0.001) was observed. This suggests subdivisions in Charolais breed established in Mexico, due to genetic...
Tipo: Journal article Palavras-chave: Charolais; Genetic diversity; Microsatellite.
Ano: 2007 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582007000400002
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Genetic diversity associated with agronomic traits using microsatellite markers in Pakistani rice landraces Electron. J. Biotechnol.
Pervaiz,Zahida Hassan; Rabbani,M. Ashiq; Khaliq,Ishtiaq; Pearce,Stephen R; Malik,Salman A.
Genetic diversity underlies the improvement of crops by plant breeding. Land races of rice (Oryza sativa L.) can contain some valuable alleles not common in modern germplasm. The aim here was to measure genetic diversity and its effect on agronomic traits among rice land-race genotypes grown in Pakistan. Diversity was measured using thirty-five microsatellite markers and seventy-five genotypes. Among the markers used a total of 142 alleles were detected at 32 polymorphic SSR loci, while three loci were monomorphic in Pakistani rice landraces. The number of alleles identified by each marker ranged from 2 to 13 with a mean of 4.4. Size differences between the smallest and largest alleles varied from 11bp to 71bp. Polymorphism information content ranged from...
Tipo: Journal article Palavras-chave: Genetic diversity; Landraces; Microsatellite markers; Oryza sativa L.; Pakistan; Rice.
Ano: 2010 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582010000300004
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Soft computing model on genetic diversity and pathotype differentiation of pathogens: A novel approach Electron. J. Biotechnol.
Gürüler,Hüseyin; Peker,Musa; Baysal,Ömür.
Background Identifying and validating biomarkers' scores of polymorphic bands are important for studies related to the molecular diversity of pathogens. Although these validations provide more relevant results, the experiments are very complex and time-consuming. Besides rapid identification of plant pathogens causing disease, assessing genetic diversity and pathotype formation using automated soft computing methods are advantageous in terms of following genetic variation of pathogens on plants. In the present study, artificial neural network (ANN) as a soft computing method was applied to classify plant pathogen types and fungicide susceptibilities using the presence/absence of certain sequence markers as predictive features. Results A plant pathogen,...
Tipo: Journal article Palavras-chave: Computational biology; Genetic diversity; Molecular markers; Plant pathogens; Predictive information; Soft computing.
Ano: 2015 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582015000500004
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Assessment of genetic diversity in Venezuelan rice cultivars using simple sequence repeats markers Electron. J. Biotechnol.
Ghneim Herrera,Thaura; Posso Duque,Duina; Pérez Almeida,Iris; Torrealba Núñez,Gelis; Pieters,Alejandro J; Martinez,César P; Tohme,Joe M.
In Venezuela, pedigree analyses indicate that the rice varieties currently under cultivation are closely related. Effective breeding programs, based on knowledge of the genetic diversity of cultivars, are needed to broaden the genetic bases of rice germplasm in the country. In this study, we used a set of 48 simple-sequence-repeat (SSR) markers to assess the genetic diversity of 11 Venezuelan rice cultivars, released by the National Rice Breeding Program between 1978 and 2007. A total of 203 alleles were detected, the number of alleles (NA) per marker ranged from 2 to 9, with an average of 4.23. The average genic diversity (H) over all SSR loci for the 18 genotypes was 0.524, ranging from 0.105 to 0.815. Positive correlations were found between H at each...
Tipo: Journal article Palavras-chave: DNA fingerprinting; Genetic diversity; Rice; SSR.
Ano: 2008 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582008000500003
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Inbreeding evidence in a traditional channel catfish (Ictalurus punctatus) hatchery in Mexico Electron. J. Biotechnol.
Parra-Bracamonte,Gaspar Manuel; Sifuentes-Rincón,Ana María; Rosa-Reyna,Xochitl Fabiola De la; Arellano-Vera,Williams; Sosa-Reyes,Brenda.
Background: Channel catfish are one of the most important aquaculture species raised for food purposes in Mexico. Two temporal samples were obtained from the largest channel catfish breeding hatchery in Mexico to identify changes in genetic diversity and inbreeding that are promoted by traditional hatchery management. Results: The genetic parameter analysis of 11 microsatellite loci showed no significant change in genetic diversity (p &gt; 0.05). However, a significant heterozygosis deficiency was detected (p < 0.001), and genetic structure analysis indicated moderate differentiation between the temporally divided populations (F ST = 0.08). A moderate level of inbreeding and a slight increase of the inbreeding coefficient from 0.23 to 0.27 were the...
Tipo: Journal article Palavras-chave: Channel catfish; Effective population size; Genetic diversity; Inbreeding.
Ano: 2011 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582011000600011
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Genetic polymorphism of the &#945;s1-casein locus in five populations of goats from Mexico Electron. J. Biotechnol.
Torres-Vázquez,José Antonio; Vázquez Flores,Felícitas; Montaldo,Hugo H; Ulloa-Arvizu,Raúl; Valencia Posadas,Mauricio; Gayosso Vázquez,Amanda; Alonso Morales,Rogelio Alejandro.
With the objective of estimating allele frequencies, and testing for population divergence for the CSN1S1 locus, genotypes of animals from five goat populations; Saanen (n = 97), Alpine (n = 81) Toggenburg (n = 92), local goats with external appearance similar to the Murciana-Granadina breed from Central Mexico (n = 26) and heterogeneous local animals denominated Mosaico Lagunero (n = 30), from Northern Mexico, were identified using PCR and Xmn1 PCR-RFLP methodology. For Saanen, Alpine and Toggenburg, the sum of E and F alleles had the largest frequencies (from 0.468 to 0.789), while for the groups local Murciana-Granadina and Mosaico Lagunero the sum of the most frequent allelic groups (A* and B*), were 0.385 and 0.533 respectively. Both local...
Tipo: Journal article Palavras-chave: CSN1S1; Gene frequencies; Genetic diversity; Goat milk; PCR-RFLP.
Ano: 2008 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582008000300007
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Assessment of genetic diversity among Pakistani wheat (Triticum aestivum L.) advanced breeding lines using RAPD and SDS-PAGE Electron. J. Biotechnol.
Ahmed,Muhammad Farooq; Iqbal,Muhammad; Masood,Muhammad Shahid; Rabbani,Malik Ashiq; Munir,Muhammad.
Genetic diversity was assessed among 32 advanced wheat breeding lines included in the National Uniform Wheat Yield Trials (2006-07) of Pakistan using molecular (DNA) and biochemical (SDS-PAGE) markers. Of the 72 RAPD primers used for initial screening, 15 were found polymorphic. A total of 140 bands (61.4% polymorphic) were generated by the 15 random decamer primers. Genetic similarity coefficients ranged from 0.81 to 0.94 for rainfed and from 0.70 to 0.93 for the normal seeding date group. Cluster analysis using the unweighted pair group method of arithmetic averages (UPGMA) clustered the 32 advanced wheat breeding lines into one major and three small groups. Maximum level of polymorphism (90%) was observed for the primer OPA-05. Lines N9 and N11 showed...
Tipo: Journal article Palavras-chave: Genetic diversity; Molecular markers; Polymorphism; RAPD; SDS-PAGE; Wheat.
Ano: 2010 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582010000300001
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Genetic diversity of Brassica oleracea var. capitata gene bank accessions assessed by AFLP Electron. J. Biotechnol.
Faltusová,Zuzana; Kuera,Ladislav; Ovesná,Jaroslava.
The genetic diversity of 20 cabbage (Brassica oleracea var. capitata, including sub.var. alba and rubra) cultivars and landraces from the Gene bank of Crop Research Institute was estimated using amplified fragment length polymorphism (AFLP) marker technology. Two cultivars of Brassica pekinensis (syn. Brassica rapa var. pekinensis) were used as outliers in the study. Thirty AFLP primer combinations produced a total of 1084 fragments. A total of 806 fragments, 364 (45%) of them polymorphic, were found across 20 Brassica oleracea var. capitata accessions. The accessions were clustered into two main groups. Special subgroups, reflecting place of origin, were observed within these groups. Ten selective primer pairs were found to be most informative because...
Tipo: Journal article Palavras-chave: Amplified fragment length polymorphism; Brassica oleracea var. capitata; Cabbage; Discriminatory power; Genetic diversity.
Ano: 2011 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582011000300011
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Cotton genetic diversity study by AFLP markers Electron. J. Biotechnol.
Murtaza,Naveed.
Amplified fragmentlength polymorphism (AFLP) markers have been used to ascertain the intensity of inherent diversity and relatedness in cotton (Gossypium spp.) plants. The effectiveness of this method to distinguish inter and intra specific difference in cotton could be handy in cultivar recognition and in marker assisted parental selection tool for plant breeders. Twenty cotton cultivars belonging to Gossypium hirsutum L., and G. arborium L. from the Pakistan and US origin were used for AFLP based genetic diversity estimates. The objective of this study was to assess the level of genetic variation among some cotton cultivars belonging to the old and new world species of cotton. Four EcoRI-MseI primer-pair combinations were used forthe AFLP analysis. The...
Tipo: Journal article Palavras-chave: AFLP; Cluster analysis; Cotton; Genetic diversity; PCR.
Ano: 2006 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582006000400013
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Efficiency of RAPD, ISSR, AFLP and ISTR markers for the detection of polymorphisms and genetic relationships in camote de cerro (Dioscorea spp.) Electron. J. Biotechnol.
Velasco-Ramírez,Ana Paulina; Torres-Morán,Martha Isabel; Molina-Moret,Sandy; Sánchez-González,José de Jesús; Santacruz-Ruvalcaba,Fernando.
Background At present, species known as camote de cerro (Dioscorea spp.) are found only in the wilderness in Mexico, but their populations are extremely depleted because they are indiscriminately collected, it is urgent to evaluate the conservation status of these plants in order to design conservation genetics programs. In this study, genetic diversity parameters along with cluster analysis based on Jaccard's coefficient were estimated with the objective to assess the efficiency of Random Amplified Polymorphic DNA (RAPD), Inter Simple Sequence Repeat (ISSR), Amplified Fragment Length Polymorphism (AFLP) and Inverse Sequence Tagged Repeat (ISTR) molecular DNA markers in the Dioscorea genus. Results The polymorphic information contents were quite similar...
Tipo: Journal article Palavras-chave: Dioscoreaceae; Genetic diversity; Molecular markers; Tuber.
Ano: 2014 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582014000200002
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Microsatellite markers in candidate genes for wood properties and its application in functional diversity assessment in Eucalyptus globulus Electron. J. Biotechnol.
Acuña,Cintia V; Villalba,Pamela V; García,Martín; Pathauer,Pablo; Hopp,H. Esteban; Marcucci Poltri,Susana N.
Background: Functional genetic markers have important implications for genetic analysis by providing direct estimation of functional diversity. Although high throughput sequencing techniques for functional diversity analysis are being developed nowadays, the use of already well established variable markers present in candidate genes is still an interesting alternative for mapping purposes and functional diversity studies. SSR markers are routinely used in most plant and animal breeding programs for many species including Eucalyptus. SSR markers derived from candidate genes (SSR-CG) can be used effectively in co-segregation studies and marker-assisted diversity management. Results: In the present study, eight new non reported SSRs were identified in seven...
Tipo: Journal article Palavras-chave: Functional markers; Genetic diversity; Lignin pathway; SSR; Wood density.
Ano: 2012 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582012000200002
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Analysis of genetic diversity among Indian niger [Guizotia abyssinica (L. f.) Cass.] cultivars based on randomly amplified polymorphic DNA markers Electron. J. Biotechnol.
Nagella,Praveen; Hosakatte,Niranjana Murthy; Ravishankar,K.V.; Hahn,Eun-Joo; Paek,Kee-Yoeup.
Randomly amplified polymorphic DNA (RAPD) markers were used to estimate genetic diversity among 18 cultivars of niger from India. Total genomic DNA was extracted and subjected to RAPD analysis using 80 arbitrary 10-mer primers; 17 primers were selected, which yielded a total of 124 bands, 41.20% of them polymorphic. None of the primers produced unique banding pattern for each cultivar. RAPD data were used to calculate a Squared-Euclidean Distance matrix which revealed a minimum genetic distance between cultivars JNC-6 and N-48 and a maximum distance between IGP-76 and JN-30. Based on the distance matrix, a cluster analysis was done using a minimum variance algorithm. The dendrogram generated, based on Ward&#8217;s method, grouped 18 niger cultivars...
Tipo: Journal article Palavras-chave: Genetic diversity; Guizotia abyssinica; Molecular markers; RAPD.
Ano: 2008 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582008000100014
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Decline of genetic variability in a captive population of Pacific white shrimp Penaeus (Litopenaeus) vannamei using microsatellite and pedigree information Electron. J. Biotechnol.
Vela Avitúa,Sergio; Montaldo,Hugo H; Márquez Valdelamar,Laura; Campos Montes,Gabriel R; Castillo Juárez,Héctor.
Background: The objective of this study was to estimate the decline of genetic variability and the changes in effective population size in three shrimp populations. One was a wild population collected at several points in the Mexican Pacific Ocean. The other two populations were different generations (7 and 9) from a captive population selected for growth and survival. Microsatellite markers and pedigree were both used to assess genetic variability and effective population size. Results: Using 26 loci, both captive populations showed a decline in the expected heterozygosity (20%) and allelic diversity indices (48 to 91%) compared to the wild population (P < 0.05). The studied captive populations did not differ significantly from each other regarding...
Tipo: Journal article Palavras-chave: Effective population size; Genetic diversity; Heterozygosity; Microsatellites; Selection; Shrimp.
Ano: 2013 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582013000400009
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Characterization of the genetic structure of mango ginger (Curcuma amada Roxb.) from Myanmar in farm and genebank collection by the neutral and functional genomic markers Electron. J. Biotechnol.
Jatoi,Shakeel Ahmad; Kikuchi,Akira; Ahmad,Dawood; Watanabe,Kazuo N.
A preliminary characterization was undertaken to describe genetic structure of mango ginger (Curcuma amada) acquired from farmers and ex situ genebank in Myanmar using neutral (rice SSR based RAPDs) and functional genomic (P450 based analog) markers. The high polymorphism (> 91%) depicted has displayed existence of genetic variability in the germplasm investigated. Large number of source-specific alleles (neutral-markers = 78, functional-markers = 63) was amplified which revealed that neutral regions of the mango ginger were more variable compared with the functional regions. The major fraction of the molecular variance (neutral-markers = 85%, functional-markers = 93%) was explained within germplasm acquisition sources and this tendency was also...
Tipo: Journal article Palavras-chave: Curcuma amada; Genetic diversity; Mango-ginger; Myanmar; On-farm.
Ano: 2010 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582010000600004
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Phylogenetic relationships among species of the subsection Dendrophlomis Bentham Electron. J. Biotechnol.
Yuzbasioglu,Ertugrul; Dadandi,Mehmet Yasar.
This study used randomly amplified polymorphic DNA markers to determine genetic relationships among species of the subsection Dendrophlomis. Twenty accessions of the eleven Phlomis taxa were evaluated to determine genetic variability using fourteen ten mer primers selected from a 125 random oligonucleotide set. These 14 selected primers generated 85 RAPD bands that ranged in size from 200 to 1200 base pairs. Of the total bands, 88% (75) were polymorphic among the samples. Genetic distances among accessions were computed to produce a dendrogram based on UPGMA. Genetic distances ranged from 0.133 (between P. amanica and P. monocephala) to 0.494 (between P. chimerae and P. lunariifolia). The UPGMA tree based on distances has two major groups. The first...
Tipo: Journal article Palavras-chave: Genetic diversity; Genetic relationships; Genetic variation; Phlomis species; RAPDs.
Ano: 2008 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582008000400012
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Genetic diversity analysis of Bemisia tabaci populations in Pakistan using RAPD markers Electron. J. Biotechnol.
Hameed,Saima; Hameed,Shahid; Sadia,Munazza; Malik,Salman A.
Background: The Bemisia tabaci is one of the most devastating pests of agricultural crops and ornamental plants worldwide. The genetic diversity and biotype status of the Bemisia tabaci in Pakistan was assessed by using random amplified polymorphic DNA-polymerase chain reaction (RAPD-PCR). A total 80 samples of B. tabaci collected from 14 districts of the Punjab province and 7 districts of the Sindh province were included. Results: All 10 primers screened in this study generated 151 scorable amplification products, of which 117 or 77% were polymorphic. Pairwise Nei and Li’s similarity had ranged from 0.25 to 0.88 among all individuals analyzed. Based on Nei and Li’s similarity coefficients Bemisia populations were grouped into 3 main clusters and clearly...
Tipo: Journal article Palavras-chave: Asia II 1; Genetic diversity; UPGMA; Whitefly.
Ano: 2012 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582012000600006
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Assessment of genetic diversity and relationships among Osmanthus fragrans cultivars using AFLP markers Electron. J. Biotechnol.
Yuan,Wang Jun; Han,Yuan Ji; Dong,Mei Fang; Shang,Fu De.
This study was conducted to reveal genetic diversity among 100 Osmanthus fragrans cultivars using amplified fragment length polymorphism (AFLP) markers. Eight AFLP primer combinations produced a total of 443 polymorphic fragments with an average of 64 per primer combination. The percentage of polymorphic bands (86.81%), the resolving power (Rp) (32.71) and the PIC values (0.331) showed the efficiency of used primer combinations. The revealed AFLP makers were effective in distinguishing all the cultivars considered. Cluster analysis were performed to assess patterns of diversity among cultivars and showed the abundant genetic diversity. The overall distribution pattern of molecular variation suggested that 93.33% of the total genetic variance was within the...
Tipo: Journal article Palavras-chave: AFLP marker; Cluster analysis; Genetic diversity; Osmanthus fragrans.
Ano: 2011 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582011000100002
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