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A comparative genetic diversity assessment of industrial and household Brazilian cassava varieties using SSR markers Bragantia
Siqueira,Marcos Vinicius Bohrer Monteiro; Borges,Aline; Valle,Teresa Losada; Veasey,Elizabeth Ann.
This study was carried out in order to assess the genetic diversity of 20 cassava (Manihot esculenta Crantz) genotypes with high phenotypic performance using microsatellite markers. Two groups were considered for this study: eleven varieties for industrial uses and nine for household consumption. By using nine microsatellite primers, high polymorphism was identified in all the loci analyzed, with values reaching 100%. On average, 3.4 alleles per locus were found, with 0.371 the value estimated for the observed heterozygosity and 0.555 for gene diversity for the entire set of varieties. The genetic variability found in both varieties, cultivated on a large-scale in the South Center region of Brazil, is wide enough to allow the choice of divergent parental...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Manihot esculenta; Genetic diversity; Germplasm; Microsatellites.
Ano: 2011 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0006-87052011000400003
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A conservation genetic study of Rafflesia speciosa (Rafflesiaceae): patterns of genetic diversity and differentiation within and between islands Naturalis
Pelser, P.B.; Nickrent, D.L.; Barcelona, J.F..
Rafflesia speciosa is a threatened endo-holoparasitic species. It has several populations in the Central Panay Mountain Range (CPMR) of Panay island and a single population on Negros Island. Because R. speciosa is the only Philippine species of the genus that is not endemic to an individual island, it is a suitable species for improving our understanding of the factors underlying the high island endemism of Philippine Rafflesia. For this purpose and to inform the conservation management of R. speciosa, patterns of genetic diversity and differentiation were studied using 15 microsatellite loci and samples from nine populations. None of these populations shows evidence of inbreeding and R. speciosa has similar levels of heterozygosity as generally observed...
Tipo: Article / Letter to the editor Palavras-chave: Microsatellites; Conservation; Negros; Panay; Philippines; Population genetics.
Ano: 2018 URL: http://www.repository.naturalis.nl/record/655789
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A novel genome-wide microsatellite resource for species of Eucalyptus with linkage-to-physical correspondence on the reference genome sequence. Repositório Alice
GRATTAPAGLIA, D.; MAMANI, E. M. C.; SILVA JUNIOR, O. B.; FARIA, D. A..
bitstream/item/137574/1/Grattapaglia-et-al-2015-Molecular-Ecology-Resources.pdf
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Ancestry informative markers; Microsatellites; Simple sequence repeats; Eucalyptus Grandis; Eucalyptus globulus.
Ano: 2015 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1034895
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A polymorphic microsatellite from the Squalius alburnoides complex (Osteichthyes, Cyprinidae) cloned by serendipity can be useful in genetic analysis of polyploids Genet. Mol. Biol.
Boto,Luis; Cunha,Carina; Doadrio,Ignacio.
A new microsatellite locus (SAS1) for Squalius alburnoides was obtained through cloning by serendipity. The possible usefulness of this new species-specific microsatellite in genetic studies of this hybrid-species complex, was explored. The polymorphism exhibited by SAS1 microsatellite is an important addition to the set of microsatellites previously used in genetic studies in S. alburnoides complex, that mostly relied in markers described for other species. Moreover, the SAS1 microsatellite could be used to identify the parental genomes of the complex, complementing other methods recently described for the same purpose.
Tipo: Info:eu-repo/semantics/article Palavras-chave: Microsatellites; Hybridogenesis; Squalius alburnoides.
Ano: 2011 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572011000300025
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Africanization in the United States: Replacement of Feral European Honeybees (Apis mellifera L.) by an African Hybrid Swarm IPB - Escola Superior Agrária
Pinto, M. Alice; Rubink, William L.; Patton, John C.; Coulson, Robert N.; Johnston, J. Spencer.
The expansion of Africanized honeybees from South America to the southwestern United States in 50 years is considered one of the most spectacular biological invasions yet documented. In the American tropics, it has been shown that during their expansion Africanized honeybees have low levels of introgressed alleles from resident European populations. In the United States, it has been speculated, but not shown, that Africanized honeybees would hybridize extensively with European honeybees. Here we report a continuous 11-year study investigating temporal changes in the genetic structure of a feral population from the southern United States undergoing Africanization. Our microsatellite data showed that (1) the process of Africanization involved both maternal...
Tipo: Article Palavras-chave: Africanized honey bee; Hybridization; Assignment test; Gene flow; Microsatellites.
Ano: 2005 URL: http://hdl.handle.net/10198/2888
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Análisis de la variación infraespecífica de Vanilla insignis Ames bajo el enfoque de recursos genéticos. Colegio de Postgraduados
Hernández Silva, Néstor.
En la actualidad los efectos negativos de las interacciones bióticas y abióticas dentro del cultivo de Vanilla planifolia han devastado plantaciones de este recurso en todo el mundo. La generación de estrategias para su conservación y mejoramiento requiere del conocimiento de la variación que el género Vanilla alberga. Vanilla insignis es una especie silvestre genéticamente relacionada, con características agronómicas sobresalientes dentro del pool genético secundario de V. planifolia, particularmente en la resistencia a factores climáticos y patógenos. Por tal razón, se planteó conocer la variación infraespecífica de V. insignis por medio de la caracterización morfológica y molecular de poblaciones de V. insignis del estado de Quintana Roo, México. A...
Palavras-chave: Conservación; Mejoramiento; Labelo; Microsátelites; Morfotipo; Genotipo; Conservation; Improvement; Labellum; Microsatellites; Morphotype; Genotype; Estrategias para el Desarrollo Agrícola Regional; EDAR; Maestría.
Ano: 2014 URL: http://hdl.handle.net/10521/2230
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Analyse du succès reproducteurs chez des populations naturelles et d'écloserie d'huître plate Ostrea edulis L. ArchiMer
Lallias, Delphine.
Cette étude vise à approfondir la connaissance de la biologie de la reproduction de l'huître plate Ostrea edulis afin de mieux comprendre comment les caractéristiques de la biologie de reproduction de l'espèce peuvent rendre compte des phénomènes de déficits en hétérozygote et de relation positive entre hétérozygotie et croissance. En particulier, elle vise à analyser le succès reproducteur en milieu naturel et dans les populations maintenues en écloserie. Cette étude repose sur l'utilisation de marqueurs microsatellites qui, du fait de leur fort polymorphisme, représentent des outils puissants d'assignation de parenté. Une première partie de l'étude a consisté à analyser les pontes issues de femelles incubantes prélevées dans le milieu naturel. Le nombre...
Tipo: Text Palavras-chave: Ostrea edulis; Microsatellites; Biologie de la reproduction; Variance du succès reproducteur.
Ano: 2003 URL: http://archimer.ifremer.fr/doc/00370/48167/48281.pdf
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Aspectos bioecológicos e genético-comportamentais envolvidos na conservação da abelha Jandaíra, Melipona subnitida Ducke (Apidae, Meliponini), e o uso de ferramentas moleculares nos estudos de diversidade. Repositório Alice
SILVA, G. R. da; PEREIRA, F. de M.; SOUZA, B. de A.; LOPES, M. T. do R.; CAMPELO, J. E. G.; DINIZ, F. M..
A abelha sem ferrão Melipona subnitida atualmente está presente em quase toda a região nordeste, em função da boa adaptabilidade ao semiárido nordestino e do potencial econômico-ecológico proporcionado pela produção de mel e pela polinização de cultivos em condições de confinamento. Apesar disso, é uma espécie ameaçada devido a processos de degradação ambiental, dentre os quais estão o desmatamento, o uso indiscriminado de agrotóxicos e o extrativismo. Tais interferências tendem a isolar as populações de Jandaíra, provocando uma queda na variabilidade genética e, consequentemente, uma redução na capacidade adaptativa da espécie. Porém, técnicas de biologia molecular estão sendo implementadas, possibilitando que populações desse tipo sejam avaliadas quanto...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Abelha nativa; Microssatélite; Transferibilidade; Diversidade genética; Conservação; Native bees; Microsatellites; Transferability; Genetic diversity; Conservation.
Ano: 2014 URL: http://www.alice.cnptia.embrapa.br/handle/doc/1017704
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Caractérisation génétique de l’effort reproducteur de l’huître creuse, Crassostrea gigas, dans le cadre des mortalités estivales de juvéniles : Approch QTL ArchiMer
Flahauw, Emilie.
The Pacific oyster, Crassostrea gigas, is a major aquacultured species whose production represents an economic interest at worldwide, european and french levels. However, this species undergoes summer mortalities recorded from the beginning of the 20th century and, since 2008, this phenomenon increased and threatens mainly juvenile oysters. Aquaculture production of oysters suffers consequences of mass mortalities, that’s why this phenomenon has been studied for many years. In France, the bacterium Vibrio splendidus and the Ostreid virus Herpes Virus 1 (OsHV-1) are often associated with mass mortality outbreaks of juveniles oysters and it was demonstrated that selected individuals for resistance to summer mortality were able to slow the increasing in viral...
Tipo: Text Palavras-chave: Huître creuse du Pacifique; Crassostrea gigas; Mortalités estivales; Survie; Effort reproducteur; Imagerie par Résonance Magnétique; Histologie; Marqueurs microsatellites; Marqueurs SNP; Cartographie de liaison; Détection de QTL; Pacific oyster; Crassostrea gigas; Summer mortality; Survival; Reproductive effort; Magnetif Resonance Imaging; Histology; Microsatellites; SNPs; Linkage mapping; QTL detection.
Ano: 2013 URL: http://archimer.ifremer.fr/doc/00233/34377/33786.pdf
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Challenges and prospects of population genetic studies in terns (Charadriiformes, Aves) Genet. Mol. Biol.
Faria,Patrícia J.; Baus,Erika; Morgante,João S.; Bruford,Michael W..
Little information is available about the population structure of communally nesting terns (Sternidae) and skimmers (Rynchopidae) throughout the world. In order to fill this gap, a survey of molecular markers was carried out for six species of terns (Anous stolidus, Sterna hirundinacea, S. fuscata, S. superciliaris, Thalasseus maximus and Phaetusa simplex) and one species of skimmer (Rynchops niger). First, we describe the results of the construction of genomic DNA libraries and document problems encountered during this procedure. Secondly, we tested the cross-amplification of 18 microsatellite loci previously described for related species (the number of polymorphic loci ranged from three to seven). Thirdly, we tested the usefulness of mtDNA (control...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Molecular markers; Microsatellites; Mitochondrial DNA; Terns.
Ano: 2007 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572007000400029
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Characterization of 27 microsatellite loci in the European flat oyster Ostrea edulis ArchiMer
Lallias, Delphine; Stockdale, Ruth; Boudry, Pierre; Beaumont, Andy R.; Lapegue, Sylvie.
The flat oyster Ostrea edulis is native to Europe and populations have been severely depleted by the parasite Bonamia ostreae since the 1980s. Additional genetic markers are required to improve population genetics study and linkage map development for selection for B. ostrea-resistance in this species. Here, we characterized 27 novel microsatellite loci for O. edulis. Number of alleles per locus ranged from 6 to 25 and observed heterozygosity between 0.375 and 1. Null alleles were suggested at a few loci but most loci were in Hardy-Weinberg agreement enabling their reliable use in further population and mapping genetics approaches.
Tipo: Text Palavras-chave: Universal tailed primer labelling; Oysters; Ostrea edulis; Microsatellites.
Ano: 2009 URL: http://archimer.ifremer.fr/doc/2009/publication-6421.pdf
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Characterization of 27 microsatellite loci in the European flat oyster Ostrea edulis ArchiMer
Lallias, Delphine; Stockdale, Ruth; Boudry, Pierre; Beaumont, Andy R.; Lapegue, Sylvie.
The flat oyster Ostrea edulis is native to Europe and populations have been severely depleted by the parasite Bonamia ostreae since the 1980s. Additional genetic markers are required to improve population genetics study and linkage map development for selection for B. ostrea-resistance in this species. Here, we characterized 27 novel microsatellite loci for O. edulis. Number of alleles per locus ranged from 6 to 25 and observed heterozygosity between 0.375 and 1. Null alleles were suggested at a few loci but most loci were in Hardy-Weinberg agreement enabling their reliable use in further population and mapping genetics approaches.
Tipo: Text Palavras-chave: Universal tailed primer labelling; Oysters; Ostrea edulis; Microsatellites.
Ano: 2009 URL: http://archimer.ifremer.fr/doc/00341/45195/44592.pdf
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Characterization of Brazilian soybean cultivars using microsatellite markers Genet. Mol. Biol.
Priolli,Regina Helena Geribello; Mendes-Junior,Celso Teixeira; Arantes,Neylson Eustáquio; Contel,Eucleia Primo Betioli.
Microsatellite markers or SSR (Simple Sequence Repeats) have proved to be an excellent tool for cultivar identification, pedigree analysis and the evaluation of genetic distance among organisms. Soybean cultivars have been characterized mainly by morphological and biochemical traits. However, these traits have not been sufficient to characterize the large number of cultivars eligible to receive protection under the Brazilian Cultivar Protection Act. In order to define new soybean cultivar markers, the alleles of twelve SSR loci of 186 Brazilian soybean cultivars were studied by estimating the variation in their size range and their respective frequencies. On average, 5.3 alleles per locus were detected, with a mean genetic diversity of 0.64 ± 0.12. These...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Glycine max (L.) Merrill; Simple sequence repeat; Microsatellites; Molecular markers; Soybean elite cultivars.
Ano: 2002 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572002000200012
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Characterization of mandarin citrus germplasm from Southern Brazil by morphological and molecular analyses. Repositório Alice
KOEHLER-SANTOS, P.; DORNELLES, A.L.C.; FREITAS, L.B. de..
The objective of this work was to characterize mandarin (Citrus spp.) germplasm from Southern Brazil by morphological and molecular analyses. Thirty seven cultivars from 34 distinct mandarin varieties were evaluated by morphological and agronomic traits of leaves, flowers and fruits, and by microsatellite markers. The morphological and agronomic characteristics suggested that almost all varieties can be produced for commercial use, and some, as the Satsuma variety, are recommended for breeding programs. Pooled DNA samples from 1-5 plants belonging to each cultivar were tested. Eight of the nine primers detected polymorphisms. Specific markers were found for some accessions. The dendrogram constructed with the morphological results divided the 37 cultivars...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Citrus; Genetic variation; Microsatellites; Breeding methods; Citros; Variação genética; Microsatélites; Método de melhoramento.
Ano: 2003 URL: http://www.alice.cnptia.embrapa.br/handle/doc/89211
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Characterization of mandarin citrus germplasm from Southern Brazil by morphological and molecular analyses PAB
Koehler-Santos,Patrícia; Dornelles,Ana Lúcia Cunha; Freitas,Loreta Brandão de.
The objective of this work was to characterize mandarin (Citrus spp.) germplasm from Southern Brazil by morphological and molecular analyses. Thirty seven cultivars from 34 distinct mandarin varieties were evaluated by morphological and agronomic traits of leaves, flowers and fruits, and by microsatellite markers. The morphological and agronomic characteristics suggested that almost all varieties can be produced for commercial use, and some, as the Satsuma variety, are recommended for breeding programs. Pooled DNA samples from 1-5 plants belonging to each cultivar were tested. Eight of the nine primers detected polymorphisms. Specific markers were found for some accessions. The dendrogram constructed with the morphological results divided the 37 cultivars...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Citrus; Genetic variation; Microsatellites; Breeding methods.
Ano: 2003 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-204X2003000700003
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Characterization of ten microsatellite loci in the blue mussel Mytilus edulis ArchiMer
Lallias, Delphine; Stockdale, Ruth; Boudry, Pierre; Lapegue, Sylvie; Beaumont, Andy R..
Mussels of the genus Mytilus are ecologically and commercially important worldwide, and they form hybrid complexes where their distributions overlap. Allozyme and nuclear markers have bee It Used to investigate their genetics over many years, but successful development of reliable highly valuable microsatellite markers has lagged be hind other shellfish species. We have developed and characterized tell novel microsatellite loci that amplify reliably for the blue mussel Mytilus edulis. The number of alleles among 30 individuals from a wild population (Menai Strait, North Wales UK) ranged between 9 and 29 and the observed heterozygosity between 0.300 and 0.954. Significant heterozygote deficiencies against the Hardy-Weinberg model were observed at 6 out of...
Tipo: Text Palavras-chave: Mytilus edulis; Microsatellites; Universal tailed-primer labeling; Null alleles; Mussels.
Ano: 2009 URL: http://archimer.ifremer.fr/doc/00002/11275/7841.pdf
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Characterization of the complete mitochondrial genome and a set of polymorphic microsatellite markers through next-generation sequencing for the brown brocket deer Mazama gouazoubira Genet. Mol. Biol.
Caparroz,Renato; Mantellatto,Aline M.B.; Bertioli,David J.; Figueiredo,Marina G.; Duarte,José Maurício B..
The complete mitochondrial genome of the brown brocket deer Mazama gouazoubira and a set of polymorphic microsatellite markers were identified by 454-pyrosequencing. De novo genome assembly recovered 98% of the mitochondrial genome with a mean coverage of 9-fold. The mitogenome consisted of 16,356 base pairs that included 13 protein-coding genes, two ribosomal subunit genes, 22 transfer RNAs and the control region, as found in other deer. The genetic divergence between the mitogenome described here and a previously published report was ∼0.5%, with the control region and ND5 gene showing the highest intraspecific variation. Seven polymorphic loci were characterized using 15 unrelated individuals; there was moderate genetic variation across most loci (mean...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Conservation; Microsatellites; Mitogenome; Population genetics; 454-pyrosequencing.
Ano: 2015 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572015000300338
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Comparative analysis of genetic diversity among the maize inbred lines (Zea mays L.) obtained by RAPD and SSR markers BABT
Souza,Silvia Graciele Hülse de; Carpentieri-Pípolo,Valéria; Ruas,Claudete de Fátima; Carvalho,Valdemar de Paula; Ruas,Paulo Maurício; Gerage,Antônio Carlos.
The RAPD and SSR markers were used to compare the genetic diversity among the 16 maize inbred lines. Twenty-two primers were used in the RAPD reactions, resulting in the amplification of 265 fragments, while 16 pairs of SSR primers resulted in 75 fragments. The similarity based on Dice coefficient for the RAPD ranged from 53 to 84% and for the SSR from 11 to 82%. The dendrogram obtained by the RAPD showed five groups, while dendrogram obtained by the SSR showed three groups and one isolated line. The association constructed from the markers and the principal coordinate’s analysis separated lines into two groups according to endosperm color, either orange or yellow. The RAPD were effective to validate pedigree data, while the SSR were effective to recognize...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Corn; Distance genetic; Microsatellites; Molecular markers; Polymorphism; RAPD.
Ano: 2008 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-89132008000100022
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Comparative genetic structure in pines: evolutionary and conservation consequences RChHN
DELGADO,PATRICIA; CUENCA,ARGELIA; ESCALANTE,ANA E.; MOLINA-FREANER,FRANCISCO; PIÑERO,DANIEL.
Pines have been the focus of several studies that estimate population genetic parameters using both allozymes and chloroplast single sequence repeats (SSRs). Also, the genus has also been recently studied using molecular systematics so that we now have a more clear understanding of their evolutionary history. With this background we studied comparatively the genetic structure in pines. Expected heterozygosity is particularly constant with a 99 % confidence interval between 0.19 and 0.23 in species that have been studied until now using allozymes. There is a significant proportion of species (9/41) that show high population differentiation estimates (Fst = or larger than 0.15) and five of these have large and wingless seeds probably associated with low...
Tipo: Journal article Palavras-chave: Pinus; Genetic structure; Outcrossing rates; Microsatellites; Allozymes.
Ano: 2002 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-078X2002000100004
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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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