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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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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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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 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 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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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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Detecting past changes of effective population size ArchiMer
Nikolic, Natacha; Chevalet, Claude.
Understanding and predicting population abundance is a major challenge confronting scientists. Several genetic models have been developed using microsatellite markers to estimate the present and ancestral effective population sizes. However, to get an overview on the evolution of population requires that past fluctuation of population size be traceable. To address the question, we developed a new model estimating the past changes of effective population size from microsatellite by resolving coalescence theory and using approximate likelihoods in a Monte Carlo Markov Chain approach. The efficiency of the model and its sensitivity to gene flow and to assumptions on the mutational process were checked using simulated data and analysis. The model was found...
Tipo: Text Palavras-chave: Atlantic salmon; Effective population size; Microsatellites; Past demography.
Ano: 2014 URL: http://archimer.ifremer.fr/doc/00194/30565/28986.pdf
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Detection and description of a particular Ostreid herpesvirus 1 genotype associated with massive mortality outbreaks of Pacific oysters, Crassostrea gigas, in France in 2008 ArchiMer
Segarra, Amelie; Pepin, Jean-francois; Arzul, Isabelle; Morga, Benjamin; Faury, Nicole; Renault, Tristan.
Ostreid herpesvirus 1 (OsHV-1) infections have been reported around the world and are associated with high mortalities of the Pacific oyster (Crassostrea gigas). In the summer 2008, abnormal mortality rates ranging from 80% to 100% were reported in France and affected only Pacific oysters. Analyses of oyster samples collected during mortality outbreaks demonstrated a significant detection of OsHV-1 (75% of analysed batches), which appeared stronger than previous years. DNA sequencing based on C and IA regions was carried out on 28 batches of OsHV-1 infected Pacific oysters collected in 2008. Polymorphisms were described in both the C and IA regions and characterized a genotype of OsHV-1 not already reported and termed OsHV-1 μVar. A microsatellite zone...
Tipo: Text Palavras-chave: Herpes virus; Oyster; Crassostrea gigas; OsHV-1 mu Var; Increased mortality; Microsatellites.
Ano: 2010 URL: http://archimer.ifremer.fr/doc/00011/12260/9035.pdf
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Development of herbicide-tolerant irrigated rice cultivars. Repositório Alice
RANGEL, P. H. N.; MOURA NETO, F. P.; FAGUNDES, P. R. R.; MAGALHAES JUNIOR, A. M. de; MORAIS, O. P. de; SCHMIDT, A. B.; MENDONCA, J. A.; SANTIAGO, C. M.; RANGEL, P. N.; CUTRIM, V. dos A.; FERREIRA, M. E..
Abstract ? The objective of this work was to develop new irrigated rice lines tolerant to imidazolinone herbicides. The backcross breeding procedure was used to transfer the imidazolinone tolerance allele from mutant 93AS3510 to the recurrent parents 'BRS 7 Taim' and 'BRS Pelota'. Individual herbicide-tolerant plants were selected in each generation, for three backcrossings (RC1 to RC3), followed by three selfing generations (RC3F1 to RC3F3). The best four RC3F3 lines for agronomic traits were genotyped with 44 microsatellite markers. The observed conversion index of the new imidazolinone-tolerant lines varied from 91.86 to 97.67%. Pairwise genetic distance analysis between these lines and 22 accessions from the Embrapa's Rice Germplasm Bank clustered the...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Clearfield rice; Oryza sativa; Backcrossing; Microsatellites; Red rice.
Ano: 2010 URL: http://www.alice.cnptia.embrapa.br/handle/doc/864305
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Development of microsatellite markers for Carapa guianensis (Aublet), a tree species from the Amazon forest. Repositório Alice
VINSON, C. C.; AZEVEDO, V. C. R.; SAMPAIO, I.; CIAMPI, A. Y..
bitstream/item/178080/1/ID-27807-1.pdf
Tipo: Nota Técnica/Nota Científica (ALICE) Palavras-chave: Amazon; Microsatellites; Tropical tree; Microsatélite; Árvore tropical; Andiroba; Carapa Guianensis; Amazonia.
Ano: 2005 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/188246
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Development of novel simple sequence repeat markers from a genomic sequence survey database and their application for diversity assessment in Jatropha curcas germplasm from Guatemala. Repositório Alice
RAPOSO, R. S.; SOUZA, I. G. B.; VELOSO, M. E. da C.; KOBAYASHI, A. K.; LAVIOLA, B. G.; DINIZ, F. M..
The last few years have seen a significant increase in the number of large-scale sequencing projects generating whole genome databases. These sequence databases can be surveyed (genome sequence survey) for tandem repeats as an alternative means to develop microsatellites for monitoring and selecting natural populations and cultivars of Jatropha curcas. A total of 100 tandem repeats were revealed from mining 368 genomic surveyed sequences available in the Kazusa DNA Research Institute database. Twenty microsatellite sequences were successfully amplified, resulting in repeatable and scorable polymerase chain reaction products. Genotyping of J. curcas accessions from the Guatemalan population revealed 18 polymorphic loci. The average number of alleles per...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Microssatélite; Cultura energética; Planta oleaginosa; Pinhão de purga; Biocombustível; Microsatellites; Energy crop; Physic nut; Biofuel; Genetic diversity; Euphorbiaceae.
Ano: 2014 URL: http://www.alice.cnptia.embrapa.br/handle/doc/1017730
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Development of trinucleotide (GGC)n SSR markers in peanut (Arachis hypogaea L.) Electron. J. Biotechnol.
Yuan,Mei; Gong,Limin; Meng,Ronghua; Li,Shuangling; Dang,Phat; Guo,Baozhu; He,Guohao.
Cultivated peanut (Arachis hypogaea L.) is an oilseed crop of economic importance. It is native to South America, and it is grown extensively in the semi-arid tropics of Asia, Africa, and Latin America. Given an extremely narrow genetic base, efforts are being made to develop simple sequence repeat (SSR) markers to provide useful genetic and genomic tools for the peanut research community. A SSR-enriched library to isolate trinucleotide (GGC)n SSRs in peanut was constructed. A total of 143 unique sequences containing (GGC)n repeats were identified. One hundred thirty eight primer pairs were successfully designed at the flanking regions of SSRs. A suitable polymerase was chosen to amplify these GC-rich sequences. Although a low level of polymorphism was...
Tipo: Journal article Palavras-chave: Cultivated peanut; Microsatellites; Polymorphism; Simple sequence repeat.
Ano: 2010 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582010000600005
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Différenciation génétique de deux huîtres creuses Crassostrea gigas et Crassostrea angulata : apport des marqueurs microsatellites ArchiMer
Huvet, Arnaud.
Les définitions taxonomiques de Crassostrea angulata et Crassostrea gigas font l'objet de controverses. Les similitudes morphologiques et physiologiques ainsi que l'homogénéité des fréquences allozymiques entre populations des deux taxons orientent les auteurs vers un regroupement au sein d'une seule espèce. Récemment, une étude basée sur l'analyse par RFLP de l'ADN mitochondrial a révélé des différences permettant de distinguer C. angulata et C. gigas. La caractérisation par 4 marqueurs microsatellites de 12 populations des 2 taxons révèlent les points suivants : des déficits en hétérozygotes sont observés dans l'ensemble des populations, l'analyse de la variabilité inter-populations montre l'existence d'une structuration, l'analyse des distances...
Tipo: Text Palavras-chave: Crassostrea gigas; Crassostrea angulata; Microsatellites; Différenciation.
Ano: 1997 URL: http://archimer.ifremer.fr/doc/00033/14377/11667.pdf
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