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A lima bean core collection based on molecular markers Scientia Agricola
Gomes,Regina Lucia Ferreira; Costa,Marcones Ferreira; Alves-Pereira,Alessandro; Bajay,Miklos Maximiliano; Viana,João Paulo Gomes; Valente,Sérgio Emílio dos Santos; Lopes,Ângela Celis de Almeida; Zucchi,Maria Imaculada; Pinheiro,José Baldin.
ABSTRACT Some germplasm collections have a high number of accessions, which makes it difficult to explore the genetic variability present in the germplasm bank due to the redundancy and the difficulty of detailed analysis of all conserved accessions. Therefore, our study aimed to analyze the genetic diversity of 153 lima bean (Phaseolus lunatus) accessions for the purpose of constructing a core collection. Eleven SSRs were used for this purpose. The 153 lima bean accessions can be represented by low redundancy using a minimum of 34 accessions, thus representing 22 % of the size of the entire germplasm bank. The core collection had a higher Shannon diversity index and expected heterozygosity (1.906 and 0.811, respectively) than those presented by the entire...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Germplasm; Genetic diversity; Genetic structure; Microsatellite markers.
Ano: 2020 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0103-90162020000201100
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A microsatellite library for Carica papaya L. cv. Sunrise solo Rev. Bras. Frutic.
Santos,Silvia Correa; Ruggiero,Carlos; Silva,Cristina Lacerda Soares Petrarolha; Lemos,Eliana Gertrudes Macedo.
In experimental areas of the Education and Researches Ilha Solteira and Jaboticabal UNESP/Campus farms were selected and tagged 20 hermaphrodite plants and 20 feminine of cultivar Sunrise Solo, Improved Sunrise Solo cv.72/12 and Baixinho of Santa Amália.The seeds origined of the selected fruits were cropped to be analysed the self-pollination efficiency and frequency of the sex in the progenies. After that, samples of the young leaf of the matrix plants were colected for the extration of the DNA. It was built five library enriched of microsatellite sequencies, using probes (TCA)10, (TC)13, (GATA)4, (CAC)10 e (TGAG)8.It was possible the development of the primers only in the library that has utilized the probe (TCA)10. This probe allowed the design of 32...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Carica papaya; Sex; Microsatellite markers; Library.
Ano: 2003 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-29452003000200020
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A NEW WORLD MONKEY MICROSATELLITE (AP74) HIGHLY CONSERVED IN PRIMATES Acta biol.Colomb.
OKLANDER,LUCIANA INÉS; STEINBERG3,ELIANA RUTH; DOLORES MUDRY,MARTA.
Given their great variability, microsatellites or STRs became the most commonly used genetic markers over the last 15 years. The analysis of these markers requires minimum quantities of DNA, allowing the use of non invasive samples, such as feces or hair. We amplified the microsatellite Ap74 in blood and hair samples in order to analyze the levels of genomic conservation among a wide range of primates including: Lemur catta, Alouatta caraya, Ateles belzebuth, Ateles chamek, Pan troglodytes, Papio sp., and Homo sapiens. In all cases we obtained amplification products that exhibited similar size both in monkeys and human (oscillating between 126 and 176 bp), except in the lemur where the detected fragment presented a size of approximately 1000 bp. The...
Tipo: Journal article Palavras-chave: Primates; Microsatellite markers; PCR amplification; Non-invasive sampling; Genomic conservation; Genetic variability.
Ano: 2012 URL: http://www.scielo.org.co/scielo.php?script=sci_arttext&pid=S0120-548X2012000100007
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Analysis of the association between spawning time QTL markers and the biannual spawning behavior in rainbow trout (Oncorhynchus mykiss) Genet. Mol. Biol.
Colihueque,Nelson; Cárdenas,Rosy; Ramírez,Lorena; Estay,Francisco; Araneda,Cristian.
The rainbow trout is a salmonid fish that occasionally exhibits broodstocks with biannual spawning behavior, a phenomenon known as a double annual reproductive cycle (DARC). Spawning time quantitative trait loci (SPT-QTLs) affect the time of the year that female rainbow trout spawn and may influence expression of the DARC trait. In this study, microsatellite markers linked and unlinked to SPT-QTLs were genotyped to investigate the underlying genetics of this trait. SPT-QTLs influenced the DARC trait since in two case-control comparisons three linked markers (OmyFGT12TUF, One3ASC and One19ASC) had significant levels of allelic frequency differentiation and marker-character association. Furthermore, alleles of One3ASC and One19ASC had significantly higher...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Association analysis; Biannual spawning; Microsatellite markers; Rainbow trout.
Ano: 2010 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572010000300032
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Assessment of EST-SSR markers for genetic analisys on coffee Bragantia
Missio,Robson Fernando; Caixeta,Eveline Teixeira; Zambolim,Eunize Maciel; Pena,Guilherme Ferreira; Ribeiro,Ana Paula; Zambolim,Laércio; Pereira,Antônio Alves; Sakiyama,Ney Sussumu.
EST-SSR markers were used to investigate the genetic diversity among and within coffee populations, to explore the possibility of their use for fingerprinting of cultivars and to assist breeding programs. Seventeen markers, developed from ESTs (Expressed Sequence Tags) from the Brazilian Coffee Genome Project, were used. All markers showed polymorphism among the genotypes assessed. The average number of allele per primer was 5.1. The highest polymorphisms were found within C. canephora (88.2%) and rust-resistant varieties (35.3%). About 29.4% of the markers differentiated C. arabica from Híbrido de Timor; it was also possible to identify those closest and farthest from C. arabica . The analysis of population-grouped genotypes revealed a 64.0% genetic...
Tipo: Info:eu-repo/semantics/article Palavras-chave: DNA markers; Coffea sp.; UPGMA; Amova; Microsatellite markers.
Ano: 2009 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0006-87052009000300003
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Assessment of est-ssr markers for genetic analysis on coffee. Repositório Alice
MISSIO, R. F.; CAIXETA, E. T.; ZAMBOIM, E. M.; PENA, G. F.; RIBEIRO, A. P.; ZAMBOLIM, L.; PEREIRA, A. A.; SAKIYAMA, N. S..
2009
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: DNA markers; Coffea sp; UPGMA; AMOVA; Microsatellite markers.
Ano: 2009 URL: http://www.alice.cnptia.embrapa.br/handle/doc/880408
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Assessment of genetic diversity in Brazilian barley using SSR markers. Repositório Alice
FERREIRA, J. R.; PEREIRA, J. F.; TURCHETTO, C.; MINELLA, E.; CONSOLI, L.; DELATORRE, C. A..
2016
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Domesticated barley; Genetic diversity; Hordeum vulgare ssp vulgare; Hordeum vulgare ssp spontaneum; Microsatellite markers; Cevada; Marcador molecular.
Ano: 2016 URL: http://www.alice.cnptia.embrapa.br/handle/doc/1042255
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Assessment of genetic diversity in Brazilian barley using SSR markers Genet. Mol. Biol.
Ferreira,Jéssica Rosset; Pereira,Jorge Fernando; Turchetto,Caroline; Minella,Euclydes; Consoli,Luciano; Delatorre,Carla Andréa.
Abstract Barley is a major cereal grown widely and used in several food products, beverage production and animal fodder. Genetic diversity is a key component in breeding programs. We have analyzed the genetic diversity of barley accessions using microsatellite markers. The accessions were composed of wild and domesticated barley representing genotypes from six countries and three breeding programs in Brazil. A total of 280 alleles were detected, 36 unique to Brazilian barley. The marker Bmag120 showed the greatest polymorphism information content (PIC), with the highest mean value found on chromosome three, and the lowest on chromosomes four and six. The wild accessions presented the highest diversity followed by the foreign genotypes. Genetic analysis was...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Domesticated barley; Genetic diversity; Hordeum vulgare ssp. vulgare; Hordeum vulgare ssp. spontaneum; Microsatellite markers.
Ano: 2016 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572016000100086
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Bayesian analysis of the genetic structure of a Brazilian popcorn germplasm using data from simple sequence repeats (SSR) Chilean J. Agric. Res.
Saavedra,Javier; Silva,Tereza Aparecida; Mora,Freddy; Scapim,Carlos Alberto.
Several studies have confirmed that popcorn (Zea mays L. var. everta) has a narrow genetic basis, which affects the quality of breeding programs. In this study, we present a genetic characterization of 420 individuals representing 28 popcorn populations from Brazilian germplasm banks. All individuals were genotyped using 11 microsatellite markers from the Maize Genetics and Genomics Database. A Bayesian clustering approach via Monte Carlo Markov chains was performed to examine the genetic differentiation (Fst values) among different clusters. The results indicate the existence of three distinct and strongly differentiated genetic groups (K = 3). Moreover, the Fst values (calculated among clusters) were significantly different according to Bayesian credible...
Tipo: Journal article Palavras-chave: Genetic differentiation; Microsatellite markers; Bayesian clustering; Monte Carlo Markov chains.
Ano: 2013 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0718-58392013000200003
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Characterization of 13 microsatellite loci developed from Meconopsis horridula Genet. Mol. Biol.
Zhao,Yu; Zhang,Shi-Bao; Yang,Jing; Zhang,Lu.
Meconopsis horridula is one of the eight most famous flowers in Chinese province of Yunnan. In this study, a modified biotin-streptavidin capture method was used to detect 13 microsatellite markers in the genome of M. horridula. The polymorphism of each locus was assessed in 24 samples collected from four populations. The number of alleles per locus ranged from 2 to 7 (mean: 3.2). The observed and expected heterozygosities ranged from 0.0833 to 0.9167 and 0.0816 to 0.8050, respectively. Additionally, nine of the 13 microsatellite markers were successfully amplified in three other congeneric species. These polymorphic SSR markers could be useful for studying the population genetics of M. horridula and for assessing genetic variation in this and congenerc...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Genetic structure; Heterozygosity; Meconopsis horridula; Microsatellite markers; Polymorphism.
Ano: 2010 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572010000300026
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Chromosomal locations of the maize (Zea mays L.) HtP and rt genes that confer resistance to Exserohilum turcicum Genet. Mol. Biol.
Ogliari,Juliana Bernardi; Guimarães,Marco Antônio; Camargo,Luis Eduardo Aranha.
We used 125 microsatellite markers to genotype the maize (Zea mays L.) near isogenic lines (NIL) L30HtPHtPRtRt and L30htphtpRtRt and the L40htphtprtrt line which contrast regarding the presence of the recently described dominant HtP and the recessive rt genes that confer resistance to Exserohilum turcicum. Five microsatellite markers revealed polymorphisms between the NIL and were considered candidate linked markers for the HtP resistance gene. Linkage was confirmed by bulked segregant sample (BSS) analysis of 32 susceptible and 34 resistant plants from a BC1F1 population derived from the cross (L30HtPHtPRtRt x L40htphtprtrt) x L40htphtprtrt. The bnlg198 and dupssr25 markers, both located on maize chromosome 2L (bin 2.08), were polymorphic between bulks....
Tipo: Info:eu-repo/semantics/other Palavras-chave: Bulked segregant sample analysis; Microsatellite markers; Maize; Near-isogenic lines; Northern leaf blight.
Ano: 2007 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572007000400021
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Combined association of Presenilin-1 and Apolipoprotein E polymorphisms with maternal meiosis II error in Down syndrome births Genet. Mol. Biol.
Bhaumik,Pranami; Ghosh,Priyanka; Ghosh,Sujay; Feingold,Eleanor; Ozbek,Umut; Sarkar,Biswanath; Dey,Subrata Kumar.
Abstract Alzheimer's disease and Down syndrome often exhibit close association and predictively share common genetic risk-factors. Presenilin-1 (PSEN-1) and Apolipoprotein E (APOE) genes are associated with early and late onset of Alzheimer's disease, respectively. Presenilin −1 is involved in faithful chromosomal segregation. A higher frequency of the APOE ε4 allele has been reported among young mothers giving birth to Down syndrome children. In this study, 170 Down syndrome patients, grouped according to maternal meiotic stage of nondisjunction and maternal age at conception, and their parents were genotyped for PSEN-1 intron-8 and APOE polymorphisms. The control group consisted of 186 mothers of karyotypically normal children. The frequencies of the...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Chromosome; Genetic polymorphism; Karyotype; Meiosis; Microsatellite markers.
Ano: 2017 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000400577
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Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing Genet. Mol. Biol.
Vianna,Juliana A.; Noll,Daly; Mura-Jornet,Isidora; Valenzuela-Guerra,Paulina; González-Acuña,Daniel; Navarro,Cristell; Loyola,David E.; Dantas,Gisele P. M..
Abstract Microsatellites are valuable molecular markers for evolutionary and ecological studies. Next generation sequencing is responsible for the increasing number of microsatellites for non-model species. Penguins of the Pygoscelis genus are comprised of three species: Adélie (P. adeliae), Chinstrap (P. antarcticus) and Gentoo penguin (P. papua), all distributed around Antarctica and the sub-Antarctic. The species have been affected differently by climate change, and the use of microsatellite markers will be crucial to monitor population dynamics. We characterized a large set of genome-wide microsatellites and evaluated polymorphisms in all three species. SOLiD reads were generated from the libraries of each species, identifying a large amount of...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Microsatellite markers; Penguin; Genome; Polymorphism; Tetranucleotide.
Ano: 2017 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000400676
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Comparison of multiallelic distances for the quantification of genetic diversity in the papaya - doi: 10.4025/actasciagron.v33i1.11698 Agronomy
Ramos, Helaine Christine Cancela; Universidade Estadual do Norte Fluminense; Pereira, Messias Gonzaga; Universidade Estadual do Norte Fluminense Darcy Ribeiro; Gonçalves, Leandro Simões Azeredo; Universidade Estadual do Norte Fluminense; Amaral Júnior, Antonio Teixeira do; Universidade Estadual do Norte Fluminense; Scapim, Carlos Alberto; Universidade Estadual de Maringá.
This study aimed to compare multiallelic distances to quantify genetic diversity in papaya. We evaluated forty-three individuals in the S2 generation, from the backcross between F1 (Cariflora x SS783) and Cariflora, and four accessions from the UENF/Caliman Germplasm Bank. Genetic distances used were Smouse and Peakall (1999), Kosman and Leonard (2005) and weighted index. Clustering among genotypes was performed using the hierarchical unweighted pair-group method with arithmetic mean analysis (UPGMA) and projection of the distance on the bidimensional plan. A high correlation between genetic distances was observed; however, through UPGMA group analysis, the distance determined by the weighted index provided the complete separation of 52BC1S2-08, 52BC1S2-29...
Palavras-chave: Carica papaya L.; Microsatellite markers; Cultivar characterization; Cluster analysis Carica papaya L.; Microsatellite markers; Cultivar characterization; Cluster analysis.
Ano: 2011 URL: http://periodicos.uem.br/ojs/index.php/ActaSciAgron/article/view/11698
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Determination of genetic variability of traditional varieties of Brazilian rice using microsatellite markers. Repositório Alice
BRONDANI, C.; BORBA, T. C. O.; RANGEL, P. H. N.; BRONDANI, R. P. V..
The rice (Oryza sativa) breeding program of the Rice and Bean research center of the Brazilian agricultural company Empresa Brasileira de Pesquisa Agropecuária (Embrapa) is well established and provides new cultivars every year to attend the demand for improved high yielding varieties with tolerance to biotic and abiotic stresses. However, the elite genitors used to compose new populations for selection are closely related, contributing to the yield plateau reached in the last 20 years. To overcome this limit, it is necessary to broaden the genetic basis of the cultivars using diverse germplasm such as wild relatives or traditional varieties, with the latter being more practical because they are more easily crossed with elite germplasm to accelerate the...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Arroz; Oryza sativa; Rice; Recurso genético; Microsatellite markers; Brasil.
Ano: 2006 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/214434
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Determination of genetic variability of traditional varieties of Brazilian rice using microsatellite markers Genet. Mol. Biol.
Brondani,Claudio; Borba,Tereza Cristina Oliveira; Rangel,Paulo Hideo Nakano; Brondani,Rosana Pereira Vianello.
The rice (Oryza sativa) breeding program of the Rice and Bean research center of the Brazilian agricultural company Empresa Brasileira de Pesquisa Agropecuária (Embrapa) is well established and provides new cultivars every year to attend the demand for improved high yielding varieties with tolerance to biotic and abiotic stresses. However, the elite genitors used to compose new populations for selection are closely related, contributing to the yield plateau reached in the last 20 years. To overcome this limit, it is necessary to broaden the genetic basis of the cultivars using diverse germplasm such as wild relatives or traditional varieties, with the latter being more practical because they are more easily crossed with elite germplasm to accelerate the...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Brazil; Genetic resources; Microsatellite markers; Oryza sativa.
Ano: 2006 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572006000400017
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Development, characterization and use of genomic SSR markers for assessment of genetic diversity in some Saudi date palm (Phoenix dactylifera L.) cultivars Electron. J. Biotechnol.
Al-Faifi,Sulieman A; Migdadi,Hussein M; Algamdi,Salem S; Altaf Khan,Mohammad; Ammar,Megahed H; Al-Obeed,Rashid S; I. Al-Thamra,Mohammad; EL-Harty,Ehab H; Jakse,Jerenj.
Background: The present study was undertaken towards the development of SSR markers and assessing genetic relationships among 32 date palm (Phoenix dactylifera L.) representing common cultivars grown in different geographical regions in Saudi Arabia. Results: Ninety-three novel simple sequence repeat markers were developed and screened for their ability to detect polymorphism in date palm. Around 71% of genomic SSRs were dinucleotide, 25% tri, 3% tetra and 1% penta nucleotide motives. Twenty-two primers generated a total of 91 alleles with a mean of 4.14 alleles per locus and 100% polymorphism percentage. A 0.595 average polymorphic information content and 0.662 primer discrimination power values were recorded. The expected and observed heterozygosities...
Tipo: Journal article Palavras-chave: Expected and observed heterozygosity; Microsatellite markers; Polymorphic information content; Polymorphism; Primer discrimination power.
Ano: 2016 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582016000300002
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Development of rice lines with gene introgression from the wild Oryza glumaepatula by the AB-QTL methodology. Repositório Alice
RANGEL, P. H. N.; BRONDANI, C.; RANGEL, P. N.; BRONDANI, R. P. V.; ZIMMERMANN, F. J. P..
Wild rice of the species Oryza glumaepatula is found Brazil and has been used to broaden the genetic basis of irrigated rice populations in Embrapa breeding programmes. The objective of this study was to demonstrate and discuss approaches used in the development of Oryza sativa lines containing genes transferred from Oryza glumaepatula, resulting in introgression lines with a broader genetic basis and high yield. First of all, genes were transferred from the wild species to cultivated rice by the AB-QTL methodology. Eighteen families were selected using QTL analysis and agronomical performance data. After the heterosis test, the families CNAi 9020 and CNAi 9024 were selected and submitted to microsatellite marker-assisted selection. Thirty-five lines were...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Arroz irrigado; Marcadores microssatélites; Linhagens; Produtividade de grãos; Irrigated rice; Microsatellite markers; Lines; Grain yield; Oryza sativa.
Ano: 2005 URL: http://www.alice.cnptia.embrapa.br/handle/doc/213573
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Diversidade genética de populações de andiroba no Baixo Acre Repositório Alice
RAPOSO, A.; MARTINS, K.; CIAMPI, A.Y.; WADT, L.H. de O.; VEASEY, E.A..
O objetivo deste trabalho foi avaliar a diversidade genética em duas populações de Carapa guianensis Aubl. (andiroba), no Estado do Acre, e comparar os parâmetros de diversidade com os observados em outras populações da espécie (no Brasil: Flona Tapajós, PA, Porto Acre, AC; e na Costa Rica). Foram avaliados 77 indivíduos adultos com sete locos polimórficos de microssatélites. Observaram-se 51 alelos nas duas populações, em que o número efetivo de alelos por loco (A^ e = 3,2) foi inferior ao número médio de alelos por loco (A^ = 7,3), o que indica elevado número de alelos com baixa freqüência. Os valores estimados de f^ não diferiram de zero, o que mostra que não ocorre endogamia nas populações. A taxa de cruzamento aparente foi alta (t^a = 1,11 na...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Carapa guianensis; Marcadores microssatélites; Tamanho efetivo populacional; Conservação de recursos genéticos; Alelos raros; Fluxo gênico; Microsatellite markers; Effective population size; Genetic resources conservation; Rare alleles; Gene flow.
Ano: 2007 URL: http://www.alice.cnptia.embrapa.br/handle/doc/122809
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Diversity and genetic structure of mangaba remnants in states of northeastern Brazil. Repositório Alice
AMORIM, J. A. E.; MATA, L. R.; LEDO, A. S.; AZEVEDO, V. C. R.; SILVA, A. V. C..
2015
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Genetic variability; Hancornia speciosa; Microsatellite markers; Species preservation.
Ano: 2015 URL: http://www.alice.cnptia.embrapa.br/handle/doc/1033213
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