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A biologia avançada e o impacto da genômica na produção de caprinos e ovinos. Infoteca-e
SIDER, L. H.; ZAROS, L. G..
bitstream/CNPC-2010/21844/1/doc78.pdf
Tipo: Documentos (INFOTECA-E) Palavras-chave: Genômica; Caprino; Ovino; Biologia molecular; Goats; Sheep; Molecular biology; Genomics.
Ano: 2008 URL: http://www.infoteca.cnptia.embrapa.br/infoteca/handle/doc/534121
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A conceptual and practical overview of cDNA microarray technology: implications for basic and clinical sciences BJMBR
Mello-Coelho,V. de; Hess,K.L..
cDNA microarray is an innovative technology that facilitates the analysis of the expression of thousands of genes simultaneously. The utilization of this methodology, which is rapidly evolving, requires a combination of expertise from the biological, mathematical and statistical sciences. In this review, we attempt to provide an overview of the principles of cDNA microarray technology, the practical concerns of the analytical processing of the data obtained, the correlation of this methodology with other data analysis methods such as immunohistochemistry in tissue microarrays, and the cDNA microarray application in distinct areas of the basic and clinical sciences.
Tipo: Info:eu-repo/semantics/article Palavras-chave: Biotechnology; CDNA microarray; Gene expression; Genomics.
Ano: 2005 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-879X2005001000011
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A study of the distribution of phylogenetically conserved blocks within clusters of mammalian homeobox genes Genet. Mol. Biol.
Stojanovic,Nikola.
Genome sequencing efforts of the last decade have produced a large amount of data, which has enabled whole-genome comparative analyses in order to locate potentially functional elements and study the overall patterns of phylogenetic conservation. In this paper we present a statistically based method for the characterization of these patterns in mammalian DNA sequences. We have applied this approach to the study of exceptionally well conserved homeobox gene clusters (Hox), based on an alignment of six species, and we have constructed a map of Hox cataloguing the conserved fragments, along with their locations in relation to the genes and other landmarks, sometimes showing unexpected layouts.
Tipo: Info:eu-repo/semantics/article Palavras-chave: Genomics; Phylogenetic conservation; Multiple sequence alignments; Heaviest segments; Hox.
Ano: 2009 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572009000300034
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A system for management and analysis of rice genomics data for candidate gene discovery International Rice Research Institute
Mansueto, Locedie A..
xx, 165 l. : ill. Thesis (M.S.) -- University of the Philippines Diliman
Tipo: Thesis Palavras-chave: Rice; Plant genetics; Information systems; Data analysis; Genomics; Mathematical models; Information management.
Ano: 2005 URL: http://hdl.handle.net/123456789/363
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Accuracy of genomic selection predictions for hip height in Brahman cattle using different relationship matrices PAB
Farah,Michel Marques; Fortes,Marina Rufino Salinas; Kelly,Matthew; Porto-Neto,Laercio Ribeiro; Meira,Camila Tangari; Carreño,Luis Orlando Duitama; Fonseca,Ricardo da; Moore,Stephen Stewart.
Abstract: The objective of this work was to evaluate the effects of genomic information on the genetic evaluation of hip height in Brahman cattle using different matrices built from genomic and pedigree data. Hip height measurements from 1,695 animals, genotyped with high-density SNP chip or imputed from 50 K high-density SNP chip, were used. The numerator relationship matrix (NRM) was compared with the H matrix, which incorporated the NRM and genomic relationship (G) matrix simultaneously. The genotypes were used to estimate three versions of G: observed allele frequency (HGOF), average minor allele frequency (HGMF), and frequency of 0.5 for all markers (HG50). For matrix comparisons, animal data were either used in full or divided into calibration (80%...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Bos indicus; Beef cattle; Genomics; Rare alleles.
Ano: 2018 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-204X2018000600717
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Analysis of the genomic basis of functional diversity in dinoflagellates using a transcriptome-based sequence similarity network ArchiMer
Meng, Arnaud; Corre, Erwan; Probert, Ian; Gutierrez-rodriguez, Andres; Siano, Raffaele; Annamale, Anita; Alberti, Adriana; Da Silva, Corinne; Wincker, Patrick; Le Crom, Stephane; Not, Fabrice; Bittner, Lucie.
Dinoflagellates are one of the most abundant and functionally diverse groups of eukaryotes. Despite an overall scarcity of genomic information for dinoflagellates, constantly emerging high-throughput sequencing resources can be used to characterize and compare these organisms. We assembled de novo and processed 46 dinoflagellate transcriptomes and used a sequence similarity network (SSN) to compare the underlying genomic basis of functional features within the group. This approach constitutes the most comprehensive picture to date of the genomic potential of dinoflagellates. A core-predicted proteome composed of 252 connected components (CCs) of putative conserved protein domains (pCDs) was identified. Of these, 206 were novel and 16 lacked any functional...
Tipo: Text Palavras-chave: Genomics; Proteomics; Microbial biology; Molecular evolution; Protists; Transcriptomics.
Ano: 2018 URL: https://archimer.ifremer.fr/doc/00444/55550/57209.pdf
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Approaches for in silico finishing of microbial genome sequences Genet. Mol. Biol.
Kremer,Frederico Schmitt; McBride,Alan John Alexander; Pinto,Luciano da Silva.
Abstract The introduction of next-generation sequencing (NGS) had a significant effect on the availability of genomic information, leading to an increase in the number of sequenced genomes from a large spectrum of organisms. Unfortunately, due to the limitations implied by the short-read sequencing platforms, most of these newly sequenced genomes remained as “drafts”, incomplete representations of the whole genetic content. The previous genome sequencing studies indicated that finishing a genome sequenced by NGS, even bacteria, may require additional sequencing to fill the gaps, making the entire process very expensive. As such, several in silico approaches have been developed to optimize the genome assemblies and facilitate the finishing process. The...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Microbial genetics; Molecular microbiology; Genomics; Microbiology; Draft genomes.
Ano: 2017 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000400553
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Assessment of the scientific-technological production in molecular biology in Brazil (1996-2007): the contribution of genomics programs Anais da ABC (AABC)
Meneghini,Rogério; Gamba,Estêvão C..
Several genome sequencing programs were launched in Brazil by the end of the nineties and the early 2000s.The most important initiatives were supported by the ONSA program (http://watson.fapesp.br/onsa/Genoma3.htm) and aimed at gaining domain in genomic technology and bringing molecular biology to the state of art. Two mainsets of data were collected in the 1996-2007 period to evaluate the results of these genome programs: the scientific production (Scopus and Web of Science databases) and the register of patents (US Patent and Trademark Office), both related to the progress of molecular biology along this period. In regard to the former, Brazil took a great leap in comparison to 17 other developed and developing countries, being only surpassed by China....
Tipo: Info:eu-repo/semantics/article Palavras-chave: Science assessment; Genomics; Scientometrics; Molecular biology.
Ano: 2011 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0001-37652011000200031
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Bioinformática : Aplicaciones a la proteómica y genómica Colegio de Postgraduados
Riaño Pachón, Diego Mauricio; González Estrada, Elizabeth; Alexa, Adrian; Ramírez, Fidel; Vischi Winck, Flavia; Gómez Merino, Fernando, Coord.; Silva Rojas, Hilda Victoria, Coord.; Pérez Rodríguez, Paulino, Coord..
En esta publicación intitulada “Bioinformática: aplicaciones a la genómica y proteómica” se detallan algunos de los avances más sobresalientes de los temas de genómica y proteómica, derivados de un curso internacional sobre el tema, organizado por el Colegio de Postgraduados. Estos avances incluyen aspectos de las dos ciencias ómicas, incluyendo genómica y biología estructural, código R, análisis comparativo y evolución, agrupamiento y minería de datos en R, redes de interacciones entre proteínas y proteómica bioinformática. BIOINFORMATICS : APPLICATIONS TO GENOMICS AND PROTEOMICS. ABSTRACT : In this publication entitled "Bioinformatics: applications to genomics and proteomics" are some of the most salient issues of genomics and proteomics, derived from an...
Tipo: Libro Palavras-chave: Bioinformática; Proteómica; Genómica; ADN; Proteínas; Modelación; Simulación; Análisis de genómas; Biología estructural; Código R; Análisis comparativo; Minería de datos; Computación aplicada; Bioinformatics; Proteomics; DNA; Proteins; Models; Genomics; Simulation; R Code; Data mining; Computing; Genome analysis.
Ano: 2010 URL: http://hdl.handle.net/10521/313
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Biomassza-alapú energiák innovációjának genomikai megközelítései AgEcon
Marothy, Gergely; Kondorosi, Eva; Bíró, Tibor.
A genomika valódi eszköz a biomassza-alapú energiák innovatív kutatása területén, egyes részterületei (metagenomika, transzkriptomika) ténylegesen alkalmazhatók a biomassza-alapanyag optimalizálása során, illetve a biomassza-konverzió hatékonyságának javításában, ezáltal a megújuló energiatípusok előállítási költségeinek csökkentésében. ------------------------------------------------ Genomics is a useful tool in innovative research into biomass energy. Certain fields of genomics (metagenomics, transcriptomics) have a practical application in biomass optimisation and in improving the efficiency of biomass, and can thus help reduce the costs of renewable energy production.
Tipo: Article Palavras-chave: Genomika; Biomassza; Kutatás; Innováció; Biomass energy; Genomics; Innovation; Research; Research and Development/Tech Change/Emerging Technologies.
Ano: 2011 URL: http://purl.umn.edu/119937
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Bivalve genomics ArchiMer
Saavedra, Carlos; Bachere, Evelyne.
Interest in bivalve genomics has emerged during the last decade, owing to the importance of these organisms in aquaculture and fisheries and to their role in marine environmental science. Knowledge of bivalve genome structure, function and evolution resulting from 20th century "single gene" approaches is limited, but genomic technologies are called to dramatically increase it. Research based on linkage maps, transcriptomics and proteomics is being carried out to study the genetic and molecular bases of traits of interest in bivalve farming industry, mainly disease susceptibility, tolerance to environmental stress, and growth. The Pacific oyster (Crassostrea gigas) is now the focus of an international genome-sequencing consortium. The use of bivalves in...
Tipo: Text Palavras-chave: Shellfish toxins; Feeding; Stress; Proteomics; Genomics; Bivalves.
Ano: 2006 URL: http://archimer.ifremer.fr/doc/2006/publication-1709.pdf
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Detection and evaluation of selection signatures in sheep PAB
Paim,Tiago do Prado; Ianella,Patrícia; Paiva,Samuel Rezende; Caetano,Alexandre Rodrigues; Pimentel,Concepta Margaret McManus.
Abstract: The recent development of genome-wide single nucleotide polymorphism (SNP) arrays made it possible to carry out several studies with different species. The selection process can increase or reduce allelic (or genic) frequencies at specific loci in the genome, besides dragging neighboring alleles in the chromosome. This way, genomic regions with increased frequencies of specific alleles are formed, caracterizing selection signatures or selective sweeps. The detection of these signatures is important to characterize genetic resources, as well as to identify genes or regions involved in the control and expression of important production and economic traits. Sheep are an important species for theses studies as they are dispersed worldwide and have...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Ovis aries; Analysis software; Animal genetic resources; Genetic improvement; Genomics; Molecular genetics; SNP markers.
Ano: 2018 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-204X2018000500527
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Dietary histidine requirement of grow-out Nile tilapia (Oreochromis niloticus), based on growth performance, muscle development, expression of muscle-growth-related genes, and blood parameters R. Bras. Zootec.
Zaminhan-Hassemer,Micheli; Michelato,Mariana; Boscolo,Wilson Rogério; Urbich,Allan Vinnícius; Cruz,Thais Pereira da; Almeida,Fernanda Losi Alves de; Furuya,Valéria Rossetto Barriviera; Furuya,Wilson Massamitu.
ABSTRACT This research was conducted to determine optimal dietary histidine requirement of grow-out Nile tilapia, Oreochromis niloticus, based on muscle development, expression of muscle-growth-related genes, and blood parameters. Fish (n = 288, initial body weight of 64.17±0.53 g) were fed extruded diets with graded levels of histidine (4.23, 5.44, 7.17, 8.91, and 11.57 g kg−1), containing approximately 289 g kg−1 crude protein and 3565 kcal kg−1 digestible energy. The study followed a completely randomized design with five treatments and four replicates each, for 65 days. There was a quadratic effect of dietary histidine on final body weight, feed conversion, and net protein utilization, and the best values were optimized at 8.09, 7.88, and 7.33 g kg−1,...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Amino acids; Aquaculture; Fish nutrition; Genomics.
Ano: 2020 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-35982020000100201
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Estimates of genetic variability and inbreeding in experimentally selected populations of European sea bass ArchiMer
Hillen, J. E. J.; Coscia, I.; Vandeputte, Marc; Herten, K.; Hellemans, B.; Maroso, F.; Vergnet, Alain; Allal, Francois; Maes, G. E.; Volckaert, F. A. M..
The aquaculture industry has increasingly aimed at improving economically important traits like growth, feed efficiency and resistance to infections. Artificial selection represents an important window of opportunity to significantly improve production. However, the pitfall is that selection will reduce genetic diversity and increase inbreeding in the farmed stocks. Genetic tools are very useful in this context as they provide accurate measures of genetic diversity together with many additional insights in the stock status and the selection process. In this study we assessed the level of genetic variability and relatedness over several generations of two lines of experimentally selected European sea bass (Dicentrarchus labrax L.). The first line was...
Tipo: Text Palavras-chave: Artificial selection; DdRAD; Fish; Genetic diversity; Genomics; Inbreeding.
Ano: 2017 URL: http://archimer.ifremer.fr/doc/00392/50314/50993.pdf
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Estimation of genetic parameters of feed conversion ratio based on individual phenotypes and genomic data in sea bass ArchiMer
Besson, Mathieu; Allal, Francois; Chatain, Beatrice; Vergnet, Alain; Clota, Frederic; Ferrari, Sebastien; Vandeputte, Marc.
We estimated genetic parameters of feed conversion ratio (FCR) and daily growth coefficient (DGC) using individual phenotypes measured in aquariums under a restricted feeding regime and genomic information on 2,722 SNP markers. The results showed a moderate heritability of both traits (0.26 for FCR and 0.41 for DGC) as well as close to unity negative genetic correlation between them. Thus, FCR of fish in aquariums could be improved by selecting fish for higher DGC. Nevertheless, these results must be taken with caution until we know whether individual FCR measured in aquariums also reflects the FCR of fish reared in groups.    
Tipo: Text Palavras-chave: Feed efficiency; Fish; Genomics.
Ano: 2018 URL: http://archimer.ifremer.fr/doc/00446/55756/57416.pdf
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Genetic improvement of fish: Achievements and challenges for tomorrow ArchiMer
Vandeputte, Marc; Baroiller, Jean-francois; Haffray, Pierrick; Quillet, Edwige.
Genetic improvement is a major contributing factor in developing efficient aquaculture, as it is in other forms of animal production. Moreover, as most fish species are only slightly domesticated, the potential gains are very large. Many of the current methods, developed during the XXth century, are classically used in livestock rearing (choice of breeds, crossbreeding, selective breeding). Others are much more specific to aquatic organisms (genetic control of sex, sterilization through triploidization). The spread of selected lines in aquaculture has been effective only since the 1990s, with lines selected essentially on growth and producing some impressive results. Transgenesis, although technically feasible on growth rate, is not used in practice and...
Tipo: Text Palavras-chave: Selection; Genomics; Fishes; Breeding; Aquaculture.
Ano: 2009 URL: http://archimer.ifremer.fr/doc/2009/publication-6564.pdf
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Genomic approach for the improvement of water and nutrient use efficiency in rice International Rice Research Institute
Shou, Huixia.
Powerpoint Presentation; 53 slides
Tipo: Presentation Palavras-chave: Rice; Water requirements; Nutrient physiology; Genomics.
Ano: 2007 URL: http://hdl.handle.net/10269/64
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Genomic Approaches in Marine Biodiversity and Aquaculture Biol. Res.
Huete-Pérez,Jorge A; Quezada,Fernando.
Recent advances in genomic and post-genomic technologies have now established the new standard in medical and biotechnological research. The introduction of next-generation sequencing, NGS,has resulted in the generation of thousands of genomes from all domains of life, including the genomes of complex uncultured microbial communities revealed through metagenomics. Although the application of genomics to marine biodiversity remains poorly developed overall, some noteworthy progress has been made in recent years. The genomes of various model marine organisms have been published and a few more are underway. In addition, the recent large-scale analysis of marine microbes, along with transcriptomic and proteomic approaches to the study of teleost fishes,...
Tipo: Journal article Palavras-chave: Aquaculture; Genomics; Marine biodiversity; Next-generation sequencing; Proteomics.
Ano: 2013 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602013000400007
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Genomic dissection of inbreeding depression: a gate to new opportunities R. Bras. Zootec.
Curik,Ino; Ferenčaković,Maja; Sölkner,Johann.
ABSTRACT Inbreeding depression, reduction in performance of quantitative traits, including reproduction and survival, caused by inbreeding, is a well-known phenomenon observed in almost all experimental, domesticated, and natural populations. In spite of its importance to the fate of a small population and numerous research performed in the last century, the genetic basis of inbreeding depression is still unclear. Recent fast development of molecular techniques has enabled estimation of a genomic inbreeding coefficient (FROH), which reflects realized autozygosity and can be further partitioned to chromosomes and chromosomal segments. In this review, we first describe classical approach used in the estimation of inbreeding in livestock populations, followed...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Autozygosity; Detrimental load; Genomics; Runs of homozygosity.
Ano: 2017 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-35982017000900773
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Genomics and mollusc pathogens: trends and perspective ArchiMer
Renault, Tristan.
Global mollusc production is continuously increasing and reached 12.8 million tonnes in 2004 representing 28.2 percent of the total world production valued at US$ 9.4 billions. However, cultivated molluscs may suffer from severe mortality outbreaks. Among the possible causes is the occurrence of infectious diseases due to a variety of pathogens including protozoan parasites, bacteria and viruses. Preventing and controlling diseases has become a priority for aquaculture sustainability. However, molluscs are unique in terms of health management. Molluscs like other invertebrates, lack a true adaptative immune system. Vaccination can not be used to protect them against pathogens. Moreover, molluscs are usually reared in the open sea which strongly limits the...
Tipo: Text Palavras-chave: Diagnosis; Phylogeny; Genomics; Mollluscs; Pathogens.
Ano: 2008 URL: http://archimer.ifremer.fr/doc/2008/publication-4574.pdf
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