Resultados de búsqueda - "bioinformatics"

Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases por Staton, Margaret, Cannon, Ethalinda K.S., Sanderson, Lacey-Anne, Wegrzyn, Jill, Anderson, Tavis, Buehler, Sean, Cobo-Simón, Irene, Faaberg, Kay, Grau, Emily, Guignon, Valentin, Gunoskey, Jessica, Inderski, Blake, Jung, Sook, Lager, Kelly, Main, Dorrie, Poelchau, Monica F., Ramnath, Risharde, Richter, Peter, West, Joe, Ficklin, Stephen

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Genomics Reference Resource for African Cattle (GRRFAC) por Marshall, Karen, Hanotte, Olivier H., Tijjani, Abdulfatai

“…Our current objectives include the identifications of the most informative SNPs for designing the African cattle reference SNP genotyping arrays to be applied to breeding improvement programs and the genomic regions underpinning adaptation and productivity traits, as well as the capacity building among African collaborating scientists through training in bioinformatics and genomics, thereby paving the way towards a complete genome characterisation of African indigenous cattle diversity for breeds improvement. …”
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Genome-wide temporal-spatial gene expression profiling of drought responsiveness in rice por Wang, Di, Pan, Yajiao, Zhao, Xiuqin, Zhu, Ling-Hua, Fu, Binying, Li, Zhikang

“…The transcriptome from leaf, root, and young panicle at three developmental stages was comparatively analyzed combined with bioinformatics exploring drought stress related cis-elements. …”
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A Babesia bovis gene syntenic to Theileria parva p67 is expressed in blood and tick stage parasites por Freeman, J.M., Kappmeyer, L.S., Ueti, M.W., McElwain, T.F., Baszler, T.V., Echaide, I., Nene, Vishvanath M., Knowles, Donald P.

“…Completion of the Babesia bovis (T2Bo strain) genome provides detailed data concerning the predicted proteome of this parasite, and allows for a bioinformatics approach to gene discovery. Comparative genomics of the hemoprotozoan parasites B. bovis and Theileria parva revealed a highly conserved syntenic block of genes flanking the p67 gene of T. parva, a sporozoite stage-specific vaccine candidate against East Coast fever (ECF). …”
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International Livestock Research Institute. Medium-term plan 2009-11 por International Livestock Research Institute

“…Biotechnology - Biosciences and bioinformatics for animal health and genetics. Project 4. …”
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Functional analysis and characterization of the human RBBP6 promoters based on a combination of molecular biology and in silico approaches provide additional evidence for RBBP6 rol... por Pretorius, A., Kaur, M., Wamalwa, M., February, M.F., Essack, M., Bajic, V.B., Rees, D.J.G.

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A parthenogenesis gene candidate and evidence for segmental allopolyploidy in apomictic brachiaria decumbens por Worthington, Margaret, Heffelfinger, Christopher, Bernal, Diana, Quintero, Constanza, Zapata, Yeny Patricia, Pérez, Juan Guillermo, Vega, José de, Miles, John W., Dellaporta, Stephen L., Tohme, Joseph M.

“…The availability of new tools such as genotyping by sequencing and bioinformatics pipelines for species lacking reference genomes now makes the construction of dense maps possible in apomictic species, despite complications including polyploidy, multisomic inheritance, self-incompatibility, and high levels of heterozygosity. …”
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Molecular based detection, validation of a LAMP assay and phylogenetic analysis of Capripoxvirus in Kenya por Omoga, D.C.A., Macharia, M., Magiri, E., Kinyua, J., Kasiiti, J., Holton, T.

“…Deep sequencing of 18 LAMP positive samples from different parts of the country was done and the obtained sequenced data analyzed using bioinformatics platform. Results: The disease prevalence in the population was 61%, The validated LAMP assay had a 97% sensitivity and a specificity of 100%. …”
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Characterization of the complete mitochondrial genome of the black Alpaca breed of Vicugna pacos (Mammalia, Artiodactyla, Camelidae) from Puno, Peru por Bustamante, Danilo E., Yalta Macedo, Claudia Esther, Cruz Luis, Juancarlos Alejandro, Maicelo Quintana, Jorge Luis, Guerrero Abad, Juan Carlos, Gutiérrez Reynoso, Dina Lida

“…Here, we contribute to the bioinformatics and evolutionary systematics of the Camelidae by performing high-throughput sequencing analysis on the black Huacaya breed of V. pacos from Puno, Peru. …”
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Occurrence and characterization of cyst nematode species (Globodera spp.) associated with potato crops in Colombia por Vallejo, Daniela, Rojas, Diego A., Martinez, John A., Marchant, Sergio, Holguin, Claudia M., Pérez, Olga Y.

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Multi-environment Genome Wide Association Studies of Yield Traits in Common Bean (Phaseolus vulgaris L.) × Tepary Bean (P. acutifolius A. Gray) Interspecific Advanced Lines at the... por López Hernández, Felipe, Burbano Erazo, Esteban, León Pacheco, Rommel Igor, Cordero Cordero, Carina Cecilia, Villanueva Mejía, Diego F., Tofiño Rivera, Adriana Patricia, Cortés, Andrés J.

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BrAPI - an application programming interface for plant breeding applications por Selby, Peter, Abbeloos, Rafael, Backlund, Jan Erik, Basterrechea Salido, Martin, Bauchet, Guillaume, Benites-Alfaro, Omar E, Birkett, Clay, Calaminos, Viana C, Carceller, Pierre, Cornut, Guillaume, Vasques Costa, Bruno, Edwards, Jeremy D, Finkers, Richard, Yanxin Gao, Star, Ghaffar, Mehmood, Glaser, Philip, Guignon, Valentin, Hok, Puthick, Kilian, Andrzej, König, Patrick, Lagare, Jack Elendil B, Lange, Matthias, Laporte, Marie-Angélique, Larmande, Pierre, LeBauer, David S, Lyon, David A, Marshall, David S, Matthews, Dave, Milne, Iain, Mistry, Naymesh, Morales, Nicolas, Mueller, Lukas A, Neveu, Pascal, Papoutsoglou, Evangelia, Pearce, Brian, Perez-Masias, Ivan, Pommier, Cyril, Ramírez-González, Ricardo H, Rathore, Abhishek, Raquel, Angel Manica, Raubach, Sebastian, Rife, Trevor, Robbins, Kelly, Rouard, Mathieu, Sarma, Chaitanya, Scholz, Uwe, Sempéré, Guilhem, Shaw, Paul D, Simon, Reinhard, Soldevilla, Nahuel, Stephen, Gordon, Sun, Qi, Tovar, Clarysabel, Uszynski, Grzegorz, Verouden, Maikel

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Genomic characterization of multidrug-resistant Salmonella serovars Derby and Rissen from the pig value chain in Vietnam por González Santamarina, B., García-Soto, S., Sinh Dang-Xuan, Abdel-Glil, M.Y., Meemken, D., Fries, R., Tomaso, H.

“…This study pointed out that bioinformatics analyses of WGS data are essential to detect, trace back, and control the MDR strains along the pig value chain. …”
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Evolution of fungal and non-fungal eukaryotic communities in response to thermophilic co-composting of various nitrogen-rich green feedstocks por Matheri, F., Kambura, A.K., Mwangi, M., Karanja, E., Adamtey, N., Mwangi, Kennedy Wanjau, Mwangi, E., Tanga, C.M., Bautze, D., Runo, S.

“…Sequencing for fungal ITS and non-fungal eukaryotes; 18S rDNA was done under the Illumina Miseq platform, and bioinformatics analysis was done using Divisive Amplicon Denoising Algorithm version 2 workflow in R version 4.1. …”
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Resistance and susceptibility QTL identified in a rice MAGIC population by screening with a minor-effect virulence factor from Xanthomonas oryzae pv. oryzae por Huerta, Alejandra I., Delorean, Emily E., Bossa‐Castro, Ana M., Tonnessen, Bradley W., Raghavan, Chitra, Corral, Rene, Pérez‐Quintero, Álvaro L., Leung, Hei, Verdier, Valérie, Leach, Jan E.

“…Of these, 21 showed polymorphisms in the predicted effector binding element (EBE) site and 23 lost the EBE sequence altogether. Inoculation and bioinformatics studies suggest that the Tal7b target in one of the Tal7b-specific QTL, qBB-tal7b-8, is a disease susceptibility gene and that the resistance mechanism for this locus may be through loss of susceptibility. …”
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Integration of genomics approach with traditional breeding towards improving abiotic stress adaptation: Drought and aluminum toxicity as case studies por Ishitani, Manabu, Rao, Idupulapati M., Wenzl, Peter, Beebe, Stephen E., Tohme, Joseph M.

“…Successfully applying functional genomics in trait gene discovery requires diverse genetic resources, crop phenotyping, genomics tools integrated with bioinformatics and proof of gene function in planta (proof of concept). …”
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A large set of 26 new reference transcriptomes dedicated to comparative population genomics in crops and wild relatives por Sarah, Gautier, Homa, Felix, Pointet, Stéphanie, Contreras, Sandy, Sabot, François, Nabholz, Benoit, Santoni, Sylvain, Sauné, Laure, Ardisson, Morgane, Chantret, Nathalie, Sauvage, Christopher, Tregear, James, Jourda, Cyril, Pot, David, Vigouroux, Yves, Chair, Hana, Scarcelli, Nora, Billot, Claire, Yahiaoui, Nabila, Bacilieri, Roberto, Khadari, Bouchaib, Boccara, Michel, Barnaud, Adéline, Péros, Jean-Pierre, Labouisse, Jean-Pierre, Pham, Jean-Louis, David, Jacques, Glémin, Sylvain, Ruíz, Manuel

“…All the data are available at http://arcad-bioinformatics.southgreen.fr/.…”
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Quantitative proteome analysis of bovine mammary gland reveals protein dynamic changes involved in peak and late lactation stages por Zheng, Xianrui, Ning, Chao, Dong, Yichun, Zhao, Pengju, Li, Junhui, Ziyao Fan, Li, Jiang, Ying Yu, Mrode, Raphael A., Liu, Jian Feng

“…We observed five new DEPs (PLIN2, LPIN1, PLIN3, AACS and DHCR7) and nine functional well-studies known proteins (PLIN2, LPIN1, PLIN3, GSN, CD74, MMP2, SOD1, SOD3 and GPX3) related to milk performance and mammary morphology. Bioinformatics analyses of the DEPs showed a majority of the up-regulated proteins during late lactation stage were related to apoptosis and immune process, while the downregulated proteins were mainly involved in localization, lipid metabolic and transport process. …”
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Network and biosignature analysis for the integration of transcriptomic and metabolomic data to characterize leaf senescence process in sunflower por Moschen, Sebastian Nicolas, Higgins, Janet, Di Rienzo, Julio A., Heinz, Ruth Amelia, Paniego, Norma Beatriz, Fernandez, Paula Del Carmen

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High-Throughput Sequencing for Deciphering the Virome of Alfalfa (Medicago sativa L.) por Bejerman, Nicolas Esteban, Roumagnac, Philippe, Nemchinov, Lev G.

“…However, over the past few years, due to the rapid development of high-throughput sequencing (HTS), viral metagenomics, bioinformatics tools for interpreting massive amounts of HTS data and the increasing accessibility of public data repositories for transcriptomic discoveries, several emerging viruses of alfalfa with the potential to cause serious yield losses have been described. …”
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