Bibliografías temáticas / Sequence similarity analysis

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Literatura académica sobre el tema "Sequence similarity analysis"

Autor: Grafiati

Publicado: 25 de mayo de 2024

Última modificación: 31 de julio de 2025

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Artículos de revistas sobre el tema "Sequence similarity analysis"

Wei, Dan, Qingshan Jiang, and Sheng Li. "A New Approach for DNA Sequence Similarity Analysis based on Triplets of Nucleic Acid Bases." International Journal of Nanotechnology and Molecular Computation 2, no. 4 (2010): 1–11. http://dx.doi.org/10.4018/978-1-60960-064-8.ch006.

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Similarity analysis of DNA sequences is a fundamental research area in Bioinformatics. The characteristic distribution of L-tuple, which is the tuple of length L, reflects the valuable information contained in a biological sequence and thus may be used in DNA sequence similarity analysis. However, similarity analysis based on characteristic distribution of L-tuple is not effective for the comparison of highly conservative sequences. In this paper, a new similarity measurement approach based on Triplets of Nucleic Acid Bases (TNAB) is introduced for DNA sequence similarity analysis. The new app

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Li, Hongliang, and Bin Liu. "BioSeq-Diabolo: Biological sequence similarity analysis using Diabolo." PLOS Computational Biology 19, no. 6 (2023): e1011214. http://dx.doi.org/10.1371/journal.pcbi.1011214.

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As the key for biological sequence structure and function prediction, disease diagnosis and treatment, biological sequence similarity analysis has attracted more and more attentions. However, the exiting computational methods failed to accurately analyse the biological sequence similarities because of the various data types (DNA, RNA, protein, disease, etc) and their low sequence similarities (remote homology). Therefore, new concepts and techniques are desired to solve this challenging problem. Biological sequences (DNA, RNA and protein sequences) can be considered as the sentences of “the bo

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de Oliveira Martins, Leonardo, Alison E. Mather, and Andrew J. Page. "Scalable neighbour search and alignment with uvaia." PeerJ 12 (March 6, 2024): e16890. http://dx.doi.org/10.7717/peerj.16890.

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Despite millions of SARS-CoV-2 genomes being sequenced and shared globally, manipulating such data sets is still challenging, especially selecting sequences for focused phylogenetic analysis. We present a novel method, uvaia, which is based on partial and exact sequence similarity for quickly extracting database sequences similar to query sequences of interest. Many SARS-CoV-2 phylogenetic analyses rely on very low numbers of ambiguous sites as a measure of quality since ambiguous sites do not contribute to single nucleotide polymorphism (SNP) differences. Uvaia overcomes this limitation by us

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Pacheco, Richard C., Jonas Moraes-Filho, Arlei Marcili, et al. "Rickettsia monteiroi sp. nov., Infecting the Tick Amblyomma incisum in Brazil." Applied and Environmental Microbiology 77, no. 15 (2011): 5207–11. http://dx.doi.org/10.1128/aem.05166-11.

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ABSTRACTFree-living adultAmblyomma incisumticks were collected in an Atlantic rainforest area at Intervales State Park, State of São Paulo, Brazil. From anA. incisumspecimen, rickettsiae were successfully isolated in Vero cell culture by the shell vial technique. Rickettsial isolation was confirmed by optical microscopy, transmission electron microscopy, and PCRs targeting portions of the rickettsial genesgltA,htrA,rrs, andsca1on infected cells. Fragments of 1,089, 457, 1,362, and 443 nucleotides of thegltA,htrA,rrs, andsca1genes, respectively, were sequenced. By BLAST analysis, the partial se

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Van Reenen, C. A., W. H. Van Zyl, and L. M. T. Dicks. "Expression of the Immunity Protein of Plantaricin 423, Produced by Lactobacillus plantarum 423, and Analysis of the Plasmid Encoding the Bacteriocin." Applied and Environmental Microbiology 72, no. 12 (2006): 7644–51. http://dx.doi.org/10.1128/aem.01428-06.

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ABSTRACT Plantaricin 423 is a class IIa bacteriocin produced by Lactobacillus plantarum isolated from sorghum beer. It has been previously determined that plantaricin 423 is encoded by a plasmid designated pPLA4, which is now completely sequenced. The plantaricin 423 operon shares high sequence similarity with the operons of coagulin, pediocin PA-1, and pediocin AcH, with small differences in the DNA sequence encoding the mature bacteriocin peptide and the immunity protein. Apart from the bacteriocin operon, no significant sequence similarity could be detected between the DNA or translated seq

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Smallwood, M., J. N. Keen, and D. J. Bowles. "Purification and partial sequence analysis of plant annexins." Biochemical Journal 270, no. 1 (1990): 157–61. http://dx.doi.org/10.1042/bj2700157.

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A fractionation procedure for annexins involving Ca2(+)-dependent binding to exogenous phospholipid was applied to tomato suspension culture cells. Two polypeptides (34 kDa and 35.5 kDa) were purified and separated from each other and from contaminant pectic polysaccharide by ion-exchange chromatography. After proteolytic digestion of SDS/PAGE-purified products, N-terminal sequencing of the peptide fragments revealed substantial similarity to sequences of known members of the annexin family characterized from a range of animal tissues. In particular, sequence similarity to the 70-amino acid-re

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Xu, Fuyu, and Kate Beard. "A Unifying Framework for Analysis of Spatial-Temporal Event Sequence Similarity and Its Applications." ISPRS International Journal of Geo-Information 10, no. 9 (2021): 594. http://dx.doi.org/10.3390/ijgi10090594.

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Measures of similarity or differences between data objects are applied frequently in geography, biology, computer science, linguistics, logic, business analytics, and statistics, among other fields. This work focuses on event sequence similarity among event sequences extracted from time series observed at spatially deployed monitoring locations with the aim of enhancing the understanding of process similarity over time and geospatial locations. We present a framework for a novel matrix-based spatiotemporal event sequence representation that unifies punctual and interval-based representation of

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Shah, Mohammad Monir, Hirotoshi Iihara, Makiko Noda, et al. "dnaJ gene sequence-based assay for species identification and phylogenetic grouping in the genus Staphylococcus." International Journal of Systematic and Evolutionary Microbiology 57, no. 1 (2007): 25–30. http://dx.doi.org/10.1099/ijs.0.64205-0.

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In the last few years, many attempts have been made to use conserved gene sequences for identification and for phylogenetic studies of Staphylococcus species. In an effort to identify a more reliable approach, a dnaJ gene sequence-based database was created. In this study, an approximately 883 bp portion of the dnaJ gene sequence from 45 staphylococcal type strains was compared with 16S rRNA and other conserved gene (hsp60, sodA and rpoB) sequences available in public databases. Nucleotide sequence comparisons revealed that the staphylococcal dnaJ gene showed higher discrimination (mean simila

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Györgyey, János, Danièle Vaubert, José I. Jiménez-Zurdo, et al. "Analysis of Medicago truncatula Nodule Expressed Sequence Tags." Molecular Plant-Microbe Interactions® 13, no. 1 (2000): 62–71. http://dx.doi.org/10.1094/mpmi.2000.13.1.62.

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Systematic sequencing of expressed sequence tags (ESTs) can give a global picture of the assembly of genes involved in the development and function of organs. Indeterminate nodules representing different stages of the developmental program are especially suited to the study of organogenesis. With the vector λHybriZAP, a cDNA library was constructed from emerging nodules of Medicago truncatula induced by Sinorhizobium meliloti. The 5′ ends of 389 cDNA clones were sequenced, then these ESTs were analyzed both by sequence homology search and by studying their expression in roots and nodules. Two

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Abbas, Ali Hadi, Haider Abas AL saegh, and Furkan Sabbar ALaraji. "Sequence diversity and evolution of infectious bursal disease virus in Iraq." F1000Research 10 (April 16, 2021): 293. http://dx.doi.org/10.12688/f1000research.28421.1.

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Background: Infectious Bursal Disease (IBD) is a highly infectious disease which causes huge economic losses to the poultry industry due to the direct impact of the illness and indirect consequences such as decreasing the general immunity of the flock, leaving it naive to other diseases. In Iraq, IBD is highly prevalent despite vaccination programs, yet studies on sequence diversity of the causative virus are still rare. Methods: A sample from Bursa of Fabricius from an IBD outbreak in a flock in the city of Najaf in Iraq was smeared on an FTA card. Amplicons of targeted regions in VP1 and VP2

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Tesis sobre el tema "Sequence similarity analysis"

Joseph, Arokiya Louis Monica. "Sequence Similarity Search portal." CSUSB ScholarWorks, 2007. https://scholarworks.lib.csusb.edu/etd-project/3124.

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This project brings the bioinformatics community a new development concept in which users can access all data and applications hosted in the main research centers as if they were installed on their local machines, providing seamless integration between disparate services. The project moves to integrate the sequence similarity searching at EBI and NCBI by using web services. It also intends to allow molecular biologists to save their searches and act as a log book for their sequence similarity searches. The project will also allow the biologists to share their sequences and results with others.

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Chen, Zhuo. "Smart Sequence Similarity Search (S⁴) system." CSUSB ScholarWorks, 2004. https://scholarworks.lib.csusb.edu/etd-project/2458.

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Sequence similarity searching is commonly used to help clarify the biochemical and physiological features of newly discovered genes or proteins. An efficient similarity search relies on the choice of tools and their associated subprograms and numerous parameter settings. To assist researchers in selecting optimal programs and parameter settings for efficient sequence similarity searches, the web-based expert system, Smart Sequence Similarity Search (S4) was developed.

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Mendoza, Leon Jesus Alexis. "Analysis of DNA sequence similarity within organisms causing New World leishmaniasis." Thesis, University of Cambridge, 1991. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.386206.

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Batra, Sushil Baker Erich J. Lee Myeongwoo. "Identification of phenotypes in Caenorabhditis elegans on the basis of sequence similarity." Waco, Tex. : Baylor University, 2009. http://hdl.handle.net/2104/5325.

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Ozturk, Ozgur. "Feature extraction and similarity-based analysis for proteome and genome databases." The Ohio State University, 2007. http://rave.ohiolink.edu/etdc/view?acc_num=osu1190138805.

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Mitas̃iūnaite, Ieva. "Mining string data under similarity and soft-frequency constraints : application to promoter sequence analysis." Lyon, INSA, 2009. http://theses.insa-lyon.fr/publication/2009ISAL0036/these.pdf.

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Nous étudions l'extraction de motifs sous contraintes dans des collections de chaînes de caractères et le développement de solveurs complets et génériques pour l'extraction de tous les motifs satisfaisant une combinaison de contraintes primitives. Un solveur comme FAVST permet d'optimiser des conjonctions de contraintes dites monotones et/ou anti-monotones (e. G. , des contraintes de fréquence maximale et minimale). Nous avons voulu compléter ce type d'outil en traitant des contraintes pour la découverte de motifs tolérants aux exceptions. Nous proposons différentes définitions des occurrences

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Sacan, Ahmet. "Similarity Search And Analysis Of Protein Sequences And Structures: A Residue Contacts Based Approach." Phd thesis, METU, 2008. http://etd.lib.metu.edu.tr/upload/12609754/index.pdf.

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The advent of high-throughput sequencing and structure determination techniques has had a tremendous impact on our quest in cracking the language of life. The genomic and protein data is now being accumulated at a phenomenal rate, with the motivation of deriving insights into the function, mechanism, and evolution of the biomolecules, through analysis of their similarities, differences, and interactions. The rapid increase in the size of the biomolecular databases, however, calls for development of new computational methods for sensitive and efficient management and analysis of this informatio

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Wessel, Jennifer. "Human genetic-epidemiologic association analysis via allelic composition and DNA sequence similarity methods applications to blood-based gene expression biomarkers of disease /." Connect to a 24 p. preview or request complete full text in PDF format. Access restricted to UC campuses, 2006. http://wwwlib.umi.com/cr/ucsd/fullcit?p3237548.

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Thesis (Ph. D.)--University of California, San Diego and San Diego State University, 2006.<br>Title from first page of PDF file (viewed December 12, 2006). Available via ProQuest Digital Dissertations. Vita. Includes bibliographical references.

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Wang, Danling. "Multifractal characterisation and analysis of complex networks." Thesis, Queensland University of Technology, 2011. https://eprints.qut.edu.au/48176/1/Danling_Wang_Thesis.pdf.

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Complex networks have been studied extensively due to their relevance to many real-world systems such as the world-wide web, the internet, biological and social systems. During the past two decades, studies of such networks in different fields have produced many significant results concerning their structures, topological properties, and dynamics. Three well-known properties of complex networks are scale-free degree distribution, small-world effect and self-similarity. The search for additional meaningful properties and the relationships among these properties is an active area of current rese

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Yan, Yiqing. "Scalable and accurate algorithms for computational genomics and dna-based digital storage." Electronic Thesis or Diss., Sorbonne université, 2023. http://www.theses.fr/2023SORUS078.

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La réduction des coûts et l'amélioration du débit de la technologie de séquençage ont entraîné de nouvelles avancées dans des applications telles que la médecine de précision et le stockage basé sur l'ADN. Cependant, le résultat séquencé contient des erreurs. Pour mesurer la similitude entre le résultat séquencé et la référence, la distance d'édition est préférée en pratique à la distance de Hamming en raison des indels. Le calcul de la distance d'édition est complexe quadratique. Par conséquent, l'analyse de similarité de séquence nécessite beaucoup de calculs. Dans cette thèse, nous introdui

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Libros sobre el tema "Sequence similarity analysis"

Bilański, Piotr. Trypodendron laeve Eggers w Polsce na tle wybranych aspektów morfologicznych i genetycznych drwalników (Trypodendron spp., Coleoptera, Curculionidae, Scolytinae). Publishing House of the University of Agriculture in Krakow, 2019. http://dx.doi.org/10.15576/978-83-66602-38-0.

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In Poland, there are 4 species of the liypodendron genus: T lineaium Oliv., T domestkum L., T signature Fakir. and 7: laeve Egg. Trypodendron laeve is the leastknown of this group. Many factors had influence on the state of research on this species, including taxonomic aspects. Taking into account the unsatisfactory state of knowledge regarding the prevalence of T iaeve in Poland, as well as scarce information on the morphology of this species, research was undertaken to I) document the presence, including new sites, of T laeve in Poland and define, if possible, the habitat and trophic conditi

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Capítulos de libros sobre el tema "Sequence similarity analysis"

States, David J., and Mark S. Boguski. "Similarity and Homology." In Sequence Analysis Primer. Palgrave Macmillan UK, 1991. http://dx.doi.org/10.1007/978-1-349-21355-9_3.

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Adjeroh, D. A., I. King, and M. C. Lee. "Video sequence similarity matching." In Multimedia Information Analysis and Retrieval. Springer Berlin Heidelberg, 1998. http://dx.doi.org/10.1007/bfb0016490.

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Yap, Tieng K., Ophir Frieder, and Robert L. Martino. "Multiprocessor Sequence Similarity Searching." In High Performance Computational Methods for Biological Sequence Analysis. Springer US, 1996. http://dx.doi.org/10.1007/978-1-4613-1391-5_6.

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Ryšavý, Petr, and Filip Železný. "Estimating Sequence Similarity from Contig Sets." In Advances in Intelligent Data Analysis XVI. Springer International Publishing, 2017. http://dx.doi.org/10.1007/978-3-319-68765-0_23.

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Subbotin, Sergei A. "Phylogenetic analysis of DNA sequence data." In Techniques for work with plant and soil nematodes. CABI, 2021. http://dx.doi.org/10.1079/9781786391759.0265.

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Abstract The goal of phylogenetics is to construct relationships that are true representations of the evolutionary history of a group of organisms or genes. The history inferred from phylogenetic analysis is usually depicted as branching in tree-like diagrams or networks. In nematology, phylogenetic studies have been applied to resolve a wide range of questions dealing with improving classifications and testing evolution processes, such as co-evolution, biogeography and many others. There are several main steps involved in a phylogenetic study: (i) selection of ingroup and outgroup taxa for a

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Subbotin, Sergei A. "Phylogenetic analysis of DNA sequence data." In Techniques for work with plant and soil nematodes. CABI, 2021. http://dx.doi.org/10.1079/9781786391759.0015.

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Ung, Huy Quang, Cuong Tuan Nguyen, Hung Tuan Nguyen, and Masaki Nakagawa. "GSSF: A Generative Sequence Similarity Function Based on a Seq2Seq Model for Clustering Online Handwritten Mathematical Answers." In Document Analysis and Recognition – ICDAR 2021. Springer International Publishing, 2021. http://dx.doi.org/10.1007/978-3-030-86331-9_10.

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Xie, Bo, and Long Chen. "Automatic Scoring Model of Subjective Questions Based Text Similarity Fusion Model." In Proceeding of 2021 International Conference on Wireless Communications, Networking and Applications. Springer Nature Singapore, 2022. http://dx.doi.org/10.1007/978-981-19-2456-9_60.

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AbstractAI In this era, scene based translation and intelligent word segmentation are not new technologies. However, there is still no good solution for long and complex Chinese semantic analysis. The subjective question scoring still relies on the teacher's manual marking. However, there are a large number of examinations, and the manual marking work is huge. At present, the labor cost is getting higher and higher, the traditional manual marking method can't meet the demand The demand for automatic marking is increasingly strong in modern society. At present, the automatic marking technology

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Bonnici, Vincenzo, Andrea Cracco, and Giuditta Franco. "A k-mer Based Sequence Similarity for Pangenomic Analyses." In Machine Learning, Optimization, and Data Science. Springer International Publishing, 2022. http://dx.doi.org/10.1007/978-3-030-95470-3_3.

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Yang, Wenlu, Xiongjun Pi, and Liqing Zhang. "Similarity Analysis of DNA Sequences Based on the Relative Entropy." In Lecture Notes in Computer Science. Springer Berlin Heidelberg, 2005. http://dx.doi.org/10.1007/11539087_137.

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Actas de conferencias sobre el tema "Sequence similarity analysis"

Banerjee, Nikita, Pratyush Swain, Ayush Kumar Behera, and Pankaj Kumar Sa. "DNA Sequence Similarity Using Discrete Wavelet Transform." In 2024 International Conference on Big Data Analytics in Bioinformatics (DABCon). IEEE, 2024. https://doi.org/10.1109/dabcon63472.2024.10919379.

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Hai-TaoJia, Xiao-Long Tang, Kai-Shi Wang, Huan-Lai Zhou, Li Ren, and Wen-Bo Xu. "Case similarity analysis based on multi-visual matching of ordered sequences of entity behaviors." In 2023 International Conference on Data, Information and Computing Science (CDICS). IEEE, 2023. https://doi.org/10.1109/cdics61497.2023.00012.

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Caffrey, S. M., H. s. Park, G. Voordouw, and Jenny Been. "Gene Array Analysis of Sulfate-Reducing Bacteria Grown on an Iron Electrode under Conditions of Cathodic Protection." In CORROSION 2008. NACE International, 2008. https://doi.org/10.5006/c2008-08653.

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Abstract Sulfate-reducing bacteria (SRB) can contribute to microbially-influenced corrosion (MIC) of iron. Removal of hydrogen formed at the metal surface is often regarded as a critical step in the progression of MIC. Hence SRB-mediated iron corrosion and hydrogen oxidation may be comparable processes. Because the genome sequence of the model SRB Desulfovibrio vulgaris Hildenborough (DvH) is now known, this theory can be tested by genomics technologies. D. vulgaris has four periplasmic hydrogenases to oxidize molecular hydrogen, one iron-only (Hyd), two nickel-iron (Hyn1 and Hyn2) and one nic

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Yusen Zhang and Xiangtian Yu. "Analysis of protein sequence similarity." In 2010 IEEE Fifth International Conference on Bio-Inspired Computing: Theories and Applications (BIC-TA). IEEE, 2010. http://dx.doi.org/10.1109/bicta.2010.5645085.

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Ketterlin, Alain, and Pierre Ganarski. "Sequence Similarity and Multi-Date Image Segmentation." In 2007 International Workshop on the Analysis of Multi-temporal Remote Sensing Images. IEEE, 2007. http://dx.doi.org/10.1109/multitemp.2007.4293034.

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Lei, H., and Venu Govindaraju. "Similarity-driven sequence classification based on support vector machines." In Eighth International Conference on Document Analysis and Recognition (ICDAR'05). IEEE, 2005. http://dx.doi.org/10.1109/icdar.2005.217.

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Yang, Lina, Yuan Yan Tang, Yulong Wang, et al. "Similarity analysis based on sparse representation for protein sequence comparison." In 2015 IEEE 2nd International Conference on Cybernetics (CYBCONF). IEEE, 2015. http://dx.doi.org/10.1109/cybconf.2015.7175964.

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Kong, Fen, Xu-ying Nan, Ping-an He, Qi Dai, and Yu-hua Yao. "A sequence-segmented method applied to the similarity analysis of proteins." In 2012 IEEE 6th International Conference on Systems Biology (ISB). IEEE, 2012. http://dx.doi.org/10.1109/isb.2012.6314157.

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Hu, Jun, Hongxia Zhao, Xueyou Liang, and Dan Chen. "The analysis of similarity for promoter sequence structures in yeast genes." In 2012 5th International Conference on Biomedical Engineering and Informatics (BMEI). IEEE, 2012. http://dx.doi.org/10.1109/bmei.2012.6513091.

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Dang, Xiaocui, Lina Yang, Yuan Yan Tang, Pu Wei, and Hailong Su. "Nd5 Protein Sequence Similarity Analysis Based On Discrete Wavelet Transform And Fractal Dimension." In 2019 International Conference on Wavelet Analysis and Pattern Recognition (ICWAPR). IEEE, 2019. http://dx.doi.org/10.1109/icwapr48189.2019.8946464.

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Informes sobre el tema "Sequence similarity analysis"

Gelb, Jr., Jack, Yoram Weisman, Brian Ladman, and Rosie Meir. Identification of Avian Infectious Brochitis Virus Variant Serotypes and Subtypes by PCR Product Cycle Sequencing for the Rational Selection of Effective Vaccines. United States Department of Agriculture, 2003. http://dx.doi.org/10.32747/2003.7586470.bard.

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Objectives 1. Determine the serotypic identities of 40 recent IBV isolates from commercial chickens raised in the USA and Israel. 2. Sequence all IBV field isolates using PCR product cycle sequencing and analyze their S 1 sequence to detennine their homology to other strains in the Genbank and EMBL databases. 3. Select vaccinal strains with the highest S 1 sequence homology to the field isolates and perform challenge of immunity studies in chickens in laboratory trials to detennine level of protection afforded by the vaccines. Background Infectious bronchitis (IB) is a common, economically imp

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Dickman, Martin B., and Oded Yarden. Role of Phosphorylation in Fungal Spore Germination. United States Department of Agriculture, 1993. http://dx.doi.org/10.32747/1993.7568761.bard.

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Spore germination is a common and fundamental event in fungal development and in many instances an essential phase of fungal infection and dissemination. Spore germination is also critical for hyperparasites to function as biocontrol agents as well as in fermentation proceses. Our common objective is to understand the mechanisms which regulated spore germination and identify factors involved in pathogenicity related prepenetration development. Our approach is to exploit the overall similarity among filamentous fungi using both a plant pathogen (Colletotricum trifolii) and a model system that i

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Cohen, Yuval, Christopher A. Cullis, and Uri Lavi. Molecular Analyses of Soma-clonal Variation in Date Palm and Banana for Early Identification and Control of Off-types Generation. United States Department of Agriculture, 2010. http://dx.doi.org/10.32747/2010.7592124.bard.

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Date palm (Phoenix dactylifera L.) is the major fruit tree grown in arid areas in the Middle East and North Africa. In the last century, dates were introduced to new regions including the USA. Date palms are traditionally propagated through offshoots. Expansion of modern date palm groves led to the development of Tissue Culture propagation methods that generate a large number of homogenous plants, have no seasonal effect on plant source and provide tools to fight the expansion of date pests and diseases. The disadvantage of this procedure is the occurrence of off-type trees which differ from t

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Fridman, Eyal, and Eran Pichersky. Tomato Natural Insecticides: Elucidation of the Complex Pathway of Methylketone Biosynthesis. United States Department of Agriculture, 2009. http://dx.doi.org/10.32747/2009.7696543.bard.

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Plant species synthesize a multitude of specialized compounds 10 help ward off pests. and these in turn may well serve as an alternative to synthetic pesticides to reduce environmental damage and health risks to humans. The general goal of this research was to perform a genetic and biochemical dissection of the natural-insecticides methylketone pathway that is specific to the glandular trichomes of the wild species of tomato, Solanumhabrochaites f. glabratum (accession PI126449). Previous study conducted by us have demonstrated that these compounds are synthesized de novo as a derivate pathway

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Michelmore, Richard, Eviatar Nevo, Abraham Korol, and Tzion Fahima. Genetic Diversity at Resistance Gene Clusters in Wild Populations of Lactuca. United States Department of Agriculture, 2000. http://dx.doi.org/10.32747/2000.7573075.bard.

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Genetic resistance is often the least expensive, most effective, and ecologically-sound method of disease control. It is becoming apparent that plant genomes contain large numbers of disease resistance genes. However, the numbers of different resistance specificities within a genepool and the genetic mechanisms generating diversity are poorly understood. Our objectives were to characterize diversity in clusters of resistance genes in wild progenitors of cultivated lettuce in Israel and California in comparison to diversity within cultivated lettuce, and to determine the extent of gene flow, re

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Ueti, Massaro Wilson, and Monica Leszkowicz Mazuz. Identification, characterization and testing of geographically conserved Babesia bovis vaccine antigen candidates. United States-Israel Binational Agricultural Research and Development Fund, 2022. http://dx.doi.org/10.32747/2022.8134143.bard.

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During the development of this project, we selected four potential B. bovis antigens for a subunit vaccine to prevent the clinical signs of acute bovine babesiosis. Selection of the target antigens was based on: (1) profile of expression in parasite blood stages; (2) prediction for protein location on the parasite surface and/or on the surface of infected red blood cells; and (3) target conservation between US and Israeli strains of B. bovis. Following these criteria, the B. bovis targets BBOV_IV009170, BBOV_III007410, BBOV_II001790, and BBOV_III008720 were selected. Full-length genomic sequen

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Levisohn, Sharon, Maricarmen Garcia, David Yogev, and Stanley Kleven. Targeted Molecular Typing of Pathogenic Avian Mycoplasmas. United States Department of Agriculture, 2006. http://dx.doi.org/10.32747/2006.7695853.bard.

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Intraspecies identification (DNA "fingerprinting") of pathogenic avian mycoplasmas is a powerful tool for epidemiological studies and monitoring strain identity. However the only widely method available for Mycoplasma gallisepticum (MG) and M. synoviae (MS)wasrandom amplified polymorphic DNA (RAPD). This project aimed to develop alternative and supplementary typing methods that will overcome the major constraints of RAPD, such as the need for isolation of the organism in pure culture and the lack of reproducibility intrinsic in the method. Our strategy focussed on recognition of molecular mark

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Paran, Ilan, and Allen Van Deynze. Regulation of pepper fruit color, chloroplasts development and their importance in fruit quality. United States Department of Agriculture, 2014. http://dx.doi.org/10.32747/2014.7598173.bard.

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Pepper exhibits large natural variation in chlorophyll content in the immature fruit. To dissect the genetic and molecular basis of this variation, we conducted QTL mapping for chlorophyll content in a cross between light and dark green-fruited parents, PI 152225 and 1154. Two major QTLs, pc1 and pc10, that control chlorophyll content by modulation of chloroplast compartment size in a fruit-specific manner were detected in chromosomes 1 and 10, respectively. The pepper homolog of GOLDEN2- LIKE transcription factor (CaGLK2) was found as underlying pc10, similar to its effect on tomato fruit chl

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Or, Etti, David Galbraith, and Anne Fennell. Exploring mechanisms involved in grape bud dormancy: Large-scale analysis of expression reprogramming following controlled dormancy induction and dormancy release. United States Department of Agriculture, 2002. http://dx.doi.org/10.32747/2002.7587232.bard.

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The timing of dormancy induction and release is very important to the economic production of table grape. Advances in manipulation of dormancy induction and dormancy release are dependent on the establishment of a comprehensive understanding of biological mechanisms involved in bud dormancy. To gain insight into these mechanisms we initiated the research that had two main objectives: A. Analyzing the expression profiles of large subsets of genes, following controlled dormancy induction and dormancy release, and assessing the role of known metabolic pathways, known regulatory genes and novel se

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Rafaeli, Ada, and Russell Jurenka. Molecular Characterization of PBAN G-protein Coupled Receptors in Moth Pest Species: Design of Antagonists. United States Department of Agriculture, 2012. http://dx.doi.org/10.32747/2012.7593390.bard.

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The proposed research was directed at determining the activation/binding domains and gene regulation of the PBAN-R’s thereby providing information for the design and screening of potential PBAN-R-blockers and to indicate possible ways of preventing the process from proceeding to its completion. Our specific aims included: (1) The identification of the PBAN-R binding domain by a combination of: (a) in silico modeling studies for identifying specific amino-acid side chains that are likely to be involved in binding PBAN with the receptor and; (b) bioassays to verify the modeling studies using mut

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