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The contribution of DNA microarray technology to gene expression profiling in Leishmania spp.: A retrospective view.
Acta Trop
November 2018
Departamento de Biología Celular y Molecular, Centro de Investigaciones Biológicas (Consejo Superior de Investigaciones Científicas), Calle Ramiro de Maeztu 9, 28040 Madrid, Spain. Electronic address:
The first completed genome project of any living organism, excluding viruses, was of the gammaproteobacteria Haemophilus influenzae in 1995. Until the last decade, genome sequencing was very tedious because genome survey sequences (GSS) and/or expressed sequence tags (ESTs) belonging to plasmid, cosmid, and artificial chromosome genome libraries had to be sequenced and assembled in silico. No genome is completely assembled because gaps and unassembled contigs are always remaining.
View Article and Find Full Text PDFDinoflagellate Gene Structure and Intron Splice Sites in a Genomic Tandem Array.
J Eukaryot Microbiol
June 2016
DSM Nutritional Products, 6480 Dobbin Rd, Columbia, Maryland, 21045.
Dinoflagellates are one of the last major lineages of eukaryotes for which little is known about genome structure and organization. We report here the sequence and gene structure of a clone isolated from a cosmid library which, to our knowledge, represents the largest contiguously sequenced, dinoflagellate genomic, tandem gene array. These data, combined with information from a large transcriptomic library, allowed a high level of confidence of every base pair call.
View Article and Find Full Text PDFUnusual and typical features of a novel restorer-of-fertility gene of sugar beet (Beta vulgaris L.).
Genetics
December 2012
Laboratory of Genetic Engineering, Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan.
Male gametogenesis in plants can be impaired by an incompatibility between nuclear and mitochondrial genomes, termed cytoplasmic male sterility (CMS). A sterilizing factor resides in mitochondria, whereas a nuclear factor, Restorer-of-fertility (Rf), restores male fertility. Although a majority of plant Rf genes are thought to encode a family of RNA-binding proteins called pentatrico-peptide repeat (PPR) proteins, we isolated a novel type of Rf from sugar beet.
View Article and Find Full Text PDFSystematic overrepresentation of DNA termini and underrepresentation of subterminal regions among sequencing templates prepared from hydrodynamically sheared linear DNA molecules.
BMC Genomics
February 2010
Department of Plant Pathology, University of Kentucky, Lexington, KY 40546, USA.
Background: Analysis of fungal genome sequence assemblies reveals that telomeres are poorly represented even though telomeric reads tend to be superabundant. We surmised that the problem might lie in the DNA shearing conditions used to create clone libraries for genome sequencing.
Results: A shotgun strategy was used to sequence and assemble circular and linear cosmid DNAs sheared using conditions typical for a genome project.
Generating subclones from large-insert genomic clones.
Curr Protoc Hum Genet
May 2001
John Radcliffe Hospital, Headington, Oxford.
This unit provides a simple protocol for generating a partial-digest sublibrary of yeast DNA containing a YAC of interest. The starting material is high-molecular-weight chromosomal DNA embedded in agarose plugs. Many genome equivalents of these YAC subclones in bacteriophage or cosmid vectors can be plated and screened by hybridization with total human DNA to identify clones that originate from the human portion of the YAC.
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