Research Topics
Genomes and GenesSpecies | W Brad BarbazukSummaryAffiliation: Donald Danforth Plant Science Center Country: USA Publications
| Collaborators
|
Detail Information
Publications
Novel and nodulation-regulated microRNAs in soybean rootsSenthil Subramanian
Donald Danforth Plant Science Center, 975 N Warson Road, St Louis, MO 63132, USA
BMC Genomics 9:160. 2008..g. soybean) and rhizobia bacteria (e.g. Bradyrhizobium japonicum) results in root nodules where the majority of biological nitrogen fixation occurs. We sought to identify microRNAs (miRNAs) regulated during soybean-B. japonicum symbiosis...- Optical mapping as a routine tool for bacterial genome sequence finishingPhil Latreille
Monsanto Company, 800 North Lindbergh Boulevard St Louis, MO 63167, USA
BMC Genomics 8:321. 2007..This included a stretch of about 12 Kb that is over 99.9% identical between the plasmid and chromosome of X. nematophila... - Extension of Lander-Waterman theory for sequencing filtered DNA librariesMichael C Wendl
Genome Sequencing Center, Washington University, St Louis, MO 63108, USA
BMC Bioinformatics 6:245. 2005..We report an extension of the theory for analyzing such configurations... - Reduced representation sequencing: a success in maize and a promise for other plant genomesW Brad Barbazuk
Donald Danforth Plant Science Center, St Louis, MO 63132, USA
Bioessays 27:839-48. 2005.... - Genome-wide analyses of alternative splicing in plants: opportunities and challengesW Brad Barbazuk
Donald Danforth Plant Science Center, St Louis, Missouri 63132, USA
Genome Res 18:1381-92. 2008..This review summarizes recent analyses of AS in plants, discusses the importance of further analysis, and suggests directions for future efforts... - Sequence and comparative analysis of the maize NB mitochondrial genomeSandra W Clifton
Genome Sequencing Center, Washington University School of Medicine, St Louis, Missouri 63108, USA
Plant Physiol 136:3486-503. 2004..After eliminating genes, introns, ORFs, and plastid-derived DNA, nearly three-fourths of the maize NB mitochondrial genome is still of unknown origin and function... - Alternative splicing of anciently exonized 5S rRNA regulates plant transcription factor TFIIIAYan Fu
Donald Danforth Plant Science Center, Saint Louis, MO 63132, USA
Genome Res 19:913-21. 2009..Most significantly, this study provides the first evidence of ancient exaptation of 5S rRNA in plants, suggesting a novel gene regulation model mediated by the AS of an anciently exonized noncoding element... - SNP discovery via 454 transcriptome sequencingW Brad Barbazuk
Donald Danforth Plant Science Center, St Louis, MO 63132, USA
Plant J 51:910-8. 2007..These results demonstrate that 454-based transcriptome sequencing is an excellent method for the high-throughput acquisition of gene-associated SNPs... - Functional analysis of the activation domain of RF2a, a rice transcription factorM Isabel Ordiz
Donald Danforth Plant Science Center, St Louis, MO 63132, USA
Plant Biotechnol J 8:835-44. 2010..The A5 domain, and similar domains in other b-ZIP transcription factors, is predicted to form an anti-parallel beta sheet structure... - SNP Mining from Maize 454 EST SequencesW Brad Barbazuk
Donald Danforth Plant Science Center, St Louis, MO 63132, USA
CSH Protoc 2007:pdb.prot4786. 2007..PolyBayes has been used successfully to identify SNPs in many different systems, including maize, and is particularly recommended for identifying SNPs in 454 sequences... - The Physcomitrella genome reveals evolutionary insights into the conquest of land by plantsStefan A Rensing
Plant Biotechnology, Faculty of Biology, University of Freiburg, Schaenzlestrasse 1, D 79104 Freiburg, Germany
Science 319:64-9. 2008..The Physcomitrella genome provides a resource for phylogenetic inferences about gene function and for experimental analysis of plant processes through this plant's unique facility for reverse genetics... - Natural variation for alleles under epigenetic control by the maize chromomethylase zmet2Irina Makarevitch
Department of Plant Biology, Microbial and Plant Genomics Institute, University of Minnesota, Saint Paul, Minnesota 55108, USA
Genetics 177:749-60. 2007.... - Gene discovery and annotation using LCM-454 transcriptome sequencingScott J Emrich
Bioinformatics and Computational Biology Graduate Program, Iowa State University, Ames, IA 50010, USA
Genome Res 17:69-73. 2007..We conclude that the coupling of LCM and 454 sequencing technologies facilitates the discovery of rare, possibly cell-type-specific transcripts... - Utility of different gene enrichment approaches toward identifying and sequencing the maize gene spaceNathan Michael Springer
Center for Plant and Microbial Genomics, Department of Plant Biology, University of Minnesota, St Paul, Minnesota 55108, USA
Plant Physiol 136:3023-33. 2004..Analysis of the overlap of coverage and bias due to position within a gene suggest that RescueMu, methyl-filtration, and high-Cot methods are at least partially nonredundant... - An integrated physical and genetic map of the rice genomeMingsheng Chen
Clemson University Genomics Institute, 100 Jordan Hall, Clemson, South Carolina 29634-5727, USA
Plant Cell 14:537-45. 2002..Furthermore, the physical map will aid map-based cloning of agronomically important genes and will provide an important tool for the comparative analysis of grass genomes...