Showing papers by "Daniel H. Haft published in 2008"
Michigan State University1, J. Craig Venter Institute2, National Institutes of Health3, Wellcome Trust Sanger Institute4, Plymouth Marine Laboratory5, University of Maryland, Baltimore6, University of Cambridge7, University of York8, United States Department of Energy9, Ghent University10, Pennsylvania State University11, Argonne National Laboratory12, University of California, San Diego13, Jacobs University Bremen14, University of Colorado Boulder15, National Science Foundation16, Edinburgh Napier University17, Boston Children's Hospital18, University of Georgia19, University of California, Berkeley20, Newcastle University21, Lawrence Berkeley National Laboratory22, University of California, Irvine23, University of Oxford24, Howard University25, Abertay University26, University of Manchester27, Technical University of Denmark28, University of Wyoming29, University of Pennsylvania30, University of New Mexico31
TL;DR: Here, the minimum information about a genome sequence (MIGS) specification is introduced with the intent of promoting participation in its development and discussing the resources that will be required to develop improved mechanisms of metadata capture and exchange.
Abstract: With the quantity of genomic data increasing at an exponential rate, it is imperative that these data be captured electronically, in a standard format. Standardization activities must proceed within the auspices of open-access and international working bodies. To tackle the issues surrounding the development of better descriptions of genomic investigations, we have formed the Genomic Standards Consortium (GSC). Here, we introduce the minimum information about a genome sequence (MIGS) specification with the intent of promoting participation in its development and discussing the resources that will be required to develop improved mechanisms of metadata capture and exchange. As part of its wider goals, the GSC also supports improving the 'transparency' of the information contained in existing genomic databases.
1,097 citations
TL;DR: It is proposed that certain accessory proteins, and orphan selD itself, are markers through which new selenium-dependent molybdenum hydroxylases can be found.
Abstract: Bacterial and Archaeal cells use selenium structurally in selenouridine-modified tRNAs, in proteins translated with selenocysteine, and in the selenium-dependent molybdenum hydroxylases (SDMH). The first two uses both require the selenophosphate synthetase gene, selD. Examining over 500 complete prokaryotic genomes finds selD in exactly two species lacking both the selenocysteine and selenouridine systems, Enterococcus faecalis and Haloarcula marismortui. Surrounding these orphan selD genes, forming bidirectional best hits between species, and detectable by Partial Phylogenetic Profiling vs. selD, are several candidate molybdenum hydroxylase subunits and accessory proteins. We propose that certain accessory proteins, and orphan selD itself, are markers through which new selenium-dependent molybdenum hydroxylases can be found.
44 citations