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2 results on '"Amber Marsh"'

1. Automated Construction of an Open Reading Frame Library from Sinorhizobium meliloti

Author

Todd C. Edwards, Christa Prange, Christina Sanders, Amber Marsh, and Joanna S. Albala

Subjects
Genetics, Cloning, Sinorhizobium meliloti, biology, food and beverages, biology.organism_classification, Genome, Sequence identity, Computer Science Applications, Medical Laboratory Technology, Open reading frame, genomic DNA, ORFS, Homologous recombination
Abstract

An automated, high-throughput, open reading frame (ORF) library construction process has been developed. ORFs from genomic DNA of the microbe Sinorhizobium meliloti were amplified by PCR and cloned into the library vector by homologous recombination instead of traditional ligation. From 960 targets, we successfully generated 723 (75.3%) ORFs from the initial PCR. After cloning the successful samples into the library vector, transforming into E. coli and PCR colony screening, 371 (38.6% overall) ORFs were placed into the new library and sequenced. Our prototype library contained 314 (32.7% overall) clones with sequence identity to the Sinorhizobium meliloti genome.

Published
2003
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2. The completion of the Mammalian Gene Collection (MGC)

Author

Michelle Moksa, Ralf Wagner, David Haussler, Michael Stevens, Marco A. Marra, Chenwei Lin, Bonnie L. Maidak, Laura Langton, Janet Weber, Michael R. Brent, Sun Lu, Howard J. Jacob, Charles L.G. Comstock, Terence Murphy, Elise A. Feingold, Brona Brejova, Diana Mah, Dominic Esposito, Chaochun Wei, Carolyn M. Shenmen, Kevin Ma, Stephanie Lee, Richard M. Myers, Francis S. Collins, Rachel A. Harte, Catherine M. Farrell, Jeremy Schmutz, Keith Fichter, Richard A. Gibbs, Preethi H. Gunaratne, Cristen Robinson, Lon Phan, Rebekah S. Rasooly, Jacqueline C. Pulido, Alice C. Young, Shuwei Yang, Jane Grimwood, Peter J. Good, Robert Baertsch, Michael Mayo, Troy Moore, Elizabeth Pardes, Michael J. Brownstein, Wonhee Jang, Linda Yankie, Lila Ghamsari, Gary F. Temple, Praveen Sethupathy, Steven J.M. Jones, Martin Hirst, Wendy Wu, Athena Deng, Adam Siepel, Christa Pennacchio, Mark Dickson, Mark R. Smith, Alex Astashyn, Kourosh Salehi-Ashtiani, Jeanne Lewis, Sarah Munro, Kenneth H. Buetow, Nicole Shapiro, Carl F. Schaefer, Elizabeth Mello, Merinda Deng, Chris E. Gruber, Mark Diekhans, Anita Lebeau, Stephanie Sieja, Stefan Wiemann, Donna Maglott, Ming Ward, Jim Kent, Susan Wagner, Narayan K. Bhat, Leonie Misquitta, Tom I. Bonner, Eric D. Green, Robert A. Holt, Michael R. Murphy, Greg Taylor, Angela M. Garcia, Joseph Lazar, James Hartigan, Garth Brown, Johnson Pang, Jeffrey G. Derge, Mike Muratet, Lukas Wagner, Kane Tse, Allison Mandich, Robert W. Blakesley, Osamu Ohara, Jennifer Hart, Daniela S. Gerhard, Richard A. Moore, John Douglas Mcpherson, Jing Wang, Debonny Shoaf, Bhanu Rajput, Kim D. Pruitt, Jia Qian Wu, Stanley Letovksy, Anne Go, Lillian D. Riddick, James R. Hudson, Ryan R. Murray, Donna M. Muzny, Vanessa Wall, Gerard G. Bouffard, Thomas Zeng, Alex Rodriguez, Melissa J. Landrum, Keith Robison, Eric Chuah, Jim C. Mullikin, Kirsten Schreiber, James L. Hartley, Ralph F. Hopkins, Marcus Graf, Ryan D. Morin, Amber Marsh, David Webb, Marijke J. van Baren, Blake A. Simmons, Malachi Griffith, and David Kloske

Subjects
Resource, DNA, Complementary, Biology, chemistry.chemical_compound, Mice, Genetics, RefSeq, Animals, Humans, Genomic library, Cloning, Molecular, Gene, Genetics (clinical), Gene Library, Cloning, Mammals, Expressed sequence tag, DNA synthesis, cDNA library, Reverse Transcriptase Polymerase Chain Reaction, Computational Biology, DNA, United States, Rats, chemistry, Genes, National Institutes of Health (U.S.)
Abstract

Since its start, the Mammalian Gene Collection (MGC) has sought to provide at least one full-protein-coding sequence cDNA clone for every human and mouse gene with a RefSeq transcript, and at least 6200 rat genes. The MGC cloning effort initially relied on random expressed sequence tag screening of cDNA libraries. Here, we summarize our recent progress using directed RT-PCR cloning and DNA synthesis. The MGC now contains clones with the entire protein-coding sequence for 92% of human and 89% of mouse genes with curated RefSeq (NM-accession) transcripts, and for 97% of human and 96% of mouse genes with curated RefSeq transcripts that have one or more PubMed publications, in addition to clones for more than 6300 rat genes. These high-quality MGC clones and their sequences are accessible without restriction to researchers worldwide.

Published
2009

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