Progress 03/15/08 to 03/14/09
Outputs
OUTPUTS: Pea Aphid Genome Annotation Workshop I was held at Princeton University, Princeton NJ, on July 14th and 15th 2008. The workshop was attended by 59 people from 10 countries. Workshop participants came from universities, government research organizations and industry and included graduate students, postdoctoral scholars, university faculty and scientists in full-time research positions. Dissemination of workshop resources and materials, the continued development of the aphid as a model and communication regarding Pea Aphid Genome Annotation Workshop II has been via several web-based resources including meeting websites (e.g. http://www.as.miami.edu/AphidWorkshop/ and http://aphid.cgenomics.org/), a collaboration wiki (https://dgc.cgb.indiana.edu/display/aphid/Introduction), an aphid genomics listserve and development of AphidBase (http://www.aphidbase.com/aphidbase/). PARTICIPANTS: Alex C. C. Wilson (PI) - Meeting organizer and coordinator Jennifer Abe - undergraduate administrative assistant. Assisted with meeting organization, program preparation, account management and reimbursements. Meeting participants and their affiliations: Ashton, Peter ,The University of York; Atamian, Hagop, University of California Riverside; Barribeau, Seth, Emory University; Blanc, Stephane, INRA France; Brault, Veronique, INRA France; Caillaud, Marina, Ithaca College; Carolan, Jim, UCD SBES, Ireland; Chang, Chun-che, National Taiwan University; Charles, Hubert, INSA de LYON France; Colbourne, John, Indiana University; Colella, Stefano, UMR203 INRA INSA-Lyon, France; Cortes, Teresa, University of Valencia; Dale, Richard, Syngenta; Davis, Gregory, Princeton University; Dombrovsky, Aviv, INRA Sophia Antipolis; Douglas, Angela, University of York; Edwards, Owain, CSIRO Entomology; Evans, Jay, USDA-ARS Bee Research Lab; Fenton, Brian ,SCRI; Gabaldon, Toni, CIPF; Gauthier, Jean-Pierre, INRA; Gerardo, Nicole, Emory University; Gordon, Karl, CSIRO Entomology; Hedges, Dale, University of Miami; Huang, Wenting, University of Miami; Hunnicutt, Laura, NCSU; Jander, Georg, Boyce Thompson Institute; Jaubert-Possamai, Stephanie, INRA; Jones, Derek, University of Miami; Kushlan, Philip, University of Miami; Llorens, Carlos, Cavanilles, Uni Valencia; Lu, Hsiao-Ling, National Taiwan University; Macdonald, Sandy, University of York; Miura, Toru, Hokkaido University; Moran, Nancy, University of Arizona; Moya, Andres, Cavanilles, Uni Valencia; Murphy, Terence, NCBI; Nakabachi, Atsushi, RIKEN; Pachebat, Justin, University of Cambridge; Permal, Emmanuelle, INRA; Pignatelli, Miguel, Cavanilles, Uni Valencia; Price, Daniel, University of Durham; Quesneville, Hadi, URGI - INRA; Rahbe, Yvan, INRA; Ramirez, Claudio, Universidad de Talca; Ramsey, John, Cornell University; Richards, Stephen, Baylor College of Medince; Rider, Dean, Texas A&M University; Schwartz, Julia, University of Miami; Shigenobu, Shuji, Princeton University; Smadja, Carole, University of Sheffield; Srinivasan, Dayalan, Princeton University; Stern, David, Princeton University; Tagu, Denis, INRA; Tamborindeguy, Cecilia, Cornell University; Van Fleet, Eric, Ithaca College; Walsh, Thomas, CSIRO Entomology; Wilson, Alex, University of Miami; Zhou, Jing-Jiang, Rothamsted Research. TARGET AUDIENCES: Scientists working on aphids. This was a meeting grant and so a workshop/meeting was held. PROJECT MODIFICATIONS: Nothing significant to report during this reporting period.
Impacts
Pea Aphid Genome Annotation Workshop I was the event that launched the community annotation phase of the pea aphid genome sequencing project. This workshop achieved several things. First, it provided the community with an aggressive timeline for establishment of manual annotation infrastructure and completion of the automated annotation phase of the project. Second, it resulted in the establishment of community-based annotation guidelines and standards together with, and facilitated by, the Aphid Collaboration Wiki (https://dgc.cgb.indiana.edu/display/aphid/Introduction). Third, by bringing together members of the aphid community, it united the International Aphid Genomics Consortium (IAGC), in a way that only happens when people are able to interact face-to-face. At the end of the workshop the IAGC had agreed upon an aggressive annotation and publication timeline, giving the community three months to complete manual annotation and another two months for paper preparation and submission. Most annotation groups had completed their annotations and submitted abstracts of their companion papers by the October 15th deadline and the main genome paper existed as a first draft by December 15th 2008. By the end of February 2009 annotation groups had begun submitting companion papers and we are now (mid-March 2009) within an estimated three weeks of submitting the main genome paper to PLoS Biology. Pea Aphid Genome Annotation Workshop I facilitated the IAGC setting and coming close to meeting a very ambitious analysis and publication timeline for this new genomic resource for the aphid, an agriculturally significant insect.
Publications
- International Aphid Genomics Consortium (2009) Genome Sequence of the Pea Aphid Acyrthosiphon pisum. PLoS Biology In Preparation. Legeai F, Murphy T, Shigenobu S, Zhang L, Gauthier J-P, Gilbert D, Stanke M, Camara F, Rispe C, Colbourne J, Wilson ACC, Collin O, Richards S, and Tagu D. (2009) Bioinformatics resources for the annotation of the pea aphid genome. Insect Molecular Biology. In Preparation. This publication includes a description of Pea Aphid Genome Annotation Workshop I. Special Issue of Insect Molecular Biology with an estimated 25 companion papers.
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