The National Plant Genome Initiative Objectives for 2003-2008 (2002) / Chapter Skim
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2 Sequencing: Generating the Raw Material
2 Sequencing: Generating the Raw Material
Pages 15-22
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From page 15... ...
By deep-draft we mean at least 6-fold coverage of the gene-rich regions, accompanied by other data, such as a physical map and sufficient sequencing information on bacterial artificial chromosome ends (BAC ends) necessary to generate a scaffold of ordered contiguous DNA sequence information.
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From page 16... ...
This should be accompanied by parallel investment in genetics and genomics tools from related crop plants that are explicitly designed to transfer knowledge gained from research in model and reference species into agronomic development. Partnership among federal agencies that span the breadth from basic to applied plant research is essential.
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From page 17... ...
Fabaceae supplies nearly 33% of the human nutritional requirement for nitrogen, with a protein content that is balanced in amino acids and roughly 2/3 that of cereals. The high protein content of legumes is related to their capacity to symbiotically fix atmospheric nitrogen in ammonia; this property is a key factor in the global nitrogen cycle.
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From page 18... ...
The combined efforts we propose for NPGI, in concert with related efforts around the world, will hasten identification of the evolutionary adaptations that characterize each plant family and wiD facilitate the transfer of knowledge to additional crop species in each family. In addition to Arabidopsis and rice, complete drafts of the genome sequences of the single-ceDed alga Chlamydomonas (COP 2002)
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From page 19... ...
of related species, which may be other crops, as a means of gene and regulatory DNA annotation and as a mechanism for comparative genomics; and critically, establishment of a user-friendly, integrated public database. On the basis of the experimental and agricultural criteria discussed above and the expected cost of DNA sequencing during the next 5 years, we offer the following explicit recommendations for genomic DNA sequencing for 2003-2008: 1.
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From page 20... ...
Therefore, it is vital that the research community for any species seeking NPGI funds for either genomic or creep EST sequencing prepare a community consensus white paper both to justify the project scientifically and to demonstrate community unity and community organization before the massive investment requirecl.
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From page 21... ...
However, assembly, finishing, and analysis require contributions from highly motivated experts. Because the most efficient finishing takes assembly and analysis into account, there is clearly a role for academic sequencing centers associated with plant biologists, even though companies and genome centers can offer competitive contracts for high-throughput sequencing.
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From page 22... ...
Progress in large-scale community-service projects should not be presented only when they are up for renewal or at the end of a funding period, and scientific advisory boards and project reviewers should be rigorous in their monitoring of this feature of large-scale service projects.
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