Appendix C
Agenda

Keck Center

National Academies

500 Fifth Street, N.W.

Washington, D.C.

May 8, 2006

8:30-9:00 a.m.

Opening Remarks and Introduction

Ann Bucklin and Donald Crothers, Cochairs

8:30-8:45

Purpose of the Workshop

Scott Miller

Session 1: State of DNA in Biological Samples after Exposure to Formalin

  • What is the state of preservation of DNA in the presence of formalin? Are the DNA chains intact or broken? Does formalin denature DNA or is it the process of extraction that is fragmenting the DNA? Are the nucleotides at each site being preserved or altered?

  • How can the physical and chemical states of the DNA-formalin cross-linkages be better characterized? What additional information on these cross-linkages is needed?

Moderator: Donald Crothers

Rapporteur: Timothy O’Leary



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OCR for page 49
Path to Effective Recovering of DNA from Formalin-Fixed Biological Samples in Natural History Collection: Workshop Summary Appendix C Agenda Keck Center National Academies 500 Fifth Street, N.W. Washington, D.C. May 8, 2006 8:30-9:00 a.m. Opening Remarks and Introduction Ann Bucklin and Donald Crothers, Cochairs 8:30-8:45 Purpose of the Workshop Scott Miller Session 1: State of DNA in Biological Samples after Exposure to Formalin What is the state of preservation of DNA in the presence of formalin? Are the DNA chains intact or broken? Does formalin denature DNA or is it the process of extraction that is fragmenting the DNA? Are the nucleotides at each site being preserved or altered? How can the physical and chemical states of the DNA-formalin cross-linkages be better characterized? What additional information on these cross-linkages is needed? Moderator: Donald Crothers Rapporteur: Timothy O’Leary

OCR for page 49
Path to Effective Recovering of DNA from Formalin-Fixed Biological Samples in Natural History Collection: Workshop Summary 9:00-10:00 Participant Brieflngs Participants share their knowledge of and experience with assessing the condition of DNA in biological samples flxed in formalin 10:00-10:30 Open Discussion 10:30-10:45 Break 10:45-11:30 Open Discussion Session 2: Optimization of DNA Sequence Information from the Samples What new chemical and physical methods for DNA extraction should be tested, beyond those that have already been applied to formalin-flxed tissue? In what ways and to what extent can fragmented DNA be repaired physically and chemically after extraction from formalin? Moderator: Ann Bucklin Rapporteur: Charles Cantor 11:30-12:30 p.m. Participant Brieflngs Participants share their knowledge of and experience with optimization of DNA sequence information from formalin-flxed samples 12:30-1:30 Lunch 1:30-3:45 Open Discussion 3:45-4:00 Break Session 3: Bioinformatics for Reconstructing DNA Sequences Can bioinformatics techniques be used to reconstruct the original sequence in silico from the DNA fragments recovered from formalin? Moderator: Christoffer Schander Rapporteur: Neil Hall

OCR for page 49
Path to Effective Recovering of DNA from Formalin-Fixed Biological Samples in Natural History Collection: Workshop Summary 4:00-4:20 Participant Brieflngs Participants share their knowledge of and experience with bioinformatics for restructuring DNA sequences 4:20-5:20 Open Discussion 5:20-5:30 First-day Summation May 9, 2006 Session 4: The Path towards Effective Retrieval of Genomic Information from Formalin-Fixed Samples Moderators: Donald Crothers and Ann Bucklin 8:30-9:15 a.m. Summary of Sessions 1-3 Timothy O’Leary, Charles Cantor, and Neil Hall, Rapporteurs 9:15-10:30 Open Discussion 10:30-10:45 Break 10:45-11:45 Open Discussion (cont’d) 11:45-12:00 Workshop Summation

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Path to Effective Recovering of DNA from Formalin-Fixed Biological Samples in Natural History Collection: Workshop Summary This page intially left blank