The Zebrafish: Genetics, Genomics and Informatics

Professor of Biochemistry and Marine Biology at Northeastern University, promoted 1996. Joined Northeastern faculty in 1987. Previously a faculty member in Dept. of Biochemistry at the University of Mississippi Medical Center, 1983-1987.Principal Investigator in the U.S. Antarctic Program since 1984. Twelve field seasons "on the ice" since 1981. Research conducted at Palmer Station, Antarctica, and McMurdo Station, Antarctica.Research areas: Biochemical, cellular, and physiological adaptation to low and high temperatures. Structure and function of cytoplasmic microtubules and microtubule-dependent motors from cold-adapted Antarctic fishes. Regulation of tubulin and globin gene expression in zebrafish and Antarctic fishes. Role of microtubules in morphogenesis of the zebrafish embryo. Developmental hemapoiesis in zebrafish and Antarctic fishes. UV-induced DNA damage and repair in Antarctic marine organisms.

• Part I: Forward and Reverse Genetics1. Gene Trap Mutagenesis for Generation of Conditional Mutations in Zebrafish – Wenbiao Chen2. Advances in Tol2 Transposon Mutagenesis – Koichi Kawakami3. OPEN Zinc Finger Nucleases – Keith Joung and Randy Peterson4. Retroviral-Mediated Insertional Mutagenesis in Zebrafish – Adam Amsterdam, Nancy Hopkins, and Shawn Burgess5. Genetic Screens for Maternal-Effects Mutations – Francisco Pelegri and Mary Mullins6. High-Throughput Target-Selected Gene Inactivation in Zebrafish – Derek Stemple7. Suppressor Screens in Haploids – Xiaoying Bai8. Transposons – Stephen Ekker9. Caged MOs – James ChenPart II: Transgenesis1. Advanced Transgenesis with Cre Recombinase – Christian Mosimann2. Transgenesis with phiC31 Recombinase – James Lister3. Nuclear Transfer – Jose Cibelli and Dr. SiripattarapravatPart III: The Zebrafish Genome and Mapping Technologies1. The Zebrafish Genome Project: Sequence Analysis and Annotation– Derek Stemple2. Molecular Cytogenetic Methodologies and a Bacterial Artificial Chromosome (BAC) Probe Panel Resource for Genomic Analyses in Zebrafish – Charles Lee and Amanda Smith3. Automated Analysis of Conserved Syntenies for the Zebrafish Genome – John Postlethwait, Julian Catchen4. The Zon Laboratory Guide to Positional Cloning in Zebrafish –Yi Zhou and Leonard ZonPart IV: Informatics and Comparative Genomics1. Data Warehouse ZFIN – Monte Westerfield and Judy Sprague2. Epigenetics: Methylation – Brad Cairns3. Chromatin Structure – Leonard Zon and Yi Zhou4. ChipSeq – Brad Cairns5. Micro RNAs – Graham Lieshke and Luke Pase6. Microarrays – Yi Zhou7. Sequence-Based Transcriptional Profiling – Shawn Burgess8. Epigenetic Regulation of Zebrafish Development – Elke Ober and co-authorPart V: Infrastructure1. Zebrafish Facilities for Small and Large Laboratories – Christian Lawrence2. Genetic Backgrounds, Standard Lines, and their Husbandry – ZIRC, Zoltan