caa a22 4500 445318651 CHVBK 20180317142656.0 cr unu---uuuuu 170323e20110801xx s 000 0 eng 10.1007/s10126-010-9335-6 doi (NATIONALLICENCE)springer-10.1007/s10126-010-9335-6 Development and Experimental Validation of a 20K Atlantic Cod ( Gadus morhua ) Oligonucleotide Microarray Based on a Collection of over 150,000 ESTs [Elektronische Daten] [Marije Booman, Tudor Borza, Charles Feng, Tiago Hori, Brent Higgins, Adrian Culf, Daniel Léger, Ian Chute, Anissa Belkaid, Marlies Rise, A. Gamperl, Sophie Hubert, Jennifer Kimball, Rodney Ouellette, Stewart Johnson, Sharen Bowman, Matthew Rise] The collapse of Atlantic cod (Gadus morhua) wild populations strongly impacted the Atlantic cod fishery and led to the development of cod aquaculture. In order to improve aquaculture and broodstock quality, we need to gain knowledge of genes and pathways involved in Atlantic cod responses to pathogens and other stressors. The Atlantic Cod Genomics and Broodstock Development Project has generated over 150,000 expressed sequence tags from 42 cDNA libraries representing various tissues, developmental stages, and stimuli. We used this resource to develop an Atlantic cod oligonucleotide microarray containing 20,000 unique probes. Selection of sequences from the full range of cDNA libraries enables application of the microarray for a broad spectrum of Atlantic cod functional genomics studies. We included sequences that were highly abundant in suppression subtractive hybridization (SSH) libraries, which were enriched for transcripts responsive to pathogens or other stressors. These sequences represent genes that potentially play an important role in stress and/or immune responses, making the microarray particularly useful for studies of Atlantic cod gene expression responses to immune stimuli and other stressors. To demonstrate its value, we used the microarray to analyze the Atlantic cod spleen response to stimulation with formalin-killed, atypical Aeromonas salmonicida, resulting in a gene expression profile that indicates a strong innate immune response. These results were further validated by quantitative PCR analysis and comparison to results from previous analysis of an SSH library. This study shows that the Atlantic cod 20K oligonucleotide microarray is a valuable new tool for Atlantic cod functional genomics research. The Author(s), 2010 Atlantic cod nationallicence Aquaculture nationallicence Microarray nationallicence Gene expression profiling nationallicence Booman Marije Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut Borza Tudor Genome Atlantic, 1721 Lower Water Street, B3J 1S5, Halifax, NS, Canada aut Feng Charles Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut Hori Tiago Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut Higgins Brent Genome Atlantic, 1721 Lower Water Street, B3J 1S5, Halifax, NS, Canada aut Culf Adrian Atlantic Microarray Facility, Atlantic Cancer Research Institute, 35 Providence Street, E1C 8X3, Moncton, NB, Canada aut Léger Daniel Atlantic Microarray Facility, Atlantic Cancer Research Institute, 35 Providence Street, E1C 8X3, Moncton, NB, Canada aut Chute Ian Atlantic Microarray Facility, Atlantic Cancer Research Institute, 35 Providence Street, E1C 8X3, Moncton, NB, Canada aut Belkaid Anissa Atlantic Microarray Facility, Atlantic Cancer Research Institute, 35 Providence Street, E1C 8X3, Moncton, NB, Canada aut Rise Marlies Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut Gamperl A. Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut Hubert Sophie Genome Atlantic, 1721 Lower Water Street, B3J 1S5, Halifax, NS, Canada aut Kimball Jennifer NRC Institute for Marine Biosciences, 1411 Oxford Street, B3H 3Z1, Halifax, NS, Canada aut Ouellette Rodney Atlantic Microarray Facility, Atlantic Cancer Research Institute, 35 Providence Street, E1C 8X3, Moncton, NB, Canada aut Johnson Stewart Pacific Biological Station, Fisheries and Oceans Canada, V9T 6N7, Nanaimo, BC, Canada aut Bowman Sharen Genome Atlantic, 1721 Lower Water Street, B3J 1S5, Halifax, NS, Canada aut Rise Matthew Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut Marine Biotechnology Springer-Verlag 13/4(2011-08-01), 733-750 1436-2228 13:4<733 2011 13 10126 https://doi.org/10.1007/s10126-010-9335-6 text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s10126-010-9335-6 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Booman Marije Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut NATIONALLICENCE 700 1- Borza Tudor Genome Atlantic, 1721 Lower Water Street, B3J 1S5, Halifax, NS, Canada aut NATIONALLICENCE 700 1- Feng Charles Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut NATIONALLICENCE 700 1- Hori Tiago Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut NATIONALLICENCE 700 1- Higgins Brent Genome Atlantic, 1721 Lower Water Street, B3J 1S5, Halifax, NS, Canada aut NATIONALLICENCE 700 1- Culf Adrian Atlantic Microarray Facility, Atlantic Cancer Research Institute, 35 Providence Street, E1C 8X3, Moncton, NB, Canada aut NATIONALLICENCE 700 1- Léger Daniel Atlantic Microarray Facility, Atlantic Cancer Research Institute, 35 Providence Street, E1C 8X3, Moncton, NB, Canada aut NATIONALLICENCE 700 1- Chute Ian Atlantic Microarray Facility, Atlantic Cancer Research Institute, 35 Providence Street, E1C 8X3, Moncton, NB, Canada aut NATIONALLICENCE 700 1- Belkaid Anissa Atlantic Microarray Facility, Atlantic Cancer Research Institute, 35 Providence Street, E1C 8X3, Moncton, NB, Canada aut NATIONALLICENCE 700 1- Rise Marlies Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut NATIONALLICENCE 700 1- Gamperl A. Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut NATIONALLICENCE 700 1- Hubert Sophie Genome Atlantic, 1721 Lower Water Street, B3J 1S5, Halifax, NS, Canada aut NATIONALLICENCE 700 1- Kimball Jennifer NRC Institute for Marine Biosciences, 1411 Oxford Street, B3H 3Z1, Halifax, NS, Canada aut NATIONALLICENCE 700 1- Ouellette Rodney Atlantic Microarray Facility, Atlantic Cancer Research Institute, 35 Providence Street, E1C 8X3, Moncton, NB, Canada aut NATIONALLICENCE 700 1- Johnson Stewart Pacific Biological Station, Fisheries and Oceans Canada, V9T 6N7, Nanaimo, BC, Canada aut NATIONALLICENCE 700 1- Bowman Sharen Genome Atlantic, 1721 Lower Water Street, B3J 1S5, Halifax, NS, Canada aut NATIONALLICENCE 700 1- Rise Matthew Ocean Sciences Centre, Memorial University of Newfoundland, 1 Marine Lab Road, A1C 5S7, St. John's, NL, Canada aut NATIONALLICENCE 773 0- Marine Biotechnology Springer-Verlag 13/4(2011-08-01), 733-750 1436-2228 13:4<733 2011 13 10126 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer