The genome of the sea urchin Strongylocentrotus purpuratus.

TitleThe genome of the sea urchin Strongylocentrotus purpuratus.
Publication TypeJournal Article
Year of Publication2006
AuthorsSodergren, E, Weinstock, GM, Davidson, EH, R Cameron, A, Gibbs, RA, Angerer, RC, Angerer, LM, Arnone, MIna, Burgess, DR, Burke, RD, Coffman, JA, Dean, M, Elphick, MR, Ettensohn, CA, Foltz, KR, Hamdoun, A, Hynes, RO, Klein, WH, Marzluff, W, McClay, DR, Morris, RL, Mushegian, A, Rast, JP, L Smith, C, Thorndyke, MC, Vacquier, VD, Wessel, GM, Wray, G, Zhang, L, Elsik, CG, Ermolaeva, O, Hlavina, W, Hofmann, G, Kitts, P, Landrum, MJ, Mackey, AJ, Maglott, D, Panopoulou, G, Poustka, AJ, Pruitt, K, Sapojnikov, V, Song, X, Souvorov, A, Solovyev, V, Wei, Z, Whittaker, CA, Worley, K, K Durbin, J, Shen, Y, Fedrigo, O, Garfield, D, Haygood, R, Primus, A, Satija, R, Severson, T, Gonzalez-Garay, ML, Jackson, AR, Milosavljevic, A, Tong, M, Killian, CE, Livingston, BT, Wilt, FH, Adams, N, Bellé, R, Carbonneau, S, Cheung, R, Cormier, P, Cosson, B, Croce, J, Fernandez-Guerra, A, Genevière, A-M, Goel, M, Kelkar, H, Morales, J, Mulner-Lorillon, O, Robertson, AJ, Goldstone, JV, Cole, B, Epel, D, Gold, B, Hahn, ME, Howard-Ashby, M, Scally, M, Stegeman, JJ, Allgood, EL, Cool, J, Judkins, KM, McCafferty, SS, Musante, AM, Obar, RA, Rawson, AP, Rossetti, BJ, Gibbons, IR, Hoffman, MP, Leone, A, Istrail, S, Materna, SC, Samanta, MP, Stolc, V, Tongprasit, W, Tu, Q, Bergeron, K-F, Brandhorst, BP, Whittle, J, Berney, K, Bottjer, DJ, Calestani, C, Peterson, K, Chow, E, Yuan, QAutumn, Elhaik, E, Graur, D, Reese, JT, Bosdet, I, Heesun, S, Marra, MA, Schein, J, Anderson, MK, Brockton, V, Buckley, KM, Cohen, AH, Fugmann, SD, Hibino, T, Loza-Coll, M, Majeske, AJ, Messier, C, Nair, SV, Pancer, Z, Terwilliger, DP, Agca, C, Arboleda, E, Chen, N, Churcher, AM, Hallböök, F, Humphrey, GW, Idris, MM, Kiyama, T, Liang, S, Mellott, D, Mu, X, Murray, G, Olinski, RP, Raible, F, Rowe, M, Taylor, JS, Tessmar-Raible, K, Wang, D, Wilson, KH, Yaguchi, S, Gaasterland, T, Galindo, BE, Gunaratne, HJ, Juliano, C, Kinukawa, M, Moy, GW, Neill, AT, Nomura, M, Raisch, M, Reade, A, Roux, MM, Song, JL, Su, Y-H, Townley, IK, Voronina, E, Wong, JL, Amore, G, Branno, M, Brown, ER, Cavalieri, V, Duboc, V, Duloquin, L, Flytzanis, C, Gache, C, Lapraz, F, Lepage, T, Locascio, A, Martinez, P, Matassi, G, Matranga, V, Range, R, Rizzo, F, Röttinger, E, Beane, W, Bradham, C, Byrum, C, Glenn, T, Hussain, S, Manning, G, Miranda, E, Thomason, R, Walton, K, Wikramanayke, A, Wu, S-Y, Xu, R, C Brown, T, Chen, L, Gray, RF, Lee, PYun, Nam, J, Oliveri, P, Smith, J, Muzny, D, Bell, S, Chacko, J, Cree, A, Curry, S, Davis, C, Dinh, H, Dugan-Rocha, S, Fowler, J, Gill, R, Hamilton, C, Hernandez, J, Hines, S, Hume, J, Jackson, L, Jolivet, A, Kovar, C, Lee, S, Lewis, L, Miner, G, Morgan, M, Nazareth, LV, Okwuonu, G, Parker, D, Pu, L-L, Thorn, R, Wright, R
Corporate AuthorsSea Urchin Genome Sequencing Consortium
JournalScience
Volume314
Issue5801
Pagination941-52
Date Published2006 Nov 10
ISSN1095-9203
KeywordsAnimals, Calcification, Physiologic, Cell Adhesion Molecules, Complement Activation, Computational Biology, Embryonic Development, Evolution, Molecular, Gene Expression Regulation, Developmental, Genes, Genome, Immunity, Innate, Immunologic Factors, Male, Nervous System Physiological Phenomena, Proteins, Sequence Analysis, DNA, Signal Transduction, Strongylocentrotus purpuratus, Transcription Factors
Abstract

We report the sequence and analysis of the 814-megabase genome of the sea urchin Strongylocentrotus purpuratus, a model for developmental and systems biology. The sequencing strategy combined whole-genome shotgun and bacterial artificial chromosome (BAC) sequences. This use of BAC clones, aided by a pooling strategy, overcame difficulties associated with high heterozygosity of the genome. The genome encodes about 23,300 genes, including many previously thought to be vertebrate innovations or known only outside the deuterostomes. This echinoderm genome provides an evolutionary outgroup for the chordates and yields insights into the evolution of deuterostomes.

DOI10.1126/science.1133609
Alternate JournalScience
PubMed ID17095691
PubMed Central IDPMC3159423
Grant ListP42 ES007381 / ES / NIEHS NIH HHS / United States
R37-HD12896 / HD / NICHD NIH HHS / United States
GM058231 / GM / NIGMS NIH HHS / United States
P01 HD037105 / HD / NICHD NIH HHS / United States
2P42 ESO7381 / / PHS HHS / United States
F32 HD047136 / HD / NICHD NIH HHS / United States
F32 HD047136-03 / HD / NICHD NIH HHS / United States
GM61005 / GM / NIGMS NIH HHS / United States
R01 ES006272 / ES / NIEHS NIH HHS / United States
T32 GM007601 / GM / NIGMS NIH HHS / United States
P01 HD039948 / HD / NICHD NIH HHS / United States
S19916 / / Biotechnology and Biological Sciences Research Council / United Kingdom
P40 OD010959 / OD / NIH HHS / United States
R01 GM061005 / GM / NIGMS NIH HHS / United States
P30 CA014051 / CA / NCI NIH HHS / United States
R43 CA093106 / CA / NCI NIH HHS / United States
R01 GM070840 / GM / NIGMS NIH HHS / United States
GM61464 / GM / NIGMS NIH HHS / United States
U54 HG003273 / HG / NHGRI NIH HHS / United States
P30-CA14051 / CA / NCI NIH HHS / United States
F32 ES012794 / ES / NIEHS NIH HHS / United States
EY11930 / EY / NEI NIH HHS / United States
R01 HD028152 / HD / NICHD NIH HHS / United States
R01 EY011930 / EY / NEI NIH HHS / United States
F32 ESO12794 / / PHS HHS / United States
RR-15044 / RR / NCRR NIH HHS / United States
R01 HD014483 / HD / NICHD NIH HHS / United States
R01 GM058231 / GM / NIGMS NIH HHS / United States
HD14483 / HD / NICHD NIH HHS / United States
HD039948 / HD / NICHD NIH HHS / United States
HD66219 / HD / NICHD NIH HHS / United States
F32-HD47136 / HD / NICHD NIH HHS / United States
R44 CA093106 / CA / NCI NIH HHS / United States
R01ES006272 / ES / NIEHS NIH HHS / United States
5 U54 HG003273 / HG / NHGRI NIH HHS / United States
F32 HD047136-02 / HD / NICHD NIH HHS / United States
P40 RR015044 / RR / NCRR NIH HHS / United States
GM070840 / GM / NIGMS NIH HHS / United States
HD-37105 / HD / NICHD NIH HHS / United States
R01 ES006272-13 / ES / NIEHS NIH HHS / United States
R01 HD066219 / HD / NICHD NIH HHS / United States
R01 GM061464 / GM / NIGMS NIH HHS / United States