%0 Journal Article %J Science %D 2010 %T Functional and evolutionary insights from the genomes of three parasitoid Nasonia species. %A Werren, John H %A Richards, Stephen %A Desjardins, Christopher A %A Niehuis, Oliver %A Gadau, Jürgen %A Colbourne, John K %A Werren, John H %A Richards, Stephen %A Desjardins, Christopher A %A Niehuis, Oliver %A Gadau, Jürgen %A Colbourne, John K %A Beukeboom, Leo W %A Desplan, Claude %A Elsik, Christine G %A Grimmelikhuijzen, Cornelis J P %A Kitts, Paul %A Lynch, Jeremy A %A Murphy, Terence %A Oliveira, Deodoro C S G %A Smith, Christopher D %A van de Zande, Louis %A Worley, Kim C %A Zdobnov, Evgeny M %A Aerts, Maarten %A Albert, Stefan %A Anaya, Victor H %A Anzola, Juan M %A Barchuk, Angel R %A Behura, Susanta K %A Bera, Agata N %A Berenbaum, May R %A Bertossa, Rinaldo C %A Bitondi, Márcia M G %A Bordenstein, Seth R %A Bork, Peer %A Bornberg-Bauer, Erich %A Brunain, Marleen %A Cazzamali, Giuseppe %A Chaboub, Lesley %A Chacko, Joseph %A Chavez, Dean %A Childers, Christopher P %A Choi, Jeong-Hyeon %A Clark, Michael E %A Claudianos, Charles %A Clinton, Rochelle A %A Cree, Andrew G %A Cristino, Alexandre S %A Dang, Phat M %A Darby, Alistair C %A de Graaf, Dirk C %A Devreese, Bart %A Dinh, Huyen H %A Edwards, Rachel %A Elango, Navin %A Elhaik, Eran %A Ermolaeva, Olga %A Evans, Jay D %A Forêt, Sylvain %A Fowler, Gerald R %A Gerlach, Daniel %A Gibson, Joshua D %A Gilbert, Donald G %A Graur, Dan %A Gründer, Stefan %A Hagen, Darren E %A Han, Yi %A Hauser, Frank %A Hultmark, Da %A Hunter, Henry C %A Hurst, Gregory D D %A Jhangian, Shalini N %A Jiang, Huaiyang %A Johnson, Reed M %A Jones, Andrew K %A Junier, Thomas %A Kadowaki, Tatsuhiko %A Kamping, Albert %A Kapustin, Yuri %A Kechavarzi, Bobak %A Kim, Jaebum %A Kim, Jay %A Kiryutin, Boris %A Koevoets, Tosca %A Kovar, Christie L %A Kriventseva, Evgenia V %A Kucharski, Robert %A Lee, Heewook %A Lee, Sandra L %A Lees, Kristin %A Lewis, Lora R %A Loehlin, David W %A Logsdon, John M %A Lopez, Jacqueline A %A Lozado, Ryan J %A Maglott, Donna %A Maleszka, Ryszard %A Mayampurath, Anoop %A Mazur, Danielle J %A McClure, Marcella A %A Moore, Andrew D %A Morgan, Margaret B %A Muller, Jean %A Munoz-Torres, Monica C %A Muzny, Donna M %A Nazareth, Lynne V %A Neupert, Susanne %A Nguyen, Ngoc B %A Nunes, Francis M F %A Oakeshott, John G %A Okwuonu, Geoffrey O %A Pannebakker, Bart A %A Pejaver, Vikas R %A Peng, Zuogang %A Pratt, Stephen C %A Predel, Reinhard %A Pu, Ling-Ling %A Ranson, Hilary %A Raychoudhury, Rhitoban %A Rechtsteiner, Andreas %A Reese, Justin T %A Reid, Jeffrey G %A Riddle, Megan %A Robertson, Hugh M %A Romero-Severson, Jeanne %A Rosenberg, Miriam %A Sackton, Timothy B %A Sattelle, David B %A Schlüns, Helge %A Schmitt, Thomas %A Schneider, Martina %A Schüler, Andreas %A Schurko, Andrew M %A Shuker, David M %A Simões, Zilá L P %A Sinha, Saurabh %A Smith, Zachary %A Solovyev, Victor %A Souvorov, Alexandre %A Springauf, Andreas %A Stafflinger, Elisabeth %A Stage, Deborah E %A Stanke, Mario %A Tanaka, Yoshiaki %A Telschow, Arndt %A Trent, Carol %A Vattathil, Selina %A Verhulst, Eveline C %A Viljakainen, Lumi %A Wanner, Kevin W %A Waterhouse, Robert M %A Whitfield, James B %A Wilkes, Timothy E %A Williamson, Michael %A Willis, Judith H %A Wolschin, Florian %A Wyder, Stefan %A Yamada, Takuji %A Yi, Soojin V %A Zecher, Courtney N %A Zhang, Lan %A Gibbs, Richard A %K Animals %K Arthropods %K Biological Evolution %K DNA Methylation %K DNA Transposable Elements %K Female %K Gene Transfer, Horizontal %K Genes, Insect %K Genetic Speciation %K Genetic Variation %K Genome, Insect %K Host-Parasite Interactions %K Insect Proteins %K Insect Viruses %K Insecta %K Male %K Molecular Sequence Data %K Quantitative Trait Loci %K Recombination, Genetic %K Sequence Analysis, DNA %K Wasp Venoms %K Wasps %K Wolbachia %X

We report here genome sequences and comparative analyses of three closely related parasitoid wasps: Nasonia vitripennis, N. giraulti, and N. longicornis. Parasitoids are important regulators of arthropod populations, including major agricultural pests and disease vectors, and Nasonia is an emerging genetic model, particularly for evolutionary and developmental genetics. Key findings include the identification of a functional DNA methylation tool kit; hymenopteran-specific genes including diverse venoms; lateral gene transfers among Pox viruses, Wolbachia, and Nasonia; and the rapid evolution of genes involved in nuclear-mitochondrial interactions that are implicated in speciation. Newly developed genome resources advance Nasonia for genetic research, accelerate mapping and cloning of quantitative trait loci, and will ultimately provide tools and knowledge for further increasing the utility of parasitoids as pest insect-control agents.

%B Science %V 327 %P 343-8 %8 2010 Jan 15 %G eng %N 5963 %1 https://www.ncbi.nlm.nih.gov/pubmed/20075255?dopt=Abstract %R 10.1126/science.1178028 %0 Journal Article %J Science %D 2009 %T The genome sequence of taurine cattle: a window to ruminant biology and evolution. %A Elsik, Christine G %A Tellam, Ross L %A Worley, Kim C %A Gibbs, Richard A %A Muzny, Donna M %A Weinstock, George M %A Adelson, David L %A Eichler, Evan E %A Elnitski, Laura %A Guigó, Roderic %A Hamernik, Debora L %A Kappes, Steve M %A Lewin, Harris A %A Lynn, David J %A Nicholas, Frank W %A Reymond, Alexandre %A Rijnkels, Monique %A Skow, Loren C %A Zdobnov, Evgeny M %A Schook, Lawrence %A Womack, James %A Alioto, Tyler %A Antonarakis, Stylianos E %A Astashyn, Alex %A Chapple, Charles E %A Chen, Hsiu-Chuan %A Chrast, Jacqueline %A Camara, Francisco %A Ermolaeva, Olga %A Henrichsen, Charlotte N %A Hlavina, Wratko %A Kapustin, Yuri %A Kiryutin, Boris %A Kitts, Paul %A Kokocinski, Felix %A Landrum, Melissa %A Maglott, Donna %A Pruitt, Kim %A Sapojnikov, Victor %A Searle, Stephen M %A Solovyev, Victor %A Souvorov, Alexandre %A Ucla, Catherine %A Wyss, Carine %A Anzola, Juan M %A Gerlach, Daniel %A Elhaik, Eran %A Graur, Dan %A Reese, Justin T %A Edgar, Robert C %A McEwan, John C %A Payne, Gemma M %A Raison, Joy M %A Junier, Thomas %A Kriventseva, Evgenia V %A Eyras, Eduardo %A Plass, Mireya %A Donthu, Ravikiran %A Larkin, Denis M %A Reecy, James %A Yang, Mary Q %A Chen, Lin %A Cheng, Ze %A Chitko-McKown, Carol G %A Liu, George E %A Matukumalli, Lakshmi K %A Song, Jiuzhou %A Zhu, Bin %A Bradley, Daniel G %A Brinkman, Fiona S L %A Lau, Lilian P L %A Whiteside, Matthew D %A Walker, Angela %A Wheeler, Thomas T %A Casey, Theresa %A German, J Bruce %A Lemay, Danielle G %A Maqbool, Nauman J %A Molenaar, Adrian J %A Seo, Seongwon %A Stothard, Paul %A Baldwin, Cynthia L %A Baxter, Rebecca %A Brinkmeyer-Langford, Candice L %A Brown, Wendy C %A Childers, Christopher P %A Connelley, Timothy %A Ellis, Shirley A %A Fritz, Krista %A Glass, Elizabeth J %A Herzig, Carolyn T A %A Iivanainen, Antti %A Lahmers, Kevin K %A Bennett, Anna K %A Dickens, C Michael %A Gilbert, James G R %A Hagen, Darren E %A Salih, Hanni %A Aerts, Jan %A Caetano, Alexandre R %A Dalrymple, Brian %A Garcia, Jose Fernando %A Gill, Clare A %A Hiendleder, Stefan G %A Memili, Erdogan %A Spurlock, Diane %A Williams, John L %A Alexander, Lee %A Brownstein, Michael J %A Guan, Leluo %A Holt, Robert A %A Jones, Steven J M %A Marra, Marco A %A Moore, Richard %A Moore, Stephen S %A Roberts, Andy %A Taniguchi, Masaaki %A Waterman, Richard C %A Chacko, Joseph %A Chandrabose, Mimi M %A Cree, Andy %A Dao, Marvin Diep %A Dinh, Huyen H %A Gabisi, Ramatu Ayiesha %A Hines, Sandra %A Hume, Jennifer %A Jhangiani, Shalini N %A Joshi, Vandita %A Kovar, Christie L %A Lewis, Lora R %A Liu, Yih-Shin %A Lopez, John %A Morgan, Margaret B %A Nguyen, Ngoc Bich %A Okwuonu, Geoffrey O %A Ruiz, San Juana %A Santibanez, Jireh %A Wright, Rita A %A Buhay, Christian %A Ding, Yan %A Dugan-Rocha, Shannon %A Herdandez, Judith %A Holder, Michael %A Sabo, Aniko %A Egan, Amy %A Goodell, Jason %A Wilczek-Boney, Katarzyna %A Fowler, Gerald R %A Hitchens, Matthew Edward %A Lozado, Ryan J %A Moen, Charles %A Steffen, David %A Warren, James T %A Zhang, Jingkun %A Chiu, Readman %A Schein, Jacqueline E %A Durbin, K James %A Havlak, Paul %A Jiang, Huaiyang %A Liu, Yue %A Qin, Xiang %A Ren, Yanru %A Shen, Yufeng %A Song, Henry %A Bell, Stephanie Nicole %A Davis, Clay %A Johnson, Angela Jolivet %A Lee, Sandra %A Nazareth, Lynne V %A Patel, Bella Mayurkumar %A Pu, Ling-Ling %A Vattathil, Selina %A Williams, Rex Lee %A Curry, Stacey %A Hamilton, Cerissa %A Sodergren, Erica %A Wheeler, David A %A Barris, Wes %A Bennett, Gary L %A Eggen, André %A Green, Ronnie D %A Harhay, Gregory P %A Hobbs, Matthew %A Jann, Oliver %A Keele, John W %A Kent, Matthew P %A Lien, Sigbjørn %A McKay, Stephanie D %A McWilliam, Sean %A Ratnakumar, Abhirami %A Schnabel, Robert D %A Smith, Timothy %A Snelling, Warren M %A Sonstegard, Tad S %A Stone, Roger T %A Sugimoto, Yoshikazu %A Takasuga, Akiko %A Taylor, Jeremy F %A Van Tassell, Curtis P %A Macneil, Michael D %A Abatepaulo, Antonio R R %A Abbey, Colette A %A Ahola, Virpi %A Almeida, Iassudara G %A Amadio, Ariel F %A Anatriello, Elen %A Bahadue, Suria M %A Biase, Fernando H %A Boldt, Clayton R %A Carroll, Jeffery A %A Carvalho, Wanessa A %A Cervelatti, Eliane P %A Chacko, Elsa %A Chapin, Jennifer E %A Cheng, Ye %A Choi, Jungwoo %A Colley, Adam J %A de Campos, Tatiana A %A De Donato, Marcos %A Santos, Isabel K F de Miranda %A de Oliveira, Carlo J F %A Deobald, Heather %A Devinoy, Eve %A Donohue, Kaitlin E %A Dovc, Peter %A Eberlein, Annett %A Fitzsimmons, Carolyn J %A Franzin, Alessandra M %A Garcia, Gustavo R %A Genini, Sem %A Gladney, Cody J %A Grant, Jason R %A Greaser, Marion L %A Green, Jonathan A %A Hadsell, Darryl L %A Hakimov, Hatam A %A Halgren, Rob %A Harrow, Jennifer L %A Hart, Elizabeth A %A Hastings, Nicola %A Hernandez, Marta %A Hu, Zhi-Liang %A Ingham, Aaron %A Iso-Touru, Terhi %A Jamis, Catherine %A Jensen, Kirsty %A Kapetis, Dimos %A Kerr, Tovah %A Khalil, Sari S %A Khatib, Hasan %A Kolbehdari, Davood %A Kumar, Charu G %A Kumar, Dinesh %A Leach, Richard %A Lee, Justin C-M %A Li, Changxi %A Logan, Krystin M %A Malinverni, Roberto %A Marques, Elisa %A Martin, William F %A Martins, Natalia F %A Maruyama, Sandra R %A Mazza, Raffaele %A McLean, Kim L %A Medrano, Juan F %A Moreno, Barbara T %A Moré, Daniela D %A Muntean, Carl T %A Nandakumar, Hari P %A Nogueira, Marcelo F G %A Olsaker, Ingrid %A Pant, Sameer D %A Panzitta, Francesca %A Pastor, Rosemeire C P %A Poli, Mario A %A Poslusny, Nathan %A Rachagani, Satyanarayana %A Ranganathan, Shoba %A Razpet, Andrej %A Riggs, Penny K %A Rincon, Gonzalo %A Rodriguez-Osorio, Nelida %A Rodriguez-Zas, Sandra L %A Romero, Natasha E %A Rosenwald, Anne %A Sando, Lillian %A Schmutz, Sheila M %A Shen, Libing %A Sherman, Laura %A Southey, Bruce R %A Lutzow, Ylva Strandberg %A Sweedler, Jonathan V %A Tammen, Imke %A Telugu, Bhanu Prakash V L %A Urbanski, Jennifer M %A Utsunomiya, Yuri T %A Verschoor, Chris P %A Waardenberg, Ashley J %A Wang, Zhiquan %A Ward, Robert %A Weikard, Rosemarie %A Welsh, Thomas H %A White, Stephen N %A Wilming, Laurens G %A Wunderlich, Kris R %A Yang, Jianqi %A Zhao, Feng-Qi %K Alternative Splicing %K Animals %K Animals, Domestic %K Biological Evolution %K Cattle %K Evolution, Molecular %K Female %K Genetic Variation %K Genome %K Humans %K Male %K MicroRNAs %K Molecular Sequence Data %K Proteins %K Sequence Analysis, DNA %K Species Specificity %K Synteny %X

To understand the biology and evolution of ruminants, the cattle genome was sequenced to about sevenfold coverage. The cattle genome contains a minimum of 22,000 genes, with a core set of 14,345 orthologs shared among seven mammalian species of which 1217 are absent or undetected in noneutherian (marsupial or monotreme) genomes. Cattle-specific evolutionary breakpoint regions in chromosomes have a higher density of segmental duplications, enrichment of repetitive elements, and species-specific variations in genes associated with lactation and immune responsiveness. Genes involved in metabolism are generally highly conserved, although five metabolic genes are deleted or extensively diverged from their human orthologs. The cattle genome sequence thus provides a resource for understanding mammalian evolution and accelerating livestock genetic improvement for milk and meat production.

%B Science %V 324 %P 522-8 %8 2009 Apr 24 %G eng %N 5926 %1 https://www.ncbi.nlm.nih.gov/pubmed/19390049?dopt=Abstract %R 10.1126/science.1169588 %0 Journal Article %J Science %D 2006 %T The genome of the sea urchin Strongylocentrotus purpuratus. %A Sodergren, Erica %A Weinstock, George M %A Davidson, Eric H %A Cameron, R Andrew %A Gibbs, Richard A %A Angerer, Robert C %A Angerer, Lynne M %A Arnone, Maria Ina %A Burgess, David R %A Burke, Robert D %A Coffman, James A %A Dean, Michael %A Elphick, Maurice R %A Ettensohn, Charles A %A Foltz, Kathy R %A Hamdoun, Amro %A Hynes, Richard O %A Klein, William H %A Marzluff, William %A McClay, David R %A Morris, Robert L %A Mushegian, Arcady %A Rast, Jonathan P %A Smith, L Courtney %A Thorndyke, Michael C %A Vacquier, Victor D %A Wessel, Gary M %A Wray, Greg %A Zhang, Lan %A Elsik, Christine G %A Ermolaeva, Olga %A Hlavina, Wratko %A Hofmann, Gretchen %A Kitts, Paul %A Landrum, Melissa J %A Mackey, Aaron J %A Maglott, Donna %A Panopoulou, Georgia %A Poustka, Albert J %A Pruitt, Kim %A Sapojnikov, Victor %A Song, Xingzhi %A Souvorov, Alexandre %A Solovyev, Victor %A Wei, Zheng %A Whittaker, Charles A %A Worley, Kim %A Durbin, K James %A Shen, Yufeng %A Fedrigo, Olivier %A Garfield, David %A Haygood, Ralph %A Primus, Alexander %A Satija, Rahul %A Severson, Tonya %A Gonzalez-Garay, Manuel L %A Jackson, Andrew R %A Milosavljevic, Aleksandar %A Tong, Mark %A Killian, Christopher E %A Livingston, Brian T %A Wilt, Fred H %A Adams, Nikki %A Bellé, Robert %A Carbonneau, Seth %A Cheung, Rocky %A Cormier, Patrick %A Cosson, Bertrand %A Croce, Jenifer %A Fernandez-Guerra, Antonio %A Genevière, Anne-Marie %A Goel, Manisha %A Kelkar, Hemant %A Morales, Julia %A Mulner-Lorillon, Odile %A Robertson, Anthony J %A Goldstone, Jared V %A Cole, Bryan %A Epel, David %A Gold, Bert %A Hahn, Mark E %A Howard-Ashby, Meredith %A Scally, Mark %A Stegeman, John J %A Allgood, Erin L %A Cool, Jonah %A Judkins, Kyle M %A McCafferty, Shawn S %A Musante, Ashlan M %A Obar, Robert A %A Rawson, Amanda P %A Rossetti, Blair J %A Gibbons, Ian R %A Hoffman, Matthew P %A Leone, Andrew %A Istrail, Sorin %A Materna, Stefan C %A Samanta, Manoj P %A Stolc, Viktor %A Tongprasit, Waraporn %A Tu, Qiang %A Bergeron, Karl-Frederik %A Brandhorst, Bruce P %A Whittle, James %A Berney, Kevin %A Bottjer, David J %A Calestani, Cristina %A Peterson, Kevin %A Chow, Elly %A Yuan, Qiu Autumn %A Elhaik, Eran %A Graur, Dan %A Reese, Justin T %A Bosdet, Ian %A Heesun, Shin %A Marra, Marco A %A Schein, Jacqueline %A Anderson, Michele K %A Brockton, Virginia %A Buckley, Katherine M %A Cohen, Avis H %A Fugmann, Sebastian D %A Hibino, Taku %A Loza-Coll, Mariano %A Majeske, Audrey J %A Messier, Cynthia %A Nair, Sham V %A Pancer, Zeev %A Terwilliger, David P %A Agca, Cavit %A Arboleda, Enrique %A Chen, Nansheng %A Churcher, Allison M %A Hallböök, F %A Humphrey, Glen W %A Idris, Mohammed M %A Kiyama, Takae %A Liang, Shuguang %A Mellott, Dan %A Mu, Xiuqian %A Murray, Greg %A Olinski, Robert P %A Raible, Florian %A Rowe, Matthew %A Taylor, John S %A Tessmar-Raible, Kristin %A Wang, D %A Wilson, Karen H %A Yaguchi, Shunsuke %A Gaasterland, Terry %A Galindo, Blanca E %A Gunaratne, Herath J %A Juliano, Celina %A Kinukawa, Masashi %A Moy, Gary W %A Neill, Anna T %A Nomura, Mamoru %A Raisch, Michael %A Reade, Anna %A Roux, Michelle M %A Song, Jia L %A Su, Yi-Hsien %A Townley, Ian K %A Voronina, Ekaterina %A Wong, Julian L %A Amore, Gabriele %A Branno, Margherita %A Brown, Euan R %A Cavalieri, Vincenzo %A Duboc, Véronique %A Duloquin, Louise %A Flytzanis, Constantin %A Gache, Christian %A Lapraz, François %A Lepage, Thierry %A Locascio, Annamaria %A Martinez, Pedro %A Matassi, Giorgio %A Matranga, Valeria %A Range, Ryan %A Rizzo, Francesca %A Röttinger, Eric %A Beane, Wendy %A Bradham, Cynthia %A Byrum, Christine %A Glenn, Tom %A Hussain, Sofia %A Manning, Gerard %A Miranda, Esther %A Thomason, Rebecca %A Walton, Katherine %A Wikramanayke, Athula %A Wu, Shu-Yu %A Xu, Ronghui %A Brown, C Titus %A Chen, Lili %A Gray, Rachel F %A Lee, Pei Yun %A Nam, Jongmin %A Oliveri, Paola %A Smith, Joel %A Muzny, Donna %A Bell, Stephanie %A Chacko, Joseph %A Cree, Andrew %A Curry, Stacey %A Davis, Clay %A Dinh, Huyen %A Dugan-Rocha, Shannon %A Fowler, Jerry %A Gill, Rachel %A Hamilton, Cerrissa %A Hernandez, Judith %A Hines, Sandra %A Hume, Jennifer %A Jackson, Laronda %A Jolivet, Angela %A Kovar, Christie %A Lee, Sandra %A Lewis, Lora %A Miner, George %A Morgan, Margaret %A Nazareth, Lynne V %A Okwuonu, Geoffrey %A Parker, David %A Pu, Ling-Ling %A Thorn, Rachel %A Wright, Rita %K Animals %K Calcification, Physiologic %K Cell Adhesion Molecules %K Complement Activation %K Computational Biology %K Embryonic Development %K Evolution, Molecular %K Gene Expression Regulation, Developmental %K Genes %K Genome %K Immunity, Innate %K Immunologic Factors %K Male %K Nervous System Physiological Phenomena %K Proteins %K Sequence Analysis, DNA %K Signal Transduction %K Strongylocentrotus purpuratus %K Transcription Factors %X

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.

%B Science %V 314 %P 941-52 %8 2006 Nov 10 %G eng %N 5801 %1 https://www.ncbi.nlm.nih.gov/pubmed/17095691?dopt=Abstract %R 10.1126/science.1133609