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Evolution of sexual traits influencing vectorial capacity in anopheline mosquitoes

Mitchell SN, Kakani EG, South A, Howell PI, Waterhouse RM, Catteruccia F.
Science
PMID: 25722409

A Massive Expansion of Effector Genes Underlies Gall-Formation in the Wheat Pest Mayetiola destructor

Zhao C, Escalante LN, Chen H, Benatti TR, Qu J, Chellapilla S, Waterhouse RM, Wheeler D, Andersson MN, Bao R, Batterton M, Behura SK, Blankenburg KP, Caragea D, Carolan JC, Coyle M, El-Bouhssini M, Francisco L, Friedrich M, Gill N, Grace T, Grimmelikhuijzen CJ, Han Y, Hauser F, Herndon N, Holder M, Ioannidis P, Jackson L, Javaid M, Jhangiani SN, Johnson AJ, Kalra D, Korchina V, Kovar CL, Lara F, Lee SL, Liu X, Löfstedt C, Mata R, Mathew T, Muzny DM, Nagar S, Nazareth LV, Okwuonu G, Ongeri F, Perales L, Peterson BF, Pu LL, Robertson HM, Schemerhorn BJ, Scherer SE, Shreve JT, Simmons D, Subramanyam S, Thornton RL, Xue K, Weissenberger GM, Williams CE, Worley KC, Zhu D, Zhu Y, Harris MO, Shukle RH, Werren JH, Zdobnov EM, Chen MS, Brown SJ, Stuart JJ, Richards S.
Curr Biol.
PMID: 25660540

Highly evolvable malaria vectors: the genomes of 16 Anopheles mosquitoes

Neafsey DE, Waterhouse RM, Abai MR, Aganezov SS, Alekseyev MA, Allen JE, Amon J, Arcà B, Arensburger P, Artemov G, Assour LA, Basseri H, Berlin A, Birren BW, Blandin SA, Brockman AI, Burkot TR, Burt A, Chan CS, Chauve C, Chiu JC, Christensen M, Costantini C, Davidson VL, Deligianni E, Dottorini T, Dritsou V, Gabriel SB, Guelbeogo WM, Hall AB, Han MV, Hlaing T, Hughes DS, Jenkins AM, Jiang X, Jungreis I, Kakani EG, Kamali M, Kemppainen P, Kennedy RC, Kirmitzoglou IK, Koekemoer LL, Laban N, Langridge N, Lawniczak MK, Lirakis M, Lobo NF, Lowy E, MacCallum RM, Mao C, Maslen G, Mbogo C, McCarthy J, Michel K, Mitchell SN, Moore W, Murphy KA, Naumenko AN, Nolan T, Novoa EM, O'Loughlin S, Oringanje C, Oshaghi MA, Pakpour N, Papathanos PA, Peery AN, Povelones M, Prakash A, Price DP, Rajaraman A, Reimer LJ, Rinker DC, Rokas A, Russell TL, Sagnon N, Sharakhova MV, Shea T, Simão FA, Simard F, Slotman MA, Somboon P, Stegniy V, Struchiner CJ, Thomas GW, Tojo M, Topalis P, Tubio JM, Unger MF, Vontas J, Walton C, Wilding CS, Willis JH, Wu YC, Yan G, Zdobnov EM, Zhou X, Catteruccia F, Christophides GK, Collins FH, Cornman RS, Crisanti A, Donnelly MJ, Emrich SJ, Fontaine MC, Gelbart W, Hahn MW, Hansen IA, Howell PI, Kafatos FC, Kellis M, Lawson D, Louis C, Luckhart S, Muskavitch MA, Ribeiro JM, Riehle MA, Sharakhov IV, Tu Z, Zwiebel LJ, Besansky NJ.
Science
PMID: 25554792

Extensive introgression in a malaria vector species complex revealed by phylogenomics

Fontaine MC, Pease JB, Steele A, Waterhouse RM, Neafsey DE, Sharakhov IV, Jiang X, Hall AB, Catteruccia F, Kakani E, Mitchell SN, Wu YC, Smith HA, Love RR, Lawniczak MK, Slotman MA, Emrich SJ, Hahn MW, Besansky NJ.
Science
PMID: 25431491

OrthoDB v8: update of the hierarchical catalog of orthologs and the underlying free software

Kriventseva EV, Tegenfeldt F, Petty TJ, Waterhouse RM, Simão FA, Pozdnyakov IA, Ioannidis P, Zdobnov EM.
Nucleic Acids Res.
PMID: 25428351

Phylogenetic analysis of the oriental-Palearctic-Afrotropical members of Anopheles (Culicidae: Diptera) based on nuclear rDNA an

Karimian F, Oshaghi MA, Sedaghat MM, Waterhouse RM, Vatandoost H, Hanafi-Bojd AA, Ravasan NM, Chavshin AR.
Jpn J Infect Dis
PMID: 25241686

The evolution of the anopheles 16 genomes project

Neafsey DE, Christophides GK, Collins FH, Emrich SJ, Fontaine MC, Gelbart W, Hahn MW, Howell PI, Kafatos FC, Lawson D, Muskavitch MA, Waterhouse RM, Williams LJ, Besansky NJ.
PMID: 23708298

Social insect genomes: dramatic evolution in gene composition & regulation, preserving regulatory features linked to sociality

Simola DF, Wissler L, Donahue G, Waterhouse RM, Helmkampf M, Roux J, Nygaard S, Glastad K, Hagen DE, Viljakainen L, Reese JT, Hunt BG, Graur D, Elhaik E, Kriventseva E, Wen J, Parker BJ, Cash E, Privman E, Childers CP, Munos-Torres MC, Boomsma JJ, Bornberg-Bauer E, Currie C, Elsik CG, Suen G, Goodisman MA, Keller L, Liebig J, Rawls A, Reinberg D, Smith CD, Smith CR, Tsutsui N, Wurm Y, Zdobnov EM, Berger SL, Gadau J.
Genome Research
PMID: 23636946

OrthoDB: a hierarchical catalog of animal, fungal and bacterial orthologs

Waterhouse RM, Tegenfeldt F, Li J, Zdobnov EM, Kriventseva EV.
Nucleic Acids Res.
PMID: 23180791

A remarkably stable TipE gene cluster: evolution of insect Para sodium channel auxiliary subunits

Li J, Waterhouse RM and Zdobnov EM
BMC Evolutionary Biology 2011, 11:337 (18 November 2011)
PMID: 22098672

OrthoDB: the hierarchical catalog of eukaryotic orthologs in 2011.

Waterhouse RM, Zdobnov EM, Tegenfeldt F, Li J, Kriventseva EV.
Nucleic Acids Res.
PMID: 20972218

Correlating traits of gene retention, sequence divergence, duplicability and essentiality in vertebrates, arthropods, and fungi.

Waterhouse RM, Zdobnov EM, Kriventseva EV.
Genome Biol Evol
PMID: 21148284

Pathogenomics of Culex quinquefasciatus and meta-analysis of infection responses to diverse pathogens

Bartholomay LC, Waterhouse RM, Mayhew GF, Campbell CL, Michel K, Zou Z, Ramirez JL, Das S, Alvarez K, Arensburger P, Bryant B, Chapman SB, Dong Y, Erickson SM, Karunaratne SH, Kokoza V, Kodira CD, Pignatelli P, Shin SW, Vanlandingham DL, Atkinson PW, Birren B, Christophides GK, Clem RJ, Hemingway J, Higgs S, Megy K, Ranson H, Zdobnov EM, Raikhel AS, Christensen BM, Dimopoulos G, Muskavitch MA.
Science
PMID: 20929811

Sequencing of Culex quinquefasciatus establishes a platform for mosquito comparative genomics

Arensburger P, Megy K, Waterhouse RM, Abrudan J, Amedeo P, Antelo B, Bartholomay L, Bidwell S, Caler E, Camara F, Campbell CL, Campbell KS, Casola C, Castro MT, Chandramouliswaran I, Chapman SB, Christley S, Costas J, Eisenstadt E, Feschotte C, Fraser-Liggett C, Guigo R, Haas B, Hammond M, Hansson BS, Hemingway J, Hill SR, Howarth C, Ignell R, Kennedy RC, Kodira CD, Lobo NF, Mao C, Mayhew G, Michel K, Mori A, Liu N, Naveira H, Nene V, Nguyen N, Pearson MD, Pritham EJ, Puiu D, Qi Y, Ranson H, Ribeiro JM, Roberston HM, Severson DW, Shumway M, Stanke M, Strausberg RL, Sun C, Sutton G, Tu ZJ, Tubio JM, Unger MF, Vanlandingham DL, Vilella AJ, White O, White JR, Wondji CS, Wortman J, Zdobnov EM, Birren B, Christensen BM, Collins FH, Cornel A, Dimopoulos G, Hannick LI, Higgs S, Lanzaro GC, Lawson D, Lee NH, Muskavitch MA, Raikhel AS, Atkinson PW.
Science
PMID: 20929810

Sequence-structure-function relations of the mosquito leucine-rich repeat immune proteins

Waterhouse RM, Povelones M, Christophides GK.
BMC Genomics
PMID: 20920294

Genome sequences of the human body louse and its primary endosymbiont provide insights into the permanent parasitic lifestyle

Kirkness EF, Haas BJ, Sun W, Braig HR, Perotti MA, Clark JM, Lee SH, Robertson HM, Kennedy RC, Elhaik E, Gerlach D, Kriventseva EV, Elsik CG, Graur D, Hill CA, Veenstra JA, Walenz B, Tubío JM, Ribeiro JM, Rozas J, Johnston JS, Reese JT, Popadic A, Tojo M, Raoult D, Reed DL, Tomoyasu Y, Krause E, Mittapalli O, Margam VM, Li HM, Meyer JM, Johnson RM, Romero-Severson J, Vanzee JP, Alvarez-Ponce D, Vieira FG, Aguadé M, Guirao-Rico S, Anzola JM, Yoon KS, Strycharz JP, Unger MF, Christley S, Lobo NF, Seufferheld MJ, Wang N, Dasch GA, Struchiner CJ, Madey G, Hannick LI, Bidwell S, Joardar V, Caler E, Shao R, Barker SC, Cameron S, Bruggner RV, Regier A, Johnson J, Viswanathan L, Utterback TR, Sutton GG, Lawson D, Waterhouse RM, Venter JC, Strausberg RL, Berenbaum MR, Collins FH, Zdobnov EM, Pittendrigh BR
Proc Natl Acad Sci U S A. 2010 Jun 21. [Epub ahead of print]
PMID: 20566863

A caspase-like decoy molecule enhances the activity of a paralogous caspase in the yellow fever mosquito, Aedes aegypti.

Bryant B, Ungerer MC, Liu Q, Waterhouse RM, Clem RJ.
Insect Biochem Mol Biol.
PMID: 20417712

Functional and evolutionary insights from the genomes of three parasitoid Nasonia species

The Nasonia Genome Working Group (incl. Junier T, Gerlach D, Waterhouse RM, Kriventseva EV, Wyder S, Zdobnov EM)
Science. 2010 Jan 15;327(5963):343-8.
PMID: 20075255

Discovery of Plasmodium modulators by genome-wide analysis of circulating hemocytes in Anopheles gambiae.

Pinto SB, Lombardo F, Koutsos AC, Waterhouse RM, McKay K, An C, Ramakrishnan C, Kafatos FC, Michel K.
Proc Natl Acad Sci U S A.
PMID: 19940242

Leucine-Rich Repeat Protein Complex Activates Mosquito Complement in Defense Against Plasmodium Parasites

Povelones M, Waterhouse RM, Kafatos FC, Christophides GK
Science
PMID: 19264986

The genome of the model beetle and pest Tribolium castaneum.

Tribolium Genome Sequencing Consortium; Project leader, Richards S; Principal investigators, Gibbs RA, Weinstock GM; White paper, Brown SJ, Denell R, Beeman RW, Gibbs R; Analysis leaders, Beeman RW, Brown SJ, Bucher G, Friedrich M, Grimmelikhuijzen CJ, Klingler M, Lorenzen M, Richards S, Roth S, Schröder R, Tautz D, Zdobnov EM; DNA sequence and global analysis: DNA sequencing, Muzny D, Gibbs RA, Weinstock GM, Attaway T, Bell S, Buhay CJ, Chandrabose MN, Chavez D, Clerk-Blankenburg KP, Cree A, Dao M, Davis C, Chacko J, Dinh H, Dugan-Rocha S, Fowler G, Garner TT, Garnes J, Gnirke A, Hawes A, Hernandez J, Hines S, Holder M, Hume J, Jhangiani SN, Joshi V, Khan ZM, Jackson L, Kovar C, Kowis A, Lee S, Lewis LR, Margolis J, Morgan M, Nazareth LV, Nguyen N, Okwuonu G, Parker D, Richards S, Ruiz SJ, Santibanez J, Savard J, Scherer SE, Schneider B, Sodergren E, Tautz D, Vattahil S, Villasana D, White CS, Wright R; EST sequencing, Park Y, Beeman RW, Lord J, Oppert B, Lorenzen M, Brown S, Wang L, Savard J, Tautz D, Richards S, Weinstock G, Gibbs RA; genome assembly, Liu Y, Worley K, Weinstock G; G+C content, Elsik CG, Reese JT, Elhaik E, Landan G, Graur D; repetitive DNA, transposons and telomeres, Arensburger P, Atkinson P, Beeman RW, Beidler J, Brown SJ, Demuth JP, Drury DW, Du YZ, Fujiwara H, Lorenzen M, Maselli V, Osanai M, Park Y, Robertson HM, Tu Z, Wang JJ, Wang S; gene prediction and consensus gene set, Richards S, Song H, Zhang L, Sodergren E, Werner D, Stanke M, Morgenstern B, Solovyev V, Kosarev P, Brown G, Chen HC, Ermolaeva O, Hlavina W, Kapustin Y, Kiryutin B, Kitts P, Maglott D, Pruitt K, Sapojnikov V, Souvorov A, Mackey AJ, Waterhouse RM, Wyder S, Zdobnov EM; global gene content analysis, Zdobnov EM, Wyder S, Kriventseva EV, Kadowaki T, Bork P; Developmental processes and signalling pathways, Aranda M, Bao R, Beermann A, Berns N, Bolognesi R, Bonneton F, Bopp D, Brown SJ, Bucher G, Butts T, Chaumot A, Denell RE, Ferrier DE, Friedrich M, Gordon CM, Jindra M, Klingler M, Lan Q, Lattorff HM, Laudet V, von Levetsow C, Liu Z, Lutz R, Lynch JA, da Fonseca RN, Posnien N, Reuter R, Roth S, Savard J, Schinko JB, Schmitt C, Schoppmeier M, Schröder R, Shippy TD, Simonnet F, Marques-Souza H, Tautz D, Tomoyasu Y, Trauner J, Van der Zee M, Vervoort M, Wittkopp N, Wimmer EA, Yang X; Pest biology, senses, Medea and RNAi: ligand gated ion channels, Jones AK, Sattelle DB; oxidative phosphorylation, Ebert PR; P450 genes, Nelson D, Scott JG, Beeman RW; chitin and cuticular proteins, Muthukrishnan S, Kramer KJ, Arakane Y, Beeman RW, Zhu Q, Hogenkamp D, Dixit R; digestive proteinases, Oppert B, Jiang H, Zou Z, Marshall J, Elpidina E, Vinokurov K, Oppert C; immunity, Zou Z, Evans J, Lu Z, Zhao P, Sumathipala N, Altincicek B, Vilcinskas A, Williams M, Hultmark D, Hetru C, Jiang H; neurohormones and GPCRs, Grimmelikhuijzen CJ, Hauser F, Cazzamali G, Williamson M, Park Y, Li B, Tanaka Y, Predel R, Neupert S, Schachtner J, Verleyen P; neuropeptide processing enzymes, Raible F, Bork P; opsins, Friedrich M; odorant receptors and gustatory receptors, Walden KK, Robertson HM; odorant binding and chemosensory proteins, Angeli S, Forêt S, Bucher G, Schuetz S, Maleszka R, Wimmer EA; Medea, Beeman RW, Lorenzen M; systemic RNAi, Tomoyasu Y, Miller SC, Grossmann D, Bucher G.
Nature. 2008 Mar 23
PMID: 18362917

The Aedes aegypti genome: a comparative perspective

Waterhouse RM, Wyder S, Zdobnov EM
Insect Mol Biol. 2008 Feb;17(1):1-8
PMID: 18237279

Evolutionary dynamics of immune-related genes and pathways in disease vector mosquitoes

Waterhouse RM, Kriventseva EV, Meister S, Xi Z, Alvarez KS, Bartholomay LC, Carolina Barillas-Mury C, Bian G, Blandin S, Bruce M. Christensen BM, Dong Y, Jiang H, Kanost MR, Koutsos AC, Levashina EA, Li J, Ligoxygakis P, MacCallum RM, Mayhew GF, Mendes A, Michel K, Osta MA, Paskewitz S, Shin SW, Vlachou D, Wang L, Wei W, Zheng L, Zou Z, Severson DW, Raikhel AS, Kafatos FC, Dimopoulos G, Zdobnov EM George K. Christophides GK
Science. 2007 Jun 22;316(5832):1738-43.
PMID: 17588928

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Zdobnov EM | Wyder S | Waterhouse RM | Kriventseva EV | Junier T | Gerlach D | Rahman N | Vejnar CE | Tegenfeldt FP | Li J | Petty TJ