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Genome sequence of the pea aphid Acyrthosiphon pisum
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نویسنده
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richards s. ,gibbs r.a. ,gerardo n.m. ,moran n. ,nakabachi a. ,stern d. ,tagu d. ,wilson a.c.c. ,muzny d. ,kovar c. ,cree a. ,chacko j. ,chandrabose m.n. ,dao m.d. ,dinh h.h. ,gabisi r.a. ,hines s. ,hume j. ,jhangian s.n. ,joshi v. ,lewis l.r. ,liu y.-s. ,lopez j. ,morgan m.b. ,nguyen n.b. ,okwuonu g.o. ,ruiz s.j. ,santibanez j. ,wright r.a. ,fowler g.r. ,hitchens m.e. ,lozado r.j. ,moen c. ,steffen d. ,warren j.t. ,zhang j. ,nazareth l.v. ,chavez d. ,davis c. ,lee s.l. ,patel b.m. ,pu l.-l. ,bell s.n. ,johnson a.j. ,vattathil s. ,williams jr. r.l. ,shigenobu s. ,dang p.m. ,morioka m. ,fukatsu t. ,kudo t. ,miyagishima s.-y. ,jiang h. ,worley k.c. ,legeai f. ,gauthier j.-p. ,collin o. ,zhang l. ,chen h.-c. ,ermolaeva o. ,hlavina w. ,kapustin y. ,kiryutin b. ,kitts p. ,maglott d. ,murphy t. ,pruitt k. ,sapojnikov v. ,souvorov a. ,thibaud-nissen f. ,câmara f. ,guigó r. ,stanke m. ,solovyev v. ,kosarev p. ,gilbert d. ,gabaldón t. ,huerta-cepas j. ,marcet-houben m. ,pignatelli m. ,moya a. ,rispe c. ,ollivier m. ,quesneville h. ,permal e. ,llorens c. ,futami r. ,hedges d. ,robertson h.m. ,alioto t. ,mariotti m. ,nikoh n. ,mccutcheon j.p. ,burke g. ,kamins a. ,latorre a. ,ashton p. ,calevro f. ,charles h. ,colella s. ,douglas a.e. ,jander g. ,jones d.h. ,febvay g. ,kamphuis l.g. ,kushlan p.f. ,macdonald s. ,ramsey j. ,schwartz j. ,seah s. ,thomas g. ,vellozo a. ,cass b. ,degnan p. ,hurwitz b. ,leonardo t. ,koga r. ,altincicek b. ,anselme c. ,atamian h. ,barribeau s.m. ,de vos m. ,duncan e.j. ,evans j. ,ghanim m. ,heddi a. ,kaloshian i. ,vincent-monegat c. ,parker b.j. ,pérez-brocal v. ,rahbé y. ,spragg c.j. ,tamames j. ,tamarit d. ,tamborindeguy c. ,vilcinskas a. ,bickel r.d. ,brisson j.a. ,butts t. ,chang c.-c. ,christiaens o. ,davis g.k. ,duncan e. ,ferrier d. ,iga m. ,janssen r. ,lu h.-l. ,mcgregor a. ,miura t. ,smagghe g. ,smith j. ,van der zee m. ,velarde r. ,wilson m. ,dearden p. ,edwards o.r. ,gordon k. ,hilgarth r.s. ,rider jr. s.d. ,srinivasan d. ,walsh t.k. ,ishikawa a. ,jaubert-possamai s. ,fenton b. ,huang w. ,rizk g. ,lavenier d. ,nicolas j. ,smadja c. ,zhou j.-j. ,vieira f.g. ,he x.-l. ,liu r. ,rozas j. ,field l.m. ,campbell p. ,carolan j.c. ,fitzroy c.i.j. ,reardon k.t. ,reeck g.r. ,singh k. ,wilkinson t.l. ,huybrechts j. ,abdel-latief m. ,robichon a. ,veenstra j.a. ,hauser f. ,cazzamali g. ,schneider m. ,williamson m. ,stafflinger e. ,hansen k.k. ,grimmelikhuijzen c.j.p. ,price d.r.g. ,caillaud m. ,van fleet e. ,ren q. ,gatehouse j.a. ,brault v. ,monsion b. ,diaz j. ,hunnicutt l. ,ju h.-j. ,pechuan x. ,aguilar j. ,cortés t. ,ortiz-rivas b. ,martínez-torres d. ,dombrovsky a. ,dale r.p. ,davies t.g.e. ,williamson m.s. ,jones a. ,sattelle d. ,williamson s. ,wolstenholme a. ,cottret l. ,sagot m.f. ,heckel d.g. ,hunter w.
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منبع
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plos biology - 2010 - دوره : 8 - شماره : 2
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چکیده
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Aphids are important agricultural pests and also biological models for studies of insect-plant interactions,symbiosis,virus vectoring,and the developmental causes of extreme phenotypic plasticity. here we present the 464 mb draft genome assembly of the pea aphid acyrthosiphon pisum. this first published whole genome sequence of a basal hemimetabolous insect provides an outgroup to the multiple published genomes of holometabolous insects. pea aphids are host-plant specialists,they can reproduce both sexually and asexually,and they have coevolved with an obligate bacterial symbiont. here we highlight findings from whole genome analysis that may be related to these unusual biological features. these findings include discovery of extensive gene duplication in more than 2000 gene families as well as loss of evolutionarily conserved genes. gene family expansions relative to other published genomes include genes involved in chromatin modification,mirna synthesis,and sugar transport. gene losses include genes central to the imd immune pathway,selenoprotein utilization,purine salvage,and the entire urea cycle. the pea aphid genome reveals that only a limited number of genes have been acquired from bacteria; thus the reduced gene count of buchnera does not reflect gene transfer to the host genome. the inventory of metabolic genes in the pea aphid genome suggests that there is extensive metabolite exchange between the aphid and buchnera,including sharing of amino acid biosynthesis between the aphid and buchnera. the pea aphid genome provides a foundation for post-genomic studies of fundamental biological questions and applied agricultural problems.
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آدرس
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human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, department of biology,emory university,o. wayne rollins research center,atlanta,ga, United States, department of ecology and evolutionary biology,university of arizona,tucson,az, United States, advanced science institute,saitama, Japan, howard hughes medical institute,department of ecology and evolutionary biology,princeton university,princeton,nj, United States, inra,umr bio3p,domaine de la motte,le rheu, France, department of biology,university of miami,coral gables,fl, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United 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medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, howard hughes medical institute,department of ecology and evolutionary biology,princeton university,princeton,nj,united states,presto,jst,4-1-8 honcho kawaguchi,saitama,332-0012,japan,okazaki institute for integrative bioscience,national institutes of natural sciences,higashiyama,myodaiji,okazaki, Japan, usda,ars,national peanut research laboratory,dawson,ga, United States, department of biological sciences,graduate school of science,university of tokyo,tokyo, Japan, national institute of advanced industrial science and technology (aist),tsukuba, Japan, discovery research institute,saitama, Japan, advanced science institute,saitama, Japan, human genome sequencing center,baylor college of medicine,houston,tx, United States, human genome sequencing center,baylor college of medicine,houston,tx, United States, inra,umr bio3p,domaine de la motte,le rheu, France, inra,umr bio3p,domaine de la motte,le rheu, France, cnrs,irisa,epi symbiose,rennes, France, human genome sequencing center,baylor college of medicine,houston,tx, United States, national center for biotechnology information,national library of medicine,national institutes of health,bethesda,md, United States, national center for biotechnology information,national library of medicine,national institutes of health,bethesda,md, United States, national center for biotechnology information,national library of medicine,national institutes of health,bethesda,md, United States, national center for biotechnology information,national library of medicine,national institutes of health,bethesda,md, United States, national center for biotechnology information,national library of medicine,national institutes of health,bethesda,md, United States, national center for biotechnology information,national library of medicine,national institutes of health,bethesda,md, United States, national center for biotechnology information,national library of medicine,national institutes of health,bethesda,md, United States, national center for biotechnology information,national library of medicine,national institutes of health,bethesda,md, United States, national center for biotechnology information,national library of medicine,national institutes of health,bethesda,md, United States, national center for biotechnology information,national library of medicine,national institutes of health,bethesda,md, United States, usda,ars,national peanut research laboratory,dawson,ga, United States, national center for biotechnology information,national library of medicine,national institutes of health,bethesda,md, United States, center de regulació genòmica,universitat pompeu fabra,barcelona, Spain, center de regulació genòmica,universitat pompeu fabra,barcelona,spain,research group in biomedical informatics,universitat pompeu fabra,barcelona,spain,bioinformatics and genomics programme,centre for genomic regulation (crg),barcelona, Spain, institut für mikrobiologie und genetik,abteilung für bioinformatik,göttingen, Germany, department of computer science,royal holloway,university of london,surrey, United Kingdom, softberry inc.,mount kisco,ny, United States, department of biology,indiana university,bloomington,in, United States, bioinformatics and genomics programme,centre for genomic regulation (crg),barcelona, Spain, bioinformatics and genomics programme,centre for genomic regulation (crg),barcelona, Spain, bioinformatics and genomics programme,centre for genomic regulation (crg),barcelona, Spain, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència,spain,ciber en epidemiología y salud pública (ciberesp),centro superior de investigación en salud pública (csisp),conselleria de sanidad (generalitat valenciana),valència, Spain, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència,spain,ciber en epidemiología y salud pública (ciberesp),centro superior de investigación en salud pública (csisp),conselleria de sanidad (generalitat valenciana),valència, Spain, inra,umr bio3p,domaine de la motte,le rheu, France, inra,umr bio3p,domaine de la motte,le rheu, France, unité de recherches en génomique-info (ur inra 1164),inra,centre de recherche de versailles,versailles cedex, France, unité de recherches en génomique-info (ur inra 1164),inra,centre de recherche de versailles,versailles cedex, France, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència,spain,biotechvana,parc cientific,universitat de valència,valència, Spain, biotechvana,parc cientific,universitat de valència,valència, Spain, miami institute for human genomics,1120 nw 14th street,miami,fl, United States, department of entomology,university of illinois,urbana-champaign,il, United States, bioinformatics and genomics programme,centre for genomic regulation (crg),barcelona, Spain, bioinformatics and genomics programme,centre for genomic regulation (crg),barcelona, Spain, division of natural sciences,open university of japan,wakaba,chiba, Japan, center for insect science,university of arizona,tucson,az, United States, department of ecology and evolutionary biology,university of arizona,tucson,az, United States, department of biology,emory university,o. wayne rollins research center,atlanta,ga, United States, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència,spain,ciber en epidemiología y salud pública (ciberesp),centro superior de investigación en salud pública (csisp),conselleria de sanidad (generalitat valenciana),valència, Spain, department of biology,university of york,york, United Kingdom, umr203 biologie fonctionnelle insectes et interactions (bf2i),insa-lyon,université de lyon,villeurbanne, France, umr203 biologie fonctionnelle insectes et interactions (bf2i),insa-lyon,université de lyon,villeurbanne, France, umr203 biologie fonctionnelle insectes et interactions (bf2i),insa-lyon,université de lyon,villeurbanne, France, department of entomology,cornell university,ithaca,ny, United States, boyce thompson institute for plant research,ithaca,ny, United States, department of biology,university of miami,coral gables,fl, United States, umr203 biologie fonctionnelle insectes et interactions (bf2i),insa-lyon,université de lyon,villeurbanne, France, csiro entomology,centre for environment and life sciences (cels),floreat park,wa,australia,csiro plant industry,centre for environment and life sciences (cels),floreat park,wa, Australia, department of biology,university of miami,coral gables,fl, United States, department of biology,university of york,york, United Kingdom, boyce thompson institute for plant research,ithaca,ny, United States, department of biology,university of miami,coral gables,fl, United States, csiro plant industry,centre for environment and life sciences (cels),floreat park,wa, Australia, department of biology,university of york,york, United Kingdom, umr203 biologie fonctionnelle insectes et interactions (bf2i),insa-lyon,université de lyon,villeurbanne,france,université de lyon,cnrs,laboratoire de biométrie et biologie evolutive,villeurbanne, France, department of ecology and evolutionary biology,university of arizona,tucson,az, United States, department of ecology and evolutionary biology,university of arizona,tucson,az, United States, department of ecology and evolutionary biology,university of arizona,tucson,az, United States, howard hughes medical institute,department of ecology and evolutionary biology,princeton university,princeton,nj, United States, national institute of advanced industrial science and technology (aist),tsukuba, Japan, interdisciplinary research center,institute of phytopathology and applied zoology,justus-liebig-university of giessen,giessen, Germany, umr203 biologie fonctionnelle insectes et interactions (bf2i),insa-lyon,université de lyon,villeurbanne,france,umr interactions biotiques et santé végétale,inra 1301,université de nice-sophia antipolis,sophia-antipolis cedex, France, graduate program in genetics,genomics and bioinformatics,department of nematology,university of california,riverside,ca, United States, department of biology,emory university,o. wayne rollins research center,atlanta,ga, United States, boyce thompson institute for plant research,ithaca,ny, United States, national research centre for growth and development,department of biochemistry,university of otago,dunedin, New Zealand, usda-ars,bee research laboratoy,beltsville,md, United States, department of entomology,volcani center,bet dagan, Israel, umr203 biologie fonctionnelle insectes et interactions (bf2i),insa-lyon,université de lyon,villeurbanne, France, graduate program in genetics,genomics and bioinformatics,department of nematology,university of california,riverside,ca, United States, umr203 biologie fonctionnelle insectes et interactions (bf2i),insa-lyon,université de lyon,villeurbanne, France, department of biology,emory university,o. wayne rollins research center,atlanta,ga, United States, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència,spain,umr203 biologie fonctionnelle insectes et interactions (bf2i),insa-lyon,université de lyon,villeurbanne, France, umr203 biologie fonctionnelle insectes et interactions (bf2i),insa-lyon,université de lyon,villeurbanne, France, department of biology,emory university,o. wayne rollins research center,atlanta,ga, United States, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència,spain,ciber en epidemiología y salud pública (ciberesp),centro superior de investigación en salud pública (csisp),conselleria de sanidad (generalitat valenciana),valència, Spain, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència, Spain, department of entomology,texas a and m university,college station,tx, United States, interdisciplinary research center,institute of phytopathology and applied zoology,justus-liebig-university of giessen,giessen, Germany, molecular and computational biology,university of southern california,los angeles,ca, United States, molecular and computational biology,university of southern california,los angeles,ca, United States, department of zoology,university of oxford,oxford, United Kingdom, department of entomology,college of bio-resources and agriculture,national taiwan university,taipei, Taiwan, lab. agrozoology,department crop protection,ghent university,ghent, Belgium, department of biology,bryn mawr college,bryn mawr,pa, United States, national research centre for growth and development,department of biochemistry,university of otago,dunedin, New Zealand, scottish oceans institute,university of st. andrews,st. andrews,fife, United Kingdom, lab. agrozoology,department crop protection,ghent university,ghent, Belgium, department of earth sciences,palaeobiology,uppsala university,uppsala, Sweden, department of entomology,college of bio-resources and agriculture,national taiwan university,taipei, Taiwan, university of veterinary medicine vienna,institut für populations-genetik,veterinärmedizinische universität wien,vienna, Austria, graduate school of environmental science,hokkaido university,sapporo, Japan, lab. agrozoology,department crop protection,ghent university,ghent, Belgium, national research centre for growth and development,department of biochemistry,university of otago,dunedin, New Zealand, institute for biology,leiden university,leiden, Netherlands, department of biology,wake forest university,winston-salem,nc, United States, national research centre for growth and development,department of biochemistry,university of otago,dunedin, New Zealand, national research centre for growth and development,department of biochemistry,university of otago,dunedin, New Zealand, csiro entomology,centre for environment and life sciences (cels),floreat park,wa,australia,cooperative research centre for national plant biosecurity,canberra,act, Australia, csiro entomology,black mountain laboratories,acton,nsw, Australia, department of pathology and laboratory medicine,emory university school of medicine,atlanta,ga, United States, department of pathobiology,texas a and m university,college station,tx, United States, howard hughes medical institute,department of ecology and evolutionary biology,princeton university,princeton,nj, United States, csiro entomology,centre for environment and life sciences (cels),floreat park,wa, Australia, graduate school of environmental science,hokkaido university,sapporo, Japan, inra,umr bio3p,domaine de la motte,le rheu, France, plant pathology,scri,invergowrie and the scottish crop research institute,dundee, United Kingdom, department of biology,university of miami,coral gables,fl, United States, université de rennes 1,irisa,epi symbiose,rennes, France, ens cachan,inria,epi symbiose,rennes, France, inria,irisa,epi symbiose,rennes, France, animal and plant sciences department,university of sheffield, United Kingdom, department of biological chemistry,rothamsted research,harpenden, United Kingdom, departament de genètica,universitat de barcelona,barcelona, Spain, department of biological chemistry,rothamsted research,harpenden, United Kingdom, department of biological chemistry,rothamsted research,harpenden, United Kingdom, departament de genètica,universitat de barcelona,barcelona, Spain, department of biological chemistry,rothamsted research,harpenden, United Kingdom, csiro entomology,black mountain laboratories,acton,nsw, Australia, ucd school of biology and environmental science,university college dublin, Ireland, ucd school of biology and environmental science,university college dublin, Ireland, ucd school of biology and environmental science,university college dublin, Ireland, cooperative research centre for national plant biosecurity,canberra,act,australia,department of biochemistry,kansas state university,manhattan,ks, United States, csiro plant industry,centre for environment and life sciences (cels),floreat park,wa, Australia, ucd school of biology and environmental science,university college dublin, Ireland, research group of functional genomics and proteomics,leuven, Belgium, freie universität berlin,institut für angewandte zoologie,berlin, Germany, umr interactions biotiques et santé végétale,inra 1301,université de nice-sophia antipolis,sophia-antipolis cedex, France, université de bordeaux,cnrs,talence, France, center for functional and comparative insect genomics,department of biology,university of copenhagen,copenhagen, Denmark, center for functional and comparative insect genomics,department of biology,university of copenhagen,copenhagen, Denmark, center for functional and comparative insect genomics,department of biology,university of copenhagen,copenhagen, Denmark, center for functional and comparative insect genomics,department of biology,university of copenhagen,copenhagen, Denmark, center for functional and comparative insect genomics,department of biology,university of copenhagen,copenhagen, Denmark, center for functional and comparative insect genomics,department of biology,university of copenhagen,copenhagen, Denmark, center for functional and comparative insect genomics,department of biology,university of copenhagen,copenhagen, Denmark, school of biological and biomedical sciences,durham university,durham, United Kingdom, department of biology,ithaca college,ithaca,ny, United States, department of biology,ithaca college,ithaca,ny, United States, j. craig venter institute,rockville,md, United States, school of biological and biomedical sciences,durham university,durham, United Kingdom, inra umr svqv,equipe virologie vection,colmar, France, inra umr svqv,equipe virologie vection,colmar, France, department of biology,ithaca college,ithaca,ny, United States, genomic sciences program,north carolina state university,raleigh,nc, United States, department of plant pathology and plant-microbe biology,cornell university,ithaca,ny, United States, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència, Spain, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència, Spain, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència, Spain, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència, Spain, instituto cavanilles de biodiversidad y biología evolutiva,universitat de valència,valència, Spain, department of virology,volcani center,bet dagan, Israel, syngenta,jealotts hill research centre,bracknell,berkshire, United Kingdom, department of biological chemistry,rothamsted research,harpenden, United Kingdom, department of biological chemistry,rothamsted research,harpenden, United Kingdom, mrc functional genomics unit,department of phisology,anatomy and genetics,university of oxford,oxford, United Kingdom, mrc functional genomics unit,department of phisology,anatomy and genetics,university of oxford,oxford, United Kingdom, department of biology and biochemistry,university of bath,bath, United Kingdom, department of biology and biochemistry,university of bath,bath, United Kingdom, université de lyon,cnrs,laboratoire de biométrie et biologie evolutive,villeurbanne, France, université de lyon,cnrs,laboratoire de biométrie et biologie evolutive,villeurbanne, France, max planck institute for chemical ecology,jena, Germany, united states department of agriculture,agriculture research service,u.s. horticultural research lab.,fort pierce,fl, United States
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