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The First Myriapod Genome Sequence Reveals Conservative Arthropod Gene Content and Genome Organisation in the Centipede Strigamia maritima
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نویسنده
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chipman a.d. ,ferrier d.e.k. ,brena c. ,qu j. ,hughes d.s.t. ,schröder r. ,torres-oliva m. ,znassi n. ,jiang h. ,almeida f.c. ,alonso c.r. ,apostolou z. ,aqrawi p. ,arthur w. ,barna j.c.j. ,blankenburg k.p. ,brites d. ,capella-gutiérrez s. ,coyle m. ,dearden p.k. ,du pasquier l. ,duncan e.j. ,ebert d. ,eibner c. ,erikson g. ,evans p.d. ,extavour c.g. ,francisco l. ,gabaldón t. ,gillis w.j. ,goodwin-horn e.a. ,green j.e. ,griffiths-jones s. ,grimmelikhuijzen c.j.p. ,gubbala s. ,guigó r. ,han y. ,hauser f. ,havlak p. ,hayden l. ,helbing s. ,holder m. ,hui j.h.l. ,hunn j.p. ,hunnekuhl v.s. ,jackson l.r. ,javaid m. ,jhangiani s.n. ,jiggins f.m. ,jones t.e. ,kaiser t.s. ,kalra d. ,kenny n.j. ,korchina v. ,kovar c.l. ,kraus f.b. ,lapraz f. ,lee s.l. ,lv j. ,mandapat c. ,manning g. ,mariotti m. ,mata r. ,mathew t. ,neumann t. ,newsham i. ,ngo d.n. ,ninova m. ,okwuonu g. ,ongeri f. ,palmer w.j. ,patil s. ,patraquim p. ,pham c. ,pu l.-l. ,putman n.h. ,rabouille c. ,ramos o.m. ,rhodes a.c. ,robertson h.e. ,robertson h.m. ,ronshaugen m. ,rozas j. ,saada n. ,sánchez-gracia a. ,scherer s.e. ,schurko a.m. ,siggens k.w. ,simmons d.n. ,stief a. ,stolle e. ,telford m.j. ,tessmar-raible k. ,thornton r. ,van der zee m. ,von haeseler a. ,williams j.m. ,willis j.h. ,wu y. ,zou x. ,lawson d. ,muzny d.m. ,worley k.c. ,gibbs r.a. ,akam m. ,richards s.
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منبع
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plos biology - 2014 - دوره : 12 - شماره : 11
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چکیده
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Myriapods (e.g.,centipedes and millipedes) display a simple homonomous body plan relative to other arthropods. all members of the class are terrestrial,but they attained terrestriality independently of insects. myriapoda is the only arthropod class not represented by a sequenced genome. we present an analysis of the genome of the centipede strigamia maritima. it retains a compact genome that has undergone less gene loss and shuffling than previously sequenced arthropods,and many orthologues of genes conserved from the bilaterian ancestor that have been lost in insects. our analysis locates many genes in conserved macro-synteny contexts,and many small-scale examples of gene clustering. we describe several examples where s. maritima shows different solutions from insects to similar problems. the insect olfactory receptor gene family is absent from s. maritima,and olfaction in air is likely effected by expansion of other receptor gene families. for some genes s. maritima has evolved paralogues to generate coding sequence diversity,where insects use alternate splicing. this is most striking for the dscam gene,which in drosophila generates more than 100,000 alternate splice forms,but in s. maritima is encoded by over 100 paralogues. we see an intriguing linkage between the absence of any known photosensory proteins in a blind organism and the additional absence of canonical circadian clock genes. the phylogenetic position of myriapods allows us to identify where in arthropod phylogeny several particular molecular mechanisms and traits emerged. for example,we conclude that juvenile hormone signalling evolved with the emergence of the exoskeleton in the arthropods and that rr-1 containing cuticle proteins evolved in the lineage leading to mandibulata. we also identify when various gene expansions and losses occurred. the genome of s. maritima offers us a unique glimpse into the ancestral arthropod genome,while also displaying many adaptations to its specific life history. © 2014 chipman et al.
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آدرس
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the department of ecology,evolution and behavior,the alexander silberman institute of life sciences,the hebrew university of jerusalem,givat ram,jerusalem, Israel, the scottish oceans institute,gatty marine laboratory,university of st andrews,st andrews,fife, United Kingdom, department of zoology,university of cambridge,cambridge, United Kingdom, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, embl - european bioinformatics institute,hinxton,cambridgeshire,united kingdom,human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, institut für biowissenschaften,universität rostock,abt. genetik,rostock, Germany, department of zoology,university of cambridge,cambridge,united kingdom,department of developmental biology,georg-august-universität göttingen,johann-friedrich-blumenbach-institut für zoologie und anthropologie,abteilung entwicklungsbiologie,gzmb,göttingen, Germany, department of zoology,university of cambridge,cambridge,united kingdom,centre de recherche de biochimie macromoléculaire,bioinformatique structurale et modélisation moléculaire,montpellier, France, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, departament de genètica and institut de recerca de la biodiversitat (irbio),universitat de barcelona,barcelona,spain,consejo nacional de investigaciones científicas y tecnológicas (conicet),universidad nacional de tucumán,san miguel de tucumán, Argentina, school of life sciences,university of sussex,brighton, United Kingdom, department of zoology,university of cambridge,cambridge,united kingdom,institute of molecular biology & biotechnology,foundation for research & technology - hellas,heraklion,crete, Greece, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, department of zoology,national university of ireland,galway, Ireland, department of biochemistry,university of cambridge,cambridge, United Kingdom, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, evolutionsbiologie,zoologisches institut,universität basel,basel,switzerland,swiss tropical and public health institute,basel, Switzerland, centre for genomic regulation,barcelona,barcelona, Spain, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, gravida and genetics otago,biochemistry department,university of otago,dunedin, New Zealand, evolutionsbiologie,zoologisches institut,universität basel,basel, Switzerland, gravida and genetics otago,biochemistry department,university of otago,dunedin, New Zealand, evolutionsbiologie,zoologisches institut,universität basel,basel, Switzerland, department of zoology,national university of ireland,galway,ireland,department of genetics,friedrich schiller university, Germany, razavi newman center for bioinformatics,salk institute,la jolla,ca,united states,scripps translational science institute,la jolla,ca, United States, the babraham institute,cambridge, United Kingdom, department of organismic and evolutionary biology,harvard university,cambridge,ma, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, centre for genomic regulation,barcelona,barcelona,spain,universitat pompeu fabra (upf),barcelona,spain,institució catalana de recerca i estudis avançats (icrea),barcelona, Spain, department of biochemistry and cell biology,center for developmental genetics,stony brook university,stony brook,ny, United States, department of biology,hendrix college,conway,ar, United States, department of zoology,university of cambridge,cambridge, United Kingdom, university of manchester,manchester, United Kingdom, center for functional and comparative insect genomics,university of copenhagen,copenhagen, Denmark, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, universitat pompeu fabra (upf),barcelona,spain,center for genomic regulation,barcelona, Spain, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, center for functional and comparative insect genomics,university of copenhagen,copenhagen, Denmark, department of ecology and evolutionary biology,rice university,houston,tx, United States, department of zoology,national university of ireland,galway, Ireland, institut für biologie,martin-luther-universität halle-wittenberg,halle, Germany, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, school of life sciences,the chinese university of hong kong,shatin,nt, Hong Kong, department of biochemistry and cell biology,utrecht university,utrecht, Netherlands, department of zoology,university of cambridge,cambridge, United Kingdom, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, department of genetics,university of cambridge,cambridge, United Kingdom, department of organismic and evolutionary biology,harvard university,cambridge,ma, United States, max f. perutz laboratories,university of vienna,vienna, Austria, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, school of life sciences,the chinese university of hong kong,shatin,nt, Hong Kong, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, institut für biologie,martin-luther-universität halle-wittenberg,halle,germany,department of laboratory medicine,university hospital halle (saale),halle (saale), Germany, department of genetics,evolution and environment,university college london,london, United Kingdom, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, department of ecology and evolutionary biology,rice university,houston,tx, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, razavi newman center for bioinformatics,salk institute,la jolla,ca,united states,genentech,inc.,south san francisco,ca, United States, universitat pompeu fabra (upf),barcelona,spain,center for genomic regulation,barcelona, Spain, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, max f. perutz laboratories,university of vienna,vienna,austria,center for integrative bioinformatics vienna,max f. perutz laboratories,university of vienna,medical university of vienna,vienna, Austria, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx,united states,m.d. anderson cancer center,houston,tx, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, university of manchester,manchester, United Kingdom, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, department of genetics,university of cambridge,cambridge, United Kingdom, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, school of life sciences,university of sussex,brighton, United Kingdom, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, department of ecology and evolutionary biology,rice university,houston,tx, United States, hubrecht institute for developmental biology and stem cell research,utrecht, Netherlands, the scottish oceans institute,gatty marine laboratory,university of st andrews,st andrews,fife,united kingdom,stanley institute for cognitive genomics,cold spring harbor laboratory,new york, United States, harte research institute,texas a&m university corpus christi,corpus christi,tx, United States, department of genetics,evolution and environment,university college london,london, United Kingdom, department of entomology,university of illinois at urbana-champaign,urbana,il, United States, university of manchester,manchester, United Kingdom, departament de genètica and institut de recerca de la biodiversitat (irbio),universitat de barcelona,barcelona, Spain, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, departament de genètica and institut de recerca de la biodiversitat (irbio),universitat de barcelona,barcelona, Spain, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, department of biology,hendrix college,conway,ar, United States, department of zoology,university of cambridge,cambridge, United Kingdom, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, department of zoology,university of cambridge,cambridge,united kingdom,institute for biochemistry and biology,university potsdam,potsdam-golm, Germany, institut für biologie,martin-luther-universität halle-wittenberg,halle, Germany, department of genetics,evolution and environment,university college london,london, United Kingdom, max f. perutz laboratories,university of vienna,vienna,austria,research platform marine rhythms of life,vienna, Austria, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, institute of biology,leiden university,leiden, Netherlands, center for integrative bioinformatics vienna,max f. perutz laboratories,university of vienna,medical university of vienna,vienna,austria,bioinformatics and computational biology,university of vienna,vienna, Austria, department of biology,hendrix college,conway,ar, United States, department of cellular biology,university of georgia,athens,ga, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx,united states,institute for applied cancer science,md anderson cancer center,houston,tx, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, embl - european bioinformatics institute,hinxton,cambridgeshire, United Kingdom, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States, department of zoology,university of cambridge,cambridge, United Kingdom, human genome sequencing center,department of molecular and human genetics,baylor college of medicine,houston,tx, United States
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Authors
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