02341nas a2200277 4500008004100000245017200041210006900213260001200282300001200294490000700306520150700313653000801820653001301828653002001841653001001861653001201871653002201883653000801905653001501913100001801928700001801946700001501964700001901979700001901998856004602017 2023 eng d00aA high-quality, long-read genome assembly of the whitelined sphinx moth (Lepidoptera: Sphingidae: Hyles lineata) shows highly conserved melanin synthesis pathway genes0 ahighquality longread genome assembly of the whitelined sphinx mo c04/2023 ajkad0900 v133 a
"The sphinx moth genus Hyles comprises 29 described species inhabiting all continents except Antarctica. The genus diverged relatively recently (40–25 MYA), arising in the Americas and rapidly establishing a cosmopolitan distribution. The whitelined sphinx moth, Hyles lineata, represents the oldest extant lineage of this group and is one of the most widespread and abundant sphinx moths in North America. Hyles lineata exhibits the large body size and adept flight control characteristic of the sphinx moth family (Sphingidae), but it is unique in displaying extreme larval color variation and broad host plant use. These traits, in combination with its broad distribution and high relative abundance within its range, have made H. lineata a model organism for studying phenotypic plasticity, plant–herbivore interactions, physiological ecology, and flight control. Despite being one of the most well-studied sphinx moths, little data exist on genetic variation or regulation of gene expression. Here, we report a high-quality genome showing high contiguity (N50 of 14.2 Mb) and completeness (98.2% of Lepidoptera BUSCO genes), an important first characterization to facilitate such studies. We also annotate the core melanin synthesis pathway genes and confirm that they have high sequence conservation with other moths and are most similar to those of another, well-characterized sphinx moth, the tobacco hornworm (Manduca sexta)."
10aDNA10aGENETICS10aGENOME ASSEMBLY10aHYLES10aMANDUCA10aMELANIN SYNTHESIS10aRNA10aSPHINGIDAE1 aGodfrey, R.K.1 aBritton, S.E.1 aMishra, S.1 aGoldberg, J.K.1 aKawahara, A.Y. uhttps://doi.org/10.1093/g3journal/jkad09001976nas a2200289 4500008004100000245010900041210006900150260001200219300001200231490000700243520115300250653001701403653002501420653001601445653000801461653001201469653001801481653002301499653002401522653001501546653002001561653001501581653000801596100001701604700001901621856004601640 2022 eng d00aPopulation differentiation and structural variation in the Manduca sexta genome across the United States0 aPopulation differentiation and structural variation in the Mandu c02/2022 ajkac0470 v123 a"Many species that are extensively studied in the laboratory are less well characterized in their natural habitat, and laboratory strains represent only a small fraction of the variation in a species’ genome. Here we investigate genomic variation in three natural populations of an agricultural pest and a model insect for many scientific disciplines, the tobacco hornworm (Manduca sexta). We show that hornworms from Arizona, Kansas, and North Carolina are genetically distinct, with Arizona being particularly differentiated from the other two populations. Specifically, two segregating inversions and a potential pseudogene are found only in the Arizona population. One inversion on the Z chromosome may enhance adaptive evolution of the sex chromosome, while the significance of the other, autosomal inversion remains unclear. The pseudogene may be involved in the exploitation of a novel hostplant in Arizona, but functional genetic assays will be required to confirm this hypothesis. Nevertheless, our results reveal undiscovered natural variation and provide useful genomic data for a model insect species."
10aBIOGEOGRAPHY10aCHROMOSOME INVERSION10aCHROMOSOMES10aDNA10aMANDUCA10aPHYLOGENOMICS10aPOPULATION BIOLOGY10aPOPULATION GENETICS10aPSEUDOGENE10aSEX CHROMOSOMES10aSPHINGIDAE10aUSA1 aMongue, A.J.1 aKawahara, A.Y. uhttps://doi.org/10.1093/g3journal/jkac04700784nas a2200277 4500008004100000024001700041245013300058210006900191260000900260300001000269490000700279653001400286653000800300653000800308653001400316653001100330653001200341653001400353653001500367653000800382653001400390100001700404700001700421700001900438856004900457 2012 eng d aPapyrus 853400aPhylogenetics and species status of Hawai‘i's endangered Blackburn's Sphinx Moth, Manduca blackburni (Lepidoptera: Sphingidae)0 aPhylogenetics and species status of Hawai is endangered Blackbur c2012 a31-410 v6610aBARCODING10aCAD10aCOI10aEF-1ALPHA10aHAWAII10aMANDUCA10aPHYLOGENY10aSPHINGIDAE10aUSA10aWORLDMAP11 aRubinoff, D.1 aSan Jose, M.1 aKawahara, A.Y. uhttps://sphingidae.myspecies.info/node/1985401000nas a2200361 4500008004100000024001700041245013700058210006900195260000900264300001200273490000700285653002300292653001700315653000800332653000800340653000800348653001400356653001200370653002300382653000900405653000900414653001500423653001300438100001900451700002000470700001600490700001600506700001200522700002000534700001700554700001900571856004800590 2013 eng d aPapyrus 196900aEvolution of Manduca sexta hornworms and relatives: biogeographical analysis reveals an ancestral diversification in Central America0 aEvolution of Manduca sexta hornworms and relatives biogeographic c2013 a381-3860 v6810aBAYESIAN INFERENCE10aBIOGEOGRAPHY10aCAD10aCOI10aDNA10aEF-1ALPHA10aMANDUCA10aMAXIMUM LIKELIHOOD10aPEST10aRASP10aSPHINGIDAE10aWINGLESS1 aKawahara, A.Y.1 aBreinholt, J.W.1 aPonce, F.V.1 aHaxaire, J.1 aLei, X.1 aLamarre, G.P.A.1 aRubinoff, D.1 aKitching, I.J. uhttps://doi.org/10.1016/j.ympev.2013.04.01702687nas a2200409 4500008004100000245012500041210006900166260001200235300001400247490000600261520162100267653001101888653001401899653001501913653001101928653001401939653001201953653000801965653000901973653001201982653001501994653001202009653002302021653001402044653001402058653001202072653001002084653001002094653001502104653001602119653001502135653002902150653002002179100002002199700001902219856003902238 2013 eng d00aPhylotranscriptomics: saturated third codon positions radically influence the estimation of trees based on next-gen data0 aPhylotranscriptomics saturated third codon positions radically i c10/2013 a2082-20920 v53 a"Recent advancements in molecular sequencing techniques have led to a surge in the number of phylogenetic studies that incorporate large amounts of genetic data. We test the assumption that analyzing large number of genes will lead to improvements in tree resolution and branch support using moths in the superfamily Bombycoidea, a group with some interfamilial relationships that have been difficult to resolve. Specifically, we use a next-gen data set that included 19 taxa and 938 genes (∼1.2M bp) to examine how codon position and saturation might influence resolution and node support among three key families. Maximum likelihood, parsimony, and species tree analysis using gene tree parsimony, on different nucleotide and amino acid data sets, resulted in largely congruent topologies with high bootstrap support compared with prior studies that included fewer loci. However, for a few shallow nodes, nucleotide and amino acid data provided high support for conflicting relationships. The third codon position was saturated and phylogenetic analysis of this position alone supported a completely different, potentially misleading sister group relationship. We used the program RADICAL to assess the number of genes needed to fix some of these difficult nodes. One such node originally needed a total of 850 genes but only required 250 when synonymous signal was removed. Our study shows that, in order to effectively use next-gen data to correctly resolve difficult phylogenetic relationships, it is necessary to assess the effects of synonymous substitutions and third codon positions."
10aACTIAS10aANTHERAEA10aBOMBYCIDAE10aBOMBYX10aCERATOMIA10aDARAPSA10aDNA10aENYO10aHEMARIS10aINCOMPLETE10aMANDUCA10aMAXIMUM LIKELIHOOD10aPARSIMONY10aPHYLOGENY10aRADICAL10aRAXML10aSAMIA10aSATURATION10aSATURNIIDAE10aSPHINGIDAE10aSYNONYMOUS SUBSTITUTIONS10aTRANSCRIPTOMICS1 aBreinholt, J.W.1 aKawahara, A.Y. uhttps://doi.org/10.1093/gbe/evt157