@article{DennisBallesterosRobinetal.2020, author = {Dennis, Alice B. and Ballesteros, Gabriel I. and Robin, St{\´e}phanie and Schrader, Lukas and Bast, Jens and Bergh{\"o}fer, Jan and Beukeboom, Leo W. and Belghazi, Maya and Bretaudeau, Anthony and Buellesbach, Jan and Cash, Elizabeth and Colinet, Dominique and Dumas, Zo{\´e} and Errbii, Mohammed and Falabella, Patrizia and Gatti, Jean-Luc and Geuverink, Elzemiek and Gibson, Joshua D. and Hertaeg, Corinne and Hartmann, Stefanie and Jacquin-Joly, Emmanuelle and Lammers, Mark and Lavandero, Blas I. and Lindenbaum, Ina and Massardier-Galata, Lauriane and Meslin, Camille and Montagn{\´e}, Nicolas and Pak, Nina and Poiri{\´e}, Maryl{\`e}ne and Salvia, Rosanna and Smith, Chris R. and Tagu, Denis and Tares, Sophie and Vogel, Heiko and Schwander, Tanja and Simon, Jean-Christophe and Figueroa, Christian C. and Vorburger, Christoph and Legeai, Fabrice and Gadau, J{\"u}rgen}, title = {Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum}, series = {BMC Genomics}, volume = {21}, journal = {BMC Genomics}, publisher = {BioMed Central}, address = {London}, issn = {1471-2164}, doi = {10.1186/s12864-020-6764-0}, pages = {27}, year = {2020}, abstract = {Background Parasitoid wasps have fascinating life cycles and play an important role in trophic networks, yet little is known about their genome content and function. Parasitoids that infect aphids are an important group with the potential for biological control. Their success depends on adapting to develop inside aphids and overcoming both host aphid defenses and their protective endosymbionts. Results We present the de novo genome assemblies, detailed annotation, and comparative analysis of two closely related parasitoid wasps that target pest aphids: Aphidius ervi and Lysiphlebus fabarum (Hymenoptera: Braconidae: Aphidiinae). The genomes are small (139 and 141 Mbp) and the most AT-rich reported thus far for any arthropod (GC content: 25.8 and 23.8\%). This nucleotide bias is accompanied by skewed codon usage and is stronger in genes with adult-biased expression. AT-richness may be the consequence of reduced genome size, a near absence of DNA methylation, and energy efficiency. We identify missing desaturase genes, whose absence may underlie mimicry in the cuticular hydrocarbon profile of L. fabarum. We highlight key gene groups including those underlying venom composition, chemosensory perception, and sex determination, as well as potential losses in immune pathway genes. Conclusions These findings are of fundamental interest for insect evolution and biological control applications. They provide a strong foundation for further functional studies into coevolution between parasitoids and their hosts. Both genomes are available at https://bipaa.genouest.org.}, language = {en} } @misc{DennisBallesterosRobinetal.2020, author = {Dennis, Alice B. and Ballesteros, Gabriel I. and Robin, St{\´e}phanie and Schrader, Lukas and Bast, Jens and Bergh{\"o}fer, Jan and Beukeboom, Leo W. and Belghazi, Maya and Bretaudeau, Anthony and Buellesbach, Jan and Cash, Elizabeth and Colinet, Dominique and Dumas, Zo{\´e} and Errbii, Mohammed and Falabella, Patrizia and Gatti, Jean-Luc and Geuverink, Elzemiek and Gibson, Joshua D. and Hertaeg, Corinne and Hartmann, Stefanie and Jacquin-Joly, Emmanuelle and Lammers, Mark and Lavandero, Blas I. and Lindenbaum, Ina and Massardier-Galata, Lauriane and Meslin, Camille and Montagn{\´e}, Nicolas and Pak, Nina and Poiri{\´e}, Maryl{\`e}ne and Salvia, Rosanna and Smith, Chris R. and Tagu, Denis and Tares, Sophie and Vogel, Heiko and Schwander, Tanja and Simon, Jean-Christophe and Figueroa, Christian C. and Vorburger, Christoph and Legeai, Fabrice and Gadau, J{\"u}rgen}, title = {Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum}, series = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe}, journal = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe}, number = {989}, issn = {1866-8372}, doi = {10.25932/publishup-47612}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-476129}, pages = {29}, year = {2020}, abstract = {Background Parasitoid wasps have fascinating life cycles and play an important role in trophic networks, yet little is known about their genome content and function. Parasitoids that infect aphids are an important group with the potential for biological control. Their success depends on adapting to develop inside aphids and overcoming both host aphid defenses and their protective endosymbionts. Results We present the de novo genome assemblies, detailed annotation, and comparative analysis of two closely related parasitoid wasps that target pest aphids: Aphidius ervi and Lysiphlebus fabarum (Hymenoptera: Braconidae: Aphidiinae). The genomes are small (139 and 141 Mbp) and the most AT-rich reported thus far for any arthropod (GC content: 25.8 and 23.8\%). This nucleotide bias is accompanied by skewed codon usage and is stronger in genes with adult-biased expression. AT-richness may be the consequence of reduced genome size, a near absence of DNA methylation, and energy efficiency. We identify missing desaturase genes, whose absence may underlie mimicry in the cuticular hydrocarbon profile of L. fabarum. We highlight key gene groups including those underlying venom composition, chemosensory perception, and sex determination, as well as potential losses in immune pathway genes. Conclusions These findings are of fundamental interest for insect evolution and biological control applications. They provide a strong foundation for further functional studies into coevolution between parasitoids and their hosts. Both genomes are available at https://bipaa.genouest.org.}, language = {en} } @article{SotiropoulouGibsonGafos2020, author = {Sotiropoulou, Stavroula and Gibson, Mark and Gafos, Adamantios I.}, title = {Global organization in Spanish onsets}, series = {Journal of phonetics}, volume = {82}, journal = {Journal of phonetics}, publisher = {Elsevier}, address = {London}, issn = {0095-4470}, doi = {10.1016/j.wocn.2020.100995}, pages = {22}, year = {2020}, abstract = {This paper addresses the relation between syllable structure and inter-segmental temporal coordination. The data examined are Electromagnetic Articulometry recordings from six speakers of Central Peninsular Spanish (henceforth, Spanish), producing words beginning with the clusters /pl, bl, kl, gl, p(sic), k(sic), t(sic)/ as well as corresponding unclustered sonorant-initial words in three vowel contexts /a, e, o/. In our results, we find evidence for a global organization of the segments involved in these combinations. This is reflected in a number of ways: shortening of the prevocalic sonorant in the cluster-initial case compared to the unclustered case, reorganization of the relative timing of the internal CV subsequence (in a CCV) in the obstruent-lateral context, early vowel initiation, and a strong compensatory relation between the duration of the obstruent-to-lateral transition and the duration of the lateral. In other words, we find that the global organization presiding over the segments partaking in these tautosyllabic CCVs is pleiotropic, that is, simultaneously expressed over a set of different phonetic parameters rather than via a privileged metric such as c-center stability or any other such given single measure (employed in prior works).}, language = {en} } @article{GibsonSotiropoulouTobinetal.2019, author = {Gibson, Mark and Sotiropoulou, Stavroula and Tobin, Stephen and Gafos, Adamantios I.}, title = {Temporal Aspects of Word Initial Single Consonants and Consonants in Clusters in Spanish}, series = {Phonetic}, volume = {76}, journal = {Phonetic}, number = {6}, publisher = {Karger}, address = {Basel}, issn = {0031-8388}, doi = {10.1159/000501508}, pages = {448 -- 478}, year = {2019}, abstract = {We examined gestural coordination in C1C2 (C1 stop, C2 lateral or tap) word initial clusters using articulatory (electromagnetic articulometry) and acoustic data from six speakers of Standard Peninsular Spanish. We report on patterns of voice onset time (VOT), gestural plateau duration of C1, C2, and their overlap. For VOT, as expected, place of articulation is a major factor, with velars exhibiting longer VOTs than labials. Regarding C1 plateau duration, voice and place effects were found such that voiced consonants are significantly shorter than voiceless consonants, and velars show longer duration than labials. For C2 plateau duration, lateral duration was found to vary as a function of onset complexity (C vs. CC). As for overlap, unlike in French, where articulatory data for clusters have also been examined, clusters where both C1 and C2 are voiced show more overlap than where voicing differs. Further, overlap was affected by the C2 such that clusters where C2 is a tap show less overlap than clusters where C2 is a lateral. We discuss these results in the context of work aiming to uncover phonetic (e.g., articulatory or perceptual) and phonological forces (e.g., syllabic organization) on timing.}, language = {en} }