19 research outputs found

    Integrated de novo transcriptome of Culex pipiens mosquito larvae as a resource for genetic control strategies

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    We present a de novo transcriptome of the mosquito vector Culex pipiens, assembled by sequences of susceptible and insecticide resistant larvae. The high quality of the assembly was confirmed by TransRate and BUSCO. A mapping percentage until 94.8% was obtained by aligning contigs to Nr, SwissProt, and TrEMBL, with 27,281 sequences that simultaneously mapped on the three databases. A total of 14,966 ORFs were also functionally annotated by using the eggNOG database. Among them, we identified ORF sequences of the main gene families involved in insecticide resistance. Therefore, this resource stands as a valuable reference for further studies of differential gene expression as well as to identify genes of interest for genetic-based control tools

    ID-ORFs_gene-family.tsv

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    Insecticide resistance represents a major threat for the control of insect vectors. In last years, genetically-based tools have been proposed as a cutting-edge alternative to counteract this problem. However, high-quality -omics resources are crucial for an effective application of these tools. Here, we presented a de novo transcriptome of the mosquito vector Culex pipiens, assembled by using sequences of susceptible and diflubenzuron-resistant individuals. A total of 437,233,732 reads were assembled and annotated and the high-quality of the assemblage was confirmed by TransRate and BUSCO. A mapping percentage until 94.8% was obtained by aligning contigs to Nr, SwissProt, and TrEMBL, with 27,281 sequences that simultaneously mapped on the three databases. A total of 14,966 ORFs were also functionally annotated by using the eggNOG database. A comparison through the orthologues with other five mosquito species further validated the quality of the Cx. pipiens transcriptome. This resource represents therefore a valuable reference for further investigations about mosquito biology, their adaptation to insecticides, as well as to identify target sequences for genetic-based control tools</p

    Table of resistant genes

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    Insecticide resistance represents a major threat for the control of insect vectors. In last years, genetically-based tools have been proposed as a cutting-edge alternative to counteract this problem. However, high-quality -omics resources are crucial for an effective application of these tools. Here, we presented a de novo transcriptome of the mosquito vector Culex pipiens, assembled by using sequences of susceptible and diflubenzuron-resistant individuals. A total of 437,233,732 reads were assembled and annotated and the high-quality of the assemblage was confirmed by TransRate and BUSCO. A mapping percentage until 94.8% was obtained by aligning contigs to Nr, SwissProt, and TrEMBL, with 27,281 sequences that simultaneously mapped on the three databases. A total of 14,966 ORFs were also functionally annotated by using the eggNOG database. A comparison through the orthologues with other five mosquito species further validated the quality of the Cx. pipiens transcriptome. This resource represents therefore a valuable reference for further investigations about mosquito biology, their adaptation to insecticides, as well as to identify target sequences for genetic-based control tools.</p

    ORFs_seq_insecticide_resistance

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    Insecticide resistance represents a major threat for the control of insect vectors. In last years, genetically-based tools have been proposed as a cutting-edge alternative to counteract this problem. However, high-quality -omics resources are crucial for an effective application of these tools. Here, we presented a de novo transcriptome of the mosquito vector Culex pipiens, assembled by using sequences of susceptible and diflubenzuron-resistant individuals. A total of 437,233,732 reads were assembled and annotated and the high-quality of the assemblage was confirmed by TransRate and BUSCO. A mapping percentage until 94.8% was obtained by aligning contigs to Nr, SwissProt, and TrEMBL, with 27,281 sequences that simultaneously mapped on the three databases. A total of 14,966 ORFs were also functionally annotated by using the eggNOG database. A comparison through the orthologues with other five mosquito species further validated the quality of the Cx. pipiens transcriptome. This resource represents therefore a valuable reference for further investigations about mosquito biology, their adaptation to insecticides, as well as to identify target sequences for genetic-based control tools.</p

    Brain de novo transcriptome assembly of a toad species showing polymorphic anti-predatory behavior

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    Understanding the genomic underpinnings of antipredatory behaviors is a hot topic in eco-evolutionary research. Yellow-bellied toad of the genus Bombina are textbook examples of the deimatic display, a time-structured behavior aimed at startling predators. Here, we generated the first de novo brain transcriptome of the Apennine yellow-bellied toad Bombina pachypus, a species showing inter-individual variation in the deimatic display. Through Rna-Seq experiments on a set of individuals showing distinct behavioral phenotypes, we generated 316,329,573 reads, which were assembled and annotated. The high-quality assembly was confirmed by assembly validators and by aligning the contigs against the de novo transcriptome with a mapping percentage higher than 91.0%. The homology annotation with DIAMOND (blastx) led to 77,391 contigs annotated on Nr, Swiss Prot and TrEMBL, whereas the domain and site protein prediction made with InterProScan led to 4747 GO-annotated and 1025 KEGG-annotated contigs. The B. pachypus transcriptome described here will be a valuable resource for further studies on the genomic underpinnings of behavioral variation in amphibians.n

    Alba pratalia

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    Il saggio si occupa di una interessante pagina dell'attività editoriale e letteraria della Terra di Bari tra Otto e Novecento con particolare riferimento ai rapporti epistolari e culturali fra V. Vecchi, B Croce e G. Laterz

    De novo transcriptome assembly and annotation of the third stage larvae of the zoonotic parasite Anisakis pegreffii

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    Anisakis pegreffii is a zoonotic parasite requiring marine organisms to complete its life-history. Human infection (anisakiasis) occurs when the third stage larvae (L3) are accidentally ingested with raw or undercooked infected fish or squids. A new de novo transcriptome of A. pegreffii was here generated aiming to provide a robust bulk of data to be used for a comprehensive "ready-to-use" resource for detecting functional studies on genes and gene products of A. pegreffii involved in the molecular mechanisms of parasite-host interaction

    De novo transcriptome assembly and annotation for gene discovery in Salamandra salamandra at the larval stage

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    Abstract Dispersal is a key process in ecology and evolutionary biology, as it shapes biodiversity patterns over space and time. Attitude to disperse is unevenly distributed among individuals within populations, and that individual personality can have pivotal roles in the shaping of this attitude. Here, we assembled and annotated the first de novo transcriptome of the head tissues of Salamandra salamandra from individuals, representative of distinct behavioral profiles. We obtained 1,153,432,918 reads, which were successfully assembled and annotated. The high-quality of the assembly was confirmed by three assembly validators. The alignment of contigs against the de novo transcriptome led to a mapping percentage higher than 94%. The homology annotation with DIAMOND led to 153,048 (blastx) and 95,942 (blastp) shared contigs, annotated on NR, Swiss-Prot and TrEMBL. The domain and site protein prediction led to 9850 GO-annotated contigs. This de novo transcriptome represents reliable reference for comparative gene expression studies between alternative behavioral types, for comparative gene expression studies within Salamandra, and for whole transcriptome and proteome studies in amphibians
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