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SRX14535084: RNA-seq of Peckia resona: transcriptomic of adult
1 ILLUMINA (NextSeq 500) run: 17.4M spots, 2.6G bases, 992.1Mb downloads

Design: Specimens were collected alive always in pairs by active collection. One was identified at the species level, whenever possible, and the other was torn apart inside a cryogenic tube containing RNALater (Sigma-Aldrich) for storing. The strategy of collecting two individuals of the same species allowed better identification and RNA preservation of the individuals. RNA extraction was performed with a part of a single specimen using TRIzol (Invitrogen) following manufacturers information. We built the libraries using NEBNext Poly (A) mRNA Magnetic Isolation Module kits (New England BioLabs) to isolate only the poly (A) + RNA set. The cDNA library was prepared using NEBNext Ultra RNA Library Prep Kit (New England BioLabs) for Illumina. The necessary adapters and primers for sequencing were added using NEBNext Multiplex oligos for Illumina Index Primers Set 1 (New England BioLabs). RNA extractions were quantified using the Qubit RNA HS kit (Thermofisher Scientific) and DNA libraries with the Qubit dsDNA HS kit (Thermofisher Scientific). Extractions were realized at the Molecular Evolution Laboratory of the Department of Zoology (Institute of Biosciences - University of So Paulo - USP). The sequencing was performed with the NextSeq 500 platform (Illumina) at the Center for Supporting Research Facilities (CEFAP-USP) with NextSeq 500/500 High Output v2 kit (150 cycles) (Illumina).
Submitted by: University of Sao Paulo
Study: Phylogenomic analysis of Tachinidae (Diptera: Calyptratae: Oestroidea): a transcriptomic approach to understand the subfamilies relationships
show Abstracthide Abstract
Tachinidae is the second most species-rich family of Diptera. It is composed of four subfamilies, and all its members have parasitoid habits. We present the first phylogenomic analysis of Tachinidae using transcriptomic data. The analyses are based on 59 species. We constructed four datasets: three using translated data at the amino acid level (100% coverage with 92 single-copy protein-coding genes, 75% coverage with 1304 single-copy protein-coding genes, and 50% coverage with 1890 single-copy protein-coding genes), and one with nucleotide data (75% coverage with 1304 single-copy protein-coding genes). The trees were obtained by analyzing four matrices, and only minor changes were found among them. Overall, our topologies are well resolved, with high node support. Polleniidae is corroborated as a sister group to Tachinidae. Within Tachinidae, our results confirm the hypothesis (Phasiinae + Dexiinae) + (Tachininae + Exoristinae). Phasiinae, Dexiinae, and Exoristinae are recovered as monophyletic, and Tachininae as polyphyletic. Once again, the tribe Myiophasiini (Tachininae) forms a fifth lineage, a clade sister to all the remaining Tachinidae. The Neotropical tribe Iceliini, formerly in Tachininae, is recovered within Exoristinae, sister to Winthemiini. In general, our results are congruent with recent phylogenetic studies that include tachinids, with the important confirmation of the subfamilial relationships and the existence of the fifth lineage of Tachinidae.
Sample:
SAMN26656301 • SRS12332192 • All experiments • All runs
Organism: Peckia resona
Library:
Name: 153
Instrument: NextSeq 500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: Oligo-dT
Layout: PAIRED
Runs: 1 run, 17.4M spots, 2.6G bases, 992.1Mb
Run# of Spots# of BasesSizePublished
SRR1840120717,403,2982.6G992.1Mb2023-11-03

ID:
20739718

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