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Chromosome-level genome assembly of the caddisfly Stenopsyche angustata (Insecta: Trichoptera)

ABSTRACT: Chromosome-level genome assembly of the caddisfly

PROVIDER: PRJEB91176 | ENA |

REPOSITORIES: ENA

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The genome of an underwater architect, the caddisfly Stenopsyche tienmushanensis Hwang (Insecta: Trichoptera).

Project description:Caddisflies (Insecta: Trichoptera) are a highly adapted freshwater group of insects split from a common ancestor with Lepidoptera. They are the most diverse (>16,000 species) of the strictly aquatic insect orders and are widely employed as bio-indicators in water quality assessment and monitoring. Among the numerous adaptations to aquatic habitats, caddisfly larvae use silk and materials from the environment (e.g., stones, sticks, leaf matter) to build composite structures such as fixed retreats and portable cases. Understanding how caddisflies have adapted to aquatic habitats will help explain the evolution and subsequent diversification of the group. We sequenced a retreat-builder caddisfly Stenopsyche tienmushanensis Hwang and assembled a high-quality genome from both Illumina and Pacific Biosciences (PacBio) sequencing. In total, 601.2 M Illumina reads (90.2 Gb) and 16.9 M PacBio subreads (89.0 Gb) were generated. The 451.5 Mb assembled genome has a contig N50 of 1.29 M, has a longest contig of 4.76 Mb, and covers 97.65% of the 1,658 insect single-copy genes as assessed by Benchmarking Universal Single-Copy Orthologs. The genome comprises 36.76% repetitive elements. A total of 14,672 predicted protein-coding genes were identified. The genome revealed gene expansions in specific groups of the cytochrome P450 family and olfactory binding proteins, suggesting potential genomic features associated with pollutant tolerance and mate finding. In addition, the complete gene complex of the highly repetitive H-fibroin, the major protein component of caddisfly larval silk, was assembled. We report the draft genome of Stenopsyche tienmushanensis, the highest-quality caddisfly genome so far. The genome information will be an important resource for the study of caddisflies and may shed light on the evolution of aquatic insects.

| S-EPMC6302954 | biostudies-literature

Chromosome-level Genome Assembly of Teratoscincus roborowskii

Project description:Chromosome-level Genome Assembly of Teratoscincus roborowskii

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Chromosome-level genome assembly of Hippophae neurocarpa

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Stenopsyche angustata

Project description:Stenopsyche angustata Genome sequencing and assembly

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Stenopsyche angustata

Project description:Stenopsyche angustata overview

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Mnemiopsis leidyi chromosome-level genome assembly

Project description:Exploration of Immune repertoire in the chromosome-level genome of the ctenophore Mnemiopsis Leidyi

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Genome assembly at the chromosome level of Clinopodium barosmum

Project description:Genome assembly at the chromosome level of Clinopodium barosmum

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Genome assembly at the chromosome level of Clinopodium barosmum

Project description:Genome assembly at the chromosome level of Clinopodium barosmum

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Complete mitochondrial genome of <i>Stenopsyche tienmushanensis</i> (Trichoptera: Stenopsychidae).

Project description:The complete mitochondrial genome (mitogenome) of Stenopsyche tienmushanensis Hwang, 1957 was assembled from Illumina high-throughput sequencing data. The circularized mitogenome has a length of 16,049 bp with a high A + T content of 77.9%, including 13 protein-coding genes (PCGs), 22 tRNA genes, and 2 rRNA genes. Its gene composition and order were the same as Stenopsyche angustata. The overall base composition is 42.0% for A, 35.9% for T, 7.6% for C, and 14.5% for G. A phylogenetic analysis based on 13 PCGs of S. tienmushanensis and 20 other caddisflies supports the placement of Stenopsychidae as sister to the Hydropsychidae within Trichoptera.

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Chromosome-scale genome assemblies of Himalopsyche anomala and Eubasilissa splendida (Insecta: Trichoptera).

Project description:Trichoptera is one of the most evolutionarily successful aquatic insect lineages and is highly valued value in adaptive evolution research. This study presents the chromosome-level genome assemblies of Himalopsyche anomala and Eubasilissa splendida achieved using PacBio, Illumina, and Hi-C sequencing. For H. anomala and E. splendida, assembly sizes were 663.43 and 859.28 Mb, with scaffold N50 lengths of 28.44 and 31.17 Mb, respectively. In H. anomala and E. splendida, we anchored 24 and 29 pseudochromosomes, and identified 11,469 and 10,554 protein-coding genes, respectively. The high-quality genomes of H. anomala and E. splendida provide critical genomic resources for understanding the evolution and ecology of Trichoptera and performing comparative genomics analyses.

| S-EPMC10914795 | biostudies-literature

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