Wellcome Open Research最新文献

We present a genome assembly from an individual female Golden-tabbed robberfly, Eutolmus rufibarbis (Arthropoda; Insecta; Diptera; Asilidae). The genome sequence has a total length of 285.90 megabases. Most of the assembly is scaffolded into 7 chromosomal pseudomolecules, including the X sex chromosome. The mitochondrial genome has also been assembled and is 16.22 kilobases in length.

We present a genome assembly from an individual male Noctua janthina (Langmaid's Yellow Underwing; Arthropoda; Insecta; Lepidoptera; Noctuidae). The genome sequence has a total length of 539.70 megabases. Most of the assembly (99.99%) is scaffolded into 31 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assembled and is 15.36 kilobases in length. Gene annotation of this assembly on Ensembl identified 12,089 protein-coding genes.

We present a genome assembly of a diploid specimen of Arctium minus (lesser burdock; Tracheophyta; Magnoliopsida; Asterales; Asteraceae). The genome sequence is 1,903.1 megabases in span. Most of the assembly is scaffolded into 18 chromosomal pseudomolecules. The mitochondrial and plastid genome assemblies have lengths of 312.58 kilobases and 152.71 kilobases, respectively. Gene annotation of this assembly on Ensembl identified 27,734 protein-coding genes.

Biodiversity genomics critically depends on correct taxonomic identification of the sample from which data are derived. Tracking of that taxonomic information through systems that archive data and report on genome sequencing efforts. For submission of data to the International Nucleotide Sequence Database Collaboration (INSDC) databases (DNA DataBank of Japan [DDBJ], European Nucleotide Archive [ENA] and National Center for Biotechnology Information [NCBI]), samples and data derived from them must be assigned a species-level NCBI Taxonomy taxonomic identifier (TaxId, sometimes referred to as taxId or txid). We thus need to be able to identify the TaxId for a target species efficiently. Because the NCBI Taxonomy does not include all known species and cannot preemptively represent unknown taxa, we also need an efficient process for generating new TaxIds for species not yet listed. This document provides workflows for different kinds of TaxId acquisition scenarios and was created to guide users in these processes. Although developed for European projects such as Darwin Tree of Life and the European Reference Genome Atlas, the workflows are universally applicable and describe the use of ENA in resolving taxonomic issues. Too Long: Didn't Read (TL;DR): Use the ENA REST API programmatically to retrieve TaxIds for target species and confirm that sequence data can be submitted to those TaxIds.Use the NCBI Web interface to NCBI Taxonomy to identify potential homotypic synonyms.Request a new TaxId from ENA for a species not yet in NCBI Taxonomy, and for species-like entries for which the full Linnaean binomen is not determined (see https://ena-docs.readthedocs.io/en/latest/faq/taxonomy_requests.html#creating-taxon-requests).Discuss directly with the NCBI Taxonomy curators or the curators at ENA and NCBI whenever you think there is an opportunity to improve their database.

We present a genome assembly from an individual male Orgyia antiqua specimen (the Vapourer moth; Arthropoda; Insecta; Lepidoptera; Erebidae). The genome sequence is 480.1 megabases in span. Most of the assembly is scaffolded into 14 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assembled and is 15.4 kilobases in length. Gene annotation of this assembly on Ensembl identified 12,475 protein coding genes.

We present a genome assembly from an individual male Clangula hyemalis (the Long-tailed duck; Chordata; Aves; Anseriformes; Anatidae). The genome sequence spans 1,206.10 megabases. Most of the assembly is scaffolded into 41 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assembled and is 16.63 kilobases in length.

We present a genome assembly from an individual leaf beetle, Galeruca laticollis (Arthropoda; Insecta; Coleoptera; Chrysomelidae). The genome sequence has a total length of 2,154.60 megabases. Most of the assembly (99.92%) is scaffolded into 12 chromosomal pseudomolecules, including the X and Y sex chromosomes. The mitochondrial genome has also been assembled and is 19.98 kilobases in length. Gene annotation of this assembly on Ensembl identified 32,229 protein-coding genes.

We present a genome assembly from an individual female Tricholauxania praeusta (a lauxaniid fly; Arthropoda; Insecta; Diptera; Lauxaniidae). The genome sequence has a total length of 661.30 megabases. Most of the assembly is scaffolded into 5 chromosomal pseudomolecules. The mitochondrial genome has also been assembled and is 16.31 kilobases in length. Gene annotation of this assembly on Ensembl identified 25,606 protein-coding genes.

We present a genome assembly from an individual Phragmites australis (the common reed; Streptophyta; Magnoliopsida; Poales; Poaceae). The genome sequence has a total length of 848.70 megabases. Most of the assembly is scaffolded into 24 chromosomal pseudomolecules, supporting the specimen being an allotetraploid (2 n = 4 x = 48). The three mitochondrial assemblies had lengths of 304.58, 92.24, and 76.54 kilobases and the plastid genome assembly had a length of 137.67 kilobases. Gene annotation of this assembly on Ensembl identified 47,513 protein-coding genes.

We present a genome assembly from an individual male Asteroscopus sphinx (the Sprawler moth; Arthropoda; Insecta; Lepidoptera; Noctuidae). The genome sequence has a total length of 857.30 megabases. Most of the assembly is scaffolded into 32 chromosomal pseudomolecules, including the Z sex chromosome and a putative B chromosome. The mitochondrial genome has also been assembled and is 15.35 kilobases in length.