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The i5K initiative: Advancing arthropod genomics for knowledge, human health, agriculture, and the environment

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TLDR
An international effort to guide arthropod genomic efforts, from species prioritization to methodology and informatics is described, which aims to deliver sequences and analytical tools for each of theArthropod branches andEach of the species having beneficial and negative effects on humankind.
Abstract
Insects and their arthropod relatives including mites, spiders, and crustaceans play major roles in the world's terrestrial, aquatic, and marine ecosystems Arthropods compete with humans for food and transmit devastating diseases They also comprise the most diverse and successful branch of metazoan evolution, with millions of extant species Here, we describe an international effort to guide arthropod genomic efforts, from species prioritization to methodology and informatics The 5000 arthropod genomes initiative (i5K) community met formally in 2012 to discuss a roadmap for sequencing and analyzing 5000 high-priority arthropods and is continuing this effort via pilot projects, the development of standard operating procedures, and training of students and career scientists, With university, governmental, and industry support, the i5K Consortium aspires to deliver sequences and analytical tools for each of the arthropod branches and each of the species having beneficial and negative effects on humankind

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Journal ArticleDOI

COGNATE: comparative gene annotation characterizer.

TL;DR: A new open-source command-line tool, COGNATE (Comparative Gene Annotation Characterizer), which uses a given genome assembly and its annotation of protein-coding genes for a detailed description of the respective gene and genome structure parameters.
Posted ContentDOI

Commensal bacteria differentially shape the nutritional requirements of Drosophila during juvenile growth

TL;DR: A novel facet of the facultative nutritional mutualism engaged between Drosophila and its commensal bacteria is uncovered, which allows the juvenile host to better cope with changes in nutrients availability during the critical phase of post-natal growth; hence ensuring optimal host fitness.
Book ChapterDOI

Olfactory genomics within the Lepidoptera

TL;DR: The pheromone receptors in Lepidoptera were not yet functionally characterized at the time of the first edition of this book in 2003 as discussed by the authors, however, with accumulated knowledge of their sequences and function, many insights have been gained.
Journal ArticleDOI

Assessing species coverage and assembly quality of rapidly accumulating sequenced genomes

TL;DR: In this article , the authors present an automated analysis workflow that surveys genome assemblies from the United States NCBI, assesses their completeness using the relevant BUSCO datasets, and collates the results into an interactively browsable resource.
Journal ArticleDOI

Cloning and functional characterizations of an apoptogenic Hid gene in the Scuttle Fly, Megaselia scalaris (Diptera; Phoridae).

TL;DR: Cloned a proapoptotic gene homologous to Head involution defective (Hid) from the Scuttle fly, Megaselia scalaris, which encodes a 197-amino acid-long polypeptide, which so far is the smallest HID protein, and found 2-fold induction of MsHid expression in UV-irradiated embryos, indicating a possible role forMsHid in UV
References
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Journal ArticleDOI

The genome sequence of Drosophila melanogaster

Mark Raymond Adams, +194 more
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TL;DR: The nucleotide sequence of nearly all of the approximately 120-megabase euchromatic portion of the Drosophila genome is determined using a whole-genome shotgun sequencing strategy supported by extensive clone-based sequence and a high-quality bacterial artificial chromosome physical map.
Journal ArticleDOI

The genome of Tetranychus urticae reveals herbivorous pest adaptations

Miodrag Grbic, +60 more
- 24 Nov 2011 - 
TL;DR: The Tetranychus urticae genome is the smallest known arthropod genome as discussed by the authors, which represents the first complete chelicerate genome for a pest and has been annotated with genes associated with feeding on different hosts.
Journal ArticleDOI

Genome 10K: A Proposal to Obtain Whole-Genome Sequence for 10 000 Vertebrate Species

David Haussler, +69 more
- 01 Nov 2009 - 
TL;DR: A precipitous drop in costs and increase in sequencing efficiency is anticipated, with concomitant development of improved annotation technology, and it is proposed to create a collection of tissue and DNA specimens for 10,000 vertebrate species specifically designated for whole-genome sequencing in the very near future.
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