The Genome 10K Project: A Way Forward

By Klaus‐Peter Koepfli, Benedict Paten, Stephen J. O'Brien. 2015

312 citations recorded by the source corpus.

The Genome 10K Project was established in 2009 by a consortium of biologists and genome scientists determined to facilitate the sequencing and analysis of the complete genomes of 10,000 vertebrate species. Since then the number of selected and initiated species has risen from ~26 to 277 sequenced or ongoing with funding, an approximately tenfold increase in five years. Here we summarize the advances and commitments that have occurred by mid-2014 and outline the achievements and present challenges of reaching the 10,000-species goal. We summarize the status of known vertebrate genome projects, recommend standards for pronouncing a genome as sequenced or completed, and provide our present and future vision of the landscape of Genome 10K. The endeavor is ambitious, bold, expensive, and uncertain, but together the Genome 10K Consortium of Scientists and the worldwide genomics community are moving toward their goal of delivering to the coming generation the gift of genome empowerment for many vertebrate species.

Subfields: Molecular Biology, Plant Science

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Citations in the corpus

RepeatModeler2 for automated genomic discovery of transposable element families (2020, background): “The number of whole-genome assemblies for species throughout the tree of life continues to grow at a very fast rate, and efforts are underway to produce thousands more (23, 24).”
Ensembl 2019 (2018, background): “org/), Genome10K (8), Bird 10K (9), Bat 1K (10) and eventually the Earth BioGenome Project (11), are planning to create an ever larger collection of sequenced genomes.”
The Ensembl Variant Effect Predictor (2016, background): “In other species, efforts such as Genome 10K (Koepfli et al. 2015), the 1001 Arabidopsis genomes (Cao et al. 2011) and 1000 bull genome project (Daetwyler et al. 2014) have similar goals, but operate under different funding models, often with less support than the Homo sapiens focused projects.”
Integrating Hi-C links with assembly graphs for chromosome-scale assembly (2018, background): “As the Genome10K consortium (Koepfli et al., 2015) and independent scientists begin to sequence novel lineages in the tree of life, it may be impractical to generate physical or genetics maps for every organism.”
The ecology of environmental DNA and implications for conservation genetics (2016, background): “Nevertheless, accumulation of assembled macrobial genomes (Koepfli et al. 2015) will ease this challenge, and macrobe-inclusive metagenomic analyses of eDNA and eRNA are advancing the necessary bioinformatic tools (Mendoza et al. 2015).”