ArticleNature ecology & evolution2023
Species-wide genomics of kākāpō provides tools to accelerate recovery.
Article in Nature ecology & evolution, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
25 citing papers in PubMed, 36 citations in OpenAlex.
- Hidden Diversity in the Sands: Genomic Footprints of Pleistocene Refugia and Fragile Futures of the Turkestan Ground-Jay (Podoces panderi) in Central Asia.Integrative zoology · 2026Article
- Population genomics of yellow-eyed penguins uncovers subspecies divergence and candidate genes linked to respiratory distress syndrome.Nature ecology & evolution · 2026Article
- Indigenous microorganisms and benefit sharing.FEMS yeast research · 2026Review
- Evo-devo and the Biodiversity Crisis.Results and problems in cell differentiation · 2026Article
- Genomic Architecture of Inbreeding Depression Associated With Hatching Failure in an Endangered Parrot.Molecular ecology · 2026Article
- Article
- High Imputation Accuracy Can Be Achieved Using a Small Reference Panel in a Natural Population With Low Genetic Diversity.Molecular ecology resources · 2025Article
- Conservation genomics of two endangered buntings reveal genetic diversity before and after severe population declines.BMC biology · 2025Article
- Overcoming limitations to customize DeepVariant for domesticated animals with TrioTrain.Genome research · 2025Article
- The promise and challenges of characterizing genome-wide structural variants: A case study in a critically endangered parrot.Molecular ecology resources · 2025Article
- Natural dispersal is better than translocation for reducing risks of inbreeding depression in eastern black rhinoceros (Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Temporal Loss of Genome-Wide and Immunogenetic Diversity in a Near-Extinct Parrot.Molecular ecology · 2025Article
- Aotearoa genomic data repository: An āhuru mōwai for taonga species sequencing data.Molecular ecology resources · 2025Article
- Genome-Assisted Gene-Flow Rescued Genetic Diversity Without Hindering Growth Performance in an Inbred Coho Salmon (Oncorhynchus kisutch) Population Selected for High Growth Phenotype.Marine biotechnology (New York, N.Y.) · 2025Article
- Microevolutionary change in wild stickleback: Using integrative time-series data to infer responses to selection.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- The genetic basis of the kākāpō structural color polymorphism suggests balancing selection by an extinct apex predator.PLoS biology · 2024Article
- The Ruminant Telomere-to-Telomere (RT2T) Consortium.Nature genetics · 2024Review
- Translating genomic advances into biodiversity conservation.Nature reviews. Genetics · 2024Review
- Overcoming Limitations to Deep Learning in Domesticated Animals with TrioTrain.bioRxiv : the preprint server for biology · 2024Article
- Evolutionary biogeography of Aotearoa.Journal of the Royal Society of New Zealand · 2024Article
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Authors and funding
24 authors at 10 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The kākāpō is a critically endangered, intensively managed, long-lived nocturnal parrot endemic to Aotearoa New Zealand. We generated and analysed whole-genome sequence data for nearly all individuals living in early 2018 (169 individuals) to generate a high-quality species-wide genetic variant callset. We leverage extensive long-term metadata to quantify genome-wide diversity of the species over time and present new approaches using probabilistic programming, combined with a phenotype dataset spanning five decades, to disentangle phenotypic variance into environmental and genetic effects while quantifying uncertainty in small populations. We find associations for growth, disease susceptibility, clutch size and egg fertility within genic regions previously shown to influence these traits in other species. Finally, we generate breeding values to predict phenotype and illustrate that active management over the past 45 years has maintained both genome-wide diversity and diversity in breeding values and, hence, evolutionary potential. We provide new pathways for informing future conservation management decisions for kākāpō, including prioritizing individuals for translocation and monitoring individuals with poor growth or high disease risk. Overall, by explicitly addressing the challenge of the small sample size, we provide a template for the inclusion of genomic data that will be transformational for species recovery efforts around the globe.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.