The Most Developmentally Truncated Fishes Show Extensive Hox Gene Loss and Miniaturized Genomes

Malmstrøm, Martin; Britz, Ralf; Matschiner, Michael; Tørresen, Ole K; Hadiaty, Renny Kurnia; Yaakob, Norsham; Tan, Heok Hui; Jakobsen, Kjetill Sigurd; Salzburger, Walter; Rüber, Lukas (2018). The Most Developmentally Truncated Fishes Show Extensive Hox Gene Loss and Miniaturized Genomes. Genome biology and evolution, 10(4), pp. 1088-1103. Oxford University Press 10.1093/gbe/evy058

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The world’s smallest fishes belong to the genus Paedocypris. These miniature fishes are endemic to an extreme habitat: the peat swamp forests in SoutheastAsia, characterized by highly acidic blackwater. This threatened habitat is home to a large array of fishes, including a number ofminiaturized but also developmentally truncated species. Especially the genus Paedocypris is characterized by profound, organism-wide developmental truncation, resulting in sexually mature individuals of <8mm in length with a larval phenotype. Here, we report on evolutionary simplification in the genomes of two species of the dwarf minnow genus Paedocypris using whole-genome sequencing. The two species feature unprecedented Hox gene loss and genome reduction in association with their massive developmental truncation. We also show how other genes involved in the development of musculature, nervous system, and skeleton have been lost in Paedocypris,mirroring its highly progenetic phenotype. Further, our analyses suggest two mechanisms responsible for the genome streamlining in Paedocypris in relation to other Cypriniformes: severe intron shortening and reduced repeat content. As the first report on the genomic sequence of a vertebrate species with organism-wide developmental truncation, the results of our work enhance our understanding of genome evolution and how genotypes are translated to phenotypes. In addition, as a naturally simplified systemclosely related to zebrafish, Paedocypris provides novel insights into vertebrate development.

Item Type:

Journal Article (Original Article)

Division/Institute:

08 Faculty of Science > Department of Biology > Institute of Ecology and Evolution (IEE)
08 Faculty of Science > Department of Biology > Institute of Ecology and Evolution (IEE) > Aquatic Ecology

UniBE Contributor:

Rüber, Lukas

Subjects:

500 Science > 570 Life sciences; biology

ISSN:

1759-6653

Publisher:

Oxford University Press

Language:

English

Submitter:

Marcel Häsler

Date Deposited:

08 May 2018 14:39

Last Modified:

25 Oct 2019 05:52

Publisher DOI:

10.1093/gbe/evy058

BORIS DOI:

10.7892/boris.114860

URI:

https://boris.unibe.ch/id/eprint/114860

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