Noncoding regions underpin avian bill shape diversification at macroevolutionary scales

Show full item record



Permalink

http://hdl.handle.net/10138/321990

Citation

Yusuf , L , Heatley , M C , Palmer , J P G , Barton , H J , Cooney , C R & Gossmann , T 2020 , ' Noncoding regions underpin avian bill shape diversification at macroevolutionary scales ' , Genome Research , vol. 30 , no. 4 , pp. 553-565 . https://doi.org/10.1101/gr.255752.119

Title: Noncoding regions underpin avian bill shape diversification at macroevolutionary scales
Author: Yusuf, Leeban; Heatley, Matthew C.; Palmer, Joseph P. G.; Barton, Henry J.; Cooney, Christopher R.; Gossmann, Toni
Contributor: University of Helsinki, Organismal and Evolutionary Biology Research Programme
Date: 2020-04
Language: eng
Number of pages: 13
Belongs to series: Genome Research
ISSN: 1088-9051
URI: http://hdl.handle.net/10138/321990
Abstract: Recent progress has been made in identifying genomic regions implicated in trait evolution on a microevolutionary scale in many species, but whether these are relevant over macroevolutionary time remains unclear. Here, we directly address this fundamental question using bird beak shape, a key evolutionary innovation linked to patterns of resource use, divergence, and speciation, as a model trait. We integrate class-wide geometric-morphometric analyses with evolutionary sequence analyses of 10,322 protein-coding genes as well as 229,001 genomic regions spanning 72 species. We identify 1434 protein-coding genes and 39,806 noncoding regions for which molecular rates were significantly related to rates of bill shape evolution. We show that homologs of the identified protein-coding genes as well as genes in close proximity to the identified noncoding regions are involved in craniofacial embryo development in mammals. They are associated with embryonic stem cell pathways, including BMP and Wnt signaling, both of which have repeatedly been implicated in the morphological development of avian beaks. This suggests that identifying genotype-phenotype association on a genome-wide scale over macroevolutionary time is feasible. Although the coding and noncoding gene sets are associated with similar pathways, the actual genes are highly distinct, with significantly reduced overlap between them and bill-related phenotype associations specific to noncoding loci. Evidence for signatures of recent diversifying selection on our identified noncoding loci in Darwin finch populations further suggests that regulatory rather than coding changes are major drivers of morphological diversification over macroevolutionary times.
Subject: CIS-REGULATORY ELEMENTS
BIASED GENE CONVERSION
LIFE-HISTORY TRAITS
BEAK MORPHOLOGY
FLUCTUATING SELECTION
EVOLUTIONARY DYNAMICS
ADAPTIVE EVOLUTION
MAJOR TRANSITIONS
POPULATION-SIZE
DARWINS FINCHES
1181 Ecology, evolutionary biology
Rights:


Files in this item

Total number of downloads: Loading...

Files Size Format View
Yusuf_et_al_Non ... ns_underpin_avian_bill.pdf 1.361Mb PDF View/Open

This item appears in the following Collection(s)

Show full item record