Structural genomic changes underlie alternative reproductive strategies in the ruff (Philomachus pugnax)
Sangeet Lamichhaney,Guangyi Fan,Fredrik Widemo,Ulrika Gunnarsson,Doreen Schwochow Thalmann,Marc P. Hoeppner,Marc P. Hoeppner,Marc P. Hoeppner,Susanne Kerje,Ulla Gustafson,Chengcheng Shi,He Zhang,Wenbin Chen,Xinming Liang,Leihuan Huang,Jiahao Wang,Enjing Liang,Qiong Wu,Simon Ming-Yuen Lee,Xun Xu,Jacob Höglund,Xin Liu,Leif Andersson,Leif Andersson,Leif Andersson +24 more
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TLDR
Using whole-genome sequencing, this work proposes an evolutionary scenario where the Satellite chromosome arose by a rare recombination event about 500,000 years ago and resolved the enigma of how such complex phenotypic differences can have a simple genetic basis.Abstract:
Leif Andersson and colleagues report the genome sequence of the ruff, a bird species with three male morphs with different reproductive strategies. Satellite and faeder morphs differ from the common independent morph by a 4.5-Mb inversion that occurred approximately 3.8 million years ago, and multiple genetic changes within this inverted region are associated with the satellite and faeder morphs. The ruff is a Palearctic wader with a spectacular lekking behavior where highly ornamented males compete for females1,2,3,4. This bird has one of the most remarkable mating systems in the animal kingdom, comprising three different male morphs (independents, satellites and faeders) that differ in behavior, plumage color and body size. Remarkably, the satellite and faeder morphs are controlled by dominant alleles5,6. Here we have used whole-genome sequencing and resolved the enigma of how such complex phenotypic differences can have a simple genetic basis. The Satellite and Faeder alleles are both associated with a 4.5-Mb inversion that occurred about 3.8 million years ago. We propose an evolutionary scenario where the Satellite chromosome arose by a rare recombination event about 500,000 years ago. The ruff mating system is the result of an evolutionary process in which multiple genetic changes contributing to phenotypic differences between morphs have accumulated within the inverted region.read more
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Integrative Genomics Viewer
James T. Robinson,Helga Thorvaldsdottir,Wendy Winckler,Mitchell Guttman,Eric S. Lander,Eric S. Lander,Gad Getz,Jill P. Mesirov +7 more
TL;DR: The sheer volume and scope of data posed by this flood of data pose a significant challenge to the development of efficient and intuitive visualization tools able to scale to very large data sets and to flexibly integrate multiple data types, including clinical data.
Journal ArticleDOI
A supergene determines highly divergent male reproductive morphs in the ruff
Clemens Küpper,Clemens Küpper,Michael Stocks,Judith Risse,Natalie Dos Remedios,Lindsay L Farrell,Lindsay L Farrell,Susan B. McRae,Tawna C. Morgan,Natalia Karlionova,Pavel Pinchuk,Yvonne I. Verkuil,Alexander S. Kitaysky,John C. Wingfield,Theunis Piersma,Kai Zeng,Jon Slate,Mark Blaxter,David B. Lank,Terry Burke +19 more
TL;DR: It is shown that development into satellites and faeders is determined by a supergene consisting of divergent alternative, dominant and non-recombining haplotypes of an inversion on chromosome 11, which contains 125 predicted genes.
Journal ArticleDOI
Making sense of genomic islands of differentiation in light of speciation.
Jochen B. W. Wolf,Hans Ellegren +1 more
TL;DR: This Review explores methodological trends in speciation genomic studies, highlights the difficulty in separating processes related to speciation from those emerging from genome-wide properties that are not related to reproductive isolation, and provides a set of suggestions for future work in this area.
Journal ArticleDOI
Eco-Evolutionary Genomics of Chromosomal Inversions.
TL;DR: The ubiquitous importance of inversions in ecological and evolutionary processes suggests that structural variation should be better acknowledged and integrated in studies pertaining to the molecular basis of adaptation and speciation.
Journal ArticleDOI
How to make a sex chromosome.
TL;DR: This review considers each of these three questions in turn to address fundamental questions in the field, summarize the current understanding, and highlight important areas for future work.
References
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