Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution

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doi:10.1038/nature03154

Cited by 2,260 publications

(1,138 citation statements)

References 147 publications

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“…Regions orthologous to XCR and XAR are separate also in birds and other vertebrates 62, implying that they represent two separate ancient gene blocks that fused in eutherians. The addition of an autosomal region to the Y as well as to the X chromosome implies that fusion occurred within a large pseudoautosomal region when the XY pair was only partially differentiated.…”

Section: Sex Chromosome‐autosome Fusion Accompanied Evolution Of Euthmentioning

confidence: 99%

Did sex chromosome turnover promote divergence of the major mammal groups?

Graves

2016

BioEssays

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Comparative mapping and sequencing show that turnover of sex determining genes and chromosomes, and sex chromosome rearrangements, accompany speciation in many vertebrates. Here I review the evidence and propose that the evolution of therian mammals was precipitated by evolution of the male‐determining SRY gene, defining a novel XY sex chromosome pair, and interposing a reproductive barrier with the ancestral population of synapsid reptiles 190 million years ago (MYA). Divergence was reinforced by multiple translocations in monotreme sex chromosomes, the first of which supplied a novel sex determining gene. A sex chromosome‐autosome fusion may have separated eutherians (placental mammals) from marsupials 160 MYA. Another burst of sex chromosome change and speciation is occurring in rodents, precipitated by the degradation of the Y. And although primates have a more stable Y chromosome, it may be just a matter of time before the same fate overtakes our own lineage.Also watch the video abstract.

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Section: Sex Chromosome‐autosome Fusion Accompanied Evolution Of Euthmentioning

confidence: 99%

Did sex chromosome turnover promote divergence of the major mammal groups?

Graves

2016

BioEssays

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“…Microsatellite development can now be achieved rapidly for very little work and $US1000-2000 using next-generation sequencing, and costs will continue to fall (Abdelkrim et al 2009). It is also tractable to apply the same or equivalent markers among species and obtain quantitatively comparable estimates of population demography, for example using resources based on comparing the Chicken genome with genomes of other birds including the Zebra Finch (Hillier et al 2004;Backström et al 2008;Karaiskou et al 2008;Kimball et al 2009). These have made available many hundreds of coding exons, non-coding introns and untranslated regions, for application to any bird.…”

Section: The Genomics Revolution and Associated Technical Advancementioning

confidence: 99%

Towards modelling persistence of woodland birds: the role of genetics

Sunnucks

2011

Emu - Austral Ornithology

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Abstract. Assessing how environmental change affects the probability of persistence of organisms requires an understanding of dispersal through, and occupation of, landscapes, and the associated demographic outcomes. Projections of differences in persistence probability can then be made under different scenarios of land-use and global environmental change. Rates and distances of dispersal, and demographic change and trajectories, are difficult to measure accurately, but genetic approaches can make major contributions. For two decades the field of molecular ecology has been providing useful life-history information relevant to population management, including key ecological attributes such as disease-resistance and thermal biology, mobility, dispersal and gene flow, habitat connectivity, the spatial and temporal scales of population processes, and demography. Genetic estimators of these factors could be employed to a much greater extent than they are currently. To facilitate this increased use, genetic estimates of functional connectivity (mobility and gene flow of organisms) and demography need to be integrated directly into decision-making processes. Population genetics is well suited to Bayesian approaches, with associated benefits including the ability to consider many factors, and estimation of error and parameter sensitivities. Genetic estimators based on the mobility and reproductive success of individual organisms and their key ecological traits can make unique contributions alongside other types of data into agent-based, spatially explicit modelling approaches of real landscape scenarios at the range of scales needed by managers. Virtually all the tools to do this exist. It is imperative that genetic samples be collected for contemporary and future analyses.

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“…A given question might be cast in terms of one or the other but full illumination of an evolutionary problem may require some or all of the different perspectives offered by these fields be considered. Australian examples of this interdependence that we will discuss are in studies of the Australian Magpie (Gymnorhina tibicen) (Hughes et al 2001;Toon et al 2007), the White-winged Fairy-wren (Malurus leucopterus) (Driskell et al 2002), and blue-cheeked parrots of the Crimson Rosella (Platycercus elegans) complex .…”

Section: Box 1: Mitochondrial Dna: a Remindermentioning

confidence: 99%

Phylogeography: its development and impact in Australo-Papuan ornithology with special reference to paraphyly in Australian birds

Joseph

Omland

2009

Emu - Austral Ornithology

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Abstract.With examples from Australo-Papuan ornithology, we examine the technical and theoretical roots of molecular phylogeography and review its development. We describe the progression from ad hoc interpretation of gene trees in single species phylogeographic studies through to comparative phylogeography and currently advocated model-testing approaches. Mitochondrial DNA (mtDNA) sequences have provided most advances to date, although we demonstrate and advocate the future use of multilocus datasets analysed with coalescent methods. We examine interrelationships among speciation research, historical biogeography, phylogeography and landscape genetics. Mitochondrial paraphyly, in which individuals of one species or population have mtDNA that is more closely related to that of another than to their own, emerges in 44% of Australian studies to date as a common, important result in Australian avian phylogeography. Accordingly, we explore at length its most common causes and its impact on case studies in Australo-Papuan avian phylogeography. The impact of so much paraphyly on avian phylogeography and taxonomy is a major theme of the review. We suggest a full research agenda for avian phylogeography in the AustraloPapuan region that spans diverse topics: the need for more studies of pelagic birds, spatio-temporal links between New Guinea and Australia, island populations, testing of long-established biogeographical hypotheses, and integration of molecular and non-molecular datasets into integrated evolutionary understanding of species and populations. Studying the full continuum of divergences from landscape genetics, to phylogeography, to recently diverged species with evidence of paraphyly, to highly divergent species with many fixed differences will lead to a more complete understanding of the processes and patterns of avian evolution.

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Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution

Cited by 2,260 publications

References 147 publications

Did sex chromosome turnover promote divergence of the major mammal groups?

Did sex chromosome turnover promote divergence of the major mammal groups?

Towards modelling persistence of woodland birds: the role of genetics

Phylogeography: its development and impact in Australo-Papuan ornithology with special reference to paraphyly in Australian birds

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