Population structure, inbreeding and stripe pattern abnormalities in plains zebras

@article{Larison2020PopulationSI,
  title={Population structure, inbreeding and stripe pattern abnormalities in plains zebras},
  author={Brenda Larison and Christopher B. Kaelin and Ryan J. Harrigan and Corneliu Henegar and Daniel I Rubenstein and Pauline L. Kamath and Ortwin H. K. Aschenborn and Thomas B. Smith and Gregory S. Barsh},
  journal={Molecular Ecology},
  year={2020},
  volume={30},
  pages={379 - 390}
}
One of the most iconic wild equids, the plains zebra occupies a broad region of sub‐Saharan Africa and exhibits a wide range of phenotypic diversity in stripe patterns that have been used to classify multiple subspecies. After decades of relative stability, albeit with a loss of at least one recognized subspecies, the total population of plains zebras has undergone an approximate 25% decline since 2002. Individuals with abnormal stripe patterns have been recognized in recent years but the… 
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Epigenetic models developed for plains zebras predict age in domestic horses and endangered equids
TLDR
An interaction between chronological age and inbreeding is associated with age acceleration estimated by the EPM, suggesting a cumulative effect of inbreeding on biological aging throughout life.
Epigenetic models predict age and aging in plains zebras and other equids
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Using blood and biopsy samples from known age plains zebras, epigenetic clocks (ECs) to predict chronological age, and epigenetic pacemaker models to predict biological age are developed and described, finding moderate support for a slight acceleration of aging with increased inbreeding.
Melanism in a wild sifaka population: Darker where cold and fragmented
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Three hypotheses that may explain pelage color and pattern variation within a population of wild primates, diademed sifakas, exhibiting striking diversity in coloration are explored: isolation by distance, an environmental gradient, or unique local adaptation.
Host Genetic Diversity and Infectious Diseases. Focus on Wild Boar, Red Deer and Tuberculosis
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A disconnection between studies treating genetic diversity and those dealing with infectious diseases is found and despite the existing disconnection, the knowledge gathered in each discipline can be applied to the other.
Commonly used Hardy-Weinberg equilibrium filtering schemes impact population structure inferences using RADseq data
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This work shows that the removal of loci exhibiting departures from HWE after pooling across samples significantly reduces the degree of inferred population structure within a dataset, and provides recommendations for best practice regarding the implementation of HWE filtering for RADseq datasets.
Title: Commonly used Hardy-Weinberg equilibrium filtering schemes impact 1 population structure inferences using RADseq data
TLDR
This work shows that the removal of loci exhibiting departures from Hardy-Weinberg equilibrium after pooling across samples significantly reduces the degree of inferred population structure within a dataset (despite this approach being widely used).
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A novel classification consisting of seven families of primary mechanisms: Turing(-like), cellular automaton, multi-induction, physical cracking, random, neuromuscular and printing is proposed and six pattern modifiers are reported, acting synergistically with these primary mechanisms to enhance the spectrum of repeated colour patterns.

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