Natural epigenetic variation in the female great roundleaf bat (Hipposideros armiger) populations

Liu, Sen; Sun, Keping; Jiang, Tinglei; Ho, Jennifer; Liu, Bao; Feng, Jiang

doi:10.1007/s00438-012-0704-x

Cited by 51 publications

(41 citation statements)

References 54 publications

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“…In most wild animal populations examined to date, there has been an excess of DNA methylation variation relative to genetic variation (Massicotte et al, 2011;Mor an & P erez-Figueroa, 2011;Liu et al, 2012;Massicotte & Angers, 2012;Schrey et al, 2012;Liebl et al, 2013;Skinner et al, 2014;Wenzel & Piertney, 2014). First investigations into epigenetic variation in wild animal populations involved the salmonid, Oncorhynchus mykiss (Blouin et al, 2010).…”

Section: Population Epigenetics In the Wildmentioning

confidence: 99%

Epigenetics in natural animal populations

Barrett

2017

J of Evolutionary Biology

123

127

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Phenotypic plasticity is an important mechanism for populations to buffer themselves from environmental change. While it has long been appreciated that natural populations possess genetic variation in the extent of plasticity, a surge of recent evidence suggests that epigenetic variation could also play an important role in shaping phenotypic responses. Compared with genetic variation, epigenetic variation is more likely to have higher spontaneous rates of mutation and a more sensitive reaction to environmental inputs. In our review, we first provide an overview of recent studies on epigenetically encoded thermal plasticity in animals to illustrate environmentally-mediated epigenetic effects within and across generations. Second, we discuss the role of epigenetic effects during adaptation by exploring population epigenetics in natural animal populations. Finally, we evaluate the evolutionary potential of epigenetic variation depending on its autonomy from genetic variation and its transgenerational stability. Although many of the causal links between epigenetic variation and phenotypic plasticity remain elusive, new data has explored the role of epigenetic variation in facilitating evolution in natural populations. This recent progress in ecological epigenetics will be helpful for generating predictive models of the capacity of organisms to adapt to changing climates.

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Section: Population Epigenetics In the Wildmentioning

confidence: 99%

Epigenetics in natural animal populations

Barrett

2017

J of Evolutionary Biology

123

127

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“…In addition, Messeguer et al [32] proposed that methylcytosine could be inherited through meiosis in a Mendelian fashion, and it is also suggested that epigenetic variation is under genetic control and/or their correlation was caused by neutral drift [43]. Genetic variation revealed by SSR markers was used to divide a population of 460 P .…”

Section: Discussionmentioning

confidence: 99%

“…Significance difference between relative CG and CNG methylation levels and significance difference between relative total methylation and non-methylation levels were estimated by a Wilcoxon rank sum test [17] within each population. The relative CG, CNG methylation and non-methylation levels among natural populations were examined by a Kruskal–Wallis H test [43], respectively.…”

Section: Methodsmentioning

confidence: 99%

Variation in Genomic Methylation in Natural Populations of Chinese White Poplar

Ma¹,

Song²,

Yang³

et al. 2013

PLoS ONE

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BackgroundIt is thought that methylcytosine can be inherited through meiosis and mitosis, and that epigenetic variation may be under genetic control or correlation may be caused by neutral drift. However, DNA methylation also varies with tissue, developmental stage, and environmental factors. Eliminating these factors, we analyzed the levels and patterns, diversity and structure of genomic methylcytosine in the xylem of nine natural populations of Chinese white poplar.Principal FindingsOn average, the relative total methylation and non-methylation levels were approximately 26.567% and 42.708% (P<0.001), respectively. Also, the relative CNG methylation level was higher than the relative CG methylation level. The relative methylation/non-methylation levels were significantly different among the nine natural populations. Epigenetic diversity ranged from 0.811 (Gansu) to 1.211 (Shaanxi), and the coefficients of epigenetic differentiation (GST = 0.159) were assessed by Shannon’s diversity index. Co-inertia analysis indicated that methylation-sensitive polymorphism (MSP) and genomic methylation pattern (CG-CNG) profiles gave similar distributions. Using a between-group eigen analysis, we found that the Hebei and Shanxi populations were independent of each other, but the Henan population intersected with the other populations, to some degree.ConclusionsGenome methylation in Populus tomentosa presented tissue-specific characteristics and the relative 5′-CCGG methylation level was higher in xylem than in leaves. Meanwhile, the genome methylation in the xylem shows great epigenetic variation and could be fixed and inherited though mitosis. Compared to genetic structure, data suggest that epigenetic and genetic variation do not completely match.

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“…On a population epigenetics level, differentiation of methylation states is frequently observed among populations in different environments (Herrera & Bazaga 2010; Lira-Medeiros et al. 2010; Liu et al. 2012; Schulz et al.…”

Section: Introductionmentioning

confidence: 99%

Fine‐scale population epigenetic structure in relation to gastrointestinal parasite load in red grouse (Lagopus lagopus scotica)

Wenzel

Piertney

2014

Molecular Ecology

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Epigenetic modification of cytosine methylation states can be elicited by environmental stresses and may be a key process affecting phenotypic plasticity and adaptation. Parasites are potent stressors with profound physiological and ecological effects on their host, but there is little understanding in how parasites may influence host methylation states. Here, we estimate epigenetic diversity and differentiation among 21 populations of red grouse (Lagopus lagopus scotica) in north-east Scotland and test for association of gastrointestinal parasite load (caecal nematode Trichostrongylus tenuis) with hepatic genome-wide and locus-specific methylation states. Following methylation-sensitive AFLP (MSAP), 129 bands, representing 73 methylation-susceptible and 56 nonmethylated epiloci, were scored across 234 individuals. The populations differed significantly in genome-wide methylation levels and were also significantly epigenetically (FSC = 0.0227; P < 0.001) and genetically (FSC = 0.0058; P < 0.001) differentiated. Parasite load was not associated with either genome-wide methylation levels or epigenetic differentiation. Instead, we found eight disproportionately differentiated epilocus-specific methylation states (FST outliers) using bayescan software and significant positive and negative association of 35 methylation states with parasite load from bespoke generalized estimating equations (GEE), simple logistic regression (sam) and Bayesian environmental analysis (bayenv2). Following Sanger sequencing, genome mapping and geneontology (go) annotation, some of these epiloci were linked to genes involved in regulation of cell cycle, signalling, metabolism, immune system and notably rRNA methylation, histone acetylation and small RNAs. These findings demonstrate an epigenetic signature of parasite load in populations of a wild bird and suggest intriguing physiological effects of parasite-associated cytosine methylation.

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Natural epigenetic variation in the female great roundleaf bat (Hipposideros armiger) populations

Cited by 51 publications

References 54 publications

Epigenetics in natural animal populations

Epigenetics in natural animal populations

Variation in Genomic Methylation in Natural Populations of Chinese White Poplar

Fine‐scale population epigenetic structure in relation to gastrointestinal parasite load in red grouse (Lagopus lagopus scotica)

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