Methylome Analysis in Chickens Immunized with Infectious Laryngotracheitis Vaccine

Carrillo, José A.; He, Yanghua; Luo, Juan; Menendez, Kimberly R.; Tablante, Nathaniel L.; Zhao, Keji; Paulson, Joseph N.; Li, Bichun; Song, Jiuzhou

doi:10.1371/journal.pone.0100476

Cited by 9 publications

(8 citation statements)

References 58 publications

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“…This situation also resembles that in chickens insofar as the DNA methylome of resistant chickens responds to MDV infections with more downthan up-methylations in comparison to susceptible chicken (Tian et al 2013). Furthermore, chickens, when immunized with an infectious laryngotracheitis vaccine, have been recently shown to exhibit massive changes in global DNA methylation with more down-methylations than non-vaccinated control chicken (Carillo et al 2015). Though the previous studies with chickens are not completely comparable with our studies in mice, both studies have at least in common that survival, and even the potency for survival, of two different infectious diseases in two different hosts is associated with more downthan up-methylations of host DNA.…”

Section: Discussionmentioning

confidence: 70%

Protective vaccination and blood-stage malaria modify DNA methylation of gene promoters in the liver of Balb/c mice

et al. 2017

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Epigenetic mechanisms such as DNA methylation are increasingly recognized to be critical for vaccination efficacy and outcome of different infectious diseases, but corresponding information is scarcely available for host defense against malaria. In the experimental blood-stage malaria Plasmodium chabaudi, we investigate the possible effects of a blood-stage vaccine on DNA methylation of gene promoters in the liver, known as effector against blood-stage malaria, using DNA methylation microarrays. Naturally susceptible Balb/c mice acquire, by protective vaccination, the potency to survive P. chabaudi malaria and, concomitantly, modifications of constitutive DNA methylation of promoters of numerous genes in the liver; specifically, promoters of 256 genes are hyper(=up)- and 345 genes are hypo(=down)-methylated (p < 0.05). Protective vaccination also leads to changes in promoter DNA methylation upon challenge with P. chabaudi at peak parasitemia on day 8 post infection (p.i.), when 571 and 1013 gene promoters are up- and down-methylated, respectively, in relation to constitutive DNA methylation (p < 0.05). Gene set enrichment analyses reveal that both vaccination and P. chabaudi infections mainly modify promoters of those genes which are most statistically enriched with functions relating to regulation of transcription. Genes with down-methylated promoters encompass those encoding CX3CL1, GP130, and GATA2, known to be involved in monocyte recruitment, IL-6 trans-signaling, and onset of erythropoiesis, respectively. Our data suggest that vaccination may epigenetically improve parts of several effector functions of the liver against blood-stage malaria, as, e.g., recruitment of monocyte/macrophage to the liver accelerated liver regeneration and extramedullary hepatic erythropoiesis, thus leading to self-healing of otherwise lethal P. chabaudi blood-stage malaria.

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Section: Discussionmentioning

confidence: 70%

Protective vaccination and blood-stage malaria modify DNA methylation of gene promoters in the liver of Balb/c mice

et al. 2017

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“…“EIF2 signaling” is also predicted to have higher activity in trachea of Fayoumis compared to Leghorns at 2 dpi 13 , and it has been known to inhibit viral replication and regulate proinflammatory cytokine expression 36 . Interestingly, all three pathways were reported to show decreased methylation in chickens immunized with infectious laryngotracheitis vaccine compared to the unimmunized ones 37 . Therefore, upregulation of these pathways may be vitally important for enhanced disease resistance in Fayoumi chickens.…”

Section: Discussionmentioning

confidence: 99%

Transcriptome Analysis in Spleen Reveals Differential Regulation of Response to Newcastle Disease Virus in Two Chicken Lines

Zhang

Kaiser

Deist

et al. 2018

Sci Rep

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Enhancing genetic resistance of chickens to Newcastle Disease Virus (NDV) provides a promising way to improve poultry health, and to alleviate poverty and food insecurity in developing countries. In this study, two inbred chicken lines with different responses to NDV, Fayoumi and Leghorn, were challenged with LaSota NDV strain at 21 days of age. Through transcriptome analysis, gene expression in spleen at 2 and 6 days post-inoculation was compared between NDV-infected and control groups, as well as between chicken lines. At a false discovery rate <0.05, Fayoumi chickens, which are relatively more resistant to NDV, showed fewer differentially expressed genes (DEGs) than Leghorn chickens. Several interferon-stimulated genes were identified as important DEGs regulating immune response to NDV in chicken. Pathways predicted by IPA analysis, such as "EIF-signaling", "actin cytoskeleton organization nitric oxide production" and "coagulation system" may contribute to resistance to NDV in Fayoumi chickens. The identified DEGs and predicted pathways may contribute to differential responses to NDV between the two chicken lines and provide potential targets for breeding chickens that are more resistant to NDV.

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“…Genome-wide DNA methylation of lowland chickens has been investigated using MeDIP-seq [ 19 , 20 ], MBD-Seq [ 21 ], and Methyl-MAPS [ 22 ], which measure methylation based on immunoprecipitation and restriction enzyme digestion. Compared to WGBS, these technologies generate lower resolution and coverage and fail to obtain methylation level for CHG and CHH.…”

Section: Discussionmentioning

confidence: 99%

Whole genome bisulfite sequencing reveals unique adaptations to high-altitude environments in Tibetan chickens

Zhang

Bai

et al. 2018

PLoS ONE

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BackgroundTibetan chickens living at high altitudes show specific adaptations to high-altitude conditions, but the epigenetic modifications associated with these adaptations have not been characterized.ResultsWe investigated the genome-wide DNA methylation patterns in Tibetan chicken blood by using whole genome bisulfite sequencing. Generally, Tibetan chickens exhibited analogous methylation patterns to that of lowland chickens. A total of 3.92% of genomic cytosines were methylcytosines and 51.22% of cytosines in CG contexts were methylated, which was less than those in lowland chicken (55.69%). Moreover, the base adjacent to the methylcytosines of mCHGs in Tibetan chickens had a preference for T, which was different from that in lowland chickens. In Tibetan chickens, the methylation levels in the promoter were relatively low, while the gene body was also maintained in a hypomethylated state. DNA methylation levels in regions upstream of the transcription start site of genes were negatively correlated with the level of gene expression, and DNA methylation of gene body regions was also negatively related to gene expression.ConclusionsWe generated the genome-wide DNA methylation patterns in Tibetan chickens and our results will be helpful for future epigenetic studies related to adaptations to high-altitude conditions.

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Methylome Analysis in Chickens Immunized with Infectious Laryngotracheitis Vaccine

Cited by 9 publications

References 58 publications

Protective vaccination and blood-stage malaria modify DNA methylation of gene promoters in the liver of Balb/c mice

Protective vaccination and blood-stage malaria modify DNA methylation of gene promoters in the liver of Balb/c mice

Transcriptome Analysis in Spleen Reveals Differential Regulation of Response to Newcastle Disease Virus in Two Chicken Lines

Whole genome bisulfite sequencing reveals unique adaptations to high-altitude environments in Tibetan chickens

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