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Intra- and Inter-Specific Investigations of Skeletal DNA Methylation Patterns and Femur Morphology in Nonhuman Primates

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Papio sp. Chlorocebus aethiops Callithrix jacchus Pan troglodytes Homo sapiens Macaca mulatta

PROVIDER: GSE103332 | GEO | 2020/03/11

REPOSITORIES: GEO

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Intra- and Inter-Specific Investigations of Skeletal DNA Methylation Patterns and Femur Morphology in Nonhuman Primates

Project description:Intra- and Inter-Specific Investigations of Skeletal DNA Methylation Patterns and Femur Morphology in Nonhuman Primates

| PRJNA400860 | ENA

Intraspecific and interspecific investigations of skeletal DNA methylation and femur morphology in primates.

Project description:ObjectivesEpigenetic mechanisms influence the development and maintenance of complex phenotypes and may also contribute to the evolution of species-specific phenotypes. With respect to skeletal traits, little is known about the gene regulation underlying these hard tissues or how tissue-specific patterns are associated with bone morphology or vary among species. To begin exploring these topics, this study evaluates one epigenetic mechanism, DNA methylation, in skeletal tissues from five nonhuman primate species which display anatomical and locomotor differences representative of their phylogenetic groups.Materials and methodsFirst, we test whether intraspecific variation in skeletal DNA methylation is associated with intraspecific variation in femur morphology. Second, we identify interspecific differences in DNA methylation and assess whether these lineage-specific patterns may have contributed to species-specific morphologies. Specifically, we use the Illumina Infinium MethylationEPIC BeadChip to identify DNA methylation patterns in femur trabecular bone from baboons (n = 28), macaques (n = 10), vervets (n = 10), chimpanzees (n = 4), and marmosets (n = 6).ResultsSignificant differentially methylated positions (DMPs) were associated with a subset of morphological variants, but these likely have small biological effects and may be confounded by other variables associated with morphological variation. Conversely, several species-specific DMPs were identified, and these are found in genes enriched for functions associated with complex skeletal traits.DiscussionOverall, these findings reveal that while intraspecific epigenetic variation is not readily associated with skeletal morphology differences, some interspecific epigenetic differences in skeletal tissues exist and may contribute to evolutionarily distinct phenotypes. This work forms a foundation for future explorations of gene regulation and skeletal trait evolution in primates.

| S-EPMC7451158 | biostudies-literature

Assessment of DNA methylation patterns related to femur bone morphology in nonhuman primate bone using the 850K array

Project description:The aim of this study was to characterize the genome-wide DNA methylation profiles of nonhuman primate trabecular bone samples (n=58), identify how they relate to aspects of femur bone morphology, and assess how these epigenetic patterns vary between taxa. The Illumina Infinium MethylationEPIC array was used to assess genome-wide methylation patterns.

2020-03-15 | GSE103287 | GEO

Intra-amniotic Balloon Inflation Induces an Inflammatory “Pulse” and Labor in Nonhuman Primates

Project description:Uterine stretch is thought to induce preterm labor in women with twin and higher order pregnancies, but the pathophysiology remains unclear. We investigated the pathogenesis of stretch-induced preterm birth for the first time in a pregnant nonhuman primate model. Eleven chronically catheterized pregnant monkeys (Macaca nemestrina) at 118-125 days gestation (term=172 days) received either: 1) inflation of intra-amniotic balloons (N=6) or 2) saline inoculation (N=5). Cesarean section and fetal necropsy was performed due to preterm labor or to collect tissues, except in one case where the animal delivered spontaneously, reducing samples for microarray analysis to ten (five stretch and five control animals). Amniotic fluid and maternal plasma were analyzed for multiple cytokines and prostaglandins using Luminex, enzyme-linked immunosorbent assay and Analysis of Covariance. Ribonucleic acid was extracted from the myometrium in the lower uterus at Cesarean section and analyzed by microarray and quantitative reverse transcriptase polymerase chain reaction.

2015-09-11 | E-GEOD-63274 | biostudies-arrayexpress

Intra-amniotic Balloon Inflation Induces an Inflammatory “Pulse” and Labor in Nonhuman Primates

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Assessment of DNA methylation patterns related to femur bone morphology in marmoset bone using the 850K array

Project description:The aim of this study was to characterize the genome-wide DNA methylation profiles of marmoset femur trabecular bone samples (n=6) and identify how they relate to aspects of femur bone morphology. The Illumina Infinium MethylationEPIC Array was used to assess these genome-wide methylation patterns.

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Assessment of DNA methylation patterns related to femur bone morphology in vervet bone using the 850K array

Project description:The aim of this study was to characterize the genome-wide DNA methylation profiles of vervet femur trabecular bone samples (n=10) and identify how they relate to aspects of femur bone morphology. The Illumina Infinium MethylationEPIC Array was used to assess these genome-wide methylation patterns.

2020-03-14 | GSE103280 | GEO

Assessment of DNA methylation patterns related to femur bone morphology in baboon bone using the 850K array

Project description:The aim of this study was to characterize the genome-wide DNA methylation profiles of adult baboon femur trabecular bone samples (n=28) and identify how they relate to aspects of femur bone morphology. The Illumina Infinium MethylationEPIC Array was used to assess these genome-wide methylation patterns.

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Assessment of DNA methylation patterns related to femur bone morphology in macaque bone using the 850K array

Project description:The aim of this study was to characterize the genome-wide DNA methylation profiles of macaque femur trabecular bone samples (n=10) and identify how they relate to aspects of femur bone morphology. The Illumina Infinium MethylationEPIC Array was used to assess these genome-wide methylation patterns.

2020-03-14 | GSE103271 | GEO

Assessment of DNA methylation patterns related to femur bone morphology in nonhuman primate bone using the 850K array

Project description:Assessment of DNA methylation patterns related to femur bone morphology in nonhuman primate bone using the 850K array

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