Transcript profile distinguishes variability in human myogenic progenitor cell expansion capacity

Physiological Genomics
Emily S RiddleAnna Thalacker-Mercer

Abstract

Primary human muscle progenitor cells (hMPCs) are commonly used to understand skeletal muscle biology, including the regenerative process. Variability from unknown origin in hMPC expansion capacity occurs independently of disease, age, or sex of the donor. We sought to determine the transcript profile that distinguishes hMPC cultures with greater expansion capacity and to identify biological underpinnings of these transcriptome profile differences. Sorted (CD56+/CD29+) hMPC cultures were clustered by unbiased, K-means cluster analysis into FAST and SLOW based on growth parameters (saturation density and population doubling time). FAST had greater expansion capacity indicated by significantly reduced population doubling time (-60%) and greater saturation density (+200%), nuclei area under the curve (AUC, +250%), and confluence AUC (+120%). Additionally, FAST had fewer % dead cells AUC (-44%, P < 0.05). RNA sequencing was conducted on RNA extracted during the expansion phase. Principal component analysis distinguished FAST and SLOW based on the transcript profiles. There were 2,205 differentially expressed genes (DEgenes) between FAST and SLOW (q value ≤ 0.05); 362 DEgenes met a more stringent cut-off (q value ≤ 0.001 and 2.0 fol...Continue Reading

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Citations

Jan 27, 2019·Molecular Systems Biology·Sandra CortijoJames Cw Locke
Aug 16, 2018·American Journal of Physiology. Cell Physiology·Emily S RiddleAnna E Thalacker-Mercer
Feb 29, 2020·Calcified Tissue International·Cecilia RomagnoliMaria Luisa Brandi
Mar 21, 2019·Frontiers in Physiology·Brandon J GhellerAnna E Thalacker-Mercer

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Methods Mentioned

BETA
genetic modification
biopsies
biopsy
RNA-Seq
PCA
chromosomal aberration
FACS

Software Mentioned

SLOW
JMP
Ingenuity Pathways Analysis
Ingenuity Pathway Analysis ( IPA )
Prism
tophat
IPA
FAST
cutadapt
GraphPad

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