RT Journal Article
SR Electronic
T1 Structurally conserved primate lncRNAs are transiently expressed during human cortical differentiation and influence cell type specific genes
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 232553
DO 10.1101/232553
A1 Andrew R. Field
A1 Frank M.J. Jacobs
A1 Ian T. Fiddes
A1 Alex P.R. Phillips
A1 Andrea M. Reyes-Ortiz
A1 Erin LaMontagne
A1 Lila Whitehead
A1 Vincent Meng
A1 Jimi L. Rosenkrantz
A1 Maximillian Haeussler
A1 Sol Katzman
A1 Sofie R. Salama
A1 David Haussler
YR 2017
UL http://biorxiv.org/content/early/2017/12/12/232553.abstract
AB The cerebral cortex has expanded in size and complexity in primates, yet the underlying molecular mechanisms are obscure. We generated cortical organoids from human, chimpanzee, orangutan, and rhesus pluripotent stem cells and sequenced their transcriptomes at weekly time points for comparative analysis. We used transcript structure and expression conservation to discover thousands of expressed long non-coding RNAs (lncRNAs). Of 2,975 human, multi-exonic lncRNAs, 2,143 were structurally conserved to chimpanzee, 1,731 to orangutan, and 1,290 to rhesus. 386 human lncRNAs were transiently expressed (TrEx) and a similar expression pattern was often observed in great apes (46%) and rhesus (31%). Many TrEx lncRNAs were associated with neuroepithelium, radial glia, or Cajal-Retzius cells by single cell RNA-sequencing. 3/8 tested by ectopic expression showed ≥2-fold effects on neural genes. This rich resource of primate expression data in early cortical development provides a framework for identifying new, potentially functional lncRNAs.