Long non-coding RNA profiling of human lymphoid progenitor cells reveals transcriptional divergence of B cell and T cell lineages.
To elucidate the transcriptional 'landscape' that regulates human lymphoid commitment during postnatal life, we used RNA sequencing to assemble the long non-coding transcriptome across human bone marrow and thymic progenitor cells spanning the earliest stages of B lymphoid and T lymphoid specification. Over 3,000 genes encoding previously unknown long non-coding RNAs (lncRNAs) were revealed through the analysis of these rare populations. Lymphoid commitment was characterized by lncRNA expression patterns that were highly stage specific and were more lineage specific than those of protein-coding genes. Protein-coding genes co-expressed with neighboring lncRNA genes showed enrichment for ontologies related to lymphoid differentiation. The exquisite cell-type specificity of global lncRNA expression patterns independently revealed new developmental relationships among the earliest progenitor cells in the human bone marrow and thymus.
Department of Pathology &Laboratory Medicine, David Geffen School of Medicine University of California, Los Angeles, Los Angeles, California, USA.
David
http://orcid.org/0000-0002-7347-3330
D
Casero
Department of Pathology &Laboratory Medicine, David Geffen School of Medicine University of California, Los Angeles, Los Angeles, California, USA.
Salemiz
S
Sandoval
Division of Hematology-Oncology, Department of Medicine, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California, USA.
Christopher S
CS
Seet
Eli and Edythe Broad Center for Regenerative Medicine and Stem Cell Research, University of California, Los Angeles, Los Angeles, California, USA.
Jessica
J
Scholes
Department of Pathology &Laboratory Medicine, David Geffen School of Medicine University of California, Los Angeles, Los Angeles, California, USA.
Yuhua
Y
Zhu
Children's Center for Cancer and Blood Disease, Children's Hospital Los Angeles, Los Angeles, California, USA.
Vi Luan
VL
Ha
Children's Center for Cancer and Blood Disease, Children's Hospital Los Angeles, Los Angeles, California, USA.
Annie
A
Luong
Children's Center for Cancer and Blood Disease, Children's Hospital Los Angeles, Los Angeles, California, USA.|Department of Pediatrics, Keck School of Medicine, University of Southern California Los Angeles, Los Angeles, California, USA.
Chintan
C
Parekh
Department of Pathology &Laboratory Medicine, David Geffen School of Medicine University of California, Los Angeles, Los Angeles, California, USA.|Eli and Edythe Broad Center for Regenerative Medicine and Stem Cell Research, University of California, Los Angeles, Los Angeles, California, USA.|Department of Pediatrics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California, USA.|Jonsson Comprehensive Cancer Center, University of California, Los Angeles, Los Angeles, California, USA.
Gay M
GM
Crooks
D001402:B-Lymphocytes / Q000378:metabolism*; D001499:Bayes Theorem; D001854:Bone Marrow Cells / Q000378:metabolism; D019070:Cell Lineage / Q000235:genetics*; D016000:Cluster Analysis; D020869:Gene Expression Profiling / Q000379:methods; D063990:Gene Ontology; D006801:Humans; D054503:Lymphoid Progenitor Cells / Q000378:metabolism*; D020411:Oligonucleotide Array Sequence Analysis; D062085:RNA, Long Noncoding / Q000235:genetics*; D020133:Reverse Transcriptase Polymerase Chain Reaction; D017423:Sequence Analysis, RNA / Q000379:methods; D013601:T-Lymphocytes / Q000378:metabolism*; D013950:Thymus Gland / Q000166:cytology / Q000378:metabolism; D059467:Transcriptome
D062085:RNA, Long Noncoding