Detection of low-abundant novel transcripts in mouse hematopoietic stem cells.
Gene expression profiles of hematopoietic stem cells (HSCs) provide clues for understanding molecular mechanisms of HSC behavior, including self-renewal and differentiation. We took advantage of serial analysis of gene expression (SAGE) to identify medium- and low-abundant transcripts expressed in HSCs/hematopoietic progenitor cells (HPCs). Among a total of 31,380 unique transcripts, 17,326 (55%) correspond to known genes and, 14,054 (45%) are low-copy transcripts that have no matches to currently known genes. Among the former class, 3,899 (23%) were alternatively spliced transcripts and 3,754 (22%) represent anti-sense transcripts from known genes. Mapping of the SAGE tags to the mouse genome showed that differences in gene expression exist among chromosomes. In addition, comparison of the HSCs/HPCs SAGE data to that of myeloid progenitor cells revealed that massive genetic reprogramming occurs in hematopoietic cell differentiation. Our results demonstrate a previously unrecognized complexity of gene expression in HSCs/HPCs, and indicate the need for further efforts to fully identify and characterize the transcripts expressed in this cell type.
Kim
Hyeng-Soo
HS
School of Life Science and Biotechnology, Kyungpook National University, Daegu, Republic of Korea.
Hwang
Junmo
J
Kim
Young-Hun
YH
Kim
Seonggon
S
Lee
Jae-Woong
JW
Kang
Hyung-Sik
HS
Kim
Kil Soo
KS
Ha
Ji-Hong
JH
Chung
Jin Woong
JW
Chang
Kyu-Tae
KT
Ryoo
Zae Young
ZY
Lee
Sanggyu
S
D017398:Alternative Splicing / Q000235:genetics; D000818:Animals; D002478:Cells, Cultured; D002874:Chromosome Mapping; D020224:Expressed Sequence Tags; D020869:Gene Expression Profiling; D015723:Gene Library; D016678:Genome; D006412:Hematopoietic Stem Cells / Q000378:metabolism*; D051379:Mice; D008810:Mice, Inbred C57BL; D023461:Myeloid Progenitor Cells / Q000378:metabolism; D016372:RNA, Antisense / Q000032:analysis / Q000235:genetics; D012333:RNA, Messenger / Q000032:analysis* / Q000302:isolation & purification / Q000378:metabolism
D016372:RNA, Antisense; D012333:RNA, Messenger