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Vol. 10, Issue 10, 1546-1560, October 2000

LETTER
Cloning and Functional Analysis of cDNAs with Open Reading Frames for 300 Previously Undefined Genes Expressed in CD34+ Hematopoietic Stem/Progenitor Cells

Qing-Hua Zhang,1,4 Min Ye,1,4 Xin-Yan Wu,1,4 Shuang-Xi Ren,2,4 Meng Zhao,1 Chun-Jun Zhao,1 Gang Fu,2 Yu Shen,1 Hui-Yong Fan,1 Gang Lu,2 Ming Zhong,2 Xiang-Ru Xu,2 Ze-Guang Han,2 Ji-Wang Zhang,1 Jiong Tao,1 Qiu-Hua Huang,1 Jun Zhou,1 Geng-Xi Hu,3 Jian Gu,1,2 Sai-Juan Chen,1 and Zhu Chen1,2,5

1 Shanghai Institute of Hematology (SIH), Rui Jin Hospital affiliated with Shanghai Second Medical University, Shanghai 200025, China; 2 Chinese National Human Genome Center (CHGC) at Shanghai, Shanghai 201203, China; 3 Institute of Cell Biology, Chinese Academy of Sciences, Shanghai 200031, China

Three hundred cDNAs containing putatively entire open reading frames (ORFs) for previously undefined genes were obtained from CD34+ hematopoietic stem/progenitor cells (HSPCs), based on EST cataloging, clone sequencing, in silico cloning, and rapid amplification of cDNA ends (RACE). The cDNA sizes ranged from 360 to 3496 bp and their ORFs coded for peptides of 58-752 amino acids. Public database search indicated that 225 cDNAs exhibited sequence similarities to genes identified across a variety of species. Homology analysis led to the recognition of 50 basic structural motifs/domains among these cDNAs. Genomic exon-intron organization could be established in 243 genes by integration of cDNA data with genome sequence information. Interestingly, a new gene named as HSPC070 on 3p was found to share a sequence of 105bp in 3' UTR with RAF gene in reversed transcription orientation. Chromosomal localizations were obtained using electronic mapping for 192 genes and with radiation hybrid (RH) for 38 genes. Macroarray technique was applied to screen the gene expression patterns in five hematopoietic cell lines (NB4, HL60, U937, K562, and Jurkat) and a number of genes with differential expression were found. The resource work has provided a wide range of information useful not only for expression genomics and annotation of genomic DNA sequence, but also for further research on the function of genes involved in hematopoietic development and differentiation.

[The sequence data described in this paper have been submitted to the GenBank data library under the accession nos. listed in Table 1, pp 1548-1552.]

4 These authors contributed equally to this work.

5 Corresponding author.

10:1546-1560 ©2000 by Cold Spring Harbor Laboratory Press  ISSN 1088-9051/00 $5.00
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