Identification of eight genes encoding chemokine-like factor superfamily members 1-8 (CKLFSF1-8) by in silico cloning and experimental validation

Wenling Han, Peiguo Ding, Mingxu Xu, Lu Wang, Min Rui, Shuang Shi, Yanan Liu, Ying Zheng, Yingyu Chen, Tian Yang, Dalong Ma

Research output: Contribution to journalArticle

91 Citations (Scopus)

Abstract

TM4SF11 is only 102 kb from the chemokine gene cluster composed of SCYA22, SCYD1, and SCYA17 on chromosome 16q13. CKLF maps on chromosome 16q22. CKLFs have some characteristics associated with the CCL22/MDC, CX3CL1/fractalkine, CCL17/TARC, and TM4SF proteins. Bioinformatics based on CKLF2 cDNA and protein sequences in combination with experimental validation identified eight novel genes designated chemokine-like factor superfamily members 1-8 (CKLFSF1-8). CKLFSF1-8 form gene clusters; the sequence identities between CKLF2 and CKLFSF1-8 are from 12.5 to 39.7%. Most of the CKLFSFs have alternative RNA splicing forms. CKLFSF1 has a CC motif and higher sequence similarity with chemokines than with any of the other CKLFSFs. CKLFSF8 shares 39.3% amino acid identity with TM4SF11. CKLFSF1 links the CKLFSF family with chemokines, and CKLFSF8 links it with TM4SF. The characteristics of CKLFSF2-7 are intermediate between CKLFSF1 and CKLFSF8. This indicates that CKLFSF represents a novel gene family between the SCY and the TM4SF gene families.

Original languageEnglish (US)
Pages (from-to)609-617
Number of pages9
JournalGenomics
Volume81
Issue number6
DOIs
StatePublished - Jun 1 2003

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Chemokines
Computer Simulation
Organism Cloning
Genes
Multigene Family
Chromosomes
Chemokine CX3CL1
Alternative Splicing
Computational Biology
Proteins
Complementary DNA
Amino Acids

Keywords

  • Bioinformatics
  • Chemokine
  • CKLF
  • CKLFSF
  • Gene cluster
  • TM4SF11

ASJC Scopus subject areas

  • Genetics

Cite this

Identification of eight genes encoding chemokine-like factor superfamily members 1-8 (CKLFSF1-8) by in silico cloning and experimental validation. / Han, Wenling; Ding, Peiguo; Xu, Mingxu; Wang, Lu; Rui, Min; Shi, Shuang; Liu, Yanan; Zheng, Ying; Chen, Yingyu; Yang, Tian; Ma, Dalong.

In: Genomics, Vol. 81, No. 6, 01.06.2003, p. 609-617.

Research output: Contribution to journalArticle

Han, W, Ding, P, Xu, M, Wang, L, Rui, M, Shi, S, Liu, Y, Zheng, Y, Chen, Y, Yang, T & Ma, D 2003, 'Identification of eight genes encoding chemokine-like factor superfamily members 1-8 (CKLFSF1-8) by in silico cloning and experimental validation', Genomics, vol. 81, no. 6, pp. 609-617. https://doi.org/10.1016/S0888-7543(03)00095-8
Han, Wenling ; Ding, Peiguo ; Xu, Mingxu ; Wang, Lu ; Rui, Min ; Shi, Shuang ; Liu, Yanan ; Zheng, Ying ; Chen, Yingyu ; Yang, Tian ; Ma, Dalong. / Identification of eight genes encoding chemokine-like factor superfamily members 1-8 (CKLFSF1-8) by in silico cloning and experimental validation. In: Genomics. 2003 ; Vol. 81, No. 6. pp. 609-617.
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AU - Wang, Lu

AU - Rui, Min

AU - Shi, Shuang

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AB - TM4SF11 is only 102 kb from the chemokine gene cluster composed of SCYA22, SCYD1, and SCYA17 on chromosome 16q13. CKLF maps on chromosome 16q22. CKLFs have some characteristics associated with the CCL22/MDC, CX3CL1/fractalkine, CCL17/TARC, and TM4SF proteins. Bioinformatics based on CKLF2 cDNA and protein sequences in combination with experimental validation identified eight novel genes designated chemokine-like factor superfamily members 1-8 (CKLFSF1-8). CKLFSF1-8 form gene clusters; the sequence identities between CKLF2 and CKLFSF1-8 are from 12.5 to 39.7%. Most of the CKLFSFs have alternative RNA splicing forms. CKLFSF1 has a CC motif and higher sequence similarity with chemokines than with any of the other CKLFSFs. CKLFSF8 shares 39.3% amino acid identity with TM4SF11. CKLFSF1 links the CKLFSF family with chemokines, and CKLFSF8 links it with TM4SF. The characteristics of CKLFSF2-7 are intermediate between CKLFSF1 and CKLFSF8. This indicates that CKLFSF represents a novel gene family between the SCY and the TM4SF gene families.

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