| Literature DB >> 18796146 |
Kazuharu Kai1, Zhenhuan Zhang, Hiroko Yamashita, Yutaka Yamamoto, Yutaka Miura, Hirotaka Iwase.
Abstract
BACKGROUND: Loss of heterozygosity (LOH) on the long arm of chromosome 16 is one of the most frequent genetic events in solid tumors. Recently, the AT-motif binding factor 1 (ATBF1)-A gene, which has been assigned to chromosome 16q22.3-23.1, was identified as a plausible candidate for tumor suppression in solid tumors due to its functional inhibition of cell proliferation and high mutation rate in prostate cancer. We previously reported that a reduction in ATBF1-A mRNA levels correlated with a worse prognosis in breast cancer. However, the mechanisms regulating the reduction of ATBF1-A mRNA levels (such as mutation, methylation in the promoter region, or deletion spanning the coding region) have not been fully examined. In addition, few studies have analyzed LOH status at the ATBF1-A locus, located in the 16q22 minimal region.Entities:
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Year: 2008 PMID: 18796146 PMCID: PMC2564977 DOI: 10.1186/1471-2407-8-262
Source DB: PubMed Journal: BMC Cancer ISSN: 1471-2407 Impact factor: 4.430
Characteristics of polymorphic loci at the 16q22 minimal region
| No. | Locus name | Product size (bp) | Genetic map (bp) | Genetic map (cM) | Microsatellite status |
| 1 | D16S3031 | 258–280 | 64338900–64339200 | 85.34 | Heterozygous |
| 2 | D16S752 | 101–129 | 69892700–69892800 | 87.06 | Heterozygous |
| 3 | D16S3106 | 166–206 | 70745300–70745500 | 88.18 | Heterozygous |
| 4 | RH69880 | 149 | 71553100–71553200 | ND | Homozygous |
| 5 | D16S2859 | 186 | 71675300–71675400 | ND | Homozygous |
| 6 | D16S3018 | 244–270 | 72730200–72730500 | 90.65 | Heterozygous |
| 7 | D16S3049 | 233–255 | 77478800–77479100 | 97.03 | Heterozygous |
| 8 | D16S504 | 149 | 77723500–77723600 | 101.23 | Heterozygous |
The genetic maps were cited from NCBI Map Viewer . ND, not described.
Figure 1Representative examples of microsatellite analysis for D16S3018 in breast cancer patients with paired tumor-blood samples. (a) Loss of heterozygosity at D16S3018. The arrow indicates the allele loss. (b) Retention of heterozygosity. (c) Uninformative sample due to the homozygosity at D16S3018. Each peak has a box that provides the fragment size and peak height (upper and lower labels, respectively).
Paired primers used to amplify the specific sequence of ATBF1-A, including the partial mutation loci previously reported in prostate cancer
| Primer sequence (5'→3') | ||||||
| Exon | Mutation no. | Nucleotide* | Amino acid | Forward | Reverse | Product size (bp) |
| 9 | 1 | (5556–5559) del | Frameshift | AGCAACCGGTCAGCCAGAAC | GGTGGCATCCCTACACTCTCAG | 336 |
| 2 | 5602C→T | No change | ||||
| 3 | (5891–5896) del | CTCCAAGCTCTAACTTACTAAGCCAA | AGTTGCAGCAGGGTCTCAGTT | 349 | ||
| 4 | 5897insCAA | Gln1741ins | ||||
| 5 | 6350delAG | Frameshift | AGCCAGCACCCCGAAAAGA | CTTGCCGCAGGAGTCACAC | 360 | |
| 6 | 6447delG | Frameshift | ||||
| 7 | 7154C→T | R2160W | CACCGGCCCAGCCATCAGT | AACCCGGACTTGTCTGCCATCT | 322 | |
| 8 | 8364A→G | Gln2564Arg | TCAACTCCTCAACAGCTCGCAA | GCTTGCACTGGCCTTTTCCTC | 333 | |
| 9 | 8919C→T | A2749V | CGCAGGCCCACAGGAGA | CAAAGTCTTCAATCCCTTCCACC | 321 | |
| 10 | 9380A→G | S2903G | AACTCTTCTAAGCCCTTCCTCCAT | CACTGTAGTCCACTGTACCTTCATTG | 356 | |
| 11 | 9434G→A | A2921T | CCGAGCTTTTATAGCAAGGAATATG | ACTTGGACTTCTTTTCTTTTGCCC | 322 | |
| 10 | 12 | (10814–10834)del | 7 amino acid loss | TCCTTACTTTGTACCAGGCTTTTCTC | TCTTCTGGTTTGGGGGATTCTTTG | 345 |
| 13 | (10814–10837)del | 8 amino acid loss | ||||
| 14 | (10826–10846)del | 7 amino acid loss | ||||
*ATBF1 mutations previously reported in prostate cancer by Sun et al. [10]
Figure 2Loss of heterozygosity (LOH) mapping of the 16q22 minimal region in breast cancer. All cases except those that were uninformative are shown. The LOH status at the ATBF1-A gene locus was categorized as follows: LOH, indicating that LOH status at both D16S3106 and D16S3018 showed LOH; retention of heterozygosity (ROH), indicating that both D16S3106 and D16S3018 showed ROH; not determined, indicating that there was a discrepancy in LOH status between D16S3106 and D16S3018.
Figure 3Comparison of ATBF1-A mRNA levels according to loss of heterozygosity (LOH) status at the . There was no significant correlation between ATBF1-A mRNA levels and LOH status at the ATBF1-A locus (P = 0.101). ROH, retention of heterozygosity.
Correlation between clinicopathological factors and the LOH status at the 16q22 minimal locus
| Factor | Loss of heterozygosity | Retention of heterozygosity | Total | |
| Total | 22 (51.2%) | 21 (48.8%) | 43 (100%) | |
| Age (year) | ||||
| ≤ 50 | 7 (43.8%) | 9 (56.2%) | 16 | NS |
| > 50 | 15 (55.6%) | 12 (44.4%) | 27 | |
| Tumor size | ||||
| < 2.0 | 6 (46.2%) | 7 (53.8%) | 13 | NS |
| ≥ 2.0 | 16 (55.2%) | 13 (44.8%) | 29 | |
| Not measurable | 0 | 1 | 1 | |
| Lymph node | ||||
| Negative | 9 (37.5%) | 15 (62.5%) | 24 | 0.084 |
| Positive | 11 (64.7%) | 6 (45.3%) | 17 | |
| Unknown | 2 | 0 | 2 | |
| Histological grade | ||||
| 1/2 | 6 (60.0%) | 4 (40.0%) | 10 | NS |
| 3 | 14 (50.0%) | 14 (50.0%) | 28 | |
| Unknown | 2 | 3 | 5 | |
| Estrogen receptor-α | ||||
| Negative | 4 (40.0%) | 6 (60.0%) | 10 | NS |
| Positive | 17 (54.8%) | 14 (45.2%) | 31 | |
| Unknown | 1 | 1 | 2 | |
| Progesterone receptor | ||||
| Negative | 2 (18.2%) | 9 (81.8%) | 11 | 0.013* |
| Positive | 16 (61.5%) | 10 (38.5%) | 26 | |
| Unknown | 4 | 2 | 6 | |
| HER2 | ||||
| Negative | 18 (60.0%) | 12 (40.0%) | 30 | |
| Positive | 2 (20.0%) | 8 (80.0%) | 10 | 0.024* |
| Unknown | 2 | 1 | 3 |
Estrogen receptor-α, progesterone receptor, and human epidermal growth factor (HER) 2 were determined histochemically.
*P < 0.05.