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Jabasini M, Ewis A, Sato Y, Nakahori Y, Baba Y. Anomalous Separation of Small Y-Chromosomal DNA Fragments on Microchip Electrophoresis. Sci Pharm 2016; 84:507-513. [PMID: 28117316 PMCID: PMC5064241 DOI: 10.3390/scipharm84030507] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2016] [Accepted: 05/13/2016] [Indexed: 11/16/2022] Open
Abstract
We investigated an anomalous DNA separation where two DNA fragments from the human Y-chromosome sY638 (64 bp) and sY592 (65 bp), with only one base pair difference, were separated. This result is abnormal since in a previous study, we found that 5 bp was the minimum difference between two DNA fragments that the microchip electrophoresis system can separate. The formation of a mini-loop in the structure of the DNA fragment of sY638 (64 bp) was strongly expected to be the reason. To investigate this, we synthesized three modified DNA fragments for sY638 (64 bp), and the modifications were in two expected locations for possible mini-loop formation. Later, the separation between sY592 (65 bp) and the three modified fragments of sY638 (64 bp) was not possible. Thus, we conclude that the formation of a mini-loop in the structure of the DNA is the reason behind this anomalous separation.
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Affiliation(s)
- Mohammad Jabasini
- Department of Pharmaceutical Information Science, Institute of Health Biosciences, The University of Tokushima, 1-78-1 Sho-machi, 770-8505 Tokushima, Japan.
- Department of Applied Chemistry, Graduate School of Engineering, Nagoya University, Furo-cho, Chikusa-ku, 464-8603 Nagoya, Japan.
| | - Ashraf Ewis
- Department of Human Genetics Public Health, School of Medicine, The University of Tokushima, 3-18-15 Kuramoto-cho, 770-8503 Tokushima, Japan.
| | - Youichi Sato
- Department of Pharmaceutical Information Science, Institute of Health Biosciences, The University of Tokushima, 1-78-1 Sho-machi, 770-8505 Tokushima, Japan.
| | - Yutaka Nakahori
- Department of Human Genetics Public Health, School of Medicine, The University of Tokushima, 3-18-15 Kuramoto-cho, 770-8503 Tokushima, Japan.
| | - Yoshinobu Baba
- Department of Applied Chemistry, Graduate School of Engineering, Nagoya University, Furo-cho, Chikusa-ku, 464-8603 Nagoya, Japan.
- ImPACT Research Center for Advanced Nanobiodevices., Nagoya University, Furo-cho, Chikusa-ku, 464-8603 Nagoya, Japan.
- Health Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Hayashi-cho 2217-14, 761-0395 Takamatsu, Japan.
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Jabasini M, Ewis AA, Fouad M, Dang F, Ping G, Shinka T, Nakahori Y, Kaji N, Tokeshi M, Baba Y. Rapid multiplexing and simultaneous detection of human spermatogenetic failure with a 12 lane microchip electrophoresis system. Biol Pharm Bull 2006; 29:1487-9. [PMID: 16819195 DOI: 10.1248/bpb.29.1487] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
For the amplification and ultrafast separation of the genetic markers and DNA sequences that are related to human male infertility, a multiplex PCR for amplifying three DNA sequence-tagged sites (STS) located on the human Y chromosome with possible roles in the spermatogenesis process has been designed and applied followed by separation on a microchip. First, the optimum T(m) degree for the three DNA markers was optimized and determined experimentally, and the three DNA STS were amplified. These three DNA markers were then separated on a 12-lane microchip electrophoresis system, which can analyze the DNA markers on 12 channels simultaneously. The combination of these two technologies, multiplex PCR and microchip electrophoresis, allows the analysis of 36 DNA markers (12x3) within only 180 s.
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Affiliation(s)
- Mohammad Jabasini
- Department of Applied Chemistry, Graduate School of Engineering, Nagoya University, Japan.
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