Journal of Southern Medical University ›› 2024, Vol. 44 ›› Issue (11): 2184-2191.doi: 10.12122/j.issn.1673-4254.2024.11.15
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Qi QI1(
), Zheng ZHOU2, Jinzhao MA1, Bing YAO1, Li CHEN1(
)
Received:2024-06-12
Online:2024-11-20
Published:2024-11-29
Contact:
Li CHEN
E-mail:17720502549@163.com;chenli1978@nju.edu.cn
Qi QI, Zheng ZHOU, Jinzhao MA, Bing YAO, Li CHEN. Successful application of preimplantation genetic testing combined with third-generation sequencing for blocking hereditary spastic paraplegia[J]. Journal of Southern Medical University, 2024, 44(11): 2184-2191.
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URL: https://www.j-smu.com/EN/10.12122/j.issn.1673-4254.2024.11.15
Fig.3 Single nucleotide polymorphisms (SNP)‑based genetic linkage map of the pedigree. ■: Affected male carrying pathogenic mutations; ○: Normal female not carrying pathogenic mutations; ◇: Unaffected, of unknown gender, not carrying pathogenic mutations; ◆: Affected, of unknown gender, carrying pathogenic mutations; *: ADO, allele drop out; 0: Missing data; Number: Distance (Kb) to the upstream or downstream of the gene; Blue: Location of SNP in the upstream of the chromosomal position of the target gene; Orange: Location of SNP in the downstream of the chromosomal position of the target gene; Left slash inside the haplotype: haplotype linked to maternal mutation; Right slash inside the haplotype: haplotype linked to paternal mutation.
| Probe ID | Chr | Pos | Male | Female | E-1 | E-2 | E-3 | E-4 | E-5 | E-6 | E-7 | E-8 | E-9 | E-10 | E-11 | E-12 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| rs1884723 | 2 | 31477017 | A G | A A | A A | G A | 0 0 | G A | G A | A A | A A | A A | A A | A A | A A | A A |
| rs142131665 | 2 | 31493330 | T G | T T | T T | G T | G T | G T | G T | T T | T T | T T | T T | T T | T T | T T |
| rs28810790 | 2 | 31495488 | C G | C C | 0 0 | G C | G C | 0 0 | 0 0 | C C | C C | C C | C C | C C | 0 0 | C C |
| rs206843 | 2 | 31496262 | T G | T T | 0 0 | G T | ** | G T | 0 0 | T T | T T | T T | T T | T T | 0 0 | T T |
| rs61316601 | 2 | 31496406 | C T | C C | C C | T C | T C | 0 0 | T C | C C | C C | C C | C C | C C | C C | C C |
| rs55819371 | 2 | 31497812 | C A | C C | C C | A C | A C | A C | A C | C C | C C | C C | C C | C C | C C | C C |
| rs55744195 | 2 | 31497904 | G C | G G | G G | C G | C G | C G | C G | G G | G G | G G | G G | G G | G G | G G |
| rs149051613 | 2 | 31498476 | C T | C C | C C | T C | 0 0 | T C | 0 0 | C C | C C | C C | C C | C C | C C | C C |
| rs191882 | 2 | 31498514 | C G | C C | C C | G C | 0 0 | G C | G C | C C | C C | C C | C C | C C | C C | C C |
| rs56175176 | 2 | 31516496 | T C | T T | T T | C T | C T | C T | C T | T T | T T | T T | T T | T T | T T | T T |
| rs1475054 | 2 | 31516895 | G C | G G | G G | C G | C G | C G | C G | G G | G G | G G | G G | G G | G G | G G |
| rs6760199 | 2 | 31517208 | A C | A A | 0 0 | C A | C A | 0 0 | C A | A A | A A | A A | A A | 0 0 | A A | A A |
| rs2224310 | 2 | 31517397 | C T | C C | C C | 0 0 | 0 0 | 0 0 | T C | C C | C C | C C | C C | 0 0 | C C | C C |
| rs143268195 | 2 | 31796171 | C T | C C | C C | T C | T C | T C | T C | C C | C C | C C | C C | C C | C C | C C |
| rs182127845 | 2 | 31832726 | A C | C C | A C | C C | C C | C C | C C | A C | A C | A C | A C | A C | A C | A C |
| rs4952254 | 2 | 32258435 | A G | G G | 0 0 | G G | G G | G G | G G | A G | A G | A G | A G | A G | A G | A G |
| rs75949879 | 2 | 32641555 | C G | C C | C C | G C | G C | 0 0 | G C | C C | C C | 0 0 | C C | C C | C C | C C |
| rs17012046 | 2 | 32656752 | A G | A A | 0 0 | G A | ** | ** | G A | 0 0 | A A | A A | A A | A A | A A | A A |
| rs11124289 | 2 | 32724978 | C A | A A | C A | A A | A A | A A | A A | C A | C A | C A | C A | C A | C A | C A |
| rs75085204 | 2 | 32725079 | T C | T T | T T | 0 0 | C T | C T | C T | T T | T T | T T | T T | T T | T T | T T |
| rs34557851 | 2 | 32729211 | C T | C C | 0 0 | T C | T C | 0 0 | 0 0 | C C | 0 0 | C C | C C | C C | C C | C C |
| rs77172649 | 2 | 32750915 | T C | T T | T T | C T | C T | 0 0 | C T | T T | T T | T T | T T | T T | T T | T T |
| rs971511 | 2 | 32750955 | T C | C C | T C | 0 0 | C C | C C | C C | 0 0 | T C | T C | T C | T C | T C | T C |
| rs3769579 | 2 | 32751020 | A G | A A | A A | G A | G A | G A | G A | 0 0 | A A | A A | A A | A A | A A | A A |
| rs17012217 | 2 | 32763264 | T C | T T | T T | C T | C T | C T | C T | T T | T T | T T | T T | T T | T T | T T |
| rs17012247 | 2 | 32771766 | A C | A A | A A | C A | C A | C A | C A | A A | A A | A A | A A | A A | A A | A A |
| rs73924058 | 2 | 32805458 | T G | T T | T T | G T | G T | G T | G T | T T | T T | T T | 0 0 | T T | T T | T T |
| rs17012300 | 2 | 32805642 | G A | G G | G G | A G | ** | A G | A G | G G | G G | G G | G G | G G | G G | G G |
| rs74682337 | 2 | 32826076 | G A | G G | G G | A G | A G | 0 0 | A G | G G | G G | G G | G G | G G | G G | G G |
| rs7591981 | 2 | 32838505 | T C | T T | T T | 0 0 | C T | C T | C T | T T | T T | T T | T T | T T | T T | T T |
Tab.1 Single nucleotide polymorphism haplotype analysis
| Probe ID | Chr | Pos | Male | Female | E-1 | E-2 | E-3 | E-4 | E-5 | E-6 | E-7 | E-8 | E-9 | E-10 | E-11 | E-12 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| rs1884723 | 2 | 31477017 | A G | A A | A A | G A | 0 0 | G A | G A | A A | A A | A A | A A | A A | A A | A A |
| rs142131665 | 2 | 31493330 | T G | T T | T T | G T | G T | G T | G T | T T | T T | T T | T T | T T | T T | T T |
| rs28810790 | 2 | 31495488 | C G | C C | 0 0 | G C | G C | 0 0 | 0 0 | C C | C C | C C | C C | C C | 0 0 | C C |
| rs206843 | 2 | 31496262 | T G | T T | 0 0 | G T | ** | G T | 0 0 | T T | T T | T T | T T | T T | 0 0 | T T |
| rs61316601 | 2 | 31496406 | C T | C C | C C | T C | T C | 0 0 | T C | C C | C C | C C | C C | C C | C C | C C |
| rs55819371 | 2 | 31497812 | C A | C C | C C | A C | A C | A C | A C | C C | C C | C C | C C | C C | C C | C C |
| rs55744195 | 2 | 31497904 | G C | G G | G G | C G | C G | C G | C G | G G | G G | G G | G G | G G | G G | G G |
| rs149051613 | 2 | 31498476 | C T | C C | C C | T C | 0 0 | T C | 0 0 | C C | C C | C C | C C | C C | C C | C C |
| rs191882 | 2 | 31498514 | C G | C C | C C | G C | 0 0 | G C | G C | C C | C C | C C | C C | C C | C C | C C |
| rs56175176 | 2 | 31516496 | T C | T T | T T | C T | C T | C T | C T | T T | T T | T T | T T | T T | T T | T T |
| rs1475054 | 2 | 31516895 | G C | G G | G G | C G | C G | C G | C G | G G | G G | G G | G G | G G | G G | G G |
| rs6760199 | 2 | 31517208 | A C | A A | 0 0 | C A | C A | 0 0 | C A | A A | A A | A A | A A | 0 0 | A A | A A |
| rs2224310 | 2 | 31517397 | C T | C C | C C | 0 0 | 0 0 | 0 0 | T C | C C | C C | C C | C C | 0 0 | C C | C C |
| rs143268195 | 2 | 31796171 | C T | C C | C C | T C | T C | T C | T C | C C | C C | C C | C C | C C | C C | C C |
| rs182127845 | 2 | 31832726 | A C | C C | A C | C C | C C | C C | C C | A C | A C | A C | A C | A C | A C | A C |
| rs4952254 | 2 | 32258435 | A G | G G | 0 0 | G G | G G | G G | G G | A G | A G | A G | A G | A G | A G | A G |
| rs75949879 | 2 | 32641555 | C G | C C | C C | G C | G C | 0 0 | G C | C C | C C | 0 0 | C C | C C | C C | C C |
| rs17012046 | 2 | 32656752 | A G | A A | 0 0 | G A | ** | ** | G A | 0 0 | A A | A A | A A | A A | A A | A A |
| rs11124289 | 2 | 32724978 | C A | A A | C A | A A | A A | A A | A A | C A | C A | C A | C A | C A | C A | C A |
| rs75085204 | 2 | 32725079 | T C | T T | T T | 0 0 | C T | C T | C T | T T | T T | T T | T T | T T | T T | T T |
| rs34557851 | 2 | 32729211 | C T | C C | 0 0 | T C | T C | 0 0 | 0 0 | C C | 0 0 | C C | C C | C C | C C | C C |
| rs77172649 | 2 | 32750915 | T C | T T | T T | C T | C T | 0 0 | C T | T T | T T | T T | T T | T T | T T | T T |
| rs971511 | 2 | 32750955 | T C | C C | T C | 0 0 | C C | C C | C C | 0 0 | T C | T C | T C | T C | T C | T C |
| rs3769579 | 2 | 32751020 | A G | A A | A A | G A | G A | G A | G A | 0 0 | A A | A A | A A | A A | A A | A A |
| rs17012217 | 2 | 32763264 | T C | T T | T T | C T | C T | C T | C T | T T | T T | T T | T T | T T | T T | T T |
| rs17012247 | 2 | 32771766 | A C | A A | A A | C A | C A | C A | C A | A A | A A | A A | A A | A A | A A | A A |
| rs73924058 | 2 | 32805458 | T G | T T | T T | G T | G T | G T | G T | T T | T T | T T | 0 0 | T T | T T | T T |
| rs17012300 | 2 | 32805642 | G A | G G | G G | A G | ** | A G | A G | G G | G G | G G | G G | G G | G G | G G |
| rs74682337 | 2 | 32826076 | G A | G G | G G | A G | A G | 0 0 | A G | G G | G G | G G | G G | G G | G G | G G |
| rs7591981 | 2 | 32838505 | T C | T T | T T | 0 0 | C T | C T | C T | T T | T T | T T | T T | T T | T T | T T |
| Embryo No. | Embryo grade | Detection result | Gene mutation site detection |
|---|---|---|---|
| E-1 | 4BB (D5) | Euploid | Not carrying paternal mutations |
| E-2 | 4AB (D5) | Euploid | Carrying paternal mutations |
| E-3 | 4BB (D5) | Euploid | Carrying paternal mutations |
| E-4 | 3BB (D5) | Euploid | Carrying paternal mutations |
| E-5 | 4BA (D5) | Euploid | Carrying paternal mutations |
| E-6 | 4BB (D5) | Euploid | Not carrying paternal mutations |
| E-7 | 4BB (D5) | Euploid | Not carrying paternal mutations |
| E-8 | 4BB (D5) | Euploid | Not carrying paternal mutations |
| E-9 | 4BB (D5) | Euploid | Not carrying paternal mutations |
| E-10 | 4BA (D6) | Euploid | Not carrying paternal mutations |
| E-11 | 4BC (D6) | Euploid | Not carrying paternal mutations |
| E-12 | 4BB (D6) | Euploid | Not carrying paternal mutations |
Tab.2 Detection results of the blastocysts
| Embryo No. | Embryo grade | Detection result | Gene mutation site detection |
|---|---|---|---|
| E-1 | 4BB (D5) | Euploid | Not carrying paternal mutations |
| E-2 | 4AB (D5) | Euploid | Carrying paternal mutations |
| E-3 | 4BB (D5) | Euploid | Carrying paternal mutations |
| E-4 | 3BB (D5) | Euploid | Carrying paternal mutations |
| E-5 | 4BA (D5) | Euploid | Carrying paternal mutations |
| E-6 | 4BB (D5) | Euploid | Not carrying paternal mutations |
| E-7 | 4BB (D5) | Euploid | Not carrying paternal mutations |
| E-8 | 4BB (D5) | Euploid | Not carrying paternal mutations |
| E-9 | 4BB (D5) | Euploid | Not carrying paternal mutations |
| E-10 | 4BA (D6) | Euploid | Not carrying paternal mutations |
| E-11 | 4BC (D6) | Euploid | Not carrying paternal mutations |
| E-12 | 4BB (D6) | Euploid | Not carrying paternal mutations |
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