北京大学学报(医学版) ›› 2024, Vol. 56 ›› Issue (5): 763-774. doi: 10.19723/j.issn.1671-167X.2024.05.003

• 论著 • 上一篇    下一篇

13例先天性双侧输精管缺如不育患者的致病基因突变检测

汤莹, 张湧波, 吴丹红, 林炎鸿, 兰风华*()   

  1. 福建省移植生物学重点实验室,福建医科大学福总临床医学院(第九〇〇医院),福州 350025
  • 收稿日期:2023-11-25 出版日期:2024-10-18 发布日期:2024-10-16
  • 通讯作者: 兰风华 E-mail:fhlan@mail.fjmu.edu.cn
  • 作者简介:第一联系人:

    *These authors contributed equally to this work

  • 基金资助:
    福建省自然科学基金(2020J011149);福建省自然科学基金(2023J011351);第九〇〇医院院立课题(2021MS03)

Detection of pathogenic gene mutations in thirteen cases of congenital bilateral absence of vas deferens infertility patients

Ying TANG, Yongbo ZHANG, Danhong WU, Yanhong LIN, Fenghua LAN*()   

  1. Fujian Provincial Key Laboratory of Transplant Biology, Fuzong Clinical Medical College of Fujian Medical University (The 900th Hospital of Joint Logistic Support Force, PLA), Fuzhou 350025, China
  • Received:2023-11-25 Online:2024-10-18 Published:2024-10-16
  • Contact: Fenghua LAN E-mail:fhlan@mail.fjmu.edu.cn
  • Supported by:
    Natural Science Foundation of Fujian Province(2020J011149);Natural Science Foundation of Fujian Province(2023J011351);Medical Research Project of 900th Hospital of Joint Logistics Support Force(2021MS03)

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摘要:

目的: 检测先天性双侧输精管缺如(congenital bilateral absence of the vas deferens, CBAVD)患者中囊性纤维化跨膜转导调节因子(cystic fibrosis transmembrane conductance regulator, CFTR)基因和CBAVD易感基因的突变情况,探讨它们与CBAVD发病风险的相关性。方法: 对13例诊断为孤立发生的CBAVD患者的致病基因CFTR及易感基因黏附型G蛋白偶联受体G2(adhesion G protein-coupled receptor G2, ADGRG2)、上皮细胞钠离子通道β亚单位(sodium channel epithelial 1 subunit beta, SCNN1B)和碳酸酐酶12(carbonic anhydrase, CA12)和溶质载体家族9成员3(solute carrier family 9 member A3, SLC9A3)行全外显子测序及Sanger测序验证,针对CFTR基因多态性位点、内含子及侧翼序列行聚合酶链式反应(polymerase chain reaction, PCR)扩增后用Sanger测序,并运用生物信息学方法对CBAVD易感基因新发突变进行保守性分析和有害性预测。对13例CBAVD患者中1例患者的家系进行遗传学分析,评估子代遗传风险。结果: 外显子测序发现13例CBAVD患者中,只有6例患者检测到CFTR基因外显子突变,有6种错义突变: c.2684G>A(p.Ser895Asn)、c.4056G>C(p.Gln1352His)、c.2812G>T(p.Val938Leu)、c.3068T>G(p.Ile1023Arg)、c.374T>C(p.Ile125Thr)、c.1666A>G(p.Ile556Val), 1种无义突变: c.1657C>T(p.Arg553Ter), 这6例患者中有2例患者同时还存在CFTR的纯合p.V470位点,另外7例患者未检测出CFTR基因外显子区域的突变。13例CBAVD患者中,3例患者携带纯合p.V470的多态性位点,4例患者携带5T等位基因,2例患者携带TG13等位基因,10例患者携带c.-966T>G位点。4例CBAVD患者同时携带以上CFTR基因突变位点中的2~3个位点。13例患者中CBAVD易感基因突变情况: 1种ADGRG2错义突变c.2312A>G(p.Asn771Ser),2种SLC9A3错义突变c.2395T>C(p.Cys799Arg)、c.493G>A(p.Val165Ile), 1种SCNN1B错义突变c.1514G>A(p.Arg505His)和1种CA12错义突变c.1061C>T(p.Ala354Val), 其中,SLC9A3基因的c.493G>A(p.Val165Ile)突变位点是首次在CBAVD患者中被发现,以上5种突变位点在gnomAD数据库中的人群变异频率极低,属于罕见突变,用Mutation Taster和Polyphen-2软件预测显示SLC9A3基因的c.493G>A(p.Val165Ile)位点和SCNN1B基因的c.1514G>A(p.Arg505His)位点的有害性等级为致病突变。1例家系遗传分析发现,先证者的c.1657C>T(p.Arg553Ter)突变为新生突变,先证者父亲、母亲均未携带该突变,先证者及其配偶通过辅助生殖技术孕育1女婴,该女婴遗传了先证者的致病性突变c.1657C>T(p.Arg553Ter)。结论: CFTR基因突变仍然是中国CBAVD患者的主要致病原因,但突变的分布与频率与国内外其他研究的数据存在一定差异,需要进一步扩充中国CBAVD患者的CFTR突变谱; ADGRG2SLC9A3SCNN1BCA12易感基因可能解释部分无CFTR突变的CBAVD病例; CBAVD患者多无特殊临床表现,建议临床医生确诊前对患者行进一步的体格检查,并结合其阴囊超声或经直肠超声检查; 建议将CFTR基因突变检测应用于辅助生殖前的遗传学筛查,降低子代罹患CBAVD及囊性纤维化的风险。

关键词: 先天性双侧输精管缺如, 囊性纤维化跨膜转导调节因子, 黏附型G蛋白偶联受体G2, 溶质载体家族9成员3

Abstract:

Objective: To detect the cystic fibrosis transmembrane transduction regulator (CFTR) gene mutations and congenital bilateral absence of vas deferens (CBAVD) susceptibility gene mutations in patients with CBAVD, and to explore their association with the risk of CBAVD. Methods: Whole-exome sequencing and Sanger sequencing validation were conducted on the pathogenic genes CFTR, adhesion G protein-coupled receptor G2 (ADGRG2), sodium channel epithelial 1 subunit beta (SCNN1B), carbonic anhydrase 12 (CA12), and solute carrier family 9 member A3 (SLC9A3) in thirteen cases of isolated CBAVD patients. The polymorphic loci, intron and flanking sequences of CFTR gene were amplified by polymerase chain reaction (PCR) followed by Sanger sequencing. Bioinformatics methods were employed for conservative analysis and deleterious prediction of novel susceptibility gene mutations in CBAVD. Genetic analysis was performed on the pedigree of one out of thirteen patients with CBAVD to evaluate the risk of inheritance in offspring. Results: Exome sequencing revealed CFTR gene exon mutations in only six of the thirteen CBAVD patients, with six missense mutations c.2684G>A(p.Ser895Asn), c.4056G>C(p.Gln1352His), c.2812G>(p.Val938Leu), c.3068T>G(p.Ile1023Arg), c.374T>C(p.Ile125Thr), c.1666A>G(p.Ile556Val)), and one nonsense mutation (c.1657C>T(p.Arg553Ter). Among these six patients, two also had the CFTR homozygous p.V470 site, additionally, mutations in CFTR gene exon regions were not detected in the remaining seven patients. Within the thirteen CBAVD patients, three carried the homozygous p.V470 polymorphic site, four carried the 5T allele, two carried the TG13 allele, and ten carried the c.-966T>G site. Four CBAVD patients simultaneously carried 2-3 of the aforementioned CFTR gene mutation sites. Susceptibility gene mutations in CBAVD among the thirteen patients included one ADGRG2 missense mutation c.2312A>G(p.Asn771Ser), two SLC9A3 missense mutations c.2395T>C(p.Cys799Arg), c.493G>A(p.Val165Ile), one SCNN1B missense mutation c.1514G>A(p.Arg505His), and one CA12 missense mutation c.1061C>T (p.Ala354Val). Notably, the SLC9A3 gene c.493G>A (p.Val165Ile) mutation site was first identified in CBAVD patients. The five mutations exhibited an extremely low population mutation frequency in the gnomAD database, classifying them as rare mutations. Predictions from Mutation Taster and Polyphen-2 software indicated that the harmfulness level of the SLC9A3 gene c.493G>A (p.Val165Ile) site and the SCNN1B gene c.1514G>A (p.Arg505His) site were disease causing and probably damaging. The genetic analysis of one pedigree revealed that the c.1657C>T (p.Arg553Ter) mutation in the proband was a de novo mutation, as neither the proband's father nor mother carried this mutation. The proband and his spouse conceived a daughter through assisted reproductive technology, and the daughter inherited the proband's pathogenic mutation c.1657C>T (p.Arg553Ter). Conclusion: CFTR gene mutations remain the leading cause of CBAVD in Chinese patients; however, the distribution and frequency of mutations differ from data reported in other domestic and international studies, highlighting the need to expand the CFTR mutation spectrum in Chinese CBAVD patients. The susceptibility genes ADGRG2, SLC9A3, SCNN1B, and CA12 may explain some cases of CBAVD without CFTR mutations. Given the lack of specific clinical manifestations in CBAVD patients, it is recommended that clinicians conduct further physical examinations and consider scrotal or transrectal ultrasound before making a defi-nitive diagnosis. It is advisable to employ CFTR gene mutation testing in preconception genetic screening to reduce the risk of CBAVD and cystic fibrosis in offspring.

Key words: Congenital bilateral absence of the vas deferens, Cystic fibrosis transmembrane conduc-tance regulator, Adhesion G protein-coupled receptor G2, Solute carrier family 9 member A3

中图分类号: 

  • R394.1

表1

致病基因及易感基因的部分PCR引物序列"

Gene Sequence of primer Product length/bp
CFTR(exon4) F: GTTTCACATATGGTATGACCCT R: GGCAGTTTACAGAAGATACTCAA 573
CFTR(exon12) F: AGCAATGTTGTTTTTGACCAACT R: AATGTGATTCTTAACCCACTAGCC 427
CFTR(exon17) F: GAGTGATTTTGAGGTTAAGGGTG R: CACAGAAATATTAGGAGCAACAAT 587
CFTR(exon19) F: CTCACCAACATGTTTTCTTTGA R: CCAAAATGAAGTCACATGGTCA 399
CFTR(exon25) F: AGGTAGTGGGGGTAGAGGG R: TTCGGAAGAAAACACAAGACTC 495
CFTR(V470M) F: GTCTCTTTTACTTTCCCTTGTATC R: ATTCACAGTAGCTTACCCATAGA 525
CFTR(IVS9-10) F: AACTTGATAATGGGCAAATATCTTA R: AAAGCCACTGAAAATAATATGAGG 613
CFTR promoter F: TCACAAGACCCTTGCCTTAG R: GCCTTTTCCAGAGGCGACCT 1402
CFTR(TAAA)n F: AACTTGATAATGGGCAAATATCTTA R: AAAGCCACTGAAAATAATATGAGG 613
ADGRG2(exon25) F: CATCCAGTCATGTGCCAAAG R: CTGTGAAGGCTGCTGTGAAG 706
SLC9A3(exon2) F: CTGGACGCCGGCTACTTC R: CTTGGTCACGAGGGCCTAC 303
SLC9A3(exon16) F: AGCAGGTGGGGTATGTCTTG R: GAGACCTGGAGGGAGAGGAG 537
SCNN1B(exon12) F: GCAGTTCTCGTTTGGACCTC R: TTCCTGGGAGGTGATTCTTG 511
CA12(exon11) F: AAACGGCCTCATTCCATACCT R: CAGCATGGCTTGGTTTGTGATT 463

表2

CBAVD患者临床资料"

Items CBAVD (n=13) Control (n=54) P value
Semen volume/mL 0.79±0.39 4.10±1.22 <0.001*
Semen pH 6.70 (6.35, 7.00) 7.29±0.16 <0.001*
Berry sugar/μmoL 0.60 (0, 1.15) 65.47±35.27 <0.001*
Seminal plasma α-glucosidase /mIU 65.95 (36.68, 81.35) 2.40 (0.90, 5.55) <0.001*
FSH/(IU/L) 5.44 (3.89, 7.48, ) 4.63 (2.97, 5.23) 0.113
LH/(IU/L) 3.49 (2.85, 4.83) 3.49 (2.70, 5.39) 0.739
T/(ng/dL) 414.72±151.20 435.95±144.67 0.639
E2/(ng/L) 34.38±5.84 41.60 (32.18, 48.82) 0.038*
PRL/(μg/L) 9.43 (5.99, 19.06) 8.29 (5.65, 10.75) 0.247

表3

CFTR及易感基因全外显子测序"

No. CFTR gene (het/homo) ADGRG2 gene (het/homo) SLC9A3 gene (het/homo) SCNN1B gene (het/homo) CA12 gene (het/homo)
1 N N c.2395T>C (p.Cys799Arg)homo N N
2 N N c.2395T>C (p.Cys799Arg)homo N N
3 N N c.2395T>C (p.Cys799Arg)het c.493G>A (p.Val165Ile)het N N
4 c.2684G>A (p.Ser895Asn)het c.4056G>C (p.Gln1352His)het N c.2395T>C (p.Cys799Arg)het N N
5 c.2812G>T (p.Val938Leu)het N c.2395T>C (p.Cys799Arg)het N N
6 N c.2312A>G (p.Asn771Ser)homo c.2395T>C (p.Cys799Arg)het N N
7 N c.2312A>G (p.Asn771Ser)homo c.2395T>C (p.Cys799Arg)het N N
8 c.1657C>T (p.Arg553Ter)het c.2312A>G (p.Asn771Ser) homo c.2395T>C (p.Cys799Arg)homo N c.1061C>T (p.Ala354Val)het
9 N N c.2395T>C (p.Cys799Arg)het N N
10 c.3068T>G (p.Ile1023Arg)het N c.2395T>C (p.Cys799Arg)het N N
11 N N c.2395T>C (p.Cys799Arg)homo N N
12 c.374T>C (p.Ile125Thr)het c.2395T>C (p.Cys799Arg)het c.1514G>A (p.Arg505His)het N
13 c.1666A>G (p.Ile556Val)het N N N N

图1

CFTR外显子突变位点的Sanger测序结果及c.1657C>T(p.Arg553Ter)患者家系分析"

图2

易感基因外显子突变位点的Sanger测序结果及保守性分析"

表4

易感基因突变的人群等位基因频率及致病性分类"

Mutation site Reference ID gnomAD Clinical variation ACMG* Mutation taster Polyphen-2
ADGRG2 c. 2312A>G (p.Asn771Ser) rs3924227 0.00211 Benign Benign Polymorphism Benign (0.009)
SLC9A3 c. 2395T>C (p.Cys799Arg) rs2247114 0.000001242 Benign Benign Polymorphism Benign (0.000)
SLC9A3 c.493G>A (p.Val165Ile) rs369854335 0.00006534 Uncertain significance Uncertain significance Disease causing Probably damaging (0.928)
SCNN1B c.1514G>A (p.Arg505His) rs138784278 0.0001413 Conflicting Uncertain significance Disease causing Probably damaging (0.575)
CA12 c.1061C>T (p.Ala354Val) rs201427665 0.00005143 Likely benign Likely benign Polymorphism Benign (0.008)

表5

CBAVD患者CFTR基因多态性位点、内含子及侧翼序列突变情况"

No. V470M genotypes (TG)mTn genotypes IVS10-11 (TAAA)n Uupstream promoter sequence 1.4 kb
1 M/M TG13-5T/TG12-5T 10/10 c.-966T>Ghomo
2 M/M TG11-7T/TG1217T 10/10 c.-966T>Ghomo
3 M/M TG13-5T/TG12-7T 10/10 c.-966T>Ghomo
4 V/M TG11-7T/TG12-7T 9/10 c.-966T>Ghet
5 V/M TG11-7T/TG12-7T 9/10 c.-966T>Ghet
6 V/V TG12-5T/TG12-5T 9/9 N
7 M/M TG12-7T/TG12-7T 10/10 c.-966T>Ghomo
8 V/V TG12-7T/TG11-7T 9/9 N
9 V/M TG12-7T/TG11-7T 9/10 c.-966T>Ghet
10 V/M TG12-5T/TG12-7T 9/10 c.-966T>Ghet
11 V/M TG12-7T/TG11-7T 9/10 c.-966T>Ghet
12 V/V TG12-7T/TG11-7T 9/9 N
13 V/M TG11-7T/TG12-7T 9/10 c.-966T>Ghet

图3

CFTR基因多态性位点、内含子及侧翼序列Sanger测序图"

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