| Literature DB >> 34811812 |
Liuchun Yang1, Qinxian Guo2, Jianhang Leng2, Keyi Wang1,2, Yu Ding2.
Abstract
BACKGROUND: Mitochondrial dysfunctions caused by mitochondrial DNA (mtDNA) pathogenic mutations play putative roles in type 2 diabetes mellitus (T2DM) progression. But the underlying mechanism remains poorly understood.Entities:
Keywords: MIDD; m.A5514G; m.C12237T; mt-tRNA mutations
Mesh:
Substances:
Year: 2021 PMID: 34811812 PMCID: PMC8761459 DOI: 10.1002/jcla.24102
Source DB: PubMed Journal: J Clin Lab Anal ISSN: 0887-8013 Impact factor: 2.352
FIGURE 1One Han Chinese family with T2DM, arrow indicated the proband, the affected diabetes patients were marked as filled symbols
Summary of clinical and biochemical data of members in this family with T2DM
| Subjects | Gender | BMI (kg/m2) | Age at onset (yrs) | Age at test (yrs) | Glucose (0h, mmol/L) | Glucose (2‐h, mmol/dL) | HbA1c (%) | Fast insulin (uU/mL) | C‐Peptide (nmol/L) | BP (mmHg) | PTA (Left/right ear, dB) | Level of hearing loss | Visual acuity (Left/right eye) | Level of vision loss | Clinical presentations |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| II‐4 | Female | 23.2 | 70 | 75 | 16.3 | 1.78 | 7.6 | 14.66 | 2.30 | 150/95 | 55/75 | Severe | 0.2/0.1 | Mild | Diabetes, hypertension, deafness, vision loss |
| II‐6 | Female | 22.5 | 68 | 78 | 15.0 | 1.72 | 7.4 | 12.22 | 0.76 | 140/90 | 90/95 | Profound | 0.1/0.1 | Moderate | Diabetes, hypertension, deafness, vision loss |
| III‐5 | Male | 27.5 | 50 | 50 | 8.8 | 1.66 | 7.0 | 4.70 | 1.23 | 130/80 | 55/30 | Mild | 0.5/0.4 | Normal | Diabetes, deafness |
| III‐10 | Female | 28.0 | 44 | 45 | 7.1 | 1.33 | 6.8 | 6.91 | 0.98 | 110/85 | 20/20 | Normal | 0.3/0.4 | Normal | Diabetes |
| III‐18 | Female | 26.5 | 42 | 48 | 8.0 | 1.54 | 7.0 | 10.3 | 0.82 | 125/80 | 20/18 | Normal | 0.4/0.4 | Normal | Diabetes |
| III‐22 | Female | 24.0 | 40 | 44 | 7.5 | 1.22 | 6.9 | 15.1 | 1.08 | 130/85 | 15/20 | Normal | 0.5/0.5 | Normal | Diabetes |
| III‐21 | Male | 21.5 | / | 48 | 5.1 | 0.73 | 5.3 | 3.9 | 1.2 | 130/80 | 15/15 | Normal | 0.4/0.5 | Normal | Normal |
BMI: body mass index; HbA1c: glycosylated hemoglobin; BP: blood pressure; PTA: pure‐tone audiometry; dB: decibel
mtDNA sequence alternation in this pedigree with diabetes
| Gene | Position | Replacement | rCRS | Conservation (H/B/M/X) | CI (%) | Previously reported |
|---|---|---|---|---|---|---|
| D‐loop | 73 | A to G | A | Yes | ||
| 204 | T to C | T | Yes | |||
| 215 | A to G | A | Yes | |||
| 263 | A to G | A | Yes | |||
| 310 | T to CTC | T | Yes | |||
| 16182 | A to C | A | Yes | |||
| 16189 | T to C | T | Yes | |||
| 16519 | T to C | T | Yes | |||
| 12S rRNA | 750 | A to G | A | 97.78 | Yes | |
| 1438 | A to G | A | A/A/A/G | 86.67 | Yes | |
| 16S rRNA | 2706 | A to G | A | A/G/A/A | 84.44 | Yes |
| ND1 | 3970 | C to T | C | 80.0 | Yes | |
| ND2 | 4769 | A to G | A | 24.44 | Yes | |
| 5441 | A to G | A | 31.1 | Yes | ||
| tRNATrp | 5514 | A to G | A | A/A/A/A | 100 | Yes |
| CO1 | 6962 | G to A | G | 100 | Yes | |
| 7028 | C to T | C | 100 | Yes | ||
| A6 | 8584 | G to A (Ala to Thr) | G | A/V/V/I | 17.8 | Yes |
| 8860 | A to G (Thr to Ala) | A | T/A/A/T | 71.1 | Yes | |
| ND3 | 10398 | A to G (Thr to Ala) | A | T/T/T/A | 51.1 | Yes |
| ND4 | 11719 | G to A | G | 97.8 | Yes | |
| tRNASer(AGY) | 12237 | C to T | C | C/C/C/C | 100 | Yes |
| ND5 | 12822 | C to T | C | 22.2 | Yes | |
| 13928 | G to C (Ser to Thr) | G | S/T/S/T | 11.1 | Yes | |
| CytB | 14766 | C to T (Thr to Ile) | C | T/S/T/S | 48.9 | Yes |
| 15301 | G to A | G | 95.5 | Yes | ||
| 15326 | A to G (Thr to Ala) | A | T/M/I/I | 17.8 | Yes | |
| 15784 | T to C | T | 100 | Yes |
Abbreviation: CI, conservation index.
Conservation of amino acid for polypeptides or nucleotide for rRNAs, in human (H), mouse (M), bovine (B), and Xenopus laevis (X).
See http://www.mitomap.org andhttp://www.genpat.uu.se/mtDB/
FIGURE 2Identification of tRNATrp A5514G and tRNASer(AGY) C12237T mutations by Sanger sequencing
FIGURE 3Cloverleaf structures of tRNATrp and tRNASer(AGY). Arrows indicate the positions of m.A5514G and m.C12237T mutations in mt‐tRNA genes
FIGURE 4Sequence alignment of tRNATrp gene from different species, arrow indicates the position 3, corresponding to the m.A5514G mutation
Molecular characterizations of tRNATrp A5514G and tRNASer(AGY) C12237T mutations identified in this family
| tRNA species | Nucleotide changes | Number of nucleotides in tRNA | Location in tRNA | Watson‐Crick base‐pairing | CI (%) | MFE (wild type) kcal/mol | MFE (Mutant) kcal/mol | Disease association |
|---|---|---|---|---|---|---|---|---|
| tRNATrp | A5514G | 3 | Acceptor arm | 3A−70T↓ | 92.3 | −10.82 | −10.88 | Deafness; Multiple mitochondrial respiratory chain enzyme defects |
| tRNASer(AGY) | C12237T | 31 | Variable region | 11A−31T↑ | 84.6 | −15.55 | −14.96 | Creutzfeldt‐Jakob disease |
Abbreviations: CI, conservation index; MFE, minimum free energy.
Classic Watson‐Crick base pairing: created (↑) or abolished (↓).
FIGURE 5Bioinformatics analysis of tRNATrp structure with and without m.A5514G mutation
FIGURE 6Bioinformatics analysis of tRNASer(AGY) structure with and without m.C12237T mutation
Predicted pathogenicity of mt‐tRNATrp A5514G and tRNASer(AGY) C12237T mutations
| Scoring criteria | m.A5514G mutation | Score/20 | m.C12237T mutation | Score/20 | Classification |
|---|---|---|---|---|---|
| More than one independent report | Yes | 2 | Yes | 2 | |
| Evolutionary conservation of the base pair | No changes | 2 | No changes | 2 | |
| Variant heteroplasmy | No | 0 | No | 0 | ≤6 points: neutral polymorphisms |
| Segregation of the mutation with disease | Yes | 2 | Yes | 2 | |
| Histochemical evidence of mitochondrial disease | No evidence | 0 | No evidence | 0 | 7~10 points: possibly pathogenic |
| Biochemical defect in complex I, III, or IV | No | 0 | No | 0 | 11–13 points (not including evidence from single fiber, steady‐state level, or trans‐mitochondrial cybrid studies): probably pathogenic |
| Evidence of mutation segregation with biochemical defect from single‐fiber studies | No | 0 | No | 0 | |
| Mutant mt‐tRNA steady‐state level or evidence of pathogenicity in trans‐mitochondrial cybrid studies | Weak evidence | 2 | Weak evidence | 2 | ≥11 points (including evidence from single fiber, steady‐state level, or trans‐mitochondrial cybrid studies): definitely pathogenic |
| Maximum score | Possibly pathogenic | 8 | Possibly pathogenic | 8 |