| Literature DB >> 28704380 |
Bhoom Suktitipat1,2, Sakda Sathirareuangchai3, Ekkapong Roothumnong4, Wanna Thongnoppakhun5, Purin Wangkiratikant6, Nutchavadee Vorasan6, Rungroj Krittayaphong4, Manop Pithukpakorn4, Warangkna Boonyapisit4.
Abstract
INTRODUCTION: Sudden unexpected death syndrome (SUDS) is an important cause of death in young healthy adults with a high incident rate in Southeast Asia; however, there are no molecular autopsy reports about these victims. We performed a combination of both a detailed autopsy and a molecular autopsy by whole exome sequencing (WES) to investigate the cause of SUDS in Thai sudden death victims.Entities:
Mesh:
Substances:
Year: 2017 PMID: 28704380 PMCID: PMC5509116 DOI: 10.1371/journal.pone.0180056
Source DB: PubMed Journal: PLoS One ISSN: 1932-6203 Impact factor: 3.240
Characteristics of sudden unexpected death syndrome (SUDS) patients.
| Variables | Detail | N | % |
|---|---|---|---|
| Sex | |||
| Male | 24 | 96% | |
| Female | 1 | 4% | |
| Family history of SUDS | 7 | 28% | |
| Activity at time of death | |||
| Sleeping | 22 | 88% | |
| At rest or light activity | 3 | 12% | |
| Region of origin in Thailand | |||
| Central | 9 | 36% | |
| Northeastern | 12 | 48% | |
| Western | 2 | 8% | |
| Southern | 0 | 0% | |
| Northern | 2 | 8% | |
| Time of death | |||
| 06:01–12:00 | 4 | 16% | |
| 12:01–18:00 | 2 | 8% | |
| 18:01–00:00 | 6 | 24% | |
| 00:01–06:00 | 13 | 52% | |
| History of syncope | 1 | 4% | |
| Alcohol consumption | 7 | 28% | |
| Smoking | 8 | 32% | |
| Amphetamine Use | 1 | 4% | |
| BMI (Mean ± SD) | 22.93 ± 3.21 | ||
| Age (Mean ± SD) | 31.04 ± 13.12 | ||
| Heart weight (Mean ± SD) | 338.75 ± 79.96 | ||
| Left lung weight (Mean ± SD) | 560.8 ± 155.19 | ||
| Right lung weight (Mean ± SD) | 694.8 ± 200.21 | ||
| Brain weight (Mean ± SD) | 1357.2 ± 96.76 | ||
Fig 1A summary of all sudden death victims.
Autopsy identified the cause-of-death in 14 victims. The remaining 25 sudden unexplained death (SUDS) victims were investigated with whole exome sequencing.
Characteristics of each patient.
| StudyID | Age | Sex | Time of death | Hometown | Activity at time of death | Underlying disease | Family history | BMI | Gene identified |
|---|---|---|---|---|---|---|---|---|---|
| SCD-002 | 40 | M | 24.00–6.00 | Central | Sleeping | No | Yes | 25.00 | |
| SCD-004 | 29 | M | 6.00–12.00 | Central | At rest | No | No | 20.38 | |
| SCD-009 | 47 | M | 18.00–24.00 | NE | Sleeping | No | No | 17.15 | |
| SCD-010 | 48 | M | 6.00–12.00 | NE | Sleeping | No | Yes | 18.07 | |
| SCD-011 | 33 | M | 24.00–6.00 | NE | Sleeping | No | No | 22.50 | |
| SCD-013 | 23 | M | 18.00–24.00 | Central | At rest | No | No | 18.69 | |
| SCD-014 | 38 | M | 24.00–6.00 | NE | Sleeping | No | No | 20.96 | |
| SCD-015 | 25 | M | 18.00–24.00 | NE | Sleeping | No | No | 20.90 | |
| SCD-017 | 30 | M | 24.00–6.00 | NE | Sleeping | No | No | 22.57 | |
| SCD-018 | 30 | M | 24.00–6.00 | NE | Sleeping | No | Yes | 29.75 | |
| SCD-019 | 37 | M | 24.00–6.00 | Central | Sleeping | No | No | 25.51 | |
| SCD-020 | 42 | M | 7.00 | NE | Sleeping | No | Yes | 23.23 | |
| SCD-025 | 37 | M | 12.00–18.00 | Central | Sleeping | No | No | 25.10 | |
| SCD-026 | 33 | M | 3.30 | Central | Sleeping | No | Yes | 24.38 | |
| SCD-029 | 47 | M | 24.00–6.00 | Central | Sleeping | No | Yes | 18.83 | |
| SCD-032 | 34 | M | 24.00–6.00 | W | sleeping | No | No | 28.34 | |
| SCD-034 | 34 | M | 18.00–24.00 | NE | Sleeping | No | No | 22.50 | |
| SCD-035 | 51 | M | 22.00 | Central | Sleeping | No | No | 22.66 | |
| SCD-036 | 35 | M | 5.30 | Central | Sleeping | No | No | 26.13 | |
| SCD-037 | 21 | M | 10.14 | NE | Sleeping | No | NA | 20.96 | |
| SCD-038 | 25 | M | 15.00 | NE | Sleeping | No | Yes | 25.61 | |
| SCD-039 | 25 | M | 24.00–06.00 | W | Sleeping | No | NA | 26.22 | |
| SCD-040 | 39 | M | 22.25 | NE | At rest | No | NA | 25.59 | |
| SCD-041 | 34 | M | 24.00–06.00 | NE | Sleeping | No | No | 20.52 | |
| SCD-042 | 29 | F | 24.00–06.00 | NE | Sleeping | Syncope | No | 21.64 |
* Exact time of death or the interval
† Region in Thailand
Underlined gene = double heterozygote
bolded gene = homozygote
Fig 2A summary result of whole exome variant filtering.
(SNV = single nucleotide variants, MAF = minor allele frequency).
Potentially causative variants in SUDS.
| Gene | CHR | POS | rsID | REF | ALT | MetaSVM | Effect | 1000G | ExAC | ESP | THAI | StudyID | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | NEXN | 1 | 78383329 | rs200345240 | G | A | D | p.Glu36Lys | 0.0002 | 0.00002 | - | - | 20 |
| 2 | TNNT2 | 1 | 201331239 | - | G | A | - | p.Ala192Val | - | - | - | - | 18 |
| 3 | RYR2 | 1 | 237754226 | rs373261115 | C | T | D | p.Ala1365Val | 0.0016 | 0.0003 | 0.00008 | 0.0093 | 25 |
| 4 | TTN | 2 | 179418854 | rs187460377 | C | T | D | p.Gly29662Ser | 0.0002 | 0.0002 | 0.00008 | - | 29 |
| 5 | TTN | 2 | 179426553 | - | C | A | D | p.Trp28102Cys | - | - | - | - | 19 |
| 6 | TTN | 2 | 179438185 | rs55992239 | G | A | D | p.Pro22584Leu | 0.0002 | 0.00007 | 0.0002 | 0.0038 | 18 |
| 7 | TTN | 2 | 179484555 | rs371299188 | C | A | D | p.Val13856Phe | 0.0006 | 0.0001 | - | - | 39, 42 |
| 8 | TTN | 2 | 179629493 | rs55634230 | A | C | D | p.Val3250Gly | 0.0004 | 0.00006 | - | - | 10, 35 |
| 9 | TTN | 2 | 179640850 | rs374203813 | G | A | D | p.Ala1914Val | 0.0002 | 0.00002 | - | - | 2 |
| 10 | SCN5A | 3 | 38662409 | - | C | T | D | p.Arg179Gln | - | 0.00003 | - | - | 17 |
| 11 | DSP | 6 | 7580187 | - | G | C | D | p.Arg1255Thr | - | 0.00002 | - | - | 15 |
| 12 | KCNH2 | 7 | 150644474 | rs373394254 | G | A | D | p.Arg1032Trp | 0.0004 | - | - | - | 17 |
| 13 | KCNH2 | 7 | 150646128 | - | T | G | D | p.Asp463Ala | - | - | - | - | 42 |
| 14 | KCNH2 | 7 | 150649611 | rs562875924 | C | T | D | p.Gly487Ser | 0.0004 | 0.00006 | - | - | 38 |
| 15 | CACNB2 | 10 | 18828275 | - | AG | A | - | frameshift | - | - | - | - | 38 |
| 16 | CACNB2 | 10 | 18828310 | rs377657305 | G | A | D | p.Arg492His | 0.0004 | 0.00008 | 0.0002 | - | 13 |
| 17 | RBM20 | 10 | 112590879 | rs371181124 | C | T | D | p.Thr1171Met | - | - | 0.0002 | - | 40 |
| 18 | BAG3 | 10 | 121429499 | - | G | A | D | p.Arg106Gln | - | - | - | - | 26 |
| 19 | KCNQ1 | 11 | 2591954 | - | C | T | D | p.Arg192Cys | - | 0.00003 | - | - | 15 |
| 20 | KCNQ1 | 11 | 2869129 | rs1800172 | G | A | D | p.Gly516Ser | 0.0166 | 0.0167 | 0.0069 | - | 32 |
| 21 | ILK | 11 | 6621766 | rs142644288 | G | A | - | p.Arg401* | - | 0.00003 | 0.00008 | - | 2 |
| 22 | MYBPC3 | 11 | 47364415 | - | A | T | D | p.Cys475Ser | - | - | - | - | 13 |
| 23 | CACNA1C | 12 | 2675634 | rs371702432 | G | A | D | p. Ala519Thr | - | 0.00006 | 0.00008 | - | 42 |
| 24 | MYH7 | 14 | 23891399 | rs192722540 | G | A | D | p.Arg1079Trp | 0.0004 | 0.00005 | - | - | 10 |
| 25 | TPM1 | 15 | 63353987 | - | G | - | splice variant | - | - | - | 0.018 | 11 | |
| 26 | TPM1 | 15 | 63354780 | - | G | - | p.Glu236_Thr237ins | - | - | - | - | 2 | |
| 27 | SCN1B | 19 | 35524607 | rs72558029 | G | A | D | p.Val138Ile | 0.0210 | 0.0117 | 0.0002 | - | 18, 35 |
| 28 | MYLK2 | 20 | 30419883 | - | C | T | - | p.Arg552* | - | - | - | - | 17 |
CHR/POS = chromosome and position (genome build GRCh37), rsID = dbSNP ID, REF/ALT = Reference/alternative allele, MetaSVM (D) = deleterious variant predicted by MetaSVM; AF = allele frequency; 1000Gp = AF in 1000 Genome Project phase 3, ExAC = AF in Exome Aggregation Consortium, GO-ESP = AF in NHLBI Exome Sequencing Project, THAI = AF in Thai control group, (AF data in1000G, ExAC, ESP from dbSNP: https://www.ncbi.nlm.nih.gov/projects/SNP/)
Potential pathogenic variants in each patient.
| Patient ID (SCD-ID) | ||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Gene | Effect | 02 | 04 | 09 | 10 | 11 | 13 | 14 | 15 | 17 | 18 | 19 | 20 | 25 | 26 | 29 | 32 | 34 | 35 | 36 | 37 | 38 | 39 | 40 | 41 | 42 |
| p.Glu36Lys | ||||||||||||||||||||||||||
| p.Ala192Val | ||||||||||||||||||||||||||
| p.Ala1365Val | ||||||||||||||||||||||||||
| p.Gly29662Ser | ||||||||||||||||||||||||||
| p.Trp28102Cys | ||||||||||||||||||||||||||
| p.Pro22584Leu | ||||||||||||||||||||||||||
| p.Val13856Phe | ||||||||||||||||||||||||||
| p.Val3250Gly | ||||||||||||||||||||||||||
| p.Ala1914Val | ||||||||||||||||||||||||||
| p.Arg179Gln | ||||||||||||||||||||||||||
| p.Arg1255Thr | ||||||||||||||||||||||||||
| p.Arg1032Trp | ||||||||||||||||||||||||||
| p.Asp463Ala | ||||||||||||||||||||||||||
| p.Gly487Ser | ||||||||||||||||||||||||||
| frameshift | ||||||||||||||||||||||||||
| p.Arg492His | ||||||||||||||||||||||||||
| p.Thr1171Met | ||||||||||||||||||||||||||
| p.Arg106Gln | ||||||||||||||||||||||||||
| p.Arg192Cys | ||||||||||||||||||||||||||
| p.Gly516Ser | ||||||||||||||||||||||||||
| p.Arg401* | ||||||||||||||||||||||||||
| p.Cys475Ser | ||||||||||||||||||||||||||
| p. Ala519Thr | ||||||||||||||||||||||||||
| p.Arg1079Trp | ||||||||||||||||||||||||||
| splice variant | ||||||||||||||||||||||||||
| p.Glu236_Thr237ins | ||||||||||||||||||||||||||
| p.Val138Ile | ||||||||||||||||||||||||||
| p.Arg552* | ||||||||||||||||||||||||||
The numbers showed in each column of patient ID represent the number of genetic variant at each locus: 1 = heterozygous, and 2 = homozygous