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Table 1 Summary of the key clinical genetic data with respect to the 55 LPL frameshift coding variants reported to date

From: Frameshift coding sequence variants in the LPL gene: identification of two novel events and exploration of the genotype–phenotype relationship for variants reported to date

Variant

Zygosity

The other variant in case of compound heterozygosity (functional effect)b

Plasma LPL activity (% of normal)

Disease referred for genetic analysis

Patient’s age at genetic analysis

Patient’s disease history

HGVS nomenclature

(NM_000237.3)

Original descriptiona

Reference

c.10_11insTTCG

p.(Ala117Serfs*61)

 

[23]

Heterozygote

 

NIc

Severe HTG

NI

NI

c.32dup

p.(Ala12Glyfs*29)

 

This study

Heterozygote

 

No data

HTG-AP in pregnancy

#1: 33 y (31+4 weeks of gestation)

#2: 28y (38+4 weeks of gestation)

#1: Gestational diabetes mellitus at 28 weeks of gestation

#2: negative

c.46_47del

p.(Gln16Glufs*24)

Q-12E > 11Xd

[24]

Heterozygote

 

NI

Severe HTG

NI

NI

c.77_88 + 1del

p.(Ala26Lysfs*13)

 

This study

Heterozygote

 

No data

HTG-AP

43 y

Three years of HTG

c.94_98del

p.(Arg32Phefs*7)

 

[25]

Heterozygote

 

NI

HTG

NI

NI

c.128dup

p.(Arg44Lysfs*4)

 

[26]

Compound heterozygote

p.Asn318Ser (experimentally determined to have 60% wild-type LPL activity by another study [27])

NI

Eruptive cutaneous xanthomata and elevated plasma TG concentration

29 y

Negative

c.133_143del

p.(Thr45Hisfs*3)

11 bp deletion in exon 2

[28]

Compound heterozygote

p.Gly215Glue (experimentally determined to have a near complete functional loss of LPL by two studies [29, 30])

 < 1%

Familial chylomicronemia

10 y

Marked HTG at birth

c.133dup

p.(Thr45Asnfs*3)

c.134insA

[31]

Heterozygote

 

NI

Moderate HTG

41 y

NI

c.183dup

p.(Glu62Argfs*28)

Insertion of an "A" at nucleotide 183 (codon Glu35)

[32]

Homozygote

 

0

Familial chylomicronemia

5.5 y

Chylomicronemia at 1 month of age after an episode of AP

c.247_249 + 1del

4-bp ACGG deletion at the 3' boundary of exon 2

[33]

Unknownf

 

Unknown

LPL deficiency

Unknown

Unknown

c.287_288del

p.(Val96Glyfs*51)

Deletion of nucleotides G286 and T287 in exon 3

[34]

Compound heterozygote

c.440_443delg

p.(Asn147Thrfs*24)

0

Chylomicronemia

17 y

Manifested with failure to thrive and abdominal pain at age 3 weeks

c.289_294delinsTTTGCCAAAA

p.(Ala97Phefs*52)

Wrongly described as c.289_299delGCCGCCinsTTTGCCAAAA

[35]

Homozygote

 

NI

Very severe HTG and cerebral dysmorphism

2 m

NI

c.290_293delinsGG

p.(Ala97Glyfs*50)

Deletion of four nucleotides (∆CCGC) and an insertion of two nucleotides (GG) at position 290 in exon 3

[36]

Compound heterozygote

p.Leu313Proh (experimentally shown to have < 1% of wild-type LPL activity [36])

6.6%

Familial Chylomicronemia

67 y

Eruptive xanthomata and chylomicronemia were noted at the age of 53, during an episode of acute pancreatitis

c.312del

p.(Asp105Thrfs*67)

 

[37]

Homozygote

 

0

FCS

3 y

NI

c.334dup

p.(Asp112Glyfs*36)

 

[38]

Compound heterozygote

p.Arg102Thr (both p.Arg102Thr and p.(Asp112Glyfs*36) were experimentally shown to cause a complete functional loss of LPL [38])

NI

Unexplained fever (“Milky serum” was noticed during laboratory examination)

1 m

 

c.338_339insAGAGTACCATTCGATAC

p.(Trp113*)

 

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.348_349insAGTACCATTCGACAGTC

p.(Ala117Serfs*61)

 

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.373dup

p.(Ala125Glyfs*23)

c.373_374insG

[39]

Compound heterozygote

p.His273Arg (experimentally determined to have 2% of wild-type LPL activity [39])

NI

Severe HTG

3 y

NI

c.377_378insAGAGTACCATT

p.(Tyr127Glufs*49)

 

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.384delinsTGGGCT

p.(Lys129Glyfs*45)

A six base-pair insertion at the site of a single base deletion, and that the net insertion of five base-pairs at amino acid positions 102 to 103 causes a shift in the reading frame

[40]

Unknown

 

Unknown

LPL deficiency

Unknown

Unknown

c.386_390del

p.(Lys129Serfs*17)

 

[31]

Heterozygote

 

NI

Severe HTG

46 y

NI

c.431_432AG[3]

p.(Glu145Argfs*4)

c.429_430insGAGA

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.438del

p.(Phe146Leufs*26)

 

[41]

NI

 

NI

HTG

NI

NI

c.440_443del

p.(Asn147Thrfs*24)

A 4 bp deletion (ACTA) in exon 4

[34]

Compound heterozygote

c.287_288del (described earlier in the Table)

0

Chylomicronemia

17 y

Manifested with failure to thrive and abdominal pain at age 3 weeks

c.483delA

p.(Ala162Profs10)

 

[42]

Heterozygote

 

NI

Glycogen storage disease type-Ib (severe HTG discovered during laboratory tests)

5 m

Hypoglycemia, hyperlactic acidosis, and sepsis in the neonatal period

c.501_502insGAGAGTACCATTCGAGA

p.(Ala168Glufs*10)

 

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.596del

p.(Ser199Phefs*8)

Deletion of the second nucleotide of codon 172; p.S172fsX179

[43]

Heterozygote

 

30%

Recurrent hypertriglyceridemic pancreatitis

50 y

Found to be hypertriglyceridemic for 30 years and suffered from four episodes of acute pancreatitis between the ages of 46 y and 49 y

c.599del

p.(Pro200Leufs*7)

 

[44]

Heterozygote

 

NI

HTG

NI

NI

c.624del

p.(Leu209Tyrfs*43)

 

[45]

Heterozygote

 

NI

NI

NI

NI

c.651del

p.(Gly218Valfs*34)

 

[35]

Homozygote

 

NI

Severe HTG

4 y

Pancreatitis at the age 2 y

c.708del

p.(Gly237Valfs*15)

Deletion of the third nucleotide of the codon for Gly209, resulting in termination after 223 residues

[46]

NI

 

NI

Severe HTG

NI

NI

c.742del

p.(Ala248Leufs*4)

Deletion of a C at base 916

[47]

Homozygote

 

0 (in both diseased siblings)

Type I hyperlipoproteinemia

NI

Both patients had recurrent episodes of abdominal pain and pancreatitis (age of first disease onset not described)

c.765_766del

p.(Gly256Thrfs*26)

c.765_766delAG

[48]

Homozygote

 

0 (in two patients from a same family)

Type I hyperlipoproteinemia

#1: 19 y

#2: 32 y

#1: NI

#2: NI

c.767_768insTAAATATT

p.(Gly256_Gly258del)

 

[20]

Homozygote

 

NI

HTG-AP

25 y

Central abdominal pain on two occasions in the previous two years; without any other syndromes or diseases

c.769_770insCA

p.(Leu257Profs*8)

 

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.835_836del

p.(Leu279Valfs*3)

 

[35]

Homozygote

 

NI

Severe HTG (two patients from a same family)

#1: 37 y

#2: 29 y

#1: NI

#2: Recurrent pancreatitis starting from the age 1 y

c.840del

p.(Asn281Metfs*23)

 

[35]

Compound heterozygote

Gross deletion of the LPL gene

 

Familial chylomicronemia

1 m

Had severe HTG, hepatomegaly, lipemia retinalis and eruptive xanthomas

c.899_921dup

p.(Asn308Glyfs*4)

 

[49]

Homozygote

 

NI

Severe HTG

NI

HTG since childhood

c.901del

p.(Leu301Serfs*3)

 

[49]

Heterozygote

 

23%

Severe HTG

39 y

NI

c.953del

p.(Asn318Ilefs*13)

One nucleotide deletion of A coding Asn 291

[50]

Compound heterozygote

p.Ile221Thri (almost complete loss of LPL activity [51, 52])

7.5%

Severe HTG

33 y

Suffered from AP several times after drinking alcohol. He did not have diabetes, renal disease, liver disease or hormonal disease. No corneal opacification, xanthomatosis or hepatosplenomegaly were noted

c.1008del

p.(Met336Ilefs*10)

 

[45]

Heterozygote

 

NI

NI

NI

NI

c.1010_1011insATTCGAGAGC

p.(Tyr338Phefs*19)

c.1009_1010insCATTCGAGAG

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.1016_1017insC

p.(Lys339Asnfs*15)

AAA → AACA in exon 6

[53]

Heterozygote

 

NI

HTG (reported in a family; all six variant carriers had HTG while all noncarriers had normal TG levels)

NI

NI

c.1044_1050del

p.(His348Glnfs*43)

 

[49]

Heterozygote

 

NI

Severe HTG

52 y

NI

c.1081_1082insAGTA p.(Ala361Glufs*4)

 

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.1107_1108insATTCGAAGAGCGC

p.(Val370Ilefs*9)

c.1106_1107insCATTCGAAGAGCG

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.1115dup

p.(Ser373Glufs*2)

 

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.1119_1120insACCATTC

p.(Glu374Thrfs*11)

 

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.1121_1122insAGAGCGC

p.(Asn375Glufs*10)

 

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.1138_1139del

p.(Leu380Alafs*2)

Deletion CT1312–1313 that covers the last two bases of exon 7

[54]

Homozygote

 

0 (in both the proband and his sister)

Severe HTG

Proband: 17.1 y

Sister: 8.9 y

Proband: recurrent episodes of abdominal pain and unexplained diarrhea; acute pancreatitis at age 5 years

Sister: severe HTG

c.1160_1161insT

p.(Lys387Asnfs*26)

 

[55]

Homozygote

 

NI

LPL deficiency

NI

NI

c.1163_1164insA

p.(Tyr389Leufs*24)

ACC → ACAC in exon 8

[53]

Heterozygote

 

NI

HTG (variant carriers had significantly higher TG levels than noncarriers based upon clinical data from 15 variant carriers and 17 noncarriers

NI

NI

c.1303_1304del

p.(Ala435Argfs*12)

 

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.1306_1307insAGTACCATTC

p.(Gly436Glufs*15)

 

[23]

Heterozygote

 

NI

Severe HTG

NI

NI

c.1373del

p.(Ala458Aspfs*6)

 

[56]

Homozygote

 

NI

LPL deficiency

2 m

Patient exhibited lipemic plasma, lipemia retinalis, hepatomegaly, splenomegaly, and failure to thrive

  1. Abbreviations: AP acute pancreatitis, HTG hypertriglyceridemia LPL lipoprotein lipase, M months, NI not informative, TG triglyceride, Y years
  2. aFor variants that were either not described at the coding DNA reference sequence level or described at the coding DNA reference sequence level but the nomenclature did not follow the current Human Genome Variation Society (HGVS) recommendations
  3. bFunctional effect refers to the experimentally determined LPL activity (in the medium of transfected cells) of the trans-inherited LPL missense variant relative to that of wild-type LPL
  4. cNot informative in the original publication
  5. dDescribed only at the protein level in the first report [24]. The change at the coding DNA sequence level was obtained from subsequent citing publications [57, 58]
  6. eDescribed as Gly188Glu in the original report [28]
  7. fFull text of the original report could not be accessed
  8. gDescribed as a 4 bp deletion (ACTA) in exon 4 in the original report [34]
  9. hDescribed as Leu286Pro in the original report [36]
  10. iDescribed as LPL p.Ile194Thr in the original report [50]