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LETTER TO JMG |
G mtDNA mutation
1 Mitochondrial Research Group, University Newcastle upon Tyne, Newcastle upon Tyne, UK
2 Department of Neurology, University Halle-Wittenberg, Halle-Wittenberg, Germany
3 Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, Virginia, USA
Correspondence to:
P F Chinnery
M4104, The Medical School, Framlington Place, Newcastle upon Tyne NE2 4HH, UK;p.f.Chinnery{at}ncl.ac.uk]
Received 5 April 2006
Revised version received 26 June 2006
23 July 2006
| ABSTRACT |
|---|
G MTTL1 mutation is the most common heteroplasmic mitochondrial DNA (mtDNA) mutation associated with disease. Previous studies have shown that the percentage of mutated mtDNA decreases in blood as patients get older, but the mechanisms behind this remain unclear.
Objectives and method: To understand the dynamics of the process and the underlying mechanisms, an accurate fluorescent assay was established for 3243A
G heteroplasmy and the amount of mtDNA in blood with real-time polymerase chain reaction was determined. The amount of mutated and wild-type mtDNA was measured at two time points in 11 subjects.
Results: The percentage of mutated mtDNA decreases exponentially during life, and peripheral blood leucocytes in patients harbouring 3243A
G are profoundly depleted of mtDNA.
Conclusions: A similar decrease in mtDNA has been seen in other mitochondrial disorders, and in 3243A
G cell lines in culture, indicating that depletion of mtDNA may be a common secondary phenomenon in several mitochondrial diseases. Depletion of mtDNA is not always due to mutation of a nuclear gene involved in mtDNA maintenance.
Abbreviations: GADPH, glyceraldehyde-3-phosphate dehydrogenase; mtDNA, mitochondrial DNA; PCR, polymerase chain reaction; RFLP, restriction fragment length polymorphism
The 3243A
G MTTL1 gene mutation of mitochondrial DNA (mtDNA) is the most common heteroplasmic pathogenic mtDNA mutation and is found in approximately 1 in 6000 of the general population.1 Although first described in mitochondrial encephalomyopathy with lactic acidosis and stroke-like episodes (MELAS), the phenotypic spectrum is extremely diverse, including isolated diabetes and deafness, hypertrophic cardiomyopathy and retinitis pigmentosa.2 The clinical variability can be explained partly by tissue-specific differences in the percentage of mutated mtDNA.3,4
Intriguingly, the percentage of mutated mtDNA is consistently lower in peripheral blood than in post-mitotic tissues such as skeletal muscle and brain.3,5 Serial measurements in the same subject have shown that the percentage of the 3243A
G mutation in blood decreases over time,6,7 but the reasons for this are not clear. One possibility is that vegetative segregation in rapidly proliferating leucocyte precursors leads to high percentages of mutated mtDNA in some cells. This causes a biochemical defect of the respiratory chain, which either impairs the further proliferation of that cell lineage or leads to cell death.7 This would ultimately lead to a decrease in the percentage of mutated mtDNA in the daughter cells present in the peripheral blood. However, it is currently not known whether the biochemical defect is primarily because of high amounts of mutated mtDNA,8 low amounts of wild-type mtDNA9 or a combination of both.
To advance our understanding of this process, we developed and validated a highly sensitive fluorescent assay to measure the changes in heteroplasmy over time, and also measured the absolute amount of mutated and wild-type mtDNA in 11 subjects known to harbour 3243A
G.
| METHODS |
|---|
G mtDNA mutation (five men and six women; table 1
G mutation and 6 controls for comparison. Total genomic DNA was extracted using a standard procedure.
|
G heteroplasmy assay
G mutation and one with a low percentage 3243A
G, but who otherwise had an identical mtDNA sequence. Genomic DNA from each sibling was amplified across the region containing the MTTL1 gene and cloned using the pGEM-T Easy vector system (Promega, Southampton, UK), according to the manufacturers instructions. Plasmids from transformed JM109-competent Escherichia coli cells were purified using the Qiaprep spin mini prep kit (Qiagen, Crawley, UK) and quantified by ultraviolet spectrophotometry (Eppendorf, Cambridge, UK). Mutated and wild-type cloned DNA were mixed to generate heteroplasmic samples of 0%, 5%, 10%, 25% and 50%.
The percentage of mutated mtDNA was determined in triplicate using the gold standard technique of last cycle hot polymerase chain reaction (PCR). A 154-bp region encompassing the MTTL1 gene was amplified using standard cycling conditions and the following primers: nucleotides 32003218 forward, nucleotides 33533334 reverse. After the addition of 5 µCi [
-32P]dCTP (3000 Ci/mmol) to the last PCR cycle, products were precipitated and digested at 37°C with HaeIII (10 U; New England Biolabs, Ipswich, UK). Restriction fragments were separated on a 12% non-denaturing polyacrylamide gel, dried on to a support, and exposed to a PhosphorImager cassette. The level of mtDNA heteroplasmy was quantified using ImageQuant TL software (Amersham Biosciences, Buckinghamshire, UK).10
The last cycle hot PCR method was adapted to a fluorescent analyser (Beckman CEQ 8000; Beckman Coulter, Buckinghamshire, UK) using modified primers (nucleotides 31553171 forward, nucleotides 33533334 reverse) and optimised PCR conditions. Fluorescent-labelled forward primer was added in the last PCR cycle instead of the radioactive label, followed by HaeIII digestion (10 U). Serial dilutions (in water) of the last cycle fluorescent PCR restriction fragment length polymorphism (RFLP) products were analysed in triplicate using a Beckman Coulter CEQ 8000 fluorescent DNA fragment analyser and fragment analysis software (V.8.0).
Real-time PCR
The total amount of mtDNA (referred to as the mtDNA copy number) in homogenate DNA samples from patients and controls was determined by real-time PCR using iQ Sybr Green on the BioRad ICycler (BioRad, Hercules, California, USA) to a target template spanning from nucleotide 3459 to nucleotide 3569 of the mtDNA ND1 gene. This was normalised using a nuclear-encoded template for the glyceraldehyde-3-phosphate dehydrogenase (GAPDH) gene spanning from nucleotide 804 to nucleotide 903 (NCBI, NM_002046
[GenBank]
.2). Relative copy number was calculated from the threshold cycle value,
Ct value, where the mean amount of mtDNA/cell = 2(2
Ct), to account for the two copies of GAPDH in each cell nucleus. Each reaction was optimised and confirmed to be linear over an appropriate concentration range using genomic DNA standards. Samples were analysed in triplicate for both assays, enabling calculation of the average mtDNA to nDNA ratio. As the overwhelming majority of blood mtDNA is present in the leucocyte population, this assay provides a good estimation of the average amount of mtDNA within the blood leucocyte population.
Statistical analysis
Statistical analyses were carried out using Minitab (V.14), including correlations analysis with Spearmans correlation coefficient (R2), and two-sample t tests for the comparison of the amount of mtDNA.
| RESULTS |
|---|
|
Sequential blood heteroplasmy quantification
The percentage of mutated mtDNA was determined in each sample from the 11 subjects harbouring the 3243A
G mutation using the last cycle fluorescent PCR-RFLP. Measurements were made from the original genomic DNA sample on three independent occasions. The last cycle fluorescent PCR-labelled HaeIII digestion products were not diluted. In each subject, the percentage of 3243A
G decreased over time (fig 2
). The overall mean change was a decrease of 0.6% per year (standard deviation (SD) 0.5).
|
G mutation had low levels of mtDNA (mean for sample set 1 = 69.8 (SD 25.4), two-sample t test comparison with controls, t = 14.28, p<0.001; mean for sample set 2 = 98.0 (SD 52.8), two-sample t test comparison with controls t = 10.79, p<0.001). In eight of the subjects with the 3243A
G mutation, the mean amount of mtDNA per leucocyte increased over time. In three subjects, the mean amount of mtDNA per leucocyte decreased over time. The overall mean change was an increase in the mean amount of mtDNA per leucocyte (4.4 molecules/cell/year (SD 7.6); fig 4
|
|
G was greater in muscle than in blood. The amount of mtDNA per nucleus was greater in the skeletal muscle of 3243A
G subjects than of the controls (supplementary table A, available online at www.jmg.bmjjournals.com/supplemental). | DISCUSSION |
|---|
G data in fig 1
Using the last cycle fluorescent PCR, we confirmed that the percentage of 3243A
G decreases in blood over time. The mean percentage decrease of 0.6% per year corresponds well to the largest previous study (0.69% per year; SD 0.61).6 In our study (fig 2
), the greatest rate of decrease in the percentage of mutated mtDNA was seen in the younger subjects, consistent with an exponential loss of 3243A
G from the peripheral blood. With this in mind, reporting mean values for the percentage decrease could be misleading, and explains why the mean value in our adult study was significantly less than that found in one study of six subjects (1.12% per year; SD 0.65),7 which predominantly involved observations made over childhood (two-sample t test comparing the data in table 1
with the data in Rahman et al7: t = 3.53, p = 0.004).
The most striking novel finding is the profound depletion of mtDNA in blood leucocytes in patients harbouring this mutation. Our control data for the mean mtDNA copy number/leucocyte are remarkably similar to other published values based on real-time PCR and other techniques,11,12 confirming that we were using a reliable assay. How can we therefore explain these observations? Given that the peripheral blood count was normal in each case, a change in the number of cell nuclei or cell types probably does not account for the profound depletion we have observed. From first principles, the depletion of mtDNA could be due to decreased rates of mtDNA synthesis relative to the intense cellular proliferation in leucocyte precursors. An alternative (and non-exclusive) explanation is an increased loss of mtDNA from the precursors of the mature cells.
The peripheral leucocyte population is continuously recycled. Neutrophils are the largest single component (up to 80% of circulating leucocytes), maturing in the bone marrow for 1112 days before being released into the circulation, where they remain for 68 h.13 The entire neutrophil population in the peripheral blood (approximately 5x1010 cells) is therefore replenished on a daily basis, requiring a massive amount of mtDNA replication to maintain normal mtDNA levels. This is sustained by a limited number of stem cells (1 in 104 to 1 in 105 marrow cells), which turn over at a low rate and repopulate the blood through a hierarchical cascade of cell divisions.14 It is therefore far more probable that any effect on mtDNA replication would manifest during the massive expansion of daughter cells leading to the formation of mature leucocytes, rather than in the stem-cell population itself. Even a subtle decrease in the replication rate could lead to the dramatic depletion that we have observed in the peripheral blood. For example, if the mtDNA replication rate was a fraction f of the normal replication rate, then after a series of n cell divisions the leucocyte precursors would be depleted by a factor fn. Twenty cell divisions (the number required for a million-fold increase in cells) would give our observed depletion to 23% of the normal level with f = 0.93.
Could the bioenergetic defect be responsible for a relative decrease in rate of mtDNA synthesis in the leucocyte precursors? Although plausible, this explanation is difficult to reconcile with the increased amount of mtDNA seen in post-mitotic tissues of subjects harbouring 3243A
G.15 In addition, if the loss of mtDNA were directly related to a defect of ATP synthesis, we would expect a closer relationship between the percentage level of mutated mtDNA and the degree of depletion. This was clearly not the casefor example, low amounts of mtDNA were found in a young subject with approximately 50% 3243A
G in blood and an older subject with approximately 5% 3243A
G in blood (figs 2
and 3
). Recent in vitro studies on human NT2 teratocarcinoma cybrids harbouring 3243A
G (NT2.3243 cybrids) cast light on this issue.16 High percentages of 3243A
G were associated with a profound loss of mtDNA from the NT2.3243 cybrids. This seemed to be mutation specific, as the same depletion was not seen in NT2 cybrids homoplasmic for the 1555A
G mtDNA mutation. Moreover, the presence of a known suppressor mutation (12300G
A), which ameliorates the biochemical effects of 3243A
G at high levels, did not prevent the loss of mtDNA from the cybrid cell lines, indicating that the biochemical defect is not the principal factor behind the depletion. Remarkably, not all the cell lines with >99% 3243A
G lost their mtDNA, proving that the percentage of mutated mtDNA is not an absolute determinant of the depletion. Further work showed slow rates of segregation of the 3243A
G mutation in NT2.3243 cybrids, providing indirect evidence that functional or physical partitioning of mtDNA molecules contributes to the segregation process. These observations highlight the complex interplay between intercellular and intracellular signals that are involved in the mitotic segregation of the 3243A
G mutation.16 Similar mechanisms may be involved in rapidly dividing tissues in vivo, including the leucocyte population. It is intriguing that, as the percentage of mutated mtDNA in blood decreases in subjects harbouring the 3243A
G mutation (fig 2
), there is an overall increase in the amount of mtDNA in blood, particularly wild-type mtDNA (fig 4
). This suggests a degree of recovery from the depletion as time passes, although the amount never reaches normal values.
An alternative explanation for the loss of one mtDNA genotype in blood is through immune surveillance mediated through an abnormal cell surface epitope. This hypothesis is supported by the description of a complex I (ND) gene variant in mice that forms a maternally transmitted major histocompatibility antigen.17 However, recent work on heteroplasmic mice has shown that immune-mediated cell loss does not occur in heteroplasmic mice with the C57B/BALB genotype, and nuclear genes may be important.18
Finally, the depletion may be a secondary phenomenon, as in other mitochondrial disorders. Mutations in OPA1 cause the most common form of autosomal dominant optic atrophy. In a recent study, subjects with OPA1 mutations had markedly lower levels of mtDNA in leucocytes than controls.11 Given the central role of OPA1 in maintaining the structural integrity of mitochondria and mtDNA, it was suggested that the primary genetic defect led to the loss of both mitochondria and mitochondrial genomes. A similar structural disintegration of the mitochondrial network has been seen in subjects harbouring primary mtDNA defects, potentially explaining the observations we report here. By contrast, one study19 described a mild increase in the amount of mtDNA in leucocytes from subjects harbouring mtDNA mutations that cause Leber hereditary optic neuropathy. However, in contrast with the 3243A
G mutation, the biochemical defect in patients with Leber hereditary optic neuropathy is mild and sometimes undetectable.20,21 Further work will determine whether depletion of mtDNA is seen in other mtDNA disorders.
If the 3243A
G mutation is causing depletion through an effect on the structural integrity of mitochondria in leucocytes, why does this not occur in non-dividing tissues such as skeletal muscle, where there tends to be a proliferation of mitochondria and mtDNA (supplementary table A online at www.jmg.bmjjournals.com/supplemental)? At present, we can only speculate, but recent work in our laboratory has shown that, although initially the amount of skeletal muscle mtDNA is high in subjects with mtDNA mutations, there is a progressive loss of mtDNA over time.22 This could be partly due to muscle deconditioning, but it may be due to a more general process related to mitochondrial fragility. These findings have important implications for the molecular diagnosis of mitochondrial disordersthe presence of depletion may be a secondary phenomenon and the primary molecular defect may be a mtDNA mutation or a nuclear gene mutation not directly involved in the synthesis of mtDNA.
Key points
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| FOOTNOTES |
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Funding: PFC also receives funding from Ataxia (UK), the Alzheimers Research Trust, the Association Française Contre les Myopathies, and the United Mitochondrial Diseases Foundation, and the EU FP P
Competing interests: None declared.
Published Online First 1 September 2006
| REFERENCES |
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G mtDNA mutation from blood in MELAS syndrome: a longitudinal study. Am J Hum Genet 2001;68:23840.[CrossRef][Medline]This article has been cited by other articles:
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K Craig, H R Elliott, S M Keers, C Lambert, A Pyle, T D Graves, C Woodward, M G Sweeney, M B Davis, M G Hanna, et al. Episodic ataxia and hemiplegia caused by the 8993T->C mitochondrial DNA mutation J. Med. Genet., December 1, 2007; 44(12): 797 - 799. [Abstract] [Full Text] [PDF] |
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