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Table 5 Agreement between the model and experiment for healthy human and human with MELAS syndrome

From: Modeling RNA polymerase interaction in mitochondria of chordates

Solution parameters for healthy human

Transcription levels (relative to ND1 gene) in the model (1st row) and experiment (2nd row)

LSP

HSP1

HSP2

mTERF

R

L 1 n

ND2

COX1

COX2

ATP6/8

ND3

ND5

CYTB

0.0031

0.0031

0.0126

0.6456

23.955

1.945

1.00

1.00

1.00

0.96

0.96

0.96

0.96

Experimental estimates

Transcription level:

1.40

1.04

1.72

0.91

1.04

1.86

2.31

 

Error (if statistically independent):

±0.23 (1.8)

±0.52 (0.1)

±0.61 (1.2)

±0.43 (0.1)

±0.12 (0.7)

±0.56 (1.6)

±0.56 (2.4)

 

Error (if statistically dependent):

±0.40 (1.0)

±0.82 (0.1)

±0.95 (0.8)

±0.71 (0.1)

±0.20 (0.4)

±0.99 (0.9)

±1.01 (1.3)

Deviation from the experiment,%:

−29

−4

−42

+5

−4

−48

−58

Solution parameters for MELAS case

Changes of transcription levels in the model

      

Phe

12 S

Val

16 S

Leu

Lys

CYTB

0.0031

0.0004

0.0126

0.5336

24.333

 

3.84

1.20

1.20

1.20

1.16

1.22

1.17

  1. Inferences are obtained under the polymerase rate of 500 nt/s and the values of p, q estimated for the frog.
  2. Left panel: the solutions for healthy human (upper part) and human with MELAS syndrome (lower part). Variables and predicted values are in bold. Intensities decrease 7.75 times for HSP1 and 1.21 times for mTERF; RNA/RNA =1.18, R = 24. The L1n minima differ by 2.4% if general conditions are only imposed.
  3. Right panel (upper part): Transcription levels of seven genes (relative to ND1 gene) in the model and experiment for healthy human. Experimental errors were estimated for both cases of statistically independent measurements and counter assumption. In the latter case, the model results are within experimental error, except for the CYTB gene. Differences between model and experimental estimates are shown in parentheses in the error radius units.
  4. Right panel (lower part): For selected genes, decrease of their transcription levels in the model in MELAS case comparing to healthy human. The transcription level of tRNA-Phe drops 3.8-fold, of 12 S and 16 S – 1.2-fold. The Leu and Lys transcription levels decrease 1.2-fold, which agree with experimental observations.