Undetected antisense tRNAs in mitochondrial genomes?

Seligmann, Hervé

doi:10.1186/1745-6150-5-39

Biology Direct

Table 3 Correlations between misacylation potentials and stabilities of cloverleaf structures of tRNAs from 49 primate genomes.

From: Undetected antisense tRNAs in mitochondrial genomes?

tRNA										S-A	S-A	Sense
Processed	n	r	P	r, res	P	rs	p	rs, res	P	COVE	tfam	r
Ala	39	-0.157	0.171	0.144	0.191	0.208	0.102	0.208	0.149	-0.12	-0.46	0.34
Asp	44	-0.348	0.01*	-0.283	0.032	-0.4	0.004*	-0.4	0.009*	0.18	-0.07	0.04
Gln	36	-0.028	0.436	0.017	0.461	0.287	*0.045*	0.287	*0.017*	-0.12	-0.03	0.12
Glu	44	-0.096	0.268	-0.046	0.383	0.023	0.442	0.023	0.332	0.19	0.13	-0.09
Ile	48	0.079	0.299	-0.182	0.111	-0.033	0.413	-0.033	0.19	-0.26	-0.04	-0.49$
Met	49	-0.105	0.237	-0.133	0.182	-0.13	0.187	-0.13	0.33	-0.14	-0.16	0.24
Pro	43	-0.356	0.009$	-0.417	0.007$	-0.338	0.013	-0.338	0.017	0.41$	0.22	0.29
Ser UCN	29	-0.106	0.292	-0.112	0.282	-0.077	0.345	-0.077	0.353	-0.03	-0.32	-0.01
Thr	34	-0.057	0.375	-0.016	0.464	-0.052	0.385	-0.052	0.492	0.15	0.21	0.09
Trp	49	0.176	0.113	0.182	0.105	0.179	0.109	0.179	0.057	-0.34	0.07	-0.10
Tyr	37	-0.591	0.0001$	-0.589	0.0001$	-0.587	0.0001$	-0.587	0.0001$	0.30	-0.25	-0.36
Unprocessed
Arg	49	-0.11	0.227	-0.048	0.37	-0.073	0.308	-0.073	0.4	0.38$	-0.18	0.26
Asn	49	-0.387	0.003$	-0.308	0.015	-0.354	0.005	-0.354	0.02	0.07	-0.33	0.23
Cys	48	0.091	0.268	0.018	0.451	-0.094	0.263	-0.094	0.148	0.26	0.28	-0.29
Gly	46	0.027	0.429	0.063	0.339	0.044	0.387	0.044	0.377	0.27	-0.24	0.12
His	48	0.027	0.427	0.032	0.416	-0.031	0.418	-0.031	0.433	0.04	0.02	0.1
Lys	20	0.093	0.349	0.084	0.363	0.126	0.298	0.126	0.158	0.22	0.13	-0.09
Phe	44	-0.143	0.178	-0.208	0.088	-0.214	0.081	-0.214	0.096	0.27	-0.12	-0.28
Val	46	0.023	0.441	-0.065	0.334	0.165	0.137	0.165	0.304	0.24	0.10	-0.2
Leu CUN	6	0.84	0.018	0.3	0.282	0.235	0.327	0.235	0.5	0.49$	n.d.	0.47$
Leu UUR	18	-0.059	0.407	-0.28	0.13	0.09	0.361	0.09	0.214	0.38$	0.12	0.18
Ser AGY	49	-0.029	0.42	-0.122	0.199	-0.062	0.335	-0.062	0.171	0.01	0.04	0.17
		χ2		χ2		χ2		χ2
Processed		51.82	0.0003	55.56	0.00009	52.75	0.0003	48.23	0.0010
Unprocessed		37.60	0.0203	39.48	0.01243	34.69	0.0417	33.28	0.0581
All		89.42	0.00006	95.04	0.00001	87.45	0.0001	81.51	0.0005

Correlations are for homologous tRNAs from 49 primate genomes, but exclude antisense tRNAs with non-symmetric anticodons (see text for explanations). Misacylation potentials are deduced from TFAM's output, as shown for human mitochondrial tRNAs in Table 2. The structural component of the COVE index from tRNAscan-SE estimates cloverleaf stability. For antisense tRNAs, residual COVE is the residual from the regression of antisense COVE with corresponding sense COVE. Both parametric Pearson (r) and non-parametric Spearman rank (rs) correlation coefficients and their statistical one sided significances are indicated for antisense tRNAs. S-A indicates parametric correlations between properties of sense and antisense tRNAs (COVE for correlations between cloverleaf stabilities, TFAM for correlations between misacylation potentials). Bold indicates statistical significance at P < 0.05 according to the working hypothesis. $ indicates that the correlation is significant at P < 0.05 after Bonferroni's adjustment of P's for multiple tests, asterisks indicate P < 0.05 after adjusting according to the Benjamini-Hochberg method, but not Bonferroni's. The last three rows indicate the statistics and P values after combining tests in that column according to Fisher's method for combining P values, separately for processed and unprocessed antisense tRNAs, and for all tRNAs.

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ISSN: 1745-6150

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