Differences in molecular evolutionary rates among microRNAs in the human and chimpanzee genomes

Santpere, Gabriel; Lopez-Valenzuela, Maria; Petit-Marty, Natalia; Navarro, Arcadi; Espinosa-Parrilla, Yolanda

doi:10.1186/s12864-016-2863-3

BMC Genomics

Table 1 Substitution rates in miRNA categories

From: Differences in molecular evolutionary rates among microRNAs in the human and chimpanzee genomes

							Substitution rates
1,214 miRNA			miRNAs	Effective Length	Subs. Human	Subs. Chimp	miRNAs Human (sd)	miRNAs Chimp (sd)	Flank. Human (sd)	Flank. Chimpanzee (sd)
840 Primate specific miRNAs	Cluster	Clustered	67	5558	32	39	0.0058 (0.0014)	0.007 (0.0016)	0.0077 (0.0011)	0.0094 (0.0022)
	Cluster	Non-clustered	773	62048	341	394	0.0055 (0.0003)	0.0063 (0.0005)	0.0065 (0.0003)	0.007 (0.0006)
	Copies	Multiple	73	6323	30	31	0.0047 (0.0009)	0.0049 (0.0008)	0.0092 (0.0013)	0.0075 (0.0015)
	Copies	Single	767	61283	343	402	0.0056 (0.0003)	0.0066 (0.0005)	0.0064 (0.0003)	0.0072 (0.0006)
	Localization	Intergenic	200	16539	97	109	0.0059 (0.0007)	0.0066 (0.0008)	0.0082 (0.0008)	0.0093 (0.0013)
		Genic	516	40895	219	242	0.0054 (0.0004)	0.0059 (0.0004)	0.006 (0.0004)	0.006 (0.0006)
		Exon	47	4031	23	19	0.0057 (0.0011)	0.0047 (0.0015)	0.0038 (0.0011)	0.0068 (0.0038)
		intron	371	29243	160	180	0.0055 (0.0004)	0.0062 (0.0006)	0.0065 (0.0006)	0.0063 (0.0006)
374 conserved-beyond-primates mIRNAs	Cluster	Clustered	191	16615	26	40	0.0016 (0.0003)	0.0024 (0.0005)	0.0042 (0.0006)	0.0046 (0.0006)
	Cluster	Non-clustered	183	16264	21	35	0.0013 (0.0002)	0.0022 (0.0004)	0.0054 (0.0008)	0.0058 (0.0014)
	Copies	Multiple	226	199676	29	44	0.0015 (0.0003)	0.0022 (0.0004)	0.0049 (0.0007)	0.0056 (0.0014)
	Copies	Single	148	13203	18	31	0.0014 (0.0003)	0.0023 (0.0005)	0.0048 (0.0006)	0.0045 (0.0007)
	Localization	Intergenic	142	12400	23	42	0.0019 (0.0004)	0.0034 (0.0007)	0.0052 (0.0008)	0.0053 (0.0008)
		Genic	139	12415	15	21	0.0012 (0.0003)	0.0017 (0.0004)	0.0043 (0.0006)	0.0065 (0.0022)
		Exon	7	639	0	0	0 (0)	0 (0)	0.0054 (0.0023)	0.0036 (0.0021)
		Intron	110	9929	12	15	0.0012 (0.0003)	0.0015(0.0004)	0.0042 (0.0006)	0.0072 (0.0021)
Ancestral repeats			1479*100	119996	635.4	712.4	0.0053 (0.0002)	0.0059 (0.0003)	0 (0)	0 (0)
Cluster 14			40	3214	4	6	0.0012 (0.0006)	0.0019 (0.0014)	0.0032 (0.0013)	0.0054 (0.0015)
Cluster 19			28	2417	4	7	0.0017 (0.0007)	0.0029 (0.0011)	0.0103 (0.0021)	0.0085 (0.0026)

Effective length; effectively analysed sequence in base pairs (i.e. Neither gaps nor INDELs); Chimp, chimpanzee; Subs., substitutions in the indicated lineage; sd, standard deviations of substitution rates from 100 bootstraps for miRNAs and flanking regions (Flank.)

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ISSN: 1471-2164

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