Genetic structure of Trypanosoma cruziin Colombia revealed by a High-throughput Nuclear Multilocus Sequence Typing (nMLST) approach

Table 1 Parameters of genetic diversity of the 13 nuclear regions using a nMLST approach

Gene fragment	π^a	θ^b	Number of polymorphic sites	Genotypic diversity	Number of genotypes	Typing efficiency^c	Ratio of NS to SN changes^d
GPX	0.0897	0.20069	35	0.959	29	0.087	0.654
HMCOAR	0.00515	0.00828	16	0.792	11	0.736	0.659
PDH	0.00467	0.00713	20	0.766	14	0.833	0.127
GTP	0.02268	0.06233	38	0.941	24	0.163	0.223
STPP2	0.00439	0.00581	14	0.848	13	0.500	1.564
RHO1	0.01457	0.01656	26	0.959	28	0.771	1.759
SODA	0.00704	0.00979	19	0.893	14	0.377	0.427
SODB	0.01299	0.02177	28	0.763	8	0.208	0.369
LAP	0.00231	0.00290	7	0.424	6	0.857	0.0125
GPI	0.00001	0.00145	3	0.212	2	0.666	0.0698
LYT1	0.01722	0.02261	27	0.966	28	1.037	0.831
RB19	0.00873	0.00377	11	0.401	7	0.636	0.507
TR	0.00772	0.00357	10	0.383	7	0.700	1.352

^aπ is an index of nucleotide diversity. This measure is defined as the average number of nucleotide differences per site between any two DNA sequences chosen randomly from the sample population.
^bThe mutation parameter (θ) is defined as 4 Nm for autosomal loci of diploid organisms, where N is the effective population size (diploid individuals) and m is the neutral mutation rate (per gene or per base pair) per generation.
^cTyping efficiency is defined as the number of different genotypes described per polymorphic site.
^dSNPs in the coding region of a gene are of two types, synonymous (SN) and nonsynonymous (NS) SNPs. Synonymous SNPs do not affect the protein sequence while nonsynonymous SNPs change the amino acid sequence of protein.

ISSN: 2730-6844