High-resolution genotyping and mapping of recombination and gene conversion in the protozoan Theileria parva using whole genome sequencingReportar como inadecuado




High-resolution genotyping and mapping of recombination and gene conversion in the protozoan Theileria parva using whole genome sequencing - Descarga este documento en PDF. Documentación en PDF para descargar gratis. Disponible también para leer online.

BMC Genomics

, 13:503

Eukaryote microbial genomics

Abstract

BackgroundTheileria parva is a tick-borne protozoan parasite, which causes East Coast Fever, a disease of cattle in sub-Saharan Africa. Like Plasmodium falciparum, the parasite undergoes a transient diploid life-cycle stage in the gut of the arthropod vector, which involves an obligate sexual cycle. As assessed using low-resolution VNTR markers, the crossover CO rate in T. parva is relatively high and has been reported to vary across different regions of the genome; non-crossovers NCOs and CO-associated gene conversions have not yet been characterised due to the lack of informative markers. To examine all recombination events at high marker resolution, we sequenced the haploid genomes of two parental strains, and two recombinant clones derived from ticks fed on cattle that had been simultaneously co-infected with two different parasite isolates.

ResultsBy comparing the genome sequences, we were able to genotype over 64 thousand SNP markers with an average spacing of 127 bp in the two progeny clones. Previously unrecognized COs in sub-telomeric regions were detected. About 50% of CO breakpoints were accompanied by gene conversion events. Such a high fraction of COs accompanied by gene conversions demonstrated the contributions of meiotic recombination to the diversity and evolutionary success of T. parva, as the process not only redistributed existing genetic variations, but also altered allelic frequencies. Compared to COs, NCOs were more frequently observed and more uniformly distributed across the genome. In both progeny clones, genomic regions with more SNP markers had a reduced frequency of COs or NCOs, suggesting that the sequence divergence between the parental strains was high enough to adversely affect recombination frequencies. Intra-species polymorphism analysis identified 81 loci as likely to be under selection in the sequenced genomes.

ConclusionsUsing whole genome sequencing of two recombinant clones and their parents, we generated maps of COs, NCOs, and CO-associated gene conversion events for T. parva. The data comprises one of the highest-resolution genome-wide analyses of the multiple outcomes of meiotic recombination for this pathogen. The study also demonstrates the usefulness of high throughput sequencing typing for detailed analysis of recombination in organisms in which conventional genetic analysis is technically difficult.

AbbreviationsCOCrossover

DSBDouble strand break

ECFEast coast fever

GS FLXGenome sequencer FLX

IGRIntergenic region

KbKilo base pairs

MbpMega base pairs

NCONon-crossover

SNPSingle nucleotide polymorphism

VNTRVariable number tandem repeat.

Electronic supplementary materialThe online version of this article doi:10.1186-1471-2164-13-503 contains supplementary material, which is available to authorized users.

Download fulltext PDF



Autor: SonalHenson - RichardPBishop - SubhashMorzaria - PaulRSpooner - RogerPelle - LucyPoveda - MartinEbeling - ErichKng - UlrichCerta -

Fuente: https://link.springer.com/







Documentos relacionados