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Gene Duplication and Gain in the Trematode Atriophallophorus Winterbourni Contributes to Adaptation to Parasitism

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Date 2021 Jan 23
PMID 33484570
Citations 5
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Abstract

Gene duplications and novel genes have been shown to play a major role in helminth adaptation to a parasitic lifestyle because they provide the novelty necessary for adaptation to a changing environment, such as living in multiple hosts. Here we present the de novo sequenced and annotated genome of the parasitic trematode Atriophallophorus winterbourni and its comparative genomic analysis to other major parasitic trematodes. First, we reconstructed the species phylogeny, and dated the split of A. winterbourni from the Opisthorchiata suborder to approximately 237.4 Ma (±120.4 Myr). We then addressed the question of which expanded gene families and gained genes are potentially involved in adaptation to parasitism. To do this, we used hierarchical orthologous groups to reconstruct three ancestral genomes on the phylogeny leading to A. winterbourni and performed a GO (Gene Ontology) enrichment analysis of the gene composition of each ancestral genome, allowing us to characterize the subsequent genomic changes. Out of the 11,499 genes in the A. winterbourni genome, as much as 24% have arisen through duplication events since the speciation of A. winterbourni from the Opisthorchiata, and as much as 31.9% appear to be novel, that is, newly acquired. We found 13 gene families in A. winterbourni to have had more than ten genes arising through these recent duplications; all of which have functions potentially relating to host behavioral manipulation, host tissue penetration, and hiding from host immunity through antigen presentation. We identified several families with genes evolving under positive selection. Our results provide a valuable resource for future studies on the genomic basis of adaptation to parasitism and point to specific candidate genes putatively involved in antagonistic host-parasite adaptation.

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References
1.
Zhang S, Zhuo L, Hahn M . AGOUTI: improving genome assembly and annotation using transcriptome data. Gigascience. 2016; 5(1):31. PMC: 4952227. DOI: 10.1186/s13742-016-0136-3. View

2.
Lively C . ADAPTATION BY A PARASITIC TREMATODE TO LOCAL POPULATIONS OF ITS SNAIL HOST. Evolution. 2017; 43(8):1663-1671. DOI: 10.1111/j.1558-5646.1989.tb02616.x. View

3.
Ambardar S, Gupta R, Trakroo D, Lal R, Vakhlu J . High Throughput Sequencing: An Overview of Sequencing Chemistry. Indian J Microbiol. 2016; 56(4):394-404. PMC: 5061697. DOI: 10.1007/s12088-016-0606-4. View

4.
Deutekom E, Vosseberg J, van Dam T, Snel B . Measuring the impact of gene prediction on gene loss estimates in Eukaryotes by quantifying falsely inferred absences. PLoS Comput Biol. 2019; 15(8):e1007301. PMC: 6736253. DOI: 10.1371/journal.pcbi.1007301. View

5.
Duarte J, Wall P, Edger P, Landherr L, Ma H, Pires J . Identification of shared single copy nuclear genes in Arabidopsis, Populus, Vitis and Oryza and their phylogenetic utility across various taxonomic levels. BMC Evol Biol. 2010; 10:61. PMC: 2848037. DOI: 10.1186/1471-2148-10-61. View