Phylogenomic and biogeographic reconstruction of the Trichinella complex

Nature Communications
Pasi K KorhonenRobin B Gasser

Abstract

Trichinellosis is a globally important food-borne parasitic disease of humans caused by roundworms of the Trichinella complex. Extensive biological diversity is reflected in substantial ecological and genetic variability within and among Trichinella taxa, and major controversy surrounds the systematics of this complex. Here we report the sequencing and assembly of 16 draft genomes representing all 12 recognized Trichinella species and genotypes, define protein-coding gene sets and assess genetic differences among these taxa. Using thousands of shared single-copy orthologous gene sequences, we fully reconstruct, for the first time, a phylogeny and biogeography for the Trichinella complex, and show that encapsulated and non-encapsulated Trichinella taxa diverged from their most recent common ancestor ∼21 million years ago (mya), with taxon diversifications commencing ∼10-7 mya.

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Datasets Mentioned

BETA
BG520575
AAA20539.1
PRJNA257433
SRS906998
SRS908054
SRS908055
GEBM00000000
GECA00000000
GEBM01000000
GEBR01000000

Methods Mentioned

BETA
environmental stresses

Software Mentioned

Khmer
Trimmomatic
InterProScan
Velvet
BLASTp

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