Shared transcriptional control and disparate gain and loss of aphid parasitism genes

Peter Thorpe, Carmen M. Escudero-Martinez, Peter J. A. Cock, Sebastian Eves-van den Akker (Lead / Corresponding author), Jorunn I. B. Bos (Lead / Corresponding author)

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Abstract

Aphids are a diverse group of taxa that contain agronomically important species, which vary in their host range and ability to infest crop plants. The genome evolution underlying agriculturally important aphid traits is not well understood. We generated draft genome assemblies for two aphid species: Myzus cerasi (black cherry aphid), and the cereal specialist Rhopalosiphum padi. Using a de novo gene prediction pipeline on both these, and three additional aphid genome assemblies (Acyrthosiphon pisum, D. noxia and M. persicae), we show that aphid genomes consistently encode similar gene numbers. We compare gene content, gene duplication, synteny, and putative effector repertoires between these five species to understand the genome evolution of globally important plant parasites. Aphid genomes show signs of relatively distant gene duplication, and substantial, relatively recent, gene birth. Putative effector repertoires, originating from duplicated and other loci have an unusual genomic organisation and evolutionary history. We identify a highly conserved effector-pair that is tightly physically-linked in the genomes of all aphid species tested. In R. padi, this effector pair is tightly transcriptionally-linked, and shares an unknown transcriptional control mechanism with a subset of approximately 50 other putative effectors and secretory proteins. This study extends our current knowledge on the evolution of aphid genomes and reveals evidence for an as of yet unknown shared control mechanism, which underlies effector expression, and ultimately plant parasitism.

Original languageEnglish
Pages (from-to)2716-2733
Number of pages18
JournalGenome Biology and Evolution
Volume10
Issue number10
Early online date25 Aug 2018
DOIs
Publication statusPublished - 1 Oct 2018

Fingerprint

Aphids
aphid
parasitism
Aphidoidea
genome
gene
Genome
Genes
Myzus cerasi
genes
genome assembly
Rhopalosiphum padi
gene duplication
Gene Duplication
Acyrthosiphon pisum
loss
Synteny
crop plant
host range
Host Specificity

Keywords

  • aphids
  • effectors
  • genome evolution
  • shared transcriptional control
  • horizontal gene transfer

Cite this

Thorpe, Peter ; Escudero-Martinez, Carmen M. ; Cock, Peter J. A. ; Eves-van den Akker, Sebastian ; Bos, Jorunn I. B. / Shared transcriptional control and disparate gain and loss of aphid parasitism genes. In: Genome Biology and Evolution. 2018 ; Vol. 10, No. 10. pp. 2716-2733.
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Thorpe, P, Escudero-Martinez, CM, Cock, PJA, Eves-van den Akker, S & Bos, JIB 2018, 'Shared transcriptional control and disparate gain and loss of aphid parasitism genes', Genome Biology and Evolution, vol. 10, no. 10, pp. 2716-2733. https://doi.org/10.1093/gbe/evy183

Shared transcriptional control and disparate gain and loss of aphid parasitism genes. / Thorpe, Peter; Escudero-Martinez, Carmen M.; Cock, Peter J. A.; Eves-van den Akker, Sebastian (Lead / Corresponding author); Bos, Jorunn I. B. (Lead / Corresponding author).

In: Genome Biology and Evolution, Vol. 10, No. 10, 01.10.2018, p. 2716-2733.

Research output: Contribution to journalArticle

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