Putting the genome in insect phylogenomics

Research output: Contribution to journalReview article

Abstract

Next-generation sequencing technologies provide a substantial increase in the size of molecular phylogenetic datasets that can be obtained for studies of insect systematics. Several new genome reduction approaches are leveraging these technologies to generate large phylogenomic datasets: targeted amplicon sequencing, target capture, and transcriptome sequencing. Although cost effective, these approaches provide limited data for questions outside of phylogenetics. For many groups of insects, sequencing the entire genome at modest coverage is feasible. Using these genomic reads, an automated Target Restricted Assembly Method (aTRAM) can use the results of blast searches to assemble thousands of single copy ortholog genes across a group of interest. These locally assembled genes can then be compiled into very large phylogenomic datasets. These genomic libraries have the advantage in that they also contain reads from the mitochondrial genome and symbiont genomes, as well the entire insect genome, and can be leveraged for additional studies beyond phylogenetics.

Original languageEnglish (US)
Pages (from-to)111-117
Number of pages7
JournalCurrent Opinion in Insect Science
Volume36
DOIs
StatePublished - Dec 2019

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genome
insect
insects
phylogeny
phylogenetics
insect taxonomy
genomics
application coverage
genomic libraries
transcriptomics
symbionts
gene
symbiont
genes
cost
methodology

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Insect Science

Cite this

Putting the genome in insect phylogenomics. / Johnson, Kevin Paul.

In: Current Opinion in Insect Science, Vol. 36, 12.2019, p. 111-117.

Research output: Contribution to journalReview article

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