ASTRAL species tree estimation (Pieridae)

Knowledge graph centered on ASTRAL species tree estimation (Pieridae) with 25 nodes and 86 connections. Top connected: Pekania pennanti, Lepidoptera, Drosophila melanogaster, Pieridae, Colias philodice eriphyle.

Method synopsis

Species-level phylogenetic reconstruction using thousands of single-copy orthologous genes with coalescent-based species tree estimation.

Synthesized from method descriptions across 1 paper using this protocol.

Procedure from a recent peer-reviewed implementation

Steps below were extracted from the most recent peer-reviewed implementation of this protocol in the corpus — Evidence for a single, ancient origin of a genus-wide alternative life history strategy (2023), Science Advances. Implementations in other papers (listed below) may differ.

1. Phylogenetic reconstruction
   Identified 4011 single-copy orthologous genes across species using BUSCO. Constructed gene trees and estimated species tree using ASTRAL. Used Zerene cesonia as outgroup for rooting. Applied strict filtering for single-copy genes and performed maximum likelihood estimation.
   Quantities: 4011 single-copy orthologous genes, 21 speciesDuration: Not specifiedConditions: Standard computational analysis
   Equipment: BUSCO, ASTRAL, maximum likelihood software

Typical Equipment

• BUSCO
• ASTRAL

Output Measurements

• species phylogeny
• gene trees
• divergence times

Papers Using This Protocol (1)

Species Studied With This Protocol

Places Where Used