Principal Component Analysis (Brassicaceae)

Knowledge graph centered on Principal Component Analysis (Brassicaceae) with 74 nodes and 170 connections. Top connected: Ligusticum porteri, Atriplex canescens, phenological mismatch, Bacteria, elevational gradients.

Method synopsis

Genomic sequencing and demographic modeling using GADMA2 to estimate historical gene flow patterns and migration rates between populations across elevational gradients.

Synthesized from method descriptions across 7 papers 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 — Adaptation and gene flow are insufficient to rescue a montane plant under climate change (2025), Science. Implementations in other papers (listed below) may differ.

1. Conduct genomic analysis for gene flow estimation
   Extracted DNA from 95 accessions across three elevational transects and used Illumina NextSeq 500 platform to generate low-coverage sequence data. Applied GADMA2 software with moments engine to model demographic history and gene flow patterns
   Quantities: 95 accessions across 3 transects, with 2.1x average coverageDuration: Genomic data collection and analysis period not specifiedConditions: Laboratory conditions for DNA extraction and sequencing
   Equipment: Illumina NextSeq 500 platform, GADMA2 software, DNA extraction equipment

Typical Equipment

• Illumina NextSeq 500 platform
• GADMA2 software

Output Measurements

• gene flow rates
• migration patterns
• demographic history

Papers Using This Protocol (7)

Species Studied With This Protocol