Mitochondrial and Nuclear RAD Sequences for Calandrella Larks

Featuring mitochondrial cytochrome b (cytb) and nuclear Restriction-site Associated DNA (RAD) sequences from all species in the avian genus Calandrella. It includes cytb data from 21 of the 22 recognised subspecies, used to analyze phylogenetic relationships and compare nuclear and mitochondrial markers. The research suggests the genus requires taxonomic revision due to findings of paraphyletic species and cryptic taxa.

Use Cases

• Compare phylogenetic signals from mitochondrial cytochrome b (cytb) and nuclear RAD sequences across Calandrella species.
• Analyze genetic divergences within species like C. brachydactyla and C. cinerea using cytb data from 21 subspecies.
• Evaluate the reliability of SNAPP coalescence analyses on RAD data with and without an outgroup for phylogenetic inference.
• Assess the utility of degraded museum samples for RAD-based phylogenetic studies following specific bioinformatic treatment.

Strengths

• Includes cytb data from 21 of the 22 recognised Calandrella subspecies, providing broad taxonomic coverage.
• Combines two genetic data types: mitochondrial cytochrome b and nuclear RAD sequences for comparative analysis.
• Data supports findings of deep genetic divergences and paraphyletic species, indicating high phylogenetic informativeness.

Limitations

• The specific number of sequence rows, columns, and file sizes are not provided in the input.
• RAD data was analyzed for a smaller number of taxa compared to the cytb data, limiting direct comprehensive comparisons.
• Coalescence analyses of RAD data produced two conflicting topologies with equally strong support, indicating unresolved phylogenetic relationships.

Provenance

Source

Author: Martin Stervander. Platform: Dryad.

Collection Method

Genetic sequencing of mitochondrial cytochrome b and nuclear Restriction-site Associated DNA (RAD) from Calandrella lark specimens, including museum samples.

Freshness

2019-09-21

Geography

Eurasia and Africa (the distribution range of the genus Calandrella).