Data and R scripts from: Using conservation genetics to prioritise management options for an endangered songbird

Genetic data can be highly informative for answering questions relevant to practical conservation efforts but remain one of the most neglected aspects of species recovery plans. Framing genetic questions with reference to practical and tractable conservation objectives can help bypass this limitation of the application of genetics in conservation. Using a single-nucleotide polymorphism dataset from reduced-representation sequencing (DArTSeq), we conducted a genetic assessment of remnant populations of the endangered forty-spotted pardalote (Pardalotus quadragintus), a songbird endemic to Tasmania, Australia. Our objectives were to inform strategies for conservation of genetic diversity in the species and estimate effective population sizes and patterns of inter-population movement to identify management units relevant to population conservation and habitat restoration. We show population genetic structure and identify two small populations on mainland Tasmania as ‘satellites’ of larger ..., We sampled nestlings and adult birds between 2012 and 2019. Nestling samples were collected during nest monitoring for other studies (e.g Edworthy et al. 2019; Alves et al. 2020) and adult birds were captured using mist-nets. To ensure the same individual was not resampled, we banded all birds using bands supplied by the Australian Bird and Bat Banding Scheme.  We collected blood using brachial venepuncture in accordance with guidelines approved by Australian National University Animal Ethics Permits 2012/34 and A2017/38 and Tasmanian Government Scientific Permits TFA13956, TFA14295, and TFA18255. Blood was stored either in 70% ethanol or on FTA paper (WhatmanTM). 
DNA extraction and single nucleotide polymorphism (SNP) genotyping were performed by Diversity Arrays Technology Pty. Ltd. (DArT; Canberra, Australia; https://www.diversityarrays.com/), using DartSeq™ protocols, which are independent from reference genome sequence availability (Jaccoud et al. 2001; Kilian et al. 2012). DartSe..., Excel and R.