Data from: Rise of the machines – recommendations for ecologists when using next generation sequencing for microsatellite development. ...

• Main Authors: Gardner, Michael G, Fitch, Alison J, Bertozzi, Terry, Lowe, Andrew J
• Format: Dataset
• Language: English
• Published: Dryad 2011
• Subjects: Balaustium medicagoense; Sepiadarium austrinum; Baumea juncea; Lantana camara; Austrochiltonia sp "Elizabeth"; Neophoca cinerea; Necterosoma penicillatus; Petaurus breviceps; Epthianura albifrons; microsatellite development; Euperipatoides rowelli; Glaphyromorphus douglasi; Antechinus flavipes; Nyctophilus gouldi; Litoria aurea; Senecio pinnatifolius; Hemicordulia tau; Pelecanus conspicillatus; Mustelus antarcticus; Gehyra lazelli; Senecio madagascariensis; Triodia irritans; Genomics/Proteomics; Bothriocroton hydrosauri; Gallinula mortierii; Ischnura heterosticta; Bioinfomatics/Phyloinfomatics; Assa darlingtoni; Gahnia trifida; unidentified hoverfly; Austroplatypus incompertus; Microdon mutabilis; Holothuria scabra; Eremiascincus richardsonii; Phalacrocorax fuscescens; Hydrophis spiralis; Ngarawa dirga; Paratya australiensis; 454; Virola sebifera; Austrochiltonia sp "northern"; Drymodes brunneopygia; Macrotis lagotis; Leipoa ocellata; Next Generation Sequencing; Gehyra variegata; Isoodon obesulus; Nyctophilus geoffroyi; Callitris verrucosa; Triglochin procera; Antarc*; antarcticus
• Online Access: https://dx.doi.org/10.5061/dryad.f1cb2; https://datadryad.org/stash/dataset/doi:10.5061/dryad.f1cb2

Next generation sequencing (NGS) is revolutionizing molecular ecology by simplifying the development of molecular genetic markers, including microsatellites. Here we summarize the results of the large scale development of microsatellites for 54 non-model species using NGS and show there are clear differences amongst plants, invertebrates and vertebrates for the number and proportion of motif types recovered that are able to be utilised as markers. We highlight that the heterogeneity within each group is very large. Despite this variation, we provide an indication of what number of sequences and consequent proportion of a 454 run are required for the development of 40 designable, unique microsatellite loci for a typical molecular ecological study. Finally, to address the challenges of choosing loci from the vast array of microsatellite loci typically available from partial genome runs (average for this study, 2341 loci), we provide a microsatellite development flowchart as a procedural guide for application ... : Litoria aureaShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE1.faBaumea junceaShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE2.faGahnia trifidaShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE3.faDrymodes brunneopygiaShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE4.faVirola sebiferaShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE5.faBothriocroton hydrosauriShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE6.faParatya australiensisShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE7.faHemicordulia tauShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE8.faNecterosoma penicillatusShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE9.faIschnura hetersticktaShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE10.faSenecio pinnatifoliusShotgun data (in ...