DOI: 10.5061/dryad.f1cb2
title: Data from: Rise of the machines – recommendations for ecologists when using next generation sequencing for microsatellite development.

description: 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 once the results of a partial genome run are obtained.
description: 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 FASTA format) from Roche 454 titanium GS-FLX machineBARCODE11.faSenecio madagascariensisShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE12.faLantana camaraShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE13.faAntechinus flavipesShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE14.faIsoodon obesulusShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE15.faMacrotis logotisShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE16.faPelecanus conspicillatusShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE18.faHolothuria scabraShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE19.faPetaurus brevicepsShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE20.faAssa darlingtoniShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE21.faNeophoca cinereaShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE22.faLeipoa ocellataShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE23.faAmphibolurus norrisiShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE24.faCtenotus atlasShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE25.faMustelus antarcticusShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE27.faGehyra variegataShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE29.faGehyra lazolliShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE30.faHydrophis spiralisShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE31.faPodocapus lawrenceiShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE35.faNyctophilus gouldiShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE34.faNyctophilus geoffroyiShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE32.faNgarawa dirgaShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE36.faAustrochiltonia sp "Elizabeth"Shotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE37.faunidentified hoverflyShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE39.faMicrodon mutabilisShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE40.faSepiadarium austrinumShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF41_MID1.fnaTriglochin proceraShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF42_MID2.fnaAustroplatypus incompertusShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF43_MID3.fnaPhalacrocorax fuscescensShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF44_MID4.fnaCristiceps australisShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF45_MID5.fnaBalaustium medicagoenseShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF46_MID6.fnaGallinula mortieriiShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF47_MID7.fnaEuperipatoides rowelliShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF48_MID8.fnaAquila audaxShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF50_MID10.fnaSantalum acuminatumShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF52.fnaEremiascincus richardsoniiShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF54.fnaGlaphyromorphus douglasiShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF55.fnaEpthianura albifronsShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF56.fnaCallitris verrucosaShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF57.fnaTriodia irritansShotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineAF58.fnaAustrochiltonia sp "northern"Shotgun data (in FASTA format) from Roche 454 titanium GS-FLX machineBARCODE38.fa