Abstract Detail



Revolutionizing systematics: Herbaria in the Genomics Age

Beck, James [1], Jordon-Thaden, Ingrid [2], Rushworth, Catherine [3], Windham, Michael [4], Diaz, Nicolas [5], Cantley, Jason [6], Martine, Christopher [7], Rothfels, Carl [3].

I fall to pieces: RADseq techniques can be applied to herbarium-derived DNAs of varying quality.

Although herbarium genomics studies are beginning to include restriction site-associated DNA (RADseq) techniques, concerns remain regarding the link between herbarium DNA degradation and data recovery.  This is particularly true for RADseq, since highly-sheared DNAs could include relatively few intact fragments flanked by appropriate cut sites.  Here we apply a basic double-digest restriction-site associated DNA Sequencing (ddRADseq) protocol to multiplexed samples from four genera (Boechera, Draba, Ilex, and Solidago).  Herbarium-derived DNAs comprised 60% of the sample set, spanning collection dates from 1883-2014.  We demonstrate that RADseq is effective for generating large phylogenetically informative datasets from herbarium specimens, and the relationship between specimen age, DNA degradation, and locus recovery is presented.  The potential for a cost-effective RADseq protocol for sample sets comprising multiple lineages and tissue types is discussed.


1 - Wichita State University, Biology, 1845 Fairmount, Box 26, Wichita, KS, 67260, United States
2 - University of Wisconsin, Department of Botany, 430 Lincoln Drive, Madison, WI, 53706
3 - University of California, Berkeley, University and Jepson Herbaria and Department of Integrative Biology, Berkeley, CA, 94720, USA
4 - Duke University, Department Of Biology, Box 90338, Durham, NC, 27708, United States
5 - Portland State University, Department of Biology, 1719 SW 10th Avenue, Portland, OR, 97201, USA
6 - San Francisco State University, Department of Biology, 1600 Holloway Avenue, San Francisco, CA, 94132, USA
7 - Bucknell University, Department of Biology, 1 Dent Drive, Lewisburg, PA, 17837, USA

Keywords:
herbarium
degraded DNA
RADseq
Phylogenomics
Draba
Solidago
Ilex
Boechera.

Presentation Type: Colloquium Presentations
Number:
Abstract ID:233
Candidate for Awards:None


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