Abstract Detail

Systematics Section/ASPT

Barrett, Craig [1], Sass, Chodon [2], Smith, Selena [3], Specht, Chelsea [4].

A target-capture approach to assessing deep relationships and support among major lineages of Zingiberales.

Zingiberales are a diverse order of monocot angiosperms with approximately 2,500 species.  Several taxa are economically important (bananas, ginger) and the order itself represents ecologically significant elements of tropical ecosystems globally.  The eight currently recognized families within Zingiberales display a high degree of morphological diversity, particularly in floral structure, and their relationships have historically presented a challenge to systematists.  Morphological and molecular studies over the past few decades have greatly advanced our understanding of the taxonomy and phylogenetic relationships within the Zingiberales.  To date, however, we still lack a highly supported phylogenetic hypothesis resolving the relationships among the eight families, in particular resolving the “deepest” divergences.  Recent phylogenetic analyses based on morphology and multilocus molecular data suggest Musaceae is sister to the remaining families in the order; a more recent analysis of 84 plastid genes and 15 representative taxa identified Heliconiaceae as sister to the remaining families, but suggested that support for deep relationships among families is tenuous.  To address the lack of robust, deep support for zingiberalean relationships, a capture-based approach was undertaken with the goal of generating a genome-scale dataset composed of complete plastomes and several single-copy nuclear loci across the order.  Probes were designed based on previously sequenced complete plastomes and nuclear transcriptomes after filtering for single-copy loci, repeat and low complexity regions, and GC content.  Probes were tiled onto Agilent microarray chips and hybridized with barcoded genomic DNA libraries from fifty taxa representing all eight families of Zingiberales.  Targeted regions were sequenced on an Illumina HiSeq 2500 to generate paired end reads of 100 bp in length.  Complete or nearly complete plastomes were recovered, along with numerous single-copy nuclear loci, for a total of approximately 300 kb of data; 150kb from plastomes, and 150kb from nuclear loci.  After data processing, assembly, and alignment, phylogenetic trees were constructed based on concatenation and multilocus coalescent approaches.  Resolution and support based on these phylogenomic data will be discussed in the context of morphology, development, and the rich fossil record of Zingiberales.

1 - California State University, Los Angeles, Biological Sciences, 5151 State University Dr, Los Angeles, CA, 90032, USA
2 - University of California, Berkeley, Departments of Plant and Microbial Biology & Integrative Biology, 111 Koshland Hall, MC 3102, Berkeley, CA, 94720, USA
3 - University of Michigan , Dept. of Earth & Environmental Sciences, 2534 CC Little Bldg, 1100 North University Ave, Ann Arbor, MI, 48109, USA
4 - University of California, Berkeley, Departments of Plant and Microbial Biology & Integrative Biology; University and Jepson Herbaria, 111 Koshland Hall, MC 3102, Berkeley, CA, 94720, USA

Keywords:
phylogenomics
gingers
Musaceae
Heliconiaceae
next generation sequencing
support.

Presentation Type: Oral Paper:Papers for Sections
Session: 34
Location: Evergreen/Grove
Date: Wednesday, July 30th, 2014
Time: 10:15 AM
Number: 34008
Abstract ID:217
Candidate for Awards:None