e-journal

Phylogenomics of polyploid Fothergilla (Hamamelidaceae)by RAD-tag based GBS—insights into species origin and effects of software pipelines

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Fothergilla (Hamamelidaceae) consists of Fothergilla gardenii (4x) from the coastal plains of the
southeastern USA, F. major (6x) from the piedmont and mountains of the same region, and a few allopatric diploid
populations of unknown taxonomic status. The objective of this study was to explore the relationships of the
polyploid species with the diploid plants. Genotyping by sequencing (GBS) was applied to generate genome-wide
molecular markers for phylogenetic and genetic structure analyses of 36 accessions of Fothergilla. Sanger
sequencing of three plastid and one nuclear regions provided data for comparison with GBS-based results.
Phylogenetic outcomes were compared using data from different sequencing runs and different software
workflows. The different data sets showed substantial differences in inferred phylogenies, but all supported a
genetically distinct 6x F. major and two lineages of the diploid populations closely associated with the 4x F. gardenii. We hypothesize that the 4x F. gardenii originated through hybridization between the Gulf coastal 2x and an extinct (or undiscovered) 2x lineage, followed by backcrosses to the Atlantic coastal 2x before chromosome doubling, and the 6x F. major also originated from the “extinct” 2x lineage. Alternative scenarios are possible but are not as well supported. The origins and divergence of the polyploid species likely occurred during the Pleistocene cycles of
glaciation, although fossil evidence indicates the genus might have existed for a much longer time with a wider past
distribution. Our study demonstrates the power of combining GBS data with Sanger sequencing in reconstructing
the evolutionary network of polyploid lineages.

Key words: Fothergilla, hybridization, illumina sequencing, phylogenomics, RAD-tag-based GBS, polyploidy.

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Informasi Detail

Judul Seri

J. Syst. Evol.

No. Panggil

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Penerbit

: Institute of Botany., 2015

Deskripsi Fisik

J. Syst. Evol. 53 (5): 432–447, 2015

Bahasa

English

ISBN/ISSN

doi: 10.1111/jse.121

Klasifikasi

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Tipe Isi

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Tipe Media

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Tipe Pembawa

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Edisi

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Subjek

BIOLOGI

Info Detail Spesifik

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Pernyataan Tanggungjawab

Wati/Agus

Versi lain/terkait

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