Fast neutron-induced structural rearrangements at a soybean NAP1 locus result in gnarled trichomes

Benjamin W. Campbell, Anna N. Hofstad, Suma Sreekanta, Fengli Fu, Thomas J Y Kono, Jamie A. O’Rourke, Carroll P. Vance, Gary J. Muehlbauer, Robert M. Stupar

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19 Scopus citations

Abstract

Key message: Three adjacent and distinct sequence rearrangements were identified at a NAP1 locus in a soybean mutant. Genetic dissection and validation revealed the function of this gene in soybean trichome development. Abstract: A soybean (Glycine max (L.) Merr.) gnarled trichome mutant, exhibiting stunted trichomes compared to wild-type, was identified in a fast neutron mutant population. Genetic mapping using whole genome sequencing-based bulked segregant analysis identified a 26.6 megabase interval on chromosome 20 that co-segregated with the phenotype. Comparative genomic hybridization analysis of the mutant indicated that the chromosome 20 interval included a small structural variant within the coding region of a soybean ortholog (Glyma.20G019300) of Arabidopsis Nck-Associated Protein 1 (NAP1), a regulator of actin nucleation during trichome morphogenesis. Sequence analysis of the candidate allele revealed multiple rearrangements within the coding region, including two deletions (approximately 1–2 kb each), a translocation, and an inversion. Further analyses revealed that the mutant allele perfectly co-segregated with the phenotype, and a wild-type soybean NAP1 transgene functionally complemented an Arabidopsis nap1 mutant. In addition, mapping and exon sequencing of NAP1 in a spontaneous soybean gnarled trichome mutant (T31) identified a frame shift mutation resulting in a truncation of the coding region. These data indicate that the soybean NAP1 gene is essential for proper trichome development and show the utility of the soybean fast neutron population for forward genetic approaches for identifying genes.

Original languageEnglish (US)
Pages (from-to)1725-1738
Number of pages14
JournalTheoretical and Applied Genetics
Volume129
Issue number9
DOIs
StatePublished - Sep 1 2016

Bibliographical note

Funding Information:
The authors are grateful to Dan Szymanski for providing seed for the Arabidopsis grl-4 mutant, Yung-Tsi Bolon and Jeff Roessler for early identification of the soybean gnarled mutant, Bruna Bucciarelli for assisting with the RNA-seq experiments, and both Junqi Liu and Jean-Michel Michno for their advice regarding the GmNAP1 construct creation. The authors acknowledge the Minnesota Supercomputing Institute (MSI) at the University of Minnesota for providing resources that contributed to the research results reported within this paper. URL: http://www.msi.umn.edu . Microscopy imaging and analysis was performed at the University Imaging Centers, University of Minnesota. The authors would also like to thank the Minnesota Soybean Research and Promotion Council, United Soybean Board, and the National Science Foundation for their help and support. We would also like to thank the National Science Foundation for supporting BWC through the Graduate Research Fellowship Program (NSF-GRFP).

Publisher Copyright:
© 2016, The Author(s).

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