Isolating phyllotactic patterns embedded in the secondary growth of sweet cherry (Prunus avium L.) using magnetic resonance imaging

Mitchell Eithun; James Larson; Gregory Lang; Daniel H Chitwood; Elizabeth Munch

doi:10.1186/s13007-019-0496-7

Isolating phyllotactic patterns embedded in the secondary growth of sweet cherry (Prunus avium L.) using magnetic resonance imaging

Plant Methods. 2019 Oct 4:15:111. doi: 10.1186/s13007-019-0496-7. eCollection 2019.

Authors

Mitchell Eithun¹, James Larson², Gregory Lang², Daniel H Chitwood^{1

2}, Elizabeth Munch^{1

3}

Affiliations

¹ 1Department of Computational Mathematics, Science and Engineering, Michigan State University, East Lansing, MI 48824 USA.
² 2Department of Horticulture, Michigan State University, East Lansing, MI 48824 USA.
³ 3Department of Mathematics, Michigan State University, East Lansing, MI 48824 USA.

Abstract

Background: Epicormic branches arise from dormant buds patterned during the growth of previous years. Dormant epicormic buds remain just below the surface of trees, pushed outward from the pith during secondary growth, but maintain vascular connections. Epicormic buds can be activated to elongate into a new shoot, either through natural processes or horticultural intervention, to potentially rejuvenate orchards and restructure tree architecture. Because epicormic structures are embedded within secondary growth, tomographic approaches are a useful method to study them and understand their development.

Results: We apply techniques from image processing to determine the locations of epicormic vascular traces embedded within secondary growth of sweet cherry (Prunus avium L.), revealing the juvenile phyllotactic pattern in the trunk of an adult tree. Techniques include the flood fill algorithm to find the pith of the tree, edge detection to approximate the radius, and a conversion to polar coordinates to threshold and segment phyllotactic features. Intensity values from magnetic resonance imaging (MRI) of the trunk are projected onto the surface of a perfect cylinder to find the locations of traces in the "boundary image". Mathematical phyllotaxy provides a means to capture the patterns in the boundary image by modeling phyllotactic parameters. Our cherry tree specimen has the conspicuous parastichy pair (2,3), phyllotactic fraction 2/5, and divergence angle of approximately 143°.

Conclusions: The methods described provide a framework not only for studying phyllotaxy, but also for processing of volumetric image data in plants. Our results have practical implications for orchard rejuvenation and directed approaches to influence tree architecture. The study of epicormic structures, which are hidden within secondary growth, using tomographic methods also opens the possibility of studying genetic and environmental influences such structures.

Keywords: Magnetic resonance imaging; Parastichy; Phyllotaxy; Sweet cherry; Thresholding.

Associated data

figshare/10.6084/m9.figshare.7409843