Universität zu Köln

Buehler, Jonas, Rishmawi, Louai, Pflugfelder, Daniel, Huber, Gregor ORCID: 0000-0002-1250-8165, Scharr, Hanno ORCID: 0000-0002-8555-6416, Huelskamp, Martin, Koornneef, Maarten ORCID: 0000-0002-7759-4869, Schurr, Ulrich and Jahnke, Siegfried (2015). phenoVein-A Tool for Leaf Vein Segmentation and Analysis. Plant Physiol., 169 (4). S. 2359 - 2371. ROCKVILLE: AMER SOC PLANT BIOLOGISTS. ISSN 1532-2548

Full text not available from this repository.

Abstract

Precise measurements of leaf vein traits are an important aspect of plant phenotyping for ecological and genetic research. Here, we present a powerful and user-friendly image analysis tool named phenoVein. It is dedicated to automated segmenting and analyzing of leaf veins in images acquired with different imaging modalities (microscope, macrophotography, etc.), including options for comfortable manual correction. Advanced image filtering emphasizes veins from the background and compensates for local brightness inhomogeneities. The most important traits being calculated are total vein length, vein density, piecewise vein lengths and widths, areole area, and skeleton graph statistics, like the number of branching or ending points. For the determination of vein widths, a model-based vein edge estimation approach has been implemented. Validation was performed for the measurement of vein length, vein width, and vein density of Arabidopsis (Arabidopsis thaliana), proving the reliability of phenoVein. We demonstrate the power of phenoVein on a set of previously described vein structure mutants of Arabidopsis (hemivenata, ondulata3, and asymmetric leaves2-101) compared with wild-type accessions Columbia-0 and Landsberg erecta-0. phenoVein is freely available as open-source software.

Item Type:	Journal Article
Creators:	Creators Email ORCID ORCID Put Code Buehler, Jonas UNSPECIFIED UNSPECIFIED UNSPECIFIED Rishmawi, Louai UNSPECIFIED UNSPECIFIED UNSPECIFIED Pflugfelder, Daniel UNSPECIFIED UNSPECIFIED UNSPECIFIED Huber, Gregor UNSPECIFIED orcid.org/0000-0002-1250-8165 UNSPECIFIED Scharr, Hanno UNSPECIFIED orcid.org/0000-0002-8555-6416 UNSPECIFIED Huelskamp, Martin UNSPECIFIED UNSPECIFIED UNSPECIFIED Koornneef, Maarten UNSPECIFIED orcid.org/0000-0002-7759-4869 UNSPECIFIED Schurr, Ulrich UNSPECIFIED UNSPECIFIED UNSPECIFIED Jahnke, Siegfried UNSPECIFIED UNSPECIFIED UNSPECIFIED
URN:	urn:nbn:de:hbz:38-384701
DOI:	10.1104/pp.15.00974
Journal or Publication Title:	Plant Physiol.
Volume:	169
Number:	4
Page Range:	S. 2359 - 2371
Date:	2015
Publisher:	AMER SOC PLANT BIOLOGISTS
Place of Publication:	ROCKVILLE
ISSN:	1532-2548
Language:	English
Faculty:	Faculty of Mathematics and Natural Sciences
Divisions:	Faculty of Mathematics and Natural Sciences > Department of Biology > Botanical Institute
Subjects:	no entry
Uncontrolled Keywords:	Keywords Language ARABIDOPSIS-THALIANA; VENATION PATTERNS; GENE; DENSITY; VASCULATURE; EVOLUTION; ANATOMY; ENCODES; LAMINA; LENGTH Multiple languages Plant Sciences Multiple languages
Refereed:	Yes
URI:	http://kups.ub.uni-koeln.de/id/eprint/38470