Genetic analysis of callus formation in a diversity panel of 96 rose genotypes

authored by

Thi Hong Nhung Nguyen, Traud Winkelmann, Thomas Debener

Abstract

In a diversity panel of 96 rose genotypes, variation in the capacity to form calluses on leaf explants in vitro was investigated, and a genome-wide association study (GWAS) was performed to identify genetic factors associated with callus formation. Calluses were induced from wounded in vitro leaflets on two media differing in their plant growth regulator composition. Significant differences between genotypes were observed in callus size on the first callus-inducing medium (CIM1, containing 10.7 µM naphthylene acetic acid) using a 0–4 scale, as well as on a second callus-inducing medium (CIM2, containing 4.5 µM dichlorophenoxyacetic acid and 2 µM 6-(γ,γ-dimethylallylaminopurine)) with callus size scales of 0.82–4. GWAS utilizing the WagRhSNP 68K SNP array for callus size induced on either CIM1 or CIM2 enabled the identification of 26 and 13 significantly associated SNPs, respectively. Among these SNPs, we found the SNPs Rh12GR_12098_1092Q (uncharacterized gene) and RhMCRND_2903_1233Q in a gene encoding a pentatricopeptide repeat-containing protein were associated with callus size on CIM1, with large effects being observed between alleles. Two SNPs, RhK5_5473_763P (S-formylglutathione hydrolase) and Rh12GR_37799_568Q (polyglutamine binding protein, WW domain binding protein), were associated with callus size on CIM2 with large effect sizes. The markers associated with callus size on CIM1 form a large cluster on chromosome 3 and minor clusters on other chromosomes and provide the first preliminary indications of candidate genes responsible for the observed phenotypic variation.

Organisation(s)

Woody Plant and Propagation Physiology Section
Institute of Plant Genetics

External Organisation(s)

Vietnam Academy of Agricultural Sciences (Vaas)

Type

Article

Journal

Plant Cell, Tissue and Organ Culture

Volume

142

Pages

505-517

No. of pages

13

ISSN

0167-6857

Publication date

09.2020

Publication status

Published

Peer reviewed

Yes

ASJC Scopus subject areas

Horticulture

Electronic version(s)

https://doi.org/10.1007/s11240-020-01875-6 (Access: Open)