Dissecting the control of shoot development in grapevine: genetics and genomics identify potential regulators

Abstract

Background: Grapevine is a crop of major economic importance, yet little is known about the regulation of shoot development in grapevine or other perennial fruits crops. Here we combine genetic and genomic tools to identify candidate genes regulating shoot development in Vitis spp. Results: An F2 population from an interspecific cross between V. vinifera and V. riparia was phenotyped for shoot development traits, and three Quantitative Trait Loci (QTLs) were identified on linkage groups (LGs) 7, 14 and 18. Around 17% of the individuals exhibited a dwarfed phenotype. A transcriptomic study identified four candidate genes that were not expressed in dwarfed individuals and located within the confidence interval of the QTL on LG7. A deletion of 84,482 bp was identified in the genome of dwarfed plants, which included these four not expressed genes. One of these genes was VviCURLY LEAF (VviCLF), an orthologue of CLF, a regulator of shoot development in Arabidopsis thaliana. Conclusions:The phenotype of the dwarfed grapevine plants was similar to that of clf mutants of A. thaliana and orthologues of the known targets of CLF in A. thaliana were differentially expressed in the dwarfed plants. This suggests that CLF, a major developmental regulator in A. thaliana, also controls shoot development in grapevine.

Genome-wide Association Study for Yield and Yield-Related Traits in Diverse Blackgram Panel (Vigna mungo L. Hepper) Reveals Novel Putative Alleles for Future Breeding Programs

“…The enzymes encoded by genes found for QTLs of PHM were involved in controlling the plant height as supported by earlier studies of enzyme E3 ubiquitin-enzyme ligase MARCH1 in rice ( Hu et al, 2013 ), bZIP transcription factor 53 in soybean ( Ali et al, 2016 ), enzyme trichome birefringence-like six in Rice ( Gao et al, 2017 ), histone-lysine N-methyltransferase EZ2-like ( https://www.uniprot.org/uniprot/O23372 ), DELLA enzyme RGL1-like in Arabidopsis ( Serrano-Mislata et al, 2017 ), DEAD-box ATP-dependent RNA helicase 24 in rice ( Wang et al, 2016 ), probable WRKY transcription factor 23 in rice ( Cai et al, 2014 ), gibberellin 2-beta-dioxygenase two in Arabidopsis ( Rosin et al, 2003 ), transcription factor JAMYB-like in rice ( Zhang et al, 2017 ), acyl transferase four in rice ( Basu et al, 2017 ), tropinone reductase homolog ( Stead, 1989 ), in grapevine ( Guillaumie et al, 2020 ), steroid 5-alpha-reductase DET2 in soybean ( Huo et al, 2018 ), squamosa promoter-binding-like enzyme 14 in rice ( Lu et al, 2013 ), cytochrome P450 71D11 in cucumber ( Wang et al, 2017 ), pentatricopeptide repeat-containing enzyme At3g48810 in Arabidopsis ( Lee et al, 2019 ), and pentatricopeptide repeat-containing enzyme At1g31430 in Arabidopsis ( Lee et al, 2019 ).…”

Inheritance of Rootstock Effects in Avocado (Persea americana Mill.) cv. Hass

“…Besides quantifying rootstock and scion effects using quantitative genetic approaches, a more mechanistic understanding of the consequences of grafting is desirable by applying tools from the “omics” era ( Barazani et al, 2014 ; Wang et al, 2017 ; Guillaumie et al, 2020 ). Genotyping-by-sequencing ( Elshire et al, 2011 ; Cortés and Blair, 2018 ), re-sequencing ( Fuentes-Pardo and Ruzzante, 2017 ), RNAseq ( Jensen et al, 2012 ; Sun, 2012 ; Reeksting et al, 2016 ) and single-cell sequencing ( Tang et al, 2019 ) across different tissues of the grafted tree, including the graft interface ( Cookson et al, 2019 ), will enable understanding the genetic architecture of rootstock-mediated traits and the rootstock–scion interaction.…”

Behind the curtain of the compartmentalization process: Exploring how xylem vessel diameter impacts vascular pathogen resistance

“…Cabernet‐Sauvignon × Vitis riparia cv. Gloire de Montpellier (CS × RGM, Guillaumie et al, 2020). From this F2 progeny, 261 genotypes were previously characterized for xylem anatomy over 2 years, with highly contrasted phenotypes for D v distribution (unpublished data).…”