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Genomic and Genetic Resources and Rose Biology and Breeding
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Genomic and Genetic Resources and Rose Biology and Breeding

A special issue of Genes (ISSN 2073-4425). This special issue belongs to the section "Plant Genetics and Genomics".

Deadline for manuscript submissions: closed (15 September 2023) | Viewed by 11541

Special Issue Editor

Dr. Mohammed Bendahmane

E-Mail Website
Guest Editor
Reproduction et Développement des Plantes Laboratory-INRAE, École Normale Supérieure de Lyon, Lyon, France
Interests: flower; development; morphogenesis; molecular genetics; genomics; plant biotechnology; Rosa sp.; Arabidopsis

Special Issue Information

Dear Colleagues,

Roses have high symbolic value and great cultural significance in different societies around the world. Several characteristics of the rose, such as the double flower, recurrent flowering, flower color, and scent, are also of great economic importance. In recent decades, a number of molecular, genomic, genetic, and biotechnological resources have been generated for the rose. The availability of such resources strengthens fundamental and applied research on Rosa sp., allowing it to become an original model organism, especially for Rosaceae and for ornamental woody species. The objective of this Special Issue, "Genomic and Genetic Resources and Rose Biology and Breeding", is to present cutting-edge achievements in rose biology to a large readership, from academia to industry.

Contributions are welcome on original fundamental and applied scientific research in the fields of rose developmental biology, genomics, genetics, breeding, and biotechnology, as well as advances in response to biotic and abiotic stresses.

Dr. Mohammed Bendahmane
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Genes is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • Rosa sp.
  • biology
  • molecular
  • genomics
  • genetics
  • traits
  • biotechnology
  • pathology
  • stress response
  • breeding

Published Papers (5 papers)

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Research

15 pages, 3755 KiB  
Article
Protein Kinase RhCIPK6 Promotes Petal Senescence in Response to Ethylene in Rose (Rosa Hybrida)
by Yanqing Wu, Lanxin Zuo, Yanxing Ma, Yunhe Jiang, Junping Gao, Jun Tao and Changxi Chen
Genes 2022, 13(11), 1989; https://0-doi-org.brum.beds.ac.uk/10.3390/genes13111989 - 31 Oct 2022
Cited by 4 | Viewed by 1839
Abstract
Cultivated roses have the largest global market share among ornamental crops. Postharvest release of ethylene is the main cause of accelerated senescence and decline in rose flower quality. To understand the molecular mechanism of ethylene-induced rose petal senescence, we analyzed the transcriptome of [...] Read more.
Cultivated roses have the largest global market share among ornamental crops. Postharvest release of ethylene is the main cause of accelerated senescence and decline in rose flower quality. To understand the molecular mechanism of ethylene-induced rose petal senescence, we analyzed the transcriptome of rose petals during natural senescence as well as with ethylene treatment. A large number of differentially expressed genes (DEGs) were observed between developmental senescence and the ethylene-induced process. We identified 1207 upregulated genes in the ethylene-induced senescence process, including 82 transcription factors and 48 protein kinases. Gene Ontology enrichment analysis showed that ethylene-induced senescence was closely related to stress, dehydration, and redox reactions. We identified a calcineurin B-like protein (CBL) interacting protein kinase (CIPK) family gene in Rosa hybrida, RhCIPK6, that was regulated by age and ethylene induction. Reducing RhCIPK6 expression through virus-induced gene silencing significantly delayed petal senescence, indicating that RhCIPK6 mediates petal senescence. In the RhCIPK6-silenced petals, several senescence associated genes (SAGs) and transcription factor genes were downregulated compared with controls. We also determined that RhCIPK6 directly binds calcineurin B-like protein 3 (RhCBL3). Our work thus offers new insights into the function of CIPKs in petal senescence and provides a genetic resource for extending rose vase life. Full article
(This article belongs to the Special Issue Genomic and Genetic Resources and Rose Biology and Breeding)
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13 pages, 3337 KiB  
Article
An Aux/IAA Family Member, RhIAA14, Involved in Ethylene-Inhibited Petal Expansion in Rose (Rosa hybrida)
by Yangchao Jia, Changxi Chen, Feifei Gong, Weichan Jin, Hao Zhang, Suping Qu, Nan Ma, Yunhe Jiang, Junping Gao and Xiaoming Sun
Genes 2022, 13(6), 1041; https://0-doi-org.brum.beds.ac.uk/10.3390/genes13061041 - 10 Jun 2022
Cited by 4 | Viewed by 1973
Abstract
Flower size, a primary agronomic trait in breeding of ornamental plants, is largely determined by petal expansion. Generally, ethylene acts as an inhibitor of petal expansion, but its effect is restricted by unknown developmental cues. In this study, we found that the critical [...] Read more.
Flower size, a primary agronomic trait in breeding of ornamental plants, is largely determined by petal expansion. Generally, ethylene acts as an inhibitor of petal expansion, but its effect is restricted by unknown developmental cues. In this study, we found that the critical node of ethylene-inhibited petal expansion is between stages 1 and 2 of rose flower opening. To uncover the underlying regulatory mechanism, we carried out a comparative RNA-seq analysis. Differentially expressed genes (DEGs) involved in auxin-signaling pathways were enriched. Therefore, we identified an auxin/indole-3-acetic acid (Aux/IAA) family gene, RhIAA14, whose expression was development-specifically repressed by ethylene. The silencing of RhIAA14 reduced cell expansion, resulting in diminished petal expansion and flower size. In addition, the expressions of cell-expansion-related genes, including RhXTH6, RhCesA2, RhPIP2;1, and RhEXPA8, were significantly downregulated following RhIAA14 silencing. Our results reveal an Aux/IAA that serves as a key player in orchestrating petal expansion and ultimately contributes to flower size, which provides new insights into ethylene-modulated flower opening and the function of the Aux/IAA transcription regulator. Full article
(This article belongs to the Special Issue Genomic and Genetic Resources and Rose Biology and Breeding)
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22 pages, 6053 KiB  
Article
Morphological and Molecular Analyses of the Interaction between Rosa multiflora and Podosphaera pannosa
by Ying Bao, Xue Zhang, Xiaoxiang Sun, Manzhu Bao and Yuanyuan Wang
Genes 2022, 13(6), 1003; https://0-doi-org.brum.beds.ac.uk/10.3390/genes13061003 - 02 Jun 2022
Cited by 1 | Viewed by 1765
Abstract
Powdery mildew disease caused by Podosphaerapannosa is the most widespread disease in global cut-rose production, as well as a major disease in garden and pot roses. In this study, the powdery mildew resistance of different wild rose varieties was evaluated. Rose varieties [...] Read more.
Powdery mildew disease caused by Podosphaerapannosa is the most widespread disease in global cut-rose production, as well as a major disease in garden and pot roses. In this study, the powdery mildew resistance of different wild rose varieties was evaluated. Rose varieties with high resistance and high sensitivity were used for cytological observation and transcriptome and expression profile analyses to study changes at the morphological and molecular levels during the interaction between Rosa multiflora and P. pannosa. There were significant differences in powdery mildew resistance among three R. multiflora plants; R. multiflora ‘13’ had high resistance, while R. multiflora ‘4’ and ‘1’ had high susceptibility. Cytological observations showed that in susceptible plants, 96 and 144 h after inoculation, hyphae were observed in infected leaves; hyphae infected the leaf tissue through the stoma of the lower epidermis, while papillae were formed on the upper epidermis of susceptible leaf tissue. Gene ontology enrichment analysis showed that the differentially expressed genes that were significantly enriched in biological process functions were related to the secondary metabolic process, the most significantly enriched cellular component function was cell wall, and the most significantly enriched molecular function was chitin binding. Changes in the transcript levels of important defense-related genes were analyzed. The results showed that chitinase may have played an important role in the interactions between resistant R. multiflora and P. pannosa. Jasmonic acid and ethylene (JA/ET) signaling pathways might be triggered in the interaction between susceptible R. multiflora and P. pannosa. In the resistant R. multiflora, the salicylic acid (SA) signaling pathway was induced earlier. Between susceptible plants and resistant plants, key phenylpropanoid pathway genes were induced and upregulated after P. pannosa inoculation, demonstrating that the phenylpropanoid pathway and secondary metabolites may play important and active roles in R. multiflora defense against powdery mildew infection. Full article
(This article belongs to the Special Issue Genomic and Genetic Resources and Rose Biology and Breeding)
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18 pages, 3400 KiB  
Article
Comprehensive Genome-Wide Analysis of Histone Acetylation Genes in Roses and Expression Analyses in Response to Heat Stress
by Quanshu Wu, Qiuyue Huang, Huilin Guan, Xiaoni Zhang, Manzhu Bao, Mohammed Bendahmane and Xiaopeng Fu
Genes 2022, 13(6), 980; https://0-doi-org.brum.beds.ac.uk/10.3390/genes13060980 - 30 May 2022
Cited by 3 | Viewed by 2025
Abstract
Roses have high economic values as garden plants and for cut-flower and cosmetics industries. The growth and development of rose plants is affected by exposure to high temperature. Histone acetylation plays an important role in plant development and responses to various stresses. It [...] Read more.
Roses have high economic values as garden plants and for cut-flower and cosmetics industries. The growth and development of rose plants is affected by exposure to high temperature. Histone acetylation plays an important role in plant development and responses to various stresses. It is a dynamic and reversible process mediated by histone deacetylases (HDAC) and histone acetyltransferases (HAT). However, information on HDAC and HAT genes of roses is scarce. Here, 23 HDAC genes and 10 HAT genes were identified in the Rosa chinensis ‘Old Blush’ genome. Their gene structures, conserved motifs, physicochemical properties, phylogeny, and synteny were assessed. Analyses of the expression of HDAC and HAT genes using available RNAseq data showed that these genes exhibit different expression patterns in different organs of the three analyzed rose cultivars. After heat stress, while the expression of most HDAC genes tend to be down-regulated, that of HAT genes was up-regulated when rose plants were grown at high-temperature conditions. These data suggest that rose likely respond to high-temperature exposure via modification in histone acetylation, and, thus, paves the way to more studies in order to elucidate in roses the molecular mechanisms underlying rose plants development and flowering. Full article
(This article belongs to the Special Issue Genomic and Genetic Resources and Rose Biology and Breeding)
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20 pages, 4664 KiB  
Article
Tissue-Specific Expression of the Terpene Synthase Family Genes in Rosa chinensis and Effect of Abiotic Stress Conditions
by Yuhang Yan, Mouliang Li, Xiaoni Zhang, Weilong Kong, Mohammed Bendahmane, Manzhu Bao and Xiaopeng Fu
Genes 2022, 13(3), 547; https://0-doi-org.brum.beds.ac.uk/10.3390/genes13030547 - 20 Mar 2022
Cited by 12 | Viewed by 3107
Abstract
Rose (Rosa chinensis) is one of the most famous ornamental plants worldwide, with a variety of colors and fragrances. Terpene synthases (TPSs) play critical roles in the biosynthesis of terpenes. In this work, we report a comprehensive study on the genome-wide [...] Read more.
Rose (Rosa chinensis) is one of the most famous ornamental plants worldwide, with a variety of colors and fragrances. Terpene synthases (TPSs) play critical roles in the biosynthesis of terpenes. In this work, we report a comprehensive study on the genome-wide identification and characterization of the TPS family in R. chinensis. We identified 49 TPS genes in the R. chinensis genome, and they were grouped into five subfamilies (TPS-a, TPS-b, TPS-c, TPS-g and TPS-e/f). Phylogenetics, gene structure and conserved motif analyses indicated that the RcTPS genes possessed relatively conserved gene structures and the RcTPS proteins contained relatively conserved motifs. Multiple putative cis-acting elements involved in the stress response were identified in the promoter region of RcTPS genes, suggesting that some could be regulated by stress. The expression profile of RcTPS genes showed that they were predominantly expressed in the petals of open flowers, pistils, leaves and roots. Under osmotic and heat stresses, the expression of most RcTPS genes was upregulated. These data provide a useful foundation for deciphering the functional roles of RcTPS genes during plant growth as well as addressing the link between terpene biosynthesis and abiotic stress responses in roses. Full article
(This article belongs to the Special Issue Genomic and Genetic Resources and Rose Biology and Breeding)
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