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Genetics and Genomics in Horticultural Plants
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Genetics and Genomics in Horticultural Plants

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

Deadline for manuscript submissions: closed (20 January 2025) | Viewed by 3548

Special Issue Editor

Prof. Dr. Fei Chen

E-Mail Website
Guest Editor
College of Tropical Crops, Sanya Nanfan Research Institute, Hainan University, Haikou 570228, China
Interests: ornamental plants; flower development; color and fragrance; bioinformatics; genome sequencing
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

We are excited to announce a call for papers for our upcoming Special Issue titled "Genetics and Genomics in Horticultural Plants." This Special Issue aims to explore the latest advancements and innovations in the field of horticultural plant genetics and genomics, providing a comprehensive platform for researchers, scientists and practitioners to share their cutting-edge findings and methodologies.

Scope and Topics:

The Special Issue will cover a broad range of topics, including, but not limited to, the following:

- Genetic Diversity and Evolution: Studies on the genetic variation and evolutionary mechanisms in horticultural plants.

- Genomic Technologies and Methodologies: Innovative techniques and tools for genomic research, including sequencing technologies, bioinformatics approaches and computational tools.

- Functional Genomics: Insights into gene function and regulation, including transcriptomics, proteomics and metabolomics.

- Genetic Improvement and Breeding: Advances in plant breeding, including marker-assisted selection, genomic selection and gene editing technologies such as CRISPR/Cas9.

- Abiotic and Biotic Stress Responses: Genetic and genomic approaches to understanding and improving plant responses to environmental stresses and pathogens.

- Epigenetics: Studies on epigenetic modifications and their impact on plant development and adaptation.

- Systems Biology: Integrative approaches combining multi-omics data to elucidate complex traits and biological processes.

Submission Guidelines:

We welcome original research articles, reviews and perspectives that address significant scientific questions and contribute to the understanding of the genetic and genomic mechanisms in horticultural plants. Manuscripts should be prepared according to the journal's submission guidelines and submitted online through the journal's submission system.

We look forward to receiving your contributions and helping to advance the field of horticultural plant genetics and genomics.

For inquiries, please contact us.

Prof. Dr. Fei Chen
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

  • genetic diversity and evolution
  • genomic technologies and methodologies
  • functional genomics
  • genetic improvement and breeding
  • abiotic and biotic stress responses
  • epigenetics

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Further information on MDPI's Special Issue policies can be found here.

Published Papers (2 papers)

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Research

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17 pages, 12513 KiB  
Article
Comparative Analysis of Complete Chloroplast Genomes and Phylogenetic Relationships of 21 Sect. Camellia (Camellia L.) Plants
by Xu Xiao, Juyan Chen, Zhaohui Ran, Lang Huang and Zhi Li
Genes 2025, 16(1), 49; https://doi.org/10.3390/genes16010049 - 3 Jan 2025
Viewed by 924
Abstract
Background: Section Camellia is the most diverse group in the genus Camellia L., and this group of plants has a long history of cultivation in China as popular ornamental flowers and oil plants. Sect. Camellia plants present diverse morphological variations and complexity [...] Read more.
Background: Section Camellia is the most diverse group in the genus Camellia L., and this group of plants has a long history of cultivation in China as popular ornamental flowers and oil plants. Sect. Camellia plants present diverse morphological variations and complexity among species, resulting in uncertainty in the classification of species, which has resulted in a degree of inconvenience and confusion in the use of plant resources and research. Methods: Here, We sequenced and assembled the chloroplast genomes of 6 sect. Camellia and performed comparative chloroplast genome analysis and phylogenetic studies combined with 15 existing sect. Camellia plants. Results: The chloroplast genome of 21 species in sect. Camellia species were quadripartite with length of 156,587–157,068 bp base pairs (bp), and a highly conserved and moderately differentiated chloroplast genome arrangement. The 21 sect. Camellia chloroplast genomes were similar to those of angiosperms, with high consistency in gene number, gene content and gene structure. After the annotation process, we identified a total of 132 genes, specifically 87 sequences coding for proteins (CDS), 37 transfer RNA (tRNA) genes, and 8 ribosomal RNA (rRNA) genes. The ycf1 gene in 21 species of the sect. Camellia was present only in the small single-copy/inverted repeat of a (SSC/IRa) region. Sequence variation was greater in the large single-copy (LSC) region than in the IR region, and the majority of the protein-coding genes presented high codon preferences. The chloroplast genomes of 21 plant species exhibit relatively conserved SC (single copy region)/IR (inverted repeat region) boundaries. We detected a total of 2975 single sequence repeats (SSRs) as well as 833 dispersed nuclear elements (INEs). Among these SSRs, A/T repeats and AT/AT repeats dominated, while among INEs, forward repeats and palindromic repeats predominated. Codon usage frequencies were largely similar, with 30 high-frequency codons detected. Comparative analysis revealed five hotspot regions (rps16, psaJ, rpl33, rps8, and rpl16) and two gene intervals (atpH-atpI and petD-rpoA) in the cp genome, which can be used as potential molecular markers. In addition, the phylogenetic tree constructed from the chloroplast genome revealed that these 21 species and Camellia oleifera aggregated into a single branch, which was further subdivided into two evolutionarily independent sub-branches. Conclusions: It was confirmed that sect. Camellia and C. oleifera Abel are closely related in Camellia genus. These findings will enhance our knowledge of the sect. Camellia of plants, deepen our understanding of their genetic characteristics and phylogenetic pathways, and provide strong support for the scientific development and rational utilization of the plant resources of the sect. Camellia. Full article
(This article belongs to the Special Issue Genetics and Genomics in Horticultural Plants)
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Review

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24 pages, 1393 KiB  
Review
The Role of Female and Male Genes in Regulating Pollen Tube Guidance in Flowering Plants
by Siyuan Zheng, Feng Wang, Zehui Liu, Hongbin Zhang, Liangsheng Zhang and Dan Chen
Genes 2024, 15(11), 1367; https://doi.org/10.3390/genes15111367 - 24 Oct 2024
Viewed by 2186
Abstract
In flowering plants, fertilization is a complex process governed by precise communication between the male and female gametophytes. This review focuses on the roles of various female gametophyte cells—synergid, central, and egg cells—in facilitating pollen tube guidance and ensuring successful fertilization. Synergid cells [...] Read more.
In flowering plants, fertilization is a complex process governed by precise communication between the male and female gametophytes. This review focuses on the roles of various female gametophyte cells—synergid, central, and egg cells—in facilitating pollen tube guidance and ensuring successful fertilization. Synergid cells play a crucial role in attracting the pollen tube, while the central cell influences the direction of pollen tube growth, and the egg cell is responsible for preventing polyspermy, ensuring correct fertilization. The review also examines the role of the pollen tube in this communication, highlighting the mechanisms involved in its growth regulation, including the importance of pollen tube receptors, signal transduction pathways, cell wall dynamics, and ion homeostasis. The Ca2+ concentration gradient is identified as a key factor in guiding pollen tube growth toward the ovule. Moreover, the review briefly compares these communication processes in angiosperms with those in non-flowering plants, such as mosses, ferns, and early gymnosperms, providing evolutionary insights into gametophytic signaling. Overall, this review synthesizes the current understanding of male–female gametophyte interactions and outlines future directions for research in plant reproductive biology. Full article
(This article belongs to the Special Issue Genetics and Genomics in Horticultural Plants)
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