Crop Functional Genomics and Biological Breeding

A special issue of Plants (ISSN 2223-7747). This special issue belongs to the section "Plant Genetics, Genomics and Biotechnology".

Deadline for manuscript submissions: 31 December 2024 | Viewed by 1266

Special Issue Editors


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Guest Editor
State Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, China
Interests: rice (Oryza sativa L.); developmental biology; plant genetics; molecular biology
Special Issues, Collections and Topics in MDPI journals

E-Mail Website
Guest Editor
State Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, China
Interests: rice (Oryza sativa L.); quantitative trait locus; seed development; grain weight
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

Currently, crop breeders focus on improving crop yield, resistance and quality through biological breeding. The study of the functional genomics of crops is a crucial approach in biological breeding. Understanding the functional genomics of crops provides insights into the genetic mechanisms governing crucial traits such as yield, resistance to diseases and pests, tolerance to environmental stresses and quality. This knowledge is instrumental in developing improved crop varieties with enhanced productivity and resilience, contributing to global efforts to ensure an adequate and stable food supply. The goal of this Special Issue of Plants, titled “Crop Functional Genomics and Biological Breeding”, is to provide an overview of the latest research and discoveries in the functional genomics of crops, including the mapping and cloning of novel genes related to crops yield, resistance, germination and quality. The included research can encompass the functional analysis of these genes and investigate their applications in biological breeding. We welcome all types of submissions, including original research, reviews and methodologies in this field, including (but not limited to) research covering the following topics:

  • Cloning and functional studies of new crop genes;
  • Bioinformatics analysis of functional genes in crops;
  • The application of rice functional genomics in crop breeding.

Dr. Yifeng Wang
Dr. Jie Huang
Dr. Jian Zhang
Prof. Dr. Jiezheng Ying
Guest Editors

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. Plants is an international peer-reviewed open access semimonthly 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 2700 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

  • crops
  • functional genomics
  • biological breeding
  • yield
  • resistance
  • seed germination
  • quality
  • genetic improvement

Published Papers (2 papers)

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Research

15 pages, 4269 KiB  
Article
Genome-Wide Analysis of the SAUR Gene Family and Its Expression Profiles in Response to Salt Stress in Santalum album
by Qing Zhu, Haoyue Zheng, Xu Hu, Yi Liu, Xinyi Zheng, Libei Li and Minqiang Tang
Plants 2024, 13(10), 1286; https://doi.org/10.3390/plants13101286 - 7 May 2024
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Abstract
The SAUR (small auxin-up RNA) family constitutes a category of genes that promptly respond to the hormone auxin and play a pivotal role in diverse biological processes encompassing plant growth and the response to abiotic stress. Santalum album L., a semi-parasitic evergreen tree, [...] Read more.
The SAUR (small auxin-up RNA) family constitutes a category of genes that promptly respond to the hormone auxin and play a pivotal role in diverse biological processes encompassing plant growth and the response to abiotic stress. Santalum album L., a semi-parasitic evergreen tree, is renowned for its economically valuable essential oils, positioning it among the most prized tree species. In this study, a meticulous identification and comprehensive analysis of 43 SAUR genes was conducted within S. album. Based on phylogenetic relationships, the SaSAUR genes were systematically categorized into five groups. A collinearity analysis revealed intriguing insights, disclosing 14 segmental duplications and 9 tandem duplications within the SaSAUR genes, emphasizing the pivotal role of duplication in the expansion of this gene family. Noteworthy variations in the expression levels of SaSAUR genes were observed by delving into the SaSAUR transcriptome data from various tissues, including leaves, roots, and heartwood, as well as under salt-stress conditions. Notably, SaSAUR08 and SaSAUR13 were significantly upregulated in heartwood compared with roots and leaves, while SaSAUR18 was markedly more expressed in roots compared with heartwood and leaves. Furthermore, SaSAUR27 and SaSAUR28 were found to respond closely to salt stress, hinting at their potential involvement in the salt-stress response mechanism. This research offers a comprehensive investigation of SAUR genes in S. album and establishes a foundation for future exploration of the SAUR gene family, particularly its relation to growth and salt-stress responses. Full article
(This article belongs to the Special Issue Crop Functional Genomics and Biological Breeding)
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18 pages, 5961 KiB  
Article
Rice Serine Hydroxymethyltransferases: Evolution, Subcellular Localization, Function and Perspectives
by Tian Pan, Hongmiao Jin, Chuanhui Zhou and Mengyuan Yan
Plants 2024, 13(8), 1116; https://doi.org/10.3390/plants13081116 - 16 Apr 2024
Viewed by 518
Abstract
In rice, there is a lack of comprehensive research on the functional aspects of the members of the serine hydroxymethyltransferase (SHMT) gene family. This study provides a comprehensive investigation of the SHMT gene family, covering phylogeny, gene structure, promoter analysis, expression [...] Read more.
In rice, there is a lack of comprehensive research on the functional aspects of the members of the serine hydroxymethyltransferase (SHMT) gene family. This study provides a comprehensive investigation of the SHMT gene family, covering phylogeny, gene structure, promoter analysis, expression analysis, subcellular localization, and protein interaction. Remarkably, we discovered a specific gene loss event occurred in the chloroplast-localized group IIa SHMTs in monocotyledons. However, OsSHMT3, which originally classified within cytoplasmic-localized group Ib, was found to be situated within chloroplasts in rice protoplasts. All five OsSHMTs are capable of forming homodimers, with OsSHMT3 being the only one able to form dimers with other OsSHMTs, except for OsSHMT1. It is proposed that OsSHMT3 functions as a mobile protein, collaborating with other OsSHMT proteins. Furthermore, the results of cis-acting element prediction and expression analysis suggested that members of the OsSHMT family could be involved in diverse stress responses and hormone regulation. Our study aims to provide novel insights for the future exploration of SHMTs. Full article
(This article belongs to the Special Issue Crop Functional Genomics and Biological Breeding)
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Planned Papers

The below list represents only planned manuscripts. Some of these manuscripts have not been received by the Editorial Office yet. Papers submitted to MDPI journals are subject to peer-review.

1. Genome-Wide Analysis of the SAUR Gene Family and Its Expression Profiles in Response to Salt Stress in Santalum album

2. Rice Serine Hydroxymethyltransferases: Evolution, Subcellular Localization, Function and Perspectives

3. Phenotypic Analysis and Gene Cloning of the Rice Floury Endosperm Mutant wcr

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