Search for Articles:
Title / Keyword
Author / Affiliation / Email
Journal
Article Type
 
 
Advanced Search
 
Section
Special Issue
Volume
Issue
Number
Page
 
5.1
3.5
Journals
Genes
Special Issues
Genomic Studies of Plant Breeding
share announcement

Genomic Studies of Plant 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 March 2024) | Viewed by 3636

Special Issue Editor

Dr. Yan Zhao

E-Mail Website
Guest Editor
1. State Key Laboratory of Crop Biology, Tai’an 271018, China
2. College of Agronomy, Shandong Agricultural University, Tai’an 271018, China
Interests: wheat germplasm innovation; genetic breeding and functional gene analysis

Special Issue Information

Dear Colleagues,

Plant breeding has been systematically evolving from art to science with the advent and development of genetics and genomics, for many complex traits such as yield are controlled by many genes or quantitative trait loci (QTL), each with relatively small effects, interacting with environments.

The recent development and application of genomics has shifted the research focus from individual genes to networks of genes with a common function. This has deepened our knowledge of the underlying genetic and biochemical bases of complex agronomic traits in plants. Furthermore, new breeding techniques (e.g., genomic selection) provide exciting opportunities for efficient and accurate plant breeding of next generation.

This Special Issue, entitled ‘Genomic Studies of Plant Breeding’, welcomes original research articles and reviews discussing the latest advances related to genomics and genetic improvement of plants.

Dr. Yan Zhao
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

  • plant breeding
  • genome
  • QTL
  • GWAS
  • gene
  • yield
  • quality
  • grain number per pike
  • sterile spikelet
  • thousand grain weight
  • grain length
  • grain width

Published Papers (4 papers)

Download All Papers
Order results
Result details
Show export options expand_more Show export options expand_less
Select all
Export citation of selected articles as:

Research

Jump to: Review

12 pages, 3333 KiB  
Article
PlantMine: A Machine-Learning Framework to Detect Core SNPs in Rice Genomics
by Kai Tong, Xiaojing Chen, Shen Yan, Liangli Dai, Yuxue Liao, Zhaoling Li and Ting Wang
Genes 2024, 15(5), 603; https://doi.org/10.3390/genes15050603 - 9 May 2024
Viewed by 195
Abstract
As a fundamental global staple crop, rice plays a pivotal role in human nutrition and agricultural production systems. However, its complex genetic architecture and extensive trait variability pose challenges for breeders and researchers in optimizing yield and quality. Particularly to expedite breeding methods [...] Read more.
As a fundamental global staple crop, rice plays a pivotal role in human nutrition and agricultural production systems. However, its complex genetic architecture and extensive trait variability pose challenges for breeders and researchers in optimizing yield and quality. Particularly to expedite breeding methods like genomic selection, isolating core SNPs related to target traits from genome-wide data reduces irrelevant mutation noise, enhancing computational precision and efficiency. Thus, exploring efficient computational approaches to mine core SNPs is of great importance. This study introduces PlantMine, an innovative computational framework that integrates feature selection and machine learning techniques to effectively identify core SNPs critical for the improvement of rice traits. Utilizing the dataset from the 3000 Rice Genomes Project, we applied different algorithms for analysis. The findings underscore the effectiveness of combining feature selection with machine learning in accurately identifying core SNPs, offering a promising avenue to expedite rice breeding efforts and improve crop productivity and resilience to stress. Full article
(This article belongs to the Special Issue Genomic Studies of Plant Breeding)
►▼ Show Figures

Figure 1

16 pages, 3401 KiB  
Article
A Genome-Wide Association Study Reveals the Genetic Mechanisms of Nutrient Accumulation in Spinach
by Ni Ji, Zhiyuan Liu, Hongbing She, Zhaosheng Xu, Helong Zhang, Zhengwu Fang and Wei Qian
Genes 2024, 15(2), 172; https://doi.org/10.3390/genes15020172 - 28 Jan 2024
Viewed by 1017
Abstract
Spinach is a significant source of vitamins, minerals, and antioxidants. These nutrients make it delicious and beneficial for human health. However, the genetic mechanism underlying the accumulation of nutrients in spinach remains unclear. In this study, we analyzed the content of chlorophyll a, [...] Read more.
Spinach is a significant source of vitamins, minerals, and antioxidants. These nutrients make it delicious and beneficial for human health. However, the genetic mechanism underlying the accumulation of nutrients in spinach remains unclear. In this study, we analyzed the content of chlorophyll a, chlorophyll b, oxalate, nitrate, crude fiber, soluble sugars, manganese, copper, and iron in 62 different spinach accessions. Additionally, 3,356,182 high-quality, single-nucleotide polymorphisms were found using resequencing and used in a genome-wide association study. A total of 2077 loci were discovered that significantly correlated with the concentrations of the nutritional elements. Data mining identified key genes in these intervals for four traits: chlorophyll, oxalate, soluble sugar, and Fe. Our study provides insights into the genetic architecture of nutrient variation and facilitates spinach breeding for good nutrition. Full article
(This article belongs to the Special Issue Genomic Studies of Plant Breeding)
►▼ Show Figures

Figure 1

19 pages, 11760 KiB  
Article
Genome-Wide Identification and Characterization of the VQ Motif-Containing Gene Family Based on Their Evolution and Expression Analysis under Abiotic Stress and Hormone Treatments in Foxtail Millet (Setaria italica L.)
by Meiling Liu, Cong Li, Yuntong Li, Yingtai An, Xiaoxi Ruan, Yicheng Guo, Xiaomei Dong and Yanye Ruan
Genes 2023, 14(5), 1032; https://doi.org/10.3390/genes14051032 - 30 Apr 2023
Cited by 3 | Viewed by 1553
Abstract
Valine–glutamine (VQ) motif-containing proteins are transcriptional regulatory cofactors that play critical roles in plant growth and response to biotic and abiotic stresses. However, information on the VQ gene family in foxtail millet (Setaria italica L.) is currently limited. In this study, a [...] Read more.
Valine–glutamine (VQ) motif-containing proteins are transcriptional regulatory cofactors that play critical roles in plant growth and response to biotic and abiotic stresses. However, information on the VQ gene family in foxtail millet (Setaria italica L.) is currently limited. In this study, a total of 32 SiVQ genes were identified in foxtail millet and classified into seven groups (I–VII), based on the constructed phylogenetic relationships; the protein-conserved motif showed high similarity within each group. Gene structure analysis showed that most SiVQs had no introns. Whole-genome duplication analysis revealed that segmental duplications contributed to the expansion of the SiVQ gene family. The cis-element analysis demonstrated that growth and development, stress response, and hormone-response-related cis-elements were all widely distributed in the promoters of the SiVQs. Gene expression analysis demonstrated that the expression of most SiVQ genes was induced by abiotic stress and phytohormone treatments, and seven SiVQ genes showed significant upregulation under both abiotic stress and phytohormone treatments. A potential interaction network between SiVQs and SiWRKYs was predicted. This research provides a basis to further investigate the molecular function of VQs in plant growth and abiotic stress responses. Full article
(This article belongs to the Special Issue Genomic Studies of Plant Breeding)
►▼ Show Figures

Figure 1

Review

Jump to: Research

16 pages, 271 KiB  
Review
Progress in Rice Breeding Based on Genomic Research
by Xingye Yang, Shicong Yu, Shen Yan, Hao Wang, Wei Fang, Yanqing Chen, Xiaoding Ma and Longzhi Han
Genes 2024, 15(5), 564; https://doi.org/10.3390/genes15050564 - 27 Apr 2024
Viewed by 457
Abstract
The role of rice genomics in breeding progress is becoming increasingly important. Deeper research into the rice genome will contribute to the identification and utilization of outstanding functional genes, enriching the diversity and genetic basis of breeding materials and meeting the diverse demands [...] Read more.
The role of rice genomics in breeding progress is becoming increasingly important. Deeper research into the rice genome will contribute to the identification and utilization of outstanding functional genes, enriching the diversity and genetic basis of breeding materials and meeting the diverse demands for various improvements. Here, we review the significant contributions of rice genomics research to breeding progress over the last 25 years, discussing the profound impact of genomics on rice genome sequencing, functional gene exploration, and novel breeding methods, and we provide valuable insights for future research and breeding practices. Full article
(This article belongs to the Special Issue Genomic Studies of Plant Breeding)
►▼ Show Figures

Graphical abstract

Show export options expand_more Show export options expand_less
Select all
Export citation of selected articles as:
 
Displaying articles 1-4
Back to TopTop