Search for Articles:
Title / Keyword
Author / Affiliation / Email
Journal
Article Type
 
 
Advanced Search
 
Section
Special Issue
Volume
Issue
Number
Page
 
7.6
4.1
Journals
Agronomy
Special Issues
Integrative Genomics, Molecular Markers, and Breeding Strategies in Rice
share announcement

Integrative Genomics, Molecular Markers, and Breeding Strategies in Rice

A special issue of Agronomy (ISSN 2073-4395). This special issue belongs to the section "Crop Breeding and Genetics".

Deadline for manuscript submissions: 31 December 2026 | Viewed by 1611

Editors

Dr. Mingxing Cheng

E-Mail Website
Guest Editor
Center of Applied Biotechnology, School of Life Sciences and Technology, Wuhan University of Bioengineering, Wuhan 430072, China
Interests: genome-wide association study in rice; molecular markers; synergistic regulatory networks of rice yield genes
Dr. Wenchao Huang

E-Mail Website
Guest Editor
College of Life Science, Wuhan University, Wuhan 430072, China
Interests: molecular plant breeding; rice breeding; crop improvement
Dr. Fengfeng Fan

E-Mail Website
Guest Editor
State Key Laboratory of Hybrid Rice, College of Life Science, Wuhan University, Wuhan 430072, China
Interests: marker-assisted selection; agronomic traits; rice breeding

Special Issue Information

Dear Colleagues,

Rice is a staple crop sustaining more than half of the global population, and its continuous improvement is critical in ensuring global food security. Recent advances in genomics, molecular markers, and multi-omics technologies have greatly expanded our ability to dissect complex traits and accelerate the development of improved rice varieties. These tools, together with innovative breeding strategies, provide new opportunities to enhance yield, grain quality, and resilience to biotic and abiotic stresses.

This Special Issue will focus on integrative genomics, molecular marker applications, and innovative breeding approaches in rice. We particularly encourage studies addressing genetic variation, haplotype diversity, population structure, and trait–marker associations, as well as integrative analyses combining genomics, transcriptomics, metabolomics, and advanced computational approaches.

We welcome original research articles, reviews, and short communications that report novel molecular tools, the functional validation of candidate genes, and practical applications of genomics-assisted breeding strategies for rice improvement.

Dr. Mingxing Cheng
Dr. Wenchao Huang
Dr. Fengfeng Fan
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 250 words) can be sent to the Editorial Office for assessment.

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-anonymized peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Agronomy 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 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

  • rice
  • genomics
  • molecular markers
  • genome-wide association studies (GWAS)
  • haplotype analysis
  • genetic variation
  • marker-assisted selection (MAS)
  • multi-omics
  • trait–marker association
  • molecular breeding
  • stress tolerance
  • yield improvement
  • grain quality

Benefits of Publishing in a Special Issue

  • Ease of navigation: Grouping papers by topic helps scholars navigate broad scope journals more efficiently.
  • Greater discoverability: Special Issues support the reach and impact of scientific research. Articles in Special Issues are more discoverable and cited more frequently.
  • Expansion of research network: Special Issues facilitate connections among authors, fostering scientific collaborations.
  • External promotion: Articles in Special Issues are often promoted through the journal's social media, increasing their visibility.
  • Reprint: MDPI Books provides the opportunity to republish successful Special Issues in book format, both online and in print.

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

Published Papers (1 paper)

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

Research

15 pages, 719 KB  
Article
Effects of Organic Additives and Planting Methods on Fungal Populations in the Rhizosphere of Paddies
by Ziqi Liu, Lili Wang, Chao Liang and Zhiqiang Tang
Agronomy 2026, 16(5), 548; https://doi.org/10.3390/agronomy16050548 - 28 Feb 2026
Viewed by 500
Abstract
In this research, the effects of organic amendments and planting methods on the grain yields, enzyme activity, soil quality, and the structures of fungal populations in the rhizosphere of rice were evaluated. In comparison to the control group with direct seeding, the transplanting [...] Read more.
In this research, the effects of organic amendments and planting methods on the grain yields, enzyme activity, soil quality, and the structures of fungal populations in the rhizosphere of rice were evaluated. In comparison to the control group with direct seeding, the transplanting method resulted in a 23.5% higher grain yield. Furthermore, rice straw addition significantly improved fungal diversity indices (i.e., Chao1, ACE, Shannon, and Simpson). Dissimilarity distances and principal coordinate analysis revealed substantial variations in the compositions of root-associated fungal communities across the experimental groups with different planting methods. When the transplanting method was used, the Ascomycota, Basidiomycota, Chytridiomycota, Olpidiomycota, Aphelidiomycota, Monoblepharomycota, and Calcarisporiellomycota phyla became dominant. Biochar and rice straw applications caused substantial increases in the abundance of the Ascomycota, Basidiomycota, Chytridiomycota, Rozellomycota, Mucoromycota, Olpidiomycota, Aphelidiomycota, and Gammaproteobacteria phyla. Changes in enzyme activity and the physicochemical properties of the soil were also observed across the treatment groups with different planting methods and organic amendments. Direct seeding enhanced cellulase activity, microbial biomass carbon and nitrogen, available nitrogen, available potassium, nitrate nitrogen, and ammonium nitrogen, whereas transplanting boosted the activity of sucrase and urease enzymes. Rice straw application enhanced cellulase activity and the concentrations of available nitrogen, available phosphorus, nitrate nitrogen, and ammonium nitrogen in the soil. Biochar addition resulted in increased urease activity, microbial biomass carbon and nitrogen, soil pH, and available potassium. The Ascomycota abundance and grain yield exhibited a positive connection, while unclassified_Fungi exhibited negative correlations with the soil pH, organic carbon, available phosphorus, grain yield, and activity of sucrase and urease. Mortierellomycota was positively correlated with microbial biomass nitrogen and nitrate nitrogen. Overall, both the organic additives and planting methods influenced the soil properties, enzyme activity, rhizosphere fungal populations, and grain yield. These results provide new insights and a theoretical basis for studying the changes in soil fungal diversity and richness with different planting methods and organic amendments in Northeastern China. Full article
(This article belongs to the Special Issue Integrative Genomics, Molecular Markers, and Breeding Strategies in Rice)
►▼ Show Figures

Figure 1

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