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Agriculture
Special Issues
Innovations and Advances in Rice Molecular Breeding
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Innovations and Advances in Rice Molecular Breeding

A special issue of Agriculture (ISSN 2077-0472). This special issue belongs to the section "Genotype Evaluation and Breeding".

Deadline for manuscript submissions: closed (15 March 2024) | Viewed by 2731

Special Issue Editors

Dr. Ye-Yang Fan

E-Mail Website
Guest Editor
State Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 310006, China
Interests: gene mapping; gene cloning; marker-assisted selection; yield; quality; blast resistance; germplasm
Dr. Yu-Jun Zhu

E-Mail Website
Guest Editor
China National Rice Research Institute, Hangzhou, China
Interests: molecular breeding; yield-related trait; flowering time; map-based cloning; QTL; genome editing; genetic interaction
Special Issues, Collections and Topics in MDPI journals
Dr. Yong-Feng Shi

E-Mail Website
Guest Editor
Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 310006, China
Interests: marker-assisted selection; genetic engineering; functional marker; molecular design; japonica–indica hybrid rice; hybrid heterosis
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

The development of new rice varieties has reached the era of molecular breeding, which integrates the tools and approaches of modern biotechnologies into conventional breeding. With the rapid development of DNA markers, gene mapping and cloning in the last three decades, research on rice has made great progress in terms of improving grain yield, nutrition quality and environmental performance, achieving substantial progress for global food security. However, the balance of yield, cooking and taste quality and disease resistance is a daunting challenge in crop breeding due to the antagonistic relationship between these aspects. The biggest bottleneck is to develop and utilize genomic technologies, based on germplasm resource mining and functional genomics dissection, which would greatly facilitate more efficient and precise breeding.

This Special Issue focuses on the most recent innovations and advances in rice molecular breeding, aiming to achieve high and stable yield, superior quality, multi-resistance, wide adaptability and simplified cultivation. This issue will cover a broad range of molecular breeding approaches, including, but not limited to, functional marker-assisted selecting, gene pyramiding, rational design, GWAS, artificial intelligence and genome editing. All types of articles, such as original research, opinions and reviews, are welcome.

Dr. Ye-Yang Fan
Dr. Yu-Jun Zhu
Dr. Yong-Feng Shi
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. Agriculture 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

  • molecular breeding
  • marker-assisted selecting
  • gene pyramiding
  • rational design
  • genome editing
  • yield
  • quality
  • resistance
  • adaptability
  • simplified cultivation

Published Papers (3 papers)

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Research

12 pages, 1389 KiB  
Article
Identification of the CesA7 Gene Encodes Brittleness Mutation Derived from IR64 Variety and Breeding for Ruminant Feeding
by Anuchart Sawasdee, Tsung-Han Tsai, Wen-Chi Liao and Chang-Sheng Wang
Agriculture 2024, 14(5), 706; https://doi.org/10.3390/agriculture14050706 - 29 Apr 2024
Viewed by 466
Abstract
Rice straw presents challenges as livestock feed due to its low digestibility and the presence of chemical residues. One potential solution is to focus on breeding brittle varieties that possess disease-resistance traits. In this study, AZ1803, a brittle mutant line isolated from the [...] Read more.
Rice straw presents challenges as livestock feed due to its low digestibility and the presence of chemical residues. One potential solution is to focus on breeding brittle varieties that possess disease-resistance traits. In this study, AZ1803, a brittle mutant line isolated from the IR64 mutant pool, was chosen for gene identification and breeding. The AZ1803 mutant was crossed to the TNG67 variety to generate a mapping population and to the CS11 variety for fine mapping and breeding. The gene was mapped on chr. 10 between RM467 and RM171 SSR markers and was narrowed down to RM271 and RM5392 with 600 kb proximately interval. The AZ1803 and IR64 sequencing results revealed a substitution mutant in the Exon 9th of the OsCesA7 gene, resulting in an amino acid mutation at the end of the transmembrane domain 5th of the CESA7, responsible for cellulose synthesis for the secondary cell wall. The cellulose content of AZ1803 was reduced by 25% compared with the IR64. A new brittle and disease-resistant variety was bred by using developed markers in marker-assisted selection. In addition, bending tests and bacterial blight inoculation were applied. The bacterial lesion length of the bred variety is 64% lower than that of AZ1803. The rice straw of the new variety can be used for livestock feeding, which increases farmer income and reduces pesticide residues and air pollution from straw burning. Full article
(This article belongs to the Special Issue Innovations and Advances in Rice Molecular Breeding)
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12 pages, 2357 KiB  
Article
A Novel PCR-Based Functional Marker of Rice Blast Resistance Gene Pi25
by Yeyang Fan, Zhenhua Zhang, Derun Huang, Tingxu Huang, Hongfei Wang, Jieyun Zhuang and Yujun Zhu
Agriculture 2023, 13(10), 1926; https://doi.org/10.3390/agriculture13101926 - 30 Sep 2023
Viewed by 887
Abstract
Rice blast is arguably the most devastating fungal disease of rice. Utilization of resistance genes to breed resistant cultivars is one of the most economical and environmentally friendly approaches to combat the disease. Pi25, a major resistance gene conferring broad-spectrum resistance to [...] Read more.
Rice blast is arguably the most devastating fungal disease of rice. Utilization of resistance genes to breed resistant cultivars is one of the most economical and environmentally friendly approaches to combat the disease. Pi25, a major resistance gene conferring broad-spectrum resistance to both leaf and neck blast, is an ideal gene resource to improve the resistance of rice varieties to blast. Recently, several allele-specific markers were developed. However, they were deficiently efficient due to either an additional process of restriction enzyme digestion for cleaved amplified polymorphic sequence (CAPS) markers or the risk of false-positive error in identifying susceptible Tetep allele (Pi25TTP) for PCR-based markers. In this study, based on a conserved single nucleotide polymorphism (SNP) between resistant and susceptible alleles, a tetra-primer amplification refractory mutation system (ARMS)-PCR marker was developed. The new marker, namely Pi25-2687R3, could effectively distinguish the resistant Gumei 2 (GM2) allele (Pi25GM2) and the susceptible allele Pi25TTP. Moreover, a perfect consistency of genotyping was exhibited between Pi25-2687R3 and published CAPS marker CAP3/Hpy 99I. A more accurate genotyping was also displayed compared to the previous PCR-based SNP marker Pi25-2566. Our finding proved that Pi25-2687R3 could achieve the same result as CAP3/Hpy 99I with less workload and cost and could promote the accuracy in the identification of genotypes superior to Pi25-2566. This study provided a quick and reliable functional marker for discriminating Pi25 alleles, which would be a valuable tool for genotypic assay and rice molecular breeding of blast resistance. Full article
(This article belongs to the Special Issue Innovations and Advances in Rice Molecular Breeding)
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11 pages, 1074 KiB  
Article
Molecular Breeding of Zheyou810, an Indica–Japonica Hybrid Rice Variety with Superior Quality and High Yield
by Jian Song, Yongtao Cui, Honghuan Fan, Liqun Tang and Jianjun Wang
Agriculture 2023, 13(9), 1807; https://doi.org/10.3390/agriculture13091807 - 13 Sep 2023
Cited by 1 | Viewed by 929
Abstract
Rice heterosis has played a significant role in improving rice yields in China since the 1970s. The utilization of heterosis between the indica and japonica subspecies of rice is especially important in this regard. However, inter-subspecies hybridization between indica and japonica rice is [...] Read more.
Rice heterosis has played a significant role in improving rice yields in China since the 1970s. The utilization of heterosis between the indica and japonica subspecies of rice is especially important in this regard. However, inter-subspecies hybridization between indica and japonica rice is hampered by the inadequate seed-setting rate and inferior rice quality of hybrid offspring, which has limited its development. The discovery and cloning of wide-compatibility gene S5-n and the granular starch synthase gene Wx have provided a solution to this problem, paving the way for the breeding of inter-subspecies hybrid rice. Here we demonstrated the breeding process of Zheyou810 and its performances in regional trials. Employing marker-assisted selection through the utilization of KASP (Kompetitive Allele-Specific PCR), a high-yielding and superior-quality indica–japonica hybrid rice variety named Zheyou810 was developed. Zheyou810 achieved an average yield of 10,737.75 kg/ha (12.58% higher than control Jiayou5) in the national regional trials across 2019 and 2020, and 11,777.25 kg/ha (13.36% higher than Jiayou5) in the production trial in 2020, respectively. The quality of rice has also been improved, reaching the standards set by the Ministry of Agriculture of the People’s Republic of China for Grade 3 premium rice (NY/T593). In 2021, Zheyou810 was approved by the national examination showing broad application prospects. Full article
(This article belongs to the Special Issue Innovations and Advances in Rice Molecular Breeding)
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