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Agronomy
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New Insights into Pest and Disease Control in Rice
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New Insights into Pest and Disease Control in Rice

A special issue of Agronomy (ISSN 2073-4395). This special issue belongs to the section "Pest and Disease Management".

Deadline for manuscript submissions: 31 August 2025 | Viewed by 3300

Special Issue Editors

Prof. Dr. Rongzhi Chen

E-Mail Website
Guest Editor
State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan 430072, China
Interests: brown planthopper resistance in rice
Prof. Dr. Zhaohui Chu

E-Mail Website
Guest Editor
State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan 430072, China
Interests: plant–pathogen interaction and spatial resistance
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

Rice is one of the world’s most important staple foods; rice crops are seriously threatened by many pests and diseases that cause an annual yield loss of 37%. Such losses are caused by more than 20 species of insects and more than 100 diseases caused by bacteria, viruses, and fungi. Losses may also be caused by other living organisms including rats, birds, nematodes, weeds, and golden apple snails. Over the past 30 years, impressive advancements have been achieved in the integrated management of rice pests and diseases, including the discovery of resistance genes; the breeding of resistant varieties; the application of green pesticides and fungicides; bio-control, bio-stimulus, and nanomolecules; and precise control and intelligent monitoring systems, among others. This Special Issue will collate work by scientific researchers who are interested in the control of rice pests and diseases. We thus encourage the submission of research articles and reviews concerning novel strategies, technologies, and perspectives related to pest and disease control in rice.

Prof. Dr. Rongzhi Chen
Prof. Dr. Zhaohui Chu
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. Agronomy 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

  • IPM
  • disease resistance
  • pest management
  • weed control
  • bio-control
  • biostimulators
  • nanotechnology
  • intelligent monitoring
  • remote sensing

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Published Papers (4 papers)

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Research

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15 pages, 4900 KiB  
Article
Development of a Recombinase Polymerase Amplification and CRISPR-Cas12a-Based Assay for Rapid Detection of Rice Bakanae Disease Caused by Fusarium fujikuroi
by Hongyu Li, Yue Qiu, Anpeng Zhang, Yingxiong Hu, Can Cheng, Jihua Zhou, Fuan Niu, Bin Sun, Yuting Dai, Kaizhen Xie, Zhizun Feng, Xiaorui Ding, Bilian Hu, Xueqing Zhang, Liming Cao and Huangwei Chu
Agronomy 2025, 15(3), 577; https://doi.org/10.3390/agronomy15030577 - 26 Feb 2025
Viewed by 112
Abstract
Fusarium fujikuroi is the primary causal agent of rice bakanae disease, which can lead to substantial yield losses. Developing a rapid, highly specific, and accurate method for detecting F. fujikuroi is crucial for effective surveillance, prevention, and control of rice bakanae disease. In [...] Read more.
Fusarium fujikuroi is the primary causal agent of rice bakanae disease, which can lead to substantial yield losses. Developing a rapid, highly specific, and accurate method for detecting F. fujikuroi is crucial for effective surveillance, prevention, and control of rice bakanae disease. In this study, a novel detection assay, RPA-Cas12a-F, was developed by integrating recombinase polymerase amplification (RPA) and Cas12a for the detection of F. fujikuroi. This assay demonstrated a limit of detection (LOD) of 1 copy/μL of reference plasmid or 0.1 fg/μL of F. fujikuroi genomic DNA (gDNA). Furthermore, to enable on-site detection, the RPA-Cas12a technique was combined with a lateral flow strip (LFS) for visual readout, thereby developing the RPA-Cas12a-LFS assay. The LOD of the RPA-Cas12a-LFS assay was 1000 copies/μL of plasmid or 10 fg/μL of F. fujikuroi gDNA. The RPA-Cas12a-based assays developed in this study enable rapid, highly accurate, sensitive, and specific detection of F. fujikuroi, making them a promising tool for on-site detection without the need for expensive equipment and time-consuming methodologies. Full article
(This article belongs to the Special Issue New Insights into Pest and Disease Control in Rice)
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16 pages, 13657 KiB  
Article
Genetic Variation and Assessment of Seven Salt-Tolerance Genes in an Indica/Xian Rice Population
by Yuanhang Cheng, Tao Wang, Yeying Wen, Xingfei Zheng, Haifeng Liu, Xiangsong Chen, Ying Diao, Zhongli Hu, Wenjie Feng and Zhaohui Chu
Agronomy 2025, 15(3), 570; https://doi.org/10.3390/agronomy15030570 - 25 Feb 2025
Viewed by 196
Abstract
Natural variations conferring salt tolerance (ST) are of great value for breeding salt-tolerant rice varieties. The major ST genes, including SKC1, RST1, OsWRKY53 and STG5, have been identified to contain or be associated with a specific single nucleotide polymorphism (SNP). [...] Read more.
Natural variations conferring salt tolerance (ST) are of great value for breeding salt-tolerant rice varieties. The major ST genes, including SKC1, RST1, OsWRKY53 and STG5, have been identified to contain or be associated with a specific single nucleotide polymorphism (SNP). However, the distribution and genetic effects of those ST genes in rice cultivars remain poorly understood. Here, we investigated the distribution of seven cloned ST genes, including SKC1 (P140A, R184H), RST1 (A530G, E611G), OsWRKY53 (A173G), STG5 (I12S), OsHKT1;1 (L94K), OsHKT2;3 (I77T) and OsSTL1 (P289S), which contain one or two ST-related SNPs in a sequenced Indica/Xian rice population comprising 550 accessions. On the basis of the SNPs, the population was categorized into 21 haplotypes (Haps), each of which contained at least four out of seven ST genes. To precisely evaluate each SNP, grouped rice varieties that only differed at one SNP were chosen from two Haps for salt treatment with 150 mM NaCl for 7 d. The results revealed that RST1611G showed up to 88.6% improvement in salt tolerance considering the relative shoot fresh weight (rSFW). Alternatively, OsWRKY53173G, OsHKT2;377T, SKC1140A and SKC1184H showed an improvement in rSFW of 38.6%, 37%, 27.5% and 19.0%, respectively, indicating that they contribute different genetic effects for ST. OsHKT1;194K showed no function with salt treatment for 7 d, but showed a 37.9% rSFW improvement with salt treatment for 14 d. Furthermore, we found that the expression of OsWRKY53173G was positively correlated with SKC1 and conditionally participated in ST dependent on SKC1140A. Interestingly, RST1530A was previously reported to be associated with salt sensitivity, but it was found to be associated with salt tolerance in this study. Overall, our results provide further insight into the mechanism and marker-assisted selection improvement of ST in Indica/Xian rice. Full article
(This article belongs to the Special Issue New Insights into Pest and Disease Control in Rice)
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13 pages, 3107 KiB  
Article
A Novel SPOTTED LEAF1-1 (SPL11-1) Gene Confers Resistance to Rice Blast and Bacterial Leaf Blight Diseases in Rice (Oryza sativa L.)
by Shaojun Lin, Niqing He, Zhaoping Cheng, Fenghuang Huang, Mingmin Wang, Nora M. Al Aboud, Salah F. Abou-Elwafa and Dewei Yang
Agronomy 2024, 14(10), 2240; https://doi.org/10.3390/agronomy14102240 - 28 Sep 2024
Viewed by 902
Abstract
Programmed cell death (PCD) plays critical roles in plant immunity but must be regulated to prevent excessive damage. In this study, a novel spotted leaf (spl11-1) mutant was identified from an ethyl methane sulfonate (EMS) population. The SPL11-1 gene was genetically [...] Read more.
Programmed cell death (PCD) plays critical roles in plant immunity but must be regulated to prevent excessive damage. In this study, a novel spotted leaf (spl11-1) mutant was identified from an ethyl methane sulfonate (EMS) population. The SPL11-1 gene was genetically mapped to chromosome 12 between the Indel12-37 and Indel12-39 molecular markers, which harbor a genomic region of 27 kb. Annotation of the SPL11-1 genomic region revealed the presence of two candidate genes. Through gene prediction and cDNA sequencing, it was confirmed that the target gene in the spl11-1 mutant is allelic to the rice SPOTTED LEAF (SPL11), hereafter referred to as spl11-1. Sequence analysis of SPL11 revealed a single bp deletion (T) between the spl11-1 mutant and the ‘Shuangkang77009’ wild type. Moreover, protein structure analysis showed that the structural differences between the SPL11-1 and SPL11 proteins might lead to a change in the function of the SPL11 protein. Compared to the ‘Shuangkang77009’ wild type, the spl11-1 mutant showed more disease resistance. The agronomical evaluation showed that the spl11-1 mutant showed more adverse traits. Through further mutagenesis treatment, we obtained the spl11-2 mutant allelic to spl11-1, which has excellent agronomic traits and more improvement and may have certain breeding prospects in future breeding for disease resistance. Full article
(This article belongs to the Special Issue New Insights into Pest and Disease Control in Rice)
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Review

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14 pages, 2167 KiB  
Review
Type III Secretion Effectors of Xanthomonas oryzae pv. oryzicola: The Arsenal to Attack Equivalent Rice Defense for Invasion
by Nawei Tan, Yechao Huang, Weiguo Miao, Qingxia Zhang and Tao Wu
Agronomy 2024, 14(9), 1881; https://doi.org/10.3390/agronomy14091881 - 23 Aug 2024
Viewed by 1208
Abstract
Rice–Xanthomonas oryzae pv. oryzicola (Xoc) is one of the commonly used rice models of host–pathogen interactions. Xoc causes bacterial leaf streak (BLS) and has quarantine status. As a Gram-negative pathogen, Xoc usually employs type III secretion effectors (T3SEs), including transcription activator-like [...] Read more.
Rice–Xanthomonas oryzae pv. oryzicola (Xoc) is one of the commonly used rice models of host–pathogen interactions. Xoc causes bacterial leaf streak (BLS) and has quarantine status. As a Gram-negative pathogen, Xoc usually employs type III secretion effectors (T3SEs), including transcription activator-like effectors (TALEs) and non-TALEs, to interfere with the innate immunity of rice. However, few major resistance genes corresponding to Xoc are found in rice cultivations; only Rxo1-AvrRxo1 and Xo1-TALEs interactions have been discovered in rice–Xoc. In this review, we focus on the role of the T3S system (T3SS) in Xoc virulence and consider the reported non-TALEs, including AvrRxo1, AvrBs2, XopN, XopC2, XopAP, and XopAK, as well as TALEs including Tal2g/Tal5d, Tal2h, Tal2a, Tal7, Tal10a, TalI, Tal2b, and Tal2c. Interestingly, AvrRxo1, XopC2, and XopAP disturb stomatal opening to promote infection through targeting diverse signaling pathways in rice. Otherwise, Tal2b and Tal2c, respectively, activate two rice salicylic acid (SA) hydroxylation genes to redundantly suppress the SA-mediated basal defense, and TalI, which has unknown targets, suppresses the SA signaling pathway in rice. In addition, other Xoc virulence factors are discussed. In conclusion, several T3SEs from Xoc interfere with similar defense pathways in rice to achieve invasion, providing an outlook for the control of this disease through manipulating the conserved pathways. Full article
(This article belongs to the Special Issue New Insights into Pest and Disease Control in Rice)
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