Identification of Long Intergenic Noncoding RNAs in
            <i>Rhizoctonia cerealis</i>
            following Inoculation of Wheat

Yi, Ke; Yan, Weiyi; Li, Xiang; Yang, Shuqing; Li, Jiaqi; Yin, Yifan; Yuan, Fengping; Wang, Haiying; Kang, Zhensheng; Han, Dejun; Zeng, Qingdong

doi:10.1128/spectrum.03449-22

Cited by 5 publications

(2 citation statements)

References 66 publications

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“…Quality control, alignment, fragment counting, and TPM (transcripts per million kb calculation) analysis were performed on the RNA-seq data, as referenced in Yi et al. [ 37 ].…”

Section: Methodsmentioning

confidence: 99%

Using UAV-Based Temporal Spectral Indices to Dissect Changes in the Stay-Green Trait in Wheat

Yu,

Cao,

Liu

et al. 2024

Plant Phenomics

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Stay-green (SG) in wheat is a beneficial trait that increases yield and stress tolerance. However, conventional phenotyping techniques limited the understanding of its genetic basis. Spectral indices (SIs) as non-destructive tools to evaluate crop temporal senescence provide an alternative strategy. Here, we applied SIs to monitor the senescence dynamics of 565 diverse wheat accessions from anthesis to maturation stages over 2 field seasons. Four SIs (normalized difference vegetation index, green normalized difference vegetation index, normalized difference red edge index, and optimized soil-adjusted vegetation index) were normalized to develop relative stay-green scores (RSGS) as the SG indicators. An RSGS-based genome-wide association study identified 47 high-confidence quantitative trait loci (QTL) harboring 3,079 single-nucleotide polymorphisms associated with SG and 1,085 corresponding candidate genes. Among them, 15 QTL overlapped or were adjacent to known SG-related QTL/genes, while the remaining QTL were novel. Notably, a set of favorable haplotypes of SG-related candidate genes such as TraesCS2A03G1081100 , TracesCS6B03G0356400 , and TracesCS2B03G1299500 are increasing following the Green Revolution, further validating the feasibility of the pipeline. This study provided a valuable reference for further quantitative SG and genetic research in diverse wheat panels.

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“…Quality control, alignment, fragment counting, and TPM (transcripts per million kb calculation) analysis were performed on the RNA-seq data, as referenced in Yi et al. [ 37 ].…”

Section: Methodsmentioning

confidence: 99%

Using UAV-Based Temporal Spectral Indices to Dissect Changes in the Stay-Green Trait in Wheat

Yu,

Cao,

Liu

et al. 2024

Plant Phenomics

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“…In wheat, lncRNAs were characterized and identified against varied pathogens, i.e., about 125 lncRNAs were identified in response to Blumeria graminis f. sp. tritici and 1319 long intergenic non-coding RNAs (lincRNAs) were identified against Rhizoctonia cerealis (Xin et al, 2011; Yi et al, 2023 [25,27]) (Table 1).…”

Section: The Role Of Lncrna In Biotic Stress Tolerance In Plantsmentioning

confidence: 99%

Emphasizing the Role of Long Non-Coding RNAs (lncRNA), Circular RNA (circRNA), and Micropeptides (miPs) in Plant Biotic Stress Tolerance

Bhar,

Roy

2023

Plants

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Biotic stress tolerance in plants is complex as it relies solely on specific innate immune responses from different plant species combating diverse pathogens. Each component of the plant immune system is crucial to comprehend the molecular basis underlying sustainable resistance response. Among many other regulatory components, long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) have recently emerged as novel regulatory control switches in plant development and stress biology. Besides, miPs, the small peptides (100–150 amino acids long) encoded by some of the non-coding portions of the genome also turned out to be paramount regulators of plant stress. Although some studies have been performed in deciphering the role of miPs in abiotic stress tolerance, their function in regulating biotic stress tolerance is still largely elusive. Hence, the present review focuses on the roles of long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) in combating biotic stress in plants. The probable role of miPs in plant–microbe interaction is also comprehensively highlighted. This review enhances our current understanding of plant lncRNAs, circRNAs, and miPs in biotic stress tolerance and raises intriguing questions worth following up.

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Genetic dissection and identification of stripe rust resistance genes in the wheat cultivar Lanhangxuan 121, a cultivar selected from a space mutation population

Wu,

Liu,

Zhang

et al. 2024

Mol Breeding

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Stripe rust is a devastating disease of wheat worldwide. Chinese wheat cultivar Lanhangxuan 121 (LHX121), selected from an advanced line L92-47 population that had been subjected to space mutation breeding displayed a consistently higher level of resistance to stipe rust than its parent in multiple eld environments. The aim of this research was to establish the number and types of resistance genes L92-47 and LHX121 using separate segregating populations. The rst population developed from a cross between LHX121 and susceptible cultivar Xinong 822 comprised 278 F 2:3 lines. The second validation population comprised 301 F 2:3 lines from a cross between L92-47 and susceptible cultivar Xinong 979. These lines were evaluated for stripe rust response at three sites during the 2018-2020 cropping season.Affymetrix 660K SNP arrays were used to genotype the lines and parents. Inclusive composite interval mapping detected QTL QYrLHX.nwafu-2BS, QYrLHX.nwafu-3BS, and QYrLHX.nwafu-5BS for resistance in all three environments. Based on previous studies and pedigree information, QYrLHX.nwafu-2BS and QYrLHX.nwafu-3BS were likely to be Yr27 and Yr30 that are present in the L92-47 parent. QYrLHX.nwafu-5BS (YrL121) detected only in LHX121 was mapped to a 7.60 cM interval and explained 10.67-22.57% of the phenotypic variation. Compared to stripe rust resistance genes previously mapped to chromosome 5B, YrL121 might be a new adult plant resistance QTL. Further, there were a number of variations signals using 35K SNP array and differentially expressed genes using RNA-seq between L92-47 and LHX121 in the YrL121 region, indicating that they probably impair the presence and/or function of YrL121. Key MessageSpace mutagenesis might create novel genetic variation for stripe rust response and could be useful for improving disease resistance in wheat.

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Identification of Long Intergenic Noncoding RNAs in Rhizoctonia cerealis following Inoculation of Wheat

Abstract: Rhizoctonia cerealis , the primary causal agent of wheat sharp eyespot, has caused significant losses in worldwide wheat production. Since no resistant wheat cultivars exist, chemical control is the primary method.

Cited by 5 publications

References 66 publications

Using UAV-Based Temporal Spectral Indices to Dissect Changes in the Stay-Green Trait in Wheat

Using UAV-Based Temporal Spectral Indices to Dissect Changes in the Stay-Green Trait in Wheat

Emphasizing the Role of Long Non-Coding RNAs (lncRNA), Circular RNA (circRNA), and Micropeptides (miPs) in Plant Biotic Stress Tolerance

Genetic dissection and identification of stripe rust resistance genes in the wheat cultivar Lanhangxuan 121, a cultivar selected from a space mutation population

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