Over-expression of GmKR3, a TIR–NBS–LRR type R gene, confers resistance to multiple viruses in soybean

Xun, Hongwei; Yang, Xiangdong; He, Hailong; Wang, Meng; Guo, Peng; Wang, Ying; Pang, Jinjiang; Dong, Yingshan; Feng, Xianzhong; Wang, Shucai; B, Liu

doi:10.1007/s11103-018-0804-z

Cited by 51 publications

(42 citation statements)

References 99 publications

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“…Although BnaC06g16950D is not annotated, its ortholog, AT3G59000, was identified as encoding an F-box/RNI-like superfamily protein in Arabidopsis, which typically function in the plant hormone signaling pathways (Gao et al, 2009). Similarly, the ortholog AT4G16900 encodes a TIR-NBS-LRR class protein, which are known to be involved in disease resistance (Xun et al, 2019) and hormonal responses (Sarazin et al, 2015). Moreover, Hewezi et al (2006) unexpectedly found that these proteins are associated with developmental abnormalities; transgenic sunflowers (Helianthus annuus) expressing the antisense sequence complementing PLFOR48, which encodes a TIR-NBS-LRR-type protein, showed stunted growth and a reduction in apical dominance; whereas the pods of transgenic tobacco (N. tabacum) lacking PLFOR48 expression were smaller and showed severe deformations.…”

Section: Discussionmentioning

confidence: 99%

Investigation for a multi-silique trait in Brassica napus by alternative splicing analysis

Chai

Zhang

et al. 2020

PeerJ

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Background Flower and fruit development are vital stages of the angiosperm lifecycle. We previously investigated the multi-silique trait in the rapeseed (Brassica napus) line zws-ms on a genomic and transcriptomic level, leading to the identification of two genomic regions and several candidate genes associated with this trait. However, some events on the transcriptome level, like alternative splicing, were poorly understood. Methods Plants from zws-ms and its near-isogenic line (NIL) zws-217 were both grown in Xindu with normal conditions and a colder area Ma’erkang. Buds from the two lines were sampled and RNA was isolated to perform the transcriptomic sequencing. The numbers and types of alternative splicing (AS) events from the two lines were counted and classified. Genes with AS events and expressed differentially between the two lines, as well as genes with AS events which occurred in only one line were emphasized. Their annotations were further studied. Results From the plants in Xindu District, an average of 205,496 AS events, which could be sorted into five AS types, were identified. zws-ms and zws-217 shared highly similar ratios of each AS type: The alternative 5′ and 3′ splice site types were the most common, while the exon skipping type was observed least often. Eleven differentially expressed AS genes were identified, of which four were upregulated and seven were downregulated in zws-ms. Their annotations implied that five of these genes were directly associated with the multi-silique trait. While samples from colder area Ma’erkang generated generally reduced number of each type of AS events except for Intron Retention; but the number of differentially expressed AS genes increased significantly. Further analysis found that among the 11 differentially expressed AS genes from Xindu, three of them maintained the same expression models, while the other eight genes did not show significant difference between the two lines in expression level. Additionally, the 205 line-specific expressed AS genes were analyzed, of which 187 could be annotated, and two were considered to be important. Discussion This study provides new insights into the molecular mechanism of the agronomically important multi-silique trait in rapeseed on the transcriptome level and screens out some environment-responding candidate genes.

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Section: Discussionmentioning

confidence: 99%

Investigation for a multi-silique trait in Brassica napus by alternative splicing analysis

Chai

Zhang

et al. 2020

PeerJ

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“…These protein family has been proved that involved in leaf senescence in plant [35]. LOC_Os09g14490.1 encoding aTIR-NBS type disease resistance protein, which has been identi ed in resistance to multiple viruses in plant [36][37][38].LOC_Os02g55550.1 encoding a F-box/LRR-repeat protein 14, the LRR-repeat protein is involved in plant immune response [39]. These genes have been proved to play important roles in plants, however, their capability of producing secondary phasiRNAs suggest they might be involved in much more complex function than we expected.…”

Section: Discussionmentioning

confidence: 99%

Degradome Sequencing-based Identification of PhasiRNAs Biogenesis Pathways in Oryza Sativa

Guo

Jiang

et al. 2020

Preprint

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Background: The miRNA-derived secondary phased small interfering RNAs (phasiRNAs) participate in post-transcriptional gene silencing and play important roles in various bio-processes in plants. In rice, two miRNAs, miR2118 and miR2275, were mainly responsible for the triggering of 21-nt and 24-nt phasiRNAs biogenesis, respectively. However, compare to other plant species, relative fewer phasiRNA biogenesis pathways have been discovered in rice, which limits the comprehensive understanding of the mechanism of phasiRNA biogenesis and the miRNA derived regulatory network. Results: In this study, we performed a systematical searching for phasiRNA biogenesis pathways in rice. As a result, five novel 21-nt phasiRNA biogenesis pathways and five novel 24-nt phasiRNA biogenesis pathways were identified. Further exploration of the regulatory function of phasiRNAs revealed eleven novel phasiRNAs with 21-nt length targeting forty-one genes, most of which involving in the growth and development of rice. In addition, five novel phasiRNAs with 24-nt length were found targeting the promoter of an OsCKI1 gene and causing higher methylation status in panicle, implying their regulatory function of the transcription of OsCKI1, and subsequently affect the development of rice. Conclusions: These results substantially extended the information of phasiRNA biogenesis pathways and their regulatory function in rice.

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“…These protein family has been involved in leaf senescence in plant [48]. LOC_Os09g14490.1 encodes a TIR-NBS type disease resistance protein, which has been identi ed in resistance to multiple viruses in plant [49][50][51]. LOC_Os02g55550.1 encodes a F-box/LRR-repeat protein 14, which is involved in plant immune response [52].…”

Section: Discussionmentioning

confidence: 99%

Degradome sequencing-based identification of phasiRNAs biogenesis pathways in Oryza sativa

Guo

Jiang

et al. 2020

Preprint

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Background: The microRNAs(miRNA)-derived secondary phased small interfering RNAs (phasiRNAs) participate in post-transcriptional gene silencing and play important roles in various bio-processes in plants. In rice, two miRNAs, miR2118 and miR2275, were mainly responsible for the triggering of 21-nt and 24-nt phasiRNAs biogenesis, respectively. However, compare to other plant species, relative fewer phasiRNA biogenesis pathways have been discovered in rice, which limits the comprehensive understanding of the mechanism of phasiRNA biogenesis and the miRNA derived regulatory network. Results: In this study, we performed a systematical searching for phasiRNA biogenesis pathways in rice. As a result, five novel 21-nt phasiRNA biogenesis pathways and five novel 24-nt phasiRNA biogenesis pathways were identified. Further exploration of the regulatory function of phasiRNAs revealed eleven novel phasiRNAs with 21-nt length targeting forty-one genes, most of which involving in the growth and development of rice. In addition, five novel phasiRNAs with 24-nt length were found targeting the promoter of an OsCKI1 gene and causing higher methylation status in panicle, implying their regulatory function of the transcription of OsCKI1, and subsequently affect the development of rice. Conclusions: These results substantially extended the information of phasiRNA biogenesis pathways and their regulatory function in rice.

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Over-expression of GmKR3, a TIR–NBS–LRR type R gene, confers resistance to multiple viruses in soybean

Cited by 51 publications

References 99 publications

Investigation for a multi-silique trait in Brassica napus by alternative splicing analysis

Investigation for a multi-silique trait in Brassica napus by alternative splicing analysis

Degradome Sequencing-based Identification of PhasiRNAs Biogenesis Pathways in Oryza Sativa

Degradome sequencing-based identification of phasiRNAs biogenesis pathways in Oryza sativa

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