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2024
Cotton bollworm (H. armigera) effector PPI5 targets FKBP17-2 to inhibit ER immunity and JA/SA responses, enhancing insect feeding
- Date: 01 October, 2024
- Journal: Advanced Science
- Authors: Yaxin Wang, Chuanying Zhu, Gefei Chen, Xuke Li, Mingjv Zhu, Muna Alariqi, Amjad Hussian, Weihua Ma, Keith Lindsey, Xianlong Zhang, Xinhui Nie, Shuangxia Jin
- Results: Here, a novel H. armigeraeffector peptidyl prolyl trans-isomerase 5 (PPI5) was isolated and characterized.
- Keywords: Cotton, H. armigera, Effector, peptidyl prolyl trans-isomerase 5 (PPI5), Insect
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CRISPR/dCas13(Rx) Derived RNA N6-methyladenosine (m6A) Dynamic Modification in Plant
- Date: 04 September, 2024
- Journal: Advanced Science
- Authors: Lu Yu, Muna Alariqi, Baoqi Li, Amjad Hussain, Huifang Zhou, Qiongqiong Wang, Fuqiu Wang, Guanying Wang, Xiangqian Zhu, Fengjiao Hui, Xiyan Yang, Xinhui Nie, Xianlong Zhang, Shuangxia Jin
- Results: Here, programmable m6A editing tools are developed by combining CRISPR/dCas13(Rx) with the methyltransferase GhMTA (Targeted RNA Methylation Editor, TME) or the demethyltransferase GhALKBH10 (Targeted RNA Demethylation Editor, TDE).
- Keywords: Cotton, CRISPR/dCas13(Rx), m6A
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CRISPR-Cas9-mediated construction of a cotton CDPK mutant library for identification of insect-resistance genes
- Date: 12 August, 2024
- Journal: Plant Communications
- Authors: Fuqiu Wang, Sijia Liang, Guanying Wang, Tianyu Hu, Chunyang Fu, Qiongqiong Wang, Zhongping Xu, Yibo Fan, Lianlian Che, Ling Min, Bo Li, Lu Long, Wei Gao, Xianlong Zhang, Shuangxia Jin
- Results: Calcium-dependent protein kinases (CDPKs) act as key signal transduction enzymes in plants, especially in response to diverse stresses, including herbivory.
- Keywords: Cotton, CDPKs, mutant library, CRISPR-Cas9, Ca2+ influx, insect resistance
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Precise fine-turning of GhTFL1 by base editing tools defines ideal cotton plant architecture
- Date: 26 February, 2024
- Journal: Genome Biology
- Authors: Guanying Wang, Fuqiu Wang, Zhongping Xu, Ying Wang, Can Zhang, Yi Zhou, Fengjiao Hui, Xiyan Yang, Xinhui Nie, Xianlong Zhang & Shuangxia Jin
- Results: Here, we develop a set of highly efficient base editors in cotton plants. GhABE8e, which is fused to conventional nCas9, exhibits 99.9% editing efficiency, compared to GhABE7.10 with 64.9%, and no off-target editing is detected. We further replace nCas9 with dCpf1, which recognizes TTTV PAM sequences, to broaden the range of the target site. To explore the functional divergence of TERMINAL FLOWER 1 (TFL1), we edit the non-coding and coding regions of GhTFL1 with 26 targets to generate a comprehensive allelic population including 300 independent lines in cotton. This allows hidden pleiotropic roles for GhTFL1 to be revealed and allows us to rapidly achieve directed domestication of cotton and create ideotype germplasm with moderate height, shortened fruiting branches, compact plant, and early-flowering. Further, by exploring the molecular mechanism of the GhTFL1L86P and GhTFL1K53G+S78G mutations, we find that the GhTFL1L86P mutation weakens the binding strength of the GhTFL1 to other proteins but does not lead to a complete loss of GhTFL1 function.
- Keywords: Cotton, Genome editing, Base editor, Directed evolution, Plant ideotype
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2023
Construction of Host Plant Insect-Resistance Mutant Library by High-Throughput CRISPR/Cas9 System and Identification of A Broad-Spectrum Insect Resistance Gene
- Date: 30 November, 2023
- Journal: Advanced Science
- Authors: Lin Sun, Muna Alariqi, Yaxin Wang, Qiongqiong Wang, Zhongping Xu, Muhammad Naeem Zafar, Guangqin Yang, Ruoyu Jia, Amjad Hussain, Yilin Chen, Xiao Ding, Jiawei Zhou, Guanying Wang, Fuqiu Wang, Jianying Li, Jiawei Zou, Xiangqian Zhu, Lu Yu, Yiwen Sun, Sijia Liang, Fengjiao Hui, Luo Chen, Weifeng Guo, Yanqin Wang, Huaguo Zhu, Keith Lindsey, Xinhui Nie, Xianlong Zhang, Shuangxia Jin
- Results: Here, they describe a high-throughput CRISPR/Cas9-mediated large-scale mutagenesis library targeting endogenous insect-resistance-related genes in cotton.
- Keywords: High-Throughput CRISPR/Cas9 System, Insect-Resistance Mutant Library, Broad-Spectrum Insect Resistance
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The chromosome-scale reference genome of mirid bugs (Adelphocoris suturalis) genome provides insights into omnivory, insecticide resistance, and survival adaptation
- Date: 19 September, 2023
- Journal: BMC Biology
- Authors: Zhongping Xu, Guanying Wang, Jing Luo, Mingju Zhu, Lisong Hu, Sijia Liang, Bo Li, Xingxing Huang, Ying Wang, Guangyu Zhang, Can Zhang, Yi Zhou, Daojun Yuan, Taiyu Chen, Lizhen Chen, Weihua Ma, Wei Gao, Keith Lindsey, Xianlong Zhang, Fang Ding & Shuangxia Jin
- Results: The resulting 1.29 Gb assembly contains twelve chromosomal pseudomolecules with an N50 of 1.4 and 120.6 Mb for the contigs and scaffolds, respectively, and carries 20,010 protein-coding genes. The considerable size of the A. suturalis genome is predominantly attributed to a high amount of retrotransposons, especially long interspersed nuclear elements (LINEs).
- Keywords: Adelphocoris suturalis, Chromosome-scale reference genome, Candidate effectors, Omnivory, Detoxification
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Single-cell resolution analysis reveals the preparation for reprogramming the fate of stem cell niche in cotton lateral meristem
- Date: 25 August, 2023
- Journal: Genome Biology
- Authors: Xiangqian Zhu, Zhongping Xu, Guanying Wang, Yulong Cong, Lu Yu, Ruoyu Jia, Yuan Qin, Guangyu Zhang, Bo Li, Daojun Yuan, Lili Tu, Xiyan Yang, Keith Lindsey, Xianlong Zhang & Shuangxia Jin
- Results: We generate a high-resolution single-cell transcriptomic landscape of hypocotyl tissue from the highly regenerable cotton genotype Jin668 and the recalcitrant TM-1. We identify nine putative cell clusters and 23 cluster-specific marker genes for both cultivars and find that the primary vascular cell is the major cell type that undergoes cell fate transition in response to external stimulation. Further developmental trajectory and gene regulatory network analysis of these cell clusters reveals that a total of 41 hormone response-related genes, including LAX2, LAX1, and LOX3, exhibit different expression patterns in the primary xylem and cambium region of Jin668 and TM-1. We also identify novel genes, including CSEF, PIS1, AFB2, ATHB2, PLC2, and PLT3, that are involved in regeneration.
- Keywords: Cotton, Plant regeneration, scRNA-seq, Gene regulatory network, Gene functional verification
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2022
Development of an efficient and precise adenine base editor (ABE) with expanded target range in allotetraploid cotton (Gossypium hirsutum)
- Date: February 15, 2022
- Journal: BMC Biology
- Authors: Guanying Wang, Zhongping Xu, ..., Shuangxia Jin
- Keywords: Cotton, CRISPR/nCas9, dCas9, dCpf1, Adenine base editors (ABEs), Off-target mutations
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2021
Plant Single Cell Transcriptome Hub (PsctH): an integrated online tool to explore the plant single-cell transcriptome landscape
- Date: 15 October, 2021
- Journal: Plant Biotechnology Journal
- Authors: Zhongping Xu, Qiongqiong Wang, Xiangqian Zhu, Guanying Wang, Yuan Qin, Fang Ding, Lili Tu, Henry Daniell, Xianlong Zhang, Shuangxia Jin
- Keywords: Plant, scRNA, MarkerGeneDB
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2019
The chromosome-scale reference genome of black pepper provides insight into piperine biosynthesis
- Date: 2019-10-16
- Journal: Nature Communications
- Authors: Lisong Hu, Zhongping Xu, ..., Shuangxia Jin
- Keywords: black pepper, chromosome-scale genome, piperine biosynthesis
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2017
A transgenic strategy for controlling plant bugs (Adelphocoris suturalis) through expression of double-stranded RNA homologous to fatty acyl-coenzyme A reductase in cotton
- Date: 13 June, 2017
- Journal: New Phytologist
- Authors: Jing Luo, Sijia Liang, Jianying Li, Zhongping Xu, Lun Li, Bangqin Zhu, Zhe Li, Chaoliang Lei, Keith Lindsey, Lizhen Chen, Shuangxia Jin, Xianlong Zhang
- Keywords: double-stranded RNA, fatty acyl-coenzyme A reductase (FAR), pest control, plant bugs (Adelphocoris suturalis), RNA interference, transgenic cotton
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