Targeted genome-modification tools and their advanced applications in crop breeding

Nature Reviews Genetics, Journal Year: 2024, Volume and Issue: 25(9), P. 603 - 622

Published: April 24, 2024

Language: Английский

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Genome-wide identification and comparative analysis of the AP2/ERF gene family in Prunus dulcis and Prunus tenella: expression of PdAP2/ERF genes under freezing stress during dormancy

BMC Genomics, Journal Year: 2025, Volume and Issue: 26(1)

Published: Jan. 31, 2025

The AP2/ERF (APETALA2/ethylene responsive factor) transcription factor family, one of the largest in plants, plays a crucial role regulating various biological processes, including plant growth and development, hormone signaling, stress response. This study identified 114 116 genes genomes 'Wanfeng' almond (Prunus dulcis) 'Yumin' wild dwarf tenella), respectively. These were categorized into five subfamilies: AP2, DREB, ERF, RAV, Soloist. PdAP2/ERF PtAP2/ERF members both demonstrated high conservation protein motifs gene structures. Members families unevenly distributed across eight chromosomes, with 30 27 pairs segmental duplications 15 18 tandem repeated genes, promoter regions family contained numerous important cis-elements related to regulation, Expression pattern analysis revealed that exhibited characteristics under freezing at different temperatures perennial dormant branches. Quantitative fluorescence indicated might be more intensely expressed phloem branches almond, opposite trend observed xylem. compared initially explored expression patterns xylem findings provide theoretical foundation for future research on improvement breeding, as well molecular mechanisms underlying resistance stress.

Language: Английский

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Identification of the citrus GRF gene family and its expression in fruit peel thickening mediated by gibberellin

BMC Plant Biology, Journal Year: 2025, Volume and Issue: 25(1)

Published: Feb. 18, 2025

Growth-regulating factors (GRFs) play a crucial role in plant growth and development, particularly cell division expansion. Citrus fruit cracking, prevalent issue, adversely impacts both yield quality. Gibberellins (GAs) are known to ameliorate citrus cracking by inducing thicker peel formation, which is attributed However, the mechanistic link between gibberellins thickening, whether this process mediated GRF genes regulation, has not been definitively established. In study, 8 CsGRFs (Citrus sinensis), 11 CcGRFs clementina), CgGRFs grandis) were identified from genome divided into six clusters, with of same cluster sharing similar gene structures. Cis-elements analysis revealed that promoter regions contained numerous hormone-responsive elements. Tissue expression profiles showed CsGRF had higher levels young tissues, including early one-year-leaf, ovules, root tips. RNA-seq qPCR analyses CsGRF3, 4, 7, significantly regulated response GA3 treatment. Notably, CsGRF8 was most induced highly expressed stages development. These findings indicate may exert regulatory effects on development through induction genes. This study systematically analyzed characteristics family, as well changes thickness patterns under gibberellin provide valuable insights for advancing research regulating could help reduce occurrence cracking. Not applicable.

Language: Английский

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Comprehensive characterization of poplar HSP20 gene family: genome-wide identification, stress-induced expression profiling, and protein interaction verifications

BMC Plant Biology, Journal Year: 2025, Volume and Issue: 25(1)

Published: Feb. 25, 2025

Heat shock proteins (HSP20s) are crucial components in plant stress responses, acting as molecular chaperones to safeguard cellular integrity and prevent abnormal protein aggregation. While extensive research has been conducted on HSP20s various species, limited information is available regarding the HSP20 family poplar (Populus yunnanensis), a species of significant ecological economic importance native southwestern China. To elucidate distribution, structural features, functional characteristics P. yunnanensis, combination bioinformatics tools experimental validation was utilized. A total 53 PyHSP20s were identified within yunnanensis genome classified into 12 subfamilies: CI, CII, CIII, CIV, CV, CVI, CVII, MI, MII, ER, CP, Px containing 24, 1, 2, 14, 3, 1 proteins, respectively. Classification based subcellular localization phylogenetic relationships, revealing subfamilies with varying exon–intron structures conserved motifs. The 3D analysis showed differentiation, CI subfamily exhibiting 8 β-sheets, compared 7 β-sheets other subfamilies. Additionally, N-terminal arms displayed heterogeneity length sequence. unevenly distributed across 15 chromosomes, tandem segmental duplications explaining expansion subfamilies, particularly CVII. cis-elements associated response hormone regulation underscored critical role PyHSP20 adaptation. Expression profiling via database qRT-PCR confirmed responsiveness multiple stressors, including salt, mannitol, drought, heat, abscisic acid (ABA). Furthermore, Yeast Two-Hybrid (Y2H) assays demonstrated potential regulatory interactions between involved responses. These findings provide comprehensive understanding classification, roles thereby establishing foundation for future investigations this family.

Language: Английский

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Function diversification of CONSTANS-like genes in Pyrus and regulatory mechanisms in response to different light quality

BMC Plant Biology, Journal Year: 2025, Volume and Issue: 25(1)

Published: March 10, 2025

Pear (Pyrus L.) is a significant commercial fruit globally, with diverse species exhibiting variations in their flowering periods due to environmental factors. CONSTANS-like (COL) genes, known from previous studies Arabidopsis, are key regulators of time by sensing photoperiod. However, the evolutionary history and functions COL genes different pear remain unclear. In this study, we identified total 79 species, including 12 Pyrus bretschneideri 'DangshanSuli', 9 ussuriensis × hybrid 'Zhongai 1', 11 communis 'Bartlett', 13 betulifolia, 18 pyrifolia 'Cuiguan', 16 'Nijisseiki'. Analysis gene structure, phylogenetic tree, multiple sequences provided valuable insights into fundamental understanding pear. The impact selection pressure on PbrCOLs Chinese white was assessed using Ka/Ks, revealing that evolution rate influenced purification study also revealed tissue-specific expression patterns under varying light quality. Real-time quantitative PCR natural conditions, PbrCOL2, PbrCOL3, PbrCOL4 similar CONSTANS increased levels during day decreased at night. PbrCOL1, PbrCOL6, PbrCOL9 exhibit patterns, both After red treatment, high PbrCOL3 observed night, while other four did not show changes. Following blue peaks PbrCOL1 PbrCOL6 occurred showing opposite compared Arabidopsis. overexpression significantly increase chlorophyll content seedlings, its affected flowering-related genes. Also, resulted late-flowering phenotype These findings indicate responsive mechanisms PbrCOL conclusion, established foundation for deeper specific roles regulating reproductive development pear, particularly context photoperiodic process.

Language: Английский

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Chinese cherry CpMYB44‐CpSPDS2 module regulates spermidine content and florescence in tobacco

Physiologia Plantarum, Journal Year: 2024, Volume and Issue: 176(2)

Published: March 1, 2024

Abstract The flower bud differentiation plays a crucial role in cherry yield and quality. In preliminary study, we revealed the promotion of spermidine (Spd) However, molecular mechanism underlying Spd regulating remains unclear. To address this research gap, cloned CpSPDS2 , gene that encodes synthase is highly expressed whole flowers pistils Chinese (cv. ‘Manaohong’). Furthermore, an overexpression vector with was constructed to transform tobacco plants. findings demonstrated transgenic lines exhibited higher content, earlier flowering time by 6 d, more lateral buds than wild‐type lines. Additionally, yeast one‐hybrid assays two‐luciferase experiments confirmed R2R3‐MYB transcription factor (CpMYB44) directly binds activates promoter transcription. It indicated CpMYB44 promotes accumulation via expression, thus accelerating growth. This provides basis for resolving involved differentiation.

Language: Английский

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Shade responses and resistant mechanisms in Spatholobus suberectus

Heliyon, Journal Year: 2024, Volume and Issue: 10(6), P. e28077 - e28077

Published: March 1, 2024

The medicinal plant Spatholobus suberectus Dunn is easily exposed to shade stress during growth, but its responses and resistant mechanisms have not been clarified. In this study, treatments including four attenuated sunlight intensities (100%, 60%, 40%, 10%) three durations (30 d, 45 60 d) were applied S. suberectus. shade-induced morphological indicators, phytohormonal regulations, metabolic flavonoids contents, transcriptomic flavonoid pathway gene expressions, physiological changes of analyzed. putative promoter cis-regulatory elements (CREs) 18 biosynthetic genes identified. Results showed the stem growth indicators better at 40% light intensity. Phytohormones involved in responses. Short-term increased total flavonoids, gallated catechins especially epigallocatechin gallate contents favored for boosting value. Long-term (45 tended decrease flavonoids. attributed their corresponding biosynthesizing expression variations. high antioxidant capacity presence phytohormone-, stress-, development-related CREs provided basis resistance. conclusion, multiple under analysis elucidated suberectus' tolerance.

Language: Английский

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Transcription factors WRKY2 and WRKY34 control LATERAL ORGAN BOUNDARIES DOMAIN10 expression in pollen vegetative cell nuclei

PLANT PHYSIOLOGY, Journal Year: 2024, Volume and Issue: unknown

Published: Sept. 5, 2024

The intricate regulation of gene expression determining cell fate during male gametogenesis involves a complex interplay multiple transcriptional regulators. In Arabidopsis (Arabidopsis thaliana), the LATERAL ORGAN BOUNDARIES DOMAIN 10 (LBD10) transcription factor is prominent in early microspores and both germ vegetative cells bicellular pollen, playing an important role pollen development. However, mature LBD10 exclusively localizes nucleus. Here, we identify cis-acting elements trans-acting factors responsible for specific nucleus maturation. Using series promoter deletion constructs fused with GUS or GFP reporters, pinpoint two crucial core sequences. These sequences are situated within 200 bp regions upstream start codon independently govern We demonstrate that W-box motif (AGTCAC) at -770 essential activating Our transient assays using protoplasts chromatin immunoprecipitation show WRKY2 WRKY34 recognize region containing motifs. Collectively, our findings suggest binding to motifs plays nucleus-specific pollen. This interaction may contribute gametophyte development, shedding light on regulatory network governing this critical biological process.

Language: Английский

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Comprehensive Analysis of the Catalase (CAT) Gene Family and Expression Patterns in Rubber Tree (Hevea brasiliensis) under Various Abiotic Stresses and Multiple Hormone Treatments

International Journal of Molecular Sciences, Journal Year: 2023, Volume and Issue: 25(1), P. 70 - 70

Published: Dec. 20, 2023

Catalase (CAT) is one of the key enzymes involved in antioxidant defense systems and mainly scavenges H2O2 plays a vital role plant growth, development, various adverse stresses. To date, systematic study CAT gene family rubber tree has not been reported. In this study, five HbCAT members were identified from genome, these clustered into two subfamilies. Gene structure motif analysis showed that exon-intron patterns conserved across different species. Sequence revealed proteins contain active catalytic site, heme-ligand signature sequence, three amino acid residues (His, Tyr, Asn), peroxisome-targeting signal 1 (PTS1) sequence. Fragment duplication selection pressure for evolution based on Ka/Ks values. Analysis cis-acting elements promoters indicated expression might be regulated by abscisic (ABA), salicylic (SA), MYB transcription factors; furthermore, genes abiotic stress responses. A tissue-specific HbCATs gradually increased with leaf development highly expressed mature leaves. profiling exhibited differential under cold, heat, drought, NaCl Our results provide comprehensive information about family, laying foundation further research its function tree.

Language: Английский

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Genome-Wide Identification and Expression Profiling of the BES1 Gene Family in Medicago sativa

Agronomy, Journal Year: 2024, Volume and Issue: 14(10), P. 2287 - 2287

Published: Oct. 4, 2024

Brassinosteroid (BR) signaling is regulated by BRI1-EMS SUPPRESSOR 1 (BES1) transcription factors, which are crucial for plant growth, development, and stress responses. Despite their importance, BES1 gene studies in Medicago sativa L. limited, hindering our understanding of the BR this species. This study identified four genes M. sativa; characterized properties, conserved motifs, cis-regulatory elements, chromosomal location; explored functions development A phylogenetic analysis grouped these into two subfamilies. Transcript profiling showed widespread tissue-specific expression patterns. qRT-PCR unveiled that most MsBESI were upregulated under salt drought treatments, except MsG0280009980, was suppressed. research lays groundwork enhancing resistance family’s function.

Language: Английский

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