Systematic analysis of Heat Shock Protein 70 (HSP70) gene family in radish and potential roles in stress tolerance

BMC Plant Biology, Год журнала: 2024, Номер 24(1)

Опубликована: Янв. 2, 2024

Abstract The 70 kD heat shock proteins (HSP70s) represent a class of molecular chaperones that are widely distributed in all kingdoms life, which play important biological roles plant growth, development, and stress resistance. However, this family has not been systematically characterized radish ( Raphanus sativus L.). In study, we identified 34 RsHSP70 genes unevenly within nine chromosomes R. . Phylogenetic multiple sequence alignment analyses classified the into six distinct groups (Group A–F). characteristics gene structures, motif distributions, corresponding cellular compartments were more similar closely linked groups. Duplication analysis revealed segmental duplication was major driving force for expansion RsHSP70s radish, particularly Group C. Synteny eight paralogs (Rs-Rs) genome 19 orthologs (Rs-At) between Arabidopsis , 23 (Rs-Br) Chinese cabbage. RNA-seq showed expression change some related to responses heat, drought, cadmium, chilling, salt stresses Plasmodiophora brassicae infection, patterns these significantly different among 14 tissues. Furthermore, targeted candidate gene, RsHSP70–23 product is localized cytoplasm involved certain abiotic P infection. These findings provide reference further studies improve yield tolerance radish.

Язык: Английский

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RsWRKY40 coordinates the cold stress response by integrating RsSPS1-mediated sucrose accumulation and the CBF-dependent pathway in radish (Raphanus sativus L.)

Molecular Horticulture, Год журнала: 2025, Номер 5(1)

Опубликована: Март 2, 2025

Abstract Cold stress adversely affects crop growth and development. Radish is an important root vegetable crop, its taproot formation susceptible to low temperatures. However, the molecular basis of cold response has not yet been fully dissected in radish. Here, a sucrose phosphate synthase gene ( RsSPS1 ) was identified through genome-wide association study transcriptome analysis. responsible for synthesis, shown be involved growth, cambium activity, tolerance regulated activity by modulating content. Moreover, RsWRKY40 as upstream transcription activator binding promoter. functioned -mediated accumulation. Furthermore, promoted RsCBF1 RsCBF2 expression levels, resulting elevated resilience. also enhanced own transcription, forming positive auto-regulatory loop regulate Together, module orchestrated integrating accumulation CBF-dependent pathway uncovered. These findings would provide novel insight into mechanism underlying cold-responsive facilitate genetic improvement radish breeding programs.

Язык: Английский

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Integrated genomic and transcriptomic analyses reveal the genetic and molecular mechanisms underlying hawthorn peel color and seed hardness diversity

Journal of genetics and genomics/Journal of Genetics and Genomics, Год журнала: 2025, Номер unknown

Опубликована: Апрель 1, 2025

Язык: Английский

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Genome-wide characterization of RsHSP70 gene family reveals positive role of RsHSP70-20 gene in heat stress response in radish (Raphanus sativus L.)

Plant Physiology and Biochemistry, Год журнала: 2023, Номер 199, С. 107710 - 107710

Опубликована: Апрель 14, 2023

Язык: Английский

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Development of SNP and InDel markers by genome resequencing and transcriptome sequencing in radish (Raphanus sativus L.)

BMC Genomics, Год журнала: 2023, Номер 24(1)

Опубликована: Авг. 8, 2023

Single nucleotide polymorphisms (SNPs) and insertions/deletions (InDels) are the most abundant genetic variations widely distribute across genomes in plant. Development of SNP InDel markers is a valuable tool for genetics genomic research radish (Raphanus sativus L.).In this study, total 366,679 single 97,973 insertion-deletion (InDel) were identified based on genome resequencing between 'YZH' 'XHT'. In all, 53,343 SNPs 4,257 InDels detected two cultivars by transcriptome sequencing. Among variations, 85 15 transcriptomic newly developed validated PCR. The 100 polymorphic generated 207 alleles among 200 Chinese germplasm, with an average 2.07 number (Na) 0.33 polymorphism information content (PIC). Population structure phylogenetic relationship revealed that from northern China clustered together southwest together. RNA-Seq analysis 11,003 differentially expressed genes (DEGs) cultivars, which 5,020 upregulated 5,983 downregulated. total, 145 flowering time-related DGEs detected, involved time integrator, circadian clock/photoperiod autonomous, vernalization pathways. region, 150 9 obtained.The large amount study will provide marker resource studies. within fundamental insight into dissecting molecular mechanism bolting radish.

Язык: Английский

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Two long read-based genome assembly and annotation of polyploidy woody plants, Hibiscus syriacus L. using PacBio and Nanopore platforms

Scientific Data, Год журнала: 2023, Номер 10(1)

Опубликована: Окт. 18, 2023

Abstract Improvements in long read DNA sequencing and related techniques facilitated the generation of complex eukaryotic genomes. Despite these advances, quality constructed plant reference genomes remains relatively poor due to large size genomes, high content repetitive sequences, wide variety ploidy. Here, we developed de novo assembly polyploid genome, Hibiscus syriacus , a flowering species Malvaceae family, using Oxford Nanopore Technologies Pacific Biosciences Sequel platforms. We investigated an efficient combination high-quality high-molecular-weight isolation procedure suitable assembler achieve optimal results data. found that abundant ultra-long reads allow for genome assemblies with great recovery sequences error correction even at low depth data polishing compared previous studies. Collectively, our provides cost effective methods improve continuity previously reported by accessing highly regions. The application this may enable genetic research breeding crops, thus leading improvements crop production.

Язык: Английский

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Apiaceae Medicinal Plants in China: A Review of Traditional Uses, Phytochemistry, Bolting and Flowering (BF), and BF Control Methods

Molecules, Год журнала: 2023, Номер 28(11), С. 4384 - 4384

Опубликована: Май 27, 2023

Apiaceae plants have been widely used in traditional Chinese medicine (TCM) for the removing dampness, relieving superficies, and dispelling cold, etc. In order to exploit potential applications as well improve yield quality of medicinal (AMPs), use, modern pharmacological phytochemistry, effect bolting flowering (BF), approaches controlling BF were summarized. Currently, about 228 AMPs recorded TCMs, with 6 parts, 79 uses, 62 5 main kinds metabolites. Three different degrees (i.e., significantly affected, affected some extent, not affected) could be classed based on quality. Although (e.g., Angelica sinensis) effectively controlled by standard cultivation techniques, mechanism has yet systemically revealed. This review will provide useful references reasonable exploration high-quality production AMPs.

Язык: Английский

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The mechanism by which oriented polypropylene packaging alleviates postharvest ‘Black Spot’ in radish root (Raphanus sativus)

Journal of Advanced Research, Год журнала: 2024, Номер unknown

Опубликована: Июнь 1, 2024

The postharvest physiological disorder known as 'black spot' in radish roots (Raphanus sativus) poses a significant challenge to quality maintenance during storage, particularly under summer conditions. cause of this disorder, however, is poorly understood.

Язык: Английский

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A near‐complete assembly of asparagus bean provides insights into anthocyanin accumulation in pods

Plant Biotechnology Journal, Год журнала: 2023, Номер 21(12), С. 2473 - 2489

Опубликована: Авг. 9, 2023

Summary Asparagus bean ( Vigna unguiculata ssp. sesquipedialis ), a subspecies of V. , is vital legume crop widely cultivated in Asia for its tender pods consumed as vegetables. However, the existing asparagus assemblies still contain numerous gaps and unanchored sequences, which presents challenges to functional genomics research. Here, we present an improved reference genome sequence elite variety, Fengchan 6, achieved through integration nanopore ultra‐long reads, PacBio high‐fidelity Hi‐C technology. The assembly 521.3 Mb length demonstrates several enhancements, including higher N50 (46.4 Mb), anchor ratio 99.8%, presence only one gap. Furthermore, successfully assembled 14 telomeres all 11 centromeres, four telomere‐to‐telomere chromosomes. Remarkably, centromeric regions cover total 38.1 Mb, providing valuable insights into complex architecture centromeres. Among 30 594 predicted protein‐coding genes, identified 2356 genes that are tandemly duplicated segmental duplication regions. These findings have implications defence responses may contribute evolutionary processes. By utilizing genome, were able effectively identify gene VuMYB114 regulates accumulation anthocyanins, thereby controlling purple coloration pods. This discovery holds significant understanding underlying mechanisms color determination breeding process. Overall, highly serves crucial resource lays solid foundation genomic studies genetic improvement efforts.

Язык: Английский

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RsPDR8, a member of ABCG subfamily, plays a positive role in regulating cadmium efflux and tolerance in radish (Raphanus sativus L.)

Plant Physiology and Biochemistry, Год журнала: 2023, Номер 205, С. 108149 - 108149

Опубликована: Окт. 29, 2023

Язык: Английский

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