Pangenome-based dynamic trajectories of intracellular gene transfers in Poaceae unveil a high rate of unceasing integration and selective retention in Triticeae DOI Open Access
Yongming Chen, Yiwen Guo, Xiaoming Xie

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2022, Volume and Issue: unknown

Published: Oct. 13, 2022

ABSTRACT Intracellular gene transfers (IGTs) between the nucleus and organelles, including plastids mitochondria, constantly reshapes nuclear genome during evolution. Despite substantial contribution of IGTs to variation, dynamic trajectories at pangenomic level remain elusive. Here, we propose a novel approach, IGTminer, map evolutionary by collinearity reannotation across multiple assemblies. IGTminer was applied create organelle (NOG) 67 genomes covering 15 Poaceae species, important crops, revealing polymorphisms trajectory dynamics NOGs. The NOGs produced were verified experimental evidence resequencing datasets. We found that most recently transferred lineage specific, Triticeae species tended have more than other species. Wheat had higher retention rate maize rice, retained likely involved in photosynthesis translation pathways. Large numbers NOG clusters aggregated hexaploid wheat two rounds polyploidization contributed genetic diversities among modern varieties. Finally, proposed radiocarbon-like model illustrating transfer elimination NOGs, highlighting unceasing integration selective over time. In addition, implemented an interactive webserver for exploration Poaceae. summary, this study provides new resources clues roles shaping inter- intraspecies variation driving plant

Language: Английский

Strategies for adaptation to high light in plants DOI Creative Commons
Man Zhang,

Yu Ming,

Hongbin Wang

et al.

aBIOTECH, Journal Year: 2024, Volume and Issue: 5(3), P. 381 - 393

Published: May 13, 2024

Abstract Plants absorb light energy for photosynthesis via photosystem complexes in their chloroplasts. However, excess can damage the photosystems and decrease photosynthetic output, thereby inhibiting plant growth development. have developed a series of acclimation strategies that allow them to withstand high light. In first line defense against light, leaves chloroplasts move away from accumulates compounds filter reflect second defense, known as photoprotection, plants dissipate through non-photochemical quenching, cyclic electron transport, photorespiration, scavenging reactive oxygen species. third which occurs after photodamage, initiate cycle (mainly II) repair. addition being site photosynthesis, sense stress, especially transduce stress signal nucleus, where it modulates expression genes involved response. this review, we discuss current progress our understanding mechanisms employed by at whole-plant, cellular, physiological, molecular levels across three lines defense.

Language: Английский

Citations

11
Adaptation of High-Altitude Plants to Plateau Abiotic Stresses: A Case Study of the Qinghai-Tibet Plateau DOI Open Access
Pengcheng Sun,

Ruirui Hao,

Fangjing Fan

et al.

International Journal of Molecular Sciences, Journal Year: 2025, Volume and Issue: 26(5), P. 2292 - 2292

Published: March 4, 2025

High-altitude regions offer outstanding opportunities for investigating the impacts of combined abiotic stresses on plant physiological processes given their significant differences in terms ecological environment high-elevation areas, low anthropogenic disturbance, and obvious distribution characteristics plants along altitudinal gradients. Therefore, high-altitude areas can be used as good targets exploring adaptations to stress under extreme conditions. Plants that thrive environments such Qinghai-Tibet Plateau endure stresses, including temperatures, high UV radiation, nutrient-poor soils. This study explores adaptation mechanisms via phenotypic variation analyses multiomics approaches. Key findings highlight traits increased photosynthetic efficiency, robust antioxidant systems, morphological modifications tailored These insights advance our understanding evolution harsh inform strategies increase resistance crops.

Language: Английский

Citations

1
N6-methyladenosine RNA modification regulates photosynthesis during photodamage in plants DOI Creative Commons
Man Zhang,

Yunping Zeng,

Rong Peng

et al.

Nature Communications, Journal Year: 2022, Volume and Issue: 13(1)

Published: Dec. 2, 2022

Abstract N 6 -methyladenosine (m A) modification of mRNAs affects many biological processes. However, the function m A in plant photosynthesis remains unknown. Here, we demonstrate that is crucial for during photodamage caused by high light stress plants. The levels numerous photosynthesis-related transcripts are changed after stress. We determine Arabidopsis writer VIRILIZER (VIR) positively regulates photosynthesis, as its genetic inactivation drastically lowers photosynthetic activity and photosystem protein abundance under conditions. decrease vir mutants, extensively reducing their transcript translation levels, revealed multi-omics analyses. VIR associates with genes encoding proteins functions related to photoprotection (such HHL1 , MPH1 STN8 ) regulatory regulators stability translation), promoting maintaining efficiency. This study thus reveals an important mechanism A-dependent maintenance efficiency plants

Language: Английский

Citations

34
UV-B promotes flavonoid biosynthesis in Ginkgo biloba by inducing the GbHY5-GbMYB1-GbFLS module DOI Creative Commons
Sian Liu,

Xiaoyin Gu,

Yanbing Jiang

et al.

Horticulture Research, Journal Year: 2023, Volume and Issue: 10(8)

Published: June 2, 2023

Ginkgo biloba (ginkgo) leaves have medicinal value due to their high levels of secondary metabolites, such as flavonoids. We found that the flavonoid content in ginkgo increases significantly at altitudes (Qinghai-Tibet Plateau). Considering UV-B radiation is among key environmental characteristics Qinghai-Tibet Plateau, we carried out simulated treatments on seedlings and increased following treatments. Combined with results from our previous studies, determined transcription factor GbHY5 may play a role responses radiation. Overexpression promoted accumulation flavonoids both callus Arabidopsis thaliana. Furthermore, yeast two-hybrid real-time quantitative PCR showed expression GbMYB1 by interacting protein. A. thaliana also biosynthesis. GbFLS encodes enzyme biosynthesis, its promoter has binding elements GbMYB1. A dual-luciferase reporter assay indicated while activated individually, co-expression achieved greater activation. Our analyses reveal molecular mechanisms which UV-B-induced GbHY5-GbMYB1-GbFLS module promotes biosynthesis ginkgo, they provide insight into use enhance leaves.

Language: Английский

Citations

21
Bupleurum chinense and Medicago sativa sustain their growth in agrophotovoltaic systems by regulating photosynthetic mechanisms DOI
Siqi Zhang, Jirui Gong, Cunde Xiao

et al.

Renewable and Sustainable Energy Reviews, Journal Year: 2023, Volume and Issue: 189, P. 114024 - 114024

Published: Nov. 8, 2023

Language: Английский

Citations

11
Pangenome-based trajectories of intracellular gene transfers in Poaceae unveil high cumulation in Triticeae DOI Creative Commons
Yongming Chen, Yiwen Guo, Xiaoming Xie

et al.

PLANT PHYSIOLOGY, Journal Year: 2023, Volume and Issue: 193(1), P. 578 - 594

Published: May 30, 2023

Intracellular gene transfers (IGTs) between the nucleus and organelles, including plastids mitochondria, constantly reshape nuclear genome during evolution. Despite substantial contribution of IGTs to variation, dynamic trajectories at pangenomic level remain elusive. Here, we developed an approach, IGTminer, that maps evolutionary using collinearity reannotation across multiple assemblies. We applied IGTminer create a organellar (NOG) map 67 genomes covering 15 Poaceae species, important crops. The resulting NOGs were verified by experiments sequencing data sets. Our analysis revealed most recently transferred lineage specific Triticeae species tended have more than other species. Wheat (Triticum aestivum) had higher retention rate maize (Zea mays) rice (Oryza sativa), retained likely involved in photosynthesis translation pathways. Large numbers NOG clusters aggregated hexaploid wheat 2 rounds polyploidization, contributing genetic diversity among modern accessions. implemented interactive web server facilitate exploration Poaceae. In summary, this study provides resources insights into roles shaping interspecies intraspecies variation driving plant

Language: Английский

Citations

10
Substrate specificity and protein stability drive the divergence of plant-specific DNA methyltransferases DOI Creative Commons
Jianjun Jiang, Jia Gwee, Jian Fang

et al.

Science Advances, Journal Year: 2024, Volume and Issue: 10(45)

Published: Nov. 6, 2024

DNA methylation is an important epigenetic mechanism essential for transposon silencing and genome integrity. Across evolution, the substrates of have diversified between kingdoms. In plants, chromomethylase3 (CMT3) CMT2 mediate CHG CHH methylation, respectively. However, how these two methyltransferases diverge on substrate specificities during evolution remains unknown. Here, we reveal that originates from a duplication evolutionarily ancient CMT3 in flowering plants. Lacking key arginine residue recognizing impairs its activity most An engineered V1200R mutation empowers to restore methylations Arabidopsis cmt2cmt3 mutant, testifying loss-of-function effect evolution. has evolved long unstructured amino terminus critical protein stability, especially under heat stress, plastic tolerate various natural mutations. Together, this study reveals chromomethylase divergence context-specific plants sheds lights function.

Language: Английский

Citations

2
The complete chloroplast genome of Brassica rapa var. purpuraria (L.H.Bailey) Kitam 1950 and its phylogenetic analysis DOI Creative Commons

Xianyu Zhou,

Hailong Ren, Jing Zhang

et al.

Mitochondrial DNA Part B, Journal Year: 2024, Volume and Issue: 9(1), P. 143 - 147

Published: Jan. 2, 2024

Zicaitai (Brassica rapa var. purpuraria (L.H.Bailey) Kitam 1950) is a vegetable crop that boasts high nutritional value and unique flavor. It originated from Central China was formed after long-term cultivation domestication. In this study, we obtained the complete sequence of chloroplast genome zicaitai, circular molecule 153,483 bp in length. This consists large single-copy (LSC) region (83,282 bp), small (SSC) (17,775 pair inverted repeats (IRs) (26,213 bp). By annotation, 132 genes, including 87 protein-coding 37 tRNA eight rRNA genes were identified zicaitai chloroplast. A total 315 simple (SSRs) found located LSC (197), SSC (72), IR (46), respectively. Phylogenetic analysis based on genomes indicated relationship Brassicaceae family, which supports as variety B. taxonomy. The results study provide insight into further research Brassica chloroplasts their phylogeny.

Language: Английский

Citations

0
Substrate specificity and protein stability drive the divergence of plant-specific DNA methyltransferases DOI
Jianjun Jiang, Jia Gwee, Jian Fang

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: July 16, 2024

Abstract DNA methylation is an important epigenetic mechanism essential for transposon silencing and genome integrity. Across evolution, the substrates of have diversified between kingdoms to account complexity. In plants, Chromomethylase3 (CMT3) CMT2 are major methyltransferases mediating CHG CHH methylation, respectively. However, how these two enzymes diverge on substrate specificities during evolution remains unknown. Here, we reveal that originates from a duplication evolutionarily more ancient CMT3 in flowering plants. Lacking key arginine residue recognizing impairs its activity most An engineered V1200R mutation empowers restore both Arabidopsis cmt2cmt3 mutant, testifying loss-of-function effect after ∼200 million years evolution. Interestingly, has evolved long unstructured N-terminus critical balancing protein stability, especially under heat stress. Furthermore, plastic can be tolerant various natural mutations. Together, this study reveals chromomethylase divergence context-specific plants sheds lights function.

Language: Английский

Citations

0
Canopy light distribution effects on light use efficiency in wheat and its mechanism DOI Creative Commons
Jie Zhang, Zhiyong Zhang,

Furong Neng

et al.

Frontiers in Ecology and Evolution, Journal Year: 2022, Volume and Issue: 10

Published: Oct. 6, 2022

Optimizing canopy light distribution (CLD) has manifested improved utility and yield without modifying other inputs. Nonetheless, molecular mechanisms working at cellular organelle level remain to be elucidated. The current study aimed assess the effect of CLD on photosynthetic performance wheat, investigate into mechanism underlying photosynthetically active radiation (PAR)–use efficiency (PUE) optimized CLD. Wheat was planted in two rows having different spacing [R1 (15 cm) R2 (25 cm)] simulate Flag penultimate leaves were subjected chloroplast proteomics analysis. An increase row positively affects A decrease (16.64%) PAR interception upper layer, an (19.76%) middle PUE (12.08%), increased (9.38%) recorded. abundance proteins associated with electron transport, redox state, carbon-nitrogen assimilation differentially altered by optimization. In leaves, reduced photosystem II (PSII) light-harvesting proteins, PSII-subunits, I (PSI) NAD(P)H quinone oxidoreductase (NQO) enzymes involved carbon compared R1. Additionally, leaf stomatal conductance increased. Altogether, these findings demonstrated that regulation proteome is intimately linked utilization, which provide basis for genetic manipulation crop species better adaptation improvement cultivation strategies.

Language: Английский

Citations

2