Machine learning classification of plant genotypes grown under different light conditions through the integration of multi-scale time-series data DOI Creative Commons
Nazmus Sakeef, Sabine Scandola, Curtis Kennedy

et al.

Computational and Structural Biotechnology Journal, Journal Year: 2023, Volume and Issue: 21, P. 3183 - 3195

Published: Jan. 1, 2023

In order to mitigate the effects of a changing climate, agriculture requires more effective evaluation, selection, and production crop cultivars in accelerate genotype-to-phenotype connections selection beneficial traits. Critically, plant growth development are highly dependent on sunlight, with light energy providing plants required photosynthesize as well means directly intersect environment develop. analyses, machine learning deep techniques have proven ability learn patterns, including detection disease, stress, using variety image data. To date, however, studies not assessed algorithms for their differentiate large cohort genotypes grown under several conditions time-series data automatically acquired across multiple scales (daily developmentally). Here, we extensively evaluate wide range 17 well-characterized photoreceptor deficient differing capabilities different conditions. Using algorithm performance measurements precision, recall, F1-Score, accuracy, find that Suport Vector Machine (SVM) maintains greatest classification while combined ConvLSTM2D model produces best genotype results Our successful integration scales, sets new foundational baseline from which complex science traits can be connections.

Language: Английский

Leaf senescence: progression, regulation, and application DOI Creative Commons
Yongfeng Guo, Guodong Ren, Kewei Zhang

et al.

Molecular Horticulture, Journal Year: 2021, Volume and Issue: 1(1)

Published: June 16, 2021

Abstract Leaf senescence, the last stage of leaf development, is a type postmitotic senescence and characterized by functional transition from nutrient assimilation to remobilization which essential for plants’ fitness. The initiation progression are regulated variety internal external factors such as age, phytohormones, environmental stresses. Significant breakthroughs in dissecting molecular mechanisms underpinning have benefited identification senescence-altered mutants through forward genetic screening assessment hundreds senescence-associated genes ( SAGs ) via reverse research model plant Arabidopsis thaliana well crop plants. involves highly complex programs that tightly tuned multiple layers regulation, including chromatin transcription post-transcriptional, translational post-translational regulation. Due significant impact on photosynthesis, remobilization, stress responses, productivity, much effort has been made devising strategies based known regulatory manipulate aiming higher yield, better quality, or improved horticultural performance This review aims provide an overview discuss recent advances multi-dimensional regulation network perspectives. We also put key issues need be addressed, nature stay-green trait, coordination between different pathways, source-sink relationship researches senescence.

Language: Английский

Citations

262
Rice functional genomics: decades’ efforts and roads ahead DOI
Rongzhi Chen, Yiwen Deng, Yanglin Ding

et al.

Science China Life Sciences, Journal Year: 2021, Volume and Issue: 65(1), P. 33 - 92

Published: Dec. 7, 2021

Language: Английский

Citations

168
Vertical Farming: Moving from Genetic to Environmental Modification DOI
Malleshaiah SharathKumar, E. Heuvelink, L.F.M. Marcelis

et al.

Trends in Plant Science, Journal Year: 2020, Volume and Issue: 25(8), P. 724 - 727

Published: June 18, 2020

Language: Английский

Citations

167
A photoregulatory mechanism of the circadian clock in Arabidopsis DOI
Xu Wang, Bochen Jiang, Lianfeng Gu

et al.

Nature Plants, Journal Year: 2021, Volume and Issue: 7(10), P. 1397 - 1408

Published: Oct. 14, 2021

Language: Английский

Citations

131
Complex plant responses to drought and heat stress under climate change DOI Creative Commons
Hikaru Sato, Junya Mizoi, Kazuo Shinozaki

et al.

The Plant Journal, Journal Year: 2024, Volume and Issue: 117(6), P. 1873 - 1892

Published: Jan. 3, 2024

SUMMARY Global climate change is predicted to result in increased yield losses of agricultural crops caused by environmental conditions. In particular, heat and drought stress are major factors that negatively affect plant development reproduction, previous studies have revealed how these stresses induce responses at physiological molecular levels. Here, we provide a comprehensive overview current knowledge concerning drought, heat, combinations conditions the status plants, including crops, affecting such as stomatal conductance, photosynthetic activity, cellular oxidative conditions, metabolomic profiles, signaling mechanisms. We further discuss stress‐responsive regulatory transcription factors, which play critical roles adaptation both potentially function ‘hubs’ and/or responses. Additionally, present recent findings based on forward genetic approaches reveal natural variations traits under Finally, an application decades study results actual fields strategy increase tolerance. This review summarizes our understanding

Language: Английский

Citations

112
Effects of Light on Secondary Metabolite Biosynthesis in Medicinal Plants DOI Creative Commons
Shuncang Zhang, Lei Zhang, Haiyan Zou

et al.

Frontiers in Plant Science, Journal Year: 2021, Volume and Issue: 12

Published: Dec. 10, 2021

Secondary metabolites (SMs) found in medicinal plants are one of main sources drugs, cosmetics, and health products. With the increase demand for these bioactive compounds, improving content yield SMs has become increasingly important. The distribution closely related to environmental factors, especially light. In recent years, artificial light have been used controlled environments production conservation germplasm. Therefore, it is essential elucidate how affects accumulation different plant species. Here, we systematically summarize advances our understanding regulatory roles quality, intensity, photoperiod biosynthesis three types (polyphenols, alkaloids, terpenoids), underlying mechanisms. This article provides a detailed overview role signaling pathways SM biosynthesis, which will further promote application production.

Language: Английский

Citations

98
Genetic architecture underlying light and temperature mediated flowering in Arabidopsis, rice, and temperate cereals DOI
Shuanghe Cao,

Xumei Luo,

Dengan Xu

et al.

New Phytologist, Journal Year: 2021, Volume and Issue: 230(5), P. 1731 - 1745

Published: Feb. 15, 2021

Timely flowering is essential for optimum crop reproduction and yield. To determine the best flowering-time genes (FTGs) relevant to local adaptation breeding, it compare interspecific genetic architecture of in response light temperature, two most important environmental cues breeding. However, conservation variations FTGs across species lack systematic dissection. This review summarizes current knowledge on architectures underlying temperature-mediated initiation Arabidopsis, rice, temperate cereals. Extensive comparative analyses show that are conserved, whereas functional may be specific confer different species. explore evolutionary dynamics underpinning FTGs, domestication selection some key further dissected. Based our control time, a number issues highlighted. Strategies modulation behavior breeding also discussed. The resultant resources provide wealth reference information uncover molecular mechanisms plants achieve improvement crops.

Language: Английский

Citations

78
Influence of Bagging on the Development and Quality of Fruits DOI Creative Commons
Muhammad Moaaz Ali, Raheel Anwar, Ahmed Fathy Yousef

et al.

Plants, Journal Year: 2021, Volume and Issue: 10(2), P. 358 - 358

Published: Feb. 13, 2021

Fruit quality is certainly influenced by biotic and abiotic factors, a main attribute the external appearance of fruit. Various possible agronomical approaches are able to regulate fruit microenvironment and, consequently, improve market value. Among these, bagging has recently become an integral part fruits' domestic export markets in countries such as Japan, China, Korea Australia USA because it safe eco-friendly technique protect fruits from multiple stresses, preserving or improving overall quality. Despite increasing global importance, development suitable materials above all, their use field quite laborious, so that serious efforts required enhance standardize material according need crops/fruits. This review provides information about effects on aspect texture, which determinants consumer choice.

Language: Английский

Citations

77
How plants coordinate their development in response to light and temperature signals DOI Open Access

Xu Li,

Tong Liang,

Hongtao Liu

et al.

The Plant Cell, Journal Year: 2021, Volume and Issue: 34(3), P. 955 - 966

Published: Dec. 9, 2021

Abstract Light and temperature change constantly under natural conditions profoundly affect plant growth development. warmer temperatures promote flowering, higher light intensity inhibits hypocotyl petiole elongation, elongation. Moreover, exogenous signals must be integrated with endogenous to fine-tune phytohormone metabolism morphology. Plants perceive respond ambient using common sets of factors, such as photoreceptors multiple signal transduction components. These highly structured signaling networks are critical for survival adaptation. This review discusses how plants variable elements coordinate their Future directions research on pathways also discussed.

Language: Английский

Citations

68
A chromosome‐scale Gastrodia elata genome and large‐scale comparative genomic analysis indicate convergent evolution by gene loss in mycoheterotrophic and parasitic plants DOI Open Access
Yuxing Xu, Yunting Lei, Zhongxiang Su

et al.

The Plant Journal, Journal Year: 2021, Volume and Issue: 108(6), P. 1609 - 1623

Published: Oct. 15, 2021

Mycoheterotrophic and parasitic plants are heterotrophic parasitize on fungi plants, respectively, to obtain nutrients. Large-scale comparative genomics analysis has not been conducted in mycoheterotrophic or between these two groups of parasites. We assembled a chromosome-level genome the fully plant Gastrodia elata (Orchidaceae) performed genomic analyses genomes G. four orchids (initial mycoheterotrophs), three (Cuscuta australis, Striga asiatica, Sapria himalayana), 36 autotrophs from various angiosperm lineages. It was found that while hemiparasite S. asiatica initial orchids, approximately 4-5% conserved orthogroups were lost, C. australis both lost 10% orthogroups, indicating increased heterotrophy is positively associated with gene loss. Importantly, many genes essential for autotrophs, including those involved photosynthesis, circadian clock, flowering time regulation, immunity, nutrient uptake, root leaf development, convergently australis. The high-quality will facilitate future studies physiology, ecology, evolution our findings highlight critical role loss lifestyles.

Language: Английский

Citations

58