Representation and participation across 20 years of plant genome sequencing

Nature Plants, Journal Year: 2021, Volume and Issue: 7(12), P. 1571 - 1578

Published: Nov. 29, 2021

Abstract The field of plant genome sequencing has grown rapidly in the past 20 years, leading to increases quantity and quality publicly available genomic resources. growing wealth data from an increasingly diverse set taxa provides unprecedented potential better understand biology evolution land plants. Here we provide a contemporary view genomics, including analyses on assembly quality, taxonomic distribution sequenced species national participation. We show that increased dramatically recent substantial gaps exist been dominated by affluent nations Global North China, despite wide geographic study species. identify numerous disconnects between native range focal affiliation researchers studying them, which argue are rooted colonialism—both present. Luckily, falling costs, widening availability analytical tools connected scientific community key opportunities improve existing assemblies, fill sampling empower more global genomics community.

Language: Английский

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Review: Climate change impacts on food security- focus on perennial cropping systems and nutritional value

Plant Science, Journal Year: 2020, Volume and Issue: 293, P. 110412 - 110412

Published: Jan. 15, 2020

Anthropogenic increases in fossil fuel emissions have been a primary driver of increased concentrations atmospheric carbon dioxide ([CO2]) and other greenhouse gases resulting warmer temperatures, alterations precipitation patterns, occurrence extreme weather events terrestrial areas across the globe. In agricultural growing regions, climate can challenge plant productivity ways that impact ability world to sustain adequate food production for increasingly affluent population with shifting access affordable nutritious food. While knowledge gap exists regarding potential change impacts is large agriculture, it especially specialty cropping systems. This includes fruit vegetable crops, perennial systems which also contribute (along row crops) our global diet. order obtain comprehensive view true on supply, we must expand narrow focus from improving yield include nutritional value these crops. address questions, need multi-faceted approach integrates physiology genomics tools conducts experiments under realistic depictions future projected climate. review describes gaps relation responses, questions actions are needed develop sustainable supply light change.

Language: Английский

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Molecular and Hormonal Mechanisms Regulating Fleshy Fruit Ripening

Cells, Journal Year: 2021, Volume and Issue: 10(5), P. 1136 - 1136

Published: May 8, 2021

This article focuses on the molecular and hormonal mechanisms underlying control of fleshy fruit ripening quality. Recent research tomato shows that ethylene, acting through transcription factors, is responsible for initiation ripening. Several other hormones, including abscisic acid (ABA), jasmonic (JA) brassinosteroids (BR), promote by upregulating ethylene biosynthesis genes in different fruits. Changes to histone marks DNA methylation are associated with activation necessary initiation. Light, detected photoreceptors operating ELONGATED HYPOCOTYL 5(HY5), also modulates Re-evaluation roles ‘master regulators’ indicates MADS-RIN, NAC-NOR, Nor-like1 MADS NAC genes, together full expression required further synthesis change colour, flavour, texture progression types non-coding RNAs involved regulating but clarification their diverse action required. We discuss a model integrates main genetic regulatory interactions governing consider variations circuits operate

Language: Английский

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Salinity responses and tolerance mechanisms in underground vegetable crops: an integrative review

Planta, Journal Year: 2022, Volume and Issue: 255(3)

Published: Feb. 15, 2022

Language: Английский

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Recent advances in proteomics and metabolomics in plants

Molecular Horticulture, Journal Year: 2022, Volume and Issue: 2(1)

Published: July 23, 2022

Over the past decade, systems biology and plant-omics have increasingly become main stream in plant research. New developments mass spectrometry bioinformatics tools, methodological schema to integrate multi-omics data leveraged recent advances proteomics metabolomics. These progresses are driving a rapid evolution field of research, greatly facilitating our understanding mechanistic aspects metabolisms interactions plants with their external environment. Here, we review MS-based metabolomics tools workflows special focus on applications research using several case studies related stress response, gene/protein function characterization, metabolic signaling pathways exploration, natural product discovery. We also present projection concerning future perspectives development including challenges for system biology. This is intended provide readers an overview how advanced MS technology, integrated application can be used advance

Language: Английский

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Developing future heat-resilient vegetable crops

Functional & Integrative Genomics, Journal Year: 2023, Volume and Issue: 23(1)

Published: Jan. 24, 2023

Climate change seriously impacts global agriculture, with rising temperatures directly affecting the yield. Vegetables are an essential part of daily human consumption and thus have importance among all agricultural crops. The population is increasing daily, so there a need for alternative ways which can be helpful in maximizing harvestable yield vegetables. increase temperature affects plants' biochemical molecular processes; having significant impact on quality Breeding climate-resilient crops good yields takes long time lots breeding efforts. However, advent new omics technologies, such as genomics, transcriptomics, proteomics, metabolomics, efficiency efficacy unearthing information pathways associated high-temperature stress resilience has improved many vegetable Besides omics, use genomics-assisted approaches gene editing speed allow creation modern cultivars that more resilient to high temperatures. Collectively, these will shorten create release novel varieties meet growing demands productivity quality. This review discusses effects heat vegetables highlights recent research focus how genome produce temperature-resilient efficiently faster.

Language: Английский

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Applications of deep-learning approaches in horticultural research: a review

Horticulture Research, Journal Year: 2021, Volume and Issue: 8(1)

Published: June 1, 2021

Abstract Deep learning is known as a promising multifunctional tool for processing images and other big data. By assimilating large amounts of heterogeneous data, deep-learning technology provides reliable prediction results complex uncertain phenomena. Recently, it has been increasingly used by horticultural researchers to make sense the datasets produced during planting postharvest processes. In this paper, we provided brief introduction approaches reviewed 71 recent research works in which technologies were applied domain variety recognition, yield estimation, quality detection, stress phenotyping growth monitoring, tasks. We described detail application scenarios reported relevant literature, along with models frameworks, overall performance results. Finally, discussed current challenges future trends deep research. The aim review assist provide guidance them fully understand strengths possible weaknesses when applying sectors. also hope that will encourage explore some significant examples science promote advancement intelligent horticulture.

Language: Английский

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Carotenoid Pigment Accumulation in Horticultural Plants

Horticultural Plant Journal, Journal Year: 2020, Volume and Issue: 6(6), P. 343 - 360

Published: Oct. 29, 2020

Carotenoids are a group of widely distributed natural pigments. They give many horticultural plants the bright red, orange, and yellow colors, as well aroma flavor. enhance health value represent an essential quality trait products. Significant efforts have been made to correlate specific carotenoid production with pathway gene expression. Some transcription factors that directly regulate genes identified. Horticultural crops evolved complicated multifaceted regulatory mechanisms generate enormous diversity in content composition. However, diverse complex control accumulation is still not understood. In this review, we depict pathways highlight recent progress plants. Because critical roles chromoplasts for hyperproduction, evaluate chromoplast ultrastructures sequestrations. A perspective on research provided.

Language: Английский

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Haplotype-resolved genome of diploid ginger (Zingiber officinale) and its unique gingerol biosynthetic pathway

Horticulture Research, Journal Year: 2021, Volume and Issue: 8

Published: Aug. 5, 2021

Abstract Ginger (Zingiber officinale), the type species of Zingiberaceae, is one most widespread medicinal plants and spices. Here, we report a high-quality, chromosome-scale reference genome ginger ‘Zhugen’, traditionally cultivated in Southwest China used as fresh vegetable, assembled from PacBio long reads, Illumina short high-throughput chromosome conformation capture (Hi-C) reads. The was phased into two haplotypes, haplotype 1 (1.53 Gb with contig N50 4.68 M) 0 (1.51 5.28 M). Homologous chromosomes maintained excellent gene pair collinearity. In 17,226 pairs allelic genes, 11.9% exhibited differential expression between alleles. Based on results sequencing, transcriptome analysis, metabolomic proposed backbone biosynthetic pathway gingerol analogs, which consists 12 enzymatic families, PAL, C4H, 4CL, CST, C3’H, C3OMT, CCOMT, CSE, PKS, AOR, DHN, DHT. These analyses also identified likely transcription factor networks that regulate synthesis analogs. Overall, this study serves an resource for further research biology breeding, lays foundation better understanding evolution, presents intact species-specific biosynthesis.

Language: Английский

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Advancing crop genomics from lab to field

Nature Genetics, Journal Year: 2021, Volume and Issue: 53(5), P. 595 - 601

Published: May 1, 2021

Language: Английский

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