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Multi-Omics Approaches to Plant Stress: From Genotype to Phenotype

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A special issue of Plants (ISSN 2223-7747). This special issue belongs to the section "Plant Molecular Biology".

Deadline for manuscript submissions: closed (30 September 2022) | Viewed by 6175

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Special Issue Editors

Dr. Jorge M. S. Faria

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Guest Editor

1. INIAV, I.P., National Institute for Agrarian and Veterinary Research, Quinta do Marquês, 2780-159 Oeiras, Portugal
2. MED, Mediterranean Institute for Agriculture, Environment and Development & CHANGE—Global Change and Sustainability Institute, Institute for Advanced Studies and Research, Évora University, Pólo da Mitra, Ap. 94, 7006-554 Évora, Portugal
Interests: in vitro cultures; ionomics; metabolomics; nematode pest management; plant nutrition; plant physiology and biochemistry; sustainable agriculture
Special Issues, Collections and Topics in MDPI journals

Dr. Ana M. Rodrigues

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Assistant Guest Editor

Plant Metabolomics Laboratory, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB NOVA), Avenida da República, 2780-157 Oeiras, Portugal
Interests: MS-based metabolomics; forest tree metabolomics; environmental stress responses; biotic stress; bioinformatics

Dr. Cláudia S. L. Vicente

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Guest Editor

MED—Mediterranean Institute for Agriculture, Environment and Development & CHANGE—Global Change and Sustainability Institute, Institute for Advanced Studies and Research, Universidade de Évora, Pólo da Mitra, Ap. 94, 7006-554, Évora, Portugal
Interests: plant protection; nematology; biocontrol; omics; microbe interactions
Special Issues, Collections and Topics in MDPI journals

Dr. Margarida Espada

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Guest Editor

Laboratory of Nematology, Mediterranean Institute for Agriculture, Environment and Development (MED) & CHANGE – Global Change and Sustainability Institute, University of Évora, Polo da Mitra, 7000-083 Évora, Portugal
Interests: plant pathology; plant nematology; molecular basis of plant–nematode parasitic interactions; biology of parasitism proteins (effectors); genomics and transcriptomics
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

High-throughput omics technologies have revolutionized the way science is performed, by generating a large amount of biological data for a broader coverage and better understanding of biological mechanisms. The integration of these -omics technologies (e.g., genomics, transcriptomics, proteomics, metabolomics, lipidomics, ionomics, and redoxomics) is currently in the forefront of plant research. As sessile organisms, plants are constantly challenged by environmental stress conditions and resort to adaptative responses to ensure survival and reproductive success. These environmental stress conditions include abiotic and biotic stress factors that often occur simultaneously in field conditions. A multi-omics approach allows understanding the biochemical mechanisms that underlie plant resistance and response to adverse environmental conditions, from genotype to phenotype. This includes the integration of multi-omics data into biological networks for the identification of stress responsive traits that can be further applied toward plant breeding, and more productive and climate-resilient crop varieties.

This Special Issue is dedicated to 0omics approaches using state-of-the-art high-throughput equipment to explore plant responses to environmental stress conditions. In an environment that is rapidly changing, particularly in the current climate change scenario, manuscripts dedicated to improving our understanding of plant responses to single or combined environmental stress are welcome.

Dr. Jorge M. S. Faria
Dr. Ana M. Rodrigues
Dr. Cláudia S. L. Vicente
Dr. Margarida Espada
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Plants is an international peer-reviewed open access semimonthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2700 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

Abiotic stress
Biotic stress
Climate change
Data integration
Environmental stress
Genomics
Ionomics
Lipidomics
Metabolomics
Metagenomics
Microbiome
Proteomics
Redoxomics
Stress tolerance
Transcriptomics

Published Papers (2 papers)

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Research

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15 pages, 2705 KiB

Open AccessArticle

A Pan-Transcriptome Analysis Indicates Efficient Downregulation of the FIB Genes Plays a Critical Role in the Response of Alfalfa to Cold Stress

by Xueqi Zhang, Huanhuan Yang, Manman Li, Yan Bai, Chao Chen, Donglin Guo, Changhong Guo and Yongjun Shu

Plants 2022, 11(22), 3148; https://doi.org/10.3390/plants11223148 - 17 Nov 2022

Cited by 4 | Viewed by 1330

Abstract

Alfalfa (Medicago sativa L.) is a perennial forage legume that is widely distributed throughout the world, and cold stress is an important environmental factor limiting the growth and production of alfalfa in cold regions. However, little is known of the molecular mechanisms regarding cold tolerance in alfalfa. Here, we conducted physiological metabolism assays and pan-transcriptome sequencing on eight cultivars of alfalfa under cold stress conditions. The results of the RNA-seq analysis showed that the genes are “oxidoreductase activity” and “transcription regulator activity”, suggesting that genes with such functions are more likely to play important roles in the response to cold stress by alfalfa. In addition, to identify specific gene modules and hub genes in response to alfalfa cold stress, we applied weighted gene co-expression network (WGCNA) analyses to the RNA-seq data. Our results indicate that the modules of genes that focus on the ATPase complex, ribosome biogenesis, are more likely to be involved in the alfalfa response to cold stress. It is important to note that we identified two fibronectin (FIB) genes as hub genes in alfalfa in response to cold stress and that they negatively regulate alfalfa response to chilling stress, and it is possible that dormant alfalfa is more effective at down-regulating FIB expression and therefore more resistant to cold stress. Full article

(This article belongs to the Special Issue Multi-Omics Approaches to Plant Stress: From Genotype to Phenotype)

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Review

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21 pages, 1503 KiB

Open AccessReview

Phytochemicals as Biopesticides against the Pinewood Nematode Bursaphelenchus xylophilus: A Review on Essential Oils and Their Volatiles

by Jorge M. S. Faria, Pedro Barbosa, Paulo Vieira, Cláudia S. L. Vicente, Ana Cristina Figueiredo and Manuel Mota

Plants 2021, 10(12), 2614; https://doi.org/10.3390/plants10122614 - 28 Nov 2021

Cited by 24 | Viewed by 3735

Abstract

The impacts of a rapidly changing environment together with the growth in global trade activities has promoted new plant pest pandemic events in forest ecosystems. The pinewood nematode (PWN), Bursaphelenchus xylophilus, causes strong worldwide economic and ecological impacts. Direct control is performed through trunk injection of powerful nematicides, however many of these (hemi)synthetic compounds have raised ecological and human health concerns for affecting non-target species and accumulating in food products. As sustainable alternatives, essential oils (EOs) have shown very promising results. In this work, available literature on the direct activity of EOs against PWN is reviewed, as a contribution to advance the search for safer and greener biopesticides to be used in sustainable PWD pest management strategies. For the first time, important parameters concerning the bioassays performed, the PWNs bioassayed, and the EOs used are summarized and comparatively analyzed. Ultimately, an overview of the chemical composition of the most active EOs allowed to uncover preliminary guidelines for anti-PWN EO efficiency. The analysis of important information on the volatile phytochemicals composing nematicidal EOs provides a solid basis to engineer sustainable biopesticides capable of controlling the PWN under an integrated pest management framework and contributes to improved forest health. Full article

(This article belongs to the Special Issue Multi-Omics Approaches to Plant Stress: From Genotype to Phenotype)

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