Deep expression analysis reveals distinct cold-response strategies in rubber tree (Hevea brasiliensis)

Mantello, Camila Campos; Boatwright, J. Lucas; Silva, Carla Cristina da; Scaloppi, Erivaldo José; Gonçalves, Paulo de Souza; Barbazuk, W. Brad; Souza, Anete Pereira de

doi:10.1186/s12864-019-5852-5

Cited by 25 publications

(28 citation statements)

References 89 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

Section: Rna Sequencing (Rna-seq) Experimentsmentioning

confidence: 99%

“…The RNA-seq experiment was based on two clones of H. brasiliensis recommended for escape areas (Mantello et al, 2019): RRIM600 and GT1. Under low temperatures, RRIM600 presents an avoidance physiological strategy, while GT1 employs a balance between photosynthetic/growth activities and stress responses (Mai et al, 2010;Mantello et al, 2019). Raw RNA-seq data generated by Campos Mantello et al (2019) (BioProject, PRJNA483203; Sequence Read Archive (SRA), SRX4491391-SRX4491414) were used for the analyses of the present work.…”

Section: Rna Sequencing (Rna-seq) Experimentsmentioning

confidence: 99%

“…Under low temperatures, RRIM600 presents an avoidance physiological strategy, while GT1 employs a balance between photosynthetic/growth activities and stress responses (Mai et al, 2010;Mantello et al, 2019). Raw RNA-seq data generated by Campos Mantello et al (2019) (BioProject, PRJNA483203; Sequence Read Archive (SRA), SRX4491391-SRX4491414) were used for the analyses of the present work. The cold experiment consisted of exposing three six-month-old plantlets of each clone, which were provided by the Seringueira Center, Votuporanga, São Paulo, Brazil, to a temperature of 10°C for 24 h (12 h light/12 h darkness).…”

Section: Rna Sequencing (Rna-seq) Experimentsmentioning

confidence: 99%

“…The transcriptome data used were validated by Mantello et al (2019). In addition to the validation of this RNA-seq data, genes that were analyzed by Silva et al (2014) are also present in the network.…”

Section: Bioinformatics and Differential Expression Analysismentioning

confidence: 99%

“…Through comparative genomics involving cold-resistant and cold-sensitive clones, thousands of differentially expressed genes (DEGs) have been identified in response to cold stress (Cheng et al 2018, Deng et al, 2018, Mantello et al, 2019. Although such works have brought a wealth of information regarding the rubber tree molecular cold stress response, how these mechanisms come together and orchestrate this response needs to be better understood.…”

Section: Introductionmentioning

confidence: 99%

See 4 more Smart Citations

A deeper cascade of mechanisms involved in cold resistance inHevea brasiliensis

Silva

Bajay

Aono

et al. 2021

Preprint

Self Cite

View full text Add to dashboard Cite

Hevea brasiliensis, a tropical tree species from the Amazon rainforest, is the main source of natural rubber worldwide. Due to the high pressure of fungal diseases in hot, humid regions, rubber plantations have been moved to “escape areas”, which are dryer and have lower temperatures during the winter. Here, we combined gene expression data of a primary (GT1) and a secondary (RRIM600) young rubber tree clones, which present different cold tolerance strategies, to analyze rubber tree gene expression regulation during 24 h of cold exposure (10°C). Together with traditional differential expression approaches, a RNA sequencing (RNA-seq) gene coexpression network (GCN) comprising 27,220 genes was established in which the genes were grouped into 832 clusters. In the GCN, most of the rubber tree molecular responses to cold stress were grouped in 26 clusters, which were divided into three GCN modules: a downregulated group comprising 12 clusters and two upregulated groups comprising eleven and three clusters. Considering the three modules identified, the general Hevea response to short-term cold exposure involved downregulation of gibberellin (GA) signaling, complex regulation of jasmonic acid (JA) stress responses and programmed cell death (PCD) and upregulation of ethylene responsive genes. The hub genes of the cold-responsive modules were subsequently identified and analyzed. As a result of the GCN strategy applied in this study, we could not only access individual DEGs related to the Hevea cold response, but also provide insights into a deeper cascade of associated mechanisms involved in the response to cold stress in young rubber trees. Our results may represent the genetic stress responses of the species, developed during its evolution, since the varieties chosen for this work are genotypes that were selected during the early years of rubber tree domestication. The understanding of H. brasiliensis cold response mechanisms can greatly improve the breeding strategies for this crop, which has a narrow genetic base, is impacted by climate change and is the only source for large-scale rubber production.

show abstract

Section: Rna Sequencing (Rna-seq) Experimentsmentioning

confidence: 99%

Section: Rna Sequencing (Rna-seq) Experimentsmentioning

confidence: 99%

Section: Rna Sequencing (Rna-seq) Experimentsmentioning

confidence: 99%

Section: Bioinformatics and Differential Expression Analysismentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

A deeper cascade of mechanisms involved in cold resistance inHevea brasiliensis

Silva

Bajay

Aono

et al. 2021

Preprint

Self Cite

View full text Add to dashboard Cite

show abstract

Plant Lectins: Implications in Tolerance and Resistance

Osman

Ghartey‐Kwansah

et al. 2023

Annual Plant Reviews Online

View full text Add to dashboard Cite

Lectins are ubiquitous classes of carbohydrate‐binding proteins. They serve a wide range of physiological functions in Phyto‐organisms. Among many biological significances, they play a crucial role in plant tolerance and resistance against environmental biotic and abiotic challenges. They are a component of the plant's innate immune system and defence mechanism. Lectin‐like receptor kinases (Lec‐RLK) are essential in stress sensing and saccharide signalling. Their expression can be modulated by various hormonal responses; they can also tweak downstream hormonal pathways or signal the expression of stress‐related genes. Other plant lectin families, localized in the vacuole, cytoplasm, and nucleus, could also revamp the response to different stress factors. They participate in the further downstream responses, including the clearance and turnover of accumulated undesired and misfolded nascent proteins triggered by stress, DNA protection, and chromatin modulation. Understanding the genetics, the evolution of gene mechanisms, and the functional roles of Lectins in molecular pathways affecting plant tolerance is essential to reduce the effects of global climate change on food security and the health and well‐being of humans. This review will assist in integrating existing knowledge, with a focus on understanding how plant lectins confer adaptation to challenging environmental conditions, ultimately to assist agricultural scientists in breeding plants with greater adaptive capacities.

show abstract

Current Progress in Transcriptomics and Proteomics of Latex Physiology and Metabolism in the Hevea brasiliensis Rubber Tree

Dai

2020

The Rubber Tree Genome

View full text Add to dashboard Cite

Deep expression analysis reveals distinct cold-response strategies in rubber tree (Hevea brasiliensis)

Cited by 25 publications

References 89 publications

A deeper cascade of mechanisms involved in cold resistance inHevea brasiliensis

A deeper cascade of mechanisms involved in cold resistance inHevea brasiliensis

Plant Lectins: Implications in Tolerance and Resistance

Current Progress in Transcriptomics and Proteomics of Latex Physiology and Metabolism in the Hevea brasiliensis Rubber Tree

Contact Info

Product

Resources

About