Genetic map construction and QTL analysis of nitrogen use efficiency in spinach (Spinacia oleracea L.)

Chan-Navarrete, Rafael; Dolstra, O.; Kaauwen, Martijn van; Bueren, E.T. Lammerts van; Linden, C. Gerard van der

doi:10.1007/s10681-015-1618-6

Cited by 28 publications

(21 citation statements)

References 55 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Although this information should help in understanding general molecular processes, each species has its unique and non-overlapping mechanisms to withstand N stress. Besides few studies focusing on mechanisms of N uptake [31,32] and genotypic variation [6,33,34], not much is known about the transcriptomic changes in the vegetative or non-vegetative tissues of spinach in response to N perturbations.…”

Section: Introductionmentioning

confidence: 99%

Comparative analysis of tissue-specific transcriptomic responses to nitrogen stress in spinach (Spinacia oleracea)

Joshi¹,

Joshi²,

Penalosa

2020

PLoS ONE

View full text Add to dashboard Cite

Nitrogen (N) is critical to the growth and productivity of crops. To understand the molecular mechanisms influenced by N stress, we used RNA-Sequencing (RNA-Seq) to analyze differentially expressed genes (DEGs) in root and leaf tissues of spinach. N stress negatively influenced photosynthesis, biomass accumulation, amino acid profiles, and partitioning of N across tissues. RNA-seq analysis revealed that N stress caused most transcriptomic changes in roots, identifying 1,346 DEGs. High-affinity nitrate transporters (NRT2.1, NRT2.5) and glutamine amidotransferase (GAT1) genes were strongly induced in roots in response to N deplete and replete conditions, respectively. GO and KEGG analyses revealed that the functions associated with metabolic pathways and nutrient reservoir activity were enriched due to N stress. Whereas KEGG pathway enrichment analysis indicated the upregulation of DEGs associated with DNA replication, pyrimidine, and purine metabolism in the presence of high N in leaf tissue. A subset of transcription factors comprising bHLH, MYB, WRKY, and AP2/ERF family members was over-represented in both tissues in response to N perturbation. Interesting DEGs associated with N uptake, amino acid metabolism, hormonal pathway, carbon metabolism, along with transcription factors, were highlighted. The results provide valuable information about the underlying molecular processes in response to N stress in spinach and; could serve as a resource for functional analysis of candidate genes/pathways and enhancement of nitrogen use efficiency.

show abstract

Section: Introductionmentioning

confidence: 99%

Comparative analysis of tissue-specific transcriptomic responses to nitrogen stress in spinach (Spinacia oleracea)

Joshi¹,

Joshi²,

Penalosa

2020

PLoS ONE

View full text Add to dashboard Cite

show abstract

“…Hydroponic systems supply uniform conditions for the root environment, and have a high capacity of genotypes at the same time (Nguyen et al, 2013 ; Chan-Navarrete et al, 2014 ). Using such a system, traits, and QTLs contributing to variation in salt tolerance in barley were already successfully identified (Long et al, 2013 ; Nguyen et al, 2013 ), and to variation in nitrogen use efficiency in spinach (Chan-Navarrete et al, 2016 ). It is important to keep in mind however that factors like soil texture and composition that in the field also may influence salinity tolerance do not play a role in this type of system.…”

Section: Discussionmentioning

confidence: 99%

Genetic Diversity of Salt Tolerance in Miscanthus

et al. 2017

Self Cite

View full text Add to dashboard Cite

Miscanthus is a woody rhizomatous C4 grass that can be used as a CO2 neutral biofuel resource. It has potential to grow in marginal areas such as saline soils, avoiding competition for arable lands with food crops. This study explored genetic diversity for salt tolerance in Miscanthus and discovered mechanisms and traits that can be used to improve the yield under salt stress. Seventy genotypes of Miscanthus (including 57 M. sinensis, 5 M. sacchariflorus, and 8 hybrids) were evaluated for salt tolerance under saline (150 mM NaCl) and normal growing conditions using a hydroponic system. Analyses of shoot growth traits and ion concentrations revealed the existence of large variation for salt tolerance in the genotypes. We identified genotypes with potential for high biomass production both under control and saline conditions that may be utilized for growth under marginal, saline conditions. Several relatively salt tolerant genotypes had clearly lower Na+ concentrations and showed relatively high K+/Na+ ratios in the shoots under salt stress, indicating that a Na+ exclusion mechanism was utilized to prevent Na+ accumulation in the leaves. Other genotypes showed limited reduction in leaf expansion and growth rate under saline conditions, which may be indicative of osmotic stress tolerance. The genotypes demonstrating potentially different salt tolerance mechanisms can serve as starting material for breeding programs aimed at improving salinity tolerance of Miscanthus.

show abstract

“…In Chan-Navarrete et al (2016), the genetic base for NUE in spinach was analyzed for NUE (g shoot dry weight g −1 N) and NUE-related traits using a mapping population (a random set of F2:3 families) grown in a greenhouse under low and high N conditions in a hydroponics system using an Ingestad N-addition model to acquire a steady state N nutrition level (Chan-Navarrete et al 2014). Interval mapping analysis detected 19 quantitative trait loci (QTLs) under high N and 20 QTLs for NUE-related traits under low N. Some QTLs were found under both N levels and some were specific for one of the two N levels.…”

Section: Spinachmentioning

confidence: 99%

Diverse concepts of breeding for nitrogen use efficiency. A review

Bueren

Struik

2017

Agron. Sustain. Dev.

Self Cite

118

View full text Add to dashboard Cite

Cropping systems require careful nitrogen (N) management to increase the sustainability of agricultural production. One important route towards enhanced sustainability is to increase nitrogen use efficiency. Improving nitrogen use efficiency encompasses increasing N uptake, N utilization efficiency, and N harvest index, each involving many crop physiological mechanisms and agronomic traits. Here, we review recent developments in cultural practices, cultivar choice, and breeding regarding nitrogen use efficiency. We add a comparative analysis of our own research on designing breeding strategies for nitrogen use efficiency in leafy and non-leafy vegetables, literature on breeding for nitrogen use efficiency in other vegetables (cabbage, cauliflower), and literature on breeding for nitrogen use efficiency in grain crops. We highlight traits that are generic across species, demonstrate how traits contributing to nitrogen use efficiency differ among crops, and show how cultural practice affects the relevance of these traits. Our review indicates that crops harvested in their early or late vegetative phase or reproductive phase differ in traits relevant to improve nitrogen use efficiency. Headforming crops (lettuce, cabbage) depend on the prolonged photosynthesis of outer leaves to provide the carbon sources for continued N supply and growth of the photosynthetically less active, younger inner leaves. Grain crops largely depend on prolonged N availability for uptake and on availability of N in stover for remobilization to the grains. Improving root performance is relevant for all crop types, but especially shortcycle vegetable crops benefit from early below-ground vigor. We conclude that there is sufficient genetic variation available among modern cultivars to further improve nitrogen use efficiency but that it requires integration of agronomy, crop physiology, and efficient selection strategies to make rapid progress in breeding. We also conclude that discriminative traits related to nitrogen use efficiency better express themselves under low input than under high input. However, testing under both low and high input can yield cultivars that are adapted to low-input conditions but also respond to high-input conditions. The benefits of increased nitrogen use efficiency through breeding are potentially large but realizing these benefits is challenged by the huge genotype-byenvironment interaction and the complex behavior of nitrogen in the cropping system.

show abstract

Genetic map construction and QTL analysis of nitrogen use efficiency in spinach (Spinacia oleracea L.)

Cited by 28 publications

References 55 publications

Comparative analysis of tissue-specific transcriptomic responses to nitrogen stress in spinach (Spinacia oleracea)

Comparative analysis of tissue-specific transcriptomic responses to nitrogen stress in spinach (Spinacia oleracea)

Genetic Diversity of Salt Tolerance in Miscanthus

Diverse concepts of breeding for nitrogen use efficiency. A review

Contact Info

Product

Resources

About