Dataset Information

Multi-omics intervention in Setaria to dissect climate-resilient traits: Progress and prospects.

ABSTRACT: Millets constitute a significant proportion of underutilized grasses and are well known for their climate resilience as well as excellent nutritional profiles. Among millets, foxtail millet (Setaria italica) and its wild relative green foxtail (S. viridis) are collectively regarded as models for studying broad-spectrum traits, including abiotic stress tolerance, C₄ photosynthesis, biofuel, and nutritional traits. Since the genome sequence release, the crop has seen an exponential increase in omics studies to dissect agronomic, nutritional, biofuel, and climate-resilience traits. These studies have provided first-hand information on the structure, organization, evolution, and expression of several genes; however, knowledge of the precise roles of such genes and their products remains elusive. Several open-access databases have also been instituted to enable advanced scientific research on these important crops. In this context, the current review enumerates the contemporary trend of research on understanding the climate resilience and other essential traits in Setaria, the knowledge gap, and how the information could be translated for the crop improvement of related millets, biofuel crops, and cereals. Also, the review provides a roadmap for studying other underutilized crop species using Setaria as a model.

SUBMITTER: Aggarwal PR

PROVIDER: S-EPMC9470963 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature

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Multi-omics intervention in Setaria to dissect climate-resilient traits: Progress and prospects.

Aggarwal Pooja Rani PR Pramitha Lydia L Choudhary Pooja P Singh Roshan Kumar RK Shukla Pooja P Prasad Manoj M Muthamilarasan Mehanathan M

Frontiers in plant science 20220831

Millets constitute a significant proportion of underutilized grasses and are well known for their climate resilience as well as excellent nutritional profiles. Among millets, foxtail millet (Setaria italica) and its wild relative green foxtail (S. viridis) are collectively regarded as models for studying broad-spectrum traits, including abiotic stress tolerance, C4 photosynthesis, biofuel, and nutritional traits. Since the genome sequence release, the crop has seen an ex ...[more]

PMID: 36119586

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Project description:IntroductionN responsiveness is the capacity to perceive and induce morpho-physiological adaptation to external and internal Nitrogen (N). Crop productivity is propelled by N fertilizer and requires the breeding/selection of cultivars with intrinsically high N responsiveness. This trait has many advantages in being more meaningful in commercial/environmental context, facilitating in-season N management and not being inversely correlated with N availability over processes regulating NUE. Current lack of its understanding at the physio-genetic basis is an impediment to select for cultivars with a predictably high N response.ObjectivesTo dissect physio-genetic basis of N responsiveness in 142 diverse population of foxtail millet, Setaria italica (L.) by employing contrasting N fertilizer nutrition regimes.MethodsWe phenotyped S. italica accessions for major yield related traits under low (N10, N25) and optimal (N100) growth conditions and genotyped them to subsequently perform a genome-wide association study to identify genetic loci associated with nitrogen responsiveness trait. Groups of accessions showing contrasting trait performance and allelic forms of specific linked genetic loci (showing haplotypes) were further accessed for N dependent transcript abundances of their proximal genes.ResultsOur study show that N dependent yield rise in S. italica is driven by grain number whose responsiveness to N availability is genetically underlined. We identify 22 unique SNP loci strongly associated with this trait out of which six exhibit haplotypes and consistent allelic variation between lines with contrasting N dependent grain number response and panicle architectures. Furthermore, differential transcript abundances of specific genes proximally linked to these SNPs in same lines is indicative of their N dependence in a genotype specific manner.ConclusionThe study demonstrates the value/ potential of N responsiveness as a selection trait and identifies key genetic components underlying the trait in S. italica. This has major implications for improving crop N sustainability and food security.

Project description:The local climate zone (LCZ) has been an important land surface classification used to differentiate urban climate between localities. The general knowledge maps of LCZ studies are needed when LCZ-related research has attracted great attention. This study integrated bibliometrics and critical review to understand the status quo and suggest future research directions. Bibliometrics provided a statistical technique to explore large volumes of article data from the Web of Science, ScienceDirect, and Scopus databases, based on the Co-Occurrence 13.4 (COOC) software. The bibliometric results indicated a rapid increase in LCZ publications and identified the high-frequency keywords which can be clustered into two groups, including a human thermal comfort-related group and the other urban climatology-related one. From 2011 to 2020, the effects of land use and urban morphology on urban climate and heat island effects predominated the LCZ-related research. Since 2021, the research focuses had shifted to the fields of thermal environment and heatwave, due to the growing demand for human thermal comfort and heat risk reduction. Moreover, this study identified ‘Land Surface Temperature’ and ‘Heatwave’ as two focuses of LCZ-related research during the last decade. Their critical reviews demonstrated the need for additional in-depth LCZ-heatwave studies that consider the risk of human exposure. This study also recommended incorporating hydrological concerns and social issues into the LCZ plan for a more integrated LCZ research outlook. Overall, this study provides not only a comprehensive understanding of LCZ knowledge networks, but also critical details on research focuses and potential research prospects. Highlights • Integrating bibliometrics and critical reviews to understand the LCZ development.• LCZ studies can be clustered into human thermal comfort and urban climatology groups.• Bi-clustering illustrates the temporal changes in the keyword clusters of LCZ studies.• Revealing two focuses on land surface temperature and heatwave in LCZ research.

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Multi-omics intervention in Setaria to dissect climate-resilient traits: Progress and prospects.

Publications

Multi-omics intervention in <i>Setaria</i> to dissect climate-resilient traits: Progress and prospects.

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