Genome of Paspalum vaginatum and the role of trehalose mediated autophagy in increasing maize biomass

Sun, Guangchao; Wase, Nishikant; Shu, Shengqiang; Jenkins, Jerry; Zhou, Bangjun; Torres-Rodríguez, Javier; Chen, Cindy; Sandor, Laura; Plott, Chris; Yoshinga, Yuko; Daum, Chris; Qi, Peng; Barry, Kerrie; Lipzen, Anna; Berry, Luke; Pedersen, Connor; Gottilla, Thomas; Foltz, Ashley; Yu, Huihui; O’Malley, Ronan; Zhang, Chi; Devos, Katrien M.; Sigmon, Brandi; Yu, Bin; Obata, Toshihiro; Schmutz, Jeremy; Schnable, James C.

doi:10.1038/s41467-022-35507-8

Cited by 17 publications

(6 citation statements)

References 151 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…While little is known about the role of trehalose in N stress, in our study, it was related to reduced microbial diversity and lower NUE in sorghum. In contrast, under nitrogen deficiency, an association between cereal species and tolerance to low nitrogen conditions was linked to trehalose ( 58 ), but no comparisons were done between genotypes of the same species as in our study. Taken together, our findings highlight the potential crosstalk between host root metabolites and the rhizosphere bacterial communities that may be important for plant performance under low N conditions.…”

Section: Discussioncontrasting

confidence: 62%

Root-associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum

Chai,

Qi,

Goren

et al. 2024

mSystems

View full text Add to dashboard Cite

The development of cereal crops with high nitrogen use efficiency (NUE) is a priority for worldwide agriculture. In addition to conventional plant breeding and genetic engineering, the use of the plant microbiome offers another approach to improving crop NUE. To gain insight into the bacterial communities associated with sorghum lines that differ in NUE, a field experiment was designed comparing 24 diverse Sorghum bicolor lines under sufficient and deficient nitrogen (N). Amplicon sequencing and untargeted gas chromatography–mass spectrometry were used to characterize the bacterial communities and the root metabolome associated with sorghum genotypes varying in sensitivity to low N. We demonstrated that N stress and sorghum type (energy, sweet, and grain sorghum) significantly impacted the root-associated bacterial communities and root metabolite composition of sorghum. We found a positive correlation between sorghum NUE and bacterial richness and diversity in the rhizosphere. The greater alpha diversity in high NUE lines was associated with the decreased abundance of a dominant bacterial taxon, Pseudomonas . Multiple strong correlations were detected between root metabolites and rhizosphere bacterial communities in response to low N stress. This indicates that the shift in the sorghum microbiome due to low N is associated with the root metabolites of the host plant. Taken together, our findings suggest that host genetic regulation of root metabolites plays a role in defining the root-associated microbiome of sorghum genotypes differing in NUE and tolerance to low N stress. IMPORTANCE The development of crops that are more nitrogen use-efficient (NUE) is critical for the future of the enhanced sustainability of agriculture worldwide. This objective has been pursued mainly through plant breeding and plant molecular engineering, but these approaches have had only limited success. Therefore, a different strategy that leverages soil microbes needs to be fully explored because it is known that soil microbes improve plant growth through multiple mechanisms. To design approaches that use the soil microbiome to increase NUE, it will first be essential to understand the relationship among soil microbes, root metabolites, and crop productivity. Using this approach, we demonstrated that certain key metabolites and specific microbes are associated with high and low sorghum NUE in a field study. This important information provides a new path forward for developing crop genotypes that have increased NUE through the positive contribution of soil microbes.

show abstract

Section: Discussioncontrasting

confidence: 62%

Root-associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum

Chai,

Qi,

Goren

et al. 2024

mSystems

View full text Add to dashboard Cite

show abstract

“…While little is known about the role of trehalose, in our study it was related to reduced microbial diversity and lower NUE in sorghum. In contrast under nitrogen deficiency an association between cereal species and tolerance to low nitrogen conditions was linked to trehalose (Sun et al, 2022) but no comparisons were done between genotypes of the same species as in our study. Taken together, our findings highlight the potential crosstalk between host root metabolites and the rhizosphere bacterial communities that may be important for plant performance under low-N conditions.…”

Section: Role Of Microbiome On Influencing Sorghum Nuecontrasting

confidence: 55%

Root associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum

Chai

Goren

et al. 2023

Preprint

View full text Add to dashboard Cite

Development of cereal crops with high nitrogen-use efficiency (NUE) is a priority for worldwide agriculture. In addition to conventional plant breeding and genetic engineering, the use of the plant microbiome offers another approach to improve crop NUE. To gain insight into the bacterial communities associated with sorghum lines that differ in NUE, a field experiment was designed comparing 24 diverse sorghum lines under sufficient and deficient nitrogen (N). Amplicon sequencing and untargeted gas chromatography-mass spectrometry (GC-MS) were used to characterize the bacterial communities and the root metabolome associated with sorghum genotypes varying in sensitivity to low N. We demonstrated that N stress and sorghum type (energy, sweet, and grain sorghum) significantly influenced the root-associated bacterial communities and root metabolite composition of sorghum. Sorghum NUE was positively correlated with the bacterial richness and diversity in the rhizosphere. The greater alpha diversity in high NUE lines was associated with the decreased abundance of a dominant bacterial taxa, Pseudomonas. Multiple strong correlations were detected between root metabolites and rhizosphere bacterial communities in response to N stress and indicate that the shift in the sorghum microbiome due to low-N is associated with the root metabolites of the host plant. Taken together, our study provides new insight into the links between host genetic regulation of root metabolites and root-associated microbiome of sorghum genotypes differing in NUE and tolerance to low-N stress.

show abstract

“…As the unit of the cross-species genomic and transcriptomic association analyses, we identified the most likely functional homologous genes among genome assemblies of various Andropogoneae taxa, using the closest outgroup, seashore paspalum ( Paspalum vaginatum ) (Sun et al ., 2022) as reference. Annotated proteins in seashore paspalum were queried against all Andropgoneae genomes using miniProt v0.10 (Li, 2023).…”

Section: Identification Of the Functional Homologmentioning

confidence: 99%

Contrasting Rhizosphere Nitrogen Dynamics in Andropogoneae Grasses: Implications for Sustainable Agriculture

Hsu,

Emmett,

Haffke

et al. 2024

Preprint

View full text Add to dashboard Cite

Background: Nitrogen (N) fertilization in crop production significantly impacts ecosystems, often disrupting natural plant-microbe-soil interactions and causing environmental pollution. Our research tested the hypothesis that phylogenetically related perennial grasses might preserve rhizosphere management strategies conducive to a sustainable N economy for crops. Method: We analyzed the N cycle in the rhizospheres of 36 Andropogoneae grass species related to maize and sorghum, investigating their impacts on N availability and losses. This assay is supplemented with the collection and comparison of native habitat environment data for ecological inference as well as cross-species genomic and transcriptomic association analyses for candidate gene discovery. Result: Contrary to our hypothesis, all examined annual species, including sorghum and maize, functioned as N "Conservationists," reducing soil nitrification potential and conserving N. In contrast, some perennial species enhanced nitrification and leaching ("Leachers"). Yet a few other species exhibited similar nitrification stimulation effects but limited NO3- losses ("Nitrate Keepers"). We identified significant soil characteristics as influential factors in the eco-evolutionary dynamics of plant rhizospheres, and highlighted the crucial roles of a few transporter genes in soil N management and utilization. Conclusion: These findings serve as valuable guidelines for future breeding efforts for global sustainability.

show abstract

Genome of Paspalum vaginatum and the role of trehalose mediated autophagy in increasing maize biomass

Cited by 17 publications

References 151 publications

Root-associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum

Root-associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum

Root associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum

Contrasting Rhizosphere Nitrogen Dynamics in Andropogoneae Grasses: Implications for Sustainable Agriculture

Contact Info

Product

Resources

About