Genome-Wide Identification and Analysis of the Maize Serine Peptidase S8 Family Genes in Response to Drought at Seedling Stage

Cui, Hongwei; Zhou, Guyi; Ruan, Hongqiang; Zhao, Jun; Hasi, Agula; Zong, Na

doi:10.3390/plants12020369

Cited by 4 publications

(3 citation statements)

References 60 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…2e-f). In another example, ZmSUBTILISIN11 has been associated with cell wall compositions, peduncle vascular traits, and ABA levels (Cui et al 2023). A previously identified cis-expression QTL lead SNP for ZmSUBTILISIN11 transcript levels (Sun et al 2023) coincided with a bQTL in its proximal promoter and we observed a strong correlation of haplotypespecific MOA footprints at the bQTL and ZmSUBTILISIN11 transcript levels (Fig.…”

Section: Bqtl Coincide With Numerous Known Causative Regulatory Locisupporting

confidence: 66%

See 1 more Smart Citation

Genetic variation at transcription factor binding sites largely explains phenotypic heritability in maize

Engelhorn,

Snodgrass,

Kok

et al. 2023

Preprint

View full text Add to dashboard Cite

Comprehensive maps of functional variation at transcription factor (TF) binding sites (cis-elements) are crucial for elucidating how genotype shapes phenotype. Here we report the construction of a pan-cistrome of the maize leaf under well-watered and drought conditions. We quantified haplotype-specific TF footprints across a pan-genome of 25 maize hybrids and mapped nearly two-hundred thousand genetic variants (termed binding-QTLs) linked tocis-element occupancy. The functional significance of binding-QTLs is supported by three lines of evidence: i) they coincide with known causative loci that regulate traits, including novel alleles ofUpright Plant Architecture2,Trehalase1, and the MITE transposon nearZmNAC111under drought; ii) their footprint bias is mirrored between inbred parents and by ChIP-seq; iii) partitioning genetic variation across genomic regions demonstrates that binding-QTLs capture the majority of heritable trait variation across ∼70% of 143 phenotypes. Our study provides a promising approach to make previously hiddencis-variation more accessible for genetic studies and multi-target engineering of complex traits.

show abstract

Section: Bqtl Coincide With Numerous Known Causative Regulatory Locisupporting

confidence: 66%

“…2e-f). In another example, ZmSUBTILISIN11 has been associated with cell wall compositions, peduncle vascular traits, and ABA levels (Cui et al . 2023).…”

Section: Resultsmentioning

confidence: 99%

Genetic variation at transcription factor binding sites largely explains phenotypic heritability in maize

Engelhorn,

Snodgrass,

Kok

et al. 2023

Preprint

View full text Add to dashboard Cite

show abstract

“…Additional studies have shown that serine carbohydrates in rice may be associated with the oxidative stress defense response caused by biotic or abiotic stress [ 31 ]. The serine carboxypeptidase gene in maize shows a trend of induced expression under both biotic and abiotic stress [ 32 ]. In this study, phytohormone-regulated genes, such as SCP (LOC_Os07g03620), were upregulated in JND709 germinated seedlings and downregulated in T35.…”

Section: Discussionmentioning

confidence: 99%

Transcriptomic Analysis and Salt-Tolerance Gene Mining during Rice Germination

Han

Liu

et al. 2023

Genes

View full text Add to dashboard Cite

Salt stress is an important environmental factor affecting crop growth and development. One of the important ways to improve the salt tolerance of rice is to identify new salt-tolerance genes, reveal possible mechanisms, and apply them to the creation of new germplasm and the breeding of new varieties. In this study, the salt-sensitive japonica variety Tong 35 (T35) and salt-tolerant japonica variety Ji Nongda 709 (JND709) were used. Salt stress treatment with a 150 mmol/L NaCl solution (the control group was tested without salt stress treatment simultaneously) was continued until the test material was collected after the rice germination period. Twelve cDNA libraries were constructed, and 5 comparator groups were established for transcriptome sequencing. On average, 9.57G of raw sequencing data were generated per sample, with alignment to the reference genome above 96.88% and alignment to guanine-cytosine (GC) content above 53.86%. A total of 16,829 differentially expressed genes were present in the five comparison groups, of which 2390 genes were specifically expressed in T35 (category 1), 3306 genes were specifically expressed in JND709 (category 2), and 1708 genes were differentially expressed in both breeds (category 3). Differentially expressed genes were subjected to gene ontology (GO), functional enrichment analysis, and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis, which revealed that these genes belonged to three main classes: molecular function, cellular components, and biological processes. KEGG pathway analysis showed that the significantly enriched pathways for these differentially expressed genes included phenylpropane biosynthesis, phytohormone signaling, and the interaction of plants with pathogens. In this study, we provided a reference for studying the molecular mechanism underlying salt tolerance during germination.

show abstract

Multi-omics insights into the positive role of strigolactone perception in barley drought response

Daszkowska-Golec,

Mehta,

Uhrig

et al. 2023

BMC Plant Biol

View full text Add to dashboard Cite

Background Drought is a major environmental stress that affects crop productivity worldwide. Although previous research demonstrated links between strigolactones (SLs) and drought, here we used barley (Hordeum vulgare) SL-insensitive mutant hvd14 (dwarf14) to scrutinize the SL-dependent mechanisms associated with water deficit response. Results We have employed a combination of transcriptomics, proteomics, phytohormonomics analyses, and physiological data to unravel differences between wild-type and hvd14 plants under drought. Our research revealed that drought sensitivity of hvd14 is related to weaker induction of abscisic acid-responsive genes/proteins, lower jasmonic acid content, higher reactive oxygen species content, and lower wax biosynthetic and deposition mechanisms than wild-type plants. In addition, we identified a set of transcription factors (TFs) that are exclusively drought-induced in the wild-type barley. Conclusions Critically, we resolved a comprehensive series of interactions between the drought-induced barley transcriptome and proteome responses, allowing us to understand the profound effects of SLs in alleviating water-limiting conditions. Several new avenues have opened for developing barley more resilient to drought through the information provided. Moreover, our study contributes to a better understanding of the complex interplay between genes, proteins, and hormones in response to drought, and underscores the importance of a multidisciplinary approach to studying plant stress response mechanisms.

show abstract

Genome-Wide Identification and Analysis of the Maize Serine Peptidase S8 Family Genes in Response to Drought at Seedling Stage

Cited by 4 publications

References 60 publications

Genetic variation at transcription factor binding sites largely explains phenotypic heritability in maize

Genetic variation at transcription factor binding sites largely explains phenotypic heritability in maize

Transcriptomic Analysis and Salt-Tolerance Gene Mining during Rice Germination

Multi-omics insights into the positive role of strigolactone perception in barley drought response

Contact Info

Product

Resources

About