Comprehensive analysis of housekeeping genes, tissue-specific genes, and dynamic regulation across developmental stages in pearl millet DOI Creative Commons
Wei Luo, Min Sun, Ailing Zhang

et al.

BMC Genomics, Journal Year: 2024, Volume and Issue: 25(1)

Published: Dec. 18, 2024

Abstract Background Pearl millet ( Pennisetum glaucum (L.) R. Br.) is a vital cereal crop, predominantly cultivated in arid and semi-arid regions of Asia Africa. It serves as staple food for millions, while also being utilized forage an energy crop. The crop’s resistance to heat drought, coupled with its high biomass, positions it promising candidate climate-resilient agriculture. A detailed understanding gene expression patterns across various tissues developmental stages essential enhancing yield quality. This study aims fill this knowledge gap by employing RNA-seq identify housekeeping genes (HKGs) tissue-specific (TSGs) pearl millet. Results Our analysis data from nine (seed, germ, radicle, leaf, root, tillering tissue, stem, spike, grain) eight accession Tifleaf3 revealed comprehensive profile. We identified 461 HKGs that exhibited stable all stages, providing robust internal references RT-qPCR. Additionally, 8091 TSGs were discovered, many which showed distinctive such leaf. Functional enrichment these using GO KEGG pathways highlighted their roles key biological processes pathways, indicating potential crop trait enhancement. Protein-protein interaction networks constructed stem leaf further illuminated the regulatory mechanisms underlying transition vegetative reproductive growth stages. Conclusion presents transcriptomic landscape millet, identifying set are crucial molecular basis development. provided valuable options transcript normalization targets exploring function plant development insights gained work instrumental breeding programs aimed at productivity thereby contributing security.

Language: Английский

Transcription factors – insights into abiotic and biotic stress resilience and crop improvement DOI Creative Commons
Roopali Bhoite,

Olive Onyemaobi,

Tanushree Halder

et al.

Current Plant Biology, Journal Year: 2025, Volume and Issue: unknown, P. 100434 - 100434

Published: Jan. 1, 2025

Language: Английский

Citations

1
Comprehensive genomic screening and expression profiling of trihelix family in pearl millet under abiotic stresses with emphasis on functional insights of PgTHX24 DOI Creative Commons
Jeky Chanwala, Deepak Kumar Jha,

Tsheten Sherpa

et al.

Current Plant Biology, Journal Year: 2024, Volume and Issue: 39, P. 100371 - 100371

Published: July 6, 2024

The trihelix transcription factors (THX TFs) play a crucial role in light responses and are involved plant growth, development, stress responses. In this study, we have identified 35 TFs pearl millet (Pennisetum glaucum), which is one of the most widely grown C4 cereal crops tropical semi-arid regions. Identified PgTHXs (Trihelix members P. glaucum) were classified into 5 subgroups (GT1, GT2, GTγ, SH4, SIP1) based on phylogenetic analysis, these subgroup shared similar gene structure motif distribution pattern. Collinearity analysis exhibited duplication events family across genome. Gene ontology (GO) annotation cis-regulatory elements (CREs) suggested their involvement diverse biological molecular functions associated with RNA sequencing data expression profile displayed differential patterns under abiotic phytohormone treatments. induced pattern PgTHX4, PgTHX5, PgTHX24, PgTHX30 potential through phytohormonal signalling pathways. Among these, GT-3b member, was localized nucleus self-transactivation ability. Overexpression PgTHX24 positively regulated stress-related markers transformed calli drought conditions. Promoter activity also highlighted stress-inducible nature PgTHX24's promoter. Overall, our findings provide comprehensive understanding framework for further functional characterization to understand regulatory millet's Thirty-five millet, diversity. its

Language: Английский

Citations

3
Analysis of plant pararetrovirus promoter sequence(s) for developing a useful synthetic promoter with enhanced activity in rice, pearl millet, and tobacco plants DOI Creative Commons
Khushbu Kumari,

Tsheten Sherpa,

Nrisingha Dey

et al.

Frontiers in Plant Science, Journal Year: 2024, Volume and Issue: 15

Published: Aug. 6, 2024

Promoters are one of the most important components for many gene-based research as they can fine-tune precise gene expression. Many unique plant promoters have been characterized, but strong with dual expression in both monocot and dicot systems still lacking. In this study, we attempted to make such a promoter by combining specific domains from monocot-infecting pararetroviral-based sugarcane bacilliform virus (SCBV) banana streak (BSV) dicot-infecting mirabilis mosaic (MMV). The generated chimeric promoters, MS, SM, MB, BM, were tested further validated transgenic tobacco plants. We found that developed species-specific (monocot or dicot), which depended on their respective core (CP) region. Furthermore, knowledge, deletion-hybrid evaluated, led development dual-expressing promoter, MSD3, high efficiency (GUS GFP reporter genes) rice, pearl millet, conclude MSD3 be an genetic tool will valuable biology application.

Language: Английский

Citations

1
Identification and expression analysis of bZIP transcription factors in Setaria italica in response to dehydration stress DOI Creative Commons
Xuefei Yang, Changyong Gao, Yaqian Hu

et al.

Frontiers in Genetics, Journal Year: 2024, Volume and Issue: 15

Published: Aug. 30, 2024

Among the largest transcription factor families in plants, bZIPs are crucial for various developmental and physiological processes, particularly abiotic stress resistance.

Language: Английский

Citations

1
Genome-wide Identification of the Laccase Gene Family in White Jute (Corchorus capsularis): Potential Targets for Lignin Engineering in Bast Fiber DOI

Subhadarshini Parida,

Deepak Kumar Jha,

Khushbu Kumari

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: July 19, 2024

Abstract The industrial bast fibre crop jute ( Corchorus sp.) is known for its long lignocellulosic multi-utility fibres. Information on lignification limited, and many enzymes in the lignin pathway are not well documented. One such enzyme laccase (EC 1.10.3.2), involved final polymerization step of lignification. A whole-genome search white capsularis ) revealed 34 putative CcaLAC genes. Phylogenetic analysis categorized these genes into six groups, with 17 predominantly expressed phloem tissue, 9 leaf, 4 xylem roots. steady increase gene expression, from plantlets to harvest, was observed several s. Some were selected further based homology Arabidopsis pathway-modifying laccases AtLAC s). Transcriptomics data confirmed their expression tissues, some showing significantly lower dlpf , a low-lignin fibre-containing mutant. Changes under abiotic stresses like ABA hormone copper heavy metal. Target sites Ath-miR397a Ath-miR397b predicted 11 s, respectively, suggesting possible post-transcriptional modification via microRNA. Subcellular localization showed s multiple plant cell compartments. Protein structure predictions up 10 motifs CcaLACs, 18 containing transmembrane helices. Overall, CcaLAC28 CcaLAC32 likely process (bast) jute. Modifying could enhance our understanding potentially lead development fibres, meeting high demands globally. Highlights Jute identified mainly tissue. key candidates Laccase changes stresses. Key Message Identified jute, engineering

Language: Английский

Citations

0
Evolutionary progression and functional diversification of NAC family members in pearl millet with comprehensive characterization of PgNAC103 under drought stress DOI Creative Commons
Deepak Kumar Jha, Jeky Chanwala, I. Sriram Sandeep

et al.

Plant Stress, Journal Year: 2024, Volume and Issue: unknown, P. 100728 - 100728

Published: Dec. 1, 2024

Language: Английский

Citations

0
A pearl millet plasma membrane protein, PgPM19, facilitates seed germination through the negative regulation of abscisic acid-associated genes under salinity stress in Arabidopsis thaliana DOI
Pei Yu, Harshraj Shinde, Ambika Dudhate

et al.

Planta, Journal Year: 2024, Volume and Issue: 260(6)

Published: Nov. 2, 2024

Language: Английский

Citations

0
Comprehensive analysis of housekeeping genes, tissue-specific genes, and dynamic regulation across developmental stages in pearl millet DOI Creative Commons
Wei Luo, Min Sun, Ailing Zhang

et al.

BMC Genomics, Journal Year: 2024, Volume and Issue: 25(1)

Published: Dec. 18, 2024

Abstract Background Pearl millet ( Pennisetum glaucum (L.) R. Br.) is a vital cereal crop, predominantly cultivated in arid and semi-arid regions of Asia Africa. It serves as staple food for millions, while also being utilized forage an energy crop. The crop’s resistance to heat drought, coupled with its high biomass, positions it promising candidate climate-resilient agriculture. A detailed understanding gene expression patterns across various tissues developmental stages essential enhancing yield quality. This study aims fill this knowledge gap by employing RNA-seq identify housekeeping genes (HKGs) tissue-specific (TSGs) pearl millet. Results Our analysis data from nine (seed, germ, radicle, leaf, root, tillering tissue, stem, spike, grain) eight accession Tifleaf3 revealed comprehensive profile. We identified 461 HKGs that exhibited stable all stages, providing robust internal references RT-qPCR. Additionally, 8091 TSGs were discovered, many which showed distinctive such leaf. Functional enrichment these using GO KEGG pathways highlighted their roles key biological processes pathways, indicating potential crop trait enhancement. Protein-protein interaction networks constructed stem leaf further illuminated the regulatory mechanisms underlying transition vegetative reproductive growth stages. Conclusion presents transcriptomic landscape millet, identifying set are crucial molecular basis development. provided valuable options transcript normalization targets exploring function plant development insights gained work instrumental breeding programs aimed at productivity thereby contributing security.

Language: Английский

Citations

0