Genome-Wide Identification, Evolution and Expression Analysis of mTERF Gene Family in Maize

Zhao, Yanxin; Cai, Manjun; Zhang, Xiaobo; Li, Yurong; Zhang, Jianhua; Zhao, Hailiang; Kong, Fei; Zheng, Yanyan; Qiu, Fazhan

doi:10.1371/journal.pone.0094126

Cited by 52 publications

(62 citation statements)

References 72 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Studying the exon-intron gene structure can provide important clues concerning gene evolution (Zhao et al 2014). The patterns of exon-intron organization were consistent with the phylogenetic tree ( Fig.…”

Section: Exon-intron Structure Of Cucurbit Pal Genessupporting

confidence: 77%

Phenylalanine ammonia-lyase gene families in cucurbit species: Structure, evolution, and expression

Dong

Cao

Zhang

et al. 2016

Journal of Integrative Agriculture

View full text Add to dashboard Cite

Phenylalanine ammonia-lyase (PAL), the first enzyme of phenylpropanoid pathway, is always encoded by multigene families in plants. In this study, using genome-wide searches, 13 PAL genes in cucumber (CsPAL1-13) and 13 PALs in melon (Cm-PAL1-13) were identified. In the corresponding genomes, ten of these PAL genes were located in tandem in two clusters, while the others were widely dispersed in different chromosomes as a single copy. The protein sequences of CsPALs and CmPALs shared an overall high identity to each other. In our previous report, 12 PAL genes were identified in watermelon (ClPAL1-12). Thereby, a total of 38 cucurbit PAL members were included. Here, a comprehensive comparison of PAL gene families was performed among three cucurbit plants. The phylogenetic and syntenic analyses placed the cucurbit PALs as 11 CsPAL-CmPAL-ClPAL triples, of which ten triples were clustered into the dicot group, and the remaining one, CsPAL1-CmPAL8-ClPAL2, was grouped with gymnosperm PALs and might serve as an ancestor of cucurbit PALs. By comparing the syntenic relationships and gene structure of these PAL genes, the expansion of cucurbit PAL families might arise from a series of segmental and tandem duplications and intron insertion events. Furthermore, the expression profiling in different tissues suggested that different cucurbit PALs displayed divergent but overlapping expression profiles, and the CsPAL-CmPAL-ClPAL orthologs showed correlative expression patterns among three cucurbit plants. Taken together, this study provided an extensive description on the evolution and expression of cucurbit PAL gene families and might facilitate the further studies for elucidating the functions of PALs in cucurbit plants.

show abstract

Section: Exon-intron Structure Of Cucurbit Pal Genessupporting

confidence: 77%

Phenylalanine ammonia-lyase gene families in cucurbit species: Structure, evolution, and expression

Dong

Cao

Zhang

et al. 2016

Journal of Integrative Agriculture

View full text Add to dashboard Cite

show abstract

“…Likewise, Os07g39430 transcripts were detected mostly in leaves, inflorescences and reproductive organs, and reached the lowest level in roots. Interestingly, Zhao et al () recently reported a similar expression profile for the maize orthologue of MTERF9 , which is minimum in roots and maximum in leaves and silk.…”

Section: Resultsmentioning

confidence: 82%

“…Accordingly, MDA1 and MTERF9 promoters are rich in abiotic stress‐related cis ‐elements, suggesting their potential regulation by different environmental agents. Recently, Zhao et al () performed a genome‐wide analysis of the mTERF gene family in maize and found different expression profiles in response to light/dark, salts and plant hormones, which reinforces participation of mTERF in stress‐related responses.…”

Section: Discussionmentioning

confidence: 93%

Mutations in the plant‐conserved MTERF9 alter chloroplast gene expression, development and tolerance to abiotic stress in Arabidopsis thaliana

Robles

Micol

Quesada

2014

Physiologia Plantarum

View full text Add to dashboard Cite

The control of organelle gene expression in plants is far from fully understood. The characterization of mutants in Arabidopsis thaliana is assigning an increasingly prominent role to the mitochondrial transcription termination factors (mTERFs) in this process. To gain insight into the function of mTERF genes in plants, we took a reverse genetics approach to identify and characterize A. thaliana mTERF-defective mutants. Here we report the characterization of the mterf9 mutant, affected in an mTERF protein functionally conserved in plants and targeted to chloroplasts. Loss of MTERF9 results in defective chloroplast development, which is likely to cause paleness, stunted growth and reduced mesophyll cell numbers. Expression analysis of different plastid genes revealed reduced levels of plastid-encoded polymerase (PEP)-dependent transcripts and increased levels of transcripts dependent of nucleus-encoded polymerase. mterf9 plants exhibited altered responses to sugars, abscisic acid (ABA), salt and osmotic stresses, and the microarray data analysis showed modifications in MTERF9 expression after salt or mannitol treatments. Our genetic interactions results indicate a functional relationship between MTERF9 and the previously characterized MDA1 gene, and between MDA1 and some plastid ribosomal genes. MDA1 and MTERF9 were upregulated in the mterf9 and mda1 mutants, respectively. Moreover, 21 of 50 genes were commonly co-expressed with MDA1 and MTERF9. The analysis of the MDA1 and MTERF9 promoters showed that both were rich in stress-related cis-regulatory elements. Our results highlight the role of the MTERF9 gene in plant biology and deepens the understanding of the functional relationship of plant mTERF genes.

show abstract

“…Queries of PlnTFDB, a transcription factor database (http://plntfdb.bio.uni-potsdam.de/v3.0/) [16], shows that Arabidopsis has 35 mTERFs [17], rice (Oryza sativa subsp. Japonica) has 30 mTERFs, and maize (Zea mays) has 31 mTERFs [18].…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification and Characterization of the Mitochondrial Transcription Termination Factors (mTERFs) in Capsicum annuum L.

Tang

Xie

et al. 2019

IJMS

View full text Add to dashboard Cite

Mitochondrial transcription termination factors (mTERFs) regulate the expression of mitochondrial genes and are closely related to the function of the mitochondrion and chloroplast. In this study, the mTERF gene family in capsicum (Capsicum annuum L.) was identified and characterized through genomic and bioinformatic analyses. Capsicum was found to possess at least 35 mTERF genes (CamTERFs), which were divided into eight major groups following phylogenetic analysis. Analysis of CamTERF promoters revealed the presence of many cis-elements related to the regulation of cellular respiration and photosynthesis. In addition, CamTERF promoters contained cis-elements related to phytohormone regulation and stress responses. Differentially expressed genes in different tissues and developmental phases were identified using RNA-seq data, which revealed that CamTERFs exhibit various expression and co-expression patterns. Gene ontology (GO) annotations associated CamTERFs primarily with mitochondrion and chloroplast function and composition. These results contribute towards understanding the role of mTERFs in capsicum growth, development, and stress responses. Moreover, our data assist in the identification of CamTERFs with important functions, which opens avenues for future studies.

show abstract

Genome-Wide Identification, Evolution and Expression Analysis of mTERF Gene Family in Maize

Cited by 52 publications

References 72 publications

Phenylalanine ammonia-lyase gene families in cucurbit species: Structure, evolution, and expression

Phenylalanine ammonia-lyase gene families in cucurbit species: Structure, evolution, and expression

Mutations in the plant‐conserved MTERF9 alter chloroplast gene expression, development and tolerance to abiotic stress in Arabidopsis thaliana

Genome-Wide Identification and Characterization of the Mitochondrial Transcription Termination Factors (mTERFs) in Capsicum annuum L.

Contact Info

Product

Resources

About