Plant Proteins Containing High Mobility Group Box DNA-Binding Domains Modulate Different Nuclear Processes

Antosch, Martin; Mortensen, Simon A.; Grasser, Klaus D.

doi:10.1104/pp.112.198283

Cited by 36 publications

(32 citation statements)

References 73 publications

(122 reference statements)

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“…Mutant plants that express reduced amounts of the FACT subunits SSRP1 and SPT16 are phenotypically similar (Lolas et al, 2010), but when these mutations are combined with tfIIs or elf7, regarding most phenotypes, the ssrp1 version of the double mutant is clearly more severely affected than the spt16 version, suggesting that under these conditions, the SSRP1 subunit is more critical for plant growth and development. Consistently, in mammals, SSRP1 has additional, SPT16-independent roles in RNAPII transcription (Antosch et al, 2012). Thus, SSRP1 can act as a coactivator of sequence-specific transcription factors (Spencer et al, 1999;Zeng et al, 2002), and transcript profiling revealed SSRP1-specific targets (Li et al, 2007).…”

Section: Discussionmentioning

confidence: 67%

The Composition of the Arabidopsis RNA Polymerase II Transcript Elongation Complex Reveals the Interplay between Elongation and mRNA Processing Factors

et al. 2017

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Transcript elongation factors (TEFs) are a heterogeneous group of proteins that control the efficiency of transcript elongation of subsets of genes by RNA polymerase II (RNAPII) in the chromatin context. Using reciprocal tagging in combination with affinity purification and mass spectrometry, we demonstrate that in Arabidopsis thaliana, the TEFs SPT4/SPT5, SPT6, FACT, PAF1-C, and TFIIS copurified with each other and with elongating RNAPII, while P-TEFb was not among the interactors. Additionally, NAP1 histone chaperones, ATP-dependent chromatin remodeling factors, and some histone-modifying enzymes including Elongator were repeatedly found associated with TEFs. Analysis of double mutant plants defective in different combinations of TEFs revealed genetic interactions between genes encoding subunits of PAF1-C, FACT, and TFIIS, resulting in synergistic/epistatic effects on plant growth/development. Analysis of subnuclear localization, gene expression, and chromatin association did not provide evidence for an involvement of the TEFs in transcription by RNAPI (or RNAPIII). Proteomics analyses also revealed multiple interactions between the transcript elongation complex and factors involved in mRNA splicing and polyadenylation, including an association of PAF1-C with the polyadenylation factor CstF. Therefore, the RNAPII transcript elongation complex represents a platform for interactions among different TEFs, as well as for coordinating ongoing transcription with mRNA processing.

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Section: Discussionmentioning

confidence: 67%

The Composition of the Arabidopsis RNA Polymerase II Transcript Elongation Complex Reveals the Interplay between Elongation and mRNA Processing Factors

et al. 2017

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“…Two novel genes that contain high-mobility-group (HMG) domains were upregulated after harvest (g11706.t1 and g429.t2) ( Table 5). Some of the genes with HMG domains have a wide gene regulation ability (57,58) by interacting with other transcription factors to regulate transcription in a variety of genes (59). Therefore, these genes might be more effective in controlling fruiting body quality after harvest.…”

Section: Resultsmentioning

confidence: 99%

Lentinula edodes Genome Survey and Postharvest Transcriptome Analysis

Sakamoto

Nakade

Sato

et al. 2017

Appl Environ Microbiol

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Lentinula edodes is a popular, cultivated edible and medicinal mushroom. Lentinula edodes is susceptible to postharvest problems, such as gill browning, fruiting body softening, and lentinan degradation. We constructed a de novo assembly draft genome sequence and performed gene prediction for Lentinula edodes. De novo assembly was carried out using short reads from paired-end and mate-paired libraries and by using long reads by PacBio, resulting in a contig number of 1,951 and an N 50 of 1 Mb. Furthermore, we predicted genes by Augustus using transcriptome sequencing (RNA-seq) data from the whole life cycle of Lentinula edodes, resulting in 12,959 predicted genes. This analysis revealed that Lentinula edodes lacks lignin peroxidase. To reveal genes involved in the loss of quality of Lentinula edodes postharvest fruiting bodies, transcriptome analysis was carried out using serial analysis of gene expression (SuperSAGE). This analysis revealed that many cell wall-related enzymes are upregulated after harvest, such as ␤-1,3-1,6-glucan-degrading enzymes in glycoside hydrolase (GH) families GH5, GH16, GH30, GH55, and GH128, and thaumatin-like proteins. In addition, we found that several chitin-related genes are upregulated, such as putative chitinases in GH family 18, exochitinases in GH20, and a putative chitosanase in GH family 75. The results suggest that cell wall-degrading enzymes synergistically cooperate for rapid fruiting body autolysis. Many putative transcription factor genes were upregulated postharvest, such as genes containing high-mobility-group (HMG) domains and zinc finger domains. Several cell deathrelated proteins were also upregulated postharvest.IMPORTANCE Our data collectively suggest that there is a rapid fruiting body autolysis system in Lentinula edodes. The genes for the loss of postharvest quality newly found in this research will be targets for the future breeding of strains that keep fresh longer than present strains. De novo Lentinula edodes genome assembly data will be used for the construction of a complete Lentinula edodes chromosome map for future breeding.

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“…The Arabidopsis 3xHMG-box1 and 3xHMG-box2 proteins are representatives of a conserved protein family common to lower and higher plants, but absent from other organisms (Antosch et al, 2012). Previous work has shown that the expression of the 3xHMG-box1/2 genes is linked to cell proliferation and peaks during mitosis (Pedersen et al, 2011).…”

Section: Discussionmentioning

confidence: 99%

“…Plant HMG-box proteins occur in four distinct families: (1) HMGB proteins, (2) the structure-specific recognition protein 1 (SSRP1), (3) proteins containing an HMG-box domain in combination with an AT-rich interaction domain (ARID), and (4) proteins containing three HMG-box domains (Antosch et al, 2012). The first family comprising small abundant chromosomal HMGB proteins is diversified in plants .…”

Section: Introductionmentioning

confidence: 99%

Mitotic lifecycle of chromosomal 3xHMG‐box proteins and the role of their N‐terminal domain in the association with rDNA loci and proteolysis

et al. 2015

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SummaryThe high mobility group (HMG)-box is a DNA-binding domain characteristic of various eukaryotic DNA-binding proteins. 3xHMG-box proteins (containing three copies of the HMG-box domain and a unique basic N-terminal domain) are specific for plants and the Arabidopsis genome encodes two versions termed 3xHMG-box1 and 3xHMG-box2, whose expression is cell cycle-dependent, peaking during mitosis.Here, we analysed in detail the spatiotemporal expression, subcellular localisation and chromosome association of the Arabidopsis thaliana 3xHMG-box proteins.Live cell imaging and structured illumination microscopy revealed that the expression of the 3xHMG-box proteins is induced in late G2 phase of the cell cycle and upon nuclear envelope breakdown in prophase they rapidly associate with the chromosomes. 3xHMG-box1 associates preferentially with 45S rDNA loci and the basic N-terminal domain is involved in the targeting of rDNA loci. Shortly after mitosis the 3xHMG-box proteins are degraded and an N-terminal destruction-box mediates the proteolysis. Ectopic expression/localisation of 3xHMG-box1 in interphase nuclei results in reduced plant growth and various developmental defects including early bolting and abnormal flower morphology.The remarkable conservation of 3xHMG-box proteins within the plant kingdom, their characteristic expression during mitosis, and their striking association with chromosomes, suggest that they play a role in the organisation of plant mitotic chromosomes.

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Plant Proteins Containing High Mobility Group Box DNA-Binding Domains Modulate Different Nuclear Processes

Cited by 36 publications

References 73 publications

The Composition of the Arabidopsis RNA Polymerase II Transcript Elongation Complex Reveals the Interplay between Elongation and mRNA Processing Factors

The Composition of the Arabidopsis RNA Polymerase II Transcript Elongation Complex Reveals the Interplay between Elongation and mRNA Processing Factors

Lentinula edodes Genome Survey and Postharvest Transcriptome Analysis

Mitotic lifecycle of chromosomal 3xHMG‐box proteins and the role of their N‐terminal domain in the association with rDNA loci and proteolysis

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