Insights into corn genes derived from large-scale cDNA sequencing

Alexandrov, Nickolai N.; Brover, Vyacheslav; Freidin, Stanislav; Troukhan, Maxim; Tatarinova, Tatiana V.; Zhang, Hongyu; Swaller, Timothy; Yu, Longquan; Bouck, John; Flavell, R. B.; Feldmann, Kenneth A.

doi:10.1007/s11103-008-9415-4

Cited by 209 publications

(160 citation statements)

References 38 publications

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“…In a subsequent qRT-PCR experiment, preferential expression of rtcs in WT t4 versus rtcs t4 was demonstrated (Supplemental Table S3). Moreover, the maize LBD gene asl2 (Alexandrov et al, 2009;GRMZM2G154320_T01) was preferentially expressed in wild-type versus rtcs coleoptilar nodes at all three developmental stages. Although this gene has not yet been characterized, its constitutive control by RTCS at different stages of coleoptilar node development suggests that ASL2 could be involved in crown root development.…”

Section: Rtcs-dependent Regulation Of Lob Domain Genes and Transcriptmentioning

confidence: 97%

Comparative Transcriptome Profiling of Maize Coleoptilar Nodes during Shoot-Borne Root Initiation

et al. 2013

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Maize (Zea mays) develops an extensive shoot-borne root system to secure water and nutrient uptake and to provide anchorage in the soil. In this study, early coleoptilar node (first shoot node) development was subjected to a detailed morphological and histological analysis. Subsequently, microarray profiling via hybridization of oligonucleotide microarrays representing transcripts of 31,355 unique maize genes at three early stages of coleoptilar node development was performed. These pairwise comparisons of wild-type versus mutant rootless concerning crown and seminal roots (rtcs) coleoptilar nodes that do not initiate shoot-borne roots revealed 828 unique transcripts that displayed RTCS-dependent expression. A stage-specific functional analysis revealed overrepresentation of "cell wall," "stress," and "development"-related transcripts among the differentially expressed genes. Differential expression of a subset of 15 of 828 genes identified by these microarray experiments was independently confirmed by quantitative real-time-polymerase chain reaction. In silico promoter analyses revealed that 100 differentially expressed genes contained at least one LATERAL ORGAN BOUNDARIES domain (LBD) motif within 1 kb upstream of the ATG start codon. Electrophoretic mobility shift assay experiments demonstrated RTCS binding for four of these promoter sequences, supporting the notion that differentially accumulated genes containing LBD motifs are likely direct downstream targets of RTCS.

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Section: Rtcs-dependent Regulation Of Lob Domain Genes and Transcriptmentioning

confidence: 97%

Comparative Transcriptome Profiling of Maize Coleoptilar Nodes during Shoot-Borne Root Initiation

et al. 2013

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“…Alternative splicing is an important mechanism of gene regulation that increases the variety of transcripts from the same gene (Reddy, 2007). Comprehensive surveys suggested that approximately 21% to 22% of all unique cDNAs in rice and Arabidopsis represent alternative splicing events (Wang and Brendel, 2006) and that in maize, alternative splicing is even more frequent than in Arabidopsis (Alexandrov et al, 2009). Remarkably, the two splice variants of ZmGSL1 display complementary in situ expression patterns in primary roots.…”

Section: Ga 3 Induces Expression Of Zmgsl Genesmentioning

confidence: 99%

TheGibberellic Acid Stimulated-LikeGene Family in Maize and Its Role in Lateral Root Development

2009

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In an approach to study lateral root development in monocots, genome-wide searches for homologs of the Gibberellic Acid Stimulated Transcript-like (GAST-like) gene family in rice (Oryza sativa) and maize (Zea mays) were carried out. Six novel GAST-like genes in rice and 10 members of the gene family in maize, which were designated ZmGSL (for Z. mays Gibberellic Acid Stimulated-Like), were identified. The ZmGSL family encodes small proteins of 75 to 128 amino acids, which are characterized by a conserved 59 to 64 amino acid C-terminal domain. Within this domain, 17 amino acids, including 12 cysteines, are perfectly conserved. The transcript of the ZmGSL1 gene is differentially spliced into the alternative variants ZmGSL1a and ZmGSL1b, the latter of which is translated into a premature protein that lacks the C-terminal domain. The presence of an additional N-terminal cleavable signal sequence in eight of the 10 ZmGSL proteins suggests that they are secreted into the extracellular matrix. In-depth root-specific gene expression analyses carried out in the wild type and the lateral root mutants lrt1 and rum1 suggest a role for ZmGSL genes in early lateral root development, which is likely regulated by gibberellic acid. Expression patterns of ZmGSL1a and ZmGSL1b propose antagonistic functions of these splice variants during early lateral root formation.

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“…Hence, we used the Arabidopsis (Arabidopsis thaliana) GLYK sequence (Boldt et al, 2005) for similarity searches in maize EST libraries and identified several overlapping ESTs, which were combined to a continuous nucleotide sequence encoding the full-length putative ZmGLYK. This sequence was recently deposited in GenBank, and the gene product was tentatively annotated as hypothetical protein LOC100274052 (Alexandrov et al, 2009). The predicted amino acid sequence is highly similar to GLYKs from other plants, for example rice (Oryza sativa; 87% sequence identity with Os01g0682500) and Arabidopsis (69% sequence identity with At1g80380) over its whole length (alignment in Supplemental Fig.…”

Section: Resultsmentioning

confidence: 99%

“…Similarity searches pointed to potentially GLYK-encoding maize ESTs, and overexpression of these nucleotide sequences confirmed the functionality of the recombinant protein as a thiol-regulated GLYK. The protein has been tentatively annotated as hypothetical protein LOC100274052 (Alexandrov et al, 2009) and, on the basis of our functional data, can now be annotated as ZmGLYK.…”

Section: Discussionmentioning

confidence: 99%

An Autoinhibitory Domain Confers Redox Regulation to Maize Glycerate Kinase

Bartsch

Mikkat²,

Hagemann

et al. 2010

Plant Physiology

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Glycerate 3-kinase (GLYK) is the terminal enzyme of the photorespiratory cycle in plants and many cyanobacteria. For several C 4 plants, notably grasses of the NADP-malic enzyme (ME) subtype, redox regulation of GLYK has been reported, but the responsible molecular mechanism is not known. We have analyzed the enzyme from the NADP-ME C 4 plant maize (Zea mays) and found that maize GLYK, in contrast to the enzyme from C 3 plants and a dicotyledonous NADP-ME C 4 plant, harbors a short carboxy-terminal extension. In its oxidized (night) form, a disulfide bridge is formed between the two cysteine residues present in this extra domain, and GLYK activity becomes inhibited. Cleavage of this bond by thioredoxin f produces the fully active thiol form, releasing autoinhibition. Fusion of the maize GLYK redox-regulatory domain to GLYK from C 3 plants confers redox regulation to these otherwise unregulated enzymes. It appears that redox regulation of GLYK could be an exclusive feature of monocotyledonous C 4 plants of the NADP-ME type, in which linear electron transport occurs only in the mesophyll chloroplasts. Hence, we suggest that GLYK, in addition to its function in photorespiration, provides glycerate 3-phosphate for the accelerated production of triose phosphate and its export from the mesophyll. This could facilitate the activation of redoxregulated Calvin cycle enzymes and the buildup of Calvin cycle intermediates in the bundle sheath of these particular C 4 plants during the dark/light transition.

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Insights into corn genes derived from large-scale cDNA sequencing

Cited by 209 publications

References 38 publications

Comparative Transcriptome Profiling of Maize Coleoptilar Nodes during Shoot-Borne Root Initiation

Comparative Transcriptome Profiling of Maize Coleoptilar Nodes during Shoot-Borne Root Initiation

TheGibberellic Acid Stimulated-LikeGene Family in Maize and Its Role in Lateral Root Development

An Autoinhibitory Domain Confers Redox Regulation to Maize Glycerate Kinase

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