Various Spatiotemporal Expression Profiles of Anther-Expressed Genes in Rice

Faculty of Science, Tohoku University, Sendai, 980-8587 Japan
Plant and Cell Physiology (Impact Factor: 4.93). 10/2008; 49(10):1417-28. DOI: 10.1093/pcp/pcn128
Source: PubMed


The male gametophyte and tapetum play different roles during anther development although they are differentiated from the same cell lineage, the L2 layer. Until now, it has not been possible to delineate their transcriptomes due to technical difficulties in separating the two cell types. In the present study, we characterized the separated transcriptomes of the rice microspore/pollen and tapetum using laser microdissection (LM)-mediated microarray. Spatiotemporal expression patterns of 28,141 anther-expressed genes were classified into 20 clusters, which contained 3,468 (12.3%) anther-enriched genes. In some clusters, synchronous gene expression in the microspore and tapetum at the same developmental stage was observed as a novel characteristic of the anther transcriptome. Noteworthy expression patterns are discussed in connection with gene ontology (GO) categories and gene annotations, which are related to important biological events in anther development, such as pollen maturation, pollen germination, pollen tube elongation and pollen wall formation.

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Available from: Nobuhiro Tsutsumi, Oct 09, 2015
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    • "Anther spatiotemporal expression profile in rice showed that 28,141 anther-expressed genes were classified into 20 clusters, which contained 3468 antherenriched genes. These genes are related to important biological events in anther development, such as pollen maturation, pollen germination, pollen tube elongation and pollen wall formation [25]. Mutations of these genes may cause male gamete sterility. "
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    ABSTRACT: Natural mutation is the source of natural variation, which is the fundamental basis for the genetic improvement of crops. During the process of developing a recombinant inbred line (RI), a spontaneous mutagenesis in RI127 led to the production of the recessive male-sterile line RI127S. Via a map-based cloning approach, the gene controlling the male sterility was identified as OsMADS3, which was previously reported to be associated with floral organ development and male sterility. Thermal asymmetric interlaced PCR isolated one 1633-bp insertion in OsMADS3 in RI127S, which damaged its function due to failed transcription. The 1633-bp insertion was derived from a fragment flanked by retrotransposon genes on chromosome 5. Seven haplotypes of OsMADS3 were observed among 529 cultivars and 107 wild rice accessions, and 98% of the investigated genotypes carried the same H2 haplotype, indicating that OsMADS3 is highly conserved. RI127S has the combined genome constitution of its parents, indica rice Teqing and japonica 02428, and carries the widely compatible S5 gene donated by 02428. RI127 exhibits good performance in regard to its agronomic traits and has a wide compatibility. Therefore, RI127S would be an elite mediator for recurrent breeding in cases requiring a tedious hand-crossing-based inter-crossing phase. RI127S can be crossed not only with indica rice but also with japonica rice, thus providing breeders with flexible arrangements in recurrent breeding programs. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.
    Plant Science 06/2015; 238. DOI:10.1016/j.plantsci.2015.06.007 · 3.61 Impact Factor
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    • "EBOXBNNAPA (CANNTG) is E-box sequence responsible for light responsiveness and is regulated by bHLH and MYB-transcription factor in directing tissue-specific expression [13]. GATABOX (GATA) is the binding site for transcription factors with a zinc finger motif [85], GT1CONSENSUS (GRWAAW) recognizes GT-1 proteins which have tri-helix DNA-binding domains [86] and GTGANTG10 (GTGA) is a pollen-specific cis-elements [87]. MYCCONSENSUSAT (CANNTG) is a MYC recognition site which regulates transcription of genes under cold conditions by a MYC-like bHLH transcriptional activator [88], POLLEN1LELAT52 (AGAAA) is a regulatory element responsible for pollen-specific activation of gene expression [89], WBOXNTERF3 (TGACY) is a W-box promoter motif functioning in response to wound signal [90] and WRKY71OS (TGAC) is a binding site of rice WRKY71, a transcriptional repressor of gibberellin signaling pathway [91]. "
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    ABSTRACT: MYB proteins represent one of the largest transcription factor families in plants, playing important roles in diverse developmental and stress-responsive processes. Considering its significance, several genome-wide analyses have been conducted in almost all land plants except foxtail millet. Foxtail millet (Setaria italica L.) is a model crop for investigating systems biology of millets and bioenergy grasses. Further, the crop is also known for its potential abiotic stress-tolerance. In this context, a comprehensive genome-wide survey was conducted and 209 MYB protein-encoding genes were identified in foxtail millet. All 209 S. italica MYB (SiMYB) genes were physically mapped onto nine chromosomes of foxtail millet. Gene duplication study showed that segmental- and tandem-duplication have occurred in genome resulting in expansion of this gene family. The protein domain investigation classified SiMYB proteins into three classes according to number of MYB repeats present. The phylogenetic analysis categorized SiMYBs into ten groups (I - X). SiMYB-based comparative mapping revealed a maximum orthology between foxtail millet and sorghum, followed by maize, rice and Brachypodium. Heat map analysis showed tissue-specific expression pattern of predominant SiMYB genes. Expression profiling of candidate MYB genes against abiotic stresses and hormone treatments using qRT-PCR revealed specific and/or overlapping expression patterns of SiMYBs. Taken together, the present study provides a foundation for evolutionary and functional characterization of MYB TFs in foxtail millet to dissect their functions in response to environmental stimuli.
    PLoS ONE 10/2014; 9(10):e109920. DOI:10.1371/journal.pone.0109920 · 3.23 Impact Factor
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    • "Multiple transcriptomes and several proteomes have been reported for whole anthers, utilizing organs that have completed cell specification and are proceeding through meiosis (Lu et al. 2006; Ma et al. 2007; Wijeratne et al. 2007; Skibbe et al. 2009; Wang et al. 2010a; Aya et al. 2011; Deveshwar et al. 2011; Nan et al. 2011) and for anther developmental stages after meiosis (Ma et al. 2008). Using manual or laser capture microdissection, transcriptomes are also available for isolated meiotic plant cells (Tang et al. 2010; Schmidt et al. 2011; Yang et al. 2011) and for isolated sporophytic anther tissues such as the tapetum (Hobo et al. 2008; Huang et al. 2009). Mature pollen, containing the vegetative cell and sperm, has also been characterized from multiple species (Honys and Twell 2004; Ma et al. 2006, 2008; Calarco et al. 2012). "
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    ABSTRACT: Plants lack a germ line; consequently, during reproduction adult somatic cells within flowers must switch from mitotic proliferation to meiosis. In maize (Zea mays L.) anthers, hypoxic conditions in the developing tassel trigger pre-meiotic competence in the column of pluripotent progenitor cells in the center of anther lobes, and within 24 hr these newly specified germinal cells have patterned their surrounding neighbors to differentiate as the first somatic niche cells. Transcriptomes were analyzed by microarray hybridization in carefully staged whole anthers during initial specification events, after the separation of germinal and somatic lineages, during the subsequent rapid mitotic proliferation phase, and during final pre-meiotic germinal and somatic cell differentiation. Maize anthers exhibit a highly complex transcriptome constituting nearly three-quarters of annotated maize genes, and expression patterns are dynamic. Laser microdissection was applied to begin assigning transcripts to tissue and cell types and for comparison to transcriptomes of mutants defective in cell fate specification. Whole anther proteomes were analyzed at three developmental stages by mass spectrometric peptide sequencing using size-fractionated proteins to evaluate the timing of protein accumulation relative to transcript abundance. New insights include early and sustained expression of meiosis-associated genes (77.5% of well-annotated meiosis genes are constitutively active in 0.15 mm anthers), an extremely large change in transcript abundances and types a few days before meiosis (including a class of 1340 transcripts absent specifically at 0.4 mm), and the relative disparity between transcript abundance and protein abundance at any one developmental stage (based on 1303 protein-to-transcript comparisons).
    G3-Genes Genomes Genetics 06/2014; 4(6):993-1010. DOI:10.1534/g3.113.009738 · 3.20 Impact Factor
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